Query 037761
Match_columns 753
No_of_seqs 334 out of 3332
Neff 9.9
Searched_HMMs 46136
Date Fri Mar 29 04:08:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037761.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037761hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1054 Glutamate-gated AMPA-t 100.0 1.8E-70 3.8E-75 551.8 45.1 689 10-737 74-842 (897)
2 KOG4440 NMDA selective glutama 100.0 7.8E-70 1.7E-74 549.7 29.0 654 11-734 80-852 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 1.4E-64 3E-69 530.3 43.0 656 7-731 80-847 (1258)
4 KOG1052 Glutamate-gated kainat 100.0 1.4E-50 3.1E-55 463.8 48.0 542 145-736 6-620 (656)
5 cd06365 PBP1_Pheromone_recepto 100.0 1.1E-40 2.5E-45 365.4 34.1 340 7-364 70-469 (469)
6 cd06364 PBP1_CaSR Ligand-bindi 100.0 2.9E-40 6.2E-45 364.3 36.5 343 8-364 81-510 (510)
7 cd06361 PBP1_GPC6A_like Ligand 100.0 4.9E-40 1.1E-44 352.8 34.4 301 8-346 66-396 (403)
8 cd06375 PBP1_mGluR_groupII Lig 100.0 4.1E-39 8.8E-44 351.6 35.8 320 7-343 61-454 (458)
9 cd06362 PBP1_mGluR Ligand bind 100.0 5.9E-39 1.3E-43 353.5 35.2 327 8-347 62-450 (452)
10 cd06374 PBP1_mGluR_groupI Liga 100.0 2E-38 4.3E-43 349.5 34.3 323 8-343 73-464 (472)
11 cd06367 PBP1_iGluR_NMDA N-term 100.0 2.2E-38 4.8E-43 338.8 33.6 312 3-365 38-362 (362)
12 cd06376 PBP1_mGluR_groupIII Li 100.0 4.1E-38 8.9E-43 346.5 35.3 319 12-343 70-452 (463)
13 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 3.9E-37 8.4E-42 330.7 34.8 303 8-366 62-377 (377)
14 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 8E-37 1.7E-41 322.2 35.1 322 8-347 38-363 (364)
15 cd06380 PBP1_iGluR_AMPA N-term 100.0 1E-36 2.2E-41 328.5 35.9 330 8-347 44-381 (382)
16 cd06363 PBP1_Taste_receptor Li 100.0 7E-37 1.5E-41 331.8 33.3 319 4-365 69-410 (410)
17 cd06386 PBP1_NPR_C_like Ligand 100.0 2.4E-36 5.2E-41 324.4 34.6 308 8-343 49-378 (387)
18 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 3E-36 6.5E-41 320.4 34.9 324 8-347 39-368 (370)
19 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 9.8E-36 2.1E-40 315.5 35.0 321 8-347 45-369 (371)
20 cd06393 PBP1_iGluR_Kainate_Glu 100.0 5.5E-36 1.2E-40 321.9 32.8 321 9-348 55-382 (384)
21 cd06372 PBP1_GC_G_like Ligand- 100.0 1.3E-35 2.9E-40 320.7 34.6 313 8-345 49-387 (391)
22 cd06366 PBP1_GABAb_receptor Li 100.0 1.2E-35 2.6E-40 316.6 31.0 292 8-347 47-346 (350)
23 cd06352 PBP1_NPR_GC_like Ligan 100.0 2.8E-35 6.1E-40 318.6 33.5 317 8-346 49-384 (389)
24 cd06373 PBP1_NPR_like Ligand b 100.0 4.1E-35 8.9E-40 317.4 32.1 315 8-345 50-390 (396)
25 cd06385 PBP1_NPR_A Ligand-bind 100.0 9.1E-35 2E-39 315.5 33.9 309 10-345 57-392 (405)
26 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 3.6E-34 7.8E-39 300.9 35.1 323 8-347 45-371 (372)
27 cd06370 PBP1_Speract_GC_like L 100.0 1.2E-34 2.6E-39 313.7 31.8 300 8-333 51-383 (404)
28 cd06392 PBP1_iGluR_delta_1 N-t 100.0 6E-34 1.3E-38 299.9 34.0 320 7-347 43-398 (400)
29 cd06384 PBP1_NPR_B Ligand-bind 100.0 5.6E-34 1.2E-38 308.2 33.1 310 9-345 55-393 (399)
30 cd06371 PBP1_sensory_GC_DEF_li 100.0 6.2E-34 1.3E-38 305.0 32.5 295 8-335 49-362 (382)
31 KOG1056 Glutamate-gated metabo 100.0 8.2E-34 1.8E-38 310.4 30.7 346 6-374 88-492 (878)
32 cd06391 PBP1_iGluR_delta_2 N-t 100.0 1.1E-32 2.4E-37 293.8 36.4 328 6-347 42-398 (400)
33 PF01094 ANF_receptor: Recepto 100.0 1.4E-32 3.1E-37 293.4 27.7 307 10-332 34-348 (348)
34 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 1.5E-31 3.2E-36 281.7 32.4 311 6-366 41-362 (362)
35 cd06382 PBP1_iGluR_Kainate N-t 100.0 7.6E-32 1.6E-36 284.4 27.0 277 8-347 44-326 (327)
36 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 5.3E-31 1.2E-35 279.4 29.5 287 4-331 43-334 (334)
37 cd06338 PBP1_ABC_ligand_bindin 100.0 3E-31 6.6E-36 282.4 27.3 284 8-331 52-345 (345)
38 PRK15404 leucine ABC transport 100.0 1.6E-30 3.5E-35 277.2 28.4 292 3-335 68-363 (369)
39 cd06345 PBP1_ABC_ligand_bindin 100.0 1.8E-30 3.8E-35 276.1 27.4 280 4-322 43-337 (344)
40 cd06346 PBP1_ABC_ligand_bindin 100.0 1.7E-30 3.7E-35 271.8 25.3 265 4-329 43-311 (312)
41 cd06368 PBP1_iGluR_non_NMDA_li 100.0 5.5E-30 1.2E-34 270.2 27.8 276 9-346 45-322 (324)
42 cd06381 PBP1_iGluR_delta_like 100.0 7.9E-29 1.7E-33 261.4 33.4 292 8-347 44-362 (363)
43 cd06350 PBP1_GPCR_family_C_lik 100.0 1.1E-29 2.4E-34 270.7 27.0 262 8-344 59-340 (348)
44 cd06348 PBP1_ABC_ligand_bindin 100.0 2.9E-29 6.3E-34 266.8 29.4 294 4-328 43-343 (344)
45 cd06344 PBP1_ABC_ligand_bindin 100.0 3.8E-29 8.2E-34 264.3 26.7 281 3-324 41-327 (332)
46 cd06340 PBP1_ABC_ligand_bindin 100.0 3.3E-29 7.1E-34 266.2 25.7 279 8-324 51-342 (347)
47 cd06355 PBP1_FmdD_like Peripla 100.0 1.2E-28 2.5E-33 261.8 29.5 293 3-335 42-340 (348)
48 cd06327 PBP1_SBP_like_1 Peripl 100.0 5.9E-29 1.3E-33 263.2 25.5 285 3-326 41-332 (334)
49 COG0683 LivK ABC-type branched 100.0 8.8E-29 1.9E-33 263.3 26.2 295 3-334 53-355 (366)
50 cd06394 PBP1_iGluR_Kainate_KA1 100.0 8.1E-29 1.8E-33 256.4 24.7 282 8-348 46-332 (333)
51 cd06360 PBP1_alkylbenzenes_lik 100.0 3.8E-28 8.3E-33 257.7 29.6 289 3-327 40-333 (336)
52 TIGR03669 urea_ABC_arch urea A 100.0 3.2E-28 6.9E-33 258.7 28.6 293 3-335 43-340 (374)
53 cd06359 PBP1_Nba_like Type I p 100.0 4.8E-28 1E-32 256.0 28.1 283 4-325 41-328 (333)
54 cd06328 PBP1_SBP_like_2 Peripl 100.0 4.5E-28 9.7E-33 255.8 27.7 284 3-327 43-332 (333)
55 cd06329 PBP1_SBP_like_3 Peripl 100.0 3.7E-28 8E-33 257.7 26.8 281 3-325 42-339 (342)
56 cd06336 PBP1_ABC_ligand_bindin 100.0 4.4E-28 9.4E-33 257.6 25.9 282 8-328 52-346 (347)
57 cd06347 PBP1_ABC_ligand_bindin 100.0 1.6E-27 3.5E-32 252.8 29.5 279 8-327 48-332 (334)
58 cd06343 PBP1_ABC_ligand_bindin 100.0 1.7E-27 3.7E-32 255.1 29.9 295 4-333 50-359 (362)
59 cd06383 PBP1_iGluR_AMPA_Like N 100.0 6.6E-28 1.4E-32 254.9 25.1 305 8-333 47-360 (368)
60 cd06331 PBP1_AmiC_like Type I 100.0 1.8E-27 3.9E-32 251.7 26.1 280 3-321 42-325 (333)
61 cd06349 PBP1_ABC_ligand_bindin 100.0 6.9E-27 1.5E-31 248.2 29.7 288 4-333 43-337 (340)
62 TIGR03407 urea_ABC_UrtA urea A 100.0 1.3E-26 2.8E-31 247.0 29.5 290 3-332 43-338 (359)
63 cd06337 PBP1_ABC_ligand_bindin 100.0 4.7E-27 1E-31 250.4 25.2 278 3-318 44-342 (357)
64 cd06330 PBP1_Arsenic_SBP_like 100.0 5E-27 1.1E-31 250.0 25.1 279 4-317 43-332 (346)
65 cd06332 PBP1_aromatic_compound 100.0 2E-26 4.3E-31 244.3 28.9 285 3-326 40-329 (333)
66 cd06356 PBP1_Amide_Urea_BP_lik 100.0 1.1E-26 2.4E-31 245.3 26.4 284 3-325 42-331 (334)
67 cd06358 PBP1_NHase Type I peri 100.0 1E-26 2.2E-31 245.8 25.9 282 3-326 42-329 (333)
68 cd06357 PBP1_AmiC Periplasmic 100.0 5.1E-26 1.1E-30 242.5 30.5 292 3-331 42-337 (360)
69 cd06335 PBP1_ABC_ligand_bindin 99.9 1.2E-25 2.6E-30 238.8 28.4 278 4-315 43-329 (347)
70 cd06334 PBP1_ABC_ligand_bindin 99.9 5.3E-26 1.2E-30 240.7 25.1 285 3-316 42-342 (351)
71 PF13458 Peripla_BP_6: Peripla 99.9 9.7E-26 2.1E-30 240.1 26.9 291 3-333 44-340 (343)
72 cd06351 PBP1_iGluR_N_LIVBP_lik 99.9 1E-25 2.2E-30 238.4 26.4 274 8-343 44-322 (328)
73 cd06377 PBP1_iGluR_NMDA_NR3 N- 99.9 7E-24 1.5E-28 219.3 31.2 300 8-365 62-382 (382)
74 TIGR03863 PQQ_ABC_bind ABC tra 99.9 3.4E-25 7.4E-30 232.0 21.6 268 3-327 36-312 (347)
75 cd06339 PBP1_YraM_LppC_lipopro 99.9 1.2E-24 2.6E-29 229.4 21.4 268 3-321 36-329 (336)
76 PRK10797 glutamate and asparta 99.9 3.5E-24 7.5E-29 220.8 22.4 227 379-688 41-273 (302)
77 KOG1055 GABA-B ion channel rec 99.9 4.1E-25 8.9E-30 234.0 14.4 334 8-367 93-445 (865)
78 cd06326 PBP1_STKc_like Type I 99.9 1.1E-22 2.3E-27 215.9 27.5 276 8-321 49-329 (336)
79 PRK09495 glnH glutamine ABC tr 99.9 4.9E-23 1.1E-27 207.7 22.1 219 379-688 26-245 (247)
80 PRK11260 cystine transporter s 99.9 1.9E-22 4.1E-27 205.7 22.1 222 378-688 41-263 (266)
81 PRK15010 ABC transporter lysin 99.9 8.3E-22 1.8E-26 200.2 22.1 221 379-687 27-255 (260)
82 PF00497 SBP_bac_3: Bacterial 99.9 1.2E-22 2.5E-27 202.3 15.3 222 380-687 1-225 (225)
83 PF13433 Peripla_BP_5: Peripla 99.9 2.1E-21 4.6E-26 196.0 24.3 284 8-333 49-339 (363)
84 PRK15007 putative ABC transpor 99.9 1.9E-21 4.1E-26 196.0 21.6 215 379-686 22-242 (243)
85 cd06341 PBP1_ABC_ligand_bindin 99.9 5.8E-21 1.3E-25 202.9 26.1 271 4-313 43-319 (341)
86 PRK11917 bifunctional adhesin/ 99.9 4E-21 8.6E-26 194.2 22.0 216 379-685 39-258 (259)
87 cd06333 PBP1_ABC-type_HAAT_lik 99.9 8.8E-21 1.9E-25 198.8 23.8 240 4-259 42-293 (312)
88 cd06269 PBP1_glutamate_recepto 99.9 1.1E-20 2.4E-25 196.8 23.3 183 8-193 48-235 (298)
89 TIGR01096 3A0103s03R lysine-ar 99.9 7.1E-21 1.5E-25 192.7 21.0 217 379-685 25-250 (250)
90 TIGR02995 ectoine_ehuB ectoine 99.9 7.8E-21 1.7E-25 194.5 20.3 221 379-685 34-260 (275)
91 cd04509 PBP1_ABC_transporter_G 99.9 1.5E-20 3.2E-25 195.8 22.5 237 8-257 48-290 (299)
92 PRK15437 histidine ABC transpo 99.9 2E-20 4.3E-25 190.0 21.8 222 379-688 27-256 (259)
93 cd06369 PBP1_GC_C_enterotoxin_ 99.8 2.6E-19 5.6E-24 180.1 24.7 289 10-345 63-366 (380)
94 cd06268 PBP1_ABC_transporter_L 99.8 9.7E-19 2.1E-23 182.0 23.9 236 8-259 48-287 (298)
95 PRK10859 membrane-bound lytic 99.8 5.4E-19 1.2E-23 194.1 20.0 220 378-687 43-267 (482)
96 PRK09959 hybrid sensory histid 99.8 7.6E-19 1.6E-23 217.2 23.4 216 379-687 303-521 (1197)
97 TIGR03870 ABC_MoxJ methanol ox 99.8 1.4E-18 2.9E-23 174.6 17.8 209 379-684 1-241 (246)
98 TIGR02285 conserved hypothetic 99.8 6E-18 1.3E-22 172.6 17.4 222 379-688 19-263 (268)
99 COG0834 HisJ ABC-type amino ac 99.8 2.1E-17 4.6E-22 169.9 19.9 223 379-687 35-265 (275)
100 TIGR03871 ABC_peri_MoxJ_2 quin 99.8 2E-17 4.3E-22 165.4 18.6 211 380-685 2-228 (232)
101 PRK09959 hybrid sensory histid 99.8 9.5E-18 2E-22 207.5 18.3 219 379-687 57-278 (1197)
102 cd00134 PBPb Bacterial peripla 99.7 1.4E-16 3E-21 157.0 21.6 215 380-685 1-218 (218)
103 smart00062 PBPb Bacterial peri 99.7 1.6E-16 3.4E-21 156.6 20.4 216 379-685 1-219 (219)
104 COG4623 Predicted soluble lyti 99.5 3.3E-13 7.2E-18 132.5 14.0 222 376-687 21-248 (473)
105 cd01391 Periplasmic_Binding_Pr 99.4 2.5E-11 5.5E-16 123.6 19.5 180 8-192 40-221 (269)
106 smart00079 PBPe Eukaryotic hom 99.3 7.9E-12 1.7E-16 112.9 11.8 121 557-686 1-133 (134)
107 PRK00489 hisG ATP phosphoribos 99.1 3.6E-10 7.8E-15 115.4 12.0 165 447-688 52-221 (287)
108 TIGR01098 3A0109s03R phosphate 99.1 9.6E-10 2.1E-14 111.4 13.8 198 379-670 33-254 (254)
109 PF04348 LppC: LppC putative l 98.9 2.9E-08 6.3E-13 109.5 18.5 271 3-330 256-532 (536)
110 PF00060 Lig_chan: Ligand-gate 98.9 2.1E-10 4.6E-15 105.5 -0.8 51 518-568 65-115 (148)
111 PF10613 Lig_chan-Glu_bd: Liga 98.7 7.2E-09 1.6E-13 77.4 1.2 51 402-457 13-65 (65)
112 cd01537 PBP1_Repressors_Sugar_ 98.5 4.7E-06 1E-10 84.6 17.7 174 4-186 32-211 (264)
113 TIGR03431 PhnD phosphonate ABC 98.5 2E-06 4.3E-11 88.8 14.5 183 414-680 49-258 (288)
114 cd06267 PBP1_LacI_sugar_bindin 98.5 6.2E-06 1.3E-10 83.8 17.3 171 8-187 37-211 (264)
115 cd01536 PBP1_ABC_sugar_binding 98.3 4.3E-05 9.3E-10 77.8 19.8 166 4-178 32-206 (267)
116 cd06282 PBP1_GntR_like_2 Ligan 98.1 0.00012 2.7E-09 74.4 18.1 168 8-186 37-209 (266)
117 cd06300 PBP1_ABC_sugar_binding 98.1 0.00013 2.9E-09 74.5 18.3 164 4-178 37-209 (272)
118 cd06273 PBP1_GntR_like_1 This 98.0 0.00026 5.7E-09 72.1 17.4 169 8-185 37-210 (268)
119 PF12974 Phosphonate-bd: ABC t 98.0 4.9E-05 1.1E-09 76.2 11.3 194 414-684 15-230 (243)
120 cd06320 PBP1_allose_binding Pe 97.9 0.00095 2.1E-08 68.3 19.0 161 9-178 40-207 (275)
121 cd06323 PBP1_ribose_binding Pe 97.9 0.00086 1.9E-08 68.2 18.4 169 8-187 37-213 (268)
122 cd06319 PBP1_ABC_sugar_binding 97.8 0.0012 2.5E-08 67.7 18.8 164 8-178 37-210 (277)
123 COG3221 PhnD ABC-type phosphat 97.8 0.00035 7.5E-09 70.9 13.2 110 557-672 135-260 (299)
124 cd06325 PBP1_ABC_uncharacteriz 97.8 0.00061 1.3E-08 70.0 15.4 160 8-177 42-208 (281)
125 PRK11553 alkanesulfonate trans 97.8 0.00027 5.9E-09 73.9 12.7 170 430-674 56-237 (314)
126 cd06298 PBP1_CcpA_like Ligand- 97.7 0.0021 4.6E-08 65.4 17.4 172 8-188 37-213 (268)
127 cd06317 PBP1_ABC_sugar_binding 97.6 0.004 8.7E-08 63.6 18.0 166 8-178 38-212 (275)
128 cd01545 PBP1_SalR Ligand-bindi 97.6 0.003 6.5E-08 64.3 17.0 163 14-183 43-209 (270)
129 cd06305 PBP1_methylthioribose_ 97.6 0.0047 1E-07 63.0 18.3 173 8-188 37-217 (273)
130 COG3107 LppC Putative lipoprot 97.5 0.0043 9.3E-08 65.4 16.3 207 14-230 306-539 (604)
131 TIGR01729 taurine_ABC_bnd taur 97.5 0.00083 1.8E-08 69.7 11.2 173 417-670 20-209 (300)
132 cd06271 PBP1_AglR_RafR_like Li 97.5 0.0054 1.2E-07 62.3 17.2 166 13-186 45-214 (268)
133 cd06289 PBP1_MalI_like Ligand- 97.5 0.0039 8.4E-08 63.4 15.9 168 8-183 37-208 (268)
134 cd06301 PBP1_rhizopine_binding 97.4 0.0097 2.1E-07 60.7 18.6 173 8-188 38-218 (272)
135 cd06309 PBP1_YtfQ_like Peripla 97.4 0.012 2.6E-07 60.0 19.2 173 9-187 38-219 (273)
136 TIGR01481 ccpA catabolite cont 97.4 0.0076 1.7E-07 63.5 17.9 168 9-185 98-268 (329)
137 cd06312 PBP1_ABC_sugar_binding 97.4 0.01 2.2E-07 60.6 18.2 161 11-178 42-208 (271)
138 cd06284 PBP1_LacI_like_6 Ligan 97.3 0.01 2.3E-07 60.1 17.3 166 8-183 37-206 (267)
139 PRK10653 D-ribose transporter 97.3 0.024 5.2E-07 58.6 19.6 171 8-188 64-240 (295)
140 PF13407 Peripla_BP_4: Peripla 97.2 0.0099 2.1E-07 60.0 15.8 166 7-178 36-207 (257)
141 cd01542 PBP1_TreR_like Ligand- 97.2 0.016 3.4E-07 58.6 17.0 166 8-187 37-207 (259)
142 cd01575 PBP1_GntR Ligand-bindi 97.2 0.018 3.8E-07 58.5 17.4 170 8-186 37-210 (268)
143 cd06310 PBP1_ABC_sugar_binding 97.2 0.045 9.7E-07 55.7 20.3 171 9-188 40-217 (273)
144 cd06275 PBP1_PurR Ligand-bindi 97.2 0.019 4.1E-07 58.3 17.2 172 8-187 37-212 (269)
145 cd06288 PBP1_sucrose_transcrip 97.1 0.016 3.5E-07 58.8 16.4 170 8-187 38-211 (269)
146 cd06311 PBP1_ABC_sugar_binding 97.1 0.05 1.1E-06 55.5 19.6 167 4-178 37-210 (274)
147 cd06294 PBP1_ycjW_transcriptio 97.1 0.021 4.5E-07 58.1 16.6 171 4-183 37-213 (270)
148 cd06281 PBP1_LacI_like_5 Ligan 97.1 0.019 4.1E-07 58.4 16.1 169 8-186 37-209 (269)
149 PF00532 Peripla_BP_1: Peripla 97.1 0.03 6.4E-07 57.3 17.4 172 8-187 39-215 (279)
150 TIGR03427 ABC_peri_uca ABC tra 97.1 0.0038 8.3E-08 64.9 10.8 68 558-632 98-170 (328)
151 cd06274 PBP1_FruR Ligand bindi 97.1 0.041 9E-07 55.7 18.4 171 8-187 37-212 (264)
152 PRK10703 DNA-binding transcrip 97.1 0.026 5.7E-07 59.7 17.5 171 8-186 97-272 (341)
153 cd06283 PBP1_RegR_EndR_KdgR_li 97.0 0.038 8.3E-07 56.0 17.9 170 8-186 37-211 (267)
154 cd06313 PBP1_ABC_sugar_binding 97.0 0.062 1.4E-06 54.7 19.5 163 8-177 37-207 (272)
155 PF13379 NMT1_2: NMT1-like fam 97.0 0.0022 4.8E-08 64.6 8.4 137 425-633 32-188 (252)
156 PRK10014 DNA-binding transcrip 97.0 0.033 7.1E-07 59.0 17.8 165 8-180 102-270 (342)
157 cd06295 PBP1_CelR Ligand bindi 97.0 0.03 6.6E-07 57.1 16.6 162 17-186 54-219 (275)
158 cd01540 PBP1_arabinose_binding 97.0 0.072 1.6E-06 54.8 19.5 184 4-188 32-229 (289)
159 cd06278 PBP1_LacI_like_2 Ligan 96.9 0.047 1E-06 55.3 17.5 151 14-175 42-196 (266)
160 COG2984 ABC-type uncharacteriz 96.9 0.047 1E-06 54.7 16.3 161 8-177 70-240 (322)
161 COG1609 PurR Transcriptional r 96.9 0.068 1.5E-06 56.2 18.7 164 11-185 99-269 (333)
162 cd06299 PBP1_LacI_like_13 Liga 96.9 0.045 9.8E-07 55.4 17.1 171 8-187 37-209 (265)
163 cd06270 PBP1_GalS_like Ligand 96.9 0.06 1.3E-06 54.7 17.7 167 8-183 37-207 (268)
164 cd06293 PBP1_LacI_like_11 Liga 96.9 0.076 1.6E-06 53.9 18.4 170 9-187 38-211 (269)
165 cd06296 PBP1_CatR_like Ligand- 96.9 0.041 9E-07 55.9 16.5 167 10-185 39-210 (270)
166 cd06324 PBP1_ABC_sugar_binding 96.9 0.082 1.8E-06 54.9 18.8 176 8-186 38-235 (305)
167 cd06308 PBP1_sensor_kinase_lik 96.9 0.086 1.9E-06 53.6 18.7 171 9-189 39-217 (270)
168 cd06322 PBP1_ABC_sugar_binding 96.8 0.14 2.9E-06 52.0 19.9 160 8-177 37-203 (267)
169 TIGR01728 SsuA_fam ABC transpo 96.8 0.014 3.1E-07 60.0 12.5 71 557-633 92-166 (288)
170 cd01574 PBP1_LacI Ligand-bindi 96.8 0.11 2.3E-06 52.6 18.7 165 11-187 41-208 (264)
171 PRK11303 DNA-binding transcrip 96.8 0.12 2.7E-06 54.2 19.6 167 9-186 100-271 (328)
172 cd06285 PBP1_LacI_like_7 Ligan 96.7 0.074 1.6E-06 53.9 17.0 165 8-183 37-205 (265)
173 PRK10423 transcriptional repre 96.7 0.084 1.8E-06 55.4 17.9 170 8-187 94-269 (327)
174 cd06290 PBP1_LacI_like_9 Ligan 96.7 0.083 1.8E-06 53.5 17.2 166 8-183 37-206 (265)
175 PF09084 NMT1: NMT1/THI5 like; 96.7 0.012 2.7E-07 57.6 10.5 113 447-625 30-150 (216)
176 TIGR02122 TRAP_TAXI TRAP trans 96.7 0.009 2E-07 62.6 10.0 130 413-622 49-197 (320)
177 cd06297 PBP1_LacI_like_12 Liga 96.7 0.072 1.6E-06 54.2 16.4 161 16-187 44-214 (269)
178 TIGR00363 lipoprotein, YaeC fa 96.7 0.053 1.1E-06 54.2 14.7 120 556-684 106-250 (258)
179 cd06292 PBP1_LacI_like_10 Liga 96.6 0.11 2.4E-06 52.8 17.6 173 8-187 37-215 (273)
180 cd06303 PBP1_LuxPQ_Quorum_Sens 96.6 0.22 4.8E-06 50.9 19.9 171 11-187 45-223 (280)
181 cd01541 PBP1_AraR Ligand-bindi 96.5 0.1 2.2E-06 53.1 16.4 172 8-187 37-217 (273)
182 cd06286 PBP1_CcpB_like Ligand- 96.5 0.17 3.7E-06 51.0 17.6 168 8-186 37-208 (260)
183 cd06291 PBP1_Qymf_like Ligand 96.4 0.17 3.6E-06 51.3 17.3 164 9-186 38-206 (265)
184 cd01538 PBP1_ABC_xylose_bindin 96.4 0.32 7E-06 50.0 19.6 164 8-179 37-216 (288)
185 TIGR02417 fruct_sucro_rep D-fr 96.4 0.18 3.9E-06 53.0 17.9 165 10-186 100-270 (327)
186 PRK10727 DNA-binding transcrip 96.4 0.15 3.3E-06 54.0 17.4 168 9-186 98-270 (343)
187 cd06321 PBP1_ABC_sugar_binding 96.4 0.29 6.4E-06 49.6 18.6 170 8-189 39-215 (271)
188 cd06318 PBP1_ABC_sugar_binding 96.3 0.53 1.2E-05 48.0 20.6 163 10-178 39-215 (282)
189 cd06307 PBP1_uncharacterized_s 96.3 0.26 5.6E-06 50.2 17.9 160 10-178 43-210 (275)
190 cd06306 PBP1_TorT-like TorT-li 96.3 0.39 8.4E-06 48.7 19.1 157 11-177 42-207 (268)
191 cd01539 PBP1_GGBP Periplasmic 96.2 0.51 1.1E-05 48.9 19.9 171 8-180 39-228 (303)
192 cd06272 PBP1_hexuronate_repres 96.2 0.16 3.5E-06 51.2 15.5 157 20-186 45-205 (261)
193 cd06316 PBP1_ABC_sugar_binding 96.2 0.44 9.6E-06 49.1 18.9 175 8-188 38-219 (294)
194 cd06354 PBP1_BmpA_PnrA_like Pe 96.1 0.2 4.4E-06 50.7 16.0 158 11-176 42-206 (265)
195 PRK09526 lacI lac repressor; R 96.1 0.4 8.7E-06 50.7 18.9 161 12-186 106-273 (342)
196 PRK09492 treR trehalose repres 96.1 0.32 7E-06 50.7 17.8 154 8-177 100-256 (315)
197 PF03466 LysR_substrate: LysR 96.1 0.15 3.3E-06 49.0 14.2 182 409-672 19-206 (209)
198 PRK11063 metQ DL-methionine tr 96.1 0.21 4.6E-06 50.5 15.3 118 557-683 120-262 (271)
199 TIGR02990 ectoine_eutA ectoine 96.1 0.097 2.1E-06 51.6 12.4 133 41-176 61-206 (239)
200 COG1879 RbsB ABC-type sugar tr 96.0 0.56 1.2E-05 49.1 19.1 172 8-186 73-250 (322)
201 cd05466 PBP2_LTTR_substrate Th 96.0 0.37 8E-06 45.1 16.2 174 410-667 14-194 (197)
202 PRK14987 gluconate operon tran 95.9 0.44 9.6E-06 50.1 17.9 168 10-187 103-273 (331)
203 cd06280 PBP1_LacI_like_4 Ligan 95.9 0.4 8.7E-06 48.4 16.9 166 8-187 37-206 (263)
204 PRK09701 D-allose transporter 95.9 0.92 2E-05 47.2 19.9 165 10-178 66-241 (311)
205 cd06279 PBP1_LacI_like_3 Ligan 95.9 0.26 5.7E-06 50.4 15.6 153 22-183 51-225 (283)
206 PRK10401 DNA-binding transcrip 95.8 0.5 1.1E-05 50.1 18.0 167 10-186 99-270 (346)
207 PRK11480 tauA taurine transpor 95.8 0.04 8.6E-07 57.7 9.1 66 557-629 113-183 (320)
208 cd06277 PBP1_LacI_like_1 Ligan 95.7 0.5 1.1E-05 47.8 16.5 153 20-183 52-207 (268)
209 PF13531 SBP_bac_11: Bacterial 95.6 0.23 5.1E-06 49.0 13.6 185 414-674 12-219 (230)
210 cd08418 PBP2_TdcA The C-termin 95.6 0.8 1.7E-05 43.4 17.0 180 409-671 13-199 (201)
211 PRK11041 DNA-binding transcrip 95.6 0.62 1.4E-05 48.3 17.2 169 10-187 75-247 (309)
212 cd08468 PBP2_Pa0477 The C-term 95.5 0.59 1.3E-05 44.6 15.9 74 409-497 13-86 (202)
213 cd06314 PBP1_tmGBP Periplasmic 95.5 1.4 3.1E-05 44.6 19.4 158 10-178 39-204 (271)
214 PRK10936 TMAO reductase system 95.5 0.98 2.1E-05 47.7 18.6 164 11-187 89-262 (343)
215 cd06302 PBP1_LsrB_Quorum_Sensi 95.5 1.1 2.3E-05 46.3 18.6 163 8-178 38-210 (298)
216 PRK15408 autoinducer 2-binding 95.5 0.77 1.7E-05 48.3 17.4 163 8-177 62-233 (336)
217 PF14503 YhfZ_C: YhfZ C-termin 95.5 0.021 4.5E-07 55.1 5.0 175 404-667 23-211 (232)
218 cd06287 PBP1_LacI_like_8 Ligan 95.4 0.52 1.1E-05 47.8 15.7 158 22-187 51-212 (269)
219 TIGR00787 dctP tripartite ATP- 95.4 0.1 2.3E-06 52.6 10.1 212 414-670 14-230 (257)
220 cd06304 PBP1_BmpA_like Peripla 95.3 0.54 1.2E-05 47.4 15.4 158 11-176 41-202 (260)
221 TIGR02405 trehalos_R_Ecol treh 95.3 1 2.3E-05 46.7 17.9 154 8-177 97-253 (311)
222 PRK15395 methyl-galactoside AB 95.2 1.6 3.5E-05 45.8 19.1 167 9-177 64-249 (330)
223 TIGR02634 xylF D-xylose ABC tr 95.2 1.5 3.3E-05 45.3 18.5 162 8-177 36-208 (302)
224 cd08459 PBP2_DntR_NahR_LinR_li 95.2 0.96 2.1E-05 43.0 15.9 177 410-670 14-197 (201)
225 cd08417 PBP2_Nitroaromatics_li 95.0 1 2.2E-05 42.7 15.7 177 410-670 14-197 (200)
226 cd08421 PBP2_LTTR_like_1 The C 94.9 1.7 3.7E-05 41.0 16.9 176 410-667 14-195 (198)
227 cd01543 PBP1_XylR Ligand-bindi 94.8 0.75 1.6E-05 46.5 14.6 156 23-188 46-207 (265)
228 TIGR02955 TMAO_TorT TMAO reduc 94.7 2.8 6E-05 43.2 18.9 162 11-187 42-215 (295)
229 cd08411 PBP2_OxyR The C-termin 94.7 1.4 2.9E-05 41.8 15.5 176 410-668 15-198 (200)
230 PF04392 ABC_sub_bind: ABC tra 94.7 0.6 1.3E-05 48.1 13.5 146 8-163 41-195 (294)
231 cd08438 PBP2_CidR The C-termin 94.6 2.1 4.6E-05 40.2 16.7 175 409-667 13-194 (197)
232 cd08426 PBP2_LTTR_like_5 The C 94.6 1.5 3.3E-05 41.3 15.7 176 409-667 13-196 (199)
233 cd01544 PBP1_GalR Ligand-bindi 94.6 0.79 1.7E-05 46.5 14.3 151 26-187 51-213 (270)
234 cd08433 PBP2_Nac The C-teminal 94.6 2.2 4.9E-05 40.2 16.8 176 409-667 13-195 (198)
235 PRK01686 hisG ATP phosphoribos 94.5 0.91 2E-05 43.7 13.2 152 448-672 54-209 (215)
236 PRK11151 DNA-binding transcrip 94.5 1.8 3.9E-05 44.8 16.8 181 409-672 104-291 (305)
237 TIGR01256 modA molybdenum ABC 94.5 0.76 1.6E-05 44.9 13.2 76 593-674 131-207 (216)
238 cd08412 PBP2_PAO1_like The C-t 94.5 2 4.3E-05 40.5 16.0 177 409-667 13-195 (198)
239 cd08442 PBP2_YofA_SoxR_like Th 94.4 2.4 5.3E-05 39.6 16.3 71 409-497 13-83 (193)
240 TIGR02637 RhaS rhamnose ABC tr 94.4 3 6.6E-05 43.0 18.2 160 9-177 39-209 (302)
241 cd08466 PBP2_LeuO The C-termin 94.3 2.3 5E-05 40.2 16.2 177 410-670 14-197 (200)
242 PLN02245 ATP phosphoribosyl tr 94.3 0.53 1.2E-05 49.3 11.9 154 449-671 121-295 (403)
243 cd08463 PBP2_DntR_like_4 The C 94.3 2.9 6.2E-05 40.0 16.7 180 409-670 13-200 (203)
244 PRK09861 cytoplasmic membrane 94.1 1.4 3.1E-05 44.5 14.4 123 555-684 119-264 (272)
245 TIGR00035 asp_race aspartate r 94.1 0.49 1.1E-05 46.7 10.9 89 10-127 58-146 (229)
246 PF12727 PBP_like: PBP superfa 94.1 1.5 3.3E-05 41.8 13.8 103 557-670 82-192 (193)
247 PRK12679 cbl transcriptional r 94.1 2.7 5.9E-05 43.8 17.1 195 409-687 106-307 (316)
248 cd08419 PBP2_CbbR_RubisCO_like 94.0 3.1 6.7E-05 39.0 16.3 175 410-667 13-194 (197)
249 PRK09791 putative DNA-binding 94.0 2 4.2E-05 44.5 15.9 182 409-673 108-296 (302)
250 cd08440 PBP2_LTTR_like_4 TThe 94.0 3.8 8.3E-05 38.3 16.8 174 409-665 13-192 (197)
251 cd08462 PBP2_NodD The C-termin 93.9 2.1 4.6E-05 40.6 15.0 177 411-671 15-198 (200)
252 PF03401 TctC: Tripartite tric 93.9 0.93 2E-05 46.1 12.7 121 557-683 89-241 (274)
253 cd08434 PBP2_GltC_like The sub 93.8 3.6 7.8E-05 38.4 16.4 70 410-497 14-83 (195)
254 cd08435 PBP2_GbpR The C-termin 93.7 5.2 0.00011 37.6 17.4 177 410-667 14-198 (201)
255 PRK11233 nitrogen assimilation 93.7 2.1 4.5E-05 44.4 15.4 179 410-672 106-289 (305)
256 PF13377 Peripla_BP_3: Peripla 93.7 0.32 6.9E-06 44.8 8.4 99 87-187 1-102 (160)
257 cd08429 PBP2_NhaR The C-termin 93.7 4.1 8.8E-05 39.0 16.5 183 409-672 13-201 (204)
258 COG0715 TauA ABC-type nitrate/ 93.6 0.25 5.4E-06 52.1 8.5 71 557-633 127-202 (335)
259 PRK12682 transcriptional regul 93.6 3.5 7.6E-05 42.8 17.0 192 409-685 106-304 (309)
260 cd08469 PBP2_PnbR The C-termin 93.6 2.3 5E-05 41.1 14.9 70 410-497 14-83 (221)
261 PF01634 HisG: ATP phosphoribo 93.6 0.3 6.4E-06 44.7 7.5 151 449-672 4-161 (163)
262 PF03480 SBP_bac_7: Bacterial 93.5 0.3 6.6E-06 50.1 8.7 196 416-656 16-214 (286)
263 CHL00180 rbcR LysR transcripti 93.4 4.8 0.0001 41.7 17.6 182 410-671 109-300 (305)
264 cd08460 PBP2_DntR_like_1 The C 93.4 1.5 3.2E-05 41.7 12.9 169 409-661 13-187 (200)
265 PRK10355 xylF D-xylose transpo 93.3 5.9 0.00013 41.5 18.2 170 8-187 63-243 (330)
266 cd08413 PBP2_CysB_like The C-t 93.3 3.1 6.8E-05 39.4 15.1 176 409-667 13-195 (198)
267 PRK12684 transcriptional regul 93.3 4 8.6E-05 42.5 16.8 194 409-687 106-306 (313)
268 cd08461 PBP2_DntR_like_3 The C 93.3 3.2 6.9E-05 39.1 15.0 177 409-671 13-196 (198)
269 COG2358 Imp TRAP-type uncharac 93.2 0.68 1.5E-05 47.2 10.2 143 403-621 31-192 (321)
270 cd08467 PBP2_SyrM The C-termin 93.2 3.6 7.7E-05 39.0 15.2 71 409-497 13-83 (200)
271 cd08420 PBP2_CysL_like C-termi 93.2 5.4 0.00012 37.4 16.4 176 409-667 13-198 (201)
272 COG1910 Periplasmic molybdate- 93.1 2.9 6.2E-05 39.6 13.1 106 557-674 88-201 (223)
273 COG1794 RacX Aspartate racemas 92.9 2.1 4.6E-05 40.8 12.2 89 10-128 58-147 (230)
274 cd08414 PBP2_LTTR_aromatics_li 92.9 6.9 0.00015 36.6 16.7 69 411-497 15-83 (197)
275 PRK10339 DNA-binding transcrip 92.9 2.1 4.6E-05 44.8 14.1 151 26-186 113-267 (327)
276 cd08436 PBP2_LTTR_like_3 The C 92.8 7 0.00015 36.4 16.6 173 409-667 13-191 (194)
277 PRK10200 putative racemase; Pr 92.8 0.91 2E-05 44.7 10.4 91 8-127 56-147 (230)
278 cd08415 PBP2_LysR_opines_like 92.8 4.8 0.0001 37.7 15.4 71 409-497 13-83 (196)
279 cd08464 PBP2_DntR_like_2 The C 92.7 4.8 0.0001 37.9 15.4 181 409-672 13-199 (200)
280 cd08444 PBP2_Cbl The C-termina 92.6 7.3 0.00016 36.8 16.5 176 409-667 13-195 (198)
281 PRK11242 DNA-binding transcrip 92.6 5.5 0.00012 40.9 16.6 177 409-670 104-287 (296)
282 PRK10341 DNA-binding transcrip 92.6 4.5 9.8E-05 42.0 16.0 174 410-667 111-291 (312)
283 PRK09860 putative alcohol dehy 92.5 1.7 3.7E-05 46.5 12.8 88 84-171 20-109 (383)
284 cd08437 PBP2_MleR The substrat 92.5 8 0.00017 36.3 16.5 174 410-667 14-195 (198)
285 cd08441 PBP2_MetR The C-termin 92.4 7.6 0.00017 36.5 16.4 70 410-497 14-83 (198)
286 COG3473 Maleate cis-trans isom 92.4 3.5 7.5E-05 38.6 12.5 134 41-177 57-205 (238)
287 TIGR02424 TF_pcaQ pca operon t 92.4 5.4 0.00012 41.1 16.2 181 410-671 107-295 (300)
288 cd08448 PBP2_LTTR_aromatics_li 92.3 7.2 0.00016 36.4 15.9 71 409-497 13-83 (197)
289 PRK12683 transcriptional regul 92.2 8.4 0.00018 39.9 17.4 182 410-674 107-295 (309)
290 PRK10837 putative DNA-binding 92.2 8.3 0.00018 39.4 17.3 181 410-673 103-289 (290)
291 PRK13583 hisG ATP phosphoribos 92.2 2.2 4.8E-05 41.3 11.7 153 449-670 55-227 (228)
292 cd08425 PBP2_CynR The C-termin 92.2 7.6 0.00017 36.4 16.0 173 410-667 15-194 (197)
293 cd08430 PBP2_IlvY The C-termin 92.2 7.4 0.00016 36.5 15.9 72 409-497 13-84 (199)
294 cd08456 PBP2_LysR The C-termin 92.0 7.1 0.00015 36.5 15.5 71 409-497 13-83 (196)
295 COG1454 EutG Alcohol dehydroge 91.9 1.5 3.4E-05 46.0 11.2 91 84-174 18-110 (377)
296 TIGR00070 hisG ATP phosphoribo 91.8 1.6 3.6E-05 40.7 10.0 123 449-644 50-174 (182)
297 cd08416 PBP2_MdcR The C-termin 91.8 8.1 0.00018 36.2 15.7 178 409-667 13-196 (199)
298 cd08451 PBP2_BudR The C-termin 91.7 9.9 0.00022 35.6 16.3 71 410-497 15-85 (199)
299 COG0725 ModA ABC-type molybdat 91.7 6.3 0.00014 39.4 14.8 183 411-669 40-242 (258)
300 cd08427 PBP2_LTTR_like_2 The C 91.7 7.3 0.00016 36.4 15.2 73 409-497 13-85 (195)
301 cd08189 Fe-ADH5 Iron-containin 91.6 2.5 5.4E-05 45.2 12.7 92 83-174 14-107 (374)
302 COG1638 DctP TRAP-type C4-dica 91.6 0.76 1.7E-05 47.8 8.5 215 413-674 44-265 (332)
303 cd06353 PBP1_BmpA_Med_like Per 91.5 2.3 5E-05 42.8 11.8 158 6-176 36-200 (258)
304 PRK15454 ethanol dehydrogenase 91.5 2.5 5.5E-05 45.4 12.7 88 84-171 38-127 (395)
305 cd08423 PBP2_LTTR_like_6 The C 91.5 7.9 0.00017 36.3 15.2 73 410-497 14-88 (200)
306 cd08192 Fe-ADH7 Iron-containin 91.3 2.8 6.2E-05 44.7 12.8 90 84-173 13-104 (370)
307 cd08457 PBP2_OccR The C-termin 91.2 13 0.00028 34.8 16.4 71 409-497 13-83 (196)
308 cd06315 PBP1_ABC_sugar_binding 91.1 17 0.00038 36.8 18.1 169 8-181 38-217 (280)
309 cd08458 PBP2_NocR The C-termin 90.9 14 0.0003 34.7 16.2 173 410-667 14-193 (196)
310 TIGR03339 phn_lysR aminoethylp 90.8 15 0.00032 37.2 17.3 171 411-667 99-276 (279)
311 cd08465 PBP2_ToxR The C-termin 90.8 4.4 9.6E-05 38.4 12.7 70 409-496 13-82 (200)
312 PRK10624 L-1,2-propanediol oxi 90.7 2.2 4.8E-05 45.7 11.4 88 83-170 18-107 (382)
313 cd08190 HOT Hydroxyacid-oxoaci 90.7 2 4.3E-05 46.6 11.0 87 84-170 12-100 (414)
314 PRK12681 cysB transcriptional 90.7 8.4 0.00018 40.3 15.6 182 409-672 106-293 (324)
315 cd08193 HVD 5-hydroxyvalerate 90.5 2.3 5E-05 45.5 11.2 89 84-172 15-105 (376)
316 cd08551 Fe-ADH iron-containing 90.4 3.7 7.9E-05 43.9 12.7 91 83-173 11-103 (370)
317 cd08453 PBP2_IlvR The C-termin 90.2 16 0.00035 34.2 17.2 73 410-497 14-86 (200)
318 cd08450 PBP2_HcaR The C-termin 90.2 16 0.00034 34.1 16.0 71 409-497 13-83 (196)
319 cd08443 PBP2_CysB The C-termin 90.2 15 0.00033 34.5 15.9 178 408-668 12-196 (198)
320 PF03808 Glyco_tran_WecB: Glyc 90.1 4.3 9.4E-05 37.9 11.3 101 81-191 35-137 (172)
321 PRK09508 leuO leucine transcri 89.8 6.5 0.00014 40.9 13.8 71 409-497 125-195 (314)
322 PF00465 Fe-ADH: Iron-containi 89.8 1.9 4.1E-05 46.0 9.8 89 84-174 12-102 (366)
323 PRK15421 DNA-binding transcrip 89.7 15 0.00033 38.2 16.4 178 411-672 104-287 (317)
324 PRK11013 DNA-binding transcrip 89.7 16 0.00034 37.8 16.5 180 410-673 108-293 (309)
325 PF06506 PrpR_N: Propionate ca 89.6 13 0.00028 34.8 14.3 129 9-177 16-144 (176)
326 TIGR02638 lactal_redase lactal 89.6 2.9 6.4E-05 44.7 11.1 89 83-171 17-107 (379)
327 cd08194 Fe-ADH6 Iron-containin 89.6 3.2 6.9E-05 44.4 11.3 87 84-170 12-100 (375)
328 PRK12680 transcriptional regul 89.2 20 0.00043 37.5 16.9 182 409-673 106-294 (327)
329 cd06276 PBP1_FucR_like Ligand- 89.1 14 0.00031 36.7 15.2 148 19-186 45-195 (247)
330 cd08449 PBP2_XapR The C-termin 88.9 20 0.00043 33.4 16.4 73 409-497 13-85 (197)
331 PRK11482 putative DNA-binding 88.9 17 0.00037 37.8 16.1 176 410-670 131-313 (317)
332 cd08185 Fe-ADH1 Iron-containin 88.5 6.1 0.00013 42.4 12.6 88 84-172 15-105 (380)
333 cd08446 PBP2_Chlorocatechol Th 88.4 22 0.00047 33.2 16.8 70 410-497 15-84 (198)
334 KOG3857 Alcohol dehydrogenase, 88.3 3.7 7.9E-05 41.6 9.6 97 67-163 38-138 (465)
335 PRK10677 modA molybdate transp 88.0 11 0.00024 37.9 13.4 74 413-497 39-118 (257)
336 cd08188 Fe-ADH4 Iron-containin 87.8 5 0.00011 42.9 11.4 88 83-170 16-105 (377)
337 cd08181 PPD-like 1,3-propanedi 87.7 8 0.00017 41.0 12.8 86 84-170 15-103 (357)
338 COG0040 HisG ATP phosphoribosy 87.5 7.1 0.00015 39.2 11.2 152 448-673 52-212 (290)
339 cd08191 HHD 6-hydroxyhexanoate 87.2 5.8 0.00013 42.6 11.5 89 84-173 12-102 (386)
340 cd08176 LPO Lactadehyde:propan 87.1 4.9 0.00011 43.1 10.8 87 84-170 17-105 (377)
341 cd06533 Glyco_transf_WecG_TagA 86.9 7.7 0.00017 36.1 10.7 101 81-189 33-133 (171)
342 PRK09906 DNA-binding transcrip 86.5 41 0.00088 34.4 17.9 70 410-497 104-173 (296)
343 cd08182 HEPD Hydroxyethylphosp 86.1 6.5 0.00014 42.0 11.1 86 84-172 12-99 (367)
344 PRK10094 DNA-binding transcrip 85.7 27 0.00058 36.1 15.3 179 412-672 109-291 (308)
345 PF13685 Fe-ADH_2: Iron-contai 85.5 9.6 0.00021 37.9 11.0 101 85-189 9-109 (250)
346 PRK11062 nhaR transcriptional 85.3 22 0.00047 36.5 14.4 176 409-668 106-287 (296)
347 cd08445 PBP2_BenM_CatM_CatR Th 85.2 33 0.00072 32.2 15.9 71 409-497 14-84 (203)
348 cd08171 GlyDH-like2 Glycerol d 85.1 7.6 0.00016 41.0 10.9 86 84-171 12-99 (345)
349 PRK14498 putative molybdopteri 85.1 8.8 0.00019 44.4 12.3 157 447-674 449-625 (633)
350 TIGR03414 ABC_choline_bnd chol 84.9 26 0.00055 35.9 14.3 69 412-495 24-100 (290)
351 cd08187 BDH Butanol dehydrogen 84.7 12 0.00026 40.2 12.3 87 84-171 18-107 (382)
352 cd08170 GlyDH Glycerol dehydro 84.6 7.7 0.00017 41.1 10.8 85 84-171 12-98 (351)
353 PRK07475 hypothetical protein; 84.5 4.9 0.00011 40.0 8.6 123 8-162 59-206 (245)
354 cd08452 PBP2_AlsR The C-termin 84.2 36 0.00078 31.8 16.5 70 410-497 14-83 (197)
355 cd08186 Fe-ADH8 Iron-containin 84.1 8.4 0.00018 41.3 10.8 89 84-172 12-106 (383)
356 PRK11716 DNA-binding transcrip 84.0 37 0.00079 34.0 15.3 70 410-496 81-150 (269)
357 PRK13584 hisG ATP phosphoribos 83.8 25 0.00054 33.5 12.3 92 568-671 105-198 (204)
358 TIGR00696 wecB_tagA_cpsF bacte 83.6 13 0.00029 34.7 10.5 98 81-189 35-134 (177)
359 PRK11074 putative DNA-binding 83.6 35 0.00076 35.0 15.1 71 411-497 107-177 (300)
360 cd07766 DHQ_Fe-ADH Dehydroquin 83.3 14 0.0003 38.7 12.0 87 85-173 13-101 (332)
361 cd08486 PBP2_CbnR The C-termin 83.0 24 0.00051 33.2 12.7 71 409-497 14-84 (198)
362 PF13407 Peripla_BP_4: Peripla 82.2 2.9 6.4E-05 41.8 6.2 78 98-177 1-81 (257)
363 PRK03692 putative UDP-N-acetyl 81.4 16 0.00035 36.1 10.7 90 80-175 91-180 (243)
364 PRK13348 chromosome replicatio 81.3 46 0.001 34.0 14.9 167 429-672 117-287 (294)
365 cd08183 Fe-ADH2 Iron-containin 81.2 12 0.00026 40.0 10.7 84 84-172 12-97 (374)
366 COG3181 Uncharacterized protei 81.0 72 0.0016 32.9 16.7 119 558-682 134-283 (319)
367 PRK09423 gldA glycerol dehydro 80.2 15 0.00032 39.2 10.9 84 84-170 19-104 (366)
368 TIGR01276 thiB thiamine ABC tr 79.9 47 0.001 34.3 14.5 81 598-683 177-260 (309)
369 cd08428 PBP2_IciA_ArgP The C-t 79.6 52 0.0011 30.5 15.0 172 413-667 17-192 (195)
370 PF06716 DUF1201: Protein of u 79.5 5.6 0.00012 26.9 4.5 39 711-753 5-45 (54)
371 cd06353 PBP1_BmpA_Med_like Per 79.5 15 0.00033 36.9 10.2 85 97-189 1-89 (258)
372 cd08485 PBP2_ClcR The C-termin 79.4 55 0.0012 30.6 15.1 69 410-496 15-83 (198)
373 PF01177 Asp_Glu_race: Asp/Glu 78.6 26 0.00057 33.9 11.4 126 18-174 57-198 (216)
374 cd08447 PBP2_LTTR_aromatics_li 78.3 57 0.0012 30.2 16.1 71 409-497 13-83 (198)
375 cd08431 PBP2_HupR The C-termin 78.2 39 0.00084 31.4 12.3 72 409-497 13-84 (195)
376 PRK00865 glutamate racemase; P 78.1 20 0.00042 36.1 10.4 40 16-56 57-96 (261)
377 cd08550 GlyDH-like Glycerol_de 78.0 19 0.00042 38.0 10.9 84 84-170 12-97 (349)
378 PRK11119 proX glycine betaine 77.9 41 0.0009 35.1 13.0 72 410-495 43-122 (331)
379 PRK10852 thiosulfate transport 77.5 91 0.002 32.7 15.5 77 412-498 37-132 (338)
380 cd08180 PDD 1,3-propanediol de 77.2 16 0.00034 38.4 9.9 79 91-170 18-98 (332)
381 TIGR00067 glut_race glutamate 77.0 27 0.00059 34.8 11.0 43 15-57 49-91 (251)
382 cd02071 MM_CoA_mut_B12_BD meth 77.0 25 0.00054 30.6 9.5 80 102-188 6-89 (122)
383 cd08178 AAD_C C-terminal alcoh 76.1 14 0.00029 40.0 9.3 79 93-171 19-99 (398)
384 TIGR03298 argP transcriptional 76.1 95 0.0021 31.6 15.5 173 413-669 107-283 (292)
385 PRK09986 DNA-binding transcrip 75.9 96 0.0021 31.5 18.3 71 411-497 112-182 (294)
386 COG4588 AcfC Accessory coloniz 75.3 7.6 0.00016 36.3 5.8 73 415-499 35-114 (252)
387 cd06305 PBP1_methylthioribose_ 74.9 15 0.00032 37.0 8.9 78 97-177 1-81 (273)
388 PF07287 DUF1446: Protein of u 74.7 53 0.0011 34.6 12.6 75 16-106 12-111 (362)
389 cd08179 NADPH_BDH NADPH-depend 74.5 13 0.00028 39.7 8.5 79 93-171 21-102 (375)
390 TIGR02329 propionate_PrpR prop 74.0 62 0.0013 36.3 13.8 130 9-178 36-165 (526)
391 PRK03635 chromosome replicatio 74.0 70 0.0015 32.7 13.7 179 412-673 106-288 (294)
392 cd08432 PBP2_GcdR_TrpI_HvrB_Am 73.5 39 0.00084 31.2 11.0 65 411-496 15-79 (194)
393 TIGR02136 ptsS_2 phosphate bin 73.4 36 0.00078 34.8 11.2 72 410-496 49-127 (287)
394 TIGR00971 3a0106s03 sulfate/th 73.2 1.2E+02 0.0026 31.5 15.7 80 409-498 19-115 (315)
395 TIGR00640 acid_CoA_mut_C methy 72.0 55 0.0012 28.9 10.4 74 98-177 5-82 (132)
396 cd08177 MAR Maleylacetate redu 71.6 19 0.00041 37.8 8.8 85 84-171 12-98 (337)
397 cd06301 PBP1_rhizopine_binding 71.4 16 0.00035 36.7 8.2 78 97-177 1-82 (272)
398 TIGR02370 pyl_corrinoid methyl 71.4 34 0.00075 32.7 9.8 89 96-190 85-177 (197)
399 COG4521 TauA ABC-type taurine 70.8 23 0.00049 34.3 7.9 173 417-669 50-238 (334)
400 PRK11139 DNA-binding transcrip 70.6 1.1E+02 0.0024 31.2 14.3 102 558-669 180-287 (297)
401 cd01537 PBP1_Repressors_Sugar_ 70.5 14 0.00031 36.6 7.5 78 97-177 1-80 (264)
402 cd08175 G1PDH Glycerol-1-phosp 70.5 25 0.00055 37.1 9.5 85 84-170 12-100 (348)
403 cd06267 PBP1_LacI_sugar_bindin 70.2 16 0.00035 36.2 7.8 76 98-177 2-79 (264)
404 PRK00002 aroB 3-dehydroquinate 70.2 55 0.0012 34.7 12.0 92 84-176 20-118 (358)
405 cd06306 PBP1_TorT-like TorT-li 69.1 19 0.00041 36.2 8.1 80 97-177 1-82 (268)
406 cd08197 DOIS 2-deoxy-scyllo-in 69.1 57 0.0012 34.5 11.7 92 84-176 12-110 (355)
407 cd06303 PBP1_LuxPQ_Quorum_Sens 68.8 16 0.00035 37.1 7.5 80 97-176 1-84 (280)
408 PRK03601 transcriptional regul 68.8 1.3E+02 0.0028 30.4 14.1 71 409-497 102-172 (275)
409 PRK05452 anaerobic nitric oxid 68.7 1.4E+02 0.0031 33.1 15.1 141 31-191 198-349 (479)
410 cd06312 PBP1_ABC_sugar_binding 68.4 20 0.00044 36.0 8.1 79 97-177 1-83 (271)
411 PRK15408 autoinducer 2-binding 68.0 28 0.00061 36.5 9.2 82 94-177 22-106 (336)
412 PF02608 Bmp: Basic membrane p 67.3 1.6E+02 0.0034 30.4 15.8 157 12-177 47-212 (306)
413 PF13380 CoA_binding_2: CoA bi 67.2 13 0.00028 32.1 5.3 86 96-188 1-88 (116)
414 cd06277 PBP1_LacI_like_1 Ligan 67.1 31 0.00067 34.6 9.1 75 98-177 2-81 (268)
415 cd08184 Fe-ADH3 Iron-containin 66.7 52 0.0011 34.7 10.8 85 84-172 12-103 (347)
416 PF12683 DUF3798: Protein of u 66.7 89 0.0019 31.1 11.3 164 12-177 47-224 (275)
417 PRK15424 propionate catabolism 66.3 94 0.002 34.9 13.1 128 11-178 48-175 (538)
418 PF12273 RCR: Chitin synthesis 66.2 5.3 0.00011 35.3 2.8 25 713-737 4-28 (130)
419 cd08549 G1PDH_related Glycerol 65.5 57 0.0012 34.2 10.9 85 84-170 12-100 (332)
420 TIGR01501 MthylAspMutase methy 65.3 88 0.0019 27.7 10.2 73 109-189 15-91 (134)
421 cd08173 Gro1PDH Sn-glycerol-1- 65.1 58 0.0012 34.3 10.9 82 85-170 14-98 (339)
422 PRK11205 tbpA thiamine transpo 64.3 1.6E+02 0.0034 30.7 14.0 82 597-683 197-281 (330)
423 cd06310 PBP1_ABC_sugar_binding 64.1 28 0.00061 34.9 8.2 80 97-177 1-83 (273)
424 cd01538 PBP1_ABC_xylose_bindin 63.8 39 0.00085 34.4 9.2 77 98-177 2-81 (288)
425 cd08481 PBP2_GcdR_like The C-t 63.5 75 0.0016 29.2 10.6 99 559-667 86-191 (194)
426 cd06289 PBP1_MalI_like Ligand- 63.1 30 0.00064 34.5 8.1 77 98-177 2-80 (268)
427 cd01536 PBP1_ABC_sugar_binding 63.1 32 0.0007 34.2 8.4 78 97-177 1-81 (267)
428 cd02067 B12-binding B12 bindin 62.7 83 0.0018 27.0 9.7 67 104-176 8-78 (119)
429 PF04273 DUF442: Putative phos 62.5 87 0.0019 26.6 9.3 85 88-172 21-106 (110)
430 PRK00843 egsA NAD(P)-dependent 62.2 73 0.0016 33.7 11.0 83 84-170 22-107 (350)
431 cd06282 PBP1_GntR_like_2 Ligan 62.1 32 0.00069 34.3 8.1 77 98-177 2-80 (266)
432 cd01391 Periplasmic_Binding_Pr 61.9 34 0.00073 33.6 8.3 78 97-177 1-83 (269)
433 PRK02261 methylaspartate mutas 61.4 97 0.0021 27.6 9.9 87 96-189 4-94 (137)
434 COG4126 Hydantoin racemase [Am 60.9 1.3E+02 0.0029 28.9 10.9 49 8-58 47-98 (230)
435 cd02069 methionine_synthase_B1 60.8 72 0.0016 30.9 9.7 88 96-191 89-180 (213)
436 cd06316 PBP1_ABC_sugar_binding 60.8 31 0.00068 35.2 7.9 79 97-177 1-82 (294)
437 cd06322 PBP1_ABC_sugar_binding 60.7 40 0.00086 33.7 8.5 77 98-177 2-81 (267)
438 smart00094 TR_FER Transferrin. 60.6 21 0.00046 37.2 6.4 19 447-465 36-54 (332)
439 cd02070 corrinoid_protein_B12- 60.5 87 0.0019 30.0 10.3 88 96-189 83-174 (201)
440 PF02310 B12-binding: B12 bind 60.5 97 0.0021 26.5 9.8 71 100-176 5-79 (121)
441 PF08114 PMP1_2: ATPase proteo 60.2 14 0.00031 24.4 3.1 30 713-742 13-42 (43)
442 cd00494 HMBS Hydroxymethylbila 60.2 2E+02 0.0044 29.3 12.9 62 559-628 109-171 (292)
443 cd01545 PBP1_SalR Ligand-bindi 59.9 37 0.00081 33.9 8.2 78 98-177 2-81 (270)
444 cd08169 DHQ-like Dehydroquinat 59.8 1.1E+02 0.0024 32.2 11.7 92 84-176 12-109 (344)
445 TIGR03730 tungstate_WtpA tungs 59.3 1.3E+02 0.0029 30.4 11.7 73 413-496 13-91 (273)
446 PRK10936 TMAO reductase system 59.2 46 0.001 35.0 8.9 81 95-177 46-129 (343)
447 PRK10752 sulfate transporter s 58.5 33 0.00072 35.8 7.5 47 413-468 38-85 (329)
448 cd06299 PBP1_LacI_like_13 Liga 58.4 65 0.0014 32.0 9.6 76 98-177 2-79 (265)
449 cd06318 PBP1_ABC_sugar_binding 58.2 38 0.00082 34.2 7.9 78 97-177 1-81 (282)
450 COG1922 WecG Teichoic acid bio 58.1 60 0.0013 32.1 8.6 168 8-190 18-196 (253)
451 PRK00945 acetyl-CoA decarbonyl 57.7 77 0.0017 29.4 8.8 88 22-116 31-130 (171)
452 cd06302 PBP1_LsrB_Quorum_Sensi 57.6 46 0.001 34.1 8.5 78 98-177 2-82 (298)
453 cd06300 PBP1_ABC_sugar_binding 57.4 46 0.001 33.3 8.4 80 97-177 1-86 (272)
454 cd01539 PBP1_GGBP Periplasmic 56.3 57 0.0012 33.5 8.9 78 97-177 1-83 (303)
455 PRK10014 DNA-binding transcrip 56.3 59 0.0013 34.0 9.2 79 96-177 65-145 (342)
456 cd06281 PBP1_LacI_like_5 Ligan 56.2 49 0.0011 33.1 8.3 77 98-177 2-80 (269)
457 cd01540 PBP1_arabinose_binding 56.1 41 0.00089 34.1 7.8 77 97-177 1-80 (289)
458 PF02608 Bmp: Basic membrane p 55.9 66 0.0014 33.2 9.2 88 96-190 2-94 (306)
459 TIGR02667 moaB_proteo molybden 55.8 70 0.0015 29.4 8.4 65 95-161 4-72 (163)
460 PRK10355 xylF D-xylose transpo 55.8 61 0.0013 33.9 9.1 79 96-177 26-107 (330)
461 TIGR00249 sixA phosphohistidin 55.7 55 0.0012 29.7 7.6 98 76-174 24-121 (152)
462 PRK10216 DNA-binding transcrip 55.5 2.5E+02 0.0055 28.9 17.2 73 409-497 110-189 (319)
463 PRK11303 DNA-binding transcrip 55.1 64 0.0014 33.5 9.2 80 95-177 61-142 (328)
464 PRK09701 D-allose transporter 55.1 1.2E+02 0.0025 31.3 11.1 85 92-177 21-108 (311)
465 COG3340 PepE Peptidase E [Amin 54.8 1.2E+02 0.0025 29.2 9.5 98 82-189 20-126 (224)
466 cd06270 PBP1_GalS_like Ligand 54.6 82 0.0018 31.4 9.7 76 98-177 2-79 (268)
467 cd08172 GlyDH-like1 Glycerol d 54.5 1E+02 0.0022 32.6 10.5 83 84-171 13-97 (347)
468 TIGR00177 molyb_syn molybdenum 54.5 58 0.0013 29.2 7.5 49 110-161 27-75 (144)
469 PF02602 HEM4: Uroporphyrinoge 54.2 30 0.00064 33.9 6.1 116 50-174 72-189 (231)
470 cd08195 DHQS Dehydroquinate sy 54.1 1.8E+02 0.004 30.6 12.3 91 85-176 13-111 (345)
471 cd00758 MoCF_BD MoCF_BD: molyb 53.9 58 0.0013 28.7 7.3 62 97-161 1-67 (133)
472 cd06273 PBP1_GntR_like_1 This 53.7 56 0.0012 32.6 8.3 76 98-177 2-79 (268)
473 cd06320 PBP1_allose_binding Pe 53.6 54 0.0012 32.9 8.2 80 97-177 1-83 (275)
474 cd06296 PBP1_CatR_like Ligand- 53.6 53 0.0011 32.8 8.1 76 98-177 2-79 (270)
475 KOG0780 Signal recognition par 53.5 1.7E+02 0.0037 30.9 11.0 104 67-174 98-207 (483)
476 cd01994 Alpha_ANH_like_IV This 53.4 2.1E+02 0.0045 27.3 11.5 129 10-162 10-147 (194)
477 cd02072 Glm_B12_BD B12 binding 53.3 1.6E+02 0.0034 25.9 9.6 70 111-188 15-88 (128)
478 COG1732 OpuBC Periplasmic glyc 53.2 77 0.0017 32.2 8.5 116 557-683 151-281 (300)
479 cd06317 PBP1_ABC_sugar_binding 53.1 57 0.0012 32.6 8.2 77 98-177 2-82 (275)
480 COG0796 MurI Glutamate racemas 53.0 1.4E+02 0.003 30.0 10.2 43 14-57 55-97 (269)
481 cd06315 PBP1_ABC_sugar_binding 52.8 78 0.0017 32.0 9.2 79 96-177 1-82 (280)
482 PRK00072 hemC porphobilinogen 52.7 2E+02 0.0044 29.3 11.5 64 558-629 112-176 (295)
483 COG4213 XylF ABC-type xylose t 52.7 2.7E+02 0.0059 28.4 15.3 164 9-178 64-242 (341)
484 PRK15138 aldehyde reductase; P 52.5 93 0.002 33.4 9.9 84 84-171 20-106 (387)
485 cd06323 PBP1_ribose_binding Pe 52.0 58 0.0013 32.4 8.1 77 98-177 2-81 (268)
486 PF00625 Guanylate_kin: Guanyl 51.4 1.3E+02 0.0028 28.2 9.7 95 26-129 2-100 (183)
487 PRK06975 bifunctional uroporph 51.2 1.1E+02 0.0023 35.5 10.7 91 78-174 118-214 (656)
488 cd00886 MogA_MoaB MogA_MoaB fa 51.0 78 0.0017 28.7 7.8 63 97-161 2-70 (152)
489 PRK10653 D-ribose transporter 51.0 97 0.0021 31.6 9.6 80 95-177 26-108 (295)
490 cd06307 PBP1_uncharacterized_s 50.6 55 0.0012 32.9 7.6 80 97-177 1-84 (275)
491 PRK13805 bifunctional acetalde 50.3 1.5E+02 0.0032 35.9 12.0 78 94-171 479-560 (862)
492 TIGR02637 RhaS rhamnose ABC tr 50.0 75 0.0016 32.5 8.6 77 99-177 2-82 (302)
493 TIGR00315 cdhB CO dehydrogenas 49.8 2E+02 0.0043 26.5 10.0 68 24-98 26-95 (162)
494 PF07302 AroM: AroM protein; 49.7 1.6E+02 0.0035 28.6 9.8 74 96-173 126-201 (221)
495 cd08487 PBP2_BlaA The C-termin 49.6 2E+02 0.0044 26.1 12.7 100 559-668 84-187 (189)
496 cd03522 MoeA_like MoeA_like. T 49.2 85 0.0018 32.4 8.5 67 93-161 157-228 (312)
497 TIGR02634 xylF D-xylose ABC tr 49.2 64 0.0014 33.1 7.9 71 104-177 9-80 (302)
498 cd06324 PBP1_ABC_sugar_binding 49.1 65 0.0014 33.1 8.0 77 98-177 2-83 (305)
499 cd06309 PBP1_YtfQ_like Peripla 49.1 52 0.0011 33.0 7.2 71 104-177 10-81 (273)
500 TIGR03418 chol_sulf_TF putativ 49.1 1.3E+02 0.0027 30.6 10.1 106 558-672 175-290 (291)
No 1
>KOG1054 consensus Glutamate-gated AMPA-type ion channel receptor subunit GluR2 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=1.8e-70 Score=551.83 Aligned_cols=689 Identities=16% Similarity=0.271 Sum_probs=557.5
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHH
Q 037761 10 FKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAV 89 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~ 89 (753)
.+.-.-..+.|.-.++ +|.|++|-+.-.....+..+++..++|.|+++. -++...++..++.|. ...+++.+
T Consensus 74 a~Sf~~tnafCsq~s~-Gv~Aifg~yd~ks~~~ltsfc~aLh~~~vtpsf----p~~~~~~Fviq~RP~---l~~al~s~ 145 (897)
T KOG1054|consen 74 ANSFAVTNAFCSQFSR-GVYAIFGFYDKKSVNTLTSFCGALHVSFVTPSF----PTDGDNQFVIQMRPA---LKGALLSL 145 (897)
T ss_pred hhhHHHHHHHHHHHhh-hHhhheecccccchhhhhhhccceeeeeecccC----CcCCCceEEEEeCch---HHHHHHHH
Confidence 4445566788888887 999999999999999999999999999999865 224556789999998 67899999
Q ss_pred HHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHH
Q 037761 90 LQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLF 169 (753)
Q Consensus 90 l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~ 169 (753)
+.|++|.++..+| |.+-|....+++.+.+.+++..|.....-. ..+..+++.+++.+.....+-|++-|..+-.-.++
T Consensus 146 i~hy~W~~fv~ly-D~~rg~s~Lqai~~~a~~~nw~VtA~~v~~-~~d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il 223 (897)
T KOG1054|consen 146 IDHYKWEKFVYLY-DTDRGLSILQAIMEAAAQNNWQVTAINVGN-INDVKEYRMLFEMLDRRQENRVLIDCESERRNRIL 223 (897)
T ss_pred HHhcccceEEEEE-cccchHHHHHHHHHHHHhcCceEEEEEcCC-cccHHHHHHHHHHHhccccceEEEEcccHHHHHHH
Confidence 9999999999999 566788889999999999999987664332 23456699999999887777777777777666666
Q ss_pred HHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCCCccccchhHH
Q 037761 170 ALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNSSVTEINISGL 249 (753)
Q Consensus 170 ~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~~ 249 (753)
.++.+.|-...+|++|.........+. ........++.+|...+.+.|..++|.++|++.....+++....++..-++
T Consensus 224 ~q~i~~~k~~~~YHYvlaNl~f~d~dl--~~f~~g~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsA 301 (897)
T KOG1054|consen 224 LQVIELGKHVKGYHYVLANLGFTDIDL--ERFQHGGANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSA 301 (897)
T ss_pred HHHHHHhhhccceEEEEeeCCCchhhH--HHHhcCCcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhh
Confidence 677776666689999998764433222 234455667889999999999999999999998888788777778888899
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC--CCccccchHHHHHHHHhcccccceeeEEe-eCCccceeEE
Q 037761 250 WAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFG--SLGFSRIGHILCNQILNTQFKGLSGEFHL-VNGQLESSVF 326 (753)
Q Consensus 250 ~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~g~~~~~~y 326 (753)
.+|||+.++++|++.+..+...... .+..+||. +..+|.+|..+..+++++.++|+||.|+| ..|.|.+...
T Consensus 302 lthDailV~~eaf~~~~~q~~~~~r-----RG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~ 376 (897)
T KOG1054|consen 302 LTHDAILVMAEAFRSLRRQRIDISR-----RGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTI 376 (897)
T ss_pred hhhhHHHHHHHHHHHHHHhhhchhc-----cCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceE
Confidence 9999999999999988544322211 11234553 34578899999999999999999999999 8999988999
Q ss_pred EEEEEeccc-eEEEEeecCCCcccccccCccCCCCceecCCCCCCCCCcccccceEEeeccCCCCcceEEEEEcCCCCcc
Q 037761 327 EIVNVIGTG-RVVGYWTSEKGLTQTLDLTSKNDLKQIIWPGDSTIAPTGWAIPSLVVGTPVRLGFPQFLSVREDGDLNKT 405 (753)
Q Consensus 327 ~i~~~~~~~-~~vg~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~ 405 (753)
+|++++.++ .++|+|....++.... +.- +.+..+ ....+.+..|.+.-..||..+... .....++.
T Consensus 377 ~i~elk~~~~rk~~~W~e~~~fv~~~---------t~a-~~~~d~--~~~~n~tvvvttiL~spyvm~kkn-~~~~egn~ 443 (897)
T KOG1054|consen 377 DIVELKSNGSRKVGYWNEGEGFVPGS---------TVA-QSRNDQ--ASKENRTVVVTTILESPYVMLKKN-HEQLEGNE 443 (897)
T ss_pred EEEEeccCCcceeeeecccCceeecc---------ccc-cccccc--cccccceEEEEEecCCchhHHHhh-HHHhcCCc
Confidence 999999988 9999998887654311 111 111101 111222677777777777665442 23335788
Q ss_pred eeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCC-CCC-ChHHHHHHHHcCcccEEEeeeeeecccceeeeccccc
Q 037761 406 TYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGE-MAG-TYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPY 483 (753)
Q Consensus 406 ~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~-~~~-~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~ 483 (753)
++.|||+||+.+||+ +.++++++.++..+....+ ..+ -|+||++.|..|++|++++++++|.+|++.+|||.|+
T Consensus 444 ryEGyCvdLa~~iAk----hi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPf 519 (897)
T KOG1054|consen 444 RYEGYCVDLAAEIAK----HIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPF 519 (897)
T ss_pred ccceeHHHHHHHHHH----hcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccch
Confidence 999999999999999 8888888877764332222 333 4999999999999999999999999999999999999
Q ss_pred cccceEEEEecccCCCCceeEEEecCccccceee----------------------------------------------
Q 037761 484 SESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLAL---------------------------------------------- 517 (753)
Q Consensus 484 ~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~i---------------------------------------------- 517 (753)
+..++++++++|.+..+.++.|+.|..-.+|+||
T Consensus 520 MslGISIMIKKPqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNs 599 (897)
T KOG1054|consen 520 MSLGISIMIKKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNS 599 (897)
T ss_pred hhcCeEEEEeCcccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHH
Confidence 9999999999999988999999999999999999
Q ss_pred ----------------ccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC-eEEEecCchHH
Q 037761 518 ----------------VVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH-FVGFQSGSFVE 580 (753)
Q Consensus 518 ----------------p~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~-~~~~~~~~~~~ 580 (753)
|+|.++|++-.+||||+||++++|||||++|||..++.+||.|.|||+++.+ .+|+..+.+..
T Consensus 600 LWFsLgAFMQQG~DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GSTk 679 (897)
T KOG1054|consen 600 LWFSLGAFMQQGCDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGSTK 679 (897)
T ss_pred HHHHHHHHHhcCCCCCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCchH
Confidence 9999999999999999999999999999999999999999999999998776 78888888888
Q ss_pred HHHHHhhC---------CCCCce-ecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcC-CCCcEEeCcccccCce
Q 037761 581 DFLVKQLN---------FSRNQT-RPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKY-SSKYTTAGPIYRTDGL 649 (753)
Q Consensus 581 ~~~~~~~~---------~~~~~~-~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~ 649 (753)
+++++..- ...+.. +-..+..|++.++++.+ |..|++.+...-+|.-++. | +-..++..+...+|
T Consensus 680 eFFr~Skiavy~kMW~yM~SaepsVFv~t~aeGv~rVRksK---GkyAfLLEsTmNey~eqRkPC-DTMKVGgNLds~GY 755 (897)
T KOG1054|consen 680 EFFRRSKIAVYEKMWTYMKSAEPSVFVRTTAEGVARVRKSK---GKYAFLLESTMNEYIEQRKPC-DTMKVGGNLDSKGY 755 (897)
T ss_pred HHHhhhhHHHHHHHHHHHhcCCcceeeehhhhHHHHHHhcC---CceEeehHhhhhhhhhccCCc-cceecccccCCcce
Confidence 88884110 000111 23456789999998654 4588888888888877665 8 66677889999999
Q ss_pred EEEEcCCCCCchHhHHHHHHhhhcchHHHHHHHhhcCCCCCCCCcccCCCccCcccccccchhhHHHHHHHHHHHHHHHH
Q 037761 650 GFAFAKDSPLVSHFSQAILLVRENQTRMDRIEKKYFGENVMTPTLARSISSESSSLRAYNFGGLFIIVGIATLLALLISE 729 (753)
Q Consensus 650 ~~~~~k~s~l~~~~n~~i~~l~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~f~il~~g~~l~~~vf~ 729 (753)
+++.||+|.|+..+|-+++.|.|.| .++++.+|||..+++|.......++....|++.+.+|+||||..|++||+++.+
T Consensus 756 GiATp~Gsslr~~vNLAvLkL~E~G-~LdKLkNKWWYDkGeC~sg~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvAL 834 (897)
T KOG1054|consen 756 GIATPKGSSLRNAVNLAVLKLNEQG-LLDKLKNKWWYDKGECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVAL 834 (897)
T ss_pred eecCCCCcccccchhhhhhhhcccc-hHHHhhhhhcccccccCCCCCCCCcchhhcchhhccceeeeehhhHHHHHHHHH
Confidence 9999999999999999999999999 999999999999999988776655566799999999999999999999999998
Q ss_pred HHHhccch
Q 037761 730 RYIWQKPV 737 (753)
Q Consensus 730 ~~~~~~~~ 737 (753)
.+++-|.+
T Consensus 835 iEF~yksr 842 (897)
T KOG1054|consen 835 IEFCYKSR 842 (897)
T ss_pred HHHHHHhh
Confidence 55554433
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=7.8e-70 Score=549.65 Aligned_cols=654 Identities=20% Similarity=0.324 Sum_probs=535.2
Q ss_pred ChHHHHHHHHHHHhcCCeEEEE-cCCCCC----cHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHHHHH
Q 037761 11 KDCGKLILAVDLLKKFQVQAII-GPQIPA----AAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSLQVK 84 (753)
Q Consensus 11 ~~~~a~~~a~~Li~~~~V~avi-G~~~s~----~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~~~~ 84 (753)
-..++.....+|++. .|.+|+ .+.-++ .-.+++..++.|++|++.....+..+++ .-+++|.|+.|+.++|+.
T Consensus 80 ~i~t~~~VC~~li~~-~vyav~vSh~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda~fSdKnIh~sFlRtvpPyshqa~ 158 (993)
T KOG4440|consen 80 AIQTALSVCEDLISS-QVYAVLVSHPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDAIFSDKNIHLSFLRTVPPYSHQAS 158 (993)
T ss_pred HHHHHHHHHHHHHhh-heeEEEecCCCCCCcccccccceeeccceeeeeeeeeehhhhhccCceeeeEeecCCCccchhH
Confidence 345666666777776 777766 433222 3456677889999999999999999997 679999999999999999
Q ss_pred HHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHH
Q 037761 85 AISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTAL 164 (753)
Q Consensus 85 a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~ 164 (753)
+..+.|..|.|++|.++.+||.-|+...+.+....++..-++.....+.++ ...+++.|-..|...++||++....++
T Consensus 159 VwleMl~~~~y~~vi~l~s~d~~gra~~~r~qt~~e~~~~~~e~v~~f~p~--~~~~t~~l~~~k~~~~rv~~~~as~dD 236 (993)
T KOG4440|consen 159 VWLEMLRVYSYNHVILLVSDDHEGRAAQKRLQTLLEERESKAEKVLQFDPG--TKNVTALLMEAKELEARVIILSASEDD 236 (993)
T ss_pred HHHHHHHHhhcceEEEEEcccccchhHHhHHHHHHHHHhhhhhhheecCcc--cchHHHHHhhhhhhhheeEEeecccch
Confidence 999999999999999999999999988888887777666566556667655 568999999999999999999999999
Q ss_pred HHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCCCcccc
Q 037761 165 ASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNSSVTEI 244 (753)
Q Consensus 165 ~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~ 244 (753)
+..+++.|..++|++.+++||++....... ...+|++|.......
T Consensus 237 A~~ifr~Ag~lnmTG~G~VWiV~E~a~~~n--------n~PdG~LGlqL~~~~--------------------------- 281 (993)
T KOG4440|consen 237 AATIFRAAGMLNMTGSGYVWIVGERAISGN--------NLPDGILGLQLINGK--------------------------- 281 (993)
T ss_pred HHHHHHhhhhhcccCceEEEEEeccccccC--------CCCCceeeeEeecCc---------------------------
Confidence 999999999999999999999997654322 235788887664321
Q ss_pred chhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcc-cccceeeEEe-eCCccc
Q 037761 245 NISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQ-FKGLSGEFHL-VNGQLE 322 (753)
Q Consensus 245 ~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-f~g~~G~v~f-~~g~~~ 322 (753)
...++.-|++.++|.|+|+++..++....++.| |++...|..|..|...+...+ -.|.||.+.| +||||.
T Consensus 282 -~~~~hirDsv~vlasAv~e~~~~e~I~~~P~~c-------~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi 353 (993)
T KOG4440|consen 282 -NESAHIRDSVGVLASAVHELLEKENITDPPRGC-------VDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRI 353 (993)
T ss_pred -cccceehhhHHHHHHHHHHHHhhccCCCCCCcc-------cCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCcee
Confidence 123568999999999999998877665555433 344456788888888887766 5789999999 999999
Q ss_pred eeEEEEEEEec-cc-eEEEEeecCCCcccccccCccCCCCceecCCCCCCCCCccccc-ceEEeeccCCCCcceEEEE-E
Q 037761 323 SSVFEIVNVIG-TG-RVVGYWTSEKGLTQTLDLTSKNDLKQIIWPGDSTIAPTGWAIP-SLVVGTPVRLGFPQFLSVR-E 398 (753)
Q Consensus 323 ~~~y~i~~~~~-~~-~~vg~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~-~l~v~~~~~~~~~~~~~~~-~ 398 (753)
...|+|.|+.. .. +.+|.||.... .+ |++.|+||++..+-|.+..+| +||+.+.+++||+.-.-.- +
T Consensus 354 ~a~YdiiN~hq~rk~Vg~~~yd~~r~-~~--------nd~~IiWpGg~~~KP~gi~~pthLrivTi~~~PFVYv~p~~sd 424 (993)
T KOG4440|consen 354 FANYDIINLHQNRKLVGVGIYDGTRV-IP--------NDRKIIWPGGETEKPRGIQMPTHLRIVTIHQEPFVYVKPTLSD 424 (993)
T ss_pred eccceeEehhhhhhhhhhccccceee-cc--------CCceeecCCCCcCCCccccccceeEEEEeccCCeEEEecCCCC
Confidence 99999999964 34 66666654332 11 678999999998899998888 8999999998866332010 0
Q ss_pred -----------c--------------C----CCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCC-------
Q 037761 399 -----------D--------------G----DLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENG------- 442 (753)
Q Consensus 399 -----------~--------------~----~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~------- 442 (753)
| + .+..-|+.|+|+||+-.++. ++||++++.+++.+.-+-
T Consensus 425 ~~c~eef~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~----~~Nftyd~~l~~dg~fg~~~~vnns 500 (993)
T KOG4440|consen 425 GTCKEEFTVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSR----TMNFTYDVHLVADGKFGTQERVNNS 500 (993)
T ss_pred cchhhhccccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHH----hhcceEEEEEeecccccceeeeecc
Confidence 1 0 01235788999999999999 999999999887422111
Q ss_pred -C-CCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceee---
Q 037761 443 -E-MAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLAL--- 517 (753)
Q Consensus 443 -~-~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~i--- 517 (753)
. ...+|+|+++.|.+|++||++++++++++|.++++||.|+.+.++.++.+++.+ ......|++||+.++|+++
T Consensus 501 seT~~kew~G~iGEL~~~~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r-~Stl~SFlQPfqstLW~lv~~S 579 (993)
T KOG4440|consen 501 SETNKKEWNGMIGELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIR-RSTLDSFLQPFQSTLWLLVGLS 579 (993)
T ss_pred cccccceehhhhhhhhCCccceEeeceeeChhhhhheeccCcccccceEEEeeCCCC-CchHHHHHhHHHHHHHHHHHHH
Confidence 1 234799999999999999999999999999999999999999999999999866 4488899999999999998
Q ss_pred -------------------------------------------------------ccccchhhHHHHHHHHHHHhhhcee
Q 037761 518 -------------------------------------------------------VVKDCSKFVLVIWLWLAFILMQSYT 542 (753)
Q Consensus 518 -------------------------------------------------------p~s~~~R~~~~~w~l~~lvl~~~Y~ 542 (753)
|+|.+.|++-++|.=||+|++++||
T Consensus 580 VhvVal~lYlLDrfSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYT 659 (993)
T KOG4440|consen 580 VHVVALMLYLLDRFSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYT 659 (993)
T ss_pred HHHHHHHHHHHHhcCcccceeeccCccchhhhcchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhh
Confidence 9999999999999999999999999
Q ss_pred eeeeeeEEeeccCCCcCChhHhhhcC----CeEEEecCchHHHHHHHhhCCC----CCceecCCCHHHHHHHHhcCCCCC
Q 037761 543 ASLSSILTVDQLEPTFADLKKLRTES----HFVGFQSGSFVEDFLVKQLNFS----RNQTRPLSNFGEYKEALSNGSRKG 614 (753)
Q Consensus 543 a~L~s~lt~~~~~~~i~s~~dL~~~~----~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~l~~g~~~~ 614 (753)
|||++||...+.+..+..+.|-.-.+ ..++.+.++..+.||++.-... ...-..|.+..|+++++++|+
T Consensus 660 ANLAAFLVLdrPe~~ltGinDpRLRNps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~A~eAiq~v~~gk--- 736 (993)
T KOG4440|consen 660 ANLAAFLVLDRPEERLTGINDPRLRNPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDGK--- 736 (993)
T ss_pred hhhhhheeecCccccccCCCCccccCcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhhHHHHHHHHHcCc---
Confidence 99999999999999999999875332 3788899999999999622111 122244677889999999999
Q ss_pred CeeEEEeccccHHHHHhcCCCCcEEeCcccccCceEEEEcCCCCCchHhHHHHHHhhhcchHHHHHHHhhcCCC--CCCC
Q 037761 615 GVSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTDGLGFAFAKDSPLVSHFSQAILLVRENQTRMDRIEKKYFGEN--VMTP 692 (753)
Q Consensus 615 ~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~G~~~~~~~~~~~~~~--~~~~ 692 (753)
++|++.|...++|..+++| .|...++.+...+|+++++|+||+.+.+..+|++++|+| +|+++.++|.... ..|.
T Consensus 737 -L~AFIWDS~rLEfEAs~~C-eLvT~GeLFgRSgyGIGlqK~SPWt~~vtlaIL~~hEsG-fMEkLDk~Wi~~Ggpq~c~ 813 (993)
T KOG4440|consen 737 -LHAFIWDSARLEFEASQKC-ELVTTGELFGRSGYGIGLQKDSPWTQNVTLAILKSHESG-FMEKLDKTWIRYGGPQECD 813 (993)
T ss_pred -eeEEEeecceeeehhhccc-ceEeccccccccccccccccCCCCcchhhHHHHHhhhcc-hHHHHHHHHHhcCCcchhh
Confidence 9999999999999999999 999999999999999999999999999999999999999 9999999999863 3333
Q ss_pred CcccCCCccCcccccccchhhHHHHHHHHHHHHHH-HHHHHhc
Q 037761 693 TLARSISSESSSLRAYNFGGLFIIVGIATLLALLI-SERYIWQ 734 (753)
Q Consensus 693 ~~~~~~~~~~~~l~~~~l~~~f~il~~g~~l~~~v-f~~~~~~ 734 (753)
..+. .+..|++++++|+|++++.|+++++++ |++..++
T Consensus 814 ~~~k----~PatLgl~NMagvFiLV~~Gia~GifLifiEv~Yk 852 (993)
T KOG4440|consen 814 SRSK----APATLGLENMAGVFILVAGGIAAGIFLIFIEVAYK 852 (993)
T ss_pred hhcc----CcccccccccccEEEEEecchhheeeEEEEeehhh
Confidence 3222 568999999999999999998887744 4444443
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=1.4e-64 Score=530.34 Aligned_cols=656 Identities=20% Similarity=0.334 Sum_probs=523.0
Q ss_pred cCCCChHHHHHHHHHHHhcCCeEEEEcCCCCC---cHHHHHHhhccCCccEEeecCCCCC-CCC-CCCCceEEEecCcHH
Q 037761 7 LKQFKDCGKLILAVDLLKKFQVQAIIGPQIPA---AAPFLVELGEKAQVPIISFFETSPA-LSP-TEHPFFIRVTQNDSL 81 (753)
Q Consensus 7 ~d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~---~~~av~~i~~~~~vP~is~~a~~~~-l~~-~~~~~~fr~~p~~~~ 81 (753)
++..||..-+...|.++...+|.+||=...|. +++-..-+....+||+|+..+.+.. +++ .....|+++.|+-++
T Consensus 80 ~N~tdPkSll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sieq 159 (1258)
T KOG1053|consen 80 MNTTDPKSLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIEQ 159 (1258)
T ss_pred cCCCCHHHHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHHH
Confidence 38899999999999999999999988766665 3333334567899999999776654 444 233579999999999
Q ss_pred HHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHh--CCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEE
Q 037761 82 QVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQE--NDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVH 159 (753)
Q Consensus 82 ~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~ 159 (753)
|+.+|.++|+.|+|..+++|....++-..+...+++.... .|.++........+.+ ++..-...++++-++.||+++
T Consensus 160 qa~Vml~iL~~ydW~~Fs~vtt~~pg~~~f~~~ir~~~d~s~vgwe~i~v~~l~~s~~-d~~a~~q~qLkki~a~Villy 238 (1258)
T KOG1053|consen 160 QAQVMLKILEEYDWYNFSLVTTQFPGNRTFVSLIRQTNDNSHVGWEMINVLTLDPSTD-DLLAKLQAQLKKIQAPVILLY 238 (1258)
T ss_pred HHHHHHHHHHHcCcceeEEEEeecCchHHHHHHHHHhhhhccccceeeeeeecCCCCC-chHHHHHHHHHhcCCcEEEEE
Confidence 9999999999999999999999999888899999888776 4666666655554422 233334455666679999999
Q ss_pred eChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCC
Q 037761 160 MNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNS 239 (753)
Q Consensus 160 ~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~ 239 (753)
|+.+++..++.+|.++|+++++++||++........ .-.+..-|.|+.... .|+
T Consensus 239 C~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~~~----~pa~~P~GLisv~~~------------~w~---------- 292 (1258)
T KOG1053|consen 239 CSREEAERIFEEAEQAGLTGPGYVWIVPQLVEGLEP----RPAEFPLGLISVSYD------------TWR---------- 292 (1258)
T ss_pred ecHHHHHHHHHHHHhcCCcCCceEEEeehhccCCCC----CCccCccceeeeecc------------chh----------
Confidence 999999999999999999999999999766554211 112445677766431 111
Q ss_pred CccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-eC
Q 037761 240 SVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-VN 318 (753)
Q Consensus 240 ~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~ 318 (753)
..+.+..-|++-++|.|...++.... ..+....+|.... ......+..+...|.++.|+| ++++| ++
T Consensus 293 -----~~l~~rVrdgvaiva~aa~s~~~~~~-~lp~~~~~C~~~~----~~~~~~~~~l~r~l~NvT~~g--~~lsf~~~ 360 (1258)
T KOG1053|consen 293 -----YSLEARVRDGVAIVARAASSMLRIHG-FLPEPKMDCREQE----ETRLTSGETLHRFLANVTWDG--RDLSFNED 360 (1258)
T ss_pred -----hhHHHHHhhhHHHHHHHHHHHHhhcc-cCCCccccccccc----Cccccchhhhhhhhheeeecc--cceeecCC
Confidence 22356678999999999999864432 2332222222111 112356789999999999999 78999 99
Q ss_pred CccceeEEEEEEEeccc--eEEEEeecCCCcccccccCccCCCCceecCCCCCCCCCccccc-ceEEeeccCCCCcceEE
Q 037761 319 GQLESSVFEIVNVIGTG--RVVGYWTSEKGLTQTLDLTSKNDLKQIIWPGDSTIAPTGWAIP-SLVVGTPVRLGFPQFLS 395 (753)
Q Consensus 319 g~~~~~~y~i~~~~~~~--~~vg~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~-~l~v~~~~~~~~~~~~~ 395 (753)
|-..++...+....... ++||.|....- .++.-+||...+. +...... +|+|.|.+++||+.-..
T Consensus 361 g~~v~p~lvvI~l~~~r~We~VG~We~~~L-----------~M~y~vWPr~~~~-~q~~~d~~HL~VvTLeE~PFVive~ 428 (1258)
T KOG1053|consen 361 GYLVHPNLVVIDLNRDRTWERVGSWENGTL-----------VMKYPVWPRYHKF-LQPVPDKLHLTVVTLEERPFVIVED 428 (1258)
T ss_pred ceeeccceEEEecCCCcchheeceecCCeE-----------EEeccccccccCc-cCCCCCcceeEEEEeccCCeEEEec
Confidence 98878877776665544 99999976663 3567889966422 2221112 89999998887654333
Q ss_pred EEE-----------------------cC--CCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCC-CCCCChH
Q 037761 396 VRE-----------------------DG--DLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENG-EMAGTYD 449 (753)
Q Consensus 396 ~~~-----------------------~~--~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~-~~~~~~~ 449 (753)
.+. +. .+-+.|+.|||+|||+.||+ .+||++++..+..+ -+| +.||.|+
T Consensus 429 vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~----~v~FtYDLYlVtnG-KhGkk~ng~Wn 503 (1258)
T KOG1053|consen 429 VDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLAR----DVKFTYDLYLVTNG-KHGKKINGVWN 503 (1258)
T ss_pred CCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHh----hcCcceEEEEecCC-cccceecCcch
Confidence 220 00 11267899999999999999 99999999888643 344 4899999
Q ss_pred HHHHHHHcCcccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceee------------
Q 037761 450 ELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLAL------------ 517 (753)
Q Consensus 450 ~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~i------------ 517 (753)
||+++|..+++||++++++++++|.+.+|||.|+..++++++|++.+. ..+..+|+.||++.+|+.+
T Consensus 504 GmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsng-tvspsAFLePfs~svWVmmFVm~livaai~v 582 (1258)
T KOG1053|consen 504 GMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNG-TVSPSAFLEPFSPSVWVMMFVMCLIVAAITV 582 (1258)
T ss_pred hhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCC-ccCchhhcCCcchHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999998865 5688999999999999988
Q ss_pred ------------------------------------------------ccccchhhHHHHHHHHHHHhhhceeeeeeeeE
Q 037761 518 ------------------------------------------------VVKDCSKFVLVIWLWLAFILMQSYTASLSSIL 549 (753)
Q Consensus 518 ------------------------------------------------p~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~l 549 (753)
|+.+.+|++..+|-+||+++-++|||||++||
T Consensus 583 FlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~nPKgtTskiMv~VWAfFavifLAsYTANLAAfM 662 (1258)
T KOG1053|consen 583 FLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFNNSVPVENPKGTTSKIMVLVWAFFAVIFLASYTANLAAFM 662 (1258)
T ss_pred HHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999
Q ss_pred EeeccCCCcCChhHhhhc-------CCeEEEecCchHHHHHHHhhCCCC--CceecC--CCHHHHHHHHhcCCCCCCeeE
Q 037761 550 TVDQLEPTFADLKKLRTE-------SHFVGFQSGSFVEDFLVKQLNFSR--NQTRPL--SNFGEYKEALSNGSRKGGVSA 618 (753)
Q Consensus 550 t~~~~~~~i~s~~dL~~~-------~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~--~~~~~~~~~l~~g~~~~~~~a 618 (753)
....+..+...+.|-+-+ +.++|.+.+++.++++++ ++++ .-+++| ...+++++.|++|+ +||
T Consensus 663 IqE~~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR~--Nyp~MHeYM~kyNq~~v~dal~sLK~gK----LDA 736 (1258)
T KOG1053|consen 663 IQEEYYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIRS--NYPEMHEYMVKYNQPGVEDALESLKNGK----LDA 736 (1258)
T ss_pred hhhhhhhhccccCcccccCccccCCCcccccCCCCchhhhHHh--ccHHHHHHHHHhccCchHHHHHHHhccc----chh
Confidence 999999889888887522 358999999999999997 5554 122233 46789999999999 999
Q ss_pred EEeccccHHHHHhcC--CCCcEEeC--cccccCceEEEEcCCCCCchHhHHHHHHhhhcchHHHHHHHhhcCCCCCCCCc
Q 037761 619 IFEEIPYIKVFLKKY--SSKYTTAG--PIYRTDGLGFAFAKDSPLVSHFSQAILLVRENQTRMDRIEKKYFGENVMTPTL 694 (753)
Q Consensus 619 ~~~~~~~~~~~~~~~--~~~l~~~~--~~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~G~~~~~~~~~~~~~~~~~~~~ 694 (753)
|+.|..++.|...++ | +|..++ ..+...+|+++++||||++..+|.+|++...+| .++.+.+.|+.. .|...
T Consensus 737 FIyDaAVLnY~agkDegC-KLvTIGsgKvFAttGYGIal~k~Spwkr~IdlallQy~gdG-eme~Le~~Wltg--ic~n~ 812 (1258)
T KOG1053|consen 737 FIYDAAVLNYMAGKDEGC-KLVTIGSGKVFATTGYGIALPKNSPWKRQIDLALLQYLGDG-EMEMLETLWLTG--ICHNS 812 (1258)
T ss_pred HHHHHHHHHHhhccCCCc-eEEEecCCceeeecceeeecCCCCcchhhHHHHHHHHhccc-hHHHHHHHHhhc--ccccc
Confidence 999999999999988 8 888887 789999999999999999999999999999999 999999999985 45555
Q ss_pred ccCCCccCcccccccchhhHHHHHHHHHHHHHHHHHH
Q 037761 695 ARSISSESSSLRAYNFGGLFIIVGIATLLALLISERY 731 (753)
Q Consensus 695 ~~~~~~~~~~l~~~~l~~~f~il~~g~~l~~~vf~~~ 731 (753)
..+. .+.+|.+++++|+||+|++|+.||+++|+++
T Consensus 813 k~ev--mSsqLdIdnmaGvFymL~~amgLSllvfi~E 847 (1258)
T KOG1053|consen 813 KNEV--MSSQLDIDNMAGVFYMLAVAMGLSLLVFIWE 847 (1258)
T ss_pred hhhh--hhcccChhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 5555 7789999999999999999999999999944
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=1.4e-50 Score=463.76 Aligned_cols=542 Identities=31% Similarity=0.525 Sum_probs=442.0
Q ss_pred HHHHhcCCccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCC-hhHHhhcccEEEEEEeCCCChhhhH
Q 037761 145 LSKLSTMQTRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLD-SEVIDSMEGVLGVRSHLPKSKELGL 223 (753)
Q Consensus 145 l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~-~~~~~~~~g~i~~~~~~~~~~~~~~ 223 (753)
+.+.+....+++++.+.+..+..++.++.+.||...+++|+.+.......+... ....+...|.++...+.+.....++
T Consensus 6 ~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~s~~~~~ 85 (656)
T KOG1052|consen 6 LLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDELYSLIDVMNGVLGLRGHIPRSELLQN 85 (656)
T ss_pred HHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhcccccccchhheeeEEeeccCCCccHHHHH
Confidence 344445677888888888888889999999999999999999987665544433 3344566677777777777888889
Q ss_pred HHHHHHHhhCCCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHH
Q 037761 224 FDRRWKSKLHSMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQIL 303 (753)
Q Consensus 224 F~~~~~~~~~~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~ 303 (753)
|..+|+.. .. ....++..+||++++++.|+++....... ...|.....|.++..+.+.+.
T Consensus 86 ~~~~~~~~-~~--------~~~~~~~~~~D~~~~~a~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~ 145 (656)
T KOG1052|consen 86 FVTRWQTS-NV--------ELLVYALWAYDAIQALARAVESLLNIGNL-----------SLSCGRNNSWLDALGVFNFGK 145 (656)
T ss_pred HHHHHhhc-cc--------cccchhhHHHHHHHHHHHHHHHhhcCCCC-----------ceecCCCCcccchhHHHHHHH
Confidence 99988876 32 56778999999999999999998431111 223333345677788888888
Q ss_pred hccccc---ceeeEEe-eCCccceeEEEEEEEeccc-eEEEEeecCCCcccccccCccCCCCceecCCCCCCCCCcccc-
Q 037761 304 NTQFKG---LSGEFHL-VNGQLESSVFEIVNVIGTG-RVVGYWTSEKGLTQTLDLTSKNDLKQIIWPGDSTIAPTGWAI- 377 (753)
Q Consensus 304 ~~~f~g---~~G~v~f-~~g~~~~~~y~i~~~~~~~-~~vg~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~- 377 (753)
+....+ .+|.+.+ .++.+....|+|++..+.+ ..+|.|++..+ ..+.|++.....|+++..
T Consensus 146 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~-------------~~i~~~~~~~~~~~~~~~~ 212 (656)
T KOG1052|consen 146 KLLVVNLSGVTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG-------------ENISWPGKDYFVPKGWFFP 212 (656)
T ss_pred hhhhhccccceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC-------------ceeeccCCcccCcCCcccc
Confidence 876544 4566777 5778878899999999888 88999977664 357899988888888773
Q ss_pred ---cceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHH
Q 037761 378 ---PSLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQ 454 (753)
Q Consensus 378 ---~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 454 (753)
.+++|++...+||..+.... ....+++.+.|+|+||++++++ +|||+++++.++.+.+...++|+|+|++++
T Consensus 213 ~~~~~l~v~~~~~~P~~~~~~~~-~~~~~~~~~~G~~idll~~l~~----~l~f~~~~~~~~~~~g~~~~~g~~~g~v~~ 287 (656)
T KOG1052|consen 213 TNGKPLRVGVVTEPPFVDLVEDL-AILNGNDRIEGFEIDLLQALAK----RLNFSYEIIFVPDGSGSRDPNGNWDGLVGQ 287 (656)
T ss_pred CCCceEEEEEeccCCceeeeecc-cccCCCCccceEEehHHHHHHH----hCCCceEEEEcCCCCCCCCCCCChhHHHHH
Confidence 48999999888866554421 0224678999999999999999 999999988888755333456899999999
Q ss_pred HHcCcccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceee-----------------
Q 037761 455 IKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLAL----------------- 517 (753)
Q Consensus 455 l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~i----------------- 517 (753)
|.+|++|++ ++++++.+|..+++||.||+..+.+++++++..... .+.|+.||++.+|+++
T Consensus 288 l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~-~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~~~~~ 365 (656)
T KOG1052|consen 288 LVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSK-LWNFLAPFSPEVWLLILASLLLVGLLLWILERL 365 (656)
T ss_pred HhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCccc-ceEEecCCcHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 999999999 899999999999999999999999999999987665 9999999999999987
Q ss_pred ------------------------------------ccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCCh
Q 037761 518 ------------------------------------VVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADL 561 (753)
Q Consensus 518 ------------------------------------p~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~ 561 (753)
|++.++|++.++||+++++++++|||+|+|+||.++..++|+++
T Consensus 366 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~~~~~i~~~ 445 (656)
T KOG1052|consen 366 SPYELPPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVPRLRSPIDSL 445 (656)
T ss_pred ccccCCccccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCcccCH
Confidence 66779999999999999999999999999999999999999999
Q ss_pred hHhhh-cCCeEEEecCchHHHHHHHh---hCCCCC-ceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcC--C
Q 037761 562 KKLRT-ESHFVGFQSGSFVEDFLVKQ---LNFSRN-QTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKY--S 634 (753)
Q Consensus 562 ~dL~~-~~~~~~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~--~ 634 (753)
+||++ ++..+|...++....++.+. ...... ....+.+.+++.+++++|.. +..+++.+.....+....+ |
T Consensus 446 ~dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~--~~~~~~~~~~~~~~~~~~~~~c 523 (656)
T KOG1052|consen 446 DDLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPS--GGYAFASDELYLAYLFLRDEIC 523 (656)
T ss_pred HHHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCCHHHHHHHHHcCCC--CceEEEeccHHHHHHHhhcCCC
Confidence 99994 67799999999999999863 223333 56778899999999999954 3456666666666655554 7
Q ss_pred CCcEEeCcccccCceEEEEcCCCCCchHhHHHHHHhhhcchHHHHHHHhhcCCC---CCCCCcccCCCccCcccccccch
Q 037761 635 SKYTTAGPIYRTDGLGFAFAKDSPLVSHFSQAILLVRENQTRMDRIEKKYFGEN---VMTPTLARSISSESSSLRAYNFG 711 (753)
Q Consensus 635 ~~l~~~~~~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~G~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~l~ 711 (753)
+++.+++.+...+++ ++||||||++.++.+|+++.|.| .++++.++|+... ..|.... ....+++++++
T Consensus 524 -~~~~v~~~~~~~~~~-~~~~~Spl~~~is~~Il~l~e~g-~l~~~~~kw~~~~~~~~~~~~~~-----~~~~l~~~~~~ 595 (656)
T KOG1052|consen 524 -DLTEVGEPFLYKGYG-AFPKGSPLRSLISRAILKLQETG-ILQKLKRKWFSKKPCLPKCSQTE-----KTKALDLESFW 595 (656)
T ss_pred -ceEEeCCcccCCCcc-eecCCCccHHHHHHHHHhhcccc-HHHHHHHHhccCCCCCCCCCCcc-----cccccchhhHH
Confidence 999999999999999 99999999999999999999999 9999999999985 3333322 35689999999
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhccc
Q 037761 712 GLFIIVGIATLLALLISERYIWQKP 736 (753)
Q Consensus 712 ~~f~il~~g~~l~~~vf~~~~~~~~ 736 (753)
|+|+++++|+++|+++|+.+++.++
T Consensus 596 g~F~i~~~g~~lal~vfi~E~~~~~ 620 (656)
T KOG1052|consen 596 GLFLILLVGYLLALLVFILELLYSR 620 (656)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999995554433
No 5
>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=1.1e-40 Score=365.41 Aligned_cols=340 Identities=20% Similarity=0.261 Sum_probs=275.1
Q ss_pred cCCCChHHHHHHHHHHHhc-------------CCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCce
Q 037761 7 LKQFKDCGKLILAVDLLKK-------------FQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFF 72 (753)
Q Consensus 7 ~d~~~~~~a~~~a~~Li~~-------------~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~ 72 (753)
..+|++..|+..+.+++.. ++|+|+|||.+|+.+.+++++++.++||+|+++++++.+++ ..||||
T Consensus 70 dtc~~~~~a~~~~~~~~~~~~~~~~~~~C~~~~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~sts~~lsd~~~yp~f 149 (469)
T cd06365 70 NVLHSDRKALESSLMWLSGEGETIPNYSCRRQRKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPFDPLLSDRVQFPSL 149 (469)
T ss_pred CCCCccHHHHHHHHHHHhCCCcccCCccCCCCCceEEEEcCCccHHHHHHHHHhhhhcccceeeccCCccccchhhCCcc
Confidence 3789999999999999964 58999999999999999999999999999999999999997 678999
Q ss_pred EEEecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCch--hhHHHHHHHHhc
Q 037761 73 IRVTQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAED--FQISKELSKLST 150 (753)
Q Consensus 73 fr~~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~--~d~~~~l~~l~~ 150 (753)
||+.|++..++.++++++++|+|++|++|+.|++||....+.+.+++++.|+||+..+.++....+ .++..+++++++
T Consensus 150 fRt~psd~~q~~ai~~li~~f~W~~Vaiv~~d~~yg~~~~~~~~~~~~~~gi~I~~~~~i~~~~~~~~~~~~~~l~~i~~ 229 (469)
T cd06365 150 YQMAPKDTSLPLGMVSLMLHFSWTWVGLVISDDDRGEQFLSDLREEMQRNGICLAFVEKIPVNMQLYLTRAEKYYNQIMT 229 (469)
T ss_pred eEecCCchhHHHHHHHHHHhcCCeEEEEEEecChhHHHHHHHHHHHHHHCCeEEEEEEEecCCchhhHHHHHHHHHHhhc
Confidence 999999999999999999999999999999999999999999999999999999999988765432 388999999999
Q ss_pred CCccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHH----
Q 037761 151 MQTRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDR---- 226 (753)
Q Consensus 151 ~~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~---- 226 (753)
+++|+||++++.+++..++.++.+.+. .+++||++++|....... ....+..+|++++..+.++.|.+++|++
T Consensus 230 ~~arvIvl~~~~~~~~~l~~~~~~~~~--~~~~wi~s~~w~~~~~~~-~~~~~~~~G~lg~~~~~~~~~~f~~fl~~l~~ 306 (469)
T cd06365 230 SSAKVIIIYGDTDSLLEVSFRLWQYLL--IGKVWITTSQWDVTTSPK-DFTLNSFHGTLIFSHHHSEIPGFKDFLQTVNP 306 (469)
T ss_pred CCCeEEEEEcCcHHHHHHHHHHHHhcc--CceEEEeecccccccccc-ccccceeeEEEEEEeccCcCcchHHHhhccCc
Confidence 999999999998888766554444443 579999999987543222 2345678999999999888888887654
Q ss_pred -----------HHHHhhCCCCCCC-------C----c----------cccchhHHHHHHHHHHHHHHHHHhcCCCCCCCC
Q 037761 227 -----------RWKSKLHSMKPNS-------S----V----------TEINISGLWAYDTIFALAKAVEKILSPINPSIV 274 (753)
Q Consensus 227 -----------~~~~~~~~~~~~~-------~----~----------~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~ 274 (753)
.|++.|+|..+.. + . ...+.++.+.|||||++|+|||+++++....+.
T Consensus 307 ~~~~~npw~~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~~~ 386 (469)
T cd06365 307 SKYPEDIFLEKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVETQS 386 (469)
T ss_pred ccCCCccHHHhhHhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccCCC
Confidence 4888888763210 1 0 002346788999999999999999876432221
Q ss_pred CCCCCCCCCCccCCCccccchHHHHHHHHhcccccceee-EEe-eCCccceeEEEEEEEec--cc----eEEEEeecCCC
Q 037761 275 NPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGE-FHL-VNGQLESSVFEIVNVIG--TG----RVVGYWTSEKG 346 (753)
Q Consensus 275 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~-v~f-~~g~~~~~~y~i~~~~~--~~----~~vg~~~~~~~ 346 (753)
..+|.. ...++++|++.|++++|.|.+|. |.| +|||+ ...|+|+||+. ++ ++||+|+...+
T Consensus 387 --------~~~~~~--~~~~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~VG~~~~~~~ 455 (469)
T cd06365 387 --------ENNGKR--LIFLPWQLHSFLKNIQFKNPAGDEVNLNQKRKL-DTEYDILNYWNFPQGLGLKVKVGEFSPQAP 455 (469)
T ss_pred --------cCCCCC--CCccHHHHHHHHHhccccCCCCCEEEecCCCCc-CceeeEEEEEECCCCCEEEEEEEEEeCCCC
Confidence 111211 23567899999999999999885 999 99998 67999999983 22 89999987554
Q ss_pred cccccccCccCCCCceec
Q 037761 347 LTQTLDLTSKNDLKQIIW 364 (753)
Q Consensus 347 ~~~~~~~~~~~~~~~i~w 364 (753)
....|.+ +.+.|.|
T Consensus 456 ~~~~l~i----~~~~i~W 469 (469)
T cd06365 456 SGQQLSI----SEEMIEW 469 (469)
T ss_pred CCcEEEE----ehhhccC
Confidence 4444544 5667777
No 6
>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=2.9e-40 Score=364.34 Aligned_cols=343 Identities=17% Similarity=0.272 Sum_probs=280.6
Q ss_pred CCCChHHHHHHHHHHHhcCC------------------eEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CC
Q 037761 8 KQFKDCGKLILAVDLLKKFQ------------------VQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TE 68 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~------------------V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~ 68 (753)
++++|..|+..+.+|+.+++ |.|||||.+|+++.+++++++.++||+|+++++++.+++ ..
T Consensus 81 tc~~~~~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls~~~~ 160 (510)
T cd06364 81 TCNTVSKALEATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLSNKNQ 160 (510)
T ss_pred cCCchHHHHHHHHHHHhcccccccccccccccCCCCCceEEEECCCchhHHHHHHHHhccccccccccccCCcccCCccc
Confidence 78899999999999998754 469999999999999999999999999999999999997 68
Q ss_pred CCceEEEecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHH
Q 037761 69 HPFFIRVTQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKL 148 (753)
Q Consensus 69 ~~~~fr~~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l 148 (753)
||++||+.|++..++.+++++++++||+||++|+.|++||+...+.|++.+++.|+||+..+.++...+..|+..++.++
T Consensus 161 yp~ffRt~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~~~~~d~~~~l~kl 240 (510)
T cd06364 161 FKSFLRTIPNDEHQATAMADIIEYFRWNWVGTIAADDDYGRPGIEKFREEAEERDICIDFSELISQYSDEEEIQRVVEVI 240 (510)
T ss_pred cCCeeEcCCChHHHHHHHHHHHHHcCCeEEEEEEecCcchHHHHHHHHHHHHHCCcEEEEEEEeCCCCCHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999988877544678999999999
Q ss_pred hcCCccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHH---
Q 037761 149 STMQTRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFD--- 225 (753)
Q Consensus 149 ~~~~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~--- 225 (753)
++++||||++++...++..++++|+++|+. +++||++++|............+...|++++.+.....+.+++|+
T Consensus 241 k~~~a~vVvl~~~~~~~~~ll~qa~~~g~~--~~iwI~s~~w~~~~~~~~~~~~~~~gg~lg~~~~~~~i~~f~~~l~~l 318 (510)
T cd06364 241 QNSTAKVIVVFSSGPDLEPLIKEIVRRNIT--GKIWLASEAWASSSLIAMPEYFDVMGGTIGFALKAGQIPGFREFLQKV 318 (510)
T ss_pred HhcCCeEEEEEeCcHHHHHHHHHHHHhCCC--CcEEEEEchhhcccccccCCccceeeEEEEEEECCCcCccHHHHHHhC
Confidence 999999999999999999999999999984 579999999875444333345567889999998887777766654
Q ss_pred ------------HHHHHhhCCCCCC------------------------------CCc-------c-----c--cchhHH
Q 037761 226 ------------RRWKSKLHSMKPN------------------------------SSV-------T-----E--INISGL 249 (753)
Q Consensus 226 ------------~~~~~~~~~~~~~------------------------------~~~-------~-----~--~~~~~~ 249 (753)
+.|++.|+|..+. .+. . + ...++.
T Consensus 319 ~p~~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~ 398 (510)
T cd06364 319 HPKKSSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISY 398 (510)
T ss_pred CcccCCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHH
Confidence 3478888876321 110 0 0 124467
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhccccccee-eEEe-eCCccceeEEE
Q 037761 250 WAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSG-EFHL-VNGQLESSVFE 327 (753)
Q Consensus 250 ~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G-~v~f-~~g~~~~~~y~ 327 (753)
+.|||||++|+|||+++.|........ ...|..+ ...++++|.+.|++++|.|.+| .+.| +||+. ...|+
T Consensus 399 ~v~~AVyAvAhaLh~~~~c~~~~~~~~------~~~c~~~-~~~~~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~-~~~Yd 470 (510)
T cd06364 399 NVYLAVYSIAHALQDIYTCTPGKGLFT------NGSCADI-KKVEAWQVLKHLRHLNFTDNMGEQVRFDEGGDL-VGNYS 470 (510)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCcc------CCCCCCC-CCCCHHHHHHHHHhcEEecCCCCEEEEecCCCC-cccee
Confidence 899999999999999986643211100 1123332 2256799999999999999987 5999 89998 67999
Q ss_pred EEEEec---cc----eEEEEeecCCCcccccccCccCCCCceec
Q 037761 328 IVNVIG---TG----RVVGYWTSEKGLTQTLDLTSKNDLKQIIW 364 (753)
Q Consensus 328 i~~~~~---~~----~~vg~~~~~~~~~~~~~~~~~~~~~~i~w 364 (753)
|+||+. ++ ++||.|+...+....|.+ +.+.|.|
T Consensus 471 I~n~q~~~~~~~~~~v~VG~~~~~~~~~~~l~i----~~~~i~W 510 (510)
T cd06364 471 IINWHLSPEDGSVVFKEVGYYNVYAKKGERLFI----NESKILW 510 (510)
T ss_pred EEEeeecCCCCcEEEEEEEEEcCCCCCCceEEe----ccccccC
Confidence 999993 33 899999876554445554 5677877
No 7
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=100.00 E-value=4.9e-40 Score=352.80 Aligned_cols=301 Identities=18% Similarity=0.256 Sum_probs=255.3
Q ss_pred CCCChHHHHHHHHHHHhc------------------CCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CC
Q 037761 8 KQFKDCGKLILAVDLLKK------------------FQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TE 68 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~------------------~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~ 68 (753)
++++|..|+.++.+|+++ ++|.|||||.+|+++.+++++++.++||+|+++++++.+++ .+
T Consensus 66 t~~~~~~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~ 145 (403)
T cd06361 66 TCSEVTTAMAAVLRFLSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGYSEISMAVSRMLNLQLIPQVSYASTAEILSDKIR 145 (403)
T ss_pred CCCChHHHHHHHHHHHhhcccccccccccccCCCCCCCeEEEECCCcchHHHHHHHHhccCCcceEecCcCCcccCCccc
Confidence 789999999999999985 68999999999999999999999999999999999999996 68
Q ss_pred CCceEEEecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCch-----hhHHH
Q 037761 69 HPFFIRVTQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAED-----FQISK 143 (753)
Q Consensus 69 ~~~~fr~~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~-----~d~~~ 143 (753)
||||||+.|++..|+++++++++++||+||++|+.|++||++..+.|++++++.|+||+..+.++.+.++ .++..
T Consensus 146 ~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~d~yG~~~~~~f~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~ 225 (403)
T cd06361 146 FPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITDDDYGRSALETFIIQAEANGVCIAFKEILPASLSDNTKLNRIIRT 225 (403)
T ss_pred CCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEecCchHHHHHHHHHHHHHHCCeEEEEEEEecCccCcchhHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999988764222 46666
Q ss_pred HHHHHhcCCccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhH
Q 037761 144 ELSKLSTMQTRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGL 223 (753)
Q Consensus 144 ~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~ 223 (753)
+++.+++++||||+++++.+++..++++|+++|+ +++||++++|............+...|.+++....+..+.+++
T Consensus 226 ~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~---~~~wigs~~w~~~~~~~~~~~~~~~~g~ig~~~~~~~~~~F~~ 302 (403)
T cd06361 226 TEKIIEENKVNVIVVFARQFHVFLLFNKAIERNI---NKVWIASDNWSTAKKILTDPNVKKIGKVVGFTFKSGNISSFHQ 302 (403)
T ss_pred HHHHHhcCCCeEEEEEeChHHHHHHHHHHHHhCC---CeEEEEECcccCccccccCCcccccceEEEEEecCCccchHHH
Confidence 7777889999999999999999999999999997 6899999999864443333333567799999887655555544
Q ss_pred HHHHHHHhhCCCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHH
Q 037761 224 FDRRWKSKLHSMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQIL 303 (753)
Q Consensus 224 F~~~~~~~~~~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~ 303 (753)
.+++.+ ...+||||+++|+|||++..+ . .|... ...++++|+++|+
T Consensus 303 ---~~~~~~---------------~~~v~~AVyaiA~Al~~~~~~-~--------------~c~~~-~~~~~~~l~~~L~ 348 (403)
T cd06361 303 ---FLKNLL---------------IHSIQLAVFALAHAIRDLCQE-R--------------QCQNP-NAFQPWELLGQLK 348 (403)
T ss_pred ---HHHHhh---------------HHHHHHHHHHHHHHHHHhccC-C--------------CCCCC-CCcCHHHHHHHHh
Confidence 444433 235799999999999998222 1 12221 1357899999999
Q ss_pred hcccccceeeEEe-eCCccceeEEEEEEEeccc-----eEEEEeecCCC
Q 037761 304 NTQFKGLSGEFHL-VNGQLESSVFEIVNVIGTG-----RVVGYWTSEKG 346 (753)
Q Consensus 304 ~~~f~g~~G~v~f-~~g~~~~~~y~i~~~~~~~-----~~vg~~~~~~~ 346 (753)
+++|.|.+|++.| +||+. ...|+|++|++++ ++||.|+++..
T Consensus 349 ~~~f~g~~~~v~Fd~~gd~-~~~y~I~~~~~~~~~~~~~~vg~~~~~~~ 396 (403)
T cd06361 349 NVTFEDGGNMYHFDANGDL-NLGYDVVLWKEDNGHMTVTIMAEYDPQND 396 (403)
T ss_pred eeEEecCCceEEECCCCCC-CcceEEEEeEecCCcEEEEEEEEEeCCCC
Confidence 9999999999999 89997 6789999999633 89999988764
No 8
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=100.00 E-value=4.1e-39 Score=351.65 Aligned_cols=320 Identities=21% Similarity=0.310 Sum_probs=267.9
Q ss_pred cCCCChHHHHHHHHHHHh------------------------cCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCC
Q 037761 7 LKQFKDCGKLILAVDLLK------------------------KFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSP 62 (753)
Q Consensus 7 ~d~~~~~~a~~~a~~Li~------------------------~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~ 62 (753)
.+++++..|+..+.+++. .++|.|||||.+|+++.+++++++.++||+|+++++++
T Consensus 61 Dtc~~~~~a~~~~~~~i~~~~~~~~~~~~~C~~~~~~~~~~~~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~sts~ 140 (458)
T cd06375 61 DTCSRDTYALEQSLEFVRASLTKVDTSEYECPDGSYAVQENSPLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYASTSA 140 (458)
T ss_pred ecCCCcHHHHHHHHHHHhhhhhcccccccccccCCccccccCCCCeEEEEcCCCchHHHHHHHHhhhccccceeeccCCh
Confidence 378899999999999983 24799999999999999999999999999999999999
Q ss_pred CCCC-CCCCceEEEecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhH
Q 037761 63 ALSP-TEHPFFIRVTQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQI 141 (753)
Q Consensus 63 ~l~~-~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~ 141 (753)
.|++ ..|||+||+.|++..++.+++++++++||+||++|+.+++||....+.+.+.+++.|+||+..+.++...++.|+
T Consensus 141 ~Ls~~~~~~~ffRt~psd~~qa~ai~~ll~~~~W~~Vaii~~~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~ 220 (458)
T cd06375 141 KLSDKSRYDYFARTVPPDFYQAKAMAEILRFFNWTYVSTVASEGDYGETGIEAFEQEARLRNICIATSEKVGRSADRKSY 220 (458)
T ss_pred hhcccccCCCeEEecCCcHHHHHHHHHHHHHCCCeEEEEEEeCchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCCHHHH
Confidence 9997 679999999999999999999999999999999999999999999999999999999999999888765567899
Q ss_pred HHHHHHHhc-CCccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChh
Q 037761 142 SKELSKLST-MQTRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKE 220 (753)
Q Consensus 142 ~~~l~~l~~-~~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~ 220 (753)
..+++++++ .++|||++++...++..++++|+++|+. ++||++++|....... ....+..+|++++.+.....+.
T Consensus 221 ~~~l~~l~~~~~a~vVvl~~~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~~~-~~~~~~~~G~i~~~~~~~~i~~ 296 (458)
T cd06375 221 DSVIRKLLQKPNARVVVLFTRSEDARELLAAAKRLNAS---FTWVASDGWGAQESIV-KGSEDVAEGAITIELASHPIPD 296 (458)
T ss_pred HHHHHHHhccCCCEEEEEecChHHHHHHHHHHHHcCCc---EEEEEeccccccchhh-hccchhhceEEEEEeccccchh
Confidence 999999875 7999999999999999999999999973 8999999997432221 2244678899999998888888
Q ss_pred hhHHH---------------HHHHHhhCCCCCCC------Cc----------cccchhHHHHHHHHHHHHHHHHHhcC--
Q 037761 221 LGLFD---------------RRWKSKLHSMKPNS------SV----------TEINISGLWAYDTIFALAKAVEKILS-- 267 (753)
Q Consensus 221 ~~~F~---------------~~~~~~~~~~~~~~------~~----------~~~~~~~~~~ydAv~~~a~Al~~~~~-- 267 (753)
+++|+ +.|++.|+|..+.. +. ......+.+.|||||++|+|||+++.
T Consensus 297 f~~yl~~l~p~~~~~n~w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~ 376 (458)
T cd06375 297 FDRYFQSLTPETNTRNPWFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDL 376 (458)
T ss_pred HHHHHHhCCcCcCCCCcHHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhc
Confidence 88765 44888898865321 10 01245688999999999999999973
Q ss_pred CCCCCCCCCCCCCCCCCccCCCccccchHHHH-HHHHhcccc-----ccee-eEEe-eCCccceeEEEEEEEec--c--c
Q 037761 268 PINPSIVNPSNPSESTTDFGSLGFSRIGHILC-NQILNTQFK-----GLSG-EFHL-VNGQLESSVFEIVNVIG--T--G 335 (753)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~l~~~~f~-----g~~G-~v~f-~~g~~~~~~y~i~~~~~--~--~ 335 (753)
+... ...|..+ ...++++|. +.|++++|. |.+| .|.| +||+. ...|+|+||+. + .
T Consensus 377 c~~~-----------~~~c~~~-~~~~~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~ 443 (458)
T cd06375 377 CPNT-----------TKLCDAM-KPLDGKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGDG-LGRYNIFNYQRTGNSYG 443 (458)
T ss_pred CCCC-----------CCCCCCC-CCCCHHHHHHHHHHhccccccccCCCCCCeeEECCCCCC-CcceEEEEEEEcCCCCc
Confidence 2211 1224332 235778999 599999999 8887 5999 89998 67999999993 2 2
Q ss_pred ---eEEEEeec
Q 037761 336 ---RVVGYWTS 343 (753)
Q Consensus 336 ---~~vg~~~~ 343 (753)
++||.|+.
T Consensus 444 ~~~~~VG~w~~ 454 (458)
T cd06375 444 YRYVGVGAWAN 454 (458)
T ss_pred EEEEEEEEEec
Confidence 79999964
No 9
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=100.00 E-value=5.9e-39 Score=353.50 Aligned_cols=327 Identities=23% Similarity=0.340 Sum_probs=270.2
Q ss_pred CCCChHHHHHHHHHHHhc----------------------CCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCC
Q 037761 8 KQFKDCGKLILAVDLLKK----------------------FQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALS 65 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~----------------------~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~ 65 (753)
++++|..|+..+.+++.+ ++|.|||||.+|+++.++++++..+++|+|+++++++.++
T Consensus 62 ~~~~~~~a~~~a~~li~~~~~~~~~~~~~~~~~~~~~~~~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~~ls 141 (452)
T cd06362 62 TCSRDTYALEQSLEFVRASLTKIDDCVYCDGGSPPPNNSPKPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSPELS 141 (452)
T ss_pred eCCCchHHHHHHHHHHhhhhhcCCccccccCCCcccccCCCCeEEEECCCCCchHHHHHHHhccccCcccccccCchhhc
Confidence 778899999999999965 6999999999999999999999999999999999999998
Q ss_pred C-CCCCceEEEecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHH
Q 037761 66 P-TEHPFFIRVTQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKE 144 (753)
Q Consensus 66 ~-~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~ 144 (753)
+ ..|||+||+.|++..++.++++++++++|++|++|+++++||.+..+.+.+.+++.|+||+..+.++...++.|++++
T Consensus 142 ~~~~~~~~fR~~p~d~~~~~a~~~~l~~~~w~~vaii~~~~~~G~~~~~~~~~~~~~~gi~i~~~~~~~~~~~~~d~~~~ 221 (452)
T cd06362 142 DKTRYDYFSRTVPPDSFQAQAMVDIVKAFNWTYVSTVASEGNYGEKGIEAFEKLAAERGICIAGSEKIPSSATEEEFDNI 221 (452)
T ss_pred cccccCCEEEecCChHHHHHHHHHHHHHCCCcEEEEEEeCCHHHHHHHHHHHHHHHHCCeeEEEEEEcCCCCCHHHHHHH
Confidence 6 689999999999999999999999999999999999999999999999999999999999998888765567899999
Q ss_pred HHHHhc-CCccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhH
Q 037761 145 LSKLST-MQTRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGL 223 (753)
Q Consensus 145 l~~l~~-~~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~ 223 (753)
+++|++ .++|+|++++...++..++++|+++|+. .+++||+++.|....... ....+..+|++++..+....+.+++
T Consensus 222 l~~l~~~~~a~viil~~~~~~~~~~~~~a~~~g~~-~~~~~i~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~i~~f~~ 299 (452)
T cd06362 222 IRKLLSKPNARVVVLFCREDDIRGLLAAAKRLNAE-GHFQWIASDGWGARNSVV-EGLEDVAEGAITIELQSAEVPGFDE 299 (452)
T ss_pred HHHHhhcCCCeEEEEEcChHHHHHHHHHHHHcCCc-CceEEEEeccccccchhh-cccccccceEEEEEecccccccHHH
Confidence 999987 5899999999999999999999999986 568999999887542221 2345678899998887777666655
Q ss_pred H---------------HHHHHHhhCCCCCCCCc----------------cccchhHHHHHHHHHHHHHHHHHhcCCCCCC
Q 037761 224 F---------------DRRWKSKLHSMKPNSSV----------------TEINISGLWAYDTIFALAKAVEKILSPINPS 272 (753)
Q Consensus 224 F---------------~~~~~~~~~~~~~~~~~----------------~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~ 272 (753)
| .+.|+..+.|..+.... ...+.+++++|||||++|+|||+++.+.-..
T Consensus 300 ~l~~l~~~~~~~~~~~~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~ 379 (452)
T cd06362 300 YFLSLTPENNSRNPWFREFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPG 379 (452)
T ss_pred HhhhCCcCcCCCChHHHHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCC
Confidence 3 34466667764321110 1234578999999999999999996432100
Q ss_pred CCCCCCCCCCCCccCCCccccchHHHHHHHHhccccccee-eEEe-eCCccceeEEEEEEEecc----c-eEEEEeecCC
Q 037761 273 IVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSG-EFHL-VNGQLESSVFEIVNVIGT----G-RVVGYWTSEK 345 (753)
Q Consensus 273 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G-~v~f-~~g~~~~~~y~i~~~~~~----~-~~vg~~~~~~ 345 (753)
. ...|+.. .+.+|++|.+.|++++|.|++| .|.| ++|++ ...|+|++++.+ + ++||+|++..
T Consensus 380 ~---------~~~c~~~-~~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~-~~~y~I~~~~~~~~~~~~~~VG~w~~~~ 448 (452)
T cd06362 380 T---------TGLCDAM-KPIDGRKLLFYLRNVSFSGLAGGPVRFDANGDG-PGRYDIFNYQRTNGKYDYVKVGSWKGEL 448 (452)
T ss_pred C---------CCCCcCc-cCCCHHHHHHHHHhCCcCCCCCceEEECCCCCC-CCceEEEEEEEcCCceEEEEEEEEeccc
Confidence 0 1123322 2567899999999999999997 7999 89998 569999999842 2 9999998776
Q ss_pred Cc
Q 037761 346 GL 347 (753)
Q Consensus 346 ~~ 347 (753)
++
T Consensus 449 ~~ 450 (452)
T cd06362 449 SL 450 (452)
T ss_pred cc
Confidence 54
No 10
>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=2e-38 Score=349.54 Aligned_cols=323 Identities=20% Similarity=0.331 Sum_probs=265.3
Q ss_pred CCCChHHHHHHHHHHHhc-------------------------CCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCC
Q 037761 8 KQFKDCGKLILAVDLLKK-------------------------FQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSP 62 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~-------------------------~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~ 62 (753)
+++++..|+..+.+++.+ ++|.|||||.+|+++.++++++..+++|+|+++++++
T Consensus 73 tc~~~~~a~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~ 152 (472)
T cd06374 73 SCWHSSVALEQSIEFIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSI 152 (472)
T ss_pred cCCCchHHHHHHHHHHhhcccccccccccccccCCCcccccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccCch
Confidence 667999999999999963 4899999999999999999999999999999999999
Q ss_pred CCCC-CCCCceEEEecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhH
Q 037761 63 ALSP-TEHPFFIRVTQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQI 141 (753)
Q Consensus 63 ~l~~-~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~ 141 (753)
.+++ ..|||+||+.|++..++.++++++++++|++|++|+++++||....+.+.+.+++.|+||+..+.++...+..|+
T Consensus 153 ~ls~~~~~p~~fRt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~ 232 (472)
T cd06374 153 DLSDKTLFKYFLRVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYGESGMEAFKELAAHEGLCIAHSDKIYSNAGEQSF 232 (472)
T ss_pred hhcccccCCceEEcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCchHHH
Confidence 9997 589999999999999999999999999999999999999999999999999999999999998888654557899
Q ss_pred HHHHHHHhcCC--ccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCCh
Q 037761 142 SKELSKLSTMQ--TRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSK 219 (753)
Q Consensus 142 ~~~l~~l~~~~--~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~ 219 (753)
+.++.+|++.+ ++||++++...+++.++++|+++|+. .+++||++++|....... ....+..+|++++....+..+
T Consensus 233 ~~~l~~lk~~~~da~vvv~~~~~~~~~~~l~~a~~~g~~-~~~~wi~s~~~~~~~~~~-~~~~~~~~G~l~~~~~~~~~~ 310 (472)
T cd06374 233 DRLLRKLRSRLPKARVVVCFCEGMTVRGLLMAMRRLGVG-GEFQLIGSDGWADRDDVV-EGYEEEAEGGITIKLQSPEVP 310 (472)
T ss_pred HHHHHHHHhcCCCcEEEEEEechHHHHHHHHHHHHhcCC-CceEEEEecccccchHhh-hcchhhhheeEEEEecCCCCc
Confidence 99999999754 55677777788899999999999985 568999999987532222 234567899999999888888
Q ss_pred hhhHH---------------HHHHHHhhCCCCCCC----------Cc--------cccchhHHHHHHHHHHHHHHHHHhc
Q 037761 220 ELGLF---------------DRRWKSKLHSMKPNS----------SV--------TEINISGLWAYDTIFALAKAVEKIL 266 (753)
Q Consensus 220 ~~~~F---------------~~~~~~~~~~~~~~~----------~~--------~~~~~~~~~~ydAv~~~a~Al~~~~ 266 (753)
.+++| .+.|++.|.|..+.. +. ...+.+++++|||||++|+|||+++
T Consensus 311 ~F~~~l~~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~ 390 (472)
T cd06374 311 SFDDYYLKLRPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMH 390 (472)
T ss_pred cHHHHHHhCCcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHH
Confidence 88775 456888888864211 00 0112456699999999999999996
Q ss_pred CCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhccccccee-eEEe-eCCccceeEEEEEEEec--c---c-eEE
Q 037761 267 SPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSG-EFHL-VNGQLESSVFEIVNVIG--T---G-RVV 338 (753)
Q Consensus 267 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G-~v~f-~~g~~~~~~y~i~~~~~--~---~-~~v 338 (753)
.+.-. . . ...|+.. ...+|+.|.++|++++|.|++| .|.| .+|++ ...|+|+||+. + + ++|
T Consensus 391 ~~~~~-~-~-------~~~c~~~-~~~~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~-~~~ydI~n~~~~~~~~~~~~~V 459 (472)
T cd06374 391 QDLCP-G-H-------VGLCDAM-KPIDGRKLLEYLLKTSFSGVSGEEVYFDENGDS-PGRYDIMNLQYTEDLRFDYINV 459 (472)
T ss_pred HhhCC-C-C-------CCCCcCC-CCCCHHHHHHHHHhCcccCCCCCeEEEcCCCCC-CCceEEEEEEECCCCCEEEEEE
Confidence 43210 0 0 1123322 2367899999999999999999 6999 89998 56899999994 2 2 899
Q ss_pred EEeec
Q 037761 339 GYWTS 343 (753)
Q Consensus 339 g~~~~ 343 (753)
|+|++
T Consensus 460 G~w~~ 464 (472)
T cd06374 460 GSWHE 464 (472)
T ss_pred EEEeC
Confidence 99974
No 11
>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=2.2e-38 Score=338.76 Aligned_cols=312 Identities=20% Similarity=0.319 Sum_probs=261.6
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCc---HHHHHHhhccCCccEEeecCCCCCC-CC-CCCCceEEEe
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAA---APFLVELGEKAQVPIISFFETSPAL-SP-TEHPFFIRVT 76 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~---~~av~~i~~~~~vP~is~~a~~~~l-~~-~~~~~~fr~~ 76 (753)
+++.. |++||.+++.++|+++.+++|.+|+||.+|+. +.+++++++.++||+|+++++++.+ ++ ..|||+||+.
T Consensus 38 ~l~~~d~~~d~~~~~~~~~~~l~~~~v~~iig~~~s~~~~~~~~~~~v~~~~~iP~Is~~~~~~~~~s~~~~~~~~~R~~ 117 (362)
T cd06367 38 EAVAVSNDTDPISLLLSVCDLLVVQVVAGVVFSDPTDEEAVAQILDFTSAQTRIPVVGISGRESIFMSDKNIHSLFLQTG 117 (362)
T ss_pred EEEEEecCCCHHHHHHHHHHHhcccceEEEEecCCCCccchhhhhhhhhhhhcCcEEEeeccccccccCCCcccceEeec
Confidence 45555 88999999999999998889999999999998 9999999999999999999999988 76 6899999999
Q ss_pred cCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeE--EEEeeccCCCCchhhHHHHHHHHhcCCcc
Q 037761 77 QNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIR--ISHMSKIPTSAEDFQISKELSKLSTMQTR 154 (753)
Q Consensus 77 p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~--v~~~~~~~~~~~~~d~~~~l~~l~~~~~~ 154 (753)
|++..+++++++++++++|++|++||++++||++..+.+++.+++.|+| ++....++.. ...++...+.++++.++|
T Consensus 118 p~~~~~~~ai~~ll~~~~w~~vaii~~~~~~g~~~~~~l~~~l~~~g~~~~i~~~~~~~~~-~~~~~~~~l~~l~~~~~~ 196 (362)
T cd06367 118 PSLEQQADVMLEILEEYDWHQFSVVTSRDPGYRDFLDRVETTLEESFVGWEFQLVLTLDLS-DDDGDARLLRQLKKLESR 196 (362)
T ss_pred CcHHHHHHHHHHHHHHcCCeEEEEEEEcCcccHHHHHHHHHHHHhcccceeeeeeEEeccC-CCcchHHHHHHHHhcCCc
Confidence 9999999999999999999999999999999999999999999999999 7766666543 223889999999999999
Q ss_pred EEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCC
Q 037761 155 VFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHS 234 (753)
Q Consensus 155 vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~ 234 (753)
+|+++|+.+++..++++|+++||..++++||+++.+..... ...+...|++++.....
T Consensus 197 vivl~~~~~~~~~il~~a~~~g~~~~~~~wI~~~~~~~~~~----~~~~~~~G~~g~~~~~~------------------ 254 (362)
T cd06367 197 VILLYCSKEEAERIFEAAASLGLTGPGYVWIVGELALGSGL----APEGLPVGLLGVGLDTW------------------ 254 (362)
T ss_pred EEEEeCCHHHHHHHHHHHHHcCCCCCCcEEEECcccccccC----CccCCCCeeEEEEeccc------------------
Confidence 99999999999999999999999888899999999874211 12345678999876421
Q ss_pred CCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCcc--ccchHHHHHHHHhccccccee
Q 037761 235 MKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGF--SRIGHILCNQILNTQFKGLSG 312 (753)
Q Consensus 235 ~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~l~~~~f~g~~G 312 (753)
..+++++||||+++|+|+++++.+... .... ..+|..... |.+|..|.+.|++++|.|.+|
T Consensus 255 ----------~~~~~~~~Dav~~~a~Al~~~~~~~~~-~~~~------~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg 317 (362)
T cd06367 255 ----------YSLEARVRDAVAIVARAAESLLRDKGA-LPEP------PVNCYDTANKRESSGQYLARFLMNVTFDGETG 317 (362)
T ss_pred ----------ccHHHHHHHHHHHHHHHHHHHHHhcCC-CCCC------CCCcCCCCCCCCCchHHHHHHHhcccccCCCC
Confidence 235788999999999999998643211 1111 223433322 688899999999999999999
Q ss_pred eEEe-eCCccceeEEEEEEEe-ccc-eEEEEeecCCCcccccccCccCCCCceecC
Q 037761 313 EFHL-VNGQLESSVFEIVNVI-GTG-RVVGYWTSEKGLTQTLDLTSKNDLKQIIWP 365 (753)
Q Consensus 313 ~v~f-~~g~~~~~~y~i~~~~-~~~-~~vg~~~~~~~~~~~~~~~~~~~~~~i~w~ 365 (753)
+|.| +||++....|+|++++ +.+ ++||.|++ ..+ +.+.|.||
T Consensus 318 ~v~F~~~G~~~~~~~~I~~l~~~~~~~~VG~W~~-~~~----------~~~~i~w~ 362 (362)
T cd06367 318 DVSFNEDGYLSNPKLVIINLRRNRKWERVGSWEN-GKL----------VMRYIVWP 362 (362)
T ss_pred ceeECCCcccccceEEEEEecCCCcceEEEEEcC-Cce----------ecCcCCCC
Confidence 9999 9999977899999999 556 99999974 111 46778897
No 12
>cd06376 PBP1_mGluR_groupIII Ligand-binding domain of the group III metabotropic glutamate receptor. Ligand-binding domain of the group III metabotropic glutamate receptor, a family which contains mGlu4R, mGluR6R, mGluR7, and mGluR8; all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=4.1e-38 Score=346.45 Aligned_cols=319 Identities=20% Similarity=0.329 Sum_probs=259.2
Q ss_pred hHHHHHHHHHHHhc------------------CCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCce
Q 037761 12 DCGKLILAVDLLKK------------------FQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFF 72 (753)
Q Consensus 12 ~~~a~~~a~~Li~~------------------~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~ 72 (753)
+.+|+..+++|+++ ++|.|||||.+|+++.+++++++.++||+|+++++++.+++ ..||||
T Consensus 70 ~~~a~~~~~~l~~~~~~~~~C~~~~~~~~~~~~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~ats~~ls~~~~~~~f 149 (463)
T cd06376 70 LEQSLTFVQALIQKDTSDVRCTNGEPPVFVKPEKVVGVIGASASSVSIMVANILRLFQIPQISYASTAPELSDDRRYDFF 149 (463)
T ss_pred HHHHHHHHhhhhhcccccCcCCCCCccccCCCCCeEEEECCCCchHHHHHHHHhccccCcccccccCChhhcccccCCce
Confidence 35677777777754 58999999999999999999999999999999999999986 679999
Q ss_pred EEEecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhC-CeEEEEeeccCCCCchhhHHHHHHHHhc-
Q 037761 73 IRVTQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQEN-DIRISHMSKIPTSAEDFQISKELSKLST- 150 (753)
Q Consensus 73 fr~~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~- 150 (753)
||+.|++..++.++++++++++|++|++|+.+++||....+.+.+.+++. |+||+..+.++...++.|++.++++|++
T Consensus 150 fR~~p~d~~~~~ai~~~i~~~~w~~Vaii~~~~~yg~~~~~~~~~~~~~~g~~~v~~~~~i~~~~~~~d~~~~l~~ik~~ 229 (463)
T cd06376 150 SRVVPPDSFQAQAMVDIVKALGWNYVSTLASEGNYGESGVEAFTQISREAGGVCIAQSIKIPREPRPGEFDKIIKRLLET 229 (463)
T ss_pred EEccCCHHHHHHHHHHHHHHcCCeEEEEEEeCChHHHHHHHHHHHHHHHcCCceEEEEEecCCCCCHHHHHHHHHHHhcc
Confidence 99999999999999999999999999999999999999999999999987 4688776666555567899999999986
Q ss_pred CCccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHH-----
Q 037761 151 MQTRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFD----- 225 (753)
Q Consensus 151 ~~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~----- 225 (753)
.++|+|+++++..++..++++|+++|+.. +++||++++|........ ...+...|++++.......+.+++|.
T Consensus 230 ~~~~vIvl~~~~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~~-~~~~~~~G~~~~~~~~~~~~~F~~~~~~l~~ 307 (463)
T cd06376 230 PNARAVIIFANEDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPIL-QQEDVAEGAITILPKRASIEGFDAYFTSRTL 307 (463)
T ss_pred CCCeEEEEecChHHHHHHHHHHHhcCCcC-ceEEEEeccccccccccc-cCcceeeeEEEEEeccccchhHHHHHHhCCc
Confidence 79999999999999999999999999853 599999999875433222 12356789999988877777777655
Q ss_pred ----------HHHHHhhCCCCCC--C--------Cc--c--------ccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCC
Q 037761 226 ----------RRWKSKLHSMKPN--S--------SV--T--------EINISGLWAYDTIFALAKAVEKILSPINPSIVN 275 (753)
Q Consensus 226 ----------~~~~~~~~~~~~~--~--------~~--~--------~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~ 275 (753)
+.|++.|+|..+. . +. . .....+.++|||||++|+|||+++.+.- ..
T Consensus 308 ~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c---~~ 384 (463)
T cd06376 308 ENNRRNVWFAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLC---PG 384 (463)
T ss_pred ccCCCCcHHHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhC---CC
Confidence 4688888886431 0 00 0 1123678999999999999999963210 00
Q ss_pred CCCCCCCCCccCCCccccchHHHHHHHHhccccccee-eEEe-eCCccceeEEEEEEEec--c---c-eEEEEeec
Q 037761 276 PSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSG-EFHL-VNGQLESSVFEIVNVIG--T---G-RVVGYWTS 343 (753)
Q Consensus 276 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G-~v~f-~~g~~~~~~y~i~~~~~--~---~-~~vg~~~~ 343 (753)
....|... .+.+|++|.+.|++++|.|.+| .|.| ++|++ ...|+|.+++. . + ++||.|++
T Consensus 385 ------~~~~C~~~-~~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~-~~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 385 ------YTGVCPEM-EPADGKKLLKYIRAVNFNGSAGTPVMFNENGDA-PGRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred ------CCCCCccC-CCCCHHHHHHHHHhCCccCCCCCeEEeCCCCCC-CCceEEEEEEecCCCceeEEEEEEECC
Confidence 01234332 3577899999999999999999 6999 89998 56899999993 2 2 89999975
No 13
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=100.00 E-value=3.9e-37 Score=330.67 Aligned_cols=303 Identities=19% Similarity=0.326 Sum_probs=249.6
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEc-CC-CCC---cHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIG-PQ-IPA---AAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSL 81 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG-~~-~s~---~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~ 81 (753)
|+.++..|..++++|+++ +|.|||| +. +|. .+.+++.+++.++||+|+++++++.+++ ..|||+||+.|++..
T Consensus 62 ~~~~~~~a~~~~~~Li~~-~V~aii~~~~~ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~ 140 (377)
T cd06379 62 DPNPIQTALSVCEQLISN-QVYAVIVSHPPTSNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSH 140 (377)
T ss_pred cCChhhHHHHHHHHHhhc-ceEEEEEeCCCCCcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHH
Confidence 655556666777788875 9999974 43 333 4677888999999999999999998886 469999999999999
Q ss_pred HHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCe----EEEEeeccCCCCchhhHHHHHHHHhcCCccEEE
Q 037761 82 QVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDI----RISHMSKIPTSAEDFQISKELSKLSTMQTRVFI 157 (753)
Q Consensus 82 ~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~----~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi 157 (753)
++.++++++++++|++|++|+++++||.+..+.+++.+++.|+ +++..+.++.+ +.|++..++++++.++|+|+
T Consensus 141 ~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~~~~~v~~~~~~~~~--~~d~~~~l~~ik~~~~~vIv 218 (377)
T cd06379 141 QADVWLEMLRSFKWNKVILLVSDDHEGRAAQKRFETLLEEREIEFKIKVEKVVEFEPG--EKNVTSLLQEAKELTSRVIL 218 (377)
T ss_pred HHHHHHHHHHHcCCeEEEEEEEcCcchhHHHHHHHHHHHhcCCccceeeeEEEecCCc--hhhHHHHHHHHhhcCCeEEE
Confidence 9999999999999999999999999999999999999999999 88888888644 67999999999999999999
Q ss_pred EEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCC
Q 037761 158 VHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKP 237 (753)
Q Consensus 158 ~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~ 237 (753)
++++.+++..++++|+++||...+++||.++.+... .+...|++++....+
T Consensus 219 l~~~~~~~~~l~~qa~~~g~~~~~~~wi~t~~~~~~--------~~~~~g~~g~~~~~~--------------------- 269 (377)
T cd06379 219 LSASEDDAAVIYRNAGMLNMTGEGYVWIVSEQAGAA--------RNAPDGVLGLQLING--------------------- 269 (377)
T ss_pred EEcCHHHHHHHHHHHHHcCCCCCCEEEEEecccccc--------ccCCCceEEEEECCC---------------------
Confidence 999999999999999999998888999999987432 134578888876432
Q ss_pred CCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCC-ccccchHHHHHHHHhcccccceeeEEe
Q 037761 238 NSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSL-GFSRIGHILCNQILNTQFKGLSGEFHL 316 (753)
Q Consensus 238 ~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~l~~~~f~g~~G~v~f 316 (753)
..+++++||||+++|+|+++++.+...+.. ..+|... ..|.+|..|.+.|++++|.|++|++.|
T Consensus 270 -------~~~~~~~yDAV~~~A~Al~~~~~~~~~~~~--------~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~F 334 (377)
T cd06379 270 -------KNESSHIRDAVAVLASAIQELFEKENITEP--------PRECVGNTVIWETGPLFKRALMSSKYPGETGRVEF 334 (377)
T ss_pred -------CCHHHHHHHHHHHHHHHHHHHHcCCCCCCC--------CccccCCCCCCcchHHHHHHHHhCCcCCccCceEE
Confidence 124678999999999999998542221111 1223322 257889999999999999999999999
Q ss_pred -eCCccceeEEEEEEEeccc-eEEEEeecCCCcccccccCccCCCCceecCC
Q 037761 317 -VNGQLESSVFEIVNVIGTG-RVVGYWTSEKGLTQTLDLTSKNDLKQIIWPG 366 (753)
Q Consensus 317 -~~g~~~~~~y~i~~~~~~~-~~vg~~~~~~~~~~~~~~~~~~~~~~i~w~~ 366 (753)
+||++....|+|+++++.+ ++||.|++. .+.+ +.+.|.|++
T Consensus 335 d~~Gd~~~~~~~I~~~~~~~~~~VG~w~~~-----~l~~----~~~~i~W~~ 377 (377)
T cd06379 335 NDDGDRKFANYDIMNIQNRKLVQVGLYNGD-----ILRL----NDRSIIWPG 377 (377)
T ss_pred CCCCCccCccEEEEEecCCCceEeeEEcCc-----EEEe----cCceeeCCC
Confidence 9999976899999999888 999999864 2222 467899974
No 14
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=8e-37 Score=322.18 Aligned_cols=322 Identities=16% Similarity=0.257 Sum_probs=269.7
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
+..|.-++.+++|+++++ +|.||+||.++.++..++.+++..+||+|+++. +.. ...+|+.++.|+ +++|++
T Consensus 38 ~~~dsf~~~~~~C~~~~~-gV~AI~Gp~s~~~a~~v~sic~~~~vP~i~~~~--~~~--~~~~~~i~~~P~---~~~Ai~ 109 (364)
T cd06390 38 NISDSFEMTYTFCSQFSK-GVYAIFGFYDRKTVNMLTSFCGALHVCFITPSF--PVD--TSNQFVLQLRPE---LQDALI 109 (364)
T ss_pred ccccHHHHHHHHHHHhhc-CceEEEccCChhHHHHHHHhhcCCCCCceecCC--CCC--CCCceEEEeChh---HHHHHH
Confidence 778999999999999998 999999999999999999999999999999754 322 233568999998 899999
Q ss_pred HHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHH
Q 037761 88 AVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASR 167 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~ 167 (753)
+++++|||++|++||+ ++||....+.+.+.+++.|++|.....++. ++.+++..|.++++.++++||+.|+.+.+..
T Consensus 110 diI~~~~W~~v~iIYd-~d~g~~~lq~l~~~~~~~~~~I~~~~~~~~--~~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~ 186 (364)
T cd06390 110 SVIEHYKWQKFVYIYD-ADRGLSVLQKVLDTAAEKNWQVTAVNILTT--TEEGYRKLFQDLDKKKERLIVVDCESERLNA 186 (364)
T ss_pred HHHHHcCCcEEEEEEe-CCccHHHHHHHHHhhhccCceeeEEEeecC--ChHHHHHHHHhccccCCeEEEEECCHHHHHH
Confidence 9999999999999995 459999999999999999999988776653 3569999999999999999999999999999
Q ss_pred HHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCCCccccchh
Q 037761 168 LFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNSSVTEINIS 247 (753)
Q Consensus 168 ~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~ 247 (753)
+++++.+.++...+|+||+++......+ .........|++|+....++.+..++|.++|++.....+|.....+++.+
T Consensus 187 ~L~~a~~~~~~~~gy~wI~t~l~~~~~~--~~~~~~~~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~ 264 (364)
T cd06390 187 ILNQIIKLEKNGIGYHYILANLGFMDID--LTKFRESGANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYT 264 (364)
T ss_pred HHHHHHHhhccCCceEEEecCCCccccc--HHHHhcCCcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchH
Confidence 9999988888889999999984433222 13455578899999999999999999999999877766555545567889
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC--CccccchHHHHHHHHhcccccceeeEEe-eCCcccee
Q 037761 248 GLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGS--LGFSRIGHILCNQILNTQFKGLSGEFHL-VNGQLESS 324 (753)
Q Consensus 248 ~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~g~~~~~ 324 (753)
++++||||+++|+|++++... ....... +...+|.. ..+|..|..|.+.|++++|.|+||++.| ++|++.+.
T Consensus 265 ~~l~yDaV~~~A~A~~~l~~~-~~~~~~~----~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~ 339 (364)
T cd06390 265 SALTYDGVRVMAEAFQNLRKQ-RIDISRR----GNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNY 339 (364)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCcccC----CCCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccc
Confidence 999999999999999987332 2111111 00123322 2368899999999999999999999999 89999899
Q ss_pred EEEEEEEeccc-eEEEEeecCCCc
Q 037761 325 VFEIVNVIGTG-RVVGYWTSEKGL 347 (753)
Q Consensus 325 ~y~i~~~~~~~-~~vg~~~~~~~~ 347 (753)
.|+|+++.+++ ++||+|++..++
T Consensus 340 ~~~I~~~~~~g~~~vG~W~~~~g~ 363 (364)
T cd06390 340 TLHVIEMKHDGIRKIGYWNEDEKL 363 (364)
T ss_pred eEEEEEecCCcceEEEEECCCCCc
Confidence 99999999888 999999987654
No 15
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=100.00 E-value=1e-36 Score=328.50 Aligned_cols=330 Identities=18% Similarity=0.298 Sum_probs=258.1
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
+++|+.++..++|+|+++ +|.|||||.+|+++.+++++++.++||+|+++++++.++ ..++|+||+.|+. ..+++
T Consensus 44 ~~~d~~~~~~~~c~ll~~-~V~aiiGp~~s~~~~~~~~~~~~~~iP~i~~~~~~~~l~-~~~~~~fr~~p~~---~~a~~ 118 (382)
T cd06380 44 DTSDSFALTNAICSQLSR-GVFAIFGSYDKSSVNTLTSYSDALHVPFITPSFPTNDLD-DGNQFVLQMRPSL---IQALV 118 (382)
T ss_pred cccchHHHHHHHHHHHhc-CcEEEEecCcHHHHHHHHHHHhcCCCCeEecCCCcccCC-CCCcEEEEeccch---hHHHH
Confidence 458999999999999976 999999999999999999999999999999999888774 4678999999863 45888
Q ss_pred HHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCC--eEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHH
Q 037761 88 AVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQEND--IRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALA 165 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g--~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~ 165 (753)
+++++++|++|++||++++ |....+.+.+.+++.| +.+.... +....++.|++++|.+|++.++|+|++.++.+++
T Consensus 119 ~~~~~~~wk~vaii~~~~~-~~~~~~~~~~~~~~~g~~i~v~~~~-~~~~~~~~d~~~~L~~ik~~~~~~iil~~~~~~~ 196 (382)
T cd06380 119 DLIEHYGWRKVVYLYDSDR-GLLRLQQLLDYLREKDNKWQVTARR-VDNVTDEEEFLRLLEDLDRRKEKRIVLDCESERL 196 (382)
T ss_pred HHHHhcCCeEEEEEECCCc-chHHHHHHHHHHhccCCceEEEEEE-ecCCCcHHHHHHHHHHhhcccceEEEEECCHHHH
Confidence 9999999999999997665 5566777888888888 6665432 3322235799999999999999999999999999
Q ss_pred HHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCCCccccc
Q 037761 166 SRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNSSVTEIN 245 (753)
Q Consensus 166 ~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~ 245 (753)
..+++||+++||..++++||+++........ ........++.++....+..+..++|.++|+++++...+......++
T Consensus 197 ~~i~~qa~~~gm~~~~y~~i~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 274 (382)
T cd06380 197 NKILEQIVDVGKNRKGYHYILANLGFDDIDL--SKFLFGGVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIK 274 (382)
T ss_pred HHHHHHHHHhhhcccceEEEEccCCcccccH--HHhccCceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcc
Confidence 9999999999999999999998764433221 11112223455665555567889999999999987654433334577
Q ss_pred hhHHHHHHHHHHHHHHHHHhcCCCCCCCC-C-CCCCCCCCCccC--CCccccchHHHHHHHHhcccccceeeEEe-eCCc
Q 037761 246 ISGLWAYDTIFALAKAVEKILSPINPSIV-N-PSNPSESTTDFG--SLGFSRIGHILCNQILNTQFKGLSGEFHL-VNGQ 320 (753)
Q Consensus 246 ~~~~~~ydAv~~~a~Al~~~~~~~~~~~~-~-~~~~~~~~~~~~--~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~g~ 320 (753)
.+++++||||+++++|++++. ....... + .....+....|. +...|.+|.+|.++|++++|+|++|+++| ++|+
T Consensus 275 ~~aa~aYDav~~~a~Al~~~~-~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~ 353 (382)
T cd06380 275 YTAALAHDAVLVMAEAFRSLR-RQRGSGRHRIDISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQ 353 (382)
T ss_pred hHHHHHHHHHHHHHHHHHHHH-HhccccccccccccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCC
Confidence 899999999999999999983 2211000 0 000000122232 23468899999999999999999999999 8999
Q ss_pred cceeEEEEEEEeccc-eEEEEeecCCCc
Q 037761 321 LESSVFEIVNVIGTG-RVVGYWTSEKGL 347 (753)
Q Consensus 321 ~~~~~y~i~~~~~~~-~~vg~~~~~~~~ 347 (753)
+....+.|+++++++ ++||.|++..++
T Consensus 354 ~~~~~~~i~~~~~~~~~~vg~w~~~~g~ 381 (382)
T cd06380 354 RTNYTLDVVELKTRGLRKVGYWNEDDGL 381 (382)
T ss_pred cccccEEEEEecCCCceEEEEECCCcCc
Confidence 977889999999888 999999987653
No 16
>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=7e-37 Score=331.79 Aligned_cols=319 Identities=21% Similarity=0.292 Sum_probs=261.9
Q ss_pred eeecCCCChHHHHHHHHHHHhc---------------CCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-C
Q 037761 4 LLLLKQFKDCGKLILAVDLLKK---------------FQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-T 67 (753)
Q Consensus 4 l~~~d~~~~~~a~~~a~~Li~~---------------~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~ 67 (753)
++..|.|++..|++.+.+|+.+ ++|.|||||.+|+++.+++++++.+++|+|+++++++.+++ .
T Consensus 69 ~~~~D~~~~~~a~~~~~~li~~~~~~~~~~c~~~~~~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~~~~lt~~~ 148 (410)
T cd06363 69 YEIFDHCSDSANFPPTLSLLSVNGSRIEPQCNYTNYQPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGASSEVLSNKE 148 (410)
T ss_pred eEEEecCCcHHHHHHHHHHHhccCcccCcccccccCCCCeEEEECCCccHHHHHHHHHhcccccccccccccCccccccc
Confidence 4445777788999999999965 79999999999999999999999999999999999999986 6
Q ss_pred CCCceEEEecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCC-CchhhHHHHHH
Q 037761 68 EHPFFIRVTQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTS-AEDFQISKELS 146 (753)
Q Consensus 68 ~~~~~fr~~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~~d~~~~l~ 146 (753)
.+|++||+.|++..++.++++++.+++|++|++++.+++||.+..+.+.+.+++.|++++..+.++.. .++.|+.++++
T Consensus 149 ~~~~~fr~~~~~~~~~~al~~~l~~~~~k~vaii~~~~~~g~~~~~~~~~~l~~~gi~i~~~~~~~~~~~~~~d~~~~l~ 228 (410)
T cd06363 149 LYPSFLRTVPSDKDQIEAMVQLLQEFGWNWVAFLGSDDEYGRDGLQLFSELIANTGICIAYQGLIPLDTDPETDYQQILK 228 (410)
T ss_pred cCCCeeEecCCcHHHHHHHHHHHHHCCCcEEEEEEeCChhHHHHHHHHHHHHHHCCeEEEEEEEecCCCchHHHHHHHHH
Confidence 78999999999999999999999999999999999999999999999999999999999998887642 24679999999
Q ss_pred HHhcCCccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHH
Q 037761 147 KLSTMQTRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDR 226 (753)
Q Consensus 147 ~l~~~~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~ 226 (753)
+|++++||+|++++.++++..++++|+++|+. +.+|++++.|............+...+++++....+..+.+++|.+
T Consensus 229 ~i~~~~~dvIil~~~~~~~~~il~qa~~~g~~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~ 306 (410)
T cd06363 229 QINQTKVNVIVVFASRQPAEAFFNSVIQQNLT--GKVWIASEAWSLNDELPSLPGIRNIGTVLGVAQQTVTIPGFSDFIY 306 (410)
T ss_pred HHhcCCCeEEEEEcChHHHHHHHHHHHhcCCC--CCEEEEeCcccccccccCCccceeeccEEEEEeCCCCCccHHHHHH
Confidence 99999999999999999999999999999984 4589998876543222111122344567777666667788888876
Q ss_pred HHHHhhCCCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcc
Q 037761 227 RWKSKLHSMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQ 306 (753)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~ 306 (753)
. +++.+||||+++|+|+++++++... .|.. ....++++|.++|++++
T Consensus 307 ~-------------------~~~~~YDaV~~~a~Al~~a~~~~~~-------------~~~~-~~~~~~~~l~~~L~~~~ 353 (410)
T cd06363 307 S-------------------FAFSVYAAVYAVAHALHNVLQCGSG-------------GCPK-RVPVYPWQLLEELKKVN 353 (410)
T ss_pred H-------------------HHHHHHHHHHHHHHHHHHHhCCCCC-------------CCCC-CCCCCHHHHHHHHhccE
Confidence 6 3567999999999999999654321 1111 12356789999999999
Q ss_pred cccceeeEEe-eCCccceeEEEEEEEecc----c-eEEEEeecCCCcccccccCccCCCCceecC
Q 037761 307 FKGLSGEFHL-VNGQLESSVFEIVNVIGT----G-RVVGYWTSEKGLTQTLDLTSKNDLKQIIWP 365 (753)
Q Consensus 307 f~g~~G~v~f-~~g~~~~~~y~i~~~~~~----~-~~vg~~~~~~~~~~~~~~~~~~~~~~i~w~ 365 (753)
|+|++|++.| ++|++ ...|.|++++.+ + ++||+|++.. ..|.+ +.+.|.|+
T Consensus 354 ~~g~~g~i~fd~~G~~-~~~~~i~~~~~~~~~~~~~~vG~~~~~~---~~l~~----~~~~i~w~ 410 (410)
T cd06363 354 FTLLGQTVRFDENGDP-NFGYDIVVWWWDNSSGTFEEVGSYSFYP---IRLTI----NRSKIQWH 410 (410)
T ss_pred EecCCcEEEeCCCCCC-ccceEEEEEEEcCCceeEEEEEEEECCC---CEEEE----ehHhcccC
Confidence 9999999999 89997 557899999643 2 9999998742 23333 45678885
No 17
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=100.00 E-value=2.4e-36 Score=324.41 Aligned_cols=308 Identities=19% Similarity=0.265 Sum_probs=253.3
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC--CCCCceEEEecCcHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP--TEHPFFIRVTQNDSLQVKA 85 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~--~~~~~~fr~~p~~~~~~~a 85 (753)
++|++..+..++.+++. ++|.|||||.||.++.+++++++.++||+|+++++++.+++ ..||++||+.|++..++.+
T Consensus 49 ~~~~~~~~~~~~~~l~~-~~v~aiiGp~~s~~~~~va~ia~~~~iP~Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a 127 (387)
T cd06386 49 SDCGNEALFSLVDRSCA-RKPDLILGPVCEYAAAPVARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGET 127 (387)
T ss_pred CcCCchHHHHHHHHHHh-hCCCEEECCCCccHHHHHHHHHHhCCCcEEccccCchhhccCcccCCeeEEecCchHHHHHH
Confidence 78998888888888886 49999999999999999999999999999999999998875 4689999999999999999
Q ss_pred HHHHHHHcCCeEEEEEEeeCCcccch---HHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh
Q 037761 86 ISAVLQNFSWHEVVLMYEDTNYGAGF---ISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 86 ~~~~l~~~~w~~vail~~d~~~g~~~---~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
+++++++++|++|++||.+++||+.. .+.+.+.+++.|++|+..+.++. ++.++..+++++++.+ |+|+++++.
T Consensus 128 ~~~ll~~~~W~~vaiiy~~~~~~~~~~~~~~~l~~~~~~~gi~v~~~~~~~~--~~~d~~~~l~~ik~~~-rvii~~~~~ 204 (387)
T cd06386 128 FSALFERFHWRSALLVYEDDKQERNCYFTLEGVHHVFQEEGYHMSIYPFDET--KDLDLDEIIRAIQASE-RVVIMCAGA 204 (387)
T ss_pred HHHHHHhCCCeEEEEEEEcCCCCccceehHHHHHHHHHhcCceEEEEecCCC--CcccHHHHHHHHHhcC-cEEEEecCH
Confidence 99999999999999999999999876 89999999999999988765543 3569999999999887 999999999
Q ss_pred HHHHHHHHHHHHcCCCCCCEEEEEcCccc-ccc--------cCCC---hhHHhhcccEEEEEEeCCCChhhhHHHHHHHH
Q 037761 163 ALASRLFALVAKNGMMSKGYTWIVTACLS-NSL--------NVLD---SEVIDSMEGVLGVRSHLPKSKELGLFDRRWKS 230 (753)
Q Consensus 163 ~~~~~~~~~a~~~g~~~~~~~wi~~~~~~-~~~--------~~~~---~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~ 230 (753)
++++.++++|+++||...+|+||..+... ... +..+ ....+...|+.++ .+..|.+++|.+++++
T Consensus 205 ~~~~~ll~~A~~~gm~~~~yv~i~~d~~~~~~~~~~~w~~~~~~~~~~~~a~~~~~~v~~~---~~~~~~~~~f~~~~~~ 281 (387)
T cd06386 205 DTIRSIMLAAHRRGLTSGDYIFFNIELFNSSSYGDGSWKRGDKHDFEAKQAYSSLNTVTLL---RTVKPEFEKFSMEVKS 281 (387)
T ss_pred HHHHHHHHHHHHcCCCCCCEEEEEEecccccccCCCCCccCCCcCHHHHHHHHhheEEecc---CCCChHHHHHHHHHHH
Confidence 99999999999999999999999997653 100 1112 1122334444443 3345788999999986
Q ss_pred hhCCCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccc
Q 037761 231 KLHSMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGL 310 (753)
Q Consensus 231 ~~~~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~ 310 (753)
++...........++.+++++|||++++|+||++++... ..+.+|.+|.++|++++|+|+
T Consensus 282 ~~~~~~~~~~~~~~~~~aa~~yDav~l~A~Al~~~~~~g--------------------~~~~~g~~l~~~l~~~~f~G~ 341 (387)
T cd06386 282 SVEKAGDLNDCDYVNMFVEGFHDAILLYALALHEVLKNG--------------------YSKKDGTKITQRMWNRTFEGI 341 (387)
T ss_pred HHHhCCCCcccccchHHHHHHHHHHHHHHHHHHHHhhCC--------------------CCCCCHHHHHHHHhCCceeec
Confidence 654321111123567889999999999999999984321 024678999999999999999
Q ss_pred eeeEEe-eCCccceeEEEEEEEecc--c--eEEEEeec
Q 037761 311 SGEFHL-VNGQLESSVFEIVNVIGT--G--RVVGYWTS 343 (753)
Q Consensus 311 ~G~v~f-~~g~~~~~~y~i~~~~~~--~--~~vg~~~~ 343 (753)
+|.+.| ++|++ ...|.++.+++. + +.||.|..
T Consensus 342 tG~v~~d~~g~r-~~~~~v~~~~~~~~~~~~~~~~~~~ 378 (387)
T cd06386 342 AGQVSIDANGDR-YGDFSVIAMTDVEAGTYEVVGNYFG 378 (387)
T ss_pred cccEEECCCCCc-cccEEEEEccCCCCccEEEEeEEcc
Confidence 999999 89999 669999999853 3 89999964
No 18
>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=3e-36 Score=320.41 Aligned_cols=324 Identities=16% Similarity=0.260 Sum_probs=261.4
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
+..|.-.+.+++|+++++ ||.||+||.+|+.+.+++++|+.++||+|+++++ ++..+++.+++.|+ ...+++
T Consensus 39 ~~~dsf~~~~~~C~~~~~-GV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~----~~~~~~f~~~~~p~---~~~ai~ 110 (370)
T cd06389 39 EVANSFAVTNAFCSQFSR-GVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFP----TDGTHPFVIQMRPD---LKGALL 110 (370)
T ss_pred cccchHHHHHHHHHHhhc-CcEEEEecCCHHHHHHHHHhhccCCCCeeeecCC----CCCCCceEEEecch---hhhHHH
Confidence 778999999999999998 9999999999999999999999999999998654 23467788888888 688999
Q ss_pred HHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEee--ccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHH
Q 037761 88 AVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMS--KIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALA 165 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~--~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~ 165 (753)
+++++++|++|++||+ ++||....+.+.+.+++.|++|+..+ .+.....+.|++.+|++|++.++++|++.|+.+++
T Consensus 111 d~i~~~~wk~vailYd-sd~gl~~lq~l~~~~~~~g~~V~~~~~~~i~~~~~~~d~~~~L~~ik~~~~~~Iil~~~~~~~ 189 (370)
T cd06389 111 SLIEYYQWDKFAYLYD-SDRGLSTLQAVLDSAAEKKWQVTAINVGNINNDRKDEAYRSLFQDLENKKERRVILDCERDKV 189 (370)
T ss_pred HHHHhcCCcEEEEEec-CchHHHHHHHHHHhhccCCceEEEEEeecCCCccchHHHHHHHHHhccccceEEEEECCHHHH
Confidence 9999999999999997 66999999999999999998876443 22222335699999999999999999999999999
Q ss_pred HHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCCCccccc
Q 037761 166 SRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNSSVTEIN 245 (753)
Q Consensus 166 ~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~ 245 (753)
..+++||+++||..+.++||+++........ ........++.++....+..+..++|.++|++.....+++.....++
T Consensus 190 ~~il~qa~~~gm~~~~y~~il~~~~~~~~~l--~~~~~~~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~ 267 (370)
T cd06389 190 NDIVDQVITIGKHVKGYHYIIANLGFTDGDL--SKIQFGGANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIK 267 (370)
T ss_pred HHHHHHHHHhCccccceEEEEccCCccccch--hhhccCCcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcc
Confidence 9999999999999999999998754333222 11112234577777777788899999999997443333332234678
Q ss_pred hhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC--CCccccchHHHHHHHHhcccccceeeEEe-eCCccc
Q 037761 246 ISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFG--SLGFSRIGHILCNQILNTQFKGLSGEFHL-VNGQLE 322 (753)
Q Consensus 246 ~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~g~~~ 322 (753)
..++.+||||+++++|++++ ........+.+ ...+|. ...+|.+|..|.++|++++|+|+||+++| ++|++.
T Consensus 268 ~~aAl~yDAV~v~a~A~~~l-~~~~~~~~~~~----~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~ 342 (370)
T cd06389 268 YTSALTYDAVQVMTEAFRNL-RKQRIEISRRG----NAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRI 342 (370)
T ss_pred hHHHHHHHHHHHHHHHHHHH-HHcCCCcccCC----CCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccc
Confidence 89999999999999999998 32221111110 012332 23578899999999999999999999999 999997
Q ss_pred eeEEEEEEEeccc-eEEEEeecCCCc
Q 037761 323 SSVFEIVNVIGTG-RVVGYWTSEKGL 347 (753)
Q Consensus 323 ~~~y~i~~~~~~~-~~vg~~~~~~~~ 347 (753)
+..++|++++.++ ++||+|++..++
T Consensus 343 ~~~~~ii~l~~~g~~kvG~W~~~~~~ 368 (370)
T cd06389 343 NYTINVMELKSNGPRKIGYWSEVDKM 368 (370)
T ss_pred cceEEEEEecCCcceEEEEEcCCCCc
Confidence 7799999999888 999999988765
No 19
>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=9.8e-36 Score=315.51 Aligned_cols=321 Identities=16% Similarity=0.261 Sum_probs=255.3
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
+..|.-++.+++|+++++ +|.||+||.+|+.+.+++++++..+||+|+++.. ++.. +.||+...+. +..+++
T Consensus 45 ~~~dsf~~~~~~C~~~~~-gV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~----~~~~--~~f~i~~~p~-~~~a~~ 116 (371)
T cd06388 45 ETANSFAVTNAFCSQYSR-GVFAIFGLYDKRSVHTLTSFCSALHISLITPSFP----TEGE--SQFVLQLRPS-LRGALL 116 (371)
T ss_pred CCCChhHHHHHHHHHHhC-CceEEEecCCHHHHHHHHHHhhCCCCCeeecCcc----ccCC--CceEEEeChh-hhhHHH
Confidence 678999999999999997 9999999999999999999999999999998643 2233 3444444444 457888
Q ss_pred HHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHH
Q 037761 88 AVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASR 167 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~ 167 (753)
+++++++|++|+++|+ ++.|....+.+.+.+++.|++|+..+....+ +.|++++|++|++.++++|++.|+.+.+..
T Consensus 117 ~~i~~~~wk~vaiiYd-~~~~~~~lq~l~~~~~~~g~~v~~~~~~~~~--~~d~~~~L~~ik~~~~~~iil~~~~~~~~~ 193 (371)
T cd06388 117 SLLDHYEWNRFVFLYD-TDRGYSILQAIMEKAGQNGWQVSAICVENFN--DASYRRLLEDLDRRQEKKFVIDCEIERLQN 193 (371)
T ss_pred HHHHhcCceEEEEEec-CCccHHHHHHHHHhhHhcCCeeeeEEeccCC--cHHHHHHHHHhcccccEEEEEECCHHHHHH
Confidence 8899999999999995 4455577999999999999999876654433 569999999999999999999999999999
Q ss_pred HHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCCCccccchh
Q 037761 168 LFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNSSVTEINIS 247 (753)
Q Consensus 168 ~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~ 247 (753)
+++||+++||..++|+||+++......+. .+......++.++....+..+..++|.++|++.+...+++.. ..|+..
T Consensus 194 il~qa~~~gm~~~~y~~il~~~~~~~~~l--~~~~~g~~nitg~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~-~~~~~~ 270 (371)
T cd06388 194 ILEQIVSVGKHVKGYHYIIANLGFKDISL--ERFMHGGANVTGFQLVDFNTPMVTKLMQRWKKLDQREYPGSE-SPPKYT 270 (371)
T ss_pred HHHHHHhcCccccceEEEEccCccccccH--HHHhccCCceEEEEeecCCChhHHHHHHHHHhcCccccCCCC-CCccch
Confidence 99999999999999999998754332211 111123334778877777788899999999887765543321 257888
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc--CCCccccchHHHHHHHHhcccccceeeEEe-eCCcccee
Q 037761 248 GLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDF--GSLGFSRIGHILCNQILNTQFKGLSGEFHL-VNGQLESS 324 (753)
Q Consensus 248 ~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~g~~~~~ 324 (753)
++++||||+++++|++++ ........+.+ ...+| +...+|..|..|.++|++++|+|+||+++| ++|++.+.
T Consensus 271 aAl~YDaV~l~a~A~~~l-~~~~~~~~~~~----~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~ 345 (371)
T cd06388 271 SALTYDGVLVMAEAFRNL-RRQKIDISRRG----NAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNY 345 (371)
T ss_pred HHHHHHHHHHHHHHHHHH-HhcCCCcccCC----CCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccc
Confidence 999999999999999987 32211111100 01133 234578999999999999999999999999 89999877
Q ss_pred EEEEEEEeccc-eEEEEeecCCCc
Q 037761 325 VFEIVNVIGTG-RVVGYWTSEKGL 347 (753)
Q Consensus 325 ~y~i~~~~~~~-~~vg~~~~~~~~ 347 (753)
.++|+++..++ ++||+|++..++
T Consensus 346 ~l~Ii~l~~~g~~kvG~W~~~~g~ 369 (371)
T cd06388 346 TMDVFELKSNGPRKIGYWNDMDKL 369 (371)
T ss_pred eEEEEEccCCCceEEEEEcCCCCc
Confidence 99999999888 999999988765
No 20
>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=5.5e-36 Score=321.87 Aligned_cols=321 Identities=18% Similarity=0.294 Sum_probs=258.5
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
.+++..+...+|+++. ++|.|||||.+|+.+.+++++++.++||+|+++++++.+++.. ++++|+.|++..++.+++.
T Consensus 55 ~~d~~~~~~~~~~~l~-~~V~AiiGp~~S~~~~av~~i~~~~~iP~Is~~~t~~~lt~~~-~~~~~~~~~~~~~~~a~~~ 132 (384)
T cd06393 55 FHDSFEATKKACDQLA-LGVVAIFGPSQGSCTNAVQSICNALEVPHIQLRWKHHPLDNKD-TFYVNLYPDYASLSHAILD 132 (384)
T ss_pred cccchhHHHHhhcccc-cCcEEEECCCChHHHHHHHHHHhccCCCeEeccCCCcccCccc-eeEEEeccCHHHHHHHHHH
Confidence 3477678888888875 5999999999999999999999999999999999998888643 5778888998899999999
Q ss_pred HHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHH
Q 037761 89 VLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRL 168 (753)
Q Consensus 89 ~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~ 168 (753)
++++++|++|++||++++ |....+.+.+.+++.|++|+. +.++.+ +.|++++|++|++.++++|++.++.+++..+
T Consensus 133 ~~~~~~wk~vaily~~~~-g~~~l~~~~~~~~~~g~~v~~-~~~~~~--~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i 208 (384)
T cd06393 133 LVQYLKWRSATVVYDDST-GLIRLQELIMAPSRYNIRLKI-RQLPTD--SDDARPLLKEMKRGREFRIIFDCSHQMAAQI 208 (384)
T ss_pred HHHHcCCcEEEEEEeCch-hHHHHHHHHHhhhccCceEEE-EECCCC--chHHHHHHHHHhhcCceEEEEECCHHHHHHH
Confidence 999999999999997654 655566788888899999986 446533 6799999999999999999999999999999
Q ss_pred HHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHh-hCCCC-CCCC--cccc
Q 037761 169 FALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSK-LHSMK-PNSS--VTEI 244 (753)
Q Consensus 169 ~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~-~~~~~-~~~~--~~~~ 244 (753)
++||+++||..+.+.|+.++......+. .........+.++....++.+..++|.++|+++ ++..+ +... ...+
T Consensus 209 l~qa~~~gm~~~~~~~~~~~~~~~~~~~--~~~~~~~~~it~~~~~~~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~ 286 (384)
T cd06393 209 LKQAMAMGMMTEYYHFIFTTLDLYALDL--EPYRYSGVNLTGFRILNVDNPHVSSIVEKWSMERLQAAPKPETGLLDGVM 286 (384)
T ss_pred HHHHHHhccccCceEEEEccCccccccc--hhhhcCcceEEEEEecCCCcHHHHHHHHHHHhhhhccccccccccccccc
Confidence 9999999999999999987765433221 111112223466666777788999999999865 65421 1111 1123
Q ss_pred chhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-e-CCccc
Q 037761 245 NISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-V-NGQLE 322 (753)
Q Consensus 245 ~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~-~g~~~ 322 (753)
+.+++.+||||+++++|++++ +... . ...+|++...|.+|.+|.++|++++|+|+||.++| + +|.|.
T Consensus 287 ~~~aal~yDav~~~a~A~~~~-~~~~--~--------~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~ 355 (384)
T cd06393 287 MTDAALLYDAVHMVSVCYQRA-PQMT--V--------NSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRT 355 (384)
T ss_pred cchhHHhhhhHHHHHHHHhhh-hhcC--C--------CCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeee
Confidence 678999999999999999977 3211 0 13456666789999999999999999999999999 5 57888
Q ss_pred eeEEEEEEEeccc-eEEEEeecCCCcc
Q 037761 323 SSVFEIVNVIGTG-RVVGYWTSEKGLT 348 (753)
Q Consensus 323 ~~~y~i~~~~~~~-~~vg~~~~~~~~~ 348 (753)
+..|+|+++.+++ .+||.|++..+++
T Consensus 356 ~~~~~i~~~~~~g~~~vg~W~~~~g~~ 382 (384)
T cd06393 356 DFDLDIISLKEDGLEKVGVWNPNTGLN 382 (384)
T ss_pred eeEEEEEEecCCcceeeEEEcCCCCcC
Confidence 8999999999888 9999999988764
No 21
>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G. This group includes the ligand-binding domain of membrane guanylyl cyclase G (GC-G) which is a sperm surface receptor and might function, similar to its sea urchin counterpart, in the early signaling event that regulates the Ca2+ influx/efflux and subsequent motility response in sperm. GC-G appears to be a pseudogene in human. Furthermore, in contrast to the other orphan receptor GCs, GC-G has a broad tissue distribution in rat, including lung, intestine, kidney, and skeletal muscle.
Probab=100.00 E-value=1.3e-35 Score=320.66 Aligned_cols=313 Identities=16% Similarity=0.216 Sum_probs=250.5
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~~~~a~ 86 (753)
++|+|.+|+.++++++.+++|.|||||.||+++.+++++++.+++|+|+++++++.+++ ..||+++|+.|++..++.++
T Consensus 49 ~~~~~~~a~~~~~~l~~~~~v~aiiGp~~S~~~~av~~va~~~~iP~is~~s~s~~ls~~~~~~~~~r~~p~~~~~~~a~ 128 (391)
T cd06372 49 STCSAKESLAGFIDQVQKEHISALFGPACPEAAEVTGLLASQWNIPMFGFVGQTAKLDNRFLYDTYVKLVPPKQKIGEVL 128 (391)
T ss_pred CCCCccHHHHHHHHHHHhcCceEEECCCCCcHHHHHHHHHhccCccEEEeecCCccccccccCCceEEecCchhhHHHHH
Confidence 57999999999999999889999999999999999999999999999999999999986 67899999999999999999
Q ss_pred HHHHHHcCCeEEEEEEeeC---Ccc--cchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 87 SAVLQNFSWHEVVLMYEDT---NYG--AGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 87 ~~~l~~~~w~~vail~~d~---~~g--~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
+++++++||++|++|+.++ .|+ ....+.+.+.++ .+++++..+.++.+ +.++...+.+.+++++|+|+++++
T Consensus 129 ~~l~~~~~w~~vaii~~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~~~~~~~~~--~~d~~~~~l~~~~~~~~vii~~~~ 205 (391)
T cd06372 129 QKSLQHFGWKHIGLFGGSSRDSSWDEVDELWKAVENQLK-FHFNITATVRYSSS--NPDLLQEKLRYISSVARVIILICS 205 (391)
T ss_pred HHHHHHCCCeEEEEEEeccccchhhhHHHHHHHHHHHHh-hCEEEEEEEecCCC--ChHHHHHHHHhhhccceEEEEEcC
Confidence 9999999999999998543 344 223445555554 67899888877644 567777777777789999999999
Q ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEcC-----cccccccC-CChhHHhhcccEEEEEEeCCC-ChhhhHHHHHHHHhhCC
Q 037761 162 TALASRLFALVAKNGMMSKGYTWIVTA-----CLSNSLNV-LDSEVIDSMEGVLGVRSHLPK-SKELGLFDRRWKSKLHS 234 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~~~~~~wi~~~-----~~~~~~~~-~~~~~~~~~~g~i~~~~~~~~-~~~~~~F~~~~~~~~~~ 234 (753)
.++++.++++|+++||..++++||... .|...... ......+..+|++++...... .+..++|.++|+++++.
T Consensus 206 ~~~~~~i~~~a~~~g~~~~~y~~i~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~ 285 (391)
T cd06372 206 SEDAKAILQAAEKLGLMKGKFVFFLLQQFEDNFWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKR 285 (391)
T ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEehhhcCccccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhc
Confidence 999999999999999987789999953 23221111 112244567788877765432 35677899998888763
Q ss_pred CCCC----CCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHH---hccc
Q 037761 235 MKPN----SSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQIL---NTQF 307 (753)
Q Consensus 235 ~~~~----~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~---~~~f 307 (753)
. |. ......+.+++++||||+++|+|+++++... ..+.+|..|.+.|+ +++|
T Consensus 286 ~-p~~~~~~~~~~~~~~a~~~yDav~~~A~Al~~~~~~g--------------------~~~~~g~~l~~~l~~~~~~~f 344 (391)
T cd06372 286 P-PFQSSLSSEEQVSPYSAYLHDAVLLYALAVKEMLKAG--------------------KDFRNGRQLVSTLRGANQVEL 344 (391)
T ss_pred C-CccccccccccchHHHHHHHHHHHHHHHHHHHHHhcC--------------------CCCCCHHHHHHHHhhccCceE
Confidence 2 21 1112457889999999999999999984321 12356789999999 6899
Q ss_pred ccceeeEEe-eCCccceeEEEEEEEec--c-c--eEEEEeecCC
Q 037761 308 KGLSGEFHL-VNGQLESSVFEIVNVIG--T-G--RVVGYWTSEK 345 (753)
Q Consensus 308 ~g~~G~v~f-~~g~~~~~~y~i~~~~~--~-~--~~vg~~~~~~ 345 (753)
+|++|.|.| +||++ .+.|.|+++++ + . ++||.|+...
T Consensus 345 ~G~tG~v~fd~~G~r-~~~y~i~~~~~~~~~~~~~~vg~~~~~~ 387 (391)
T cd06372 345 QGITGLVLLDEQGKR-QMDYSVYALQKSGNSSLFLPFLHYDSHQ 387 (391)
T ss_pred eccceeEEECCCCCc-ceeEEEEeccccCCccceeeEEEecchh
Confidence 999999999 89999 78999999986 3 2 8999998754
No 22
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=100.00 E-value=1.2e-35 Score=316.62 Aligned_cols=292 Identities=43% Similarity=0.741 Sum_probs=257.6
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~~~~a~ 86 (753)
++|+|.+|++++++|+.+++|.+||||.||+.+.+++++++.+++|+|+++++++.+++ ..+|++||+.|++..++.++
T Consensus 47 ~~~~~~~a~~~a~~l~~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~~r~~p~~~~~~~a~ 126 (350)
T cd06366 47 SKCDPVQAASAALDLLENKPVVAIIGPQCSSVAEFVAEVANEWNVPVLSFAATSPSLSSRLQYPYFFRTTPSDSSQNPAI 126 (350)
T ss_pred CCCCHHHHHHHHHHHhccCCceEEECCCcHHHHHHHHHHhhcCCeeEEeccCCCccccccccCCceEEcccchHhHHHHH
Confidence 78999999999999999999999999999999999999999999999999999998864 67899999999999999999
Q ss_pred HHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHH
Q 037761 87 SAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALAS 166 (753)
Q Consensus 87 ~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~ 166 (753)
++++++++|+++++|+.+++||....+.+.+.+++.|++++..+.++.+.+.+|+.+.+++|+++++|+|+++++..++.
T Consensus 127 ~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~ 206 (350)
T cd06366 127 AALLKKFGWRRVATIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFPPSANDDDITDALKKLKEKDSRVIVVHFSPDLAR 206 (350)
T ss_pred HHHHHHCCCcEEEEEEEcCcccchhHHHHHHHHHHcCCEEEEEeccCCCCChhHHHHHHHHHhcCCCeEEEEECChHHHH
Confidence 99999999999999999999999999999999999999999999887643367999999999999999999999999999
Q ss_pred HHHHHHHHcCCCCCCEEEEEcCcccccc----cCCChhHHhhcccEEEEEEeCCC-ChhhhHHHHHHHHhhCCCCCCCCc
Q 037761 167 RLFALVAKNGMMSKGYTWIVTACLSNSL----NVLDSEVIDSMEGVLGVRSHLPK-SKELGLFDRRWKSKLHSMKPNSSV 241 (753)
Q Consensus 167 ~~~~~a~~~g~~~~~~~wi~~~~~~~~~----~~~~~~~~~~~~g~i~~~~~~~~-~~~~~~F~~~~~~~~~~~~~~~~~ 241 (753)
.++++++++|+..++++|+.++.+.... ........+..+|++++..+.+. .+.+++|.++|+++++...+. .
T Consensus 207 ~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~ 284 (350)
T cd06366 207 RVFCEAYKLGMMGKGYVWILTDWLSSNWWSSSDCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPE--L 284 (350)
T ss_pred HHHHHHHHcCCcCCCEEEEECcchhhhhccCCCCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcC--c
Confidence 9999999999987789999987655432 23334556778899999888777 788999999999999853111 1
Q ss_pred cccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-eCCc
Q 037761 242 TEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-VNGQ 320 (753)
Q Consensus 242 ~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~g~ 320 (753)
..|+.+++++|||+++ +.+|+|++|+++| ++|+
T Consensus 285 ~~p~~~a~~~YDav~~----------------------------------------------~~~~~G~~G~v~fd~~~~ 318 (350)
T cd06366 285 TEPSIYALYAYDAVWA----------------------------------------------STNFNGLSGPVQFDGGRR 318 (350)
T ss_pred CCCCcccchhhhheee----------------------------------------------eceEEeeeeeEEEcCCCc
Confidence 2477889999999977 2268999999999 8898
Q ss_pred cceeEEEEEEEeccc-eEEEEeecCCCc
Q 037761 321 LESSVFEIVNVIGTG-RVVGYWTSEKGL 347 (753)
Q Consensus 321 ~~~~~y~i~~~~~~~-~~vg~~~~~~~~ 347 (753)
+....|.++++.+++ ++||.|++..++
T Consensus 319 ~~~~~~~~~~~~~~~~~~vg~~~~~~~~ 346 (350)
T cd06366 319 LASPAFEIINIIGKGYRKIGFWSSESGL 346 (350)
T ss_pred cCCcceEEEEecCCceEEEEEEeCCCCc
Confidence 877899999998877 999999987654
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=2.8e-35 Score=318.59 Aligned_cols=317 Identities=22% Similarity=0.331 Sum_probs=270.3
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~~~~a~ 86 (753)
++|+|..|+.++++|+.+++|.+||||.+|+++.++++++..+++|+|+++++++.+++ ..+||+||+.|++..++.++
T Consensus 49 ~~~~~~~a~~~a~~l~~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~Is~~~~~~~~~~~~~~~~~fr~~~~~~~~~~a~ 128 (389)
T cd06352 49 TECSESVALLAAVDLYWEHNVDAFIGPGCPYACAPVARLAAHWNIPMISWGCVALSLSDKSEYPTLTRTLPPARKLGEAV 128 (389)
T ss_pred CCCchhhhHHHHHHHHhhcCCcEEECCCChhHHHHHHHHHhcCCCCEecccccccccCccccCCceeecCCcHHHHHHHH
Confidence 88999999999999999999999999999999999999999999999999999998885 57899999999999999999
Q ss_pred HHHHHHcCCeEEEEEEeeCC-cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHH
Q 037761 87 SAVLQNFSWHEVVLMYEDTN-YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALA 165 (753)
Q Consensus 87 ~~~l~~~~w~~vail~~d~~-~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~ 165 (753)
++++++++|++++++++++. ||....+.+.+.+++.|++|+..+.++...+..|+...++++++.+ |+|++++...++
T Consensus 129 ~~~l~~~~~~~v~ii~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~~~d~~~~l~~i~~~~-~vii~~~~~~~~ 207 (389)
T cd06352 129 LALLRWFNWHVAVVVYSDDSENCFFTLEALEAALREFNLTVSHVVFMEDNSGAEDLLEILQDIKRRS-RIIIMCGSSEDV 207 (389)
T ss_pred HHHHHHcCceEEEEEEecCCccHHHHHHHHHHHHHhcCCeEEEEEEecCCccchhHHHHHHHhhhcc-eEEEEECCHHHH
Confidence 99999999999999998888 9999999999999999999999988875322579999999999887 999999999999
Q ss_pred HHHHHHHHHcCCCCCCEEEEEcCcccccc-----------cCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCC
Q 037761 166 SRLFALVAKNGMMSKGYTWIVTACLSNSL-----------NVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHS 234 (753)
Q Consensus 166 ~~~~~~a~~~g~~~~~~~wi~~~~~~~~~-----------~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~ 234 (753)
..+++|++++|+...+++||+++.+.... ........+..+|++++..+.+..+.+++|.++|+++++.
T Consensus 208 ~~~l~q~~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~ 287 (389)
T cd06352 208 RELLLAAHDLGLTSGDYVFILIDLFNYSLPYQNSYPWERGDGDDEKAKEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKR 287 (389)
T ss_pred HHHHHHHHHcCCCCCcEEEEEEehhccccccCCCCCcccCCcccHHHHHHHHhheEEEecCCCCchHHHHHHHHHHHHhc
Confidence 99999999999977789999987655432 1122345567789998888777788999999999999975
Q ss_pred CCCC--CCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhccccccee
Q 037761 235 MKPN--SSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSG 312 (753)
Q Consensus 235 ~~~~--~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G 312 (753)
.+.. .....++.+++.+|||++++++|++++..+.. .+.++.++.+.|+++.|.|++|
T Consensus 288 ~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~~--------------------~~~~~~~v~~~l~~~~f~g~~G 347 (389)
T cd06352 288 PPFNTDAEPEQVSPYAGYLYDAVLLYAHALNETLAEGG--------------------DYNGGLIITRRMWNRTFSGITG 347 (389)
T ss_pred ccCccCCCccccchhhhhHHHHHHHHHHHHHHHHHhCC--------------------CCCchHHHHHHhcCcEEEeeee
Confidence 2210 01235678999999999999999999833210 1245688999999999999999
Q ss_pred eEEe-eCCccceeEEEEEEEeccc---eEEEEeecCCC
Q 037761 313 EFHL-VNGQLESSVFEIVNVIGTG---RVVGYWTSEKG 346 (753)
Q Consensus 313 ~v~f-~~g~~~~~~y~i~~~~~~~---~~vg~~~~~~~ 346 (753)
.+.| ++|++ ...|.|+++++.+ ..++.++....
T Consensus 348 ~v~fd~~G~~-~~~~~v~~~~~~~~~~~~~~~~~~~~~ 384 (389)
T cd06352 348 PVTIDENGDR-EGDYSLLDLDSTGGQLEVVYLYDTSSG 384 (389)
T ss_pred eEEEcCCCCe-eeeEEEEEecCCCceEEEEEeccccce
Confidence 9999 89999 6789999999753 78888766654
No 24
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=100.00 E-value=4.1e-35 Score=317.40 Aligned_cols=315 Identities=18% Similarity=0.260 Sum_probs=255.5
Q ss_pred CCC----ChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHHH
Q 037761 8 KQF----KDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSLQ 82 (753)
Q Consensus 8 d~~----~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~~ 82 (753)
+++ ++.+|+.++.+++.+++|.|||||.||+++.+++++++.++||+|+++++++.+++ ..|||+||+.|++..+
T Consensus 50 ~~~~~~~~~~~a~~~a~~~~~~~~v~aiiGp~~S~~~~av~~~~~~~~ip~Is~~as~~~lt~~~~~~~~fr~~p~~~~~ 129 (396)
T cd06373 50 SECKCGCSESEAPLVAVDLYFQHKPDAFLGPGCEYAAAPVARFAAHWNVPVLTAGAPAAGFSDKSEYSTLTRTGPSYTKL 129 (396)
T ss_pred CccccccchhhhHHHHHHHHhccCCeEEECCCccchhHHHHHHHhcCCCceECccCCccccccchhcCceeeccccHHHH
Confidence 666 89999999999998889999999999999999999999999999999999999986 6899999999999999
Q ss_pred HHHHHHHHHHcCCeEEEEEEeeCCcc----cchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEE
Q 037761 83 VKAISAVLQNFSWHEVVLMYEDTNYG----AGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIV 158 (753)
Q Consensus 83 ~~a~~~~l~~~~w~~vail~~d~~~g----~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~ 158 (753)
+.++++++++++|+++++++.+++++ ....+.+.+.+++.|++++... +.......|+...|+++++.+ |+|++
T Consensus 130 ~~a~~~~~~~~~w~~vaii~~~~~~~~~~~~~~~~~~~~~~~~~g~~v~~~~-~~~~~~~~d~~~~l~~ik~~~-~vii~ 207 (396)
T cd06373 130 GEFVLALHEHFNWSRAALLYHDDKNDDRPCYFTLEGVYTVLKEENITVSDFP-FDEDKELDDYKELLRDISKKG-RVVIM 207 (396)
T ss_pred HHHHHHHHHHcCCeEEEEEEECCCCCcchHHHHHHHHHHHHhhcCceeeEEe-ecCCccccCHHHHHHHHHhcC-cEEEE
Confidence 99999999999999999999987764 5567889999999999987553 443311369999999999865 99999
Q ss_pred EeChHHHHHHHHHHHHcCCCCCCEEEEEcCccccc-----------ccCCChhHHhhcccEEEEEEeCCCChhhhHHHHH
Q 037761 159 HMNTALASRLFALVAKNGMMSKGYTWIVTACLSNS-----------LNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRR 227 (753)
Q Consensus 159 ~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~-----------~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~ 227 (753)
+++..++..++++|+++|+...+|+||..+..... .........+..+|++.+....+..+.+++|.++
T Consensus 208 ~~~~~~~~~~~~qa~~~g~~~~~yv~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~ 287 (396)
T cd06373 208 CASPDTVREIMLAAHRLGLTSGEYVFFNIDLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDNPEYKEFSLE 287 (396)
T ss_pred ecCHHHHHHHHHHHHHcCCCCCcEEEEEEccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCChHHHHHHHH
Confidence 99999999999999999999899999986543210 1111123445667888887777777889999999
Q ss_pred HHHhhCCCCC-CCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcc
Q 037761 228 WKSKLHSMKP-NSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQ 306 (753)
Q Consensus 228 ~~~~~~~~~~-~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~ 306 (753)
|+++....+. ......++.+++.+|||++++++||++++.+.. .+.+|++|.++|++++
T Consensus 288 ~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~~--------------------~~~~~~~i~~~l~~~~ 347 (396)
T cd06373 288 VKERAKKKFNTTSDDSLVNFFAGAFYDAVLLYALALNETLAEGG--------------------DPRDGTNITRRMWNRT 347 (396)
T ss_pred HHHHhhhcCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHhccC--------------------CCCChHHHHHHhcCCc
Confidence 9986322111 011124678899999999999999999842210 1246789999999999
Q ss_pred cccceeeEEe-eCCccceeEEEEEEEe---ccc-eEEEEeecCC
Q 037761 307 FKGLSGEFHL-VNGQLESSVFEIVNVI---GTG-RVVGYWTSEK 345 (753)
Q Consensus 307 f~g~~G~v~f-~~g~~~~~~y~i~~~~---~~~-~~vg~~~~~~ 345 (753)
|+|++|.++| ++|++ ...|.|+++. ++. +.+|.|+...
T Consensus 348 f~G~tG~v~fd~~G~~-~~~~~v~~~~~~~~g~~~~~~~~~~~~ 390 (396)
T cd06373 348 FEGITGNVSIDENGDR-ESDFSLWDMTDTETGTFEVVANYNGSN 390 (396)
T ss_pred eecccCceEeecCCcc-cceeeeeeccCCCCceEEEEeeccccc
Confidence 9999999999 89998 5778887763 334 8889887744
No 25
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=100.00 E-value=9.1e-35 Score=315.45 Aligned_cols=309 Identities=19% Similarity=0.257 Sum_probs=247.1
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHHHHHHHHH
Q 037761 10 FKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
|....+...+.++...++|.+||||.||.++.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++
T Consensus 57 c~~~~~~~~~~~~~~~~~v~aiiGp~~S~~~~~va~~a~~~~iP~Is~~a~~~~l~~~~~~~~~~R~~p~~~~~~~a~~~ 136 (405)
T cd06385 57 CSDSAAPLVAVDLKFTHNPWAFIGPGCDYTASPVARFTTHWDVPLVTAGAPALGFGVKDEYATITRTGPTHKKLGEFVLH 136 (405)
T ss_pred CccccchHHHHHHHHhcCCcEEECCCccchHHHHHHHHhccCCcEEccccChhhcCCcccCcceEEecCchHHHHHHHHH
Confidence 444455555665555679999999999999999999999999999999999999987 6899999999999999999999
Q ss_pred HHHHcCCeEEEE-EEeeCC-cccc---hHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 89 VLQNFSWHEVVL-MYEDTN-YGAG---FISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 89 ~l~~~~w~~vai-l~~d~~-~g~~---~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
++++++|+++++ ++.++. ++.. ..+.+.+.+++.|++|+..+..+. +..|++..|+++++.. |+|+++++..
T Consensus 137 ~~~~~~w~~va~ii~~~~~~~~~~~~~~~~~l~~~~~~~gi~v~~~~~~~~--~~~d~~~~l~~ik~~~-~iii~~~~~~ 213 (405)
T cd06385 137 IHQHFGWRSHAMLIYSDNKVDDRPCYFAMEGLYMELKKNNITVVDLVFEED--DLINYTTLLQDIKQKG-RVIYVCCSPD 213 (405)
T ss_pred HHHhCCCeEEEEEEEecCcccccchHHHHHHHHHHHHhCCeEEEEeeccCC--chhhHHHHHHHHhhcc-eEEEEeCCHH
Confidence 999999999985 555443 3333 468899999999999998764322 3679999999998754 9999999999
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEEcCccccccc------------CCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHh
Q 037761 164 LASRLFALVAKNGMMSKGYTWIVTACLSNSLN------------VLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSK 231 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~------------~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~ 231 (753)
+++.++++|+++||..++++||+++.+..... ..+....++.++++....+.+..+.+++|.++|+++
T Consensus 214 ~~~~i~~~a~~~g~~~~~y~~i~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~ 293 (405)
T cd06385 214 IFRRLMLQFWREGLPSEDYVFFYIDLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTD 293 (405)
T ss_pred HHHHHHHHHHHcCCCCCcEEEEEeecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHH
Confidence 99999999999999999999999866432211 111234566788888766666678899999999986
Q ss_pred ----hCCCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhccc
Q 037761 232 ----LHSMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQF 307 (753)
Q Consensus 232 ----~~~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f 307 (753)
|++..+ ...++.+++++||||+++|.||++++... +.+.+|.+|.++|++++|
T Consensus 294 ~~~~~~~~~~---~~~~~~~aa~~YDav~l~a~Al~~~~~~~--------------------~~~~~g~~i~~~l~~~~f 350 (405)
T cd06385 294 AKEMFNFTVE---DSLMNIIAGGFYDGVMLYAHALNETMAKG--------------------GTRPPGTAITQRMWNRTF 350 (405)
T ss_pred hhccCCCccc---hhhHHHHHHHHHHHHHHHHHHHHHHHhcC--------------------CCCCCHHHHHHHhhCceE
Confidence 433110 11367899999999999999999984321 122467999999999999
Q ss_pred ccceeeEEe-eCCccceeEEEEEEEe---ccc-eEEEEeecCC
Q 037761 308 KGLSGEFHL-VNGQLESSVFEIVNVI---GTG-RVVGYWTSEK 345 (753)
Q Consensus 308 ~g~~G~v~f-~~g~~~~~~y~i~~~~---~~~-~~vg~~~~~~ 345 (753)
+|++|.+.| ++|+| ...|.+++++ +++ +.+|.|+...
T Consensus 351 ~G~tG~v~fd~~G~r-~~~~~~~~~~~~~~g~~~~v~~~~~~~ 392 (405)
T cd06385 351 YGVTGFVKIDDNGDR-ETDFALWDMTDTESGDFQVVSVYNGTQ 392 (405)
T ss_pred eeceeEEEEcCCCCE-eceeEEEEccCCCCCcEEEEEEEcccC
Confidence 999999999 89999 6789888764 444 9999997644
No 26
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=3.6e-34 Score=300.91 Aligned_cols=323 Identities=15% Similarity=0.237 Sum_probs=266.6
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
+..|.-++.+++|+|+++ ||.||+||.++.++-++..+|+..+||+|.+.-. .+...++..++.|+ ...|++
T Consensus 45 ~~~dsf~~~~~~C~l~~~-GV~AIfGp~~~~s~~~v~s~c~~~~iP~i~~~~~----~~~~~~~~l~l~P~---l~~Ai~ 116 (372)
T cd06387 45 DSSNSFSVTNAFCSQFSR-GVYAIFGFYDQMSMNTLTSFCGALHTSFITPSFP----TDADVQFVIQMRPA---LKGAIL 116 (372)
T ss_pred cCCChHHHHHHHHHHhhc-ccEEEEecCCHhHHHHHHHhhccccCCeeeeCCC----CCCCCceEEEEChh---HHHHHH
Confidence 678999999999999998 9999999999999999999999999999987432 12344678899998 789999
Q ss_pred HHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHH
Q 037761 88 AVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASR 167 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~ 167 (753)
+++++|+|++|.++| |+++|....+.+.+.++..+..|......+.. ...+++..++.+++.+.++||+.|.++.+..
T Consensus 117 diI~~~~Wr~~~~iY-d~d~gl~~Lq~L~~~~~~~~~~V~~~~v~~~~-~~~~~~~~l~el~~~~~r~iIld~s~~~~~~ 194 (372)
T cd06387 117 SLLAHYKWEKFVYLY-DTERGFSILQAIMEAAVQNNWQVTARSVGNIK-DVQEFRRIIEEMDRRQEKRYLIDCEVERINT 194 (372)
T ss_pred HHHHhcCCCEEEEEe-cCchhHHHHHHHHHhhccCCceEEEEEeccCC-chHHHHHHHHHhccccceEEEEECCHHHHHH
Confidence 999999999999999 77889989999999999999888766443322 3558999999999999999999999999999
Q ss_pred HHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCCCccccchh
Q 037761 168 LFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNSSVTEINIS 247 (753)
Q Consensus 168 ~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~ 247 (753)
++++|.+.||...+|+||+++......+. .+......+++|+....++.+..++|.++|++.....+|.....+++.+
T Consensus 195 il~~a~e~gM~~~~y~~ilt~ld~~~~dl--~~~~~g~~NItg~rl~~~~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~ 272 (372)
T cd06387 195 ILEQVVILGKHSRGYHYMLANLGFTDISL--ERVMHGGANITGFQIVNNENPMVQQFLQRWVRLDEREFPEAKNSPLKYT 272 (372)
T ss_pred HHHHHHHcCccccceEEEEecCCcccccH--HHhccCCcceeEEEEecCCCchHHHHHHHHHhCCcccCCCCCCCCcchH
Confidence 99999999999999999999855443322 1122233349999999999999999999999887766665555567789
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC--CccccchHHHHHHHHhcccccceeeEEe-eCCcccee
Q 037761 248 GLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGS--LGFSRIGHILCNQILNTQFKGLSGEFHL-VNGQLESS 324 (753)
Q Consensus 248 ~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~g~~~~~ 324 (753)
++++||||+++|+|++++. .......+.+ ...+|.. ..+|..|..|.++|++++|+|+||++.| ++|++.+.
T Consensus 273 ~al~yDaV~~~A~A~~~l~-~~~~~~~~~~----~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~ 347 (372)
T cd06387 273 SALTHDAILVIAEAFRYLR-RQRVDVSRRG----SAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNY 347 (372)
T ss_pred HHHHHHHHHHHHHHHHHHH-hcCCCcccCC----CCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccc
Confidence 9999999999999999873 2222211111 0123322 3478999999999999999999999999 88999999
Q ss_pred EEEEEEEeccc-eEEEEeecCCCc
Q 037761 325 VFEIVNVIGTG-RVVGYWTSEKGL 347 (753)
Q Consensus 325 ~y~i~~~~~~~-~~vg~~~~~~~~ 347 (753)
.|+|+++.+++ .+||+|++..++
T Consensus 348 ~ldIinl~~~g~~kIG~W~~~~g~ 371 (372)
T cd06387 348 TIDVYEMKPSGSRKAGYWNEYERF 371 (372)
T ss_pred eEEEEEecCCCceeEEEECCCCCc
Confidence 99999999988 999999988764
No 27
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=100.00 E-value=1.2e-34 Score=313.70 Aligned_cols=300 Identities=20% Similarity=0.286 Sum_probs=246.6
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~~~~a~ 86 (753)
++|+|.+|+.++++|+.+ +|.+||||.||+. +++.+++.++||+|+++++++.+++ ..||+|||+.|++..++.++
T Consensus 51 ~~~~~~~a~~~~~~li~~-~v~aiiGp~~S~~--~~a~i~~~~~iP~Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~ 127 (404)
T cd06370 51 THGDEVLSIRAVSDWWKR-GVVAFIGPECTCT--TEARLAAAWNLPMISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSV 127 (404)
T ss_pred cCCChHHHHHHHHHHHhc-CceEEECCCchhH--HHHHHHhhcCCcEEecccCCccccccccCCCeEEcCCCHHHHHHHH
Confidence 789999999999999976 9999999999844 4567999999999999999999986 57999999999999999999
Q ss_pred HHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCC-----chhhHHHHHHHHhcCCccEEEEEeC
Q 037761 87 SAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSA-----EDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 87 ~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~-----~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
+.++++++|++|++|+++++||.+..+.+++.+++.|++|+..+.++.+. ...++...++++++. ++++++++.
T Consensus 128 ~~~~~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~ 206 (404)
T cd06370 128 IALLKHFNWNKFSVVYENDSKYSSVFETLKEEAELRNITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVFIGE 206 (404)
T ss_pred HHHHHHCCCcEEEEEEecCcccHHHHHHHHHHHHHcCCEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEEEcC
Confidence 99999999999999999999999999999999999999999998887541 246899999988765 677778888
Q ss_pred hHHHHHHHHHHHHcCCC-CCCEEEEEcCccccc------------------ccCCChhHHhhcccEEEEEEeCCCChhhh
Q 037761 162 TALASRLFALVAKNGMM-SKGYTWIVTACLSNS------------------LNVLDSEVIDSMEGVLGVRSHLPKSKELG 222 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~-~~~~~wi~~~~~~~~------------------~~~~~~~~~~~~~g~i~~~~~~~~~~~~~ 222 (753)
..++..+++||+++||. ..+++||+.+..... .........++.+|++.+....+ .+..+
T Consensus 207 ~~~~~~~l~qa~~~g~~~~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~ 285 (404)
T cd06370 207 ANELRQFLMSMLDEGLLESGDYMVLGVDIEYYDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV-SPDYD 285 (404)
T ss_pred HHHHHHHHHHHHHcCCCCCCcEEEEEEchhhccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC-CchHH
Confidence 88999999999999998 577899986531100 01111245567888887765444 67788
Q ss_pred HHHHHHHHhhCCCCCC------CCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchH
Q 037761 223 LFDRRWKSKLHSMKPN------SSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGH 296 (753)
Q Consensus 223 ~F~~~~~~~~~~~~~~------~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 296 (753)
+|.++|++++...... ....+++.+++++|||++++|+||++++.+.. ...+|.
T Consensus 286 ~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aa~~yDAv~~~a~Al~~~~~~~~--------------------~~~~g~ 345 (404)
T cd06370 286 SFSIFVRKYNLEPPFNGDLGESELVLEIDIEAAYLYDAVMLYAKALDETLLEGG--------------------DIYNGT 345 (404)
T ss_pred HHHHHHHHhccCCCCcccccccccccccceeeehhHHHHHHHHHHHHHHHHhcC--------------------CCCCHH
Confidence 9999999876442100 01235778899999999999999999843311 114678
Q ss_pred HHHHHHHhccccccee-eEEe-eCCccceeEEEEEEEec
Q 037761 297 ILCNQILNTQFKGLSG-EFHL-VNGQLESSVFEIVNVIG 333 (753)
Q Consensus 297 ~l~~~l~~~~f~g~~G-~v~f-~~g~~~~~~y~i~~~~~ 333 (753)
+|.++|++++|+|++| ++.| ++|++ ...|.++++++
T Consensus 346 ~i~~~l~~~~f~GvtG~~v~fd~~G~~-~~~y~v~~~~~ 383 (404)
T cd06370 346 AIVSHILNRTYRSITGFDMYIDENGDA-EGNYSVLALQP 383 (404)
T ss_pred HHHHHHhCcccccccCceEEEcCCCCc-ccceEEEEecc
Confidence 9999999999999999 8999 89998 68899999987
No 28
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=100.00 E-value=6e-34 Score=299.92 Aligned_cols=320 Identities=18% Similarity=0.265 Sum_probs=243.5
Q ss_pred cCCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCC-----------CCCCCCCCCCceEEE
Q 037761 7 LKQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFET-----------SPALSPTEHPFFIRV 75 (753)
Q Consensus 7 ~d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~-----------~~~l~~~~~~~~fr~ 75 (753)
++.+|+-+|..++|+|+++ +|.|||||.++.++..++.+++..+||+|+++.. +|.++..+| .+.+
T Consensus 43 ~~~~d~F~~~~~ac~l~~~-gV~AI~Gp~s~~~a~~v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~--~~~l 119 (400)
T cd06392 43 IEANNPFQAVQEACDLMTQ-GILALVTSTGCASANALQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEY--TLAA 119 (400)
T ss_pred cCCCChhHHHHHHHHHHhc-CeEEEECCCchhHHHHHHHHhccCcCCcEeecccccccccccccCCCCcCcCce--eEEe
Confidence 4789999999999999966 9999999999999999999999999999998652 233333444 4555
Q ss_pred ecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHH--------HH
Q 037761 76 TQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKEL--------SK 147 (753)
Q Consensus 76 ~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l--------~~ 147 (753)
.|+ ..+..|+++++.+|+|++|++|| |+++|....+.+.+.+.+.+..|.... +..+ ...++.+.+ .+
T Consensus 120 rp~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~gl~~lq~L~~~~~~~~~~I~~~~-v~~~-~~~~~~~~l~~~~~~~L~~ 195 (400)
T cd06392 120 RPP-VRLNDVMLKLVTELRWQKFIVFY-DSEYDIRGLQSFLDQASRLGLDVSLQK-VDRN-ISRVFTNLFTTMKTEELNR 195 (400)
T ss_pred cCc-hHHHHHHHHHHHhCCCcEEEEEE-ECcccHHHHHHHHHHHhhcCceEEEEE-cccC-cchhhhhHHHHHHHhhhhh
Confidence 555 56788999999999999999999 899999999999999999998888554 2211 011344433 34
Q ss_pred HhcCCccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhccc----EEEEEEeCCCChhhhH
Q 037761 148 LSTMQTRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEG----VLGVRSHLPKSKELGL 223 (753)
Q Consensus 148 l~~~~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g----~i~~~~~~~~~~~~~~ 223 (753)
++... ++||+.|+.+.+..++++|.++||...+|+||+++......+. .+...| +.++....+..+...+
T Consensus 196 ~~~~~-r~iVv~~s~~~~~~il~qA~~lgM~~~~y~wI~t~~~~~~~dl-----~~~~~g~~~niT~~r~~~~~~~~~~~ 269 (400)
T cd06392 196 YRDTL-RRAILLLSPRGAQTFINEAVETNLASKDSHWVFVNEEISDTEI-----LELVHSALGRMTVIRQIFPLSKDNNQ 269 (400)
T ss_pred ccccc-eEEEEEcCcHHHHHHHHHHHHhCcccCCeEEEEecCCcccccH-----HHHhcccccceeeEEEecCCcHHHHH
Confidence 44334 8888899999999999999999999999999999987654322 233334 4447777666654544
Q ss_pred HH----HHHHHhhCCCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCcc--CCCccccchHH
Q 037761 224 FD----RRWKSKLHSMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDF--GSLGFSRIGHI 297 (753)
Q Consensus 224 F~----~~~~~~~~~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~ 297 (753)
|. .+|++......+. ....+..+++++||||+++|+|+++.+........+ ..+| +....|..|..
T Consensus 270 ~~~~~~~r~~~~~~~~~~~-~~~~l~~~aalayDaV~~~A~Al~~ll~~~~~~~~~-------~l~C~~~~~~~w~~G~~ 341 (400)
T cd06392 270 RCIRNNHRISSLLCDPQEG-YLQMLQVSNLYLYDSVLMLANAFHRKLEDRKWHSMA-------SLNCIRKSTKPWNGGRS 341 (400)
T ss_pred HHHHHHHHHHhhhcccccc-cccccchhHHHHHHHHHHHHHHHHHHhhccccCCCC-------CCccCCCCCCCCCChHH
Confidence 43 6665443321110 011467899999999999999999864322111111 2344 34568999999
Q ss_pred HHHHHHhcccccceeeEEe-eCCccceeEEEEEEEe-----ccc-eEEEEeecCCCc
Q 037761 298 LCNQILNTQFKGLSGEFHL-VNGQLESSVFEIVNVI-----GTG-RVVGYWTSEKGL 347 (753)
Q Consensus 298 l~~~l~~~~f~g~~G~v~f-~~g~~~~~~y~i~~~~-----~~~-~~vg~~~~~~~~ 347 (753)
|.+.|++++|.|+||+|+| ++|++.+..|+|++++ +.+ ++||+|++..++
T Consensus 342 ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldIi~l~~~~~~g~g~~~iG~W~~~~gl 398 (400)
T cd06392 342 MLETIKKGHITGLTGVMEFKEDGANPHVQFEILGTSYSETFGKDVRRLATWDSEKGL 398 (400)
T ss_pred HHHHHHhCCCccCccceeECCCCCCcCCceEEEeccccccCCCCceEeEEecCCCCC
Confidence 9999999999999999999 8999989999999965 556 999999998875
No 29
>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=5.6e-34 Score=308.17 Aligned_cols=310 Identities=15% Similarity=0.188 Sum_probs=243.9
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC--CCCCceEEEecCcHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP--TEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~--~~~~~~fr~~p~~~~~~~a~ 86 (753)
+|++..+...+..+...+++.+||||.||+++.+++++++.++||+|+++++++.+++ ..||++||+.|++..++.++
T Consensus 55 ~~~~~~~~~~~~~~~~~~~v~aviGp~~S~~~~av~~i~~~~~iP~Is~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~ 134 (399)
T cd06384 55 GCSESLAPLHAVDLKLYSDPDVFFGPGCVYPTASVARFATHWRLPLITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFV 134 (399)
T ss_pred ccchhhhHHHHHHHHhhcCCCEEECCCCchHHHHHHHHHhhcCCcEEeeccchhhhccccccCCceEEecCcHHHHHHHH
Confidence 4555555444433322357899999999999999999999999999999999998885 47899999999999999998
Q ss_pred HHHHHHcCCe-EEEEEEeeCCccc----chHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 87 SAVLQNFSWH-EVVLMYEDTNYGA----GFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 87 ~~~l~~~~w~-~vail~~d~~~g~----~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
..++++++|+ ++++||.++.++. ...+.+.+.+++.|++|+..+.+.. ++.|++++|+++++ ++|+|+++++
T Consensus 135 ~~i~~~~~w~~~vaiiy~~~~~~~~~~~~~~~~~~~~~~~~gi~v~~~~~~~~--~~~d~~~~l~~ik~-~~~vIi~~~~ 211 (399)
T cd06384 135 NHLHEHFNWTSRAALLYLDLKTDDRPHYFISEGVFLALQEENANVSAHPYHIE--KNSDIIEIIQFIKQ-NGRIVYICGP 211 (399)
T ss_pred HHHHHhCCCcEEEEEEEecCCccCCcceEehHHHHHHHHhcCceEEEEEEecc--chhhHHHHHHHHhh-cccEEEEeCC
Confidence 8888999999 6889987543221 1456788888999999987655443 36799999999997 8999999999
Q ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEcCccccccc-------------CCChhHHhhcccEEEEEEeCCCChhhhHHHHHH
Q 037761 162 TALASRLFALVAKNGMMSKGYTWIVTACLSNSLN-------------VLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRW 228 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~-------------~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~ 228 (753)
..++..+++||+++||..++|+||..+....... .......++.++++.+..+.+..+.+++|.++|
T Consensus 212 ~~~~~~i~~qa~~~g~~~~~y~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~ 291 (399)
T cd06384 212 LETFLEIMLQAQREGLTPGDYVFFYLDVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPENPEYKEFQREL 291 (399)
T ss_pred chHHHHHHHHHHHcCCCCCcEEEEEehhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHH
Confidence 9999999999999999999999998775432111 112445568889998887777778889999999
Q ss_pred HHh----hCCCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHh
Q 037761 229 KSK----LHSMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILN 304 (753)
Q Consensus 229 ~~~----~~~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~ 304 (753)
+++ |++.. .....+.+++++||||+++|.|+++++... +.+.+|.+|.++|++
T Consensus 292 ~~~~~~~~~~~~---~p~~~~~~aa~~YDav~l~a~Al~~~~~~~--------------------~~~~~g~~i~~~l~~ 348 (399)
T cd06384 292 HARAKEDFGVEL---EPSLMNFIAGCFYDGVMLYAMALNETLAEG--------------------GSQKDGLNITRKMQD 348 (399)
T ss_pred HHHHhhhcCCCc---CcchHhhhhhhhHHHHHHHHHHHHHHHhcC--------------------CCCCCcHhHHHHHhC
Confidence 985 44311 001236779999999999999999984321 123567899999999
Q ss_pred cccccceeeEEe-eCCccceeEEEEE---EEeccc-eEEEEeecCC
Q 037761 305 TQFKGLSGEFHL-VNGQLESSVFEIV---NVIGTG-RVVGYWTSEK 345 (753)
Q Consensus 305 ~~f~g~~G~v~f-~~g~~~~~~y~i~---~~~~~~-~~vg~~~~~~ 345 (753)
++|+|++|.+.| ++|++ ...|.++ ++++++ +.+|.|+...
T Consensus 349 ~~f~GvtG~v~fd~~G~r-~~~~~~~~~~~~~~g~~~~v~~~~~~~ 393 (399)
T cd06384 349 RRFWGVTGLVSIDKNNDR-DIDFDLWAMTDHETGKYEVVAHYNGIT 393 (399)
T ss_pred ceeecceeEEEECCCCCc-ccceEEEEeecCCCCeEEEEEEEcCCC
Confidence 999999999999 89999 5667774 445656 9999997754
No 30
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=100.00 E-value=6.2e-34 Score=304.95 Aligned_cols=295 Identities=18% Similarity=0.246 Sum_probs=235.4
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~~~~a~ 86 (753)
|+|++.+|+.++.++ +++|.|||||.||+++.+++++++.++||+|+++++++.+++ ..||+|+|+.|++ +.++
T Consensus 49 ~~~~~~~a~~~~~~~--~~~V~aviGp~~S~~~~a~a~va~~~~iP~Is~~a~~~~lt~~~~y~~f~r~~~~~---~~~~ 123 (382)
T cd06371 49 EPCETSRALAAFLGY--EGYASAFVGPVNPGYCEAAALLAKEWDKALFSWGCVNYELDDVRSYPTFARTLPSP---SRVL 123 (382)
T ss_pred CCCChhHHHHHHHcc--cCCceEEECCCCchHHHHHHHHHHhcCceEEecccCchhhcCcccCCCceecCCCc---HHHH
Confidence 789988887655543 469999999999999999999999999999999999999986 7899999999986 5668
Q ss_pred HHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCC-ccEEEEEeCh---
Q 037761 87 SAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQ-TRVFIVHMNT--- 162 (753)
Q Consensus 87 ~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~-~~vIi~~~~~--- 162 (753)
+.++++++|++|++|++++++|....+.+.+.+++.|++|+..+.++.+ +.|++++|++|++.+ +|||+++++.
T Consensus 124 ~~~~~~~~w~~vaii~~~~~~~~~~~~~l~~~l~~~gi~v~~~~~~~~~--~~d~~~~L~~lk~~~~~~viv~~~~~~~~ 201 (382)
T cd06371 124 FTVLRYFRWAHVAIVSSPQDIWVETAQKLASALRAHGLPVGLVTSMGPD--EKGAREALKKVRSADRVRVVIMCMHSVLI 201 (382)
T ss_pred HHHHHHCCCeEEEEEEecccchHHHHHHHHHHHHHCCCcEEEEEEecCC--HHHHHHHHHHHhcCCCcEEEEEEeecccc
Confidence 8889999999999999999999999999999999999999988888744 679999999999987 6999998876
Q ss_pred --HHHHHHHHHHHHcCCCCCCEEEEEcCcccccc-------cC--CChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHh
Q 037761 163 --ALASRLFALVAKNGMMSKGYTWIVTACLSNSL-------NV--LDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSK 231 (753)
Q Consensus 163 --~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~-------~~--~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~ 231 (753)
.++..+++||+++||...+++||++++..... .. -.....++.++++.+....+..+ |.+.|+++
T Consensus 202 ~~~~~~~i~~qa~~~Gm~~~~y~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~f~~~ 277 (382)
T cd06371 202 GGEEQRLLLETALEMGMTDGRYVFIPYDTLLYSLPYRNVSYPALRNNSKLRRAYDAVLTITMDSGEQS----FYEAFRAA 277 (382)
T ss_pred CcHHHHHHHHHHHHcCCcCCcEEEEEeccccccCCCCCccccCCCCCHHHHHHhHhhEEEEecCCCCc----HHHHHHHH
Confidence 67889999999999998899999988532111 10 11233356778777765443333 44444444
Q ss_pred hCC-CCCCC-CccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhccccc
Q 037761 232 LHS-MKPNS-SVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKG 309 (753)
Q Consensus 232 ~~~-~~~~~-~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g 309 (753)
+.. ..|.. ....++.+++++|||++++|+|+++++.. . ...++.+|+++|++++|+|
T Consensus 278 ~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~a~~~-g--------------------~~~d~~~l~~~l~~~~f~G 336 (382)
T cd06371 278 QERGEIPSDLEPEQVSPLFGTIYNSIYLLAHAVENARAA-G--------------------GGVSGANLAQHTRNLEFQG 336 (382)
T ss_pred HhcCCCCCCCCccccchhHHHHHHHHHHHHHHHHHHHHh-C--------------------CCccHHHHHHHHhCccccc
Confidence 321 11111 11134566678999999999999999421 1 1146789999999999999
Q ss_pred ceeeEEe-eCCccceeEEEEEEEeccc
Q 037761 310 LSGEFHL-VNGQLESSVFEIVNVIGTG 335 (753)
Q Consensus 310 ~~G~v~f-~~g~~~~~~y~i~~~~~~~ 335 (753)
++|.++| ++|++ .+.|.|+++.+++
T Consensus 337 vtG~v~fd~~g~~-~~~~~v~~~~~~~ 362 (382)
T cd06371 337 FNQRLRTDSGGGG-QAPYVVLDTDGKG 362 (382)
T ss_pred cceEEEecCCCCc-ccceEEEecCCCC
Confidence 9999999 89998 7899999999876
No 31
>KOG1056 consensus Glutamate-gated metabotropic ion channel receptor subunit GRM2 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=8.2e-34 Score=310.40 Aligned_cols=346 Identities=23% Similarity=0.372 Sum_probs=290.6
Q ss_pred ecCCCChHHHHHHHHHHHhc----------------CCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CC
Q 037761 6 LLKQFKDCGKLILAVDLLKK----------------FQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TE 68 (753)
Q Consensus 6 ~~d~~~~~~a~~~a~~Li~~----------------~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~ 68 (753)
.+++.++..|++...+++.+ ..|.++|||..|+++.+++.+...+.||||+|+|+++.+++ .+
T Consensus 88 ~DTCs~~t~aleqsl~Fv~~~~~~~~~e~~c~~g~sp~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~r 167 (878)
T KOG1056|consen 88 LDTCSRSTYALEQSLSFVRASLTSDDSEVRCPDGYSPPVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTR 167 (878)
T ss_pred eeccCCcHHHHHhhHHHHHhcccCCCcceecCCCCCCceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchh
Confidence 34667788899888888764 46899999999999999999999999999999999999997 79
Q ss_pred CCceEEEecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHH
Q 037761 69 HPFFIRVTQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKL 148 (753)
Q Consensus 69 ~~~~fr~~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l 148 (753)
|+||.|+.|+|.+|+.||++++++|+|++|..++++++||+.+.++|++..++.|+||+..+.++....+..+...++++
T Consensus 168 y~~F~RtVP~D~~Qa~Am~~il~~f~W~yVstv~s~~dYGE~Gieaf~~~a~~~~iCIa~s~ki~~~~~~~~~~~~l~kl 247 (878)
T KOG1056|consen 168 YDYFLRTVPSDVFQAQAMVDILKKFNWNYVSTVASEGDYGESGIEAFKEEAAERGICIAFSEKIYQLSIEQEFDCVLRKL 247 (878)
T ss_pred hhceeeecCChHHHHHHHHHHHHHhCeeEeeehhcCccchhhhHHHHHHhHHhcCceEEehhhcccccchhHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999888777788999999999
Q ss_pred hc-CCccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHH--
Q 037761 149 ST-MQTRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFD-- 225 (753)
Q Consensus 149 ~~-~~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~-- 225 (753)
.. .++++|++++.+++++.++++|+++++.+ .++||++++|+....... ......+|.+++....+..+.+++|.
T Consensus 248 ~~~~~a~vvV~F~~~~~~r~~~~aa~~~n~~g-~~~wiaSd~W~~~~~~~~-~~e~~a~g~i~i~l~~~~v~~F~~y~~s 325 (878)
T KOG1056|consen 248 LETPNARVVVVFCRGEDARRLLKAARRANLTG-EFLWIASDGWASQNSPTE-APEREAEGAITIKLASPQVPGFDRYFQS 325 (878)
T ss_pred hhcCCCeEEEEecCcchHHHHHHHHHHhCCCc-ceEEEecchhhccCChhh-hhhhhhceeEEEEecCCcchhHHHHHHh
Confidence 87 89999999999999999999999999853 699999999997655443 23347889999999888888877654
Q ss_pred -------------HHHHHhhCCCCCCCC------------c---cc-----cchhHHHHHHHHHHHHHHHHHhcCCCCCC
Q 037761 226 -------------RRWKSKLHSMKPNSS------------V---TE-----INISGLWAYDTIFALAKAVEKILSPINPS 272 (753)
Q Consensus 226 -------------~~~~~~~~~~~~~~~------------~---~~-----~~~~~~~~ydAv~~~a~Al~~~~~~~~~~ 272 (753)
+.|+++|.|..+... . .. -.....+.+||||++|+|||.+.+.-
T Consensus 326 ~~p~nn~~n~w~~e~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~l--- 402 (878)
T KOG1056|consen 326 LHPENNRRNPWFAEFWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDL--- 402 (878)
T ss_pred cCccccccCcccchhhhhcccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhh---
Confidence 558889998765210 0 01 11235688999999999999984321
Q ss_pred CCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-eCCccceeEEEEEEEeccc-----eEEEEeecCCC
Q 037761 273 IVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-VNGQLESSVFEIVNVIGTG-----RVVGYWTSEKG 346 (753)
Q Consensus 273 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~g~~~~~~y~i~~~~~~~-----~~vg~~~~~~~ 346 (753)
++ .....|+++.. .+|+.|.+.+++++|.+..|.+.| +|||. ...|+|++++..+ ..+|+|+....
T Consensus 403 c~------~~~~~C~~m~~-~dg~~L~~~l~~vnF~~~~~~v~Fd~~gD~-~~~y~I~~~~~~~~~~~y~~vg~w~~~~~ 474 (878)
T KOG1056|consen 403 CP------GTSGLCSAMKA-IDGSLLLKYLLNVNFTGPAGSVRFDENGDG-PGRYDILNYQLTNGSYTYKEVGYWSEGLS 474 (878)
T ss_pred cC------CccccCcCccc-cCHHHHHhhhheeEEecCCCceeecCCCCC-ccceeEEEeeccCCCccceeeeeeccccc
Confidence 10 11344555443 689999999999999999999999 99998 7899999999533 89999988776
Q ss_pred cccccccCccCCCCceecCCCCCCCCCc
Q 037761 347 LTQTLDLTSKNDLKQIIWPGDSTIAPTG 374 (753)
Q Consensus 347 ~~~~~~~~~~~~~~~i~w~~~~~~~p~~ 374 (753)
+ +.+.+.|.++..+.|+.
T Consensus 475 l----------~i~~~~w~~~~~~v~~S 492 (878)
T KOG1056|consen 475 L----------NIEDLDWTTKPSGVPKS 492 (878)
T ss_pred c----------cceeeeeccCCCCCccc
Confidence 4 45778898888776644
No 32
>cd06391 PBP1_iGluR_delta_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are closer related to non-NMDA receptors. GluRdelta2 was shown to function as a
Probab=100.00 E-value=1.1e-32 Score=293.80 Aligned_cols=328 Identities=20% Similarity=0.285 Sum_probs=252.2
Q ss_pred ecCCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEee----cCCC-----CCCCC--CCCCceEE
Q 037761 6 LLKQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISF----FETS-----PALSP--TEHPFFIR 74 (753)
Q Consensus 6 ~~d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~----~a~~-----~~l~~--~~~~~~fr 74 (753)
..|-+|+..|..++|+|+++ +|.|++||.++..+..++.+|+.++||+|++ ++++ +.+++ ..||+++|
T Consensus 42 ~~d~~d~f~a~~~~c~l~~~-gv~ai~Gp~~~~~~~~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r 120 (400)
T cd06391 42 FVDGNNPFQAVQEACELMNQ-GILALVSSIGCTSAGSLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR 120 (400)
T ss_pred EeeCCCcHHHHHHHHHHHhC-CeEEEECCCcchHHHHHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec
Confidence 33668999999999999966 9999999988888899999999999999974 3322 23442 46777777
Q ss_pred EecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCch---hhHHH-HHHHHhc
Q 037761 75 VTQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAED---FQISK-ELSKLST 150 (753)
Q Consensus 75 ~~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~---~d~~~-~l~~l~~ 150 (753)
|+ ..++.++++++++|+|++++++ .|+++|....+.+.+.+++.|+||..... .....+ ..++. .+.+|++
T Consensus 121 --p~-~~~~~ai~~li~~f~W~~v~i~-~d~~~~~~~l~~l~~~~~~~~i~I~~~~~-~~~~~~~~~~~~~~~~~~~l~~ 195 (400)
T cd06391 121 --PP-VYLNDVILRVVTEYAWQKFIIF-YDTDYDIRGIQEFLDKVSQQGMDVALQKV-ENNINKMITGLFRTMRIEELNR 195 (400)
T ss_pred --Ch-HHHHHHHHHHHHHcCCcEEEEE-EeCCccHHHHHHHHHHHHHcCCeEEEEec-CcchhhhhHHHHHHHHHHHHHh
Confidence 54 6788999999999999999976 46778889999999999999999987442 211111 12332 4456655
Q ss_pred --CCccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHH
Q 037761 151 --MQTRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRW 228 (753)
Q Consensus 151 --~~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~ 228 (753)
.+.++||+.++.+.+..++++|+++||...+|+||.++......+... ...+...|+.++..+.+......+|..+|
T Consensus 196 ~~~~~rviVl~~~~~~~~~ll~~a~~~gm~~~~y~wi~t~~~~~~~dl~~-~~~~~~~~v~~~r~~~~~~~~~~~~~~r~ 274 (400)
T cd06391 196 YRDTLRRAILVMNPATAKSFITEVVETNLVAFDCHWIIINEEISDMDVQE-LVRRSIGRLTIIRQTFPLPQNISQRCFRG 274 (400)
T ss_pred hcccccEEEEECCcHHHHHHHHHHHHcCCCCCCeEEEEeCccccccccch-HHhcccceEEEeccCCchHHHHHHHHHHH
Confidence 677999999999999999999999999999999999999877665532 23344556666777666667778888888
Q ss_pred HHhhCCCC--CCC-CccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccC--CCccccchHHHHHHHH
Q 037761 229 KSKLHSMK--PNS-SVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFG--SLGFSRIGHILCNQIL 303 (753)
Q Consensus 229 ~~~~~~~~--~~~-~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~l~ 303 (753)
..+++... |.. ....++.+++++||||+++|+|++++.......... ..+|. +...|..|..|.++|+
T Consensus 275 ~~~~~~~~~~~~~~~~~~~~~~~alayDaV~~~A~A~~~l~~~~~~~~~~-------~~~c~~~~~~~w~~G~~ll~~i~ 347 (400)
T cd06391 275 NHRISSSLCDPKDPFAQMMEISNLYIYDTVLLLANAFHKKLEDRKWHSMA-------SLSCIRKNSKPWQGGRSMLETIK 347 (400)
T ss_pred hhhccccccCccccccccccchhhHHHHHHHHHHHHHHHHHhhccccCCC-------CcccccCCCCCCCChHHHHHHHH
Confidence 88764321 211 122467899999999999999999873221111111 22232 2357899999999999
Q ss_pred hcccccceeeEEe-eCCccceeEEEEEEEe-----ccc-eEEEEeecCCCc
Q 037761 304 NTQFKGLSGEFHL-VNGQLESSVFEIVNVI-----GTG-RVVGYWTSEKGL 347 (753)
Q Consensus 304 ~~~f~g~~G~v~f-~~g~~~~~~y~i~~~~-----~~~-~~vg~~~~~~~~ 347 (753)
+++|+|+||+++| ++|++.+..|+|+|+. ++| ++||+|++..++
T Consensus 348 ~~~f~GlTG~i~f~~~g~r~~~~~dIin~~~~~~~~~g~rkiG~Ws~~~gl 398 (400)
T cd06391 348 KGGVSGLTGELEFNENGGNPNVHFEILGTNYGEDLGRGVRKLGCWNPITGL 398 (400)
T ss_pred hcCcccceeceEECCCCCccCCceEEEEeeccccCCCcceEEEEEcCCcCC
Confidence 9999999999999 8899989999999996 677 999999988775
No 33
>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure [].; PDB: 3SAJ_D 3Q41_B 3QEM_C 3QEK_A 3QEL_C 3MQ4_A 3QLV_G 3OM1_A 3QLU_A 3OM0_A ....
Probab=100.00 E-value=1.4e-32 Score=293.45 Aligned_cols=307 Identities=29% Similarity=0.422 Sum_probs=251.2
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC--CCCCceEEEecCcHHHHHHHH
Q 037761 10 FKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP--TEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~--~~~~~~fr~~p~~~~~~~a~~ 87 (753)
+++..+...+...+..++|.|||||.|+..+.+++.+++.+++|+|+++++++.+++ ..||+++|+.|++..++.+++
T Consensus 34 ~~~~~~~~~~~~~~~~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is~~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~ 113 (348)
T PF01094_consen 34 SDDSFALQAAICSLNKQGVVAVIGPSCSSSAEAVASLASEWNIPQISPGSTSPSLSDRKTRYPTFFRTVPSDSSQARALV 113 (348)
T ss_dssp TTTHHHHHHHHHHHHHHTECEEEETSSHHHHHHHHHHHHHTT-EEEESSGGSGGGGSTTTTTTTEEESSB-HHHHHHHHH
T ss_pred cCCcccccchhhhccCCCcEEEECCCcccccchhheeecccccceeeccccccccccchhhccccccccccHHHHHHHHH
Confidence 377777777777777679999999999999999999999999999999999999987 589999999999999999999
Q ss_pred HHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhC-CeEEEE-eeccCCCCchhhHHHHHHHHhc--CCccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQEN-DIRISH-MSKIPTSAEDFQISKELSKLST--MQTRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~-g~~v~~-~~~~~~~~~~~d~~~~l~~l~~--~~~~vIi~~~~~~ 163 (753)
+++++++|++|++|++++++|.+..+.+.+.+++. +.++.. ..... . ..+....+..+++ .++++|++++...
T Consensus 114 ~~l~~~~w~~v~vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~--~~~~~~~~~~l~~~~~~~rvvil~~~~~ 190 (348)
T PF01094_consen 114 DLLKHFGWTRVSVVYSDDDYGNSLADSFQDLLRERGGICVAFISVVIS-S--DSDAEELLKKLKEIKSGARVVILCSSPE 190 (348)
T ss_dssp HHHHHTTSSEEEEEEESSHHHHHHHHHHHHHHHHHTTCEEEEEEEEET-T--TSHHHHHHHHHHHHTTTTSEEEEESBHH
T ss_pred HhhhcCCCceeeeeccccccccccchhhhhhhcccccceecccccccc-c--ccchhhhhhhhhhccccceeeeeecccc
Confidence 99999999999999999999999999999999995 555555 23222 2 3355555555555 9999999999999
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCCCccc
Q 037761 164 LASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNSSVTE 243 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~ 243 (753)
++..++++|.+.||...+++||.++.+................|++++....+..+.+++|.++|++.............
T Consensus 191 ~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~ 270 (348)
T PF01094_consen 191 DARQFLEAAYELGMTSGDYVWILTDLDNSSFWQNNEDFREAFQGVLGFTPPPPSSPEFEDFMKKWKESNNQSSTSGSDQE 270 (348)
T ss_dssp HHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTSTHCHHHCCHTTEEEEEESTTTSHHHHHHHHHHHTTTHTTTTTTTTSS
T ss_pred cccccccchhhhhccccceeEEeecccccccccccccccccccceeeeeeecccccchhhhhcccChhhccCcccccccc
Confidence 99999999999999999999999998765532223456778899999999888889999999999976432111122337
Q ss_pred cchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-e-CCcc
Q 037761 244 INISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-V-NGQL 321 (753)
Q Consensus 244 ~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~-~g~~ 321 (753)
+..+++++|||++++++|++++........ .....|.+|..|.+.|+++.|.|++|++.| + +|++
T Consensus 271 ~~~~~~~~yDAv~~~a~al~~~~~~~~~~~-------------~~~~~~~~g~~l~~~l~~~~f~G~tG~v~f~~~~G~~ 337 (348)
T PF01094_consen 271 PSPYAAYAYDAVYLLAHALNRALQDGGPVT-------------NGRNPWQNGSQLLKYLRNVSFEGLTGRVSFDSNDGDR 337 (348)
T ss_dssp GCHHHHHHHHHHHHHHHHHHHHHHHHSTTT-------------SSSGTSTTHHHHHHHHHTEEEEETTEEEEEETTTSBE
T ss_pred cceeeeeehhhhHHHHHHHHHHHHhccCCC-------------CCccccccHHHHHHHHhheeeeCCCCCEEEeCCCCCc
Confidence 788999999999999999999953211100 001457789999999999999999999999 7 8899
Q ss_pred ceeEEEEEEEe
Q 037761 322 ESSVFEIVNVI 332 (753)
Q Consensus 322 ~~~~y~i~~~~ 332 (753)
....|.|+++|
T Consensus 338 ~~~~~~i~~~~ 348 (348)
T PF01094_consen 338 TNYDYDILNMQ 348 (348)
T ss_dssp ESEEEEEEEE-
T ss_pred CCCEEEEEECC
Confidence 88999999986
No 34
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=1.5e-31 Score=281.65 Aligned_cols=311 Identities=16% Similarity=0.271 Sum_probs=241.9
Q ss_pred ecCCCChHHHHHHHHHHHhcCCeEEEE-cCCCCC--cHHHHHHhhccCCccEEeecCCCC-CCCC-CCCCceEEEecCcH
Q 037761 6 LLKQFKDCGKLILAVDLLKKFQVQAII-GPQIPA--AAPFLVELGEKAQVPIISFFETSP-ALSP-TEHPFFIRVTQNDS 80 (753)
Q Consensus 6 ~~d~~~~~~a~~~a~~Li~~~~V~avi-G~~~s~--~~~av~~i~~~~~vP~is~~a~~~-~l~~-~~~~~~fr~~p~~~ 80 (753)
.++..||.+...+.|+|+.+.+|.|+| ||.++. .+..++.++++++||+|++++.++ .+++ ..+|+|+|+.|++.
T Consensus 41 ~~~~~d~~~~~~~vC~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~~Psd~ 120 (362)
T cd06378 41 LVNETDPKSILTQLCDLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQFGPSIE 120 (362)
T ss_pred ecCCCCHHHHHHHHHHHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEecccccccccCCCCCceEEEeCCCHH
Confidence 348899999999999999987899866 999987 556788888889999999976655 5565 68999999999999
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCc-hhhHHHHHHHHhcCCccEEEEE
Q 037761 81 LQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAE-DFQISKELSKLSTMQTRVFIVH 159 (753)
Q Consensus 81 ~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~~d~~~~l~~l~~~~~~vIi~~ 159 (753)
.|+.++++++++|+|++|++|+++++.+.++.+.+++.+.+.++|+.....++...+ +.+....+.++++.++++|+++
T Consensus 121 ~q~~Ai~~Ii~~f~W~~v~iV~~~~~g~~~~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~lk~~~arViVl~ 200 (362)
T cd06378 121 QQAAVMLKIMEEYDWHAFSVVTSRFPGYDDFVSAVRTTVDNSFVGWELQSVLTLDMSDDDGDARTQRQLKKLESQVILLY 200 (362)
T ss_pred HHHHHHHHHHHHCCCeEEEEEEEcCCCHHHHHHHHHHHHhhcccceeEEEEEeeccCCCcchHHHHHHHHhcCCCEEEEE
Confidence 999999999999999999999999988888888888888777776654433332222 2247788899999999999999
Q ss_pred eChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCC
Q 037761 160 MNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNS 239 (753)
Q Consensus 160 ~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~ 239 (753)
|+.+++..++++|+++||+..+|+||+++........ ...+...|++++.. ++|+.
T Consensus 201 ~s~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~---~~~~~~~G~i~v~~------------~~w~~--------- 256 (362)
T cd06378 201 CSKEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDL---GPSEFPVGLISVSY------------DGWRY--------- 256 (362)
T ss_pred CCHHHHHHHHHHHHHcCCcCCCeEEEecccccCCCcc---ccccCCcceEeecc------------ccccc---------
Confidence 9999999999999999999999999999986654211 11133466666542 12211
Q ss_pred CccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC-Cc-cccchHHHHHHHHhcccccceeeEEe-
Q 037761 240 SVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGS-LG-FSRIGHILCNQILNTQFKGLSGEFHL- 316 (753)
Q Consensus 240 ~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~l~~~l~~~~f~g~~G~v~f- 316 (753)
.+.+..||||+++|+|++.++.. ....+.. ..+|.. .. .|..|..|.++|++++|+|. +++|
T Consensus 257 ------~~~a~~~DaV~vva~Al~~l~~~-~~~~~~~------~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~ 321 (362)
T cd06378 257 ------SLRARVRDGVAIIATGASAMLRQ-HGFIPEA------KGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFT 321 (362)
T ss_pred ------cHHHHHHHHHHHHHHHHHHHHhc-cCCCCCC------CCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeEC
Confidence 12567899999999999988532 2221111 112221 12 37789999999999999996 9999
Q ss_pred eCCccceeEEEEEEEec-cc-eEEEEeecCCCcccccccCccCCCCceecCC
Q 037761 317 VNGQLESSVFEIVNVIG-TG-RVVGYWTSEKGLTQTLDLTSKNDLKQIIWPG 366 (753)
Q Consensus 317 ~~g~~~~~~y~i~~~~~-~~-~~vg~~~~~~~~~~~~~~~~~~~~~~i~w~~ 366 (753)
++|++.++.|+|++++. ++ ++||+|+++. + ..+...||+
T Consensus 322 ~~G~r~~~~ldIinl~~~~g~~kVG~W~~~~-L----------~~~~~~wp~ 362 (362)
T cd06378 322 EDGYLVNPKLVVISLNKERVWEEVGKWENGS-L----------RLKYPVWPR 362 (362)
T ss_pred CCCeEccceEEEEEecCCCCceEEEEEcCCe-E----------EEecCCCCC
Confidence 99999999999999996 47 9999998443 3 246688885
No 35
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=7.6e-32 Score=284.38 Aligned_cols=277 Identities=21% Similarity=0.319 Sum_probs=229.4
Q ss_pred CC-CChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQ-FKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~-~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
++ ++|.+++.++|+|+++ +|.+||||.+|+.+.+++++++.+++|+|+++++++.++ .++++||+.|++..++.++
T Consensus 44 ~~~~~~~~a~~~~~~li~~-~V~aiiG~~~S~~~~av~~~~~~~~vP~Is~~~~~~~~~--~~~~~fr~~p~~~~~~~a~ 120 (327)
T cd06382 44 VKPDDSFETTKKVCDLLQQ-GVAAIFGPSSSEASSIVQSICDAKEIPHIQTRWDPEPKS--NRQFTINLYPSNADLSRAY 120 (327)
T ss_pred ecCCCcHHHHHHhhhhhhc-CcEEEECCCChhHHHHHHHHHhccCCCceeccCCcCccc--cccceEEeCCCHHHHHHHH
Confidence 55 8999999999999987 999999999999999999999999999999988887776 4578999999999999999
Q ss_pred HHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCe---EEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 87 SAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDI---RISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 87 ~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~---~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
++++++++|+++++++++++++.. +.+.+++.|. .+.. +.++.+ . |++++|.+|++++||+|++.+...
T Consensus 121 ~~~~~~~~w~~vavl~~~~~~~~~----l~~~~~~~~~~g~~v~~-~~~~~~--~-d~~~~l~~i~~~~~d~vv~~~~~~ 192 (327)
T cd06382 121 ADIVKSFNWKSFTIIYESAEGLLR----LQELLQAFGISGITITV-RQLDDD--L-DYRPLLKEIKNSGDNRIIIDCSAD 192 (327)
T ss_pred HHHHHhcCCcEEEEEecChHHHHH----HHHHHHhhccCCCeEEE-EEccCC--c-cHHHHHHHHHhcCceEEEEECCHH
Confidence 999999999999999998886554 4444444443 4443 456543 4 999999999999999999999999
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCCCccc
Q 037761 164 LASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNSSVTE 243 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~ 243 (753)
++..+++||+++||..+.++|+.++......... .......++.++..+.++.+..++|.++|+++|+...+......
T Consensus 193 ~~~~~~~qa~~~g~~~~~~~~i~~~~~~~~~~l~--~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~ 270 (327)
T cd06382 193 ILIELLKQAQQVGMMSEYYHYIITNLDLHTLDLE--DYRYSGVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTG 270 (327)
T ss_pred HHHHHHHHHHHhCccccceEEEEecCCccccchh--hhccCceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCC
Confidence 9999999999999988889999977655432221 12223346777777777889999999999999986433333345
Q ss_pred cchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-eCCccc
Q 037761 244 INISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-VNGQLE 322 (753)
Q Consensus 244 ~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~g~~~ 322 (753)
|+.+++.+|||++++ |+||.++| ++|+|.
T Consensus 271 p~~~~a~~yDav~~~--------------------------------------------------g~tG~v~f~~~g~r~ 300 (327)
T cd06382 271 VTTESALMYDAVYLF--------------------------------------------------GLTGRIEFDSSGQRS 300 (327)
T ss_pred cchhhhhhhceEEEe--------------------------------------------------ecccceeeCCCCCEe
Confidence 788899999998654 89999999 899999
Q ss_pred eeEEEEEEEeccc-eEEEEeecCCCc
Q 037761 323 SSVFEIVNVIGTG-RVVGYWTSEKGL 347 (753)
Q Consensus 323 ~~~y~i~~~~~~~-~~vg~~~~~~~~ 347 (753)
+..|+|+++.+++ .+||.|++..++
T Consensus 301 ~~~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 301 NFTLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred eeEEEEEeccccCceEEEEECCCCCc
Confidence 9999999999777 999999886653
No 36
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=100.00 E-value=5.3e-31 Score=279.42 Aligned_cols=287 Identities=18% Similarity=0.215 Sum_probs=248.0
Q ss_pred eeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHH
Q 037761 4 LLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQ 82 (753)
Q Consensus 4 l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~ 82 (753)
++.. ++++|..++.++++|+++ +|.+|+||.+|..+.+++++++..+||+|+++++++.+.+..+|++||+.|++..+
T Consensus 43 ~~~~D~~~~~~~~~~~~~~li~~-~v~aiiG~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~ 121 (334)
T cd06342 43 LVVEDDQADPKQAVAVAQKLVDD-GVVGVVGHLNSGVTIPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQ 121 (334)
T ss_pred EEEecCCCChHHHHHHHHHHHhC-CceEEECCCccHhHHHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHH
Confidence 3334 789999999999999998 99999999999999999999999999999998877777766789999999999999
Q ss_pred HHHHHHHH-HHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 83 VKAISAVL-QNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 83 ~~a~~~~l-~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
+.++++++ ++++|++|++++.+++||....+.+++.+++.|++|+..+.++.+ ..|++..+.++++.++|+|++.+.
T Consensus 122 ~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~d~~~~l~~i~~~~~~~vi~~~~ 199 (334)
T cd06342 122 GPAAAKYAVETLKAKKVAIIDDKTAYGQGLADEFKKALKAAGGKVVAREGTTDG--ATDFSAILTKIKAANPDAVFFGGY 199 (334)
T ss_pred HHHHHHHHHHhcCCCEEEEEeCCcchhhHHHHHHHHHHHHcCCEEEEEecCCCC--CccHHHHHHHHHhcCCCEEEEcCc
Confidence 99999976 578999999999999999999999999999999999999888754 679999999999999999999999
Q ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHHHHHhhCCCCCCC
Q 037761 162 TALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRRWKSKLHSMKPNS 239 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~~~~~~~~~~~~~ 239 (753)
.+++..+++++++.|+. ..|++.+.+... .+.....+..+|++....+.+ ..+..++|.++|+++++.
T Consensus 200 ~~~~~~~~~~~~~~g~~---~~~~~~~~~~~~--~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~----- 269 (334)
T cd06342 200 YPEAGPLVRQMRQLGLK---APFMGGDGLCDP--EFIKIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKFGD----- 269 (334)
T ss_pred chhHHHHHHHHHHcCCC---CcEEecCccCCH--HHHHHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHhCC-----
Confidence 99999999999999973 356766544321 111223356778887766554 468889999999999986
Q ss_pred CccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-eC
Q 037761 240 SVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-VN 318 (753)
Q Consensus 240 ~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~ 318 (753)
.++.++..+||+++++++|++++ +. .++..|.++|++..|+|++|++.| +|
T Consensus 270 ---~~~~~~~~~yda~~~~~~al~~~-~~------------------------~~~~~v~~~l~~~~~~g~~g~i~f~~~ 321 (334)
T cd06342 270 ---PPGAYAPYAYDAANVLAEAIKKA-GS------------------------TDPAKVADALRKVDFDGVTGKISFDAK 321 (334)
T ss_pred ---CCchhHHHHHHHHHHHHHHHHHh-CC------------------------CCHHHHHHHHHhCCCCCcceeeEECCC
Confidence 56788999999999999999998 21 345889999999999999999999 89
Q ss_pred CccceeEEEEEEE
Q 037761 319 GQLESSVFEIVNV 331 (753)
Q Consensus 319 g~~~~~~y~i~~~ 331 (753)
|++....|.|+||
T Consensus 322 g~~~~~~~~~~~~ 334 (334)
T cd06342 322 GDLKGAAVTVYQV 334 (334)
T ss_pred CCcccCcEEEEeC
Confidence 9998899999986
No 37
>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3e-31 Score=282.37 Aligned_cols=284 Identities=16% Similarity=0.161 Sum_probs=240.5
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
|++||..++.++++|+++++|.+||||.+|..+.++.++++.+++|+|+++++++.++...+|++||+.|++..++.+++
T Consensus 52 ~~~~~~~a~~~~~~li~~~~v~aviG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~ 131 (345)
T cd06338 52 DQSNPARAARAYERLITQDKVDFLLGPYSSGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLL 131 (345)
T ss_pred CCCCHHHHHHHHHHHHhhcCccEEecCCcchhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHH
Confidence 88999999999999999889999999999999999999999999999999988887776678999999999999999999
Q ss_pred HHHHHcC--CeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHH
Q 037761 88 AVLQNFS--WHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALA 165 (753)
Q Consensus 88 ~~l~~~~--w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~ 165 (753)
+++.+++ |+++++++.+++||....+.+.+.+++.|++|+....++.+ .+|+++.+++|++.++|+|++++...+.
T Consensus 132 ~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~d~~~~v~~l~~~~~d~i~~~~~~~~~ 209 (345)
T cd06338 132 EMLVALDPRPKKVAILYADDPFSQDVAEGAREKAEAAGLEVVYDETYPPG--TADLSPLISKAKAAGPDAVVVAGHFPDA 209 (345)
T ss_pred HHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHHcCCEEEEEeccCCC--ccchHHHHHHHHhcCCCEEEECCcchhH
Confidence 9998887 99999999999999999999999999999999988877654 5799999999999999999999999999
Q ss_pred HHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCC-------ChhhhHHHHHHHHhhCCCCCC
Q 037761 166 SRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPK-------SKELGLFDRRWKSKLHSMKPN 238 (753)
Q Consensus 166 ~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~-------~~~~~~F~~~~~~~~~~~~~~ 238 (753)
..+++++++.|+..+ .. ..+.+... ..+.....+..+|+++...+.+. .|..++|.++|+++|+.
T Consensus 210 ~~~~~~~~~~g~~~~-~~-~~~~~~~~--~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~---- 281 (345)
T cd06338 210 VLLVRQMKELGYNPK-AL-YMTVGPAF--PAFVKALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYGK---- 281 (345)
T ss_pred HHHHHHHHHcCCCCC-EE-EEecCCCc--HHHHHHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHhCC----
Confidence 999999999998532 22 22222211 11112234456788877665543 36789999999999986
Q ss_pred CCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-e
Q 037761 239 SSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-V 317 (753)
Q Consensus 239 ~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~ 317 (753)
.|+.++..+||+++++++|++++ +. .++.+|.++|++++|+|++|++.| +
T Consensus 282 ----~p~~~~~~~y~a~~~~~~a~~~a-g~------------------------~~~~~v~~al~~~~~~~~~G~~~f~~ 332 (345)
T cd06338 282 ----APDYHAAGAYAAGQVLQEAVERA-GS------------------------LDPAAVRDALASNDFDTFYGPIKFDE 332 (345)
T ss_pred ----CCCcccHHHHHHHHHHHHHHHHh-CC------------------------CCHHHHHHHHHhCCCcccccCeeECC
Confidence 56778899999999999999998 32 345889999999999999999999 8
Q ss_pred CCccceeEEEEEEE
Q 037761 318 NGQLESSVFEIVNV 331 (753)
Q Consensus 318 ~g~~~~~~y~i~~~ 331 (753)
+|++.. .+.+++|
T Consensus 333 ~~~~~~-~~~~~~~ 345 (345)
T cd06338 333 TGQNNH-PMTVVQW 345 (345)
T ss_pred CCCcCC-CceeeeC
Confidence 899844 5556554
No 38
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=99.98 E-value=1.6e-30 Score=277.17 Aligned_cols=292 Identities=13% Similarity=0.168 Sum_probs=248.3
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSL 81 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~ 81 (753)
+|+.. ++++|..|++++++|++ ++|.+|||+.+|+.+.++++++...++|+|+++++++.+++..++|+||+.+.+..
T Consensus 68 elv~~D~~~~p~~a~~~~~~Li~-~~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~ 146 (369)
T PRK15404 68 EGVEYDDACDPKQAVAVANKVVN-DGIKYVIGHLCSSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSD 146 (369)
T ss_pred EEEeecCCCCHHHHHHHHHHHHh-CCceEEEcCCCchhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHH
Confidence 45555 67999999999999996 69999999999999999999999999999999999998887778999999999999
Q ss_pred HHHHHHHHH-HHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 82 QVKAISAVL-QNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 82 ~~~a~~~~l-~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
++.++++++ ++++|++++++++|+.||+...+.+++.+++.|++++..+.++.+ .+|+.+++.++++.+||+|++.+
T Consensus 147 ~~~~~~~~~~~~~~~k~va~i~~d~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~g--~~D~~~~v~~l~~~~~d~v~~~~ 224 (369)
T PRK15404 147 QGPTAAKYILEKVKPKRIAVLHDKQQYGEGLARSVKDGLKKAGANVVFFEGITAG--DKDFSALIAKLKKENVDFVYYGG 224 (369)
T ss_pred HHHHHHHHHHHhcCCCEEEEEeCCCchhHHHHHHHHHHHHHcCCEEEEEEeeCCC--CCchHHHHHHHHhcCCCEEEECC
Confidence 999999976 567999999999999999999999999999999999988888754 67999999999999999999888
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEe-CCCChhhhHHHHHHHHhhCCCCCCC
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSH-LPKSKELGLFDRRWKSKLHSMKPNS 239 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~-~~~~~~~~~F~~~~~~~~~~~~~~~ 239 (753)
...+...++++++++|+.. .|+++++.... .+.....+..+|+++...+ ....|..++|.+.|+++++.
T Consensus 225 ~~~~~~~~~k~~~~~G~~~---~~i~~~~~~~~--~~~~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~~~----- 294 (369)
T PRK15404 225 YHPEMGQILRQAREAGLKT---QFMGPEGVGNK--SLSNIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKKQD----- 294 (369)
T ss_pred CchHHHHHHHHHHHCCCCC---eEEecCcCCCH--HHHHhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhcCC-----
Confidence 8888999999999999742 46666543321 1112234567888865443 23457889999999988754
Q ss_pred CccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-eC
Q 037761 240 SVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-VN 318 (753)
Q Consensus 240 ~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~ 318 (753)
+++.++..+||++++++.|++++ +. .+++.|.++|++.+|+|++|++.| .+
T Consensus 295 ---~~~~~~~~~Y~~~~~l~~Al~~a-G~------------------------~~~~~l~~al~~~~~~~~~G~~~~~~~ 346 (369)
T PRK15404 295 ---PSGPFVWTTYAAVQSLAAGINRA-GS------------------------DDPAKVAKYLKANTFDTVIGPLSWDEK 346 (369)
T ss_pred ---CCccchHHHHHHHHHHHHHHHhh-CC------------------------CCHHHHHHHHHhCCCCcceEeeEECCC
Confidence 55667889999999999999998 32 245889999999999999999999 88
Q ss_pred CccceeEEEEEEEeccc
Q 037761 319 GQLESSVFEIVNVIGTG 335 (753)
Q Consensus 319 g~~~~~~y~i~~~~~~~ 335 (753)
|+.....|.|.+|++++
T Consensus 347 g~~~~~~~~i~~~~~~~ 363 (369)
T PRK15404 347 GDLKGFEFGVFEWHADG 363 (369)
T ss_pred CCcccCCEEEEEEEcCC
Confidence 98877889999999765
No 39
>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=99.97 E-value=1.8e-30 Score=276.05 Aligned_cols=280 Identities=17% Similarity=0.236 Sum_probs=235.9
Q ss_pred eeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC----CCCCceEEEecC
Q 037761 4 LLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP----TEHPFFIRVTQN 78 (753)
Q Consensus 4 l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~----~~~~~~fr~~p~ 78 (753)
++.. ++++|..|++++++|+.+++|.+||||.+|..+.+++++++.+++|+|+++++++.+++ ..+|++||+.|+
T Consensus 43 l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~ 122 (344)
T cd06345 43 LVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYSSEVVLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPT 122 (344)
T ss_pred EEEecCCCCHHHHHHHHHHHhccCCceEEECCcchHHHHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCC
Confidence 3344 88999999999999999889999999999999999999999999999999888888873 578999999999
Q ss_pred cHHHHHHHHHHHHH-----cCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCc
Q 037761 79 DSLQVKAISAVLQN-----FSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQT 153 (753)
Q Consensus 79 ~~~~~~a~~~~l~~-----~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~ 153 (753)
+..++.++++++.+ ++|++|++++.+++||....+.+++.+++.|++|+..+.++.+ ..|++..+.+|++.++
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~v~~l~~~~~ 200 (344)
T cd06345 123 NSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWGKGIDAGIKALLPEAGLEVVSVERFSPD--TTDFTPILQQIKAADP 200 (344)
T ss_pred cHHHHHHHHHHHHHhhcccCCCceEEEEecCchhhhHHHHHHHHHHHHcCCeEEEEEecCCC--CCchHHHHHHHHhcCC
Confidence 99999999998865 8999999999999999999999999999999999998888754 6799999999999999
Q ss_pred cEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC----CChhhhHHHHHHH
Q 037761 154 RVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP----KSKELGLFDRRWK 229 (753)
Q Consensus 154 ~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~----~~~~~~~F~~~~~ 229 (753)
|+|++.+.+.++..+++++++.|+.. .++....+... ..+.....+..+|.+....+.+ ..+..++|.++|+
T Consensus 201 d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~ 276 (344)
T cd06345 201 DVIIAGFSGNVGVLFTQQWAEQKVPI---PTIGISVEGNS-PAFWKATNGAGNYVITAESGAPGVEAITDKTVPFTEAYE 276 (344)
T ss_pred CEEEEeecCchHHHHHHHHHHcCCCC---ceEEecCCcCC-HHHHHhhchhcceEEeecccccCccCCCHHHHHHHHHHH
Confidence 99999999999999999999999742 23333322211 1111222344566665443332 4678899999999
Q ss_pred HhhCCCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhccccc
Q 037761 230 SKLHSMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKG 309 (753)
Q Consensus 230 ~~~~~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g 309 (753)
++|+. .|+.+++.+||+++++++|++++ +. .++.+|.++|++.+|+|
T Consensus 277 ~~~g~--------~p~~~~~~~yda~~~l~~A~~~a-g~------------------------~~~~~i~~al~~~~~~g 323 (344)
T cd06345 277 AKFGG--------PPNYMGASTYDSIYILAEAIERA-GS------------------------TDGDALVEALEKTDFVG 323 (344)
T ss_pred HHhCC--------CCcccchHHHHHHHHHHHHHHHh-cC------------------------CCHHHHHHHHHhCCCcC
Confidence 99987 78889999999999999999998 32 34588999999999999
Q ss_pred ceeeEEe-eCCccc
Q 037761 310 LSGEFHL-VNGQLE 322 (753)
Q Consensus 310 ~~G~v~f-~~g~~~ 322 (753)
++|.++| ++||+.
T Consensus 324 ~~G~i~f~~~g~~~ 337 (344)
T cd06345 324 TAGRIQFYGDDSAF 337 (344)
T ss_pred CceeEEECCCCCcC
Confidence 9999999 999983
No 40
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=99.97 E-value=1.7e-30 Score=271.82 Aligned_cols=265 Identities=18% Similarity=0.251 Sum_probs=226.0
Q ss_pred eeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHH-HHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcH
Q 037761 4 LLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFL-VELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDS 80 (753)
Q Consensus 4 l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av-~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~ 80 (753)
++.. |+++|.+|+.++++|+.+++|.+|+||.+|+.+.++ +++++..++|+|+++++++.+++ ..++++||+.|++.
T Consensus 43 l~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~~~a~~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~fr~~~~~~ 122 (312)
T cd06346 43 LVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGVTIAALTSVAVPNGVVMISPSSTSPTLTTLDDNGLFFRTAPSDA 122 (312)
T ss_pred EEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchhhHhhhhhhhccCCcEEEecCCCCccceecCCCceEEEecCCcH
Confidence 3444 789999999999999999999999999999999999 99999999999999999999886 56789999999999
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 81 LQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 81 ~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
.++.++++++.+++|+++++|+.|++||.+..+.+++.+++.|++|+..+.++.+ ++|+++.+.++++.+||+|++.+
T Consensus 123 ~~~~~l~~~~~~~~~~~vail~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~v~~l~~~~pd~v~~~~ 200 (312)
T cd06346 123 LQGQALAQLAAERGYKSVATTYINNDYGVGLADAFTKAFEALGGTVTNVVAHEEG--KSSYSSEVAAAAAGGPDALVVIG 200 (312)
T ss_pred HHHHHHHHHHHHcCCCeEEEEEccCchhhHHHHHHHHHHHHcCCEEEEEEeeCCC--CCCHHHHHHHHHhcCCCEEEEec
Confidence 9999999999999999999999999999999999999999999999998888765 77999999999999999999999
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCCC
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNSS 240 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~ 240 (753)
.+.++..++++++++|+. ..|++++++... ...........+|+++...+.+ .+..++|.++|+++|+.
T Consensus 201 ~~~~~~~~~~~~~~~G~~---~~~~~~~~~~~~-~~~~~~~~~~~~g~~~~~~~~~-~~~~~~f~~~~~~~~g~------ 269 (312)
T cd06346 201 YPETGSGILRSAYEQGLF---DKFLLTDGMKSD-SFLPADGGYILAGSYGTSPGAG-GPGLEAFTSAYKAAYGE------ 269 (312)
T ss_pred ccchHHHHHHHHHHcCCC---CceEeeccccCh-HHHHhhhHHHhCCcEEccCCCC-chhHHHHHHHHHHHhCC------
Confidence 999999999999999973 246665553321 1111122345678887655443 38889999999999987
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-eCC
Q 037761 241 VTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-VNG 319 (753)
Q Consensus 241 ~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~g 319 (753)
.|+.+++.+||+++++++| |.|++|+++| ++|
T Consensus 270 --~p~~~~~~~Yd~~~~l~~A---------------------------------------------~~g~~g~~~f~~~g 302 (312)
T cd06346 270 --SPSAFADQSYDAAALLALA---------------------------------------------YQGASGVVDFDENG 302 (312)
T ss_pred --CCCccchhhHHHHHHHHHH---------------------------------------------hCCCccceeeCCCC
Confidence 6888899999999998765 6778999999 889
Q ss_pred ccceeEEEEE
Q 037761 320 QLESSVFEIV 329 (753)
Q Consensus 320 ~~~~~~y~i~ 329 (753)
++.. .|+-+
T Consensus 303 ~~~~-~~~~~ 311 (312)
T cd06346 303 DVAG-SYDEW 311 (312)
T ss_pred Cccc-ceeee
Confidence 8743 66543
No 41
>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=99.97 E-value=5.5e-30 Score=270.16 Aligned_cols=276 Identities=21% Similarity=0.322 Sum_probs=227.9
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
+++|..|+.++|+|+. ++|.+||||.+|+++.+++++++.++||+|+++++++.++ . ++.|++.|++..++.++++
T Consensus 45 ~~~~~~a~~~a~~li~-~~V~aiiG~~~S~~~~av~~i~~~~~ip~is~~~~~~~~~-~--~~~~~~~~~~~~~~~a~~~ 120 (324)
T cd06368 45 TNDSFELTNKACDLLS-QGVAAIFGPSSSSSANTVQSICDALEIPHITTSWSPNPKP-R--QFTINLYPSMRDLSDALLD 120 (324)
T ss_pred CCChHHHHHHHHHHHh-cCcEEEECCCCHHHHHHHHHHHhccCCCcEEecCCcCCCC-C--cceEEecCCHHHHHHHHHH
Confidence 6999999999999998 6999999999999999999999999999999999888776 2 3445666888899999999
Q ss_pred HHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHH
Q 037761 89 VLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRL 168 (753)
Q Consensus 89 ~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~ 168 (753)
++++++|++|++++++++++.. .+.+.+.+++.|++++.....+ . .+|++++|.++++.++|+|++.++..++..+
T Consensus 121 ~~~~~~w~~vaii~~~~~~~~~-l~~~~~~~~~~g~~v~~~~~~~-~--~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i 196 (324)
T cd06368 121 LIKYFGWRKFVYIYDSDEGLLR-LQELLDALSPKGIQVTVRRLDD-D--TDMYRPLLKEIKREKERRIILDCSPERLKEF 196 (324)
T ss_pred HHHhcCCCEEEEEECCcHhHHH-HHHHHHhhccCCceEEEEEecC-C--chHHHHHHHHHhhccCceEEEECCHHHHHHH
Confidence 9999999999999987765544 4566677888899998765433 2 2389999999999999999999999999999
Q ss_pred HHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCCCccccchhH
Q 037761 169 FALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNSSVTEINISG 248 (753)
Q Consensus 169 ~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~ 248 (753)
++||+++||..+.++||+++........ ........++.++....+..|..++|.++|+++++...+......|+.++
T Consensus 197 ~~qa~~~g~~~~~~~~i~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~a 274 (324)
T cd06368 197 LEQAVEVGMMSEYYHYILTNLDFHTLDL--ELFRYGGVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTES 274 (324)
T ss_pred HHHHHHhccccCCcEEEEccCCccccch--hhhhcCCceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhh
Confidence 9999999998889999998764432211 11222334566666667778999999999999998644433334688899
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-eCCccceeEEE
Q 037761 249 LWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-VNGQLESSVFE 327 (753)
Q Consensus 249 ~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~g~~~~~~y~ 327 (753)
+.+|||++++ +|.+.| ++|++.+..++
T Consensus 275 a~~yDav~~~----------------------------------------------------tg~~~f~~~g~~~~~~~~ 302 (324)
T cd06368 275 ALTYDAVLLF----------------------------------------------------TGRIQFDENGQRSNFTLD 302 (324)
T ss_pred HhhhcEEEEe----------------------------------------------------eeeeEeCCCCcCcceEEE
Confidence 9999999654 789999 89999999999
Q ss_pred EEEEeccc-eEEEEeecCCC
Q 037761 328 IVNVIGTG-RVVGYWTSEKG 346 (753)
Q Consensus 328 i~~~~~~~-~~vg~~~~~~~ 346 (753)
|+++..++ .++|.|++..+
T Consensus 303 i~~~~~~~~~~~g~W~~~~~ 322 (324)
T cd06368 303 ILELKEGGLRKVGTWNPEDG 322 (324)
T ss_pred EEEEcCCCceEEEEECCCCC
Confidence 99999877 99999987654
No 42
>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=99.97 E-value=7.9e-29 Score=261.36 Aligned_cols=292 Identities=15% Similarity=0.211 Sum_probs=221.3
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCC--C------CCC-CCCCCceEEEecC
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETS--P------ALS-PTEHPFFIRVTQN 78 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~--~------~l~-~~~~~~~fr~~p~ 78 (753)
|++||.+|+.++|+|+++ +|.|||||.+|..+.+++++++..+||+|++.+.. + .+. +...+|.|++.|+
T Consensus 44 d~~d~~~a~~~~c~Li~~-gV~AI~G~~~s~~~~av~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~ 122 (363)
T cd06381 44 DLNNHFDAVQEACDLMNQ-GILALVTSTGCASAIALQSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPP 122 (363)
T ss_pred cCCChHHHHHHHHHHHhc-CcEEEEecCChhHHHHHHHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEecc
Confidence 889999999999999999 99999999999999999999999999999976422 1 111 1233566677777
Q ss_pred cHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHh-------cC
Q 037761 79 DSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLS-------TM 151 (753)
Q Consensus 79 ~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~-------~~ 151 (753)
+ .++.+++++++++||++|+++|++++++ ...+.+.+.+++.|+.++.. ....+ ....++..++.++ ..
T Consensus 123 ~-~~~~ai~~lv~~~~wkkvavly~~d~g~-~~l~~~~~~~~~~g~~v~~~-~~~~~-~~~~~~~l~~~~~~~~l~~~~~ 198 (363)
T cd06381 123 V-RLNDVMLRLVTEWRWQKFVYFYDNDYDI-RGLQEFLDQLSRQGIDVLLQ-KVDLN-ISKMATALFTTMRCEELNRYRD 198 (363)
T ss_pred H-HHHHHHHHHHHhCCCeEEEEEEECCchH-HHHHHHHHHHHhcCceEEEE-ecccc-cchhhhhhhhHHHHHHHHhhcc
Confidence 4 6889999999999999999999877644 45577778899999866543 22211 1112333333221 34
Q ss_pred CccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhh----HHHHH
Q 037761 152 QTRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELG----LFDRR 227 (753)
Q Consensus 152 ~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~----~F~~~ 227 (753)
+.++||+.|+++.+..++++|+++||...+|+|++++.+....... ........|++++...++..+..+ +|.+.
T Consensus 199 ~~~~vIl~~~~~~~~~~l~~a~~~gm~~~~~~wi~~~~l~~~~~~l-~~~~~~~~nitgfrl~~~~~~~~~~~~~~~~~~ 277 (363)
T cd06381 199 TLRRALLLLSPNGAYTFIDASVETNLAIKDSHWFLINEEISDTEID-ELVRYAHGRMTVIRQTFSKEKTNQRCLRNNHRI 277 (363)
T ss_pred cceEEEEEcCcHHHHHHHHHHHHcCCCcCceEEEEeccccccchhh-HHHhhcCccEEEEEEecCCcCchHHHHHHHHHH
Confidence 4558899999999999999999999998899999988887643322 345667889999999877766665 55666
Q ss_pred HHHhhCCCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhccc
Q 037761 228 WKSKLHSMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQF 307 (753)
Q Consensus 228 ~~~~~~~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f 307 (753)
|+..+... ++ ....+...++++||||+++ + ++|+++.|
T Consensus 278 ~~~~~~~~-~~-~~~~~~~~~al~yDaV~~~---~-------------------------------------~~~~~~~~ 315 (363)
T cd06381 278 SSLLCDPK-DG-YLQMLEISNLYIYDSVLLL---L-------------------------------------ETIKKGPI 315 (363)
T ss_pred HHhhcCCC-CC-CCCChhHHHHHHHHHHHHH---H-------------------------------------HHHHhcCc
Confidence 65433221 11 1225677899999999998 1 23678899
Q ss_pred ccceeeEEe-eCCccceeEEEEEEEe-ccc-----eEEEEeecCCCc
Q 037761 308 KGLSGEFHL-VNGQLESSVFEIVNVI-GTG-----RVVGYWTSEKGL 347 (753)
Q Consensus 308 ~g~~G~v~f-~~g~~~~~~y~i~~~~-~~~-----~~vg~~~~~~~~ 347 (753)
+|+||+|.| ++|.|.+..++|+++. .++ +.+|+|++..++
T Consensus 316 ~GLTG~i~F~~~g~r~~~~l~i~~~~~~~~~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 316 TGLTGKLEFNEGGDNSNVQFEILGTGYSETLGKDGRWLATWNPSKGL 362 (363)
T ss_pred cCcceeEEeCCCCCccccEEEEEEeccCCccccceEEeeeccCCCCC
Confidence 999999999 8999999999999998 331 889999887764
No 43
>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=99.97 E-value=1.1e-29 Score=270.74 Aligned_cols=262 Identities=33% Similarity=0.484 Sum_probs=225.5
Q ss_pred CCCChHHHHHHHHHHHhc-------------CCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceE
Q 037761 8 KQFKDCGKLILAVDLLKK-------------FQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFI 73 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~-------------~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~f 73 (753)
++|+|.+|+.++++|+.+ ++|.+||||.+|+++.+++++++.+++|+|+++++++.+++ ..+|++|
T Consensus 59 ~~~~~~~a~~~a~~li~~~~~~~~~~~~~~~~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~~~~ls~~~~~~~~f 138 (348)
T cd06350 59 SCCSPAVALRAALDLLLSGEGTTPPYSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSPLLSDKLQFPSFF 138 (348)
T ss_pred cCCcchHHHHHHHHHHhcCCCCCCCCcCCCCCceEEEECCCccHHHHHHHHHHhcCcCceecccCCChhhccccccCCee
Confidence 789999999999999998 89999999999999999999999999999999999999975 6789999
Q ss_pred EEecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCc
Q 037761 74 RVTQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQT 153 (753)
Q Consensus 74 r~~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~ 153 (753)
|+.|++..++.++++++++++|++|++++.+++||....+.+++.+++.|+|++..+.++.+.+..|+...+++|+++++
T Consensus 139 r~~p~~~~~~~a~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~~~~~ 218 (348)
T cd06350 139 RTVPSDTSQALAIVALLKHFGWTWVGLVYSDDDYGRSGLSDLEEELEKNGICIAFVEAIPPSSTEEDIKRILKKLKSSTA 218 (348)
T ss_pred EecCCcHHHHHHHHHHHHHCCCeEEEEEEecchhHHHHHHHHHHHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHHhCCC
Confidence 99999999999999999999999999999999999999999999999999999999988765346799999999999999
Q ss_pred cEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhC
Q 037761 154 RVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLH 233 (753)
Q Consensus 154 ~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~ 233 (753)
|+|+++++..++..++++++++|+ .+..|++++.|...... .....+..+|++++..+.+......+|.+.+++
T Consensus 219 ~vvv~~~~~~~~~~~~~~a~~~g~--~~~~~i~~~~~~~~~~~-~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~--- 292 (348)
T cd06350 219 RVIVVFGDEDDALRLFCEAYKLGM--TGKYWIISTDWDTSTCL-LLFTLDAFQGVLGFSGHAPRSGEIPGFKDFLRK--- 292 (348)
T ss_pred cEEEEEeCcHHHHHHHHHHHHhCC--CCeEEEEEccccCcccc-ccCCcceeeeEEEEEEEeecCCcCCChHHHHHH---
Confidence 999999999999999999999998 34566666666543111 123346678999888877655555666666665
Q ss_pred CCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceee
Q 037761 234 SMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGE 313 (753)
Q Consensus 234 ~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~ 313 (753)
+++++|||+++ .
T Consensus 293 -------------~~~~~YDav~~-------------------------------------------------------~ 304 (348)
T cd06350 293 -------------YAYNVYDAVYA-------------------------------------------------------E 304 (348)
T ss_pred -------------HHHHHHhheeE-------------------------------------------------------E
Confidence 46788999866 6
Q ss_pred EEe-eCCccceeEEEEEEEec----cc-eEEEEeecC
Q 037761 314 FHL-VNGQLESSVFEIVNVIG----TG-RVVGYWTSE 344 (753)
Q Consensus 314 v~f-~~g~~~~~~y~i~~~~~----~~-~~vg~~~~~ 344 (753)
+.| ++|++ ...|.|.+++. .+ ++||.|++.
T Consensus 305 v~f~~~gd~-~~~~~i~~~~~~~~~~~~~~vg~~~~~ 340 (348)
T cd06350 305 VKFDENGDR-LASYDIINWQIFPGGGGFVKVGFWDPQ 340 (348)
T ss_pred EEecCCCCc-ccceeEEEEEEcCCcEEEEEEEEEcCC
Confidence 788 88998 67899999976 23 999999874
No 44
>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=99.97 E-value=2.9e-29 Score=266.81 Aligned_cols=294 Identities=16% Similarity=0.253 Sum_probs=236.0
Q ss_pred eeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHH
Q 037761 4 LLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQ 82 (753)
Q Consensus 4 l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~ 82 (753)
|+.. |+++|..|++++++|+++++|++|+||.+|+++.++.++++.+++|+|+++++++.+. ..++++||+.+++..+
T Consensus 43 lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~-~~~~~~fr~~~~~~~~ 121 (344)
T cd06348 43 LVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQAFAADPIAERAGVPVVGPSNTAKGIP-EIGPYVFRVSAPEAVV 121 (344)
T ss_pred EEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHHHHhhhHHHHhCCCCEEeccCCCCCcC-CCCCeEEEccCcHHHH
Confidence 4444 8899999999999999998999999999999999999999999999999987776654 3568999998877766
Q ss_pred HHHHH-HHHHHc-CCeEEEEEEeeCC-cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEE
Q 037761 83 VKAIS-AVLQNF-SWHEVVLMYEDTN-YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVH 159 (753)
Q Consensus 83 ~~a~~-~~l~~~-~w~~vail~~d~~-~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~ 159 (753)
...++ .+++++ +|++++++|.+++ ||....+.+++.+++.|++++....++.+ +.|+.+++.+|+++++|+|++.
T Consensus 122 ~~~~~~~~~~~~~~~~~v~~l~~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~d~~~~v~~i~~~~~d~vi~~ 199 (344)
T cd06348 122 APAAIAAALKLNPGIKRVAVFYAQDDAFSVSETEIFQKALRDQGLNLVTVQTFQTG--DTDFQAQITAVLNSKPDLIVIS 199 (344)
T ss_pred HHHHHHHHHHHhcCCeEEEEEEeCCchHHHHHHHHHHHHHHHcCCEEEEEEeeCCC--CCCHHHHHHHHHhcCCCEEEEC
Confidence 55544 466777 9999999997655 99999999999999999999998888754 6799999999999999999999
Q ss_pred eChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHHHHHhhCCCCC
Q 037761 160 MNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRRWKSKLHSMKP 237 (753)
Q Consensus 160 ~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~~~~~~~~~~~ 237 (753)
+.+.++..+++++++.|+.. .++.++++... . +.....+..+|++....+.+ +.+..++|.+.|+++|+.
T Consensus 200 ~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~--- 271 (344)
T cd06348 200 ALAADGGNLVRQLRELGYNG---LIVGGNGFNTP-N-VFPVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKYGK--- 271 (344)
T ss_pred CcchhHHHHHHHHHHcCCCC---ceeccccccCH-H-HHHhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHHCC---
Confidence 99999999999999999843 34554433221 1 22234567788887766554 346789999999999986
Q ss_pred CCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-
Q 037761 238 NSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL- 316 (753)
Q Consensus 238 ~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f- 316 (753)
.|+.++..+|||++++++|++++ +.... ..++. ....+.+|.++|++.+|+|++|++.|
T Consensus 272 -----~p~~~~~~~yda~~~~~~A~~~a-~~~~~-----------~~~~~---~~~~~~~l~~~l~~~~~~g~~G~v~f~ 331 (344)
T cd06348 272 -----APPQFSAQAFDAVQVVAEALKRL-NQKQK-----------LAELP---LPELRTALNAALLSGQYDTPLGEISFT 331 (344)
T ss_pred -----CccHHHHHHHHHHHHHHHHHHHh-cCCCc-----------cccch---hhhHHHHHHHHHhccCCccceeeeEEC
Confidence 67788999999999999999999 33110 00000 01235789999999999999999999
Q ss_pred eCCccceeEEEE
Q 037761 317 VNGQLESSVFEI 328 (753)
Q Consensus 317 ~~g~~~~~~y~i 328 (753)
++|++....|.|
T Consensus 332 ~~g~~~~~~~~~ 343 (344)
T cd06348 332 PDGEVLQKAFYV 343 (344)
T ss_pred CCCCcccCceec
Confidence 889886555543
No 45
>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=99.97 E-value=3.8e-29 Score=264.27 Aligned_cols=281 Identities=18% Similarity=0.231 Sum_probs=233.3
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSL 81 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~ 81 (753)
+|++. |+++|..|+.++++|+.+++|.+|+|+.+|+++.++.++++.+++|+|+++++++.++ ..+||+||+.|++..
T Consensus 41 elv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~a~~~~lt-~~~~~~fr~~~~~~~ 119 (332)
T cd06344 41 KVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDATLAALDIYQKAKLVLISPTSTSVKLS-NPGPYFFRTVPSNAV 119 (332)
T ss_pred EEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHHHHHHHHHhhcCceEEccCcCchhhc-CCCCcEEEeCCCcHH
Confidence 44555 7799999999999999999999999999999999999999999999999988888777 467999999999999
Q ss_pred HHHHHHHHHHHcC-CeEEEEEEeeCC-cccchHHHHHHHHHh-CCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEE
Q 037761 82 QVKAISAVLQNFS-WHEVVLMYEDTN-YGAGFISFLVDELQE-NDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIV 158 (753)
Q Consensus 82 ~~~a~~~~l~~~~-w~~vail~~d~~-~g~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~ 158 (753)
++.++++++.+.+ |+++++++.+++ ||+...+.+++.+++ .|++++....++ .++.++.+.+.++++.+||+|++
T Consensus 120 ~~~~~~~~~~~~~~~~~v~~i~~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~--~~~~~~~~~v~~i~~~~~d~v~~ 197 (332)
T cd06344 120 AARALAKYLKKKNKIKKVAIFYNSTSPYSQSLKQEFTSALLERGGGIVVTPCDLS--SPDFNANTAVSQAINNGATVLVL 197 (332)
T ss_pred HHHHHHHHHHhhcCCCeEEEEeCCCchHhHHHHHHHHHHHHHhcCCeeeeeccCC--CCCCCHHHHHHHHHhcCCCEEEE
Confidence 9999999998776 999999999876 999999999999999 588987655444 34668899999999999999999
Q ss_pred EeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCC
Q 037761 159 HMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPN 238 (753)
Q Consensus 159 ~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~ 238 (753)
.+++.+...+++++++.|. ...+++++.+... ... ....+..+|+++...+.+..+..++|.+.|+++++.
T Consensus 198 ~~~~~~~~~~~~~~~~~~~---~~~i~~~~~~~~~-~~~-~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~~---- 268 (332)
T cd06344 198 FPDTDTLDKALEVAKANKG---RLTLLGGDSLYTP-DTL-LDGGKDLEGLVLAVPWHPLASPNSPFAKLAQQLWGG---- 268 (332)
T ss_pred eCChhHHHHHHHHHHhcCC---CceEEecccccCH-HHH-HhchhhhcCeEEEEecccccccchHHHHHHHHHhcC----
Confidence 9999888899999998773 3345555443321 111 122346778888877777777889999999999987
Q ss_pred CCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHH-HHHHhcccccceeeEEe-
Q 037761 239 SSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILC-NQILNTQFKGLSGEFHL- 316 (753)
Q Consensus 239 ~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~l~~~~f~g~~G~v~f- 316 (753)
+++.++..+||+++++++|++++ +. .++..+. .++++..|+|+.|++.|
T Consensus 269 ----~~~~~a~~~Yda~~~l~~A~~~a-g~------------------------~~~~~~~~~~~~~~~~~g~~g~i~f~ 319 (332)
T cd06344 269 ----DVSWRTATAYDATKALIAALSQG-PT------------------------REGVQQVELSLRNFSVQGATGKIKFL 319 (332)
T ss_pred ----CchHHHHhHHHHHHHHHHHHHhC-CC------------------------hhhhhhhhhhcccccccCCCceeEeC
Confidence 68889999999999999999987 32 1224444 67788889999999999
Q ss_pred eCCcccee
Q 037761 317 VNGQLESS 324 (753)
Q Consensus 317 ~~g~~~~~ 324 (753)
++|++..+
T Consensus 320 ~~g~~~~~ 327 (332)
T cd06344 320 PSGDRNGQ 327 (332)
T ss_pred CCCcccCc
Confidence 99998543
No 46
>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=99.97 E-value=3.3e-29 Score=266.21 Aligned_cols=279 Identities=16% Similarity=0.176 Sum_probs=235.4
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
++++|..+++++++|+++++|.+|+||.+|..+.+++++++.+++|+|+++++++.+++..+||+||+.|++..++.+++
T Consensus 51 ~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~ 130 (347)
T cd06340 51 SQGNPDIGATEAERLITEEGVVALVGAYQSAVTLAASQVAERYGVPFVVDGAVSDSITERGFKYTFRITPHDGMFTRDMF 130 (347)
T ss_pred CCCCHHHHHHHHHHHhccCCceEEecccchHhHHHHHHHHHHhCCCEEeccccchHHhhcCCceEEecCCChHHHHHHHH
Confidence 78999999999999999999999999999999999999999999999999888888887778999999999999999999
Q ss_pred HHHHHc------CCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 88 AVLQNF------SWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 88 ~~l~~~------~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
+++.++ +|+++++++.|++||....+.++..+++.|++|+..+.++.+ +.|+++++.+|++.++|+|++.+.
T Consensus 131 ~~l~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~i~~l~~~~~d~v~~~~~ 208 (347)
T cd06340 131 DFLKDLNEKTGKPLKTVALVHEDTEFGTSVAEAIKKFAKERGFEIVEDISYPAN--ARDLTSEVLKLKAANPDAILPASY 208 (347)
T ss_pred HHHHHhhHhcCCCCceEEEEecCchHhHHHHHHHHHHHHHcCCEEEEeeccCCC--CcchHHHHHHHHhcCCCEEEEccc
Confidence 999765 469999999999999999999999999999999998888755 679999999999999999999999
Q ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCC-ChhhhHHHHHHHHhhCCCCCCCC
Q 037761 162 TALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPK-SKELGLFDRRWKSKLHSMKPNSS 240 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~-~~~~~~F~~~~~~~~~~~~~~~~ 240 (753)
..++..+++++++.|+.. . .++.......... +.....+..+|++....+.+. .+..++|.++|+++|+.
T Consensus 209 ~~~~~~~~~~~~~~G~~~-~-~~~~~~~~~~~~~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~~------ 279 (347)
T cd06340 209 TNDAILLVRTMKEQRVEP-K-AVYSVGGGAEDPS-FVKALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARFGV------ 279 (347)
T ss_pred chhHHHHHHHHHHcCCCC-c-EEEecCCCcCcHH-HHHHhhHhhheEEeccccCCCCChHHHHHHHHHHHHhCC------
Confidence 999999999999999843 2 2222222111111 112344567888887665554 68889999999999986
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHH--HHHHhcccc---cceeeEE
Q 037761 241 VTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILC--NQILNTQFK---GLSGEFH 315 (753)
Q Consensus 241 ~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~l~~~~f~---g~~G~v~ 315 (753)
.++.++..+||+++++++|++++ +. .++.++. .+|+...+. ++.|.++
T Consensus 280 --~~~~~~~~~Y~a~~~l~~A~~~a-g~------------------------~~~~~v~~~~~~~~~~~~~~~~~~g~~~ 332 (347)
T cd06340 280 --DLSGNSARAYTAVLVIADALERA-GS------------------------ADPEKIRDLAALASTSGEDLIMPYGPIK 332 (347)
T ss_pred --CCChHHHHHHHHHHHHHHHHHHh-cC------------------------CCHHHHHHHHHhccCCccccccCCCCee
Confidence 67888999999999999999998 32 2347788 488777765 5689999
Q ss_pred e-eCCcccee
Q 037761 316 L-VNGQLESS 324 (753)
Q Consensus 316 f-~~g~~~~~ 324 (753)
| ++|+..++
T Consensus 333 f~~~g~~~~~ 342 (347)
T cd06340 333 FDAKGQNTNA 342 (347)
T ss_pred ECCCCCcccc
Confidence 9 99998654
No 47
>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=99.97 E-value=1.2e-28 Score=261.76 Aligned_cols=293 Identities=14% Similarity=0.080 Sum_probs=235.3
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSL 81 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~ 81 (753)
+|+.. |+++|.+|++++++|+++++|.+|+|+.+|+.+.++.++++..++|++++.+... ...+|++||+.+.+..
T Consensus 42 elv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~f~~~~~~~~ 118 (348)
T cd06355 42 EAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWTSASRKAVLPVFERHNGLLFYPVQYEG---LEQSPNVFYTGAAPNQ 118 (348)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccchhhHHHHHHHHhccCCceecCCCccC---CCCCCCEEEeCCChHH
Confidence 34444 8899999999999999999999999999999999999999999999998753221 2356899999999999
Q ss_pred HHHHHHHHHH-HcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 82 QVKAISAVLQ-NFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 82 ~~~a~~~~l~-~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
++..+++++. ..+++++++++.|++||....+.+++.+++.|++++..+.++.+ +.|+++++.++++.+||+|++.+
T Consensus 119 ~~~~~~~~~~~~~g~k~vaii~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~D~~~~v~~l~~~~pd~v~~~~ 196 (348)
T cd06355 119 QIIPAVDWLMSNKGGKRFYLVGSDYVYPRTANKILKAQLESLGGEVVGEEYLPLG--HTDFQSIINKIKAAKPDVVVSTV 196 (348)
T ss_pred hHHHHHHHHHhccCCCeEEEECCcchHHHHHHHHHHHHHHHcCCeEEeeEEecCC--hhhHHHHHHHHHHhCCCEEEEec
Confidence 9999999875 45799999999999999999999999999999999998888754 78999999999999999999999
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEe--CCCChhhhHHHHHHHHhhCCCCCC
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSH--LPKSKELGLFDRRWKSKLHSMKPN 238 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~--~~~~~~~~~F~~~~~~~~~~~~~~ 238 (753)
.+.++..+++++++.|+......++..+..... +.....+...|.+....+ ..+.|..++|.++|+++|+...
T Consensus 197 ~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~---~~~~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~~-- 271 (348)
T cd06355 197 NGDSNVAFFKQLKAAGITASKVPVLSFSVAEEE---LRGIGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQDR-- 271 (348)
T ss_pred cCCchHHHHHHHHHcCCCccCCeeEEccccHHH---HhhcChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCCCC--
Confidence 999999999999999985433445544322111 111112345676654332 2356788999999999998521
Q ss_pred CCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-e
Q 037761 239 SSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-V 317 (753)
Q Consensus 239 ~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~ 317 (753)
.++.+++.+||+++++++|++++ +. .++++|.++|++.+|+++.|.++| +
T Consensus 272 ----~~~~~a~~~Y~a~~~~~~Al~~a-g~------------------------~~~~~i~~aL~~~~~~~~~g~~~f~~ 322 (348)
T cd06355 272 ----VTNDPMEAAYIGVYLWKQAVEKA-GS------------------------FDVDKVRAALPGQSFDAPEGPVTVDP 322 (348)
T ss_pred ----CCCcHHHHHHHHHHHHHHHHHHh-CC------------------------CCHHHHHHHhccCcccCCCcceEeec
Confidence 34567889999999999999998 32 345899999999999999999999 5
Q ss_pred -CCccceeEEEEEEEeccc
Q 037761 318 -NGQLESSVFEIVNVIGTG 335 (753)
Q Consensus 318 -~g~~~~~~y~i~~~~~~~ 335 (753)
+++. ...+.|.+++.++
T Consensus 323 ~~~~~-~~~~~i~~~~~~g 340 (348)
T cd06355 323 ANHHL-WKPVRIGRIQADG 340 (348)
T ss_pred CCCee-eeeeEEEEEcCCC
Confidence 4444 4456677776444
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=99.97 E-value=5.9e-29 Score=263.16 Aligned_cols=285 Identities=15% Similarity=0.138 Sum_probs=238.7
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDS 80 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~ 80 (753)
+|+.. |+++|.+|++++++|+++++|.+|||+.+|+.+.++.++++..++|+|+++++++.+++ ..+||+||+.|++.
T Consensus 41 ~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~ 120 (334)
T cd06327 41 ELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSAVALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTY 120 (334)
T ss_pred EEEEecCCCCchHHHHHHHHHHhhcCceEEECCccHHHHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChH
Confidence 34444 77999999999999999989999999999999999999999999999999988888885 45799999999999
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 81 LQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 81 ~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
.++.++++++...+++++++++.+++||+...+.+++.+++.|++++....++.+ .+|+++++.++++.++|+|++.+
T Consensus 121 ~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~v~~l~~~~~d~v~~~~ 198 (334)
T cd06327 121 MLANGTAPALVKAGGKKWFFLTADYAFGHSLERDARKVVKANGGKVVGSVRHPLG--TSDFSSYLLQAQASGADVLVLAN 198 (334)
T ss_pred HHHHHHHHHHHHhcCCeEEEEecchHHhHHHHHHHHHHHHhcCCEEcCcccCCCC--CccHHHHHHHHHhCCCCEEEEec
Confidence 9999999988777799999999999999999999999999999999998888754 67999999999999999999999
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHHHHHhhCCCCCC
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRRWKSKLHSMKPN 238 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~~~~~~~~~~~~ 238 (753)
.+.++..+++++++.|+. ....++....+.. .......+..+|++....+.+ +.+..++|.++|+++++.
T Consensus 199 ~~~~~~~~~~~~~~~g~~-~~~~~~~~~~~~~---~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~---- 270 (334)
T cd06327 199 AGADTVNAIKQAAEFGLT-KGQKLAGLLLFLT---DVHSLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKYGK---- 270 (334)
T ss_pred cchhHHHHHHHHHHhCCc-cCCcEEEecccHH---HHHhhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHHCc----
Confidence 999999999999999985 2333333322211 111122345778877766543 367889999999999986
Q ss_pred CCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcc-cccceeeEEe-
Q 037761 239 SSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQ-FKGLSGEFHL- 316 (753)
Q Consensus 239 ~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-f~g~~G~v~f- 316 (753)
.|+.++..+||+++++++|++++ +. .++.+|.++|+++. ++++.|.++|
T Consensus 271 ----~p~~~~~~~Y~~~~~~~~A~~~a-g~------------------------~~~~~v~~al~~~~~~~~~~g~~~~~ 321 (334)
T cd06327 271 ----MPSMVQAGAYSAVLHYLKAVEAA-GT------------------------DDADKVVAKMKETPIYDLFAGNGYIR 321 (334)
T ss_pred ----CCCcHHHHHHHHHHHHHHHHHHH-CC------------------------CChHHHHHhccccceeccCCCCceee
Confidence 67788999999999999999999 32 23477999999986 5889999999
Q ss_pred e-CCccceeEE
Q 037761 317 V-NGQLESSVF 326 (753)
Q Consensus 317 ~-~g~~~~~~y 326 (753)
. +|+...+.|
T Consensus 322 ~~~~~~~~~~~ 332 (334)
T cd06327 322 ACDHQMVHDMY 332 (334)
T ss_pred ccccchhcccc
Confidence 5 787755544
No 49
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=99.97 E-value=8.8e-29 Score=263.31 Aligned_cols=295 Identities=20% Similarity=0.176 Sum_probs=238.2
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCC-CceEEEecCcH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEH-PFFIRVTQNDS 80 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~-~~~fr~~p~~~ 80 (753)
+++.. |++||.++++.|++|+.+++|.+|+|+.+|+++.++.++++..++|+|+++++++.++...+ +++||++|++.
T Consensus 53 elv~~D~~~dp~~a~~~A~~li~~~~V~~vvG~~~S~~~~a~~~v~~~~~i~~i~p~st~~~~~~~~~~~~vfr~~~~~~ 132 (366)
T COG0683 53 ELVVEDDASDPATAAAVARKLITQDGVDAVVGPTTSGVALAASPVAEEAGVPLISPSATAPQLTGRGLKPNVFRTGPTDN 132 (366)
T ss_pred EEEEecCCCChHHHHHHHHHHHhhcCceEEEEeccCcccccchhhHhhcCceEEeecCCCCcccccccccceEEecCChH
Confidence 45555 68999999999999999999999999999999999999999999999999999998776443 55999999999
Q ss_pred HHHHHHHHHHH-HcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEE
Q 037761 81 LQVKAISAVLQ-NFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVH 159 (753)
Q Consensus 81 ~~~~a~~~~l~-~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~ 159 (753)
.++.++++++. ..+.+++++++.|+.||++..+.+++.+++.|++++..+.+.+. +.+|..++.++++++||+|++.
T Consensus 133 ~q~~~~~~~l~~~~~~k~v~ii~~~~~yg~~~~~~~~~~l~~~G~~~~~~~~~~~~--~~~~~~~v~~i~~~~~d~v~~~ 210 (366)
T COG0683 133 QQAAAAADYLVKKGGKKRVAIIGDDYAYGEGLADAFKAALKALGGEVVVEEVYAPG--DTDFSALVAKIKAAGPDAVLVG 210 (366)
T ss_pred HHHHHHHHHHHHhcCCcEEEEEeCCCCcchhHHHHHHHHHHhCCCeEEEEEeeCCC--CCChHHHHHHHHhcCCCEEEEC
Confidence 99999999884 55656999999999999999999999999999986666777654 4469999999999999999999
Q ss_pred eChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhccc-E-EEEEEe-CCCChhhhHHHHHHHHhhCCCC
Q 037761 160 MNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEG-V-LGVRSH-LPKSKELGLFDRRWKSKLHSMK 236 (753)
Q Consensus 160 ~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g-~-i~~~~~-~~~~~~~~~F~~~~~~~~~~~~ 236 (753)
+.+++...++++++++|+... ..++.+...... .........+ . +..... ....|..+.|.++|+++++..
T Consensus 211 ~~~~~~~~~~r~~~~~G~~~~-~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~- 284 (366)
T COG0683 211 GYGPDAALFLRQAREQGLKAK-LIGGDGAGTAEF----EEIAGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGDP- 284 (366)
T ss_pred CCCccchHHHHHHHHcCCCCc-cccccccCchhh----hhhcccCccccEEEEecccccccCcchHHHHHHHHHHhCCC-
Confidence 999999999999999998542 222222211111 1111122233 2 222222 224577788999999999931
Q ss_pred CCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcc-cccceeeEE
Q 037761 237 PNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQ-FKGLSGEFH 315 (753)
Q Consensus 237 ~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-f~g~~G~v~ 315 (753)
..++.++..+||+++++++|++++ +. ..+++++.++|.+.. +.+.+|.+.
T Consensus 285 -----~~~~~~~~~~y~a~~~~~~ai~~a-~~-----------------------~~d~~~v~~al~~~~~~~~~~G~v~ 335 (366)
T COG0683 285 -----AAPSYFAAAAYDAVKLLAKAIEKA-GK-----------------------SSDREAVAEALKGGKFFDTAGGPVT 335 (366)
T ss_pred -----CCcccchHHHHHHHHHHHHHHHHH-hc-----------------------CCCHHHHHHHHhhCCCCccCCccee
Confidence 166778999999999999999999 31 022588999999997 689999999
Q ss_pred e-eCCccceeEEEEEEEecc
Q 037761 316 L-VNGQLESSVFEIVNVIGT 334 (753)
Q Consensus 316 f-~~g~~~~~~y~i~~~~~~ 334 (753)
| ++|++....+.|.+|+..
T Consensus 336 ~~~~~~~~~~~~~i~~~~~~ 355 (366)
T COG0683 336 FDEKGDRGSKPVYVGQVQKG 355 (366)
T ss_pred ECCCCCcCCCceEEEEEEec
Confidence 9 889988889999999853
No 50
>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=8.1e-29 Score=256.38 Aligned_cols=282 Identities=17% Similarity=0.250 Sum_probs=212.7
Q ss_pred CCCChH-HHHHHHHHHHhcCCeEEEEcCCCCCc-HHHHHHhhccCCccEEeecCCC-CCCCCCCCCceEEEecCcHHHHH
Q 037761 8 KQFKDC-GKLILAVDLLKKFQVQAIIGPQIPAA-APFLVELGEKAQVPIISFFETS-PALSPTEHPFFIRVTQNDSLQVK 84 (753)
Q Consensus 8 d~~~~~-~a~~~a~~Li~~~~V~aviG~~~s~~-~~av~~i~~~~~vP~is~~a~~-~~l~~~~~~~~fr~~p~~~~~~~ 84 (753)
++.++. .+..++|+++++ +|.|||||.+|.. +.+++++++..+||+|+++... +.+...++++ .++.|++..++.
T Consensus 46 ~~~d~~f~~~~~~~~~l~~-gV~AIiGp~ss~~~~~~v~~i~~~~~VP~Is~~~~~~~~~~~~~~~~-i~l~P~~~~~~~ 123 (333)
T cd06394 46 LLRDSQYETTDTMCQILPK-GVVSVLGPSSSPASSSIVSHICGEKEIPHFKVGPEETPKLQYLRFAS-VNLHPSNEDISV 123 (333)
T ss_pred ccccChHHHHHHHHHHHhc-CeEEEECCCCchHHHHHHHHHhhccCCceEEeccccCcccccccceE-EEecCCHHHHHH
Confidence 566665 788889999955 9999999999975 6799999999999999986432 2222233333 889999999999
Q ss_pred HHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHH
Q 037761 85 AISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTAL 164 (753)
Q Consensus 85 a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~ 164 (753)
|+++++.+|+|++|++||+++++...+.+.++.. ...+..+... . ..++.|++++|.+|++.++++|++.|+.+.
T Consensus 124 Ai~dli~~~~W~~v~~iYe~d~~l~~L~~~l~~~-~~~~~~i~~~-~---~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~ 198 (333)
T cd06394 124 AVAGILNSFNYPTASLICAKAECLLRLEELLRQF-LISKETLSVR-M---LDDSRDPTPLLKEIRDDKTATIIIDANASM 198 (333)
T ss_pred HHHHHHHhcCCCEEEEEEeCcHHHHHHHHHHHhh-cccCCceeeE-E---ccCcccHHHHHHHHHhcCCCEEEEECChHH
Confidence 9999999999999999999998754444443322 2222233211 1 113569999999999999999999999999
Q ss_pred HHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCCCcccc
Q 037761 165 ASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNSSVTEI 244 (753)
Q Consensus 165 ~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~ 244 (753)
+..+++||+++||..+.++|+.++....+.+.. +.......+.+++..+++.|..++|.+.|+++|.+..........
T Consensus 199 a~~il~qa~~lGm~~~~y~~i~T~l~~~~~~L~--~~~~~~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~ 276 (333)
T cd06394 199 SHTILLKASELGMTSAFYKYILTTMDFPLLRLD--SIVDDRSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGP 276 (333)
T ss_pred HHHHHHHHHHcCCCCCceEEEEecCCcccccHH--HhhcCCcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCc
Confidence 999999999999999999999988776543321 222224457788888888899999999998877421110000011
Q ss_pred chhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-eCCccce
Q 037761 245 NISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-VNGQLES 323 (753)
Q Consensus 245 ~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~g~~~~ 323 (753)
...++.+||||+++ |+||+|.| ++|.|.+
T Consensus 277 ~~~~al~~D~v~~~--------------------------------------------------glTg~i~f~~~g~R~~ 306 (333)
T cd06394 277 ALSSALLFDAVYAV--------------------------------------------------GLTGRIEFNSKGQRSN 306 (333)
T ss_pred ccceeeecceEEEE--------------------------------------------------eeecceecCCCCcCcc
Confidence 22345555555332 89999999 8999999
Q ss_pred eEEEEEEEeccc-eEEEEeecCCCcc
Q 037761 324 SVFEIVNVIGTG-RVVGYWTSEKGLT 348 (753)
Q Consensus 324 ~~y~i~~~~~~~-~~vg~~~~~~~~~ 348 (753)
...+|+++..+| ++||+|++..+++
T Consensus 307 ~~l~v~~l~~~g~~kig~W~~~~gl~ 332 (333)
T cd06394 307 YTLKILQKTRSGFRQIGQWHSNETLS 332 (333)
T ss_pred cEEEEEEecCCcceEEEEEeCCCCcC
Confidence 999999999888 9999999987764
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=99.97 E-value=3.8e-28 Score=257.69 Aligned_cols=289 Identities=15% Similarity=0.164 Sum_probs=244.4
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDS 80 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~ 80 (753)
+|+.. ++++|..++.++++|+.+++|.+|||+.+|..+.++.++++..++|+|+++++++.+++ ..+|++||+.|++.
T Consensus 40 ~l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~ 119 (336)
T cd06360 40 EFVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVHSGEALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNA 119 (336)
T ss_pred EEEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCccHhHHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchH
Confidence 34444 77899999999999999889999999999999999999999999999999888888875 45899999999999
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 81 LQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 81 ~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
.++..+++++.+.+|+++++++.++.||++..+.+++.+++.|++++....++.+ .+||++++.++++.+||+|++.+
T Consensus 120 ~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~--~~d~~~~v~~~~~~~pd~v~~~~ 197 (336)
T cd06360 120 QWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEAFTEAGGKIVKELWVPFG--TSDFASYLAQIPDDVPDAVFVFF 197 (336)
T ss_pred HHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHHHHHcCCEEEEEEecCCC--CcchHHHHHHHHhcCCCEEEEec
Confidence 9999999999888999999999999999999999999999999999987777644 67999999999999999999999
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHHHHHhhCCCCCC
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRRWKSKLHSMKPN 238 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~~~~~~~~~~~~ 238 (753)
.+.++..+++++++.|+.. +..+++++.+... .+.....+..+|++....+.+ +.+..++|.++|+++++.
T Consensus 198 ~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~--~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~~~---- 270 (336)
T cd06360 198 AGGDAIKFVKQYDAAGLKA-KIPLIGSGFLTDG--TTLGAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAYPD---- 270 (336)
T ss_pred ccccHHHHHHHHHHcCCcc-CCeEEecccccCH--HHHHhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHhCC----
Confidence 9999999999999999842 3455655544321 122334566788877665544 458889999999999986
Q ss_pred CCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-e
Q 037761 239 SSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-V 317 (753)
Q Consensus 239 ~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~ 317 (753)
.|+.++..+||+++++++|++++ +.. ..++..|.++|++..|+|..|.++| +
T Consensus 271 ----~~~~~~~~~yda~~~~~~A~~~a-~~~----------------------~~~~~~v~~al~~~~~~~~~g~~~f~~ 323 (336)
T cd06360 271 ----TPSVYAVQGYDAGQALILALEAV-GGD----------------------LSDGQALIAAMAAAKIDSPRGPFTLDK 323 (336)
T ss_pred ----CccHHHHHHHHHHHHHHHHHHHh-CCC----------------------CCCHHHHHHHHhcCCccCCCcceEECC
Confidence 78889999999999999999998 321 1245789999999999999999999 8
Q ss_pred CCccceeEEE
Q 037761 318 NGQLESSVFE 327 (753)
Q Consensus 318 ~g~~~~~~y~ 327 (753)
+|++..+.|.
T Consensus 324 ~~~~~~~~~~ 333 (336)
T cd06360 324 AHNPIQDNYL 333 (336)
T ss_pred CCCcccceEE
Confidence 8988666544
No 52
>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=3.2e-28 Score=258.74 Aligned_cols=293 Identities=12% Similarity=0.081 Sum_probs=231.1
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSL 81 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~ 81 (753)
+|+.. |+++|.+|+.++++|+++++|.+|||+.+|+++.++.+++...++|+|....... ....+|+||+.|++..
T Consensus 43 elv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~~~~A~~~~~~~~~~~~i~~~~~~~---~~~~~~~Fr~~~~~~~ 119 (374)
T TIGR03669 43 ELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSATREAIRPIIDRNEQLYFYTNQYEG---GVCDEYTFAVGATARQ 119 (374)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchHHHHHHHHHHHhcCceEEcCccccc---ccCCCCEEEcCCChHH
Confidence 34444 7899999999999999999999999999999999999999999999997432111 2345899999999999
Q ss_pred HHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 82 QVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 82 ~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
++.++++++....-+++++|+.|++||+...+.+++.+++.|++++..+.++.+ +.||.+++.+|++++||+|++.+.
T Consensus 120 ~~~~~~~~~~~~~g~~va~l~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~g--~~Df~~~l~~i~~~~pD~V~~~~~ 197 (374)
T TIGR03669 120 QLGTVVPYMVEEYGKKIYTIAADYNFGQLSADWVRVIAKENGAEVVGEEFIPLS--VSQFSSTIQNIQKADPDFVMSMLV 197 (374)
T ss_pred HHHHHHHHHHHcCCCeEEEEcCCcHHHHHHHHHHHHHHHHcCCeEEeEEecCCC--cchHHHHHHHHHHcCCCEEEEcCc
Confidence 999999988543337899999999999999999999999999999988888754 789999999999999999999998
Q ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHHHHHhhCCCCCCC
Q 037761 162 TALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRRWKSKLHSMKPNS 239 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~~~~~~~~~~~~~ 239 (753)
+.+...+++|++++|+..+ ++............ ....+...|+++...+.+ +.|..++|.++|+++|+...
T Consensus 198 g~~~~~~~kq~~~~G~~~~---~~~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~~p--- 270 (374)
T TIGR03669 198 GANHASFYEQAASANLNLP---MGTSTAMAQGYEHK-RFEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPDAP--- 270 (374)
T ss_pred CCcHHHHHHHHHHcCCCCc---ccchhhhhhhhhhh-hcCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCCCC---
Confidence 8899999999999998533 12222111111100 011234567666555443 45788999999999998521
Q ss_pred CccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHh-cccccceeeEEe-e
Q 037761 240 SVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILN-TQFKGLSGEFHL-V 317 (753)
Q Consensus 240 ~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~f~g~~G~v~f-~ 317 (753)
.++.++..+||+++++++|++++ +. .++++|.++|++ .+|+|+.|+++| +
T Consensus 271 ---~~~~~a~~~Yda~~~l~~Ai~~A-Gs------------------------~d~~av~~aL~~~~~~~~~~G~i~fd~ 322 (374)
T TIGR03669 271 ---YINQEAENNYFSVYMYKQAVEEA-GT------------------------TDQDAVRDVLESGVEMDAPEGKVCIDG 322 (374)
T ss_pred ---CCChHHHHHHHHHHHHHHHHHHh-CC------------------------CCHHHHHHHHHcCCeEECCCccEEEcC
Confidence 24667889999999999999998 32 356899999997 579999999999 5
Q ss_pred CCccceeEEEEEEEeccc
Q 037761 318 NGQLESSVFEIVNVIGTG 335 (753)
Q Consensus 318 ~g~~~~~~y~i~~~~~~~ 335 (753)
+++.....+.|.++..++
T Consensus 323 ~~~~~~~~~~v~~~~~~~ 340 (374)
T TIGR03669 323 ATHHMSHTMRLARADADH 340 (374)
T ss_pred CCCeeeeeeEEEEEcCCC
Confidence 544434566788887655
No 53
>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=99.96 E-value=4.8e-28 Score=256.01 Aligned_cols=283 Identities=14% Similarity=0.138 Sum_probs=232.6
Q ss_pred eeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHH
Q 037761 4 LLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSL 81 (753)
Q Consensus 4 l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~ 81 (753)
|+.. |+++|.++++++++|+.+++|.+|+|+.+|+.+.++.++++..++|+|+++++++.+.+ ..+||+||+.|++..
T Consensus 41 l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~ 120 (333)
T cd06359 41 VVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNVLLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQ 120 (333)
T ss_pred EEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHHHHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHh
Confidence 4444 78999999999999999889999999999999999999999999999999777666664 468999999999999
Q ss_pred HHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 82 QVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 82 ~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
+..++++++...||+++++++.|++||....+.+++.++ .+++....++. +.+|+.+++.++++++||+|++...
T Consensus 121 ~~~~~~~~~~~~g~~~vail~~~~~~g~~~~~~~~~~~~---~~v~~~~~~~~--~~~d~~~~i~~l~~~~pd~v~~~~~ 195 (333)
T cd06359 121 VHEAMGKYAQDKGYKRVFLIAPNYQAGKDALAGFKRTFK---GEVVGEVYTKL--GQLDFSAELAQIRAAKPDAVFVFLP 195 (333)
T ss_pred hHHHHHHHHHHhCCCeEEEEecCchhhHHHHHHHHHHhC---ceeeeeecCCC--CCcchHHHHHHHHhCCCCEEEEEcc
Confidence 999999999888999999999999999999999988774 35665555543 4679999999999999999999888
Q ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHHHHHhhCCCCCCC
Q 037761 162 TALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRRWKSKLHSMKPNS 239 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~~~~~~~~~~~~~ 239 (753)
+.++..++++++++|+.. ...++........ . +.....+..+|++....+.+ +.+..++|.++|+++|+.
T Consensus 196 ~~~~~~~~~~~~~~G~~~-~~~~~~~~~~~~~-~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~----- 267 (333)
T cd06359 196 GGMGVNFVKQYRQAGLKK-DIPLYSPGFSDEE-D-TLPAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKYGR----- 267 (333)
T ss_pred CccHHHHHHHHHHcCccc-CCeeeccCcccCH-H-HHHhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHhCC-----
Confidence 888999999999999742 3345544433321 1 11233456778887766655 458889999999999986
Q ss_pred CccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-eC
Q 037761 240 SVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-VN 318 (753)
Q Consensus 240 ~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~ 318 (753)
.++.++..+||+++++++|++++ +.. ..++..|.++|++..|+|++|.+.| ++
T Consensus 268 ---~~~~~~~~~yda~~~~~~A~~~a-g~~----------------------~~~~~~v~~al~~~~~~~~~G~~~~~~~ 321 (333)
T cd06359 268 ---LPTLYAAQAYDAAQLLDSAVRKV-GGN----------------------LSDKDALRAALRAADFKSVRGAFRFGTN 321 (333)
T ss_pred ---CCcHHHHHHHHHHHHHHHHHHHh-cCC----------------------CCCHHHHHHHHhcCccccCccceEECCC
Confidence 68889999999999999999998 320 0245889999999999999999999 88
Q ss_pred CccceeE
Q 037761 319 GQLESSV 325 (753)
Q Consensus 319 g~~~~~~ 325 (753)
|+...+.
T Consensus 322 ~~~~~~~ 328 (333)
T cd06359 322 HFPIQDF 328 (333)
T ss_pred CCcceeE
Confidence 8864443
No 54
>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=99.96 E-value=4.5e-28 Score=255.77 Aligned_cols=284 Identities=14% Similarity=0.113 Sum_probs=231.0
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDS 80 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~ 80 (753)
+|+.. |+++|.+|+.++++|+++++|.+|+|+.+|+.+.++.+++++.++|+|+++++++.++. ..++|+||+.+++.
T Consensus 43 ~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~f~~~~~~~ 122 (333)
T cd06328 43 EVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSGVALAVLPVAEENKKILIVEPAAADSITGKNWNRYTFRTGRNSS 122 (333)
T ss_pred EEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcHHHHHHHHHHHHhCCcEEecCCCCchhhccCCCCcEEEecCChH
Confidence 34444 88999999999999999999999999999999999999999999999999888888875 44689999999998
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 81 LQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 81 ~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
.++..++.++... ++++++++.|++||++..+.+++.+++.|++++....++.+ +.||.+.+.+|++++||+|++..
T Consensus 123 ~~~~~~~~~~~~~-~~~v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~v~~l~~~~pd~V~~~~ 199 (333)
T cd06328 123 QDAIAAAAALGKP-GKKIATLAQDYAFGRDGVAAFKAALEKLGAAIVTEEYAPTD--TTDFTPYAQRLLDALKKVLFVIW 199 (333)
T ss_pred HHHHHHHHHHHhc-CCeEEEEecCccccHHHHHHHHHHHHhCCCEEeeeeeCCCC--CcchHHHHHHHHhcCCCEEEEEe
Confidence 9999988888665 79999999999999999999999999999999998888754 77999999999999999998876
Q ss_pred ChH-HHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeC-CCChhhhHHHHHHHHhhCCCCCC
Q 037761 161 NTA-LASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHL-PKSKELGLFDRRWKSKLHSMKPN 238 (753)
Q Consensus 161 ~~~-~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~-~~~~~~~~F~~~~~~~~~~~~~~ 238 (753)
.+. +...+++++...|+.. . ...++....... .....+...|.+....+. +..|..+.|.++|+++|+.
T Consensus 200 ~~~~~~~~~~~~~~~~g~~~--~-~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g~---- 270 (333)
T cd06328 200 AGAGGPWPKLQQMGVLGYGI--E-ITLAGDILANLT--MYKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARFGS---- 270 (333)
T ss_pred cCchhHHHHHHHhhhhcCCC--e-EEecccccCccc--cccccccccceeeeecCCCCCCHHHHHHHHHHHHHhCC----
Confidence 655 6777888888877642 1 222222221111 011223455666554444 5678889999999999986
Q ss_pred CCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-e
Q 037761 239 SSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-V 317 (753)
Q Consensus 239 ~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~ 317 (753)
.|+.++..+||++.++++|++++ +. .++++|.++|++..|+++.|+++| .
T Consensus 271 ----~p~~~~~~~y~a~~~l~~Ai~~a-g~------------------------~~~~~v~~aL~~~~~~~~~g~~~f~~ 321 (333)
T cd06328 271 ----PPDLFTAGGMSAAIAVVEALEET-GD------------------------TDTEALIAAMEGMSFETPKGTMTFRK 321 (333)
T ss_pred ----CcchhhHHHHHHHHHHHHHHHHh-CC------------------------CCHHHHHHHHhCCeeecCCCceEECc
Confidence 78889999999999999999998 31 345899999999999999999999 3
Q ss_pred -CCccceeEEE
Q 037761 318 -NGQLESSVFE 327 (753)
Q Consensus 318 -~g~~~~~~y~ 327 (753)
+++...+.|.
T Consensus 322 ~~~~~~~~~~~ 332 (333)
T cd06328 322 EDHQALQPMYH 332 (333)
T ss_pred ccchhhhcccc
Confidence 5665555553
No 55
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=99.96 E-value=3.7e-28 Score=257.74 Aligned_cols=281 Identities=15% Similarity=0.134 Sum_probs=235.4
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHH-------HHhhccCCccEEeecCCCCCCCC-CCCCceE
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFL-------VELGEKAQVPIISFFETSPALSP-TEHPFFI 73 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av-------~~i~~~~~vP~is~~a~~~~l~~-~~~~~~f 73 (753)
+|+.. |+++|.+|++++++|+++ +|++||||.+|..+.++ .+++..+++|+|+++++++.+++ ..+|++|
T Consensus 42 ~l~~~D~~~~p~~a~~~a~~lv~~-~v~aiiG~~~s~~~~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f 120 (342)
T cd06329 42 ELVEEDNKGSPQEALRKAQKAIDD-GVRLVVQGNSSSVALALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSFWHF 120 (342)
T ss_pred EEEeccCCCChHHHHHHHHHHHHh-CCeEEEcccchHHHHHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcceEE
Confidence 34444 779999999999999998 99999999999999999 88889999999999888888875 5679999
Q ss_pred EEecCcHHHHHHHHHHHHHcC-CeEEEEEEeeCCcccchHHHHHHHHHh--CCeEEEEeeccCCCCch-hhHHHHHHHHh
Q 037761 74 RVTQNDSLQVKAISAVLQNFS-WHEVVLMYEDTNYGAGFISFLVDELQE--NDIRISHMSKIPTSAED-FQISKELSKLS 149 (753)
Q Consensus 74 r~~p~~~~~~~a~~~~l~~~~-w~~vail~~d~~~g~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~-~d~~~~l~~l~ 149 (753)
|+.|++..++.++++++...+ |+++++++.|+.||.+..+.+++.+++ .|++++..+.++.+ . +|+.+++.+++
T Consensus 121 r~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g~~~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~~d~~~~i~~l~ 198 (342)
T cd06329 121 RTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWGQDVAAAFKAMLAAKRPDIQIVGEDLHPLG--KVKDFSPYVAKIK 198 (342)
T ss_pred EecCChHHHHHHHHHHHHhcccCceEEEEeCChHHHHHHHHHHHHHHHhhcCCcEEeceeccCCC--CCCchHHHHHHHH
Confidence 999999999999999997765 999999999999999999999999999 99999988777654 5 79999999999
Q ss_pred cCCccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHH
Q 037761 150 TMQTRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRR 227 (753)
Q Consensus 150 ~~~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~ 227 (753)
+.+||+|++...+.++..+++++++.|+.. .++........ +.....+..+|.+....+.+ +.+..++|.++
T Consensus 199 ~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~---~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~ 272 (342)
T cd06329 199 ASGADTVITGNWGNDLLLLVKQAADAGLKL---PFYTPYLDQPG---NPAALGEAGLGLVVAVAYWHPNDTPANRAFVEA 272 (342)
T ss_pred HcCCCEEEEcccCchHHHHHHHHHHcCCCc---eEEeccccchh---HHHhhcccccceEEeeeccCCCCCHHHHHHHHH
Confidence 999999999998889999999999999732 34554433221 12234456678776655443 35788999999
Q ss_pred HHHhhCCCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhccc
Q 037761 228 WKSKLHSMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQF 307 (753)
Q Consensus 228 ~~~~~~~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f 307 (753)
|+++++. .|+.++..+||+++++++|++++ +. .+++.|.++|++++|
T Consensus 273 ~~~~~~~--------~~~~~~~~~y~~~~~~~~a~~~a-g~------------------------~~~~~v~~al~~~~~ 319 (342)
T cd06329 273 FKAKYGR--------VPDYYEGQAYNGIQMLADAIEKA-GS------------------------TDPEAVAKALEGMEV 319 (342)
T ss_pred HHHHhCC--------CCCchHHHHHHHHHHHHHHHHHh-CC------------------------CCHHHHHHHHhCCcc
Confidence 9999986 67788999999999999999987 32 345889999999999
Q ss_pred ccceeeEEe-e-CCccceeE
Q 037761 308 KGLSGEFHL-V-NGQLESSV 325 (753)
Q Consensus 308 ~g~~G~v~f-~-~g~~~~~~ 325 (753)
+|+.|++.| . +++...+.
T Consensus 320 ~~~~g~~~~~~~~~~~~~~~ 339 (342)
T cd06329 320 DTPVGPVTMRASDHQAQQPL 339 (342)
T ss_pred ccCCCCeEEcccCcchhccc
Confidence 999999999 3 55554443
No 56
>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=99.96 E-value=4.4e-28 Score=257.58 Aligned_cols=282 Identities=15% Similarity=0.161 Sum_probs=233.1
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
++++|.+++.++++|+++++|.+|+|+.+|.++.+ .++++..++|+|+++++++.+++..++++||+.|++..++.+++
T Consensus 52 ~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~~~~-~~~~~~~~ip~i~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~~~ 130 (347)
T cd06336 52 DKYDPAEAAANARRLVQQDGVKFILGPIGGGITAA-QQITERNKVLLLTAYSSDLSIDTAGNPLTFRVPPIYNVYGVPFL 130 (347)
T ss_pred CCCCHHHHHHHHHHHHhhcCceEEEeCCCCchhhh-hhhhhhcCceEEeccCCcccccccCCceEEEecCCchhHHHHHH
Confidence 78999999999999999989999999999999988 99999999999999998888876677999999999999999999
Q ss_pred HHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH-HHH
Q 037761 88 AVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA-LAS 166 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~-~~~ 166 (753)
+++.+.+|++|++++.|++||+...+.+++.+++.|++++....++.+ ..|+++.+.+|+++++|+|++++... +..
T Consensus 131 ~~~~~~~~~~v~il~~d~~~g~~~~~~~~~~l~~~G~~vv~~~~~~~~--~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~ 208 (347)
T cd06336 131 AYAKKPGGKKVALLGPNDAYGQPWVAAYKAAWEAAGGKVVSEEPYDPG--TTDFSPIVTKLLAEKPDVIFLGGPSPAPAA 208 (347)
T ss_pred HHHhhcCCceEEEEccCCchhHHHHHHHHHHHHHcCCEEeeecccCCC--CcchHHHHHHHHhcCCCEEEEcCCCchHHH
Confidence 999878999999999999999999999999999999999988888754 67999999999999999999999988 999
Q ss_pred HHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC----CChhhhHHHHHHHHhhCCCCCCCCcc
Q 037761 167 RLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP----KSKELGLFDRRWKSKLHSMKPNSSVT 242 (753)
Q Consensus 167 ~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~----~~~~~~~F~~~~~~~~~~~~~~~~~~ 242 (753)
.++++++++|+..+ ++..+..... ........+..+|++....+.+ ..|..++|.++|+++|+.
T Consensus 209 ~~~~~~~~~g~~~~---~~~~~~~~~~-~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-------- 276 (347)
T cd06336 209 LVIKQARELGFKGG---FLSCTGDKYD-ELLVATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYGE-------- 276 (347)
T ss_pred HHHHHHHHcCCCcc---EEeccCCCch-HHHHHhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHHCC--------
Confidence 99999999998532 2222221111 1111223356678887766544 467889999999999987
Q ss_pred ccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHH-------hcccccceeeEE
Q 037761 243 EINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQIL-------NTQFKGLSGEFH 315 (753)
Q Consensus 243 ~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~-------~~~f~g~~G~v~ 315 (753)
.++.++..+||++.++++|++++ +.. .....+...++ ...|.++.|.+.
T Consensus 277 ~p~~~~~~~y~~~~~~~~Al~~a-g~~-----------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 332 (347)
T cd06336 277 PPNSEAAVSYDAVYILKAAMEAA-GSV-----------------------DDTAAVAALAAMLGVGKPAFGYARWWGKEL 332 (347)
T ss_pred CCcHHHHHHHHHHHHHHHHHHhc-CCC-----------------------CcHHHHHHHhhccCCCcCcccccccccccc
Confidence 67888999999999999999998 321 11133333333 357899999999
Q ss_pred e-eCCccceeEEEE
Q 037761 316 L-VNGQLESSVFEI 328 (753)
Q Consensus 316 f-~~g~~~~~~y~i 328 (753)
| ++|+...+.+.+
T Consensus 333 ~~~~~~~~~~~~~~ 346 (347)
T cd06336 333 FGVNGALVGPWPVV 346 (347)
T ss_pred ccCCCccccCcccc
Confidence 9 999997665443
No 57
>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=99.96 E-value=1.6e-27 Score=252.75 Aligned_cols=279 Identities=18% Similarity=0.249 Sum_probs=234.4
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
++++|.++++.+++|+++++|++||||.+|..+.+++++++.++||+|+++++.+.+++.. +++||++|++..++.+++
T Consensus 48 ~~~~~~~~~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~i~~~~~~~~~~~~~-~~~fr~~~~~~~~~~~~~ 126 (334)
T cd06347 48 NKSDKEEAANAATRLIDQDKVVAIIGPVTSGATLAAGPIAEDAKVPMITPSATNPKVTQGK-DYVFRVCFIDPFQGTVMA 126 (334)
T ss_pred CCCChHHHHHHHHHHhcccCeEEEEcCCccHhHHHhHHHHHHCCCeEEcCCCCCCCcccCC-CeEEEeeCCcHHHHHHHH
Confidence 7899999999999999988999999999999999999999999999999988877776532 489999999999999999
Q ss_pred HHH-HHcCCeEEEEEEeeC-CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHH
Q 037761 88 AVL-QNFSWHEVVLMYEDT-NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALA 165 (753)
Q Consensus 88 ~~l-~~~~w~~vail~~d~-~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~ 165 (753)
+++ ++++|++|++|+.++ +|+....+.+++.+++.|++++....++.+ ..|+.+.++++++.++|+|++.+...+.
T Consensus 127 ~~~~~~~~~~~v~ii~~~~~~~~~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~d~~~~~~~~~~~~~d~i~~~~~~~~~ 204 (334)
T cd06347 127 KFATENLKAKKAAVLYDNSSDYSKGLAKAFKEAFKKLGGEIVAEETFNAG--DTDFSAQLTKIKAKNPDVIFLPGYYTEV 204 (334)
T ss_pred HHHHHhcCCcEEEEEEeCCCchhHHHHHHHHHHHHHcCCEEEEEEEecCC--CCcHHHHHHHHHhcCCCEEEEcCchhhH
Confidence 987 677999999999875 899999999999999999999988887754 5689999999999999999999999999
Q ss_pred HHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHHHHHhhCCCCCCCCccc
Q 037761 166 SRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRRWKSKLHSMKPNSSVTE 243 (753)
Q Consensus 166 ~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~~~~~~~~~~~~~~~~~ 243 (753)
..+++++++.|+. ..|++++.|..... .....+..+|.+....+.+ ..+..++|.+.|+++++. .
T Consensus 205 ~~~~~~~~~~g~~---~~i~~~~~~~~~~~--~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--------~ 271 (334)
T cd06347 205 GLIAKQARELGIK---VPILGGDGWDSPKL--EEAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKYGK--------E 271 (334)
T ss_pred HHHHHHHHHcCCC---CcEEecccccCHHH--HHHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHCC--------C
Confidence 9999999999973 35777666654211 1223456778776655444 357889999999999875 6
Q ss_pred cchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhc-ccccceeeEEe-eCCcc
Q 037761 244 INISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNT-QFKGLSGEFHL-VNGQL 321 (753)
Q Consensus 244 ~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~-~f~g~~G~v~f-~~g~~ 321 (753)
++.++..+||+++++++|++++ +. .++..+.+.|.+. .|+|++|.+.| ++|+.
T Consensus 272 ~~~~~~~~yda~~~~~~Al~~a-g~------------------------~~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~ 326 (334)
T cd06347 272 PDAFAALGYDAYYLLADAIERA-GS------------------------TDPEAIRDALAKTKDFDGVTGKITIDENGNP 326 (334)
T ss_pred cchhHHHHHHHHHHHHHHHHHh-CC------------------------CCHHHHHHHHHhCCCcccceeeeEECCCCCc
Confidence 7888999999999999999987 21 1347888888765 69999999999 78887
Q ss_pred ceeEEE
Q 037761 322 ESSVFE 327 (753)
Q Consensus 322 ~~~~y~ 327 (753)
.+..|.
T Consensus 327 ~~~~~~ 332 (334)
T cd06347 327 VKSAVI 332 (334)
T ss_pred CCCcee
Confidence 655543
No 58
>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=1.7e-27 Score=255.10 Aligned_cols=295 Identities=12% Similarity=0.170 Sum_probs=240.1
Q ss_pred eeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHH
Q 037761 4 LLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSL 81 (753)
Q Consensus 4 l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~ 81 (753)
|+.. |+++|.+++.++++|+.+++|.+|||+.+|..+.++.++++..++|+|+++++++.+++ ..+|++||+.|++..
T Consensus 50 l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~ 129 (362)
T cd06343 50 LIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGLGTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSYQD 129 (362)
T ss_pred EEEecCCCChHHHHHHHHHHHhhcCeEEEEecCCcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCChHH
Confidence 3444 78999999999999999889999999999999999999999999999999888888876 478999999999999
Q ss_pred HHHHHHHHH-HHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 82 QVKAISAVL-QNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 82 ~~~a~~~~l-~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
++.++++++ ++++|+++++++.++.||.+..+.+++.+++.|++++..+.++.+ ++|+++.++++++.++|+|++.+
T Consensus 130 ~~~~~~~~~~~~~g~~~v~ii~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~v~~i~~~~~d~v~~~~ 207 (362)
T cd06343 130 EARIYAKYLVEEKPNAKIAVLYQNDDFGKDYLKGLKDGLGDAGLEIVAETSYEVT--EPDFDSQVAKLKAAGADVVVLAT 207 (362)
T ss_pred HHHHHHHHHHHhCCCceEEEEEeccHHHHHHHHHHHHHHHHcCCeEEEEeeecCC--CccHHHHHHHHHhcCCCEEEEEc
Confidence 999999975 678999999999999999999999999999999999998888754 67999999999999999999999
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeC-------CCChhhhHHHHHHHHhhC
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHL-------PKSKELGLFDRRWKSKLH 233 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~-------~~~~~~~~F~~~~~~~~~ 233 (753)
...+...+++++++.|+.. .++.++.+......+.....+..+|++....+. ...|..++|.+.|+++++
T Consensus 208 ~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~ 284 (362)
T cd06343 208 TPKFAAQAIRKAAELGWKP---TFLLSSVSASVASVLKPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFP 284 (362)
T ss_pred CcHHHHHHHHHHHHcCCCc---eEEEEecccccHHHHHHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcC
Confidence 9999999999999999853 245555443221112222335577887765542 235778899999999997
Q ss_pred CCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhccc---cc-
Q 037761 234 SMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQF---KG- 309 (753)
Q Consensus 234 ~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f---~g- 309 (753)
... .++.++..+||++.++++|++++ +. ..+++.|.++|+++.+ .+
T Consensus 285 ~~~------~~~~~~~~~y~a~~~~~~a~~~a-g~-----------------------~~~~~~v~~aL~~~~~~~~~~~ 334 (362)
T cd06343 285 EGD------PPDTYAVYGYAAAETLVKVLKQA-GD-----------------------DLTRENIMKQAESLKDVLPDLL 334 (362)
T ss_pred CCC------CCchhhhHHHHHHHHHHHHHHHh-CC-----------------------CCCHHHHHHHHHhCCCCCcccc
Confidence 521 37788999999999999999998 31 1345899999999987 32
Q ss_pred ceeeEEe-eCCccceeEEEEEEEec
Q 037761 310 LSGEFHL-VNGQLESSVFEIVNVIG 333 (753)
Q Consensus 310 ~~G~v~f-~~g~~~~~~y~i~~~~~ 333 (753)
..|++.| .++......+.|.++++
T Consensus 335 ~~~~~~~~~~~~~~~~~~~i~~~~~ 359 (362)
T cd06343 335 PGIRINTSPDDHLPIEQMQLMRFEG 359 (362)
T ss_pred CccceecCccccccceeEEEEEEec
Confidence 4458899 44333345677777765
No 59
>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=99.96 E-value=6.6e-28 Score=254.85 Aligned_cols=305 Identities=12% Similarity=0.102 Sum_probs=216.2
Q ss_pred CCCChHHHHHHHHHHHhcCCe--EEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQV--QAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKA 85 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V--~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a 85 (753)
+..|...+..++|+++++ ++ .|||||.+|..+.+++.+++.++||+|+++.. ..++..+|+++|+.|++..++.|
T Consensus 47 ~~~d~~~~~~~~C~~~~~-gv~~~AIiGp~ss~~a~~V~si~~~~~IP~Is~s~~--~~~~~~~p~~ir~~Ps~~~~~~A 123 (368)
T cd06383 47 NRNDVKVALIEVCDKADS-AIVPHLVLDTTTCGDASEIKSVTGALGIPTFSASYG--QEGDLEQPYLIQLMPPADDIVEA 123 (368)
T ss_pred cCCcHHHHHHHHHHHHHc-cCCcEEEECCCcchhHHHHHHHHhccCCCEEEccCC--CcCcccCceEEEEeCChHHHHHH
Confidence 445667777779999987 66 79999999999999999999999999998543 23345789999999999999999
Q ss_pred HHHHHHHcCCeEEEEEEeeCCccc-chHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC-hH
Q 037761 86 ISAVLQNFSWHEVVLMYEDTNYGA-GFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN-TA 163 (753)
Q Consensus 86 ~~~~l~~~~w~~vail~~d~~~g~-~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~-~~ 163 (753)
+++++++|+|++|++||++++++. ...+.+.......+.++. . . ...++...+++|++.+++.||+.+. .+
T Consensus 124 i~dlI~~f~W~~v~iIYddd~gl~~~l~~~l~~~~~~~~~~v~-~----~--~~~~~~~~Lk~lk~~~~~rIIi~~s~~~ 196 (368)
T cd06383 124 IRDIVSYYNITNAAILYDDDFVMDHKYKSLLQNWPTRHVITII-N----S--IIDEVREQIKRLRNLDIKNIFILGSTEE 196 (368)
T ss_pred HHHHHHHCCCcEEEEEEEcCchhhHHHHHHHHhHHhcCCEEEE-e----c--cchhHHHHHHHHHhCCCeEEEEEeCCHH
Confidence 999999999999999997766443 233334334444555553 1 1 1347889999999988855555555 58
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCCCccc
Q 037761 164 LASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNSSVTE 243 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~ 243 (753)
.+..++++|.++||...+|+||.++......+. ........++.++..........++|.++|.+. ..+.....+
T Consensus 197 ~~~~il~qA~~lgm~~~~y~wilt~ld~~~~dl--~~~~~~~~Nitgfrl~~~~~~~~~~~~~~~~~~---~~~~~~~~~ 271 (368)
T cd06383 197 IIRYVLDQALAEGFMGRKYAWFLGNPDLGIYDD--LSCQLRNASIFVTRPMMDYQSSVRGALLRTDEP---TLRPVFYFE 271 (368)
T ss_pred HHHHHHHHHHHcCCcCCceEEEEcCCCchhhhh--hhhccccCcEEEeeccccchhhhccceeeccCC---ccCchhHHH
Confidence 999999999999999999999999986654322 122233457888887555554457777766221 101111113
Q ss_pred cchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCC---Cccc-cchHHHHHHHHhcccccceeeEEe-eC
Q 037761 244 INISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGS---LGFS-RIGHILCNQILNTQFKGLSGEFHL-VN 318 (753)
Q Consensus 244 ~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~-~~~~~l~~~l~~~~f~g~~G~v~f-~~ 318 (753)
...-++.+||||+++++|++++ ..... ..+|.......|.. ..+| .+|..+.++|+.++|+|+||+|.| ++
T Consensus 272 ~~~~~aL~~Dav~~~~~a~~~l-~~~~~---~~~~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~ 347 (368)
T cd06383 272 WAFRLFLAYDAVLAVGEWPRRM-RKKRV---EDGSTGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEG 347 (368)
T ss_pred HHHHHHHHHHHHHHhccccchh-heeec---cCCCcCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecC
Confidence 4456899999999999999976 22111 11111111112221 1234 556699999999999999999999 88
Q ss_pred CccceeEEEEEEEec
Q 037761 319 GQLESSVFEIVNVIG 333 (753)
Q Consensus 319 g~~~~~~y~i~~~~~ 333 (753)
|.| ..|.+..|..
T Consensus 348 g~R--~~~~l~~~~~ 360 (368)
T cd06383 348 SSV--STKTIGSWSA 360 (368)
T ss_pred cee--eeeeeeeEec
Confidence 987 4677755554
No 60
>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=99.96 E-value=1.8e-27 Score=251.71 Aligned_cols=280 Identities=14% Similarity=0.122 Sum_probs=229.7
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSL 81 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~ 81 (753)
+++.. |++||.+|+.++++|+++++|++|+|+.+|..+.++.++++..++|+|++++... ....|++||+.|++..
T Consensus 42 ~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~---~~~~~~~f~~~~~~~~ 118 (333)
T cd06331 42 ELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSASRKAVLPVVERGRGLLFYPTQYEG---GECSPNVFYTGATPNQ 118 (333)
T ss_pred EEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHHHHHHHHHHHhcCceEEeCCCCCC---CcCCCCeEEccCChHH
Confidence 34444 7799999999999999999999999999999999999999999999999764322 1245899999999999
Q ss_pred HHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 82 QVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 82 ~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
++.++++++...+|++|++|+.|+.||....+.+++.+++.|++++....++.+ .+|+++++.++++.++|+|++.+.
T Consensus 119 ~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~v~~~~~~~~d~v~~~~~ 196 (333)
T cd06331 119 QLLPLIPYLMEKYGKRFYLIGSDYVWPRESNRIARALLEELGGEVVGEEYLPLG--TSDFGSVIEKIKAAGPDVVLSTLV 196 (333)
T ss_pred hHHHHHHHHHHhcCCeEEEECCCchhHHHHHHHHHHHHHHcCCEEEEEEEecCC--cccHHHHHHHHHHcCCCEEEEecC
Confidence 999999988665699999999999999999999999999999999988888855 679999999999999999999999
Q ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHHHHHhhCCCCCCC
Q 037761 162 TALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRRWKSKLHSMKPNS 239 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~~~~~~~~~~~~~ 239 (753)
+.+...+++++++.|+.... .++.+...... . +........+|++....+.+ +.+..++|.++|+++++...
T Consensus 197 ~~~~~~~~~~~~~~g~~~~~-~~~~~~~~~~~-~-~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~--- 270 (333)
T cd06331 197 GDSNVAFYRQFAAAGLDADR-IPILSLTLDEN-E-LAAIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDDA--- 270 (333)
T ss_pred CCChHHHHHHHHHcCCCcCC-CeeEEcccchh-h-hhccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCCc---
Confidence 99999999999999985333 33443322221 1 11112345678877765543 35788999999999887521
Q ss_pred CccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-eC
Q 037761 240 SVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-VN 318 (753)
Q Consensus 240 ~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~ 318 (753)
.++.+++.+||+++++++|++++ +. .++.+|.++|++++|+|++|.+.| ++
T Consensus 271 ---~~~~~~~~~yda~~~~~~A~~~a-g~------------------------~~~~~l~~al~~~~~~~~~G~i~f~~~ 322 (333)
T cd06331 271 ---VINSPAEAAYEAVYLWAAAVEKA-GS------------------------TDPEAVRAALEGVSFDAPQGPVRIDPD 322 (333)
T ss_pred ---CCCchhHHHHHHHHHHHHHHHHc-CC------------------------CCHHHHHHHhhcCcccCCCCceEecCC
Confidence 46788999999999999999987 21 345889999999999999999999 65
Q ss_pred Ccc
Q 037761 319 GQL 321 (753)
Q Consensus 319 g~~ 321 (753)
+++
T Consensus 323 ~~~ 325 (333)
T cd06331 323 NHH 325 (333)
T ss_pred CCc
Confidence 554
No 61
>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=99.96 E-value=6.9e-27 Score=248.15 Aligned_cols=288 Identities=12% Similarity=0.167 Sum_probs=234.9
Q ss_pred eeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHH
Q 037761 4 LLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQ 82 (753)
Q Consensus 4 l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~ 82 (753)
++.. |+++|..|++.+++|+++++|.+|+|+.+|+.+.+++++++..++|+|+++++.+.+++ ..+|+||+.|++..+
T Consensus 43 l~~~D~~~~~~~a~~~a~~li~~~~V~~i~G~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~-~~~~~f~~~~~~~~~ 121 (340)
T cd06349 43 IVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDFSSGVSMAASPIYQRAGLVQLSPTNSHPDFTK-GGDFIFRNSTSQAIE 121 (340)
T ss_pred EEEeCCCCChHHHHHHHHHHhccCCeEEEECCCccHhHHHhHHHHHhCCCeEEecCCCCCcccc-CCCeEEEccCCcHHH
Confidence 3444 88999999999999999999999999999999999999999999999999887777764 358999999999999
Q ss_pred HHHHHHHH-HHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 83 VKAISAVL-QNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 83 ~~a~~~~l-~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
+.++++++ ++++|+++++++.|++||....+.+++.+++.|++++....++.+ +.|+++.+.++++++||+|++.+.
T Consensus 122 ~~~~~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~d~~~~v~~l~~~~~d~v~~~~~ 199 (340)
T cd06349 122 APLLADYAVKDLGFKKVAILSVNTDWGRTSADIFVKAAEKLGGQVVAHEEYVPG--EKDFRPTITRLRDANPDAIILISY 199 (340)
T ss_pred HHHHHHHHHHHcCCcEEEEEecCChHhHHHHHHHHHHHHHcCCEEEEEEEeCCC--CCcHHHHHHHHHhcCCCEEEEccc
Confidence 99999986 778999999999999999999999999999999999988777754 679999999999999999999999
Q ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCC--ChhhhHHHHHHHHhhCCCCCCC
Q 037761 162 TALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPK--SKELGLFDRRWKSKLHSMKPNS 239 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~--~~~~~~F~~~~~~~~~~~~~~~ 239 (753)
+.+...+++++++.|+.. .++..+..... .. .....+..+|++....+.+. .|..++|.++|+++|+.
T Consensus 200 ~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~-~~-~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~----- 269 (340)
T cd06349 200 YNDGAPIARQARAVGLDI---PVVASSSVYSP-KF-IELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKYGA----- 269 (340)
T ss_pred cchHHHHHHHHHHcCCCC---cEEccCCcCCH-HH-HHHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHCC-----
Confidence 999999999999999743 34444333211 11 11233457788876655543 57789999999999986
Q ss_pred CccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHH-HHhcccccceeeEEe-e
Q 037761 240 SVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQ-ILNTQFKGLSGEFHL-V 317 (753)
Q Consensus 240 ~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-l~~~~f~g~~G~v~f-~ 317 (753)
.|+.++..+||++.++++|++++ +.. +...+... +.+..+.|.+|.++| .
T Consensus 270 ---~p~~~~~~~y~~~~~~~~a~~~a-g~~------------------------~~~~~~~~~~~~~~~~~~~g~i~~~~ 321 (340)
T cd06349 270 ---QPDAFAAQAYDAVGILAAAVRRA-GTD------------------------RRAARDGFAKAEDVYSGVTGSTKFDP 321 (340)
T ss_pred ---CcchhhhhHHHHHHHHHHHHHHh-CCC------------------------CHHHHHHHHHhccCcccceEeEEECC
Confidence 67888999999999999999998 321 11233333 255568899999999 6
Q ss_pred C-CccceeEEEEEEEec
Q 037761 318 N-GQLESSVFEIVNVIG 333 (753)
Q Consensus 318 ~-g~~~~~~y~i~~~~~ 333 (753)
+ ++. ...|.++.+++
T Consensus 322 ~~~~~-~~~~~~~~~~~ 337 (340)
T cd06349 322 NTRRV-IKRFVPLVVRN 337 (340)
T ss_pred CCCCc-cCceEEEEEeC
Confidence 5 655 34777777765
No 62
>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=99.96 E-value=1.3e-26 Score=246.98 Aligned_cols=290 Identities=13% Similarity=0.078 Sum_probs=229.9
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSL 81 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~ 81 (753)
+|+.. |+++|.+|+.++++|+++++|.+|+|+.+|.++.++.++++..++|++++.... .+...|++||+.+++..
T Consensus 43 ~l~~~Dd~~~p~~a~~~a~~Lv~~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~~---~~~~~~~~F~~~~~~~~ 119 (359)
T TIGR03407 43 EPVVEDGASDWPTFAEKARKLITQDKVAAVFGCWTSASRKAVLPVFEENNGLLFYPVQYE---GEECSPNIFYTGAAPNQ 119 (359)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCCcHHHHHHHHHHHhccCCceEeCCccc---CcccCCCEEEcCCChHH
Confidence 44444 779999999999999999999999999999999999999999999999865321 13456899999999999
Q ss_pred HHHHHHHHHHH-cCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 82 QVKAISAVLQN-FSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 82 ~~~a~~~~l~~-~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
++.++++++.. .|.+++++++.|++||....+.+++.+++.|++++....++.+ ++|+++++++|++++||+|++..
T Consensus 120 ~~~~~~~~~~~~~g~k~v~~l~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~D~s~~v~~l~~~~pDav~~~~ 197 (359)
T TIGR03407 120 QIIPAVDYLLSKKGAKRFFLLGSDYVFPRTANKIIKAYLKSLGGTVVGEDYTPLG--HTDFQTIINKIKAFKPDVVFNTL 197 (359)
T ss_pred HHHHHHHHHHhccCCceEEEecCccHHHHHHHHHHHHHHHHcCCEEEeeEEecCC--hHhHHHHHHHHHHhCCCEEEEec
Confidence 99999998865 5999999999999999999999999999999999988887754 78999999999999999999888
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEe--CCCChhhhHHHHHHHHhhCCCCCC
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSH--LPKSKELGLFDRRWKSKLHSMKPN 238 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~--~~~~~~~~~F~~~~~~~~~~~~~~ 238 (753)
.+.+...+++++++.|+......++.+...... +.....+..+|+++...+ ....|..++|.++|+++|+...
T Consensus 198 ~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~---~~~~g~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~-- 272 (359)
T TIGR03407 198 NGDSNVAFFKQLKNAGITAKDVPVVSFSVAEEE---IRGIGPENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDDR-- 272 (359)
T ss_pred cCCCHHHHHHHHHHcCCCccCCcEEEeecCHHH---HhhcChHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCCC--
Confidence 887888999999999985433334443322111 111112456776653222 2355788999999999987521
Q ss_pred CCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-e
Q 037761 239 SSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-V 317 (753)
Q Consensus 239 ~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~ 317 (753)
.++.++..+||+++++++|++++ +. .++.+|.++|++++|+++.|.++| +
T Consensus 273 ----~~~~~~~~~y~a~~~~~~A~~~a-g~------------------------~~~~~i~~al~~~~~~~~~G~i~f~~ 323 (359)
T TIGR03407 273 ----VTNDPMEAAYLGVYLWKAAVEKA-GS------------------------FDVDAVRDAAIGIEFDAPEGKVKVDG 323 (359)
T ss_pred ----CCCcHHHHHHHHHHHHHHHHHHh-CC------------------------CCHHHHHHHhcCCcccCCCccEEEeC
Confidence 23455678999999999999998 32 245899999999999999999999 5
Q ss_pred -CCccceeEEEEEEEe
Q 037761 318 -NGQLESSVFEIVNVI 332 (753)
Q Consensus 318 -~g~~~~~~y~i~~~~ 332 (753)
+++. ...+.+.+++
T Consensus 324 ~~~~~-~~~~~~~~~~ 338 (359)
T TIGR03407 324 KNHHL-TKTVRIGEIR 338 (359)
T ss_pred CCCee-eeeeEEEEEc
Confidence 4554 3455566665
No 63
>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=99.95 E-value=4.7e-27 Score=250.39 Aligned_cols=278 Identities=11% Similarity=0.094 Sum_probs=220.1
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCC------C-CCCCCceEE
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPAL------S-PTEHPFFIR 74 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l------~-~~~~~~~fr 74 (753)
+|+.. |+++|.+|+.++++|+++++|.+|||+.+|+++.+++++++..+||+|++.+..+.+ . ..+++|+||
T Consensus 44 ~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~ 123 (357)
T cd06337 44 EIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTPDTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYH 123 (357)
T ss_pred EEEEecCCCCHHHHHHHHHHHHhccCccEEEecCCcchhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEE
Confidence 34444 789999999999999999999999999999999999999999999999975432221 1 235789999
Q ss_pred EecCcHHHHHHHHHHHHHcC-CeEEEEEEeeCCcccchHHHHH---HHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc
Q 037761 75 VTQNDSLQVKAISAVLQNFS-WHEVVLMYEDTNYGAGFISFLV---DELQENDIRISHMSKIPTSAEDFQISKELSKLST 150 (753)
Q Consensus 75 ~~p~~~~~~~a~~~~l~~~~-w~~vail~~d~~~g~~~~~~~~---~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~ 150 (753)
+.+++..+..+++++++..+ ++++++++.|+.||....+.+. +.+++.|++++..+.++.+ .+||++++++|++
T Consensus 124 ~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g~~~~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~D~~~~v~~ik~ 201 (357)
T cd06337 124 FFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDGNAFADPVIGLPAALADAGYKLVDPGRFEPG--TDDFSSQINAFKR 201 (357)
T ss_pred ecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchhHHHHHhhhcccHHHHhCCcEEecccccCCC--CCcHHHHHHHHHh
Confidence 99999888899998888777 9999999999999998877665 5777899999999888765 7799999999999
Q ss_pred CCccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCC--------hhhh
Q 037761 151 MQTRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKS--------KELG 222 (753)
Q Consensus 151 ~~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~--------~~~~ 222 (753)
++||+|++.+.++++..++++++++|+..+ ++..+........ .....+..+|++....+.+.. +..+
T Consensus 202 a~pD~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~~-~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~ 277 (357)
T cd06337 202 EGVDIVTGFAIPPDFATFWRQAAQAGFKPK---IVTIAKALLFPED-VEALGDRGDGMSTEVWWSPSHPFRSSLTGQSAA 277 (357)
T ss_pred cCCCEEEeCCCccHHHHHHHHHHHCCCCCC---eEEEeccccCHHH-HHHhhhhhcCccccceeccCCCcccccCCccHH
Confidence 999999999999999999999999997432 2322211111111 122334456766554443332 3578
Q ss_pred HHHHHHHHhhCCCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHH
Q 037761 223 LFDRRWKSKLHSMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQI 302 (753)
Q Consensus 223 ~F~~~~~~~~~~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l 302 (753)
+|.++|+++|+. .+...+.++|++++++++|++++ +. ..++.+|.++|
T Consensus 278 ~~~~~y~~~~g~--------~~~~~~~~~~~~~~~l~~Ai~~A-gs-----------------------~~d~~~v~~aL 325 (357)
T cd06337 278 ELADAYEAATGR--------QWTQPLGYAHALFEVGVKALVRA-DD-----------------------PDDPAAVADAI 325 (357)
T ss_pred HHHHHHHHHhCC--------CccCcchHHHHHHHHHHHHHHHc-CC-----------------------CCCHHHHHHHH
Confidence 999999999986 45556778999999999999998 32 12457899999
Q ss_pred HhcccccceeeEEe-eC
Q 037761 303 LNTQFKGLSGEFHL-VN 318 (753)
Q Consensus 303 ~~~~f~g~~G~v~f-~~ 318 (753)
++++|+++.|++.| ++
T Consensus 326 ~~~~~~~~~G~~~f~~~ 342 (357)
T cd06337 326 ATLKLDTVVGPVDFGNS 342 (357)
T ss_pred HcCCcccceeeeecCCC
Confidence 99999999999999 44
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=99.95 E-value=5e-27 Score=249.95 Aligned_cols=279 Identities=16% Similarity=0.143 Sum_probs=228.6
Q ss_pred eeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHH
Q 037761 4 LLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSL 81 (753)
Q Consensus 4 l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~ 81 (753)
++.. ++++|.++++++++|+.+++|.+||||.+|..+.+++++++..++|+|++.++++.+.+ ..++++||+.|++..
T Consensus 43 ~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~s~~~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~ 122 (346)
T cd06330 43 LVVRDEAGKPDEAIREARELVENEGVDMLIGLISSGVALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIM 122 (346)
T ss_pred EEEecCCCCHHHHHHHHHHHHhccCCcEEEcccchHHHHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHH
Confidence 4444 77999999999999999889999999999999999999999999999999888888775 678999999999999
Q ss_pred HHHHHHHHHHHc--CCeEEEEEEeeCCcccchHHHHHHHHHhCC--eEEEEeeccCCCCchhhHHHHHHHHhcCCccEEE
Q 037761 82 QVKAISAVLQNF--SWHEVVLMYEDTNYGAGFISFLVDELQEND--IRISHMSKIPTSAEDFQISKELSKLSTMQTRVFI 157 (753)
Q Consensus 82 ~~~a~~~~l~~~--~w~~vail~~d~~~g~~~~~~~~~~~~~~g--~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi 157 (753)
+..++++++.+. +|+++++++.|++||....+.+++.+++.| ++++....++. ..+|+...+.+|++.++|+|+
T Consensus 123 ~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~g~~~~~v~~~~~~~--~~~d~~~~v~~i~~~~~d~ii 200 (346)
T cd06330 123 DAVAGALYAAKLDKKAKTWATINPDYAYGQDAWADFKAALKRLRPDVEVVSEQWPKL--GAPDYGSEITALLAAKPDAIF 200 (346)
T ss_pred HHHHHHHHHHHhCcCccEEEEECCchHHHHHHHHHHHHHHHHhCCCCeecccccCCC--CCcccHHHHHHHHhcCCCEEE
Confidence 999999999776 499999999999999999999999999985 55655444433 467999999999999999999
Q ss_pred EEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEE--eCC--CChhhhHHHHHHHHhhC
Q 037761 158 VHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRS--HLP--KSKELGLFDRRWKSKLH 233 (753)
Q Consensus 158 ~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~--~~~--~~~~~~~F~~~~~~~~~ 233 (753)
+++.+.+...+++++++.|+.. +..|+.+...... ......+..+|++.... +.. ..+..++|.++|+++|+
T Consensus 201 ~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~---~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~g 276 (346)
T cd06330 201 SSLWGGDLVTFVRQANARGLFD-GTTVVLTLTGAPE---LAPLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKYG 276 (346)
T ss_pred EecccccHHHHHHHHHhcCccc-CceEEeeccchhh---hhhhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHHC
Confidence 9999999999999999999853 5567766553322 11122345567654432 221 46788999999999998
Q ss_pred CCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceee
Q 037761 234 SMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGE 313 (753)
Q Consensus 234 ~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~ 313 (753)
. .|+.++..+||++.++++|++++ +.... ..+. ..|.++|++++|.|+.|.
T Consensus 277 ~--------~p~~~~~~~y~a~~~l~~a~~~a-~~~~~-------------------~~~~-~~v~~al~~~~~~~~~G~ 327 (346)
T cd06330 277 D--------YPTYGAYGAYQAVMALAAAVEKA-GATDG-------------------GAPP-EQIAAALEGLSFETPGGP 327 (346)
T ss_pred C--------CCChHHHHHHHHHHHHHHHHHHh-cCCCC-------------------CCcH-HHHHHHHcCCCccCCCCc
Confidence 5 67788999999999999999998 32110 1111 579999999999999999
Q ss_pred EEe-e
Q 037761 314 FHL-V 317 (753)
Q Consensus 314 v~f-~ 317 (753)
+.| +
T Consensus 328 ~~f~~ 332 (346)
T cd06330 328 ITMRA 332 (346)
T ss_pred eeeec
Confidence 999 5
No 65
>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=99.95 E-value=2e-26 Score=244.33 Aligned_cols=285 Identities=15% Similarity=0.176 Sum_probs=234.9
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDS 80 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~ 80 (753)
+|+.. ++++|..+.+++++|+.+++|.+|||+.+|..+.++.+.++..++|+|+++++++.+++ ..+|++||+.|++.
T Consensus 40 ~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~ 119 (333)
T cd06332 40 EVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNVALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQND 119 (333)
T ss_pred EEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHHHHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChH
Confidence 45554 68999999999999999889999999999999999999999999999999888777775 45799999999999
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 81 LQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 81 ~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
.++..+++++...||+++++++.++.||.+..+.+++.++ +.++....++.+ ..|+...++++++.+||+|+++.
T Consensus 120 ~~~~~~~~~l~~~g~~~v~il~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~--~~d~~~~i~~l~~~~~d~i~~~~ 194 (333)
T cd06332 120 QVHEAMGKYAADKGYKKVVIIAPDYAAGKDAVAGFKRTFK---GEVVEEVYTPLG--QLDFSAELAQIRAAKPDAVFVFL 194 (333)
T ss_pred HhHHHHHHHHHHhCCceEEEEecCcchhHHHHHHHHHhhc---EEEeeEEecCCC--CcchHHHHHHHHhcCCCEEEEec
Confidence 9999999999888999999999999999999999999988 456555555543 56899999999999999999998
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHHHHHhhCCCCCC
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRRWKSKLHSMKPN 238 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~~~~~~~~~~~~ 238 (753)
...++..+++++++.|+.. ...+++++.+... . ......+..+|++....+.+ +.+..++|.++|+++++.
T Consensus 195 ~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~-~-~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~---- 267 (333)
T cd06332 195 PGGMAVNFVKQYDQAGLKK-KIPLYGPGFLTDQ-D-TLPAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAYGR---- 267 (333)
T ss_pred ccchHHHHHHHHHHcCccc-CCceeccCCCCCH-H-HHHhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHhCC----
Confidence 8888999999999999842 3456655544322 1 11234456778887766654 357889999999999986
Q ss_pred CCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-e
Q 037761 239 SSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-V 317 (753)
Q Consensus 239 ~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~ 317 (753)
.++.++..+||+++++++|++++ +.. ..++..|.++|++..|+|++|.+.| .
T Consensus 268 ----~~~~~~~~~yda~~~~~~a~~~a-g~~----------------------~~~~~~v~~al~~~~~~~~~g~i~f~~ 320 (333)
T cd06332 268 ----VPSVYAAQGYDAAQLLDAALRAV-GGD----------------------LSDKDALRAALRAADFDSPRGPFKFNP 320 (333)
T ss_pred ----CCcHHHHHHHHHHHHHHHHHHHh-cCC----------------------CCCHHHHHHHHhcCceecCccceeECC
Confidence 67888999999999999999998 321 1345789999999999999999999 8
Q ss_pred CCccceeEE
Q 037761 318 NGQLESSVF 326 (753)
Q Consensus 318 ~g~~~~~~y 326 (753)
+|+...+.|
T Consensus 321 ~~~~~~~~~ 329 (333)
T cd06332 321 NHNPIQDFY 329 (333)
T ss_pred CCCccccee
Confidence 888755444
No 66
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=99.95 E-value=1.1e-26 Score=245.25 Aligned_cols=284 Identities=12% Similarity=0.087 Sum_probs=225.3
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSL 81 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~ 81 (753)
+|+.. |+++|.+++.++++|+.+++|++|||+.+|+++.++.++++.+++|+|+.++... ....|++||+.+++..
T Consensus 42 ~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~---~~~~~~~F~~~~~~~~ 118 (334)
T cd06356 42 ELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSASREAIRPIMDRTKQLYFYTTQYEG---GVCDRNTFCTGATPAQ 118 (334)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHHHHHHHHHHHhcCceEEeCCCccC---CcccCCEEEeCCCcHH
Confidence 45555 7899999999999999999999999999999999999999999999998643322 2234899999999999
Q ss_pred HHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 82 QVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 82 ~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
++.++++++...+-+++++|+.|++||.+..+.+++.+++.|++++..+.++.+ ..||++.++++++.+||+|++...
T Consensus 119 ~~~~~~~~~~~~~~~~vail~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~v~~l~~~~pd~v~~~~~ 196 (334)
T cd06356 119 QFSTLVPYMMEKYGKKVYTIAADYNFGQISAEWVRKIVEENGGEVVGEEFIPLD--VSDFGSTIQKIQAAKPDFVMSILV 196 (334)
T ss_pred HHHHHHHHHHHccCCeEEEECCCchhhHHHHHHHHHHHHHcCCEEEeeeecCCC--chhHHHHHHHHHhcCCCEEEEecc
Confidence 999999988665458899999999999999999999999999999998888765 779999999999999999999988
Q ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHHHHHhhCCCCCCC
Q 037761 162 TALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRRWKSKLHSMKPNS 239 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~~~~~~~~~~~~~ 239 (753)
+.+...+++++++.|+ . ....+.......... .........+|++....+.+ ..|..++|.++|+++|+...
T Consensus 197 ~~~~~~~~~~~~~~G~-~-~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~p--- 270 (334)
T cd06356 197 GANHLSFYRQWAAAGL-G-NIPMASSTLGAQGYE-HKRLKPPALKDMYATANYIEELDTPANKAFVERFRAKFPDAP--- 270 (334)
T ss_pred CCcHHHHHHHHHHcCC-c-cCceeeeecccchhH-HhccCchhcCCeEEecchhhhcCCHHHHHHHHHHHHHcCCCC---
Confidence 8889999999999998 1 112222211111110 00011245678777655433 35778999999999997621
Q ss_pred CccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHh-cccccceeeEEe-e
Q 037761 240 SVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILN-TQFKGLSGEFHL-V 317 (753)
Q Consensus 240 ~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~f~g~~G~v~f-~ 317 (753)
.++.++..+||+++++++|++++ +. .++..|.++|++ ..|+|+.|.+.| .
T Consensus 271 ---~~~~~~~~~y~a~~~~~~A~~~a-g~------------------------~~~~~v~~aL~~~~~~~~~~g~~~~~~ 322 (334)
T cd06356 271 ---YINEEAENNYEAIYLYKEAVEKA-GT------------------------TDRDAVIEALESGLVCDGPEGKVCIDG 322 (334)
T ss_pred ---CCCchhHHHHHHHHHHHHHHHHH-CC------------------------CCHHHHHHHHHhCCceeCCCceEEEec
Confidence 23678899999999999999998 32 345889999997 478999999999 4
Q ss_pred -CCccceeE
Q 037761 318 -NGQLESSV 325 (753)
Q Consensus 318 -~g~~~~~~ 325 (753)
+++..++.
T Consensus 323 ~~h~~~~~~ 331 (334)
T cd06356 323 KTHHTSHDM 331 (334)
T ss_pred CCCceeeee
Confidence 45544433
No 67
>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=99.95 E-value=1e-26 Score=245.83 Aligned_cols=282 Identities=14% Similarity=0.157 Sum_probs=227.1
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSL 81 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~ 81 (753)
+++.. |++||.+++.++++|+.+++|.+|||+.+|.++.++.++++ .++|+|++.+.+.. ...|++||+.+++..
T Consensus 42 ~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~a~a~~~~~~-~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~ 117 (333)
T cd06358 42 ELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAVRNAVAPVVA-GRVPYVYTSLYEGG---ECNPGVFLTGETPEQ 117 (333)
T ss_pred EEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHHHHHHHHHHh-cCceEEeCCCcCCC---CCCCCEEEcCCCcHH
Confidence 34444 78999999999999999999999999999999999999999 99999997543322 245899999999999
Q ss_pred HHHHHHHHH-HHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 82 QVKAISAVL-QNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 82 ~~~a~~~~l-~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
++.+++.++ +..+|++|++++.|+.||+...+.+++.+++.|++|+....++.+ ..|+++.+.++++.+||+|++.+
T Consensus 118 ~~~~~~~~~~~~~g~~~v~i~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~--~~d~~~~v~~l~~~~pd~v~~~~ 195 (333)
T cd06358 118 QLAPAIPWLAEEKGARRWYLIGNDYVWPRGSLAAAKRYIAELGGEVVGEEYVPLG--TTDFTSVLERIAASGADAVLSTL 195 (333)
T ss_pred HHHHHHHHHHHhcCCCeEEEEeccchhhHHHHHHHHHHHHHcCCEEeeeeeecCC--hHHHHHHHHHHHHcCCCEEEEeC
Confidence 988888876 667999999999999999999999999999999999988888754 78999999999999999999999
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEc-CcccccccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHHHHHhhCCCCC
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVT-ACLSNSLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRRWKSKLHSMKP 237 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~-~~~~~~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~~~~~~~~~~~ 237 (753)
...+...+++++++.|+..+ ++.. ..+... ..........+|++....+.+ ..+..++|.+.|+++|+...+
T Consensus 196 ~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~--~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~~ 270 (333)
T cd06358 196 VGQDAVAFNRQFAAAGLRDR---ILRLSPLMDEN--MLLASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDDAP 270 (333)
T ss_pred CCCchHHHHHHHHHcCCCcc---CceeecccCHH--HHHhcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCCC
Confidence 98888999999999998542 2222 222211 111112234677776554433 568899999999999986321
Q ss_pred CCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-
Q 037761 238 NSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL- 316 (753)
Q Consensus 238 ~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f- 316 (753)
.++.++..+||+++++++|++++ +. .++.+|.++|++.+|+|++|.+.|
T Consensus 271 -----~~~~~~~~~yda~~~~~~A~~~a-g~------------------------~~~~~v~~al~~~~~~~~~G~~~~~ 320 (333)
T cd06358 271 -----PLNSLSESCYEAVHALAAAAERA-GS------------------------LDPEALIAALEDVSYDGPRGTVTMR 320 (333)
T ss_pred -----CCChHHHHHHHHHHHHHHHHHHh-CC------------------------CCHHHHHHHhccCeeeCCCcceEEc
Confidence 46778889999999999999987 21 345889999999999999999999
Q ss_pred eCCccceeEE
Q 037761 317 VNGQLESSVF 326 (753)
Q Consensus 317 ~~g~~~~~~y 326 (753)
+++.. .+.|
T Consensus 321 ~~~~~-~~~~ 329 (333)
T cd06358 321 GRHAR-QPVY 329 (333)
T ss_pred ccccc-ccce
Confidence 66543 4543
No 68
>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=5.1e-26 Score=242.50 Aligned_cols=292 Identities=12% Similarity=0.090 Sum_probs=231.2
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSL 81 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~ 81 (753)
+|+.. |+++|.+|+.++++|+++++|.+|+|+.+|..+.++.++++..++|++++++... + ...|++|++.++...
T Consensus 42 elv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~~~a~~~~~~~~~~~~~~~~~~~~-~--~~~~~~f~~~~~~~~ 118 (360)
T cd06357 42 EPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSSRKAVLPVVERHDALLWYPTLYEG-F--EYSPNVIYTGAAPNQ 118 (360)
T ss_pred EEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHHHHHHHHHHHhcCceEEeCCCccC-C--cccCCEEEeCCCcHH
Confidence 34444 8899999999999999999999999999999999999999999999998764321 1 223678888888888
Q ss_pred HHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 82 QVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 82 ~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
++.++++++...+-+++++++.|++||.+..+.+++.+++.|++++....++.+.+++||.+++.++++++||+|++.+.
T Consensus 119 ~~~~~~~~~~~~~~~~v~~i~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~~~d~s~~v~~l~~~~pd~V~~~~~ 198 (360)
T cd06357 119 NSVPLADYLLRHYGKRVFLVGSNYIYPYESNRIMRDLLEQRGGEVLGERYLPLGASDEDFARIVEEIREAQPDFIFSTLV 198 (360)
T ss_pred HHHHHHHHHHhcCCcEEEEECCCCcchHHHHHHHHHHHHHcCCEEEEEEEecCCCchhhHHHHHHHHHHcCCCEEEEeCC
Confidence 88889998866556899999999999999999999999999999987665665545789999999999999999999999
Q ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHHHHHhhCCCCCCC
Q 037761 162 TALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRRWKSKLHSMKPNS 239 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~~~~~~~~~~~~~ 239 (753)
+.++..++++++++|+... ...+.+...... .+.....+..+|+++...+.+ ..|..++|.+.|+++|+...
T Consensus 199 ~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~~~--~~~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~--- 272 (360)
T cd06357 199 GQSSYAFYRAYAAAGFDPA-RMPIASLTTSEA--EVAAMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGEDA--- 272 (360)
T ss_pred CCChHHHHHHHHHcCCCcc-CceeEEeeccHH--HHhhcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCCCC---
Confidence 9999999999999998533 233333222111 111123456788888765433 46888999999999998621
Q ss_pred CccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-eC
Q 037761 240 SVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-VN 318 (753)
Q Consensus 240 ~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~ 318 (753)
.++.+++.+||+++++++|++++ +. .++++|.++|++++|+|..|.+.| .+
T Consensus 273 ---~~~~~~~~~yda~~~l~~Al~~a-g~------------------------~~~~~v~~aL~~~~~~~~~g~~~f~~~ 324 (360)
T cd06357 273 ---PVSACAEAAYFQVHLFARALQRA-GS------------------------DDPEDVLAALLGFSFDAPQGPVRIDPD 324 (360)
T ss_pred ---CCCcHHHHHHHHHHHHHHHHHHc-CC------------------------CCHHHHHHHhccCcccCCCcceEEeCC
Confidence 35678899999999999999998 32 235889999999999999999999 54
Q ss_pred CccceeEEEEEEE
Q 037761 319 GQLESSVFEIVNV 331 (753)
Q Consensus 319 g~~~~~~y~i~~~ 331 (753)
++.......+.++
T Consensus 325 ~~~~~~~~~~~~~ 337 (360)
T cd06357 325 NNHTYLWPRIARV 337 (360)
T ss_pred CCeeeeeeEEEEE
Confidence 4432334445566
No 69
>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=99.95 E-value=1.2e-25 Score=238.82 Aligned_cols=278 Identities=17% Similarity=0.218 Sum_probs=221.5
Q ss_pred eeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC--CCCCceEEEecCcH
Q 037761 4 LLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP--TEHPFFIRVTQNDS 80 (753)
Q Consensus 4 l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~--~~~~~~fr~~p~~~ 80 (753)
++.. ++++|..|.+++++|+++++|.+|+|+.+|+.+.++.++++..+||+|++.++++.+++ ..++|+||+.|++.
T Consensus 43 lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~~Fr~~~~~~ 122 (347)
T cd06335 43 LVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPVALANLEFIQQNKIPLIGPWAAGTPITRNGAPPNYIFRVSADDS 122 (347)
T ss_pred EEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHHHHhhhHHHHhcCCcEEecCCCCcccccCCCCCCCEEEeccChH
Confidence 4444 77999999999999999989999999999999999999999999999998887777764 45689999999999
Q ss_pred HHHHHHHHHH-HHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEE
Q 037761 81 LQVKAISAVL-QNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVH 159 (753)
Q Consensus 81 ~~~~a~~~~l-~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~ 159 (753)
.++.++++++ ++.+|++|++++.+++||+...+.+++.+++.|++++....++.+ ..|+++.+.+|++.+||+|++.
T Consensus 123 ~~~~~~a~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~--~~d~s~~i~~i~~~~~d~v~~~ 200 (347)
T cd06335 123 IQAPFLVDEAVKRGGFKKVALLLDNTGWGRSNRKDLTAALAARGLKPVAVEWFNWG--DKDMTAQLLRAKAAGADAIIIV 200 (347)
T ss_pred HHHHHHHHHHHHhcCCCeEEEEeccCchhhhHHHHHHHHHHHcCCeeEEEeeecCC--CccHHHHHHHHHhCCCCEEEEE
Confidence 9999999987 556699999999999999999999999999999999988888754 6799999999999999999999
Q ss_pred eChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeC---CCChhhhHHHHHHHHhhCCCC
Q 037761 160 MNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHL---PKSKELGLFDRRWKSKLHSMK 236 (753)
Q Consensus 160 ~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~---~~~~~~~~F~~~~~~~~~~~~ 236 (753)
+.+.+...+++++++.|+..+ +.+. +......+.....+...|++....+. +..+..++|.++|+++++...
T Consensus 201 ~~~~~~~~~~~~~~~~g~~~~----~~~~-~~~~~~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~ 275 (347)
T cd06335 201 GNGPEGAQIANGMAKLGWKVP----IISH-WGLSGGNFIEGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKK 275 (347)
T ss_pred ecChHHHHHHHHHHHcCCCCc----Eecc-cCCcCchhhhccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCc
Confidence 999999999999999997422 3322 11111111112334567776654432 246888999999999998621
Q ss_pred CCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhc--ccccceeeE
Q 037761 237 PNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNT--QFKGLSGEF 314 (753)
Q Consensus 237 ~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~--~f~g~~G~v 314 (753)
.. ...++.+++.+||+++++++|++++ +. ..+..+.++|+++ .+.|+.|.+
T Consensus 276 ~~--~~~~~~~~~~aYd~~~~l~~A~~~a-g~------------------------~~~~~v~~al~~~~~~~~G~~~~~ 328 (347)
T cd06335 276 PA--DIPAPVGAAHAYDAVHLLAAAIKQA-GS------------------------TDGRAIKRALENLKKPVEGLVKTY 328 (347)
T ss_pred cc--ccCcchhHHHHHHHHHHHHHHHHHh-cC------------------------CCHHHHHHHHHhccCCceeeeccc
Confidence 00 0124556788999999999999998 32 1226788889876 467777755
Q ss_pred E
Q 037761 315 H 315 (753)
Q Consensus 315 ~ 315 (753)
.
T Consensus 329 ~ 329 (347)
T cd06335 329 D 329 (347)
T ss_pred C
Confidence 3
No 70
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.95 E-value=5.3e-26 Score=240.73 Aligned_cols=285 Identities=11% Similarity=0.017 Sum_probs=226.0
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDS 80 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~ 80 (753)
+|+.. |+++|.+|+.++++|+.+++|.+|+ +.+|+.+.++.+++++++||+|+++++++.+++ ..+||+||+.|++.
T Consensus 42 elv~~D~~~~p~~a~~~a~~Li~~~~V~~i~-~~~S~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~ 120 (351)
T cd06334 42 EWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWSTGITEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYS 120 (351)
T ss_pred EEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCcHHHHHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHH
Confidence 44444 7899999999999999998998875 578899999999999999999999877777764 67899999999999
Q ss_pred HHHHHHHHHHHHcC-----CeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccE
Q 037761 81 LQVKAISAVLQNFS-----WHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRV 155 (753)
Q Consensus 81 ~~~~a~~~~l~~~~-----w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 155 (753)
.++.++++++...+ .++|++|+.|++||....+.+++.+++.|++++..+.++.+ .+|+++++.++++.+||+
T Consensus 121 ~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~D~~~~v~~i~~~~pd~ 198 (351)
T cd06334 121 DQARALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIEALKALAEKLGFEVVLEPVPPPG--PNDQKAQWLQIRRSGPDY 198 (351)
T ss_pred HHHHHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHHHHHHHHHHcCCeeeeeccCCCC--cccHHHHHHHHHHcCCCE
Confidence 99999999986554 79999999999999999999999999999999998888754 679999999999999999
Q ss_pred EEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHHHHHhhC
Q 037761 156 FIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRRWKSKLH 233 (753)
Q Consensus 156 Ii~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~~~~~~~ 233 (753)
|++.+.+.++..++++++++|+. ..++.++.... ..+.....+..+|+++...+.+ +.|..++|.+.|+++++
T Consensus 199 V~~~~~~~~~~~~~~~~~~~G~~---~~~~~~~~~~~--~~~~~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~ 273 (351)
T cd06334 199 VILWGWGVMNPVAIKEAKRVGLD---DKFIGNWWSGD--EEDVKPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGK 273 (351)
T ss_pred EEEecccchHHHHHHHHHHcCCC---ceEEEeeccCc--HHHHHHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccC
Confidence 99999999999999999999973 23454433221 1112234456788887665543 56889999999999987
Q ss_pred CCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccch-------HHHHHHHHhcc
Q 037761 234 SMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIG-------HILCNQILNTQ 306 (753)
Q Consensus 234 ~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~l~~~l~~~~ 306 (753)
... . ....++.++..+||+++++++||+++ ++.... ....+ +.-.+.+.+..
T Consensus 274 ~~~-~-~~~~~~~~~~~gy~a~~~l~~Al~~a-g~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~ 332 (351)
T cd06334 274 GSG-N-DKEIGSVYYNRGVVNAMIMVEAIRRA-QEKGGE------------------TTIAGEEQLENLKLDAARLEELG 332 (351)
T ss_pred CCC-C-cccccccHHHHHHHHHHHHHHHHHHH-HHhcCC------------------CCCcHHHHHHhhhhhhhhhhhcC
Confidence 521 0 00134678999999999999999999 442210 00111 22345566667
Q ss_pred cccceeeEEe
Q 037761 307 FKGLSGEFHL 316 (753)
Q Consensus 307 f~g~~G~v~f 316 (753)
..|..|++.|
T Consensus 333 ~~g~~~~~~~ 342 (351)
T cd06334 333 AEGLGPPVSV 342 (351)
T ss_pred cccccCCcee
Confidence 7889999999
No 71
>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=99.95 E-value=9.7e-26 Score=240.08 Aligned_cols=291 Identities=21% Similarity=0.292 Sum_probs=237.7
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSL 81 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~ 81 (753)
+|+.. +++||..+++++++|+++++|.+|+|+.+|..+.++.+++...++|+|++++.++ ...++++||+.|++..
T Consensus 44 ~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s~~~~~~~~~~~~~~ip~i~~~~~~~---~~~~~~~f~~~~~~~~ 120 (343)
T PF13458_consen 44 ELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSSAQAEAVAPIAEEAGIPYISPSASSP---SPDSPNVFRLSPSDSQ 120 (343)
T ss_dssp EEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSHHHHHHHHHHHHHHT-EEEESSGGGG---TTTHTTEEESS--HHH
T ss_pred eeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCcHHHHHHHHHHHhcCcEEEEeeccCC---CCCCCcEEEEeccccH
Confidence 34555 7899999999999999988999999999999999999999999999999764442 3567899999999999
Q ss_pred HHHHHHHHH-HHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 82 QVKAISAVL-QNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 82 ~~~a~~~~l-~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
++.++++++ ++++.+++++|+.++++|....+.+++.+++.|++++....++.+ ..|+...+.++++.++|+|++++
T Consensus 121 ~~~~~~~~~~~~~g~~~v~iv~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~d~~~~~~~l~~~~~d~v~~~~ 198 (343)
T PF13458_consen 121 QAAALAEYLAKKLGAKKVAIVYPDDPYGRSLAEAFRKALEAAGGKVVGEIRYPPG--DTDFSALVQQLKSAGPDVVVLAG 198 (343)
T ss_dssp HHHHHHHHHHHTTTTSEEEEEEESSHHHHHHHHHHHHHHHHTTCEEEEEEEE-TT--SSHHHHHHHHHHHTTTSEEEEES
T ss_pred HHHHHHHHHHHHcCCcEEEEEecCchhhhHHHHHHHHHHhhcCceeccceecccc--cccchHHHHHHhhcCCCEEEEec
Confidence 999999986 568999999999999999999999999999999999888888755 57999999999999999999999
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHHHHHhhCCCCCC
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRRWKSKLHSMKPN 238 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~~~~~~~~~~~~ 238 (753)
...++..+++++++.|+..+.......+.+... +.....+..+|++....+.+ ..|..++|.++|+++++...
T Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---l~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~-- 273 (343)
T PF13458_consen 199 DPADAAAFLRQLRQLGLKPPRIPLFGTSLDDAS---LQQLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEEP-- 273 (343)
T ss_dssp THHHHHHHHHHHHHTTGCSCTEEEEEGGGSSHH---HHHHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSSTG--
T ss_pred cchhHHHHHHHHHhhccccccceeeccccCcHH---HHHhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCCC--
Confidence 999999999999999975433333333322211 11223346888888877655 45788999999999998721
Q ss_pred CCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-e
Q 037761 239 SSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-V 317 (753)
Q Consensus 239 ~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~ 317 (753)
.++.++..+||++.++++|++++ +. .++..|.++|++..|+|+.|++.| +
T Consensus 274 ----~~~~~~~~~yda~~~~~~al~~~-g~------------------------~~~~~v~~al~~~~~~g~~g~~~~~~ 324 (343)
T PF13458_consen 274 ----PPSLYAAQGYDAARLLAQALERA-GS------------------------LDREAVREALESLKYDGLFGPISFDP 324 (343)
T ss_dssp ----GTCHHHHHHHHHHHHHHHHHHHH-TS------------------------HHHHHHHHHHHTSEEEETTEEEEEET
T ss_pred ----CCchhHHHHHHHHHHHHHHHHHh-CC------------------------CCHHHHHHHHHhCCCcccccceEEeC
Confidence 38889999999999999999998 21 566899999999999999999999 4
Q ss_pred -CCccceeEEEEEEEec
Q 037761 318 -NGQLESSVFEIVNVIG 333 (753)
Q Consensus 318 -~g~~~~~~y~i~~~~~ 333 (753)
+|+. ...+.|+++++
T Consensus 325 ~~~~~-~~~~~i~~v~~ 340 (343)
T PF13458_consen 325 PDHQA-NKPVYIVQVKS 340 (343)
T ss_dssp TTSBE-EEEEEEEEEET
T ss_pred CCCcc-ccCeEEEEEec
Confidence 5554 67789999883
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=99.95 E-value=1e-25 Score=238.39 Aligned_cols=274 Identities=20% Similarity=0.329 Sum_probs=217.1
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~~~~a~ 86 (753)
+++||..++.++|+|+.+++|.||+||.+|..+.+++++++.++||+|+++++++.+++ ..+|++||+.|++..++.++
T Consensus 44 ~~~d~~~~~~~~c~l~~~~~v~ai~G~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~ 123 (328)
T cd06351 44 NTNDPFSLLRAVCDLLVSQGVAAIFGPTSSESASAVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADAL 123 (328)
T ss_pred CCCChHHHHHHHHHHHhccCcEEEECCCCHHHHHHHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHH
Confidence 66899999999999997779999999999999999999999999999999988887775 67899999999999999999
Q ss_pred HHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCc-cEEEEEeChHHH
Q 037761 87 SAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQT-RVFIVHMNTALA 165 (753)
Q Consensus 87 ~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~-~vIi~~~~~~~~ 165 (753)
++++.+++|++|++||++++++....+.+.. ....+..+.. ..+..+ ..+++..+.++++.++ ++|++++..+++
T Consensus 124 ~~~l~~~~w~~v~iiy~~~~~~~~l~~~~~~-~~~~~~~v~~-~~~~~~--~~~~~~~l~~l~~~~~~~vil~~~~~~~~ 199 (328)
T cd06351 124 LDLLEYYNWTKFAIIYDSDEGLSRLQELLDE-SGIKGIQVTV-RRLDLD--DDNYRQLLKELKRSESRRIILDCSSEEEA 199 (328)
T ss_pred HHHHHHcCCcEEEEEEeCchHHHHHHHHHHh-hcccCceEEE-EEecCC--chhHHHHHHHHhhcccceEEEECCcHHHH
Confidence 9999999999999999988865544333333 3333444443 344433 3389999999999988 666666665899
Q ss_pred HHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCCCccccc
Q 037761 166 SRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNSSVTEIN 245 (753)
Q Consensus 166 ~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~ 245 (753)
..++++|+++||..++++||.++......+. ........|++++....+..+..++|..+|..... ......+.
T Consensus 200 ~~~l~~a~~~gm~~~~~~~i~~~~~~~~~d~--~~~~~~~~~i~g~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~ 273 (328)
T cd06351 200 KEILEQAVELGMMGYGYHWILTNLDLSDIDL--EPFQYGPANITGFRLVDPDSPDVSQFLQRWLEESP----GVNLRAPI 273 (328)
T ss_pred HHHHHHHHHhccccCCcEEEEecCCccccch--hhhccCCcceEEEEEeCCCchHHHHHHHhhhhccC----CCCcCccc
Confidence 9999999999999899999999976654322 23445678999999999888889999999833222 12222334
Q ss_pred hhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-eCCcccee
Q 037761 246 ISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-VNGQLESS 324 (753)
Q Consensus 246 ~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~g~~~~~ 324 (753)
..++.+||+++++ ||.+.| ++|++.+.
T Consensus 274 ~~~~~~~d~~~~~----------------------------------------------------tg~i~f~~~g~r~~~ 301 (328)
T cd06351 274 YDAALLYDAVLLL----------------------------------------------------TGTVSFDEDGVRSNF 301 (328)
T ss_pred hhhHhhhcEEEEE----------------------------------------------------EeeEEECCCCcccce
Confidence 4455555554221 899999 89999999
Q ss_pred EEEEEEEe-ccc-eEEEEeec
Q 037761 325 VFEIVNVI-GTG-RVVGYWTS 343 (753)
Q Consensus 325 ~y~i~~~~-~~~-~~vg~~~~ 343 (753)
.++|+++. +.+ .++|.|+.
T Consensus 302 ~l~i~~l~~~~~~~~vg~W~~ 322 (328)
T cd06351 302 TLDIIELNRSRGWRKVGTWNG 322 (328)
T ss_pred EEEEEEecCCCCceEEEEecC
Confidence 99999999 667 99999985
No 73
>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=99.93 E-value=7e-24 Score=219.27 Aligned_cols=300 Identities=19% Similarity=0.254 Sum_probs=211.0
Q ss_pred CCCChHHHHHHHHHHH-hcCCeEEEEcC-CCCCcHHHHHHhhccCCccEEeecCCCCCC-CCCCCCceEEEecCcHHHHH
Q 037761 8 KQFKDCGKLILAVDLL-KKFQVQAIIGP-QIPAAAPFLVELGEKAQVPIISFFETSPAL-SPTEHPFFIRVTQNDSLQVK 84 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li-~~~~V~aviG~-~~s~~~~av~~i~~~~~vP~is~~a~~~~l-~~~~~~~~fr~~p~~~~~~~ 84 (753)
+..|+..+....|+++ .+ +|.||+|+ .++..+..+..+++..+||+|+++..+... ++..+....++.|+.+.++.
T Consensus 62 ~~~dsf~~~~~vC~~ll~~-GV~AIfg~p~s~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P~~~~l~~ 140 (382)
T cd06377 62 PSRDPASLLRSVCQTVVVQ-GVSALLAFPQTRPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLD 140 (382)
T ss_pred CCCChHHHHHHHHHhHhhC-CeEEEEecCCCHHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHH
Confidence 7789999999999995 66 99999994 777888999999999999999996654333 22333334466999999999
Q ss_pred HHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCe-EEEEeeccCCC-CchhhH-HHHHHHHhcCC-ccEEEEEe
Q 037761 85 AISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDI-RISHMSKIPTS-AEDFQI-SKELSKLSTMQ-TRVFIVHM 160 (753)
Q Consensus 85 a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~-~v~~~~~~~~~-~~~~d~-~~~l~~l~~~~-~~vIi~~~ 160 (753)
|+++++++|+|++|++||+.++....+.+.++...+ .+. .+......+.. .+..++ +..|+.+++.. +++|++.|
T Consensus 141 a~~~ll~~~~W~~f~~iy~~~~gl~~lq~l~~~~~~-~~~~~~i~v~~~~~~~~d~~~~~~~~L~~i~~~~~~~~ill~c 219 (382)
T cd06377 141 VLLSVLQRNGWEDVSLVLCRERDPTGLLLLWTNHAR-FHLGSVLNLSRNDPSTADLLDFLRAQLELLKDPPGPAVVLFGC 219 (382)
T ss_pred HHHHHHHHCCCcEEEEEEecCcCHHHHHHHHHHhcc-cccCceEEEEeccCccCChhHHHHHHHHHhhcccCceEEEEEC
Confidence 999999999999999999888755544444433322 221 22223233211 123455 99999999988 99999999
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCCC
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNSS 240 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~ 240 (753)
+.+.+..+++++.+ .|+||+++.... ..+. ....--|.++ |.+ .
T Consensus 220 s~e~~~~il~~~~~------~y~wIv~~~~~l--e~~~--~~g~nigLl~-----------------~~~-~-------- 263 (382)
T cd06377 220 DVARARRVLELTPP------GPHWILGDPLPP--EALR--TEGLPPGLLA-----------------HGE-T-------- 263 (382)
T ss_pred CHHHHHHHHHhhcc------ceEEEEcCCcCh--hhcc--CCCCCceEEE-----------------Eee-c--------
Confidence 99999999977654 499999873211 1110 0111123331 110 0
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHhcC--C-CCCCCCCCCCCCCCCCccCCC--c-cccchHHHHHHHHhcccccceeeE
Q 037761 241 VTEINISGLWAYDTIFALAKAVEKILS--P-INPSIVNPSNPSESTTDFGSL--G-FSRIGHILCNQILNTQFKGLSGEF 314 (753)
Q Consensus 241 ~~~~~~~~~~~ydAv~~~a~Al~~~~~--~-~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~l~~~l~~~~f~g~~G~v 314 (753)
......+++||||+++|+|++.+.. . ...... ..+|... . .|.+|..|.++|++++|+|.||.|
T Consensus 264 --~~~~l~ali~DAV~lvA~a~~~l~~~~~~~~l~~~--------~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I 333 (382)
T cd06377 264 --TQPPLEAYVQDALELVARAVGSATLVQPELALIPA--------TVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPV 333 (382)
T ss_pred --ccccHHHHHHHHHHHHHHHHHHhhhcccccccCCC--------CCCcccCCCCCCCCchHHHHHHHHhCcccccceeE
Confidence 1112378999999999999998621 1 111111 2344433 4 789999999999999999999999
Q ss_pred EeeCCcc--ceeEEEEEEEe--ccc----eEEEEeecCCCcccccccCccCCCCceecC
Q 037761 315 HLVNGQL--ESSVFEIVNVI--GTG----RVVGYWTSEKGLTQTLDLTSKNDLKQIIWP 365 (753)
Q Consensus 315 ~f~~g~~--~~~~y~i~~~~--~~~----~~vg~~~~~~~~~~~~~~~~~~~~~~i~w~ 365 (753)
.|+.|.+ ....++|++++ ..| ++||+|++...+ .++...||
T Consensus 334 ~F~~g~R~~~~~~l~I~~L~~~~~G~~~W~kVG~W~~~~~~----------~~~~~~wp 382 (382)
T cd06377 334 WVTGSSQVHSSRHFKVWSLRRDPVGQPTWTTVGSWQGGRKI----------VMDQGLWP 382 (382)
T ss_pred EEccCeeecccceEEEEEeccccCCCccceEEEEecCCCce----------ecccCCCC
Confidence 9966777 67899999998 333 899999886433 34667775
No 74
>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=99.93 E-value=3.4e-25 Score=231.96 Aligned_cols=268 Identities=13% Similarity=0.085 Sum_probs=207.5
Q ss_pred ceeecCCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHH
Q 037761 3 KLLLLKQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSL 81 (753)
Q Consensus 3 ~l~~~d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~ 81 (753)
+|+..|.++|.+|+.++++|++ ++|.+|+|+.+|+++.|+.+++..+++|+|+++++++.++. .++||+||+.|++..
T Consensus 36 elv~~D~~~p~~a~~~a~~Li~-~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i~~~a~~~~lt~~~c~~~~Fr~~~~~~~ 114 (347)
T TIGR03863 36 TLDEVAVRTPEDLVAALKALLA-QGVRFFVLDLPAAALLALADAAKAKGALLFNAGAPDDALRGADCRANLLHTLPSRAM 114 (347)
T ss_pred EEEEccCCCHHHHHHHHHHHHH-CCCCEEEecCChHHHHHHHHHHHhCCcEEEeCCCCChHHhCCCCCCCEEEecCChHh
Confidence 4455588899999999999996 58999999999999999999999999999999999999985 578999999999999
Q ss_pred HHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCc--hhhHHHHHHHHhcCCccEEEEE
Q 037761 82 QVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAE--DFQISKELSKLSTMQTRVFIVH 159 (753)
Q Consensus 82 ~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~--~~d~~~~l~~l~~~~~~vIi~~ 159 (753)
++.++++++...+.+++++|+.|++||....+.+++.+++.|++++..+.++.+.+ .+|+......++.++||+|++.
T Consensus 115 ~~~ala~~~~~~g~kkvaii~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~~~~~d~s~~~~~~~~s~pDvv~~~ 194 (347)
T TIGR03863 115 LADALAQYLAAKRWRRILLIQGPLPADALYADAFRRSAKRFGAKIVAERPFTFSGDPRRTDQSEVPLFTQGADYDVVVVA 194 (347)
T ss_pred HHHHHHHHHHHcCCCEEEEEeCCCcccHHHHHHHHHHHHHCCCEEEEeEEeccCCchhhhhcccCceeecCCCCCEEEEe
Confidence 99999999977799999999999999999999999999999999999988874321 2355432333334899999998
Q ss_pred eChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEE-eCCCChhhhHHHHHHHHhhCCCCCC
Q 037761 160 MNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRS-HLPKSKELGLFDRRWKSKLHSMKPN 238 (753)
Q Consensus 160 ~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~-~~~~~~~~~~F~~~~~~~~~~~~~~ 238 (753)
..+.+....+.... +. ....++. .|+....+ +..+.+..++|.++|+++|+.
T Consensus 195 ~~~~~~~~~~~~~~--~~---~~~~~g~------------------~G~~~~~~~~~~~~~~~~~f~~~f~~~~g~---- 247 (347)
T TIGR03863 195 DEAGEFARYLPYAT--WL---PRPVAGS------------------AGLVPTAWHRAWERWGATQLQSRFEKLAGR---- 247 (347)
T ss_pred cchhhHhhhccccc--cc---ccccccc------------------cCccccccCCcccchhHHHHHHHHHHHhCC----
Confidence 76654332211110 10 0011111 12221111 122346778999999999987
Q ss_pred CCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhccc--cccee-eEE
Q 037761 239 SSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQF--KGLSG-EFH 315 (753)
Q Consensus 239 ~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f--~g~~G-~v~ 315 (753)
.|+.+++.+||++++++.|++++ ++ .++.+|.++|++..+ .+..| +++
T Consensus 248 ----~p~~~~a~aY~av~~~a~Ai~~A-Gs------------------------~d~~aV~~aL~~~~~~~~~~~g~~~~ 298 (347)
T TIGR03863 248 ----PMTELDYAAWLAVRAVGEAVTRT-RS------------------------ADPATLRDYLLSDEFELAGFKGRPLS 298 (347)
T ss_pred ----CCChHHHHHHHHHHHHHHHHHHh-cC------------------------CCHHHHHHHHcCCCceecccCCCcce
Confidence 77888999999999999999999 32 456999999999877 46777 699
Q ss_pred e-e-CCccceeEEE
Q 037761 316 L-V-NGQLESSVFE 327 (753)
Q Consensus 316 f-~-~g~~~~~~y~ 327 (753)
| + ||+...+.|.
T Consensus 299 ~R~~Dhq~~~~~~~ 312 (347)
T TIGR03863 299 FRPWDGQLRQPVLL 312 (347)
T ss_pred eeCCCcccccceEe
Confidence 9 4 8888655443
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=99.93 E-value=1.2e-24 Score=229.44 Aligned_cols=268 Identities=11% Similarity=0.089 Sum_probs=213.6
Q ss_pred ceeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHH
Q 037761 3 KLLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSL 81 (753)
Q Consensus 3 ~l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~ 81 (753)
+|+.. |++ |.+++.++++|+.+ +|.+||||.+|+.+.++++++...++|+|+++++.. +.. .+++||+.+++..
T Consensus 36 ~l~~~D~~~-~~~a~~~~~~li~~-~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~-~~~--~~~~f~~~~~~~~ 110 (336)
T cd06339 36 ELRVYDTAG-AAGAAAAARQAVAE-GADIIVGPLLKENVAALAAAAAELGVPVLALNNDES-VAA--GPNLFYFGLSPED 110 (336)
T ss_pred eEEEEeCCC-cccHHHHHHHHHHc-CCCEEEccCCHHHHHHHHhhhccCCCCEEEccCCcc-ccC--CCCEEEecCChHH
Confidence 34444 778 99999999999986 999999999999999999999999999999765443 222 5899999999999
Q ss_pred HHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC----------
Q 037761 82 QVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM---------- 151 (753)
Q Consensus 82 ~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~---------- 151 (753)
++.++++++...|++++++++.+++||.+..+.|.+.+++.|++++..+.++.+ .+||+..+++|++.
T Consensus 111 ~~~~~~~~~~~~g~k~vaii~~~~~~g~~~~~~f~~~~~~~G~~vv~~~~~~~~--~~d~~~~i~~i~~~~~~~~~~~~~ 188 (336)
T cd06339 111 EARRAAEYARSQGKRRPLVLAPDGAYGQRVADAFRQAWQQLGGTVVAIESYDPS--PTDLSDAIRRLLGVDDSEQRIAQL 188 (336)
T ss_pred HHHHHHHHHHhcCccceEEEecCChHHHHHHHHHHHHHHHcCCceeeeEecCCC--HHHHHHHHHHHhccccchhhhhhh
Confidence 999999999878999999999999999999999999999999999999888754 78999999999998
Q ss_pred -----------CccEEEEEeChH-HHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCCh
Q 037761 152 -----------QTRVFIVHMNTA-LASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSK 219 (753)
Q Consensus 152 -----------~~~vIi~~~~~~-~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~ 219 (753)
+||+|++.+.+. ++..+.++++..+....+..+++++.+.... . .....+..+|++..... .+
T Consensus 189 ~~~~~~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~-~~~~g~~~~g~~~~~~~---~~ 263 (336)
T cd06339 189 KSLESEPRRRQDIDAIDAVALPDGEARLIKPQLLFYYGVPGDVPLYGTSRWYSGT-P-APLRDPDLNGAWFADPP---WL 263 (336)
T ss_pred hhcccCccccCCCCcEEEEecChhhhhhhcchhhhhccCcCCCCEEEeccccCCC-C-CcccCcccCCcEEeCCC---cc
Confidence 999999998886 7777777877765311244567777666421 1 11233556777654431 12
Q ss_pred hhhHHHHHHHHhhCCCCCCCCcccc-chhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHH
Q 037761 220 ELGLFDRRWKSKLHSMKPNSSVTEI-NISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHIL 298 (753)
Q Consensus 220 ~~~~F~~~~~~~~~~~~~~~~~~~~-~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 298 (753)
...+|.+.|+++|+. .| +.+++.+|||+.+++.++++. +. . .
T Consensus 264 ~~~~f~~~y~~~~~~--------~p~~~~~a~~YDa~~l~~~~~~~~-~~------------------------~--~-- 306 (336)
T cd06339 264 LDANFELRYRAAYGW--------PPLSRLAALGYDAYALAAALAQLG-QG------------------------D--A-- 306 (336)
T ss_pred cCcchhhhHHHHhcC--------CCCchHHHHHHhHHHHHHHHHHcc-cc------------------------c--c--
Confidence 234899999999986 67 899999999999999877765 11 0 1
Q ss_pred HHHHH-hcccccceeeEEe-eCCcc
Q 037761 299 CNQIL-NTQFKGLSGEFHL-VNGQL 321 (753)
Q Consensus 299 ~~~l~-~~~f~g~~G~v~f-~~g~~ 321 (753)
++. ...|+|++|.+.| ++|+.
T Consensus 307 --al~~~~~~~g~~G~~~f~~~g~~ 329 (336)
T cd06339 307 --ALTPGAGFSGVTGVLRLDPDGVI 329 (336)
T ss_pred --ccCCCCccccCcceEEECCCCeE
Confidence 233 3469999999999 88886
No 76
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.92 E-value=3.5e-24 Score=220.81 Aligned_cols=227 Identities=19% Similarity=0.237 Sum_probs=196.5
Q ss_pred ceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCC-ccceEEEecCCCCCCCCCChHHHHHHHHc
Q 037761 379 SLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGM-KIHPQLVPYEDENGEMAGTYDELLYQIKL 457 (753)
Q Consensus 379 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 457 (753)
.|+||+. +.|+||.+. +.+|++.||++|++++|++.+.+++|. .++++++++ +|..++..|.+
T Consensus 41 ~L~Vg~~--~~~pP~~f~-----~~~g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~~---------~~~~~i~~L~~ 104 (302)
T PRK10797 41 VIVVGHR--ESSVPFSYY-----DNQQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPI---------TSQNRIPLLQN 104 (302)
T ss_pred eEEEEEc--CCCCCcceE-----CCCCCEeeecHHHHHHHHHHHHHhhCCCCceEEEEEc---------ChHhHHHHHHC
Confidence 8999997 677888886 567889999999999999888778985 478899987 78899999999
Q ss_pred CcccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHh
Q 037761 458 KKFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFIL 537 (753)
Q Consensus 458 ~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl 537 (753)
|++|++++++++|++|.+.++||.||+.++..+++++.+.
T Consensus 105 G~~Di~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~~---------------------------------------- 144 (302)
T PRK10797 105 GTFDFECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGGD---------------------------------------- 144 (302)
T ss_pred CCccEEecCCccCcchhhcceecccEeeccEEEEEECCCC----------------------------------------
Confidence 9999999899999999999999999999999999998642
Q ss_pred hhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhh--CCCCCceecCCCHHHHHHHHhcCCCCCC
Q 037761 538 MQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQL--NFSRNQTRPLSNFGEYKEALSNGSRKGG 615 (753)
Q Consensus 538 ~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~l~~g~~~~~ 615 (753)
|++++|| .|+++|+..|+....++.+.. ..+..++..+.+.++++.+|.+|+
T Consensus 145 --------------------i~sl~dL--~Gk~V~v~~gs~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~L~~Gr---- 198 (302)
T PRK10797 145 --------------------IKDFADL--KGKAVVVTSGTTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLESGR---- 198 (302)
T ss_pred --------------------CCChHHc--CCCEEEEeCCCcHHHHHHHHhhhcCCceEEEEeCCHHHHHHHHHcCC----
Confidence 8999999 699999999999988886411 123467888899999999999999
Q ss_pred eeEEEeccccHHHHHhcC--CCCcEEeCcccccCceEEEEcCCCC-CchHhHHHHHHhhhcchHHHHHHHhhcCCC
Q 037761 616 VSAIFEEIPYIKVFLKKY--SSKYTTAGPIYRTDGLGFAFAKDSP-LVSHFSQAILLVRENQTRMDRIEKKYFGEN 688 (753)
Q Consensus 616 ~~a~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~~~~~~k~s~-l~~~~n~~i~~l~~~G~~~~~~~~~~~~~~ 688 (753)
+|+++.+...+.++..+. ...++++++.+...+++++++|+++ |++.+|.+|.+++++| .+++|.++|+...
T Consensus 199 vDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~~a~~k~~~~L~~~in~~L~~l~~~G-~l~~i~~kw~~~~ 273 (302)
T PRK10797 199 AVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQEAYGCMLRKDDPQFKKLMDDTIAQAQTSG-EAEKWFDKWFKNP 273 (302)
T ss_pred ceEEEccHHHHHHHHHcCCCCcceEECCccCCcCceeEEEeCCCHHHHHHHHHHHHHHHhCc-hHHHHHHHHcCCC
Confidence 999999988776654432 3467888877777889999999988 9999999999999999 9999999999963
No 77
>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=99.92 E-value=4.1e-25 Score=233.98 Aligned_cols=334 Identities=19% Similarity=0.255 Sum_probs=262.9
Q ss_pred CCCChHHHHHHHHHHHhcCCeE-EEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQ-AIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSLQVKA 85 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~-aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~~~~a 85 (753)
++|++..+..+.-+++...... .++|+ ||+++..++.-+..++.-+++|++++|++++ +.||++||+.|++......
T Consensus 93 s~C~~~~g~k~~fdll~~~p~k~mll~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~ 171 (865)
T KOG1055|consen 93 SECDPGQGTKALYDLLYNGPNKLMLLGG-CSSVTTLIAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPT 171 (865)
T ss_pred ccCCccccHHHHHHHHHcCCchheeccC-CCCcchHHHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcc
Confidence 7899999999999998875444 45566 9999999999999999999999999999997 7899999999999999999
Q ss_pred HHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHH
Q 037761 86 ISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALA 165 (753)
Q Consensus 86 ~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~ 165 (753)
.+.++++++|++|+.++++.+--..-.+.+...+.+.|++++..+.+.. |....+.+++...+++|+-..+...+
T Consensus 172 rl~l~~~~~w~rvgt~~q~e~~f~~~~~dl~~~~~~~~ieiv~~qsf~~-----dp~~~vk~l~~~D~RiI~g~f~~~~A 246 (865)
T KOG1055|consen 172 RIKLLKKFGWKRVATLQQTEEVFSSTLNDLEARLKEAGIEIVFRQSFSS-----DPADSVKNLKRQDARIIVGLFYETEA 246 (865)
T ss_pred eeeechhcCcceeeeeeeehhhhcchHHHHHHhhhccccEEEEeecccc-----CHHHHHhhccccchhheeccchHhhh
Confidence 9999999999999999999887788899999999999999998887653 55567899999999999999999999
Q ss_pred HHHHHHHHHcCCCCCCEEEEEcCccccccc--------CCChhHHhhcccEEEEEEeCCCC--------hhhhHHHHHHH
Q 037761 166 SRLFALVAKNGMMSKGYTWIVTACLSNSLN--------VLDSEVIDSMEGVLGVRSHLPKS--------KELGLFDRRWK 229 (753)
Q Consensus 166 ~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~--------~~~~~~~~~~~g~i~~~~~~~~~--------~~~~~F~~~~~ 229 (753)
+..+++++..+|.+..|+|+...+...... ..-.++.++.+|.+++....-.. -...+|+..+.
T Consensus 247 rkv~C~~Y~~~myg~ky~w~~~g~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~ 326 (865)
T KOG1055|consen 247 RKVFCEAYKERLYGRKYVWFLIGWYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELT 326 (865)
T ss_pred hHHHHhhchhhcccceeEEEEEEeeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHH
Confidence 999999999999999999999876443221 23346788999999886532211 12355666665
Q ss_pred HhhCCCCCCCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhccccc
Q 037761 230 SKLHSMKPNSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKG 309 (753)
Q Consensus 230 ~~~~~~~~~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g 309 (753)
++.+...+ .......+.++|||+|++|+|++++++....+.. ....-+.+...-.++|.++|.+++|+|
T Consensus 327 ~~r~~~~~---~~~~~~~~~~ayd~Iwa~ala~n~t~e~l~~~~~--------~l~~f~y~~k~i~d~i~eamn~tsF~G 395 (865)
T KOG1055|consen 327 KYRKRHPE---ETGGFQEAPLAYDAIWALALALNKTMEGLGRSHV--------RLEDFNYNNKTIADQIYEAMNSTSFEG 395 (865)
T ss_pred hhhccccc---cccCcccCchHHHHHHHHHHHHHHHHhcCCccce--------eccccchhhhHHHHHHHHHhhcccccc
Confidence 55443211 1145566789999999999999999544221100 000011112244578999999999999
Q ss_pred ceeeEEeeCCccceeEEEEEEEeccc-eEEEEeecCCCcccccccCccCCCCceecCCC
Q 037761 310 LSGEFHLVNGQLESSVFEIVNVIGTG-RVVGYWTSEKGLTQTLDLTSKNDLKQIIWPGD 367 (753)
Q Consensus 310 ~~G~v~f~~g~~~~~~y~i~~~~~~~-~~vg~~~~~~~~~~~~~~~~~~~~~~i~w~~~ 367 (753)
++|.|.|.||+| .+--.|.|++++. +++|+|+..... |. ..++-.|.++
T Consensus 396 vsG~V~F~~geR-~a~t~ieQ~qdg~y~k~g~Yds~~D~---ls-----~~n~~~w~~g 445 (865)
T KOG1055|consen 396 VSGHVVFSNGER-MALTLIEQFQDGKYKKIGYYDSTKDD---LS-----WINTEKWIGG 445 (865)
T ss_pred cccceEecchhh-HHHHHHHHHhCCceEeecccccccch---hh-----ccccceEecc
Confidence 999999966998 6777888899888 999999988862 33 2355677777
No 78
>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=99.91 E-value=1.1e-22 Score=215.89 Aligned_cols=276 Identities=13% Similarity=0.123 Sum_probs=219.7
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
+++||..+.+.+++|+++++|.+|||+.+|..+.++.+++...++|+|+++++++.++....+++||+.+++...+..++
T Consensus 49 ~~~d~~~~~~~~~~l~~~~~v~avig~~~s~~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 128 (336)
T cd06326 49 DGYEPERTVANTRKLIEDDKVFALFGYVGTPTTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIV 128 (336)
T ss_pred CCCChHHHHHHHHHHHhhcCcEEEEeCCCchhHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHH
Confidence 67899999999999999779999999998888888999999999999998776665554456899999999999999999
Q ss_pred HHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHH
Q 037761 88 AVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASR 167 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~ 167 (753)
+++.+.||+++++++.++.+|....+.+++.+++.|++++....++.+ ..|+...+.++++.++|+|++......+..
T Consensus 129 ~~l~~~g~~~v~~l~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~--~~d~~~~~~~l~~~~~dav~~~~~~~~a~~ 206 (336)
T cd06326 129 RHLVTLGLKRIAVFYQDDAFGKDGLAGVEKALAARGLKPVATASYERN--TADVAAAVAQLAAARPQAVIMVGAYKAAAA 206 (336)
T ss_pred HHHHHhCCceEEEEEecCcchHHHHHHHHHHHHHcCCCeEEEEeecCC--cccHHHHHHHHHhcCCCEEEEEcCcHHHHH
Confidence 999989999999999998999999999999999999998777667643 569999999999989999999998888999
Q ss_pred HHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEE----eCCCChhhhHHHHHHHHhhCCCCCCCCccc
Q 037761 168 LFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRS----HLPKSKELGLFDRRWKSKLHSMKPNSSVTE 243 (753)
Q Consensus 168 ~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~----~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~ 243 (753)
++++++++|+.. .. +..+.... .. +........+|++.... +....|..++|.+.|+++++.. +
T Consensus 207 ~i~~~~~~G~~~-~~--~~~~~~~~-~~-~~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~-------~ 274 (336)
T cd06326 207 FIRALRKAGGGA-QF--YNLSFVGA-DA-LARLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPGA-------P 274 (336)
T ss_pred HHHHHHhcCCCC-cE--EEEeccCH-HH-HHHHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCCCC-------C
Confidence 999999999843 21 22222211 11 11223455677765432 2223578899999999888641 5
Q ss_pred cchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhccc-ccceeeEEeeCCcc
Q 037761 244 INISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQF-KGLSGEFHLVNGQL 321 (753)
Q Consensus 244 ~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f-~g~~G~v~f~~g~~ 321 (753)
++.++..+||+++++++|++++ +. ..++++|.++|++++. .+..|.+.|..+|+
T Consensus 275 ~~~~~~~~y~~~~~~~~a~~~~-g~-----------------------~~~~~~v~~al~~~~~~~~~g~~~~~~~~~h 329 (336)
T cd06326 275 PSYVSLEGYIAAKVLVEALRRA-GP-----------------------DPTRESLLAALEAMGKFDLGGFRLDFSPGNH 329 (336)
T ss_pred CCeeeehhHHHHHHHHHHHHHc-CC-----------------------CCCHHHHHHHHHhcCCCCCCCeEEecCcccc
Confidence 6777889999999999999987 32 1346899999999986 55555899933443
No 79
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.91 E-value=4.9e-23 Score=207.74 Aligned_cols=219 Identities=25% Similarity=0.438 Sum_probs=191.3
Q ss_pred ceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcC
Q 037761 379 SLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLK 458 (753)
Q Consensus 379 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 458 (753)
+|+|++. .+|+||.+. ++|++.|+++|+++++++ ++|. ++++.+. +|.+++.+|.+|
T Consensus 26 ~l~v~~~--~~~~P~~~~------~~g~~~G~~vdl~~~ia~----~lg~--~~~~~~~---------~~~~~~~~l~~G 82 (247)
T PRK09495 26 KLVVATD--TAFVPFEFK------QGDKYVGFDIDLWAAIAK----ELKL--DYTLKPM---------DFSGIIPALQTK 82 (247)
T ss_pred eEEEEeC--CCCCCeeec------CCCceEEEeHHHHHHHHH----HhCC--ceEEEeC---------CHHHHHHHHhCC
Confidence 7899985 567788773 468899999999999999 9985 5555554 799999999999
Q ss_pred cccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhh
Q 037761 459 KFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILM 538 (753)
Q Consensus 459 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~ 538 (753)
++|+++++++.+++|.+.+.||.||+.+...+++++...
T Consensus 83 ~vDi~~~~~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~~----------------------------------------- 121 (247)
T PRK09495 83 NVDLALAGITITDERKKAIDFSDGYYKSGLLVMVKANNN----------------------------------------- 121 (247)
T ss_pred CcCEEEecCccCHHHHhhccccchheecceEEEEECCCC-----------------------------------------
Confidence 999988788999999999999999999999999987643
Q ss_pred hceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeE
Q 037761 539 QSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSA 618 (753)
Q Consensus 539 ~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a 618 (753)
++++++|| .|+++|+..++....++.+ ..+..++..+++..+++.+|.+|+ +|+
T Consensus 122 ------------------~~~~~~dL--~g~~I~v~~g~~~~~~l~~--~~~~~~i~~~~~~~~~~~~L~~gr----vDa 175 (247)
T PRK09495 122 ------------------DIKSVKDL--DGKVVAVKSGTGSVDYAKA--NIKTKDLRQFPNIDNAYLELGTGR----ADA 175 (247)
T ss_pred ------------------CCCChHHh--CCCEEEEecCchHHHHHHh--cCCCCceEEcCCHHHHHHHHHcCc----eeE
Confidence 38999999 5999999999998888885 556678888899999999999999 999
Q ss_pred EEeccccHHHHHhcC-CCCcEEeCcccccCceEEEEcCCCCCchHhHHHHHHhhhcchHHHHHHHhhcCCC
Q 037761 619 IFEEIPYIKVFLKKY-SSKYTTAGPIYRTDGLGFAFAKDSPLVSHFSQAILLVRENQTRMDRIEKKYFGEN 688 (753)
Q Consensus 619 ~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~G~~~~~~~~~~~~~~ 688 (753)
++.+...+.+++++. ..++..+.......+++++++|++.+++.||++|.++.++| .++++.++|+...
T Consensus 176 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~~~~n~al~~~~~~g-~~~~i~~k~~~~~ 245 (247)
T PRK09495 176 VLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYGIAFPKGSELREKVNGALKTLKENG-TYAEIYKKWFGTE 245 (247)
T ss_pred EEeChHHHHHHHHhCCCCceEEecCcccccceEEEEcCcHHHHHHHHHHHHHHHHCC-cHHHHHHHHcCCC
Confidence 999999888888776 44677777766777899999999899999999999999999 9999999999863
No 80
>PRK11260 cystine transporter subunit; Provisional
Probab=99.90 E-value=1.9e-22 Score=205.69 Aligned_cols=222 Identities=25% Similarity=0.407 Sum_probs=193.4
Q ss_pred cceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHc
Q 037761 378 PSLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKL 457 (753)
Q Consensus 378 ~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 457 (753)
++++||+. ..++||.+. +++|++.|+.+|+++.|++ ++|.+ +++.+. +|.+++.+|++
T Consensus 41 ~~l~v~~~--~~~~P~~~~-----~~~g~~~G~~~dl~~~i~~----~lg~~--~e~~~~---------~~~~~~~~l~~ 98 (266)
T PRK11260 41 GTLLVGLE--GTYPPFSFQ-----GEDGKLTGFEVEFAEALAK----HLGVK--ASLKPT---------KWDGMLASLDS 98 (266)
T ss_pred CeEEEEeC--CCcCCceEE-----CCCCCEEEehHHHHHHHHH----HHCCe--EEEEeC---------CHHHHHHHHhc
Confidence 38999986 567788775 5678999999999999999 99865 555554 79999999999
Q ss_pred CcccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHh
Q 037761 458 KKFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFIL 537 (753)
Q Consensus 458 ~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl 537 (753)
|++|+++++++.+++|.+.+.||.||+..+..+++++.+...
T Consensus 99 G~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~~~~-------------------------------------- 140 (266)
T PRK11260 99 KRIDVVINQVTISDERKKKYDFSTPYTVSGIQALVKKGNEGT-------------------------------------- 140 (266)
T ss_pred CCCCEEEeccccCHHHHhccccCCceeecceEEEEEcCCcCC--------------------------------------
Confidence 999999878889999999999999999999999999765433
Q ss_pred hhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCee
Q 037761 538 MQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVS 617 (753)
Q Consensus 538 ~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~ 617 (753)
+++++|| +|+++|+..|+....++.+ ..+..++..+++..+++.+|.+|+ +|
T Consensus 141 --------------------~~~~~dL--~g~~Igv~~G~~~~~~l~~--~~~~~~i~~~~~~~~~l~~L~~Gr----vD 192 (266)
T PRK11260 141 --------------------IKTAADL--KGKKVGVGLGTNYEQWLRQ--NVQGVDVRTYDDDPTKYQDLRVGR----ID 192 (266)
T ss_pred --------------------CCCHHHc--CCCEEEEecCCcHHHHHHH--hCCCCceEecCCHHHHHHHHHcCC----CC
Confidence 8999999 6999999999999888886 666778888999999999999999 99
Q ss_pred EEEeccccHHHHHhcCCCCcEEeCcccccCceEEEEcCCCC-CchHhHHHHHHhhhcchHHHHHHHhhcCCC
Q 037761 618 AIFEEIPYIKVFLKKYSSKYTTAGPIYRTDGLGFAFAKDSP-LVSHFSQAILLVRENQTRMDRIEKKYFGEN 688 (753)
Q Consensus 618 a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~-l~~~~n~~i~~l~~~G~~~~~~~~~~~~~~ 688 (753)
+++.+.....+++++....+.+....+...+++++++++++ |++.||+.|.+++++| .++++.++|+..+
T Consensus 193 ~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~l~~~ln~~l~~~~~~g-~~~~i~~k~~~~~ 263 (266)
T PRK11260 193 AILVDRLAALDLVKKTNDTLAVAGEAFSRQESGVALRKGNPDLLKAVNQAIAEMQKDG-TLKALSEKWFGAD 263 (266)
T ss_pred EEEechHHHHHHHHhCCCcceecCCccccCceEEEEeCCCHHHHHHHHHHHHHHHhCC-cHHHHHHHhcCCc
Confidence 99999988888887765456666666677889999999998 9999999999999999 9999999999874
No 81
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.89 E-value=8.3e-22 Score=200.22 Aligned_cols=221 Identities=23% Similarity=0.361 Sum_probs=181.7
Q ss_pred ceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcC
Q 037761 379 SLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLK 458 (753)
Q Consensus 379 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 458 (753)
+++|++. +.|+||.+. +++|++.|+++|+++++++ ++|. +++++.. +|+.++.++..|
T Consensus 27 ~l~v~~~--~~~pPf~~~-----~~~g~~~G~~vdl~~~ia~----~lg~--~~~~~~~---------~~~~~~~~l~~g 84 (260)
T PRK15010 27 TVRIGTD--TTYAPFSSK-----DAKGDFVGFDIDLGNEMCK----RMQV--KCTWVAS---------DFDALIPSLKAK 84 (260)
T ss_pred eEEEEec--CCcCCceeE-----CCCCCEEeeeHHHHHHHHH----HhCC--ceEEEeC---------CHHHHHHHHHCC
Confidence 7899886 567888886 5678999999999999999 9985 4555554 799999999999
Q ss_pred cccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhh
Q 037761 459 KFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILM 538 (753)
Q Consensus 459 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~ 538 (753)
++|++++++..|++|.+.+.||.||+.++.++++++....
T Consensus 85 ~~Di~~~~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~---------------------------------------- 124 (260)
T PRK15010 85 KIDAIISSLSITDKRQQEIAFSDKLYAADSRLIAAKGSPI---------------------------------------- 124 (260)
T ss_pred CCCEEEecCcCCHHHHhhcccccceEeccEEEEEECCCCC----------------------------------------
Confidence 9999988899999999999999999999999999987542
Q ss_pred hceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeE
Q 037761 539 QSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSA 618 (753)
Q Consensus 539 ~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a 618 (753)
..+++|| +|++||+..|+..+.++.+.....+.++..+.+.++++++|.+|+ +|+
T Consensus 125 -------------------~~~~~dl--~g~~Igv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~gr----iDa 179 (260)
T PRK15010 125 -------------------QPTLDSL--KGKHVGVLQGSTQEAYANETWRSKGVDVVAYANQDLVYSDLAAGR----LDA 179 (260)
T ss_pred -------------------CCChhHc--CCCEEEEecCchHHHHHHHhcccCCceEEecCCHHHHHHHHHcCC----ccE
Confidence 3478999 699999999999888876432223356677888999999999999 999
Q ss_pred EEeccccHHH-HHhcC-CCCcEEeCcccc-----cCceEEEEcCCCC-CchHhHHHHHHhhhcchHHHHHHHhhcCC
Q 037761 619 IFEEIPYIKV-FLKKY-SSKYTTAGPIYR-----TDGLGFAFAKDSP-LVSHFSQAILLVRENQTRMDRIEKKYFGE 687 (753)
Q Consensus 619 ~~~~~~~~~~-~~~~~-~~~l~~~~~~~~-----~~~~~~~~~k~s~-l~~~~n~~i~~l~~~G~~~~~~~~~~~~~ 687 (753)
++.+.....+ +.++. ..++.+.+..+. ..+++++++++++ |++.||+.|.+|+++| .++++.+||++.
T Consensus 180 ~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~L~~~ln~~l~~l~~~G-~~~~i~~ky~~~ 255 (260)
T PRK15010 180 ALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGVGLRKDDAELTAAFNKALGELRQDG-TYDKMAKKYFDF 255 (260)
T ss_pred EEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEEEEeCCCHHHHHHHHHHHHHHHhCC-cHHHHHHHhcCC
Confidence 9999887764 34443 345655543321 2346789999887 9999999999999999 999999999975
No 82
>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=99.89 E-value=1.2e-22 Score=202.33 Aligned_cols=222 Identities=24% Similarity=0.380 Sum_probs=186.1
Q ss_pred eEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCc
Q 037761 380 LVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKK 459 (753)
Q Consensus 380 l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 459 (753)
||||+. ..++||.+. ++++++.|+++|+++++++ ++|++++++.. +|.+++.+|.+|+
T Consensus 1 l~V~~~--~~~~P~~~~-----~~~~~~~G~~~dl~~~i~~----~~g~~~~~~~~-----------~~~~~~~~l~~g~ 58 (225)
T PF00497_consen 1 LRVGVD--EDYPPFSYI-----DEDGEPSGIDVDLLRAIAK----RLGIKIEFVPM-----------PWSRLLEMLENGK 58 (225)
T ss_dssp EEEEEE--SEBTTTBEE-----ETTSEEESHHHHHHHHHHH----HHTCEEEEEEE-----------EGGGHHHHHHTTS
T ss_pred CEEEEc--CCCCCeEEE-----CCCCCEEEEhHHHHHHHHh----hcccccceeec-----------ccccccccccccc
Confidence 688885 466677776 5689999999999999999 99976555444 5899999999999
Q ss_pred ccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhh
Q 037761 460 FDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQ 539 (753)
Q Consensus 460 ~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~ 539 (753)
+|+++++++.+++|.+.+.||.||+....++++++.+...
T Consensus 59 ~D~~~~~~~~~~~r~~~~~~s~p~~~~~~~~~~~~~~~~~---------------------------------------- 98 (225)
T PF00497_consen 59 ADIIIGGLSITPERAKKFDFSDPYYSSPYVLVVRKGDAPP---------------------------------------- 98 (225)
T ss_dssp SSEEESSEB-BHHHHTTEEEESESEEEEEEEEEETTSTCS----------------------------------------
T ss_pred cccccccccccccccccccccccccchhheeeeccccccc----------------------------------------
Confidence 9999989999999999999999999999999999753211
Q ss_pred ceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCC-CCceecCCCHHHHHHHHhcCCCCCCeeE
Q 037761 540 SYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFS-RNQTRPLSNFGEYKEALSNGSRKGGVSA 618 (753)
Q Consensus 540 ~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~g~~~~~~~a 618 (753)
...+++++|| .|+++|+..++...+++.+ ..+ ..+++.+.+.++++++|.+|+ +|+
T Consensus 99 ---------------~~~~~~~~dl--~~~~i~~~~g~~~~~~l~~--~~~~~~~~~~~~~~~~~~~~l~~g~----~d~ 155 (225)
T PF00497_consen 99 ---------------IKTIKSLDDL--KGKRIGVVRGSSYADYLKQ--QYPSNINIVEVDSPEEALEALLSGR----IDA 155 (225)
T ss_dssp ---------------TSSHSSGGGG--TTSEEEEETTSHHHHHHHH--HTHHTSEEEEESSHHHHHHHHHTTS----SSE
T ss_pred ---------------cccccchhhh--cCcccccccchhHHHHhhh--hccchhhhcccccHHHHHHHHhcCC----eee
Confidence 1147788899 6889999999999888885 232 567788999999999999999 999
Q ss_pred EEeccccHHHHHhcC-CCCcEEeCcccccCceEEEEcCCCC-CchHhHHHHHHhhhcchHHHHHHHhhcCC
Q 037761 619 IFEEIPYIKVFLKKY-SSKYTTAGPIYRTDGLGFAFAKDSP-LVSHFSQAILLVRENQTRMDRIEKKYFGE 687 (753)
Q Consensus 619 ~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~k~s~-l~~~~n~~i~~l~~~G~~~~~~~~~~~~~ 687 (753)
++.+...+.+++++. ..............+++++++++.+ |++.||++|.+|+++| .++++.+||++.
T Consensus 156 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~i~~l~~~G-~~~~i~~ky~g~ 225 (225)
T PF00497_consen 156 FIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAVRKKNPELLEIFNKAIRELKQSG-EIQKILKKYLGD 225 (225)
T ss_dssp EEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEEETTTHHHHHHHHHHHHHHHHTT-HHHHHHHHHHSS
T ss_pred eeccchhhhhhhhhcccccccccccccccceeEEeecccccHHHHHHHHHHHHHHhCc-HHHHHHHHHcCC
Confidence 999999999999988 3344443556666778888888777 9999999999999999 999999999873
No 83
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.89 E-value=2.1e-21 Score=195.96 Aligned_cols=284 Identities=14% Similarity=0.102 Sum_probs=202.0
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC--CCCCceEEEecCcHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP--TEHPFFIRVTQNDSLQVKA 85 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~--~~~~~~fr~~p~~~~~~~a 85 (753)
.++||....+.|++|+.+++|.+|+|.+.|++.+++.|+.++++-+++.+. ..+ ...|+++-+.....++..-
T Consensus 49 p~Sd~~~ya~~A~~Li~~d~V~~ifGc~TSasRKaVlPvvE~~~~LL~Yp~-----~YEG~E~S~nviYtGa~PNQ~~~p 123 (363)
T PF13433_consen 49 PASDPSTYAEKAEKLIREDGVRAIFGCYTSASRKAVLPVVERHNALLFYPT-----QYEGFECSPNVIYTGAAPNQQLLP 123 (363)
T ss_dssp -TT-HHHHHHHHHHHHHHS---EEEE--SHHHHHHHHHHHHHCT-EEEE-S-------------TTEEE-S--GGGTHHH
T ss_pred CCCCHHHHHHHHHHHHHhCCccEEEecchhhhHHHHHHHHHhcCceEEecc-----ccccccCCCceEEcCCCchhhHHH
Confidence 669999999999999999999999999999999999999999999999753 222 4458899999999999999
Q ss_pred HHHHH-HHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHH
Q 037761 86 ISAVL-QNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTAL 164 (753)
Q Consensus 86 ~~~~l-~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~ 164 (753)
+++++ .++|.+|+.+|.+|+.|+++.-..+++.+++.|++++...-+|.+ .+|+..++.+|++.+||+|+-...++.
T Consensus 124 l~~~~~~~~G~~r~~lvGSdYv~pre~Nri~r~~l~~~GgevvgE~Y~plg--~td~~~ii~~I~~~~Pd~V~stlvG~s 201 (363)
T PF13433_consen 124 LIDYLLENFGAKRFYLVGSDYVYPRESNRIIRDLLEARGGEVVGERYLPLG--ATDFDPIIAEIKAAKPDFVFSTLVGDS 201 (363)
T ss_dssp HHHHHHHHS--SEEEEEEESSHHHHHHHHHHHHHHHHTT-EEEEEEEE-S---HHHHHHHHHHHHHHT-SEEEEE--TTC
T ss_pred HHHHHHhccCCceEEEecCCccchHHHHHHHHHHHHHcCCEEEEEEEecCC--chhHHHHHHHHHhhCCCEEEEeCcCCc
Confidence 99976 888999999999999999999999999999999999999888754 789999999999999999999999999
Q ss_pred HHHHHHHHHHcCCCCCCEEEEEcCcccc-cccCCChhHHhhcccEEEEEEeCC--CChhhhHHHHHHHHhhCCCCCCCCc
Q 037761 165 ASRLFALVAKNGMMSKGYTWIVTACLSN-SLNVLDSEVIDSMEGVLGVRSHLP--KSKELGLFDRRWKSKLHSMKPNSSV 241 (753)
Q Consensus 165 ~~~~~~~a~~~g~~~~~~~wi~~~~~~~-~~~~~~~~~~~~~~g~i~~~~~~~--~~~~~~~F~~~~~~~~~~~~~~~~~ 241 (753)
...|.++++++|+... ..-|.+..... ....+ ..+...|.++...+.. ++|..++|+++|+++||...
T Consensus 202 ~~aF~r~~~~aG~~~~-~~Pi~S~~~~E~E~~~~---g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~~----- 272 (363)
T PF13433_consen 202 NVAFYRAYAAAGLDPE-RIPIASLSTSEAELAAM---GAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGDDR----- 272 (363)
T ss_dssp HHHHHHHHHHHH-SSS----EEESS--HHHHTTS----HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT------
T ss_pred HHHHHHHHHHcCCCcc-cCeEEEEecCHHHHhhc---ChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCCC-----
Confidence 9999999999998644 44455544332 22222 3456788888765544 56999999999999998732
Q ss_pred cccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-eCCc
Q 037761 242 TEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-VNGQ 320 (753)
Q Consensus 242 ~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~~g~ 320 (753)
.++.....+|.+|+++|+|++++ +. .++++|+++|.+.+|+...|.+++ ++..
T Consensus 273 -v~s~~~eaaY~~v~l~a~Av~~a-gs------------------------~d~~~vr~al~g~~~~aP~G~v~id~~n~ 326 (363)
T PF13433_consen 273 -VTSDPMEAAYFQVHLWAQAVEKA-GS------------------------DDPEAVREALAGQSFDAPQGRVRIDPDNH 326 (363)
T ss_dssp ----HHHHHHHHHHHHHHHHHHHH-TS--------------------------HHHHHHHHTT--EEETTEEEEE-TTTS
T ss_pred -CCCcHHHHHHHHHHHHHHHHHHh-CC------------------------CCHHHHHHHhcCCeecCCCcceEEcCCCC
Confidence 45667778999999999999999 32 355899999999999999999999 4222
Q ss_pred cceeEEEEEEEec
Q 037761 321 LESSVFEIVNVIG 333 (753)
Q Consensus 321 ~~~~~y~i~~~~~ 333 (753)
...-.-.|-+++.
T Consensus 327 H~~l~~rIg~~~~ 339 (363)
T PF13433_consen 327 HTWLPPRIGRVNA 339 (363)
T ss_dssp BEEB--EEEEE-T
T ss_pred eecccceEEEEcC
Confidence 2233344444443
No 84
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.88 E-value=1.9e-21 Score=195.96 Aligned_cols=215 Identities=22% Similarity=0.428 Sum_probs=181.6
Q ss_pred ceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcC
Q 037761 379 SLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLK 458 (753)
Q Consensus 379 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 458 (753)
+|+|++. +.++||.+. +.+|++.|+++|++++|++ ++|.+ ++++.. +|..++.++.+|
T Consensus 22 ~l~v~~~--~~~~P~~~~-----~~~g~~~G~~~dl~~~i~~----~lg~~--~~~~~~---------~~~~~~~~l~~g 79 (243)
T PRK15007 22 TIRFATE--ASYPPFESI-----DANNQIVGFDVDLAQALCK----EIDAT--CTFSNQ---------AFDSLIPSLKFR 79 (243)
T ss_pred cEEEEeC--CCCCCceee-----CCCCCEEeeeHHHHHHHHH----HhCCc--EEEEeC---------CHHHHhHHHhCC
Confidence 7999996 567788876 5678999999999999999 99965 455554 799999999999
Q ss_pred cccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhh
Q 037761 459 KFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILM 538 (753)
Q Consensus 459 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~ 538 (753)
++|+++++++.+++|...+.||.||+..+..++.+.. .
T Consensus 80 ~~D~~~~~~~~~~~r~~~~~fs~p~~~~~~~~v~~~~-~----------------------------------------- 117 (243)
T PRK15007 80 RVEAVMAGMDITPEREKQVLFTTPYYDNSALFVGQQG-K----------------------------------------- 117 (243)
T ss_pred CcCEEEEcCccCHHHhcccceecCccccceEEEEeCC-C-----------------------------------------
Confidence 9999887888999999999999999998888777644 1
Q ss_pred hceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeE
Q 037761 539 QSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSA 618 (753)
Q Consensus 539 ~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a 618 (753)
+++++|| +|+++|+..|+....++.+ ..++.+.+.+.+.++++.+|.+|+ +|+
T Consensus 118 -------------------~~~~~dL--~g~~Igv~~g~~~~~~l~~--~~~~~~~~~~~~~~~~~~~L~~gr----vDa 170 (243)
T PRK15007 118 -------------------YTSVDQL--KGKKVGVQNGTTHQKFIMD--KHPEITTVPYDSYQNAKLDLQNGR----IDA 170 (243)
T ss_pred -------------------CCCHHHh--CCCeEEEecCcHHHHHHHH--hCCCCeEEEcCCHHHHHHHHHcCC----CCE
Confidence 7889999 6999999999999888885 456677888899999999999999 999
Q ss_pred EEeccccHHHHHhcCCCCcEEeCcc-----cccCceEEEEcCCCC-CchHhHHHHHHhhhcchHHHHHHHhhcC
Q 037761 619 IFEEIPYIKVFLKKYSSKYTTAGPI-----YRTDGLGFAFAKDSP-LVSHFSQAILLVRENQTRMDRIEKKYFG 686 (753)
Q Consensus 619 ~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~~~~~~k~s~-l~~~~n~~i~~l~~~G~~~~~~~~~~~~ 686 (753)
++.+...+.+++++.. ++..++.. ....+++++++++++ |++.||+.|..++++| .++++.++|++
T Consensus 171 ~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ln~~l~~l~~~g-~~~~i~~~w~~ 242 (243)
T PRK15007 171 VFGDTAVVTEWLKDNP-KLAAVGDKVTDKDYFGTGLGIAVRQGNTELQQKLNTALEKVKKDG-TYETIYNKWFQ 242 (243)
T ss_pred EEeCHHHHHHHHhcCC-CceeecCcccccccCCcceEEEEeCCCHHHHHHHHHHHHHHHhCC-cHHHHHHHhcC
Confidence 9999988888877653 34444322 223457899999877 9999999999999999 99999999985
No 85
>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=99.88 E-value=5.8e-21 Score=202.88 Aligned_cols=271 Identities=12% Similarity=0.083 Sum_probs=212.4
Q ss_pred eeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHH
Q 037761 4 LLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQ 82 (753)
Q Consensus 4 l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~ 82 (753)
|+.. ++++|.++.+++++|+++++|.+|||+.+|....++ +++...++|+|+++++++.+++ .|++|++.+++..+
T Consensus 43 lv~~D~~~~~~~~~~~~~~li~~~~V~~iig~~~s~~~~~~-~~~~~~~ip~v~~~~~~~~~~~--~~~~~~~~~~~~~~ 119 (341)
T cd06341 43 YVWCDDQGDPASAAACARDLVEDDKVVAVVGGSSGAGGSAL-PYLAGAGIPVIGGAGTSAWELT--SPNSFPFSGGTPAS 119 (341)
T ss_pred EEEecCCCChhHHHHHHHHHHHhcCceEEEecccccchhHH-HHHhhcCCceecCCCCCchhhc--CCCeEEecCCCcch
Confidence 4555 678999999999999999899999999998887776 8899999999998876665553 57889999999999
Q ss_pred HHHHHHHHHHcCCeEEEEEEeeCC-cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 83 VKAISAVLQNFSWHEVVLMYEDTN-YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 83 ~~a~~~~l~~~~w~~vail~~d~~-~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
+..+++++...+.+++++++.++. ||....+.+++.+++.|++++....++.+ ..|+.+.+.++++.+||+|++...
T Consensus 120 ~~~~~~~l~~~g~~~~~~i~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~--~~d~~~~~~~i~~~~pdaV~~~~~ 197 (341)
T cd06341 120 LTTWGDFAKDQGGTRAVALVTALSAAVSAAAALLARSLAAAGVSVAGIVVITAT--APDPTPQAQQAAAAGADAIITVLD 197 (341)
T ss_pred hHHHHHHHHHcCCcEEEEEEeCCcHHHHHHHHHHHHHHHHcCCccccccccCCC--CCCHHHHHHHHHhcCCCEEEEecC
Confidence 999999998888999999987665 99999999999999999999887766643 579999999999999999999999
Q ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC---CChhhhHHHHHHHHhhCCCCCC
Q 037761 162 TALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP---KSKELGLFDRRWKSKLHSMKPN 238 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~~ 238 (753)
..++..++++++++|+..+ ..+........ +.....+..+|++....+.+ ..|..++|.+.+++ |+...
T Consensus 198 ~~~a~~~~~~~~~~G~~~~--~~~~~~~~~~~---~~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~-~~~~~-- 269 (341)
T cd06341 198 AAVCASVLKAVRAAGLTPK--VVLSGTCYDPA---LLAAPGPALAGVYIAVFYRPFESGTPAVALYLAAMAR-YAPQL-- 269 (341)
T ss_pred hHHHHHHHHHHHHcCCCCC--EEEecCCCCHH---HHHhcCcccCceEEEeeeccccCCCHHHHHHHHHHHH-hCCCC--
Confidence 9899999999999998543 22222222111 11234457889888766554 45777888776554 32211
Q ss_pred CCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHH-HHHHHHhcccccceee
Q 037761 239 SSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHI-LCNQILNTQFKGLSGE 313 (753)
Q Consensus 239 ~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-l~~~l~~~~f~g~~G~ 313 (753)
...++.++..+||+++++++|++++ +.. .+++. +.++|++++.....|-
T Consensus 270 --~~~~~~~~~~~yda~~~~~~a~~~a-g~~-----------------------~~~~~~v~~al~~~~~~~~~g~ 319 (341)
T cd06341 270 --DPPEQGFALIGYIAADLFLRGLSGA-GGC-----------------------PTRASQFLRALRAVTDYDAGGL 319 (341)
T ss_pred --CCCcchHHHHHHHHHHHHHHHHHhc-CCC-----------------------CChHHHHHHHhhcCCCCCCCCc
Confidence 0157889999999999999999998 321 22366 9999999986554443
No 86
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.88 E-value=4e-21 Score=194.15 Aligned_cols=216 Identities=16% Similarity=0.251 Sum_probs=180.4
Q ss_pred ceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhc-CCccceEEEecCCCCCCCCCChHHHHHHHHc
Q 037761 379 SLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKL-GMKIHPQLVPYEDENGEMAGTYDELLYQIKL 457 (753)
Q Consensus 379 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 457 (753)
+|+||+. ++++||.+.+ .++|++.|+++|+++++++ ++ |..+++++.+. +|...+.+|.+
T Consensus 39 ~l~vg~~--~~~pP~~~~~----~~~g~~~G~~vdl~~~ia~----~llg~~~~~~~~~~---------~~~~~~~~l~~ 99 (259)
T PRK11917 39 QLIVGVK--NDVPHYALLD----QATGEIKGFEIDVAKLLAK----SILGDDKKIKLVAV---------NAKTRGPLLDN 99 (259)
T ss_pred EEEEEEC--CCCCCceeee----CCCCceeEeeHHHHHHHHH----HhcCCCccEEEEEc---------ChhhHHHHHHC
Confidence 8999997 6778888751 2468999999999999999 94 86667777776 67888899999
Q ss_pred CcccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHh
Q 037761 458 KKFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFIL 537 (753)
Q Consensus 458 ~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl 537 (753)
|++|++++++++|++|.+.++||.||+.++.++++++...
T Consensus 100 g~~D~~~~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~~---------------------------------------- 139 (259)
T PRK11917 100 GSVDAVIATFTITPERKRIYNFSEPYYQDAIGLLVLKEKN---------------------------------------- 139 (259)
T ss_pred CCccEEEecccCChhhhheeeeccCceeeceEEEEECCCC----------------------------------------
Confidence 9999999999999999999999999999999999998742
Q ss_pred hhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhh--CCCCCceecCCCHHHHHHHHhcCCCCCC
Q 037761 538 MQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQL--NFSRNQTRPLSNFGEYKEALSNGSRKGG 615 (753)
Q Consensus 538 ~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~l~~g~~~~~ 615 (753)
+++++|| .|+++|+..++..++.+.+.. .....++..+++..+.+++|..|+
T Consensus 140 --------------------~~s~~dL--~g~~V~v~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~Gr---- 193 (259)
T PRK11917 140 --------------------YKSLADM--KGANIGVAQAATTKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDAKR---- 193 (259)
T ss_pred --------------------CCCHHHh--CCCeEEEecCCcHHHHHHHhhHhcCCceeEEecCCHHHHHHHHHcCC----
Confidence 8899999 699999999998877665321 112345667889999999999999
Q ss_pred eeEEEeccccHHHHHhcCCCCcEEeCcccccCceEEEEcCCCC-CchHhHHHHHHhhhcchHHHHHHHhhc
Q 037761 616 VSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTDGLGFAFAKDSP-LVSHFSQAILLVRENQTRMDRIEKKYF 685 (753)
Q Consensus 616 ~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~-l~~~~n~~i~~l~~~G~~~~~~~~~~~ 685 (753)
+|+++.+...+.++..+ ...++.+.+...+++++++|+++ +.+.+|+.|.+++ + .+++|.+||-
T Consensus 194 vDa~~~d~~~~~~~~~~---~~~~~~~~~~~~~~~~a~~k~~~~l~~~ln~~l~~~~--~-~~~~i~~kw~ 258 (259)
T PRK11917 194 VDAFSVDKSILLGYVDD---KSEILPDSFEPQSYGIVTKKDDPAFAKYVDDFVKEHK--N-EIDALAKKWG 258 (259)
T ss_pred CcEEEecHHHHHHhhhc---CCeecCCcCCCCceEEEEeCCCHHHHHHHHHHHHHHH--H-HHHHHHHHhC
Confidence 99999998877665543 34566666777789999999998 9999999999985 4 5999999984
No 87
>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=99.87 E-value=8.8e-21 Score=198.79 Aligned_cols=240 Identities=20% Similarity=0.243 Sum_probs=194.3
Q ss_pred eeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHH
Q 037761 4 LLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQ 82 (753)
Q Consensus 4 l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~ 82 (753)
+++. ++++|..+...+++|+.+++|.+|||+.+|..+.++.+++...++|+|+++++++.+. ...+++||+.+++..+
T Consensus 42 l~~~d~~~~~~~a~~~~~~li~~~~v~~vig~~~s~~~~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~ 120 (312)
T cd06333 42 LIVLDDGSDPTKAVTNARKLIEEDKVDAIIGPSTTPATMAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLM 120 (312)
T ss_pred EEEecCCCCHHHHHHHHHHHHhhCCeEEEECCCCCHHHHHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHH
Confidence 3443 7789999999999999988999999999888888899999999999999877654443 4467999999999999
Q ss_pred HHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh
Q 037761 83 VKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 83 ~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
+..+++++.+.||+++++++.++.+|....+.+++.+++.|++++....++.+ +.|+...+.++++.++|+|++.+..
T Consensus 121 ~~~~~~~l~~~g~~~vail~~~~~~~~~~~~~~~~~~~~~G~~v~~~~~~~~~--~~d~~~~~~~l~~~~pdaIi~~~~~ 198 (312)
T cd06333 121 AEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALAPKYGIEVVADERYGRT--DTSVTAQLLKIRAARPDAVLIWGSG 198 (312)
T ss_pred HHHHHHHHHHcCCCEEEEEecCcHHHHHHHHHHHHHHHHcCCEEEEEEeeCCC--CcCHHHHHHHHHhCCCCEEEEecCC
Confidence 99999999999999999999988999999999999999999999877777643 4589999999988899999999888
Q ss_pred HHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEe------CC----CChhhhHHHHHHHHhh
Q 037761 163 ALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSH------LP----KSKELGLFDRRWKSKL 232 (753)
Q Consensus 163 ~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~------~~----~~~~~~~F~~~~~~~~ 232 (753)
..+..+++++++.|+..+ ++ +++.... ..+.....+..+|++....+ .+ ..+..++|.++|+++|
T Consensus 199 ~~~~~~~~~l~~~g~~~p--~~-~~~~~~~--~~~~~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~ 273 (312)
T cd06333 199 TPAALPAKNLRERGYKGP--IY-QTHGVAS--PDFLRLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKY 273 (312)
T ss_pred cHHHHHHHHHHHcCCCCC--EE-eecCcCc--HHHHHHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHh
Confidence 778889999999997432 33 3333221 11122344567787664321 12 2357899999999999
Q ss_pred CCCCCCCCccc-cchhHHHHHHHHHHHH
Q 037761 233 HSMKPNSSVTE-INISGLWAYDTIFALA 259 (753)
Q Consensus 233 ~~~~~~~~~~~-~~~~~~~~ydAv~~~a 259 (753)
+. . |+.+++.+|||+++++
T Consensus 274 g~--------~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 274 GA--------GSVSTFGGHAYDALLLLA 293 (312)
T ss_pred CC--------CCCCchhHHHHHHHHHHH
Confidence 87 5 7889999999999999
No 88
>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=99.87 E-value=1.1e-20 Score=196.78 Aligned_cols=183 Identities=33% Similarity=0.514 Sum_probs=171.7
Q ss_pred CCCChHHHHHHHHHHHhc----CCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHHH
Q 037761 8 KQFKDCGKLILAVDLLKK----FQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSLQ 82 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~----~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~~ 82 (753)
+++++..+...+.+++++ ++|.+|+||.+|..+.+++++++.+++|+|+++++++.+++ ..+|+++|+.|++..+
T Consensus 48 ~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~ 127 (298)
T cd06269 48 SCCSPSDAFSAALDLCSLLEKSRGVVAVIGPSSSSSAEAVASLLGALHIPQISYSATSPLLSDKEQFPSFLRTVPSDSSQ 127 (298)
T ss_pred cCCChHHHHHHHHHHHhcCCCCCceEEEECCCCchHHHHHHHHhccCCCcEEecccCchhhcChhhCCCeEecCCCcHHH
Confidence 778899999999999986 79999999999999999999999999999999998888886 6789999999999999
Q ss_pred HHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh
Q 037761 83 VKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 83 ~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
+.++++++++++|++|+++++++++|....+.+.+.+++.|+|+.....++.. ..++...++++++.+++||++++.+
T Consensus 128 ~~a~~~~l~~~~w~~v~~v~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~--~~~~~~~l~~l~~~~~~viv~~~~~ 205 (298)
T cd06269 128 AQAIVDLLKHFGWTWVGLVYSDDDYGRRLLELLEEELEKNGICVAFVESIPDG--SEDIRRLLKELKSSTARVIVVFSSE 205 (298)
T ss_pred HHHHHHHHHHCCCeEEEEEEecchhhHHHHHHHHHHHHHCCeeEEEEEEcCCC--HHHHHHHHHHHHhcCCcEEEEEech
Confidence 99999999999999999999999999999999999999999999999888754 4799999999999999999999999
Q ss_pred HHHHHHHHHHHHcCCCCCCEEEEEcCccccc
Q 037761 163 ALASRLFALVAKNGMMSKGYTWIVTACLSNS 193 (753)
Q Consensus 163 ~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~ 193 (753)
+++..+++++++.|+. .+++||.++.|...
T Consensus 206 ~~~~~~l~~a~~~g~~-~~~~~i~~~~~~~~ 235 (298)
T cd06269 206 EDALRLLEEAVELGMM-TGYHWIITDLWLTS 235 (298)
T ss_pred HHHHHHHHHHHHcCCC-CCeEEEEEChhhcc
Confidence 9999999999999998 88999999988754
No 89
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.87 E-value=7.1e-21 Score=192.74 Aligned_cols=217 Identities=26% Similarity=0.454 Sum_probs=185.6
Q ss_pred ceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcC
Q 037761 379 SLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLK 458 (753)
Q Consensus 379 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 458 (753)
+|+|++. ..++||.+. +++|++.|+++|+++.+++ ++|. ++++++. +|.+++.+|.+|
T Consensus 25 ~l~v~~~--~~~~P~~~~-----~~~g~~~G~~~dl~~~i~~----~lg~--~~~~~~~---------~~~~~~~~l~~G 82 (250)
T TIGR01096 25 SVRIGTE--TGYPPFESK-----DANGKLVGFDVDLAKALCK----RMKA--KCKFVEQ---------NFDGLIPSLKAK 82 (250)
T ss_pred eEEEEEC--CCCCCceEE-----CCCCCEEeehHHHHHHHHH----HhCC--eEEEEeC---------CHHHHHHHHhCC
Confidence 7999985 567788876 5678999999999999999 9985 5556665 799999999999
Q ss_pred cccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhh
Q 037761 459 KFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILM 538 (753)
Q Consensus 459 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~ 538 (753)
++|++++++..+.+|.+.+.||.|++..+..+++++++.
T Consensus 83 ~~D~~~~~~~~~~~r~~~~~~s~p~~~~~~~~~~~~~~~----------------------------------------- 121 (250)
T TIGR01096 83 KVDAIMATMSITPKRQKQIDFSDPYYATGQGFVVKKGSD----------------------------------------- 121 (250)
T ss_pred CcCEEEecCccCHHHhhccccccchhcCCeEEEEECCCC-----------------------------------------
Confidence 999998778889999999999999999999999998753
Q ss_pred hceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCC-CCceecCCCHHHHHHHHhcCCCCCCee
Q 037761 539 QSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFS-RNQTRPLSNFGEYKEALSNGSRKGGVS 617 (753)
Q Consensus 539 ~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~g~~~~~~~ 617 (753)
.+.+++|| .|+++|+..++....++.+ ..+ +.++..+.+.++++++|.+|+ +|
T Consensus 122 ------------------~~~~~~dl--~g~~i~~~~g~~~~~~l~~--~~~~~~~~~~~~s~~~~~~~L~~g~----vD 175 (250)
T TIGR01096 122 ------------------LAKTLEDL--DGKTVGVQSGTTHEQYLKD--YFKPGVDIVEYDSYDNANMDLKAGR----ID 175 (250)
T ss_pred ------------------cCCChHHc--CCCEEEEecCchHHHHHHH--hccCCcEEEEcCCHHHHHHHHHcCC----CC
Confidence 15789999 5999999999999888885 344 567788899999999999999 99
Q ss_pred EEEeccccHHHHHhcCC--CCcEEeCccccc-----CceEEEEcCCCC-CchHhHHHHHHhhhcchHHHHHHHhhc
Q 037761 618 AIFEEIPYIKVFLKKYS--SKYTTAGPIYRT-----DGLGFAFAKDSP-LVSHFSQAILLVRENQTRMDRIEKKYF 685 (753)
Q Consensus 618 a~~~~~~~~~~~~~~~~--~~l~~~~~~~~~-----~~~~~~~~k~s~-l~~~~n~~i~~l~~~G~~~~~~~~~~~ 685 (753)
+++.+...+.+++++.. +++.+++..+.. ..++++++++++ |+..||+.|.+|+++| .++++.+||+
T Consensus 176 ~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ln~~l~~l~~~g-~~~~i~~kw~ 250 (250)
T TIGR01096 176 AVFTDASVLAEGFLKPPNGKDFKFVGPSVTDEKYFGDGYGIGLRKGDTELKAAFNKALAAIRADG-TYQKISKKWF 250 (250)
T ss_pred EEEeCHHHHHHHHHhCCCCCceEEeccccccccccCCceEEEEeCCCHHHHHHHHHHHHHHHHCC-cHHHHHHhhC
Confidence 99999999999887752 347766554332 247899999988 9999999999999999 9999999995
No 90
>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=99.87 E-value=7.8e-21 Score=194.54 Aligned_cols=221 Identities=17% Similarity=0.190 Sum_probs=182.0
Q ss_pred ceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcC
Q 037761 379 SLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLK 458 (753)
Q Consensus 379 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 458 (753)
+|+|++. +++||.+. +.+|++.|+++||++++++ ++|.+. +.+... +|++++..|.+|
T Consensus 34 ~l~v~~~---~~pP~~~~-----~~~g~~~G~~~dl~~~i~~----~lg~~~-~~~~~~---------~w~~~~~~l~~G 91 (275)
T TIGR02995 34 FARIAIA---NEPPFTYV-----GADGKVSGAAPDVARAIFK----RLGIAD-VNASIT---------EYGALIPGLQAG 91 (275)
T ss_pred cEEEEcc---CCCCceeE-----CCCCceecchHHHHHHHHH----HhCCCc-eeeccC---------CHHHHHHHHHCC
Confidence 8999984 46677776 5678999999999999999 998541 344443 799999999999
Q ss_pred cccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhh
Q 037761 459 KFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILM 538 (753)
Q Consensus 459 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~ 538 (753)
++|+++++++.|++|...+.||.||+.+..++++++.+...
T Consensus 92 ~~Di~~~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~~~--------------------------------------- 132 (275)
T TIGR02995 92 RFDAIAAGLFIKPERCKQVAFTQPILCDAEALLVKKGNPKG--------------------------------------- 132 (275)
T ss_pred CcCEEeecccCCHHHHhccccccceeecceeEEEECCCCCC---------------------------------------
Confidence 99998888899999999999999999999999999876433
Q ss_pred hceeeeeeeeEEeeccCCCcCChhHhhh-cCCeEEEecCchHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCee
Q 037761 539 QSYTASLSSILTVDQLEPTFADLKKLRT-ESHFVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVS 617 (753)
Q Consensus 539 ~~Y~a~L~s~lt~~~~~~~i~s~~dL~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~ 617 (753)
+++++||.. .|++||+..|+...+++.+ ...+..+++.+++.++++++|..|+ +|
T Consensus 133 -------------------i~~~~dl~~~~g~~Igv~~g~~~~~~l~~-~~~~~~~i~~~~~~~~~i~~L~~gr----vD 188 (275)
T TIGR02995 133 -------------------LKSYKDIAKNPDAKIAAPGGGTEEKLARE-AGVKREQIIVVPDGQSGLKMVQDGR----AD 188 (275)
T ss_pred -------------------CCCHHHhccCCCceEEEeCCcHHHHHHHH-cCCChhhEEEeCCHHHHHHHHHcCC----CC
Confidence 789999953 2789999999999888883 3445567788899999999999999 99
Q ss_pred EEEeccccHHHHHhcC-CCCcEEeCcc---cccCceEEEEcCCCC-CchHhHHHHHHhhhcchHHHHHHHhhc
Q 037761 618 AIFEEIPYIKVFLKKY-SSKYTTAGPI---YRTDGLGFAFAKDSP-LVSHFSQAILLVRENQTRMDRIEKKYF 685 (753)
Q Consensus 618 a~~~~~~~~~~~~~~~-~~~l~~~~~~---~~~~~~~~~~~k~s~-l~~~~n~~i~~l~~~G~~~~~~~~~~~ 685 (753)
+++.+...+.+++++. ..++..+... .....++++++++++ |.+.||+.|.+|+++| .++++.++|-
T Consensus 189 a~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~l~~~~~sG-~~~~i~~ky~ 260 (275)
T TIGR02995 189 AYSLTVLTINDLASKAGDPNVEVLAPFKDAPVRYYGGAAFRPEDKELRDAFNVELAKLKESG-EFAKIIAPYG 260 (275)
T ss_pred EEecChHHHHHHHHhCCCCCceeecCccCCccccceeEEECCCCHHHHHHHHHHHHHHHhCh-HHHHHHHHhC
Confidence 9999999999988765 2245444322 111234788888877 9999999999999999 9999999993
No 91
>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=99.86 E-value=1.5e-20 Score=195.82 Aligned_cols=237 Identities=22% Similarity=0.343 Sum_probs=198.6
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC-CCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP-TEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~~fr~~p~~~~~~~a~ 86 (753)
+++++..+...+++++++++|.+|||+.++..+.+++.++...++|+|++.+.++.+++ ..+|++|++.|++..++.++
T Consensus 48 ~~~~~~~~~~~~~~l~~~~~v~~iig~~~~~~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 127 (299)
T cd04509 48 DQSDPARALAAARRLCQQEGVDALVGPVSSGVALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEAL 127 (299)
T ss_pred CCCCHHHHHHHHHHHhcccCceEEEcCCCcHHHHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHH
Confidence 67889999999999999889999999999999999999999999999999887776664 57899999999999999999
Q ss_pred HHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHH
Q 037761 87 SAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALAS 166 (753)
Q Consensus 87 ~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~ 166 (753)
++++.+++|+++++++.++.++....+.+++.+++.|++++....++.. ..++...+.++++.++++|++++....+.
T Consensus 128 ~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~~--~~~~~~~~~~l~~~~~~~v~~~~~~~~~~ 205 (299)
T cd04509 128 ADYIKEYNWKKVAILYDDDSYGRGLLEAFKAAFKKKGGTVVGEEYYPLG--TTDFTSLLQKLKAAKPDVIVLCGSGEDAA 205 (299)
T ss_pred HHHHHHcCCcEEEEEecCchHHHHHHHHHHHHHHHcCCEEEEEecCCCC--CccHHHHHHHHHhcCCCEEEEcccchHHH
Confidence 9999999999999999998899999999999999999999877666543 46899999999988899999999889999
Q ss_pred HHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCCh--hhhHHH---HHHHHhhCCCCCCCCc
Q 037761 167 RLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSK--ELGLFD---RRWKSKLHSMKPNSSV 241 (753)
Q Consensus 167 ~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~--~~~~F~---~~~~~~~~~~~~~~~~ 241 (753)
.+++++++.|+. .++.|++.+.+...... ....+...|.++...+.+..+ ..+.|. ..++..++.
T Consensus 206 ~~~~~~~~~g~~-~~~~~i~~~~~~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------- 275 (299)
T cd04509 206 TILKQAAEAGLT-GGYPILGITLGLSDVLL--EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKYED------- 275 (299)
T ss_pred HHHHHHHHcCCC-CCCcEEecccccCHHHH--HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHhCC-------
Confidence 999999999987 67889998876643221 234466788888877655443 333333 445555554
Q ss_pred cccchhHHHHHHHHHH
Q 037761 242 TEINISGLWAYDTIFA 257 (753)
Q Consensus 242 ~~~~~~~~~~ydAv~~ 257 (753)
.++.+++.+|||+++
T Consensus 276 -~~~~~~~~~yda~~~ 290 (299)
T cd04509 276 -QPDYFAALAYDAVLL 290 (299)
T ss_pred -CCChhhhhhcceeee
Confidence 788899999999987
No 92
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.86 E-value=2e-20 Score=189.95 Aligned_cols=222 Identities=21% Similarity=0.313 Sum_probs=179.3
Q ss_pred ceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcC
Q 037761 379 SLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLK 458 (753)
Q Consensus 379 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 458 (753)
.|++++. +.++||.+. +.+|++.|+++|+++++++ ++|. +++++.. +|++++.++.+|
T Consensus 27 ~l~v~~~--~~~~P~~~~-----~~~g~~~G~~vdi~~~ia~----~lg~--~i~~~~~---------pw~~~~~~l~~g 84 (259)
T PRK15437 27 NIRIGTD--PTYAPFESK-----NSQGELVGFDIDLAKELCK----RINT--QCTFVEN---------PLDALIPSLKAK 84 (259)
T ss_pred eEEEEeC--CCCCCccee-----CCCCCEEeeeHHHHHHHHH----HcCC--ceEEEeC---------CHHHHHHHHHCC
Confidence 7899885 557788776 5678999999999999999 9985 4555554 799999999999
Q ss_pred cccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhh
Q 037761 459 KFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILM 538 (753)
Q Consensus 459 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~ 538 (753)
++|+++++++.|++|.+.+.||.||+.++.++++++..+.
T Consensus 85 ~~D~~~~~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~---------------------------------------- 124 (259)
T PRK15437 85 KIDAIMSSLSITEKRQQEIAFTDKLYAADSRLVVAKNSDI---------------------------------------- 124 (259)
T ss_pred CCCEEEecCCCCHHHhhhccccchhhcCceEEEEECCCCC----------------------------------------
Confidence 9999988899999999999999999999999999987542
Q ss_pred hceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeE
Q 037761 539 QSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSA 618 (753)
Q Consensus 539 ~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a 618 (753)
..+++|| .|++||+..|+..+.++.+.......++..+.+.++++.+|.+|+ +|+
T Consensus 125 -------------------~~~~~dl--~g~~Igv~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~L~~gr----vD~ 179 (259)
T PRK15437 125 -------------------QPTVESL--KGKRVGVLQGTTQETFGNEHWAPKGIEIVSYQGQDNIYSDLTAGR----IDA 179 (259)
T ss_pred -------------------CCChHHh--CCCEEEEecCcHHHHHHHhhccccCceEEecCCHHHHHHHHHcCC----ccE
Confidence 3478999 699999999999888877421112356778889999999999999 999
Q ss_pred EEeccccHHH-HHhcC-CCCcEEeC-----cccccCceEEEEcCCCC-CchHhHHHHHHhhhcchHHHHHHHhhcCCC
Q 037761 619 IFEEIPYIKV-FLKKY-SSKYTTAG-----PIYRTDGLGFAFAKDSP-LVSHFSQAILLVRENQTRMDRIEKKYFGEN 688 (753)
Q Consensus 619 ~~~~~~~~~~-~~~~~-~~~l~~~~-----~~~~~~~~~~~~~k~s~-l~~~~n~~i~~l~~~G~~~~~~~~~~~~~~ 688 (753)
++.+.....+ +.++. ...+.+.. +.+...+++++++++.+ |++.+|+.|.+|+++| .++++.+||++.+
T Consensus 180 ~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ia~~~~~~~l~~~~n~~l~~~~~~G-~~~~i~~k~~~~~ 256 (259)
T PRK15437 180 AFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLFGVGTGMGLRKEDNELREALNKAFAEMRADG-TYEKLAKKYFDFD 256 (259)
T ss_pred EEechHHHHHHHHhCCCCCceEEecCccccccccCcceEEEEeCCCHHHHHHHHHHHHHHHHCC-cHHHHHHHhcCCc
Confidence 9999877654 33332 22343322 22233456788888877 9999999999999999 9999999999863
No 93
>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=99.85 E-value=2.6e-19 Score=180.08 Aligned_cols=289 Identities=14% Similarity=0.117 Sum_probs=213.5
Q ss_pred CChHHHHHHHHHHHhc-CCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 10 FKDCGKLILAVDLLKK-FQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~-~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
++.-+++++..+|..+ +.=++++||.|.-++.+++.+...+++|+||.|+..... ...+.+-|+.|+....+..+++
T Consensus 63 sstceg~~~l~~l~~~~~~gcv~lGP~CtYat~~~~~~~~~~~~P~ISaGsfglsc--d~k~~LTR~~pparK~~~~~~~ 140 (380)
T cd06369 63 SSTCEGVELLKKLSVTGRLGCVLLGPSCTYATFQMVDDEFNLSLPIISAGSFGLSC--DYKENLTRLLPPARKISDFFVD 140 (380)
T ss_pred cccchHHHHHHHHHhcCccCcEEEcCccceehhhhhhhhhcCCCceEeccccccCC--CchhhhhhcCchHHHHHHHHHH
Confidence 3477899999999865 456789999999999999999999999999987744333 2335899999999999999999
Q ss_pred HH------HHcCCeEEEEEEeeCCc---ccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEE
Q 037761 89 VL------QNFSWHEVVLMYEDTNY---GAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVH 159 (753)
Q Consensus 89 ~l------~~~~w~~vail~~d~~~---g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~ 159 (753)
+. ++++|+... ||.+++- +-=...++....+..+..+...+... +..++..+++++++ +.|||++|
T Consensus 141 f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~~i~al~a~~~~f~~~~~~~~~l~---~~~~~~~il~~~~~-~sRIiImC 215 (380)
T cd06369 141 FWKEKNFPKKPKWETAY-VYKKQENTEDCFWYINALEAGVAYFSSALKFKELLR---TEEELQKLLTDKNR-KSNVIIMC 215 (380)
T ss_pred HHhcccccCCCCCceeE-EEcCCCCccceeeEhHhhhhhhhhhhhcccceeeec---CchhHHHHHHHhcc-CccEEEEe
Confidence 99 589998666 8865532 11234455555555444444333332 24688888888764 57999999
Q ss_pred eChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCCChhhhHHHHHHHHhhCCCCCCC
Q 037761 160 MNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPKSKELGLFDRRWKSKLHSMKPNS 239 (753)
Q Consensus 160 ~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~ 239 (753)
|.+.+.+.++.+ ++...++++|..+....... .+....++.+.++.++...++.+.++++ ..++.
T Consensus 216 G~p~~ir~lm~~----~~~~gDYVf~~IDlF~~sy~-~d~~a~~amqsVLvIT~~~p~~~~~~~~-----~~fn~----- 280 (380)
T cd06369 216 GTPEDIVNLKGD----RAVAEDIVIILIDLFNDVYY-ENTTSPPYMRNVLVLTLPPRNSTNNSSF-----TTDNS----- 280 (380)
T ss_pred CCHHHHHHHHhc----CccCCCEEEEEEecccchhc-cCcchHHHHhceEEEecCCCCCcccccC-----CCCCc-----
Confidence 999999999886 44457999999987764432 1223456788888888766655544331 11111
Q ss_pred Ccccc-chhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-e
Q 037761 240 SVTEI-NISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL-V 317 (753)
Q Consensus 240 ~~~~~-~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f-~ 317 (753)
.. +.+++..||||.++|+||++.+..... .++.++.+.|++.+|.|++|.|.+ +
T Consensus 281 ---~l~~~~aa~fyDaVLLYa~AL~EtL~~G~~---------------------~~~~~I~~~m~NrTF~GitG~V~IDe 336 (380)
T cd06369 281 ---LLKDDYVAAYHDGVLLFGHVLKKFLESQEG---------------------VQTFSFINEFRNISFEGAGGPYTLDE 336 (380)
T ss_pred ---chHHHHHHHHHHHHHHHHHHHHHHHHhCCC---------------------CCcHHHHHHHhCcceecCCCceEeCC
Confidence 22 288999999999999999999653211 122779999999999999999999 9
Q ss_pred CCccceeEEEEEEEec-cc--eEEEEeecCC
Q 037761 318 NGQLESSVFEIVNVIG-TG--RVVGYWTSEK 345 (753)
Q Consensus 318 ~g~~~~~~y~i~~~~~-~~--~~vg~~~~~~ 345 (753)
|||| ...|.++-+.. ++ +.||.|+...
T Consensus 337 NGDR-d~dfsLl~ms~~tg~y~vV~~y~t~~ 366 (380)
T cd06369 337 YGDR-DVNFTLLYTSTDTSKYKVLFEFDTST 366 (380)
T ss_pred CCCc-cCceEEEEeeCCCCCeEEEEEEECCC
Confidence 9999 78999988863 23 9999998854
No 94
>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=99.83 E-value=9.7e-19 Score=182.05 Aligned_cols=236 Identities=23% Similarity=0.283 Sum_probs=197.0
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
+++++..++..+++++++ +|.+||||.++..+.++.+++...+||+|++.+.++.+.+..+|++|++.|++..++.+++
T Consensus 48 ~~~~~~~~~~~~~~l~~~-~v~~iig~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 126 (298)
T cd06268 48 TQGDPEAAAAAARELVDD-GVDAVIGPLSSGVALAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALA 126 (298)
T ss_pred CCCCHHHHHHHHHHHHhC-CceEEEcCCcchhHHhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHH
Confidence 678899999999999987 9999999999988889999999999999999887766654467899999999999999999
Q ss_pred HHHHHcC-CeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHH
Q 037761 88 AVLQNFS-WHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALAS 166 (753)
Q Consensus 88 ~~l~~~~-w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~ 166 (753)
+++...+ |+++++++.+++++....+.+.+.+++.|++++....++.+ ..++...+.++++.++++|++.+.+..+.
T Consensus 127 ~~~~~~~~~~~i~~v~~~~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~~--~~~~~~~~~~l~~~~~~~vi~~~~~~~~~ 204 (298)
T cd06268 127 DYLAEKGKVKKVAIIYDDYAYGRGLAAAFREALKKLGGEVVAEETYPPG--ATDFSPLIAKLKAAGPDAVFLAGYGGDAA 204 (298)
T ss_pred HHHHHhcCCCEEEEEEcCCchhHHHHHHHHHHHHHcCCEEEEEeccCCC--CccHHHHHHHHHhcCCCEEEEccccchHH
Confidence 9998777 99999999999999999999999999999999877766543 46889999999988999999998888899
Q ss_pred HHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCCC--ChhhhHHH-HHHHHhhCCCCCCCCccc
Q 037761 167 RLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLPK--SKELGLFD-RRWKSKLHSMKPNSSVTE 243 (753)
Q Consensus 167 ~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~--~~~~~~F~-~~~~~~~~~~~~~~~~~~ 243 (753)
.+++++++.|+ +..|++.+.+...... ....+..+|++....+.+. .+....|. +.|+++++. .
T Consensus 205 ~~~~~~~~~g~---~~~~~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~ 271 (298)
T cd06268 205 LFLKQAREAGL---KVPIVGGDGAAAPALL--ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKYGR--------P 271 (298)
T ss_pred HHHHHHHHcCC---CCcEEecCccCCHHHH--HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHhCC--------C
Confidence 99999999996 4567777665532111 2234567888887665543 24445565 788888876 7
Q ss_pred cchhHHHHHHHHHHHH
Q 037761 244 INISGLWAYDTIFALA 259 (753)
Q Consensus 244 ~~~~~~~~ydAv~~~a 259 (753)
++.++..+||++++++
T Consensus 272 ~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 272 PDSYAAAAYDAVRLLA 287 (298)
T ss_pred cccchHHHHHHHHHHc
Confidence 8899999999999998
No 95
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.81 E-value=5.4e-19 Score=194.05 Aligned_cols=220 Identities=17% Similarity=0.222 Sum_probs=176.5
Q ss_pred cceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHc
Q 037761 378 PSLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKL 457 (753)
Q Consensus 378 ~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 457 (753)
++|+|++.. +|+. |. ..++...|+++||++++++ ++|.+++++..+ +|++++.+|++
T Consensus 43 g~LrVg~~~-~P~~-~~-------~~~~~~~G~~~DLl~~ia~----~LGv~~e~v~~~----------~~~~ll~aL~~ 99 (482)
T PRK10859 43 GELRVGTIN-SPLT-YY-------IGNDGPTGFEYELAKRFAD----YLGVKLEIKVRD----------NISQLFDALDK 99 (482)
T ss_pred CEEEEEEec-CCCe-eE-------ecCCCcccHHHHHHHHHHH----HhCCcEEEEecC----------CHHHHHHHHhC
Confidence 389999974 3322 22 2233359999999999999 999766554332 79999999999
Q ss_pred CcccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHh
Q 037761 458 KKFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFIL 537 (753)
Q Consensus 458 ~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl 537 (753)
|++|++++++++|++|.+.++||.||+....++++++...
T Consensus 100 G~iDi~~~~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~~---------------------------------------- 139 (482)
T PRK10859 100 GKADLAAAGLTYTPERLKQFRFGPPYYSVSQQLVYRKGQP---------------------------------------- 139 (482)
T ss_pred CCCCEEeccCcCChhhhccCcccCCceeeeEEEEEeCCCC----------------------------------------
Confidence 9999988899999999999999999999999999997753
Q ss_pred hhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhh-CCCCCce--ecCCCHHHHHHHHhcCCCCC
Q 037761 538 MQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQL-NFSRNQT--RPLSNFGEYKEALSNGSRKG 614 (753)
Q Consensus 538 ~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~--~~~~~~~~~~~~l~~g~~~~ 614 (753)
.+++++|| +|+++++..++..+..+.+.. ..+..++ ..+.+.++++++|.+|+
T Consensus 140 -------------------~i~~l~dL--~Gk~I~V~~gS~~~~~L~~l~~~~p~i~~~~~~~~s~~e~l~aL~~G~--- 195 (482)
T PRK10859 140 -------------------RPRSLGDL--KGGTLTVAAGSSHVETLQELKKKYPELSWEESDDKDSEELLEQVAEGK--- 195 (482)
T ss_pred -------------------CCCCHHHh--CCCeEEEECCCcHHHHHHHHHHhCCCceEEecCCCCHHHHHHHHHCCC---
Confidence 38999999 599999999999888876311 2344433 34568899999999999
Q ss_pred CeeEEEeccccHHHHHhcCCCCcEEeCcccccCceEEEEcC-CCC-CchHhHHHHHHhhhcchHHHHHHHhhcCC
Q 037761 615 GVSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTDGLGFAFAK-DSP-LVSHFSQAILLVRENQTRMDRIEKKYFGE 687 (753)
Q Consensus 615 ~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k-~s~-l~~~~n~~i~~l~~~G~~~~~~~~~~~~~ 687 (753)
+|+++.+...+........ ++.+........+++++++| +++ |++.+|+.|.+++++| .++++.+||+..
T Consensus 196 -iDa~v~d~~~~~~~~~~~p-~l~v~~~l~~~~~~~~av~k~~~~~L~~~ln~~L~~i~~~G-~l~~L~~kyfg~ 267 (482)
T PRK10859 196 -IDYTIADSVEISLNQRYHP-ELAVAFDLTDEQPVAWALPPSGDDSLYAALLDFFNQIKEDG-TLARLEEKYFGH 267 (482)
T ss_pred -CCEEEECcHHHHHHHHhCC-CceeeeecCCCceeEEEEeCCCCHHHHHHHHHHHHHhhcCC-HHHHHHHHHhhh
Confidence 9999999887765443333 56665555456688999999 466 9999999999999999 999999999986
No 96
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.81 E-value=7.6e-19 Score=217.24 Aligned_cols=216 Identities=14% Similarity=0.145 Sum_probs=182.9
Q ss_pred ceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcC
Q 037761 379 SLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLK 458 (753)
Q Consensus 379 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 458 (753)
+++|++. +.|+||.+. +.+|++.||++|+++.|++ ++|. ++++++. ..|..++.+|++|
T Consensus 303 ~l~v~~~--~~~pP~~~~-----d~~g~~~G~~~Dll~~i~~----~~g~--~~~~v~~--------~~~~~~~~~l~~g 361 (1197)
T PRK09959 303 DLKVLEN--PYSPPYSMT-----DENGSVRGVMGDILNIITL----QTGL--NFSPITV--------SHNIHAGTQLNPG 361 (1197)
T ss_pred ceEEEcC--CCCCCeeEE-----CCCCcEeeehHHHHHHHHH----HHCC--eEEEEec--------CCHHHHHHHHHCC
Confidence 8899886 788999998 6789999999999999999 9994 6666665 3688889999999
Q ss_pred cccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhh
Q 037761 459 KFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILM 538 (753)
Q Consensus 459 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~ 538 (753)
++|++. ++..|++|.+.++||.||+.+.+++++++... .
T Consensus 362 ~~D~i~-~~~~t~~r~~~~~fs~py~~~~~~~v~~~~~~-~--------------------------------------- 400 (1197)
T PRK09959 362 GWDIIP-GAIYSEDRENNVLFAEAFITTPYVFVMQKAPD-S--------------------------------------- 400 (1197)
T ss_pred CceEee-cccCCccccccceeccccccCCEEEEEecCCC-C---------------------------------------
Confidence 999875 56689999999999999999999999986532 1
Q ss_pred hceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeE
Q 037761 539 QSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSA 618 (753)
Q Consensus 539 ~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a 618 (753)
+. ++. +|+++|+..++...+++.+ .+|+.+++.+++..+++.+|.+|+ +|+
T Consensus 401 -------------------~~---~~~-~g~~vav~~g~~~~~~~~~--~~p~~~~~~~~~~~~~l~av~~G~----~Da 451 (1197)
T PRK09959 401 -------------------EQ---TLK-KGMKVAIPYYYELHSQLKE--MYPEVEWIKVDNASAAFHKVKEGE----LDA 451 (1197)
T ss_pred -------------------cc---ccc-cCCEEEEeCCcchHHHHHH--HCCCcEEEEcCCHHHHHHHHHcCC----CCE
Confidence 22 332 5899999999998888886 667889999999999999999999 999
Q ss_pred EEeccccHHHHHhcC-CCCc-EEeCcccccCceEEEEcCCCC-CchHhHHHHHHhhhcchHHHHHHHhhcCC
Q 037761 619 IFEEIPYIKVFLKKY-SSKY-TTAGPIYRTDGLGFAFAKDSP-LVSHFSQAILLVRENQTRMDRIEKKYFGE 687 (753)
Q Consensus 619 ~~~~~~~~~~~~~~~-~~~l-~~~~~~~~~~~~~~~~~k~s~-l~~~~n~~i~~l~~~G~~~~~~~~~~~~~ 687 (753)
++.+...+.|++++. ..++ ....+......++++++|++| |++.+|++|..|.++. ++++.+||+..
T Consensus 452 ~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~av~k~~~~L~~~lnk~l~~i~~~~--~~~i~~kW~~~ 521 (1197)
T PRK09959 452 LVATQLNSRYMIDHYYPNELYHFLIPGVPNASLSFAFPRGEPELKDIINKALNAIPPSE--VLRLTEKWIKM 521 (1197)
T ss_pred EehhhHHHHHHHHhcccccceeeecCCCCchheEEeeCCCCHHHHHHHHHHHHhCCHHH--HHHHHhhcccC
Confidence 999999999999875 3233 333444555678999999999 9999999999999987 88899999975
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=99.80 E-value=1.4e-18 Score=174.61 Aligned_cols=209 Identities=17% Similarity=0.158 Sum_probs=160.1
Q ss_pred ceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHH---HHH
Q 037761 379 SLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELL---YQI 455 (753)
Q Consensus 379 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~---~~l 455 (753)
+|+||+. +.|+||.+. + + .|+++||+++|++ ++|+ +++++++ +|++++ ..|
T Consensus 1 ~l~vg~~--~~~pPf~~~-----~--~--~Gfdvdl~~~ia~----~lg~--~~~~~~~---------~~~~~~~~~~~L 54 (246)
T TIGR03870 1 TLRVCAA--TKEAPYSTK-----D--G--SGFENKIAAALAA----AMGR--KVVFVWL---------AKPAIYLVRDGL 54 (246)
T ss_pred CeEEEeC--CCCCCCccC-----C--C--CcchHHHHHHHHH----HhCC--CeEEEEe---------ccchhhHHHHHH
Confidence 4788987 788899885 2 2 6999999999999 9985 5666665 778766 699
Q ss_pred HcCcccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHH
Q 037761 456 KLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAF 535 (753)
Q Consensus 456 ~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~l 535 (753)
++|++|+++ +++++++| +.||.||+.++.++++++.+...
T Consensus 55 ~~g~~Dii~-~~~~t~~r---~~fS~PY~~~~~~~v~~k~~~~~------------------------------------ 94 (246)
T TIGR03870 55 DKKLCDVVL-GLDTGDPR---VLTTKPYYRSSYVFLTRKDRNLD------------------------------------ 94 (246)
T ss_pred hcCCccEEE-eCCCChHH---HhcccCcEEeeeEEEEeCCCCCC------------------------------------
Confidence 999999997 68888777 67999999999999999886533
Q ss_pred HhhhceeeeeeeeEEeeccCCCcCChhH--hhhcCC-eEEEecCchHHHHHHHhhCC-----CCCceecCC---------
Q 037761 536 ILMQSYTASLSSILTVDQLEPTFADLKK--LRTESH-FVGFQSGSFVEDFLVKQLNF-----SRNQTRPLS--------- 598 (753)
Q Consensus 536 vl~~~Y~a~L~s~lt~~~~~~~i~s~~d--L~~~~~-~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~--------- 598 (753)
+++++| | .|+ ++|+..|+..+.++++.... ...++..++
T Consensus 95 ----------------------~~~~~d~~L--~g~~~vgv~~gs~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 150 (246)
T TIGR03870 95 ----------------------IKSWNDPRL--KKVSKIGVIFGSPAETMLKQIGRYEDNFAYLYSLVNFKSPRNQYTQI 150 (246)
T ss_pred ----------------------CCCccchhh--ccCceEEEecCChHHHHHHhcCccccccccccccccccCcccccccC
Confidence 788865 6 698 99999999999988841110 001112221
Q ss_pred CHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEE--eCccc---------ccCceEEEEcCCCC-CchHhHHH
Q 037761 599 NFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTT--AGPIY---------RTDGLGFAFAKDSP-LVSHFSQA 666 (753)
Q Consensus 599 ~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~--~~~~~---------~~~~~~~~~~k~s~-l~~~~n~~ 666 (753)
+..+++.+|.+|+ +|+++.+...+.+++++....+.+ +.+.. ...+++++++|+++ |++.||++
T Consensus 151 ~~~~~~~aL~~Gr----vDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iav~k~~~~L~~~in~a 226 (246)
T TIGR03870 151 DPRKLVSEVATGK----ADLAVAFAPEVARYVKASPEPLRMTVIPDDATRSDGAKIPMQYDQSMGVRKDDTALLAEIDAA 226 (246)
T ss_pred CHHHHHHHHHcCC----CCEEEeeHHhHHHHHHhCCCCceEEeccccccccCCCCcceeeEEEEEEccCCHHHHHHHHHH
Confidence 3578999999999 999999888877777654223432 23221 11136899999999 99999999
Q ss_pred HHHhhhcchHHHHHHHhh
Q 037761 667 ILLVRENQTRMDRIEKKY 684 (753)
Q Consensus 667 i~~l~~~G~~~~~~~~~~ 684 (753)
|.+|+ | .+++|.++|
T Consensus 227 L~~l~--~-~~~~i~~~y 241 (246)
T TIGR03870 227 LAKAK--P-RIDAILKEE 241 (246)
T ss_pred HHHhH--H-HHHHHHHHc
Confidence 99999 6 799999998
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=99.77 E-value=6e-18 Score=172.64 Aligned_cols=222 Identities=12% Similarity=0.133 Sum_probs=166.1
Q ss_pred ceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhc-CCccceEEEecCCCCCCCCCChHHHHHHHHc
Q 037761 379 SLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKL-GMKIHPQLVPYEDENGEMAGTYDELLYQIKL 457 (753)
Q Consensus 379 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 457 (753)
++++++ ..|+||.+. ++++...|+..++++++++ ++ | +++++... +|.+++.+| .
T Consensus 19 ~l~~~~---~~~pPf~~~-----~~~~~~~G~~~~i~~~i~~----~~~~--~~~~~~~~---------pw~r~l~~l-~ 74 (268)
T TIGR02285 19 AITWIV---NDFPPFFIF-----SGPSKGRGVFDVILQEIRR----ALPQ--YEHRFVRV---------SFARSLKEL-Q 74 (268)
T ss_pred eeEEEe---cccCCeeEe-----CCCCCCCChHHHHHHHHHH----HcCC--CceeEEEC---------CHHHHHHHH-h
Confidence 788877 567788876 4567889999999999999 88 6 45666665 799999999 7
Q ss_pred CcccEEEeeeeeecccceeeeccccccc-cceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHH
Q 037761 458 KKFDAVVGDISIVASRTDYVEFTLPYSE-SGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFI 536 (753)
Q Consensus 458 ~~~Di~~~~~~~t~~r~~~~~fs~p~~~-~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lv 536 (753)
|+.|.++.++++|++|.+.++||.||+. ...++++++.+...
T Consensus 75 ~~~d~~~~~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~------------------------------------- 117 (268)
T TIGR02285 75 GKGGVCTVNLLRTPEREKFLIFSDPTLRALPVGLVLRKELTAG------------------------------------- 117 (268)
T ss_pred cCCCeEEeeccCCcchhhceeecCCccccCCceEEEccchhhh-------------------------------------
Confidence 7777777789999999999999999985 57899998765322
Q ss_pred hhhceeeeeeeeEEeeccCCCcCChhH-------hh-hcCCeEEEecCchH----HHHHHHhhCC-CCCceecCCCHHHH
Q 037761 537 LMQSYTASLSSILTVDQLEPTFADLKK-------LR-TESHFVGFQSGSFV----EDFLVKQLNF-SRNQTRPLSNFGEY 603 (753)
Q Consensus 537 l~~~Y~a~L~s~lt~~~~~~~i~s~~d-------L~-~~~~~~~~~~~~~~----~~~~~~~~~~-~~~~~~~~~~~~~~ 603 (753)
+++++| |. .+|+++|+..++.. +.++++ ... ...++..+.+..++
T Consensus 118 ---------------------~~~~~d~~~~~~~l~~l~g~~vgv~~g~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 175 (268)
T TIGR02285 118 ---------------------VRDEQDGDVDLKKLLASKKKRLGVIASRSYGQQIDDILSD-SGYQHNTRIIGNAAMGNL 175 (268)
T ss_pred ---------------------ccccCCCCccHHHHhcCCCeEEEEecceeccHHHHHHHHh-CCcccceeeeccchHHHH
Confidence 333222 21 14789999887655 344442 111 11244556778889
Q ss_pred HHHHhcCCCCCCeeEEEeccccHHHHHhcC---CCCcEEeCccc--ccCceEEEEcCCC--C-CchHhHHHHHHhhhcch
Q 037761 604 KEALSNGSRKGGVSAIFEEIPYIKVFLKKY---SSKYTTAGPIY--RTDGLGFAFAKDS--P-LVSHFSQAILLVRENQT 675 (753)
Q Consensus 604 ~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~---~~~l~~~~~~~--~~~~~~~~~~k~s--~-l~~~~n~~i~~l~~~G~ 675 (753)
+++|..|| +|+++.+...+.+++++. ...+....... ...+++++++|++ . |++.||++|.+|.++|
T Consensus 176 ~~~L~~Gr----vD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~l~~~in~~L~~l~~dG- 250 (268)
T TIGR02285 176 FKMLEKGR----VNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPAHISVWVACPKTEWGRKVIADIDQALSELNVDP- 250 (268)
T ss_pred HHHHHcCC----ccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCccceEEEEEeCCCHHHHHHHHHHHHHHHHHhhCH-
Confidence 99999999 999999999999988753 22454443221 2235788999874 3 9999999999999999
Q ss_pred HHHHHHHhhcCCC
Q 037761 676 RMDRIEKKYFGEN 688 (753)
Q Consensus 676 ~~~~~~~~~~~~~ 688 (753)
.++++.+||++..
T Consensus 251 ~~~~i~~k~~~~~ 263 (268)
T TIGR02285 251 KYYKYFDRWLSPE 263 (268)
T ss_pred HHHHHHHHhCCHh
Confidence 9999999999763
No 99
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.77 E-value=2.1e-17 Score=169.93 Aligned_cols=223 Identities=26% Similarity=0.356 Sum_probs=183.1
Q ss_pred ceEEeeccCCCCcceEEEEEcCCCCc-ceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHc
Q 037761 379 SLVVGTPVRLGFPQFLSVREDGDLNK-TTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKL 457 (753)
Q Consensus 379 ~l~v~~~~~~~~~~~~~~~~~~~~~~-~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 457 (753)
.++|++... .++||.+. ... +++.|+++|+++++++ +++....+.++.. .|++++..|..
T Consensus 35 ~~~v~~~~~-~~~p~~~~-----~~~~~~~~G~dvdl~~~ia~----~l~~~~~~~~~~~---------~~~~~~~~l~~ 95 (275)
T COG0834 35 KLRVGTEAT-YAPPFEFL-----DAKGGKLVGFDVDLAKAIAK----RLGGDKKVEFVPV---------AWDGLIPALKA 95 (275)
T ss_pred eEEEEecCC-CCCCcccc-----cCCCCeEEeeeHHHHHHHHH----HhCCcceeEEecc---------chhhhhHHHhc
Confidence 688888632 23477775 445 6999999999999999 9875434566665 89999999999
Q ss_pred CcccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHh
Q 037761 458 KKFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFIL 537 (753)
Q Consensus 458 ~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl 537 (753)
|++|++++++++|.+|.+.++||.||+..+..+++++.....
T Consensus 96 g~~D~~~~~~~~t~er~~~~~fs~py~~~~~~~~~~~~~~~~-------------------------------------- 137 (275)
T COG0834 96 GKVDIIIAGMTITPERKKKVDFSDPYYYSGQVLLVKKDSDIG-------------------------------------- 137 (275)
T ss_pred CCcCEEEeccccCHHHhccccccccccccCeEEEEECCCCcC--------------------------------------
Confidence 999999999999999999999999999999999999886643
Q ss_pred hhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCch--HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCC
Q 037761 538 MQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSF--VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGG 615 (753)
Q Consensus 538 ~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~ 615 (753)
+.+++|| .|+++|+..|+. ...+... ..+...+..+++..+.+.+|..|+
T Consensus 138 --------------------~~~~~DL--~gk~v~v~~gt~~~~~~~~~~--~~~~~~~~~~~~~~~~~~al~~Gr---- 189 (275)
T COG0834 138 --------------------IKSLEDL--KGKKVGVQLGTTDEAEEKAKK--PGPNAKIVAYDSNAEALLALKNGR---- 189 (275)
T ss_pred --------------------cCCHHHh--CCCEEEEEcCcchhHHHHHhh--ccCCceEEeeCCHHHHHHHHHcCC----
Confidence 7899999 599999999999 5555553 445578899999999999999999
Q ss_pred eeEEEeccccHHHH--HhcCCCCcEEeCccccc-CceEEEEcCC--CCCchHhHHHHHHhhhcchHHHHHHHhhcCC
Q 037761 616 VSAIFEEIPYIKVF--LKKYSSKYTTAGPIYRT-DGLGFAFAKD--SPLVSHFSQAILLVRENQTRMDRIEKKYFGE 687 (753)
Q Consensus 616 ~~a~~~~~~~~~~~--~~~~~~~l~~~~~~~~~-~~~~~~~~k~--s~l~~~~n~~i~~l~~~G~~~~~~~~~~~~~ 687 (753)
+|+++.+...+.++ ..+.............. .+++++++|+ ..+++.+|..|.++.++| .++++.++|+..
T Consensus 190 ~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~in~~l~~l~~~G-~~~~i~~kw~~~ 265 (275)
T COG0834 190 ADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLSVEYLGIALRKGDDPELLEAVNKALKELKADG-TLQKISDKWFGP 265 (275)
T ss_pred ccEEEcchHhhhhhhhhhcCCCCceeeeccCCCcceeEEEeccCCcHHHHHHHHHHHHHHHhCc-cHHHHHHHhcCc
Confidence 99999999999984 33332122233333333 6899999998 359999999999999999 999999999986
No 100
>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=99.76 E-value=2e-17 Score=165.37 Aligned_cols=211 Identities=17% Similarity=0.160 Sum_probs=162.7
Q ss_pred eEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCc
Q 037761 380 LVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKK 459 (753)
Q Consensus 380 l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 459 (753)
|||++. +.|+||.+. +..|+++||++++++ ++|.++++++.++ .+..++..|++|+
T Consensus 2 l~v~~~--~~~~P~~~~---------~~~G~~~el~~~i~~----~~g~~i~~~~~~~---------~~~~~~~~l~~g~ 57 (232)
T TIGR03871 2 LRVCAD--PNNLPFSNE---------KGEGFENKIAQLLAD----DLGLPLEYTWFPQ---------RRGFVRNTLNAGR 57 (232)
T ss_pred eEEEeC--CCCCCccCC---------CCCchHHHHHHHHHH----HcCCceEEEecCc---------chhhHHHHHhcCC
Confidence 688886 778888652 236999999999999 9998777766654 4555678999999
Q ss_pred ccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhh
Q 037761 460 FDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQ 539 (753)
Q Consensus 460 ~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~ 539 (753)
+|++++ +++|.+.+.||.||+..+.++++++.+..
T Consensus 58 ~Di~~~----~~~r~~~~~fs~py~~~~~~lv~~~~~~~----------------------------------------- 92 (232)
T TIGR03871 58 CDVVIG----VPAGYEMVLTTRPYYRSTYVFVTRKDSLL----------------------------------------- 92 (232)
T ss_pred ccEEEe----ccCccccccccCCcEeeeEEEEEeCCCcc-----------------------------------------
Confidence 999864 46788889999999999999999988543
Q ss_pred ceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceec---------CCCHHHHHHHHhcC
Q 037761 540 SYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRP---------LSNFGEYKEALSNG 610 (753)
Q Consensus 540 ~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~l~~g 610 (753)
.+++++|+.-.|+++|+..|+..+.++.+ .+. ..++.. ..+..+++.+|.+|
T Consensus 93 -----------------~~~~~~d~~l~g~~V~v~~g~~~~~~l~~-~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~G 153 (232)
T TIGR03871 93 -----------------DVKSLDDPRLKKLRIGVFAGTPPAHWLAR-HGL-VENVVGYSLFGDYRPESPPGRMVEDLAAG 153 (232)
T ss_pred -----------------cccchhhhhhcCCeEEEEcCChHHHHHHh-cCc-ccccccccccccccccCCHHHHHHHHHcC
Confidence 38899882226899999999999898874 221 122221 23678999999999
Q ss_pred CCCCCeeEEEeccccHHHHHhcCCCCcEEeCcc------cccCceEEEEcCCCC-CchHhHHHHHHhhhcchHHHHHHHh
Q 037761 611 SRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPI------YRTDGLGFAFAKDSP-LVSHFSQAILLVRENQTRMDRIEKK 683 (753)
Q Consensus 611 ~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~------~~~~~~~~~~~k~s~-l~~~~n~~i~~l~~~G~~~~~~~~~ 683 (753)
+ +|+++.+...+.++.++...++.+.... ....+++++++++++ |++.||++|.+++ | .+++|.+|
T Consensus 154 ~----~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~l~~~~--~-~~~~i~~k 226 (232)
T TIGR03871 154 E----IDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFDYRIAMGVRKGDKAWKDELNAVLDRRQ--A-EIDAILRE 226 (232)
T ss_pred C----cCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCccceEEEEEecCCHHHHHHHHHHHHHHH--H-HHHHHHHH
Confidence 9 9999999988888887652245444322 123457888999887 9999999999985 5 68999999
Q ss_pred hc
Q 037761 684 YF 685 (753)
Q Consensus 684 ~~ 685 (753)
|-
T Consensus 227 yg 228 (232)
T TIGR03871 227 YG 228 (232)
T ss_pred cC
Confidence 84
No 101
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.76 E-value=9.5e-18 Score=207.54 Aligned_cols=219 Identities=11% Similarity=0.125 Sum_probs=185.3
Q ss_pred ceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcC
Q 037761 379 SLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLK 458 (753)
Q Consensus 379 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 458 (753)
+++||+. ++++|+.+.. +.+|++.||++|+++.|++ ++| +++++++. .+|++++.+|++|
T Consensus 57 ~l~vgv~--~~~~p~~~~~----~~~g~~~G~~~D~l~~ia~----~lG--~~~e~v~~--------~~~~~~l~~l~~g 116 (1197)
T PRK09959 57 NLVIAVH--KSQTATLLHT----DSQQRVRGINADYLNLLKR----ALN--IKLTLREY--------ADHQKAMDALEEG 116 (1197)
T ss_pred eEEEEec--CCCCCCceee----cCCCccceecHHHHHHHHH----hcC--CceEEEeC--------CCHHHHHHHHHcC
Confidence 7999997 4443332221 4689999999999999999 999 56667664 3899999999999
Q ss_pred cccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhh
Q 037761 459 KFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILM 538 (753)
Q Consensus 459 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~ 538 (753)
++|+++++++.+++|.+.+.||.||+.+..+++++++..
T Consensus 117 ~iDl~~~~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~~----------------------------------------- 155 (1197)
T PRK09959 117 EVDIVLSHLVASPPLNDDIAATKPLIITFPALVTTLHDS----------------------------------------- 155 (1197)
T ss_pred CCcEecCccccccccccchhcCCCccCCCceEEEeCCCC-----------------------------------------
Confidence 999998888999999999999999999999999998643
Q ss_pred hceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeE
Q 037761 539 QSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSA 618 (753)
Q Consensus 539 ~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a 618 (753)
+++++|+ .+++++++.|+..+.++++ .+|+.+++.+++..+++.+|.+|+ +|+
T Consensus 156 -------------------~~~~~~l--~~~~i~~~~g~~~~~~~~~--~~p~~~i~~~~s~~~al~av~~G~----~Da 208 (1197)
T PRK09959 156 -------------------MRPLTSS--KPVNIARVANYPPDEVIHQ--SFPKATIISFTNLYQALASVSAGQ----NDY 208 (1197)
T ss_pred -------------------CCCcccc--cCeEEEEeCCCCCHHHHHH--hCCCCEEEeCCCHHHHHHHHHcCC----CCE
Confidence 7788888 5899999999999999987 778899999999999999999999 999
Q ss_pred EEeccccHHHHHhcC-CCCcEEeCcc-cccCceEEEEcCCCC-CchHhHHHHHHhhhcchHHHHHHHhhcCC
Q 037761 619 IFEEIPYIKVFLKKY-SSKYTTAGPI-YRTDGLGFAFAKDSP-LVSHFSQAILLVRENQTRMDRIEKKYFGE 687 (753)
Q Consensus 619 ~~~~~~~~~~~~~~~-~~~l~~~~~~-~~~~~~~~~~~k~s~-l~~~~n~~i~~l~~~G~~~~~~~~~~~~~ 687 (753)
++.+...+.++++++ ..++.+.... .......++++|+++ |.+.+|++|..+.++| .. ++.+||+..
T Consensus 209 ~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~L~~~lnkal~~i~~~~-~~-~i~~kW~~~ 278 (1197)
T PRK09959 209 FIGSNIITSSMISRYFTHSLNVVKYYNSPRQYNFFLTRKESVILNEVLNRFVDALTNEV-RY-EVSQNWLDT 278 (1197)
T ss_pred EEccHHHHHHHHhcccccceEEEeeccCCCCceeEEEcCCcHHHHHHHHHHHHhCCHHH-HH-HHHHhccCC
Confidence 999999999999876 3366665432 223346678899999 9999999999999999 55 999999975
No 102
>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions. PBPs have two cell-membrane translocation functions: bind substrate, and interact with the membrane bound complex. A diverse group of periplasmic transport receptors for lysine/arginine/ornithine (LAO), glutamine, histidine, sulfate, phosphate, molybdate, and methanol are included in the PBPb CD.
Probab=99.75 E-value=1.4e-16 Score=157.00 Aligned_cols=215 Identities=28% Similarity=0.444 Sum_probs=180.2
Q ss_pred eEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCc
Q 037761 380 LVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKK 459 (753)
Q Consensus 380 l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 459 (753)
|+|++. +.++||.+. +++|.+.|+..++++.+++ ++| +++++.+. .|.+++.+|.+|+
T Consensus 1 l~i~~~--~~~~p~~~~-----~~~g~~~G~~~~~~~~~~~----~~g--~~~~~~~~---------~~~~~~~~l~~g~ 58 (218)
T cd00134 1 LTVGTA--GTYPPFSFR-----DANGELTGFDVDLAKAIAK----ELG--VKVKFVEV---------DWDGLITALKSGK 58 (218)
T ss_pred CEEecC--CCCCCeeEE-----CCCCCEEeeeHHHHHHHHH----HhC--CeEEEEeC---------CHHHHHHHHhcCC
Confidence 467776 667788876 6889999999999999999 998 56667765 6899999999999
Q ss_pred ccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhh
Q 037761 460 FDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQ 539 (753)
Q Consensus 460 ~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~ 539 (753)
+|+++.....+.+|...+.|+.|+.....++++++...
T Consensus 59 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------------------------------ 96 (218)
T cd00134 59 VDLIAAGMTITPERAKQVDFSDPYYKSGQVILVKKGSP------------------------------------------ 96 (218)
T ss_pred cCEEeecCcCCHHHHhhccCcccceeccEEEEEECCCC------------------------------------------
Confidence 99998776678888888999999999999999998754
Q ss_pred ceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEE
Q 037761 540 SYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAI 619 (753)
Q Consensus 540 ~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~ 619 (753)
+.+++|| +|+++++..++....++.+ ......+..+.+.++++.+|.+|+ +|++
T Consensus 97 ------------------~~~~~dl--~g~~i~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~l~~g~----~d~~ 150 (218)
T cd00134 97 ------------------IKSVKDL--KGKKVAVQKGSTAEKYLKK--ALPEAKVVSYDDNAEALAALENGR----ADAV 150 (218)
T ss_pred ------------------CCChHHh--CCCEEEEEcCchHHHHHHH--hCCcccEEEeCCHHHHHHHHHcCC----ccEE
Confidence 6799999 6999999988888888875 333456778889999999999999 9999
Q ss_pred EeccccHHHHHhcCCCCcEEeCcc--cccCceEEEEcCCCC-CchHhHHHHHHhhhcchHHHHHHHhhc
Q 037761 620 FEEIPYIKVFLKKYSSKYTTAGPI--YRTDGLGFAFAKDSP-LVSHFSQAILLVRENQTRMDRIEKKYF 685 (753)
Q Consensus 620 ~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~~~k~s~-l~~~~n~~i~~l~~~G~~~~~~~~~~~ 685 (753)
+.+.....+..++....+.++... .....+++..+++++ +.+.|++.|..|+++| .++.+.++|+
T Consensus 151 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g-~~~~i~~~~~ 218 (218)
T cd00134 151 IVDEIALAALLKKHPPELKIVGPSIDLEPLGFGVAVGKDNKELLDAVNKALKELRADG-ELKKISKKWF 218 (218)
T ss_pred EeccHHHHHHHHhcCCCcEEeccccCCCccceEEEEcCCCHHHHHHHHHHHHHHHhCc-cHHHHHHhhC
Confidence 999999988877652367776653 344456666677775 9999999999999999 9999999985
No 103
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.74 E-value=1.6e-16 Score=156.56 Aligned_cols=216 Identities=26% Similarity=0.436 Sum_probs=183.4
Q ss_pred ceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcC
Q 037761 379 SLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLK 458 (753)
Q Consensus 379 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 458 (753)
+|+||+. +.++||... +.+|.+.|+.+|+++.+.+ ++|+ ++++.+. +|..++.++.+|
T Consensus 1 ~l~v~~~--~~~~p~~~~-----~~~g~~~G~~~~~~~~~~~----~~g~--~~~~~~~---------~~~~~~~~l~~g 58 (219)
T smart00062 1 TLRVGTN--GDYPPFSFA-----DEDGELTGFDVDLAKAIAK----ELGL--KVEFVEV---------SFDNLLTALKSG 58 (219)
T ss_pred CEEEEec--CCCCCcEEE-----CCCCCcccchHHHHHHHHH----HhCC--eEEEEec---------cHHHHHHHHHCC
Confidence 4788886 677788776 6788899999999999999 9985 5555654 689999999999
Q ss_pred cccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhh
Q 037761 459 KFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILM 538 (753)
Q Consensus 459 ~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~ 538 (753)
++|+++++...+.+|...+.++.|+.....+++++++.+
T Consensus 59 ~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------------------- 97 (219)
T smart00062 59 KIDVVAAGMTITPERAKQVDFSDPYYKSGQVILVRKDSP----------------------------------------- 97 (219)
T ss_pred cccEEeccccCCHHHHhheeeccceeeceeEEEEecCCC-----------------------------------------
Confidence 999998776667888888999999999999999987643
Q ss_pred hceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeE
Q 037761 539 QSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSA 618 (753)
Q Consensus 539 ~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a 618 (753)
+++++|| .|+++++..++....++.. ..+..++..+.+..+.+.+|.+|+ +|+
T Consensus 98 -------------------~~~~~dL--~g~~i~~~~g~~~~~~~~~--~~~~~~~~~~~~~~~~~~~l~~g~----~d~ 150 (219)
T smart00062 98 -------------------IKSLEDL--KGKKVAVVAGTTGEELLKK--LYPEAKIVSYDSQAEALAALKAGR----ADA 150 (219)
T ss_pred -------------------CCChHHh--CCCEEEEecCccHHHHHHH--hCCCceEEEcCCHHHHHHHhhcCc----ccE
Confidence 8999999 5899999999888888874 244567788888999999999999 999
Q ss_pred EEeccccHHHHHhcC-CCCcEEeCccccc-CceEEEEcCCCC-CchHhHHHHHHhhhcchHHHHHHHhhc
Q 037761 619 IFEEIPYIKVFLKKY-SSKYTTAGPIYRT-DGLGFAFAKDSP-LVSHFSQAILLVRENQTRMDRIEKKYF 685 (753)
Q Consensus 619 ~~~~~~~~~~~~~~~-~~~l~~~~~~~~~-~~~~~~~~k~s~-l~~~~n~~i~~l~~~G~~~~~~~~~~~ 685 (753)
++.+.....+..++. ..++.++...... .+++++++++++ +.+.+++.|..+.++| .++++.++|+
T Consensus 151 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~i~~~~~ 219 (219)
T smart00062 151 AVADAPALAALVKQHGLPELKIVGDPLDTPEGYAFAVRKGDPELLDKINKALKELKADG-TLKKIYEKWF 219 (219)
T ss_pred EEeccHHHHHHHHhcCCCceeeccCCCCCCcceEEEEECCCHHHHHHHHHHHHHHHhCc-hHHHHHhccC
Confidence 999999888887765 2367777665555 788999999987 9999999999999999 9999999985
No 104
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.49 E-value=3.3e-13 Score=132.48 Aligned_cols=222 Identities=16% Similarity=0.160 Sum_probs=181.4
Q ss_pred cccceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHH
Q 037761 376 AIPSLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQI 455 (753)
Q Consensus 376 ~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 455 (753)
+...|+|+|.+.|. ..| ..++...|++.++.+.+++ .||.++++...+ +-+.++.+|
T Consensus 21 ~rGvLrV~tinsp~-sy~--------~~~~~p~G~eYelak~Fa~----yLgV~Lki~~~~----------n~dqLf~aL 77 (473)
T COG4623 21 ARGVLRVSTINSPL-SYF--------EDKGGPTGLEYELAKAFAD----YLGVKLKIIPAD----------NIDQLFDAL 77 (473)
T ss_pred hcCeEEEEeecCcc-cee--------ccCCCccchhHHHHHHHHH----HhCCeEEEEecC----------CHHHHHHHH
Confidence 34489999986554 223 4567778999999999999 999655544443 679999999
Q ss_pred HcCcccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHH
Q 037761 456 KLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAF 535 (753)
Q Consensus 456 ~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~l 535 (753)
.+|++|++++++....+|.+.+....-|+.-++.++.+++...
T Consensus 78 ~ng~~DL~Aagl~~~~~~l~~~~~gP~y~svs~qlVyRkG~~R------------------------------------- 120 (473)
T COG4623 78 DNGNADLAAAGLLYNSERLKNFQPGPTYYSVSQQLVYRKGQYR------------------------------------- 120 (473)
T ss_pred hCCCcceecccccCChhHhcccCCCCceecccHHHHhhcCCCC-------------------------------------
Confidence 9999999999999999999999999999999999999998653
Q ss_pred HhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHH--hhCCCCCceec--CCCHHHHHHHHhcCC
Q 037761 536 ILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVK--QLNFSRNQTRP--LSNFGEYKEALSNGS 611 (753)
Q Consensus 536 vl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~--~~~~~~~~~~l~~g~ 611 (753)
.+++++| +|+++.+..|+...+.++. +..+|+..... -...++.++++..|+
T Consensus 121 ----------------------p~~l~~L--~g~~i~v~~gs~~~~~l~~lk~~kyP~l~~k~d~~~~~~dLle~v~~Gk 176 (473)
T COG4623 121 ----------------------PRSLGQL--KGRQITVAKGSAHVEDLKLLKETKYPELIWKVDDKLGVEDLLEMVAEGK 176 (473)
T ss_pred ----------------------CCCHHHc--cCceeeccCCcHHHHHHHHHHHhhcchhhhhhcccccHHHHHHHHhcCC
Confidence 7999999 5889999999887766553 21333322111 124689999999999
Q ss_pred CCCCeeEEEeccccHHHHHhcCCCCcEEeCcccccCceEEEEcCCCC--CchHhHHHHHHhhhcchHHHHHHHhhcCC
Q 037761 612 RKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTDGLGFAFAKDSP--LVSHFSQAILLVRENQTRMDRIEKKYFGE 687 (753)
Q Consensus 612 ~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~--l~~~~n~~i~~l~~~G~~~~~~~~~~~~~ 687 (753)
+|.++.+...+..+.+-++ ++.+........++++++|.++. |...++.++..+.++| .++++.+||++-
T Consensus 177 ----ldytiads~~is~~q~i~P-~laVafd~tde~~v~Wy~~~~dd~tL~a~ll~F~~~~~e~g-~larleeky~gH 248 (473)
T COG4623 177 ----LDYTIADSVEISLFQRVHP-ELAVAFDLTDEQPVAWYLPRDDDSTLSAALLDFLNEAKEDG-LLARLEEKYLGH 248 (473)
T ss_pred ----cceeeeccHHHHHHHHhCc-cceeeeecccccCceeeccCCchHHHHHHHHHHHHHhhcch-HHHHHHHHHhcc
Confidence 9999999999888777766 78888877778999999999654 9999999999999999 999999999964
No 105
>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=99.38 E-value=2.5e-11 Score=123.55 Aligned_cols=180 Identities=21% Similarity=0.302 Sum_probs=147.4
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
+++++......+.+++.+ +++++||+.++....++...+...++|+|++++..+... .+++++++.+++...+..++
T Consensus 40 ~~~~~~~~~~~~~~~~~~-~~d~ii~~~~~~~~~~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~ 116 (269)
T cd01391 40 SQSDPERALEALRDLIQQ-GVDGIIGPPSSSSALAVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAA 116 (269)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEecCCCHHHHHHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHH
Confidence 678888899999999876 899999999987777688889999999999987665544 56889999999999999999
Q ss_pred HHHHHcCCeEEEEEEeeC-CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC-CccEEEEEeChHHH
Q 037761 88 AVLQNFSWHEVVLMYEDT-NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM-QTRVFIVHMNTALA 165 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~-~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~-~~~vIi~~~~~~~~ 165 (753)
+++.+.+|+++++++.+. ..+....+.+++.+++.|+++......+.. .+.++......+++. ++++|++++. ..+
T Consensus 117 ~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a 194 (269)
T cd01391 117 EYLAEKGWKRVALIYGDDGAYGRERLEGFKAALKKAGIEVVAIEYGDLD-TEKGFQALLQLLKAAPKPDAIFACND-EMA 194 (269)
T ss_pred HHHHHhCCceEEEEecCCcchhhHHHHHHHHHHHhcCcEEEeccccCCC-ccccHHHHHHHHhcCCCCCEEEEcCc-hHH
Confidence 999999999999999877 677888899999999999877655444432 225677777878776 7899998877 788
Q ss_pred HHHHHHHHHcCCCCCCEEEEEcCcccc
Q 037761 166 SRLFALVAKNGMMSKGYTWIVTACLSN 192 (753)
Q Consensus 166 ~~~~~~a~~~g~~~~~~~wi~~~~~~~ 192 (753)
..+++++.+.|+.+.+..|++.+.+..
T Consensus 195 ~~~~~~~~~~g~~~~~~~ii~~~~~~~ 221 (269)
T cd01391 195 AGALKAAREAGLTPGDISIIGFDGSPA 221 (269)
T ss_pred HHHHHHHHHcCCCCCCCEEEecccccc
Confidence 899999999998744566676666543
No 106
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.35 E-value=7.9e-12 Score=112.89 Aligned_cols=121 Identities=22% Similarity=0.348 Sum_probs=104.9
Q ss_pred CcCChhHhhhc-CCeEEEecCchHHHHHHHhhCCCC-----------CceecCCCHHHHHHHHhcCCCCCCeeEEEeccc
Q 037761 557 TFADLKKLRTE-SHFVGFQSGSFVEDFLVKQLNFSR-----------NQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIP 624 (753)
Q Consensus 557 ~i~s~~dL~~~-~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~ 624 (753)
+|++++||..+ ++++|+..|++.+.++++ ..+. .++..+++..+++.+|..|+ ||++.+..
T Consensus 1 ~i~~~~dl~~~~~~~vgv~~gs~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~-----da~v~d~~ 73 (134)
T smart00079 1 PITSVEDLAKQTKIEYGTIRGSSTLAFFKR--SGNPEYSRMWNYMSASPSVFVKSYAEGVQRVRVSN-----YAFLMEST 73 (134)
T ss_pred CCCChHHHhhCCCccceEecCchHHHHHHh--CCChHHHHHHHHHHhCCCCCCCCHHHHHHHHHcCC-----CEEEeehH
Confidence 48899999622 279999999999999985 2222 25677899999999998875 89999999
Q ss_pred cHHHHHhcCCCCcEEeCcccccCceEEEEcCCCCCchHhHHHHHHhhhcchHHHHHHHhhcC
Q 037761 625 YIKVFLKKYSSKYTTAGPIYRTDGLGFAFAKDSPLVSHFSQAILLVRENQTRMDRIEKKYFG 686 (753)
Q Consensus 625 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~G~~~~~~~~~~~~ 686 (753)
.+.+++++.| ++.+++..+...+++++++|+++|++.+|..|.+|.++| .++++.++|+.
T Consensus 74 ~~~~~~~~~~-~~~~~~~~~~~~~~~ia~~k~~~l~~~vn~~l~~l~~~G-~~~~l~~kw~~ 133 (134)
T smart00079 74 YLDYELSQNC-DLMTVGENFGRKGYGIAFPKGSPLRDDLSRAILKLSESG-ELQKLENKWWK 133 (134)
T ss_pred hHHHHHhCCC-CeEEcCcccCCCceEEEecCCCHHHHHHHHHHHHHHhcC-cHHHHHHhhcc
Confidence 9999888767 788888888888999999999999999999999999999 99999999986
No 107
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=99.13 E-value=3.6e-10 Score=115.41 Aligned_cols=165 Identities=15% Similarity=0.132 Sum_probs=135.4
Q ss_pred ChHHHHHHHHcCcccEEEeeeeeecccceeeecccc--ccccceEEEEecccCCCCceeEEEecCccccceeeccccchh
Q 037761 447 TYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLP--YSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSK 524 (753)
Q Consensus 447 ~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p--~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R 524 (753)
.|.+++..|.+|++|++++++.++.+|.+.++|+.| |....+++++|..++
T Consensus 52 ~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~~~--------------------------- 104 (287)
T PRK00489 52 RPDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPEDSD--------------------------- 104 (287)
T ss_pred CcHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECCCC---------------------------
Confidence 789999999999999999999988999989999887 677778888887653
Q ss_pred hHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecCCCHHHHH
Q 037761 525 FVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYK 604 (753)
Q Consensus 525 ~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 604 (753)
|++++|| +|+++++..+.....++.+ .+. ..+++.+.+..+.
T Consensus 105 ---------------------------------i~sl~DL--~Gk~ia~~~~~~~~~~l~~-~gi-~~~iv~~~gs~ea- 146 (287)
T PRK00489 105 ---------------------------------WQGVEDL--AGKRIATSYPNLTRRYLAE-KGI-DAEVVELSGAVEV- 146 (287)
T ss_pred ---------------------------------CCChHHh--CCCEEEEcCcHHHHHHHHH-cCC-ceEEEECCCchhh-
Confidence 8899999 6999999988888899885 222 4566677766665
Q ss_pred HHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCcccccCceEEEEcC--CCC-CchHhHHHHHHhhhcchHHHHHH
Q 037761 605 EALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTDGLGFAFAK--DSP-LVSHFSQAILLVRENQTRMDRIE 681 (753)
Q Consensus 605 ~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k--~s~-l~~~~n~~i~~l~~~G~~~~~~~ 681 (753)
++..|+ .|+++........+.++ ++.++ +.+.....+++.+| .++ +.+.+|..+.+| .| .+..+.
T Consensus 147 -a~~~G~----aDaivd~~~~~~~l~~~---~L~~v-~~~~~~~~~li~~k~~~~~~~~~~i~~~l~~l--~g-~l~a~~ 214 (287)
T PRK00489 147 -APRLGL----ADAIVDVVSTGTTLRAN---GLKIV-EVILRSEAVLIARKGWLDPEKQEKIDQLLTRL--QG-VLRARE 214 (287)
T ss_pred -hhcCCc----ccEEEeeHHHHHHHHHC---CCEEE-EeeeeeeEEEEEcccccChhHHHHHHHHHHHH--HH-HHHhhc
Confidence 566688 99998877777766653 57777 56666778899998 677 889999999999 59 999999
Q ss_pred HhhcCCC
Q 037761 682 KKYFGEN 688 (753)
Q Consensus 682 ~~~~~~~ 688 (753)
+||+..+
T Consensus 215 ~k~~~~~ 221 (287)
T PRK00489 215 SKYLMMN 221 (287)
T ss_pred eEEEEEe
Confidence 9999864
No 108
>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=99.10 E-value=9.6e-10 Score=111.40 Aligned_cols=198 Identities=20% Similarity=0.141 Sum_probs=139.8
Q ss_pred ceEEeeccCCCCcceEEEEEcCCCCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcC
Q 037761 379 SLVVGTPVRLGFPQFLSVREDGDLNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLK 458 (753)
Q Consensus 379 ~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 458 (753)
+|+||+. +.+.|+. +.+...++.+.+++ ++|.++ ++... .+|+.++..+.+|
T Consensus 33 ~l~vg~~--~~~~~~~------------~~~~~~~l~~~l~~----~~g~~v--~~~~~--------~~~~~~~~~l~~g 84 (254)
T TIGR01098 33 ELNFGIL--PGENASN------------LTRRWEPLADYLEK----KLGIKV--QLFVA--------TDYSAVIEAMRFG 84 (254)
T ss_pred ceEEEEC--CCCCHHH------------HHHHHHHHHHHHHH----HhCCcE--EEEeC--------CCHHHHHHHHHcC
Confidence 7999997 5544432 23445688888888 998654 44432 2799999999999
Q ss_pred cccEEEeeeeeec---ccceeeecccccccc------ceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHH
Q 037761 459 KFDAVVGDISIVA---SRTDYVEFTLPYSES------GVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVI 529 (753)
Q Consensus 459 ~~Di~~~~~~~t~---~r~~~~~fs~p~~~~------~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~ 529 (753)
++|+++.+..... +|.....|+.||... ...+++++..
T Consensus 85 ~~Di~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~--------------------------------- 131 (254)
T TIGR01098 85 RVDIAWFGPSSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKADS--------------------------------- 131 (254)
T ss_pred CccEEEECcHHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECCC---------------------------------
Confidence 9999986654322 455567777776543 2467777654
Q ss_pred HHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEec-CchH-----HHHHHHhhCCC----CCceecCCC
Q 037761 530 WLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQS-GSFV-----EDFLVKQLNFS----RNQTRPLSN 599 (753)
Q Consensus 530 w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~-~~~~-----~~~~~~~~~~~----~~~~~~~~~ 599 (753)
+|++++|| +|+++++.. ++.. ..++.+..... ..++....+
T Consensus 132 ---------------------------~i~~~~dL--~gk~I~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~ 182 (254)
T TIGR01098 132 ---------------------------PIKSLKDL--KGKTFAFGDPASTSGYLVPRYQLKKEGGLDADGFFSEVVFSGS 182 (254)
T ss_pred ---------------------------CCCChHHh--cCCEEEeeCCCCccchHhHHHHHHHhcCCChHHhhhheeecCc
Confidence 28999999 599999874 2221 23344322211 134555566
Q ss_pred HHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcC---CCCcEEeCcccccCceEEEEcCC-CC-CchHhHHHHHHh
Q 037761 600 FGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKY---SSKYTTAGPIYRTDGLGFAFAKD-SP-LVSHFSQAILLV 670 (753)
Q Consensus 600 ~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~~~~~~k~-s~-l~~~~n~~i~~l 670 (753)
..+.+.+|..|+ +|+.+.+...+..+.++. ..+++++.......+++++++|+ .+ +++.+|++|..+
T Consensus 183 ~~~~~~al~~G~----~Da~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 183 HDASALAVANGK----VDAATNNSSAIGRLKKRGPSDMKKVRVIWKSPLIPNDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred hHHHHHHHHcCC----CCeEEecHHHHHHHHHhCccchhheEEEEecCCCCCCCEEEECCCCHHHHHHHHHHHhhC
Confidence 788999999999 999999999888777664 23688888766667789999999 55 999999998764
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=98.95 E-value=2.9e-08 Score=109.55 Aligned_cols=271 Identities=10% Similarity=0.086 Sum_probs=146.3
Q ss_pred ceeecCCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhcc--CCccEEeecCCCCCCCCCCCCceEEEecCcH
Q 037761 3 KLLLLKQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEK--AQVPIISFFETSPALSPTEHPFFIRVTQNDS 80 (753)
Q Consensus 3 ~l~~~d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~--~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~ 80 (753)
+|.++| ++.........+.+. +++.+||||..=+...+++..-.. -.||++.....+..- .-+.+|.++-+.+
T Consensus 256 ~l~~~D-t~~~~~~~~~~~a~~-~ga~~ViGPL~k~~V~~l~~~~~~~~~~vp~LaLN~~~~~~---~~~~l~~f~LspE 330 (536)
T PF04348_consen 256 ELRFYD-TNADSADALYQQAVA-DGADFVIGPLLKSNVEALAQLPQLQAQPVPVLALNQPDNSQ---APPNLYQFGLSPE 330 (536)
T ss_dssp -EEEEE-TTTS-HHHHHHHHHH-TT--EEE---SHHHHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HH
T ss_pred ceEEec-CCCCCHHHHHHHHHH-cCCCEEEcCCCHHHHHHHHhcCcccccCCceeeccCCCccc---CccceEEEeCCcH
Confidence 355566 232333344455554 599999999987766666655332 489999987655431 1245677777888
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 81 LQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 81 ~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
.+++.+++.+..-|+++..||+.+++||....++|.+.+++.|+.++....+. . ..++...++.-.....|.|++.+
T Consensus 331 dEA~q~A~~a~~~g~~~alvl~p~~~~g~R~~~aF~~~W~~~gg~~~~~~~~~-~--~~~~~~~i~~r~r~d~D~ifl~a 407 (536)
T PF04348_consen 331 DEARQAAQKAFQDGYRRALVLAPQNAWGQRMAEAFNQQWQALGGQVAEVSYYG-S--PADLQAAIQPRRRQDIDAIFLVA 407 (536)
T ss_dssp HHHHHHHHHHHHTT--S-EEEEESSHHHHHHHHHHHHHHHHHHSS--EEEEES-S--TTHHHHHHHHS--TT--EEEE--
T ss_pred HHHHHHHHHHHhcCCCCEEEEcCCChHHHHHHHHHHHHHHHcCCCceeeEecC-C--HHHHHHHHhhcCCCCCCEEEEeC
Confidence 99999999999899999999999999999999999999999998887666665 2 45888888865567899999999
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEEeCC---CChhhhHHHHHHHHhhCCCCC
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRSHLP---KSKELGLFDRRWKSKLHSMKP 237 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~ 237 (753)
...+++.+.-.+.-.. ..+...+.++..... .........++|+.......- ..+..+ .+.+.+....
T Consensus 408 ~~~~ar~ikP~l~~~~--a~~lPvyatS~~~~g--~~~~~~~~dL~gv~f~d~Pwll~~~~~~~~----~~~~~~~~~~- 478 (536)
T PF04348_consen 408 NPEQARLIKPQLDFHF--AGDLPVYATSRSYSG--SPNPSQDRDLNGVRFSDMPWLLDPNSPLRQ----QLAALWPNAS- 478 (536)
T ss_dssp -HHHHHHHHHHHTT-T---TT-EEEE-GGG--H--HT-HHHHHHTTT-EEEE-GGGG---SHHHH----HHH-HHTTT--
T ss_pred CHHHHHHHhhhccccc--CCCCCEEEeccccCC--CCCcchhhhhcCCEEeccccccCCCchHHH----HHHhhccCCc-
Confidence 9999888777665421 233344444443221 112345567899987765321 223222 3333333210
Q ss_pred CCCccccchhHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCccCCCccccchHHHHHHHHhcccccceeeEEe-
Q 037761 238 NSSVTEINISGLWAYDTIFALAKAVEKILSPINPSIVNPSNPSESTTDFGSLGFSRIGHILCNQILNTQFKGLSGEFHL- 316 (753)
Q Consensus 238 ~~~~~~~~~~~~~~ydAv~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~g~~G~v~f- 316 (753)
......-+.+|||..++.+- .+ ...+.+..+.|.||.+++
T Consensus 479 ----~~~~RL~AlG~DA~~L~~~l-~~----------------------------------l~~~~~~~~~G~TG~L~~~ 519 (536)
T PF04348_consen 479 ----NSLQRLYALGIDAYRLAPRL-PQ----------------------------------LRQFPGYRLDGLTGQLSLD 519 (536)
T ss_dssp ----HHHHHHHHHHHHHHHHHHTH-HH----------------------------------HHHSTT--EEETTEEEEE-
T ss_pred ----cHHHHHHHHHHHHHHHHHHH-HH----------------------------------HhhCCCCcccCCceeEEEC
Confidence 02233356778887664321 11 122345678999999999
Q ss_pred eCCccceeEEEEEE
Q 037761 317 VNGQLESSVFEIVN 330 (753)
Q Consensus 317 ~~g~~~~~~y~i~~ 330 (753)
++|.. +-...-.+
T Consensus 520 ~~g~i-~R~l~wa~ 532 (536)
T PF04348_consen 520 EDGRI-ERQLSWAQ 532 (536)
T ss_dssp TT-BE-EEE-EEEE
T ss_pred CCCeE-EEeeccee
Confidence 77765 44444333
No 110
>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=98.89 E-value=2.1e-10 Score=105.53 Aligned_cols=51 Identities=33% Similarity=0.578 Sum_probs=45.6
Q ss_pred ccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 518 VVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 518 p~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
|++.++|++.++|++++++++++|+|+|+|+||.|+..++|+|++||.+++
T Consensus 65 ~~s~s~Ril~~~w~l~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~ 115 (148)
T PF00060_consen 65 PRSWSGRILLAFWWLFSLILIASYTANLTSFLTVPKYEPPIDSLEDLANSG 115 (148)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHTSS-SSHHHHHTHS
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcCCCCCCHHHHHHCC
Confidence 899999999999999999999999999999999999999999999998666
No 111
>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=98.66 E-value=7.2e-09 Score=77.37 Aligned_cols=51 Identities=20% Similarity=0.503 Sum_probs=40.3
Q ss_pred CCcceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCC--CCCChHHHHHHHHc
Q 037761 402 LNKTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGE--MAGTYDELLYQIKL 457 (753)
Q Consensus 402 ~~~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~ 457 (753)
.++.++.|||+||++.||+ .|||++++..++. ...|. +||+|+|++++|.+
T Consensus 13 ~g~~~~eGyciDll~~la~----~l~F~y~i~~~~D-g~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 13 TGNDRYEGYCIDLLEELAE----ELNFTYEIYLVPD-GKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp BGGGGEESHHHHHHHHHHH----HHT-EEEEEE-TT-S--EEBETTSEBEHHHHHHHT
T ss_pred CCCccEEEEHHHHHHHHHH----HcCCeEEEEECCC-CCCcCcCCCCcCcCHHHHhcC
Confidence 6789999999999999999 9999888877753 23443 68999999999874
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=98.51 E-value=4.7e-06 Score=84.59 Aligned_cols=174 Identities=16% Similarity=0.142 Sum_probs=125.3
Q ss_pred eeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHH
Q 037761 4 LLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQ 82 (753)
Q Consensus 4 l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~ 82 (753)
++.. ++.++......+++++.+ +++++|+...+.........+...++|+|..++..+. .++++++.+++...
T Consensus 32 l~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~~~~~~~~~~~~l~~~~ip~v~~~~~~~~-----~~~~~~v~~d~~~~ 105 (264)
T cd01537 32 VLLANSQNDAEKQLSALENLIAR-GVDGIIIAPSDLTAPTIVKLARKAGIPVVLVDRDIPD-----GDRVPSVGSDNEQA 105 (264)
T ss_pred EEEEeCCCCHHHHHHHHHHHHHc-CCCEEEEecCCCcchhHHHHhhhcCCCEEEeccCCCC-----CcccceEecCcHHH
Confidence 3344 667788888899999887 8999998776655555677888999999998765442 24667888888999
Q ss_pred HHHHHHHHHHcCCeEEEEEEeeCC--cccchHHHHHHHHHhCC-eEEEEeeccCCCCchhhHHHHHHHHhcCC--ccEEE
Q 037761 83 VKAISAVLQNFSWHEVVLMYEDTN--YGAGFISFLVDELQEND-IRISHMSKIPTSAEDFQISKELSKLSTMQ--TRVFI 157 (753)
Q Consensus 83 ~~a~~~~l~~~~w~~vail~~d~~--~g~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIi 157 (753)
+..+++++...+-++++++..+.. ++....+.+++.+++.| ..+....... .+..+....+.++.+.+ +++|+
T Consensus 106 ~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~ 183 (264)
T cd01537 106 GYLAGEHLAEKGHRRIALLAGPLGSSTARERVAGFKDALKEAGPIEIVLVQEGD--WDAEKGYQAAEELLTAHPDPTAIF 183 (264)
T ss_pred HHHHHHHHHHhcCCcEEEEECCCCCCcHHHHHHHHHHHHHHcCCcChhhhccCC--CCHHHHHHHHHHHHhcCCCCCEEE
Confidence 999999998888999999987654 66677889999999887 4433222222 23556677777877666 55555
Q ss_pred EEeChHHHHHHHHHHHHcCCCCCCEEEEE
Q 037761 158 VHMNTALASRLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 158 ~~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 186 (753)
...+ ..+..+++++++.|+..++.+-+.
T Consensus 184 ~~~~-~~a~~~~~~~~~~g~~i~~~i~i~ 211 (264)
T cd01537 184 AAND-DMALGALRALREAGLRVPDDISVI 211 (264)
T ss_pred EcCc-HHHHHHHHHHHHhCCCCCCCeEEE
Confidence 5544 456668889999987544444444
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=98.49 E-value=2e-06 Score=88.81 Aligned_cols=183 Identities=16% Similarity=0.151 Sum_probs=117.6
Q ss_pred HHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeee-e--ecccceeee--------cccc
Q 037761 414 IFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDIS-I--VASRTDYVE--------FTLP 482 (753)
Q Consensus 414 ll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~-~--t~~r~~~~~--------fs~p 482 (753)
+.+.+++ ++|.+ +++... .+|..++..|.+|++|+++.+.. . ..+|..... ++.+
T Consensus 49 l~~~l~~----~~g~~--v~~~~~--------~~~~~~~~al~~g~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 114 (288)
T TIGR03431 49 LADYLSK----KLGVK--VKLFFA--------TDYAGVIEGMRFGKVDIAWYGPSSYAEAYQKANAEAFAIEVNADGSTG 114 (288)
T ss_pred HHHHHHH----HhCCc--EEEEeC--------CCHHHHHHHHHcCCccEEEEChHHHHHHHHhcCCeEEEEeccCCCCCc
Confidence 5566666 99864 443322 27999999999999999985532 1 124444332 3444
Q ss_pred ccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChh
Q 037761 483 YSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLK 562 (753)
Q Consensus 483 ~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~ 562 (753)
|. .++++++.+ +|++++
T Consensus 115 y~---~~lvv~~ds------------------------------------------------------------~i~sl~ 131 (288)
T TIGR03431 115 YY---SVLIVKKDS------------------------------------------------------------PIKSLE 131 (288)
T ss_pred eE---EEEEEeCCC------------------------------------------------------------CCCcHH
Confidence 43 466666553 389999
Q ss_pred HhhhcCCeEEEec-CchHH-----HHHHHhhCCCCC---ceecCC-CHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhc
Q 037761 563 KLRTESHFVGFQS-GSFVE-----DFLVKQLNFSRN---QTRPLS-NFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKK 632 (753)
Q Consensus 563 dL~~~~~~~~~~~-~~~~~-----~~~~~~~~~~~~---~~~~~~-~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~ 632 (753)
|| .|+++++.. ++... ..+.+..+.... ..+.+. +..+.+.+|..|+ +|+.+.+...+..+.++
T Consensus 132 DL--~Gk~v~~~~~~s~~~~~~~~~~l~~~~g~~~~~~~~~v~~~~~~~~~~~al~~G~----vDa~~~~~~~~~~~~~~ 205 (288)
T TIGR03431 132 DL--KGKTFGFVDPNSTSGFLVPSYYLFKKNGIKPKEYFKKVTFSGSHEAAILAVANGT----VDAATTNDENLDRMIRK 205 (288)
T ss_pred Hh--CCCEEEeeCCCcchhhHHHHHHHHHhcCCChHHhHHhheecCchHHHHHHHHcCC----CCeEeccHHHHHHHHHc
Confidence 99 599999863 33221 122222222111 123344 5788999999999 99999988877777764
Q ss_pred C-C---CCcEEeCcccccCceEEEEcCCC-C-CchHhHHHHHHhhhcchHHHHH
Q 037761 633 Y-S---SKYTTAGPIYRTDGLGFAFAKDS-P-LVSHFSQAILLVRENQTRMDRI 680 (753)
Q Consensus 633 ~-~---~~l~~~~~~~~~~~~~~~~~k~s-~-l~~~~n~~i~~l~~~G~~~~~~ 680 (753)
. . .++.++.........+++++++. + +.+.+++.|..+++++ ...++
T Consensus 206 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~-~~~~~ 258 (288)
T TIGR03431 206 GQPDAMEDLRIIWKSPLIPNGPIVYRKDLPADLKAKIRKAFLNYHKTD-KACFE 258 (288)
T ss_pred CCCCchhheEEEEEcCCCCCCcEEEeCCCCHHHHHHHHHHHHhcCCCc-HHHHH
Confidence 3 1 23555433222234568889984 4 9999999999999997 54443
No 114
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=98.47 E-value=6.2e-06 Score=83.75 Aligned_cols=171 Identities=10% Similarity=0.006 Sum_probs=120.7
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
++.++.+.....++++++ ++++++....+..... ...+...++|+|..++..+. +.+..+.+++...+..++
T Consensus 37 ~~~~~~~~~~~~~~~~~~-~~d~iii~~~~~~~~~-~~~~~~~~ipvv~~~~~~~~------~~~~~v~~d~~~~g~~~~ 108 (264)
T cd06267 37 SDEDPEKEREALELLLSR-RVDGIILAPSRLDDEL-LEELAALGIPVVLVDRPLDG------LGVDSVGIDNRAGAYLAV 108 (264)
T ss_pred CCCCHHHHHHHHHHHHHc-CcCEEEEecCCcchHH-HHHHHHcCCCEEEecccccC------CCCCEEeeccHHHHHHHH
Confidence 667788889999999887 8999887666666665 66788999999998765432 345567778888889999
Q ss_pred HHHHHcCCeEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCC--ccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQ--TRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIi~~~~~~ 163 (753)
+++...|.+++++++.+.. ++....+.+++.+++.|..+.....+....+..+....+.++.+.+ +++|+.. +..
T Consensus 109 ~~l~~~g~~~i~~i~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~ 187 (264)
T cd06267 109 EHLIELGHRRIAFIGGPPDLSTARERLEGYREALEEAGIPLDEELIVEGDFSEESGYEAARELLASGERPTAIFAA-NDL 187 (264)
T ss_pred HHHHHCCCceEEEecCCCccchHHHHHHHHHHHHHHcCCCCCcceEEecccchhhHHHHHHHHHhcCCCCcEEEEc-CcH
Confidence 9887779999999987544 6777788899999988853322222222222446666777776655 5666644 445
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 164 LASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
.+..+++++++.|+..++.+.+.+
T Consensus 188 ~a~~~~~al~~~g~~~~~~i~i~~ 211 (264)
T cd06267 188 MAIGALRALRELGLRVPEDVSVVG 211 (264)
T ss_pred HHHHHHHHHHHhCCCCCCceEEEe
Confidence 567788888998875444444443
No 115
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=98.34 E-value=4.3e-05 Score=77.75 Aligned_cols=166 Identities=14% Similarity=0.135 Sum_probs=114.7
Q ss_pred eeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCc-HHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHH
Q 037761 4 LLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAA-APFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSL 81 (753)
Q Consensus 4 l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~-~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~ 81 (753)
+++. ...++........+++.+ +|++||+...+.. ..+....+...++|+|......+. .+.+..+.+++..
T Consensus 32 ~~~~~~~~~~~~~~~~~~~l~~~-~vdgvi~~~~~~~~~~~~~~~l~~~~ip~V~~~~~~~~-----~~~~~~v~~d~~~ 105 (267)
T cd01536 32 LIVLDAQNDVSKQIQQIEDLIAQ-GVDGIIISPVDSAALTPALKKANAAGIPVVTVDSDIDG-----GNRLAYVGTDNYE 105 (267)
T ss_pred EEEECCCCCHHHHHHHHHHHHHc-CCCEEEEeCCCchhHHHHHHHHHHCCCcEEEecCCCCc-----cceeEEEecCHHH
Confidence 3444 445788888888898887 8999886544333 233556667889999998764432 1345667788888
Q ss_pred HHHHHHHHHHHc--CCeEEEEEEeeC--CcccchHHHHHHHHHhCC-eEEEEeeccCCCCchhhHHHHHHHHhcCCc--c
Q 037761 82 QVKAISAVLQNF--SWHEVVLMYEDT--NYGAGFISFLVDELQEND-IRISHMSKIPTSAEDFQISKELSKLSTMQT--R 154 (753)
Q Consensus 82 ~~~a~~~~l~~~--~w~~vail~~d~--~~g~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~--~ 154 (753)
.+..+++++... |-+++++++... .++....+.|++.+++.| +++...... ..+..+..+.+.++.+..+ +
T Consensus 106 ~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~ 183 (267)
T cd01536 106 AGRLAGEYLAKLLGGKGKVAIIEGPPGSSNAQERVKGFRDALKEYPDIEIVAVQDG--NWDREKALQAMEDLLQANPDID 183 (267)
T ss_pred HHHHHHHHHHHHhCCCceEEEEEcccccchHHHHHHHHHHHHHhCCCcEEEEEecC--CCcHHHHHHHHHHHHHhCCCcc
Confidence 888899988666 889999998654 477778899999999984 665443322 2234466677788765554 4
Q ss_pred EEEEEeChHHHHHHHHHHHHcCCC
Q 037761 155 VFIVHMNTALASRLFALVAKNGMM 178 (753)
Q Consensus 155 vIi~~~~~~~~~~~~~~a~~~g~~ 178 (753)
+|+.. +...+..+++++++.|+.
T Consensus 184 ~i~~~-~d~~a~~~~~~l~~~g~~ 206 (267)
T cd01536 184 AIFAA-NDSMALGAVAALKAAGRK 206 (267)
T ss_pred EEEEe-cCCchHHHHHHHHhcCCC
Confidence 44443 335567788999999974
No 116
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=98.14 E-value=0.00012 Score=74.39 Aligned_cols=168 Identities=13% Similarity=0.174 Sum_probs=110.9
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++.......++++.+ +++++|....+....+....+...++|+|....... ...++ ...++...+..++
T Consensus 37 ~~~~~~~~~~~~~~l~~~-~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~~~----~~~~~---v~~d~~~~g~~~~ 108 (266)
T cd06282 37 TDYDAEREADAVETLLRQ-RVDGLILTVADAATSPALDLLDAERVPYVLAYNDPQ----PGRPS---VSVDNRAAARDVA 108 (266)
T ss_pred CCCCHHHHHHHHHHHHhc-CCCEEEEecCCCCchHHHHHHhhCCCCEEEEeccCC----CCCCE---EeeCcHHHHHHHH
Confidence 456777777888888875 899988644443334455677888999998764322 22333 3467778888999
Q ss_pred HHHHHcCCeEEEEEEee---CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHH-hcC-CccEEEEEeCh
Q 037761 88 AVLQNFSWHEVVLMYED---TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKL-STM-QTRVFIVHMNT 162 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d---~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l-~~~-~~~vIi~~~~~ 162 (753)
++|...|.++++++..+ .+++....+.|.+.++++|+.+......+. +..+....+.++ ++. .+++|+. ++.
T Consensus 109 ~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~ai~~-~~d 185 (266)
T cd06282 109 QALAALGHRRIAMLAGRLAASDRARQRYAGYRAAMRAAGLAPLPPVEIPF--NTAALPSALLALLTAHPAPTAIFC-SND 185 (266)
T ss_pred HHHHHcCcccEEEeccccccCchHHHHHHHHHHHHHHcCCCCCccccCCC--cHHHHHHHHHHHhcCCCCCCEEEE-CCc
Confidence 99877899999999743 335667788999999999876433222221 223333444444 332 4676665 455
Q ss_pred HHHHHHHHHHHHcCCCCCCEEEEE
Q 037761 163 ALASRLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 163 ~~~~~~~~~a~~~g~~~~~~~wi~ 186 (753)
..+..+++++++.|+..++.+-+.
T Consensus 186 ~~a~g~~~al~~~g~~~p~di~v~ 209 (266)
T cd06282 186 LLALAVIRALRRLGLRVPDDLSVV 209 (266)
T ss_pred HHHHHHHHHHHHcCCCCCCceEEE
Confidence 556779999999998655444443
No 117
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=98.14 E-value=0.00013 Score=74.47 Aligned_cols=164 Identities=14% Similarity=0.063 Sum_probs=114.8
Q ss_pred eeec-CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCc-HHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHH
Q 037761 4 LLLL-KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAA-APFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSL 81 (753)
Q Consensus 4 l~~~-d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~-~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~ 81 (753)
+++. ++.|+........+++.+ +|++||....+.. .......+...++|+|......+ . +.+.++.+++..
T Consensus 37 l~i~~~~~~~~~~~~~~~~~~~~-~vdgiIi~~~~~~~~~~~l~~~~~~~iPvv~~~~~~~---~---~~~~~v~~d~~~ 109 (272)
T cd06300 37 FIVTSADGDVAQQIADIRNLIAQ-GVDAIIINPASPTALNPVIEEACEAGIPVVSFDGTVT---T---PCAYNVNEDQAE 109 (272)
T ss_pred EEEecCCCCHHHHHHHHHHHHHc-CCCEEEEeCCChhhhHHHHHHHHHCCCeEEEEecCCC---C---CceeEecCCHHH
Confidence 4444 567888888999998887 9999998554433 23344566778999999864321 1 346778899999
Q ss_pred HHHHHHHHHHHc--CCeEEEEEEee--CCcccchHHHHHHHHHhCC-eEEEEeeccCCCCchhhHHHHHHHHhcCCc--c
Q 037761 82 QVKAISAVLQNF--SWHEVVLMYED--TNYGAGFISFLVDELQEND-IRISHMSKIPTSAEDFQISKELSKLSTMQT--R 154 (753)
Q Consensus 82 ~~~a~~~~l~~~--~w~~vail~~d--~~~g~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~--~ 154 (753)
.+..++++|... |-++++++..+ ...+....+.+++.+++.+ +.+..... ...+..+....+.++.++++ +
T Consensus 110 ~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~g~~~a~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~~ 187 (272)
T cd06300 110 FGKQGAEWLVKELGGKGNVLVVRGLAGHPVDEDRYAGAKEVLKEYPGIKIVGEVY--GDWDQAVAQKAVADFLASNPDVD 187 (272)
T ss_pred HHHHHHHHHHHHcCCCceEEEEECCCCCcchHHHHHHHHHHHHHCCCcEEEeecC--CCCCHHHHHHHHHHHHHhCCCcC
Confidence 999999988665 78899999743 3345667788999999887 77654322 12234456667777766554 5
Q ss_pred EEEEEeChHHHHHHHHHHHHcCCC
Q 037761 155 VFIVHMNTALASRLFALVAKNGMM 178 (753)
Q Consensus 155 vIi~~~~~~~~~~~~~~a~~~g~~ 178 (753)
+|++..+. +..+++.+++.|+.
T Consensus 188 ~i~~~~d~--A~g~~~al~~~g~~ 209 (272)
T cd06300 188 GIWTQGGD--AVGAVQAFEQAGRD 209 (272)
T ss_pred EEEecCCC--cHHHHHHHHHcCCC
Confidence 44444333 78899999999973
No 118
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=98.01 E-value=0.00026 Score=72.09 Aligned_cols=169 Identities=14% Similarity=0.149 Sum_probs=109.2
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
+..++.......++|+++ +|+++|--.... ...+...+...++|+|......+. ...++ +..++...+..++
T Consensus 37 ~~~~~~~~~~~~~~l~~~-~vdgiii~~~~~-~~~~~~~l~~~~iPvv~~~~~~~~---~~~~~---v~~d~~~~~~~~~ 108 (268)
T cd06273 37 SGYDLDREYAQARKLLER-GVDGLALIGLDH-SPALLDLLARRGVPYVATWNYSPD---SPYPC---VGFDNREAGRLAA 108 (268)
T ss_pred CCCCHHHHHHHHHHHHhc-CCCEEEEeCCCC-CHHHHHHHHhCCCCEEEEcCCCCC---CCCCE---EEeChHHHHHHHH
Confidence 567888888888888886 787766421222 234445667889999998653221 12233 4567788888899
Q ss_pred HHHHHcCCeEEEEEEee---CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc--CCccEEEEEeCh
Q 037761 88 AVLQNFSWHEVVLMYED---TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST--MQTRVFIVHMNT 162 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d---~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIi~~~~~ 162 (753)
+.+...|.++++++... +.++....+.|.+.+++.|+.+.....+....+..+....+.++.+ ..+++|+. ++.
T Consensus 109 ~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~~ 187 (268)
T cd06273 109 RHLIALGHRRIAMIFGPTQGNDRARARRAGVRAALAEAGLELPELWQVEAPYSIADGRAALRQLLEQPPRPTAVIC-GND 187 (268)
T ss_pred HHHHHCCCCeEEEEeccccCCccHHHHHHHHHHHHHHcCCCCCHHHeeeCCCcHHHHHHHHHHHHcCCCCCCEEEE-cCh
Confidence 98877799999999743 2346677889999999988654322222211122234455556544 34677665 455
Q ss_pred HHHHHHHHHHHHcCCCCCCEEEE
Q 037761 163 ALASRLFALVAKNGMMSKGYTWI 185 (753)
Q Consensus 163 ~~~~~~~~~a~~~g~~~~~~~wi 185 (753)
..+..+++++++.|+..++.+-+
T Consensus 188 ~~a~~~~~~l~~~g~~~p~~i~v 210 (268)
T cd06273 188 VLALGALYEARRLGLSVPEDLSI 210 (268)
T ss_pred HHHHHHHHHHHHcCCCCCCceEE
Confidence 56777888999999865544433
No 119
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=97.99 E-value=4.9e-05 Score=76.22 Aligned_cols=194 Identities=13% Similarity=0.145 Sum_probs=115.8
Q ss_pred HHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeee-c--ccceeeecccccc-----c
Q 037761 414 IFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIV-A--SRTDYVEFTLPYS-----E 485 (753)
Q Consensus 414 ll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t-~--~r~~~~~fs~p~~-----~ 485 (753)
..+.+++.|++.+|.+++++... ++..+..++.+|++|+++.+-... . ++....-+..+.. .
T Consensus 15 ~~~~l~~~L~~~~g~~v~~~~~~----------~~~~~~~~l~~g~~D~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~ 84 (243)
T PF12974_consen 15 RWAPLADYLSKQLGVPVELVPAD----------DYAEFIEALRSGEIDLAFMGPLPYVQARQRAGVEPLATPVGPDGSPS 84 (243)
T ss_dssp HHHHHHHHHHHHHTSEEEEE--S----------SHHHHHHHHHTTS-SEEE--HHHHHHHHHHSSEEEEEEEEETTT-SC
T ss_pred HHHHHHHHHHHHhCCCEEEEEcC----------CHHHHHHHHHcCCccEEEECcHHHHHHhhcCcEEEEEEecccCCCcc
Confidence 34455555555999765554443 789999999999999997542211 1 1111111111111 2
Q ss_pred cceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhh
Q 037761 486 SGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLR 565 (753)
Q Consensus 486 ~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~ 565 (753)
....++|++.+ .|++++||
T Consensus 85 ~~~~ivv~~ds------------------------------------------------------------~i~~l~dL- 103 (243)
T PF12974_consen 85 YRSVIVVRADS------------------------------------------------------------PITSLADL- 103 (243)
T ss_dssp EEEEEEEETTS------------------------------------------------------------S--SHHHH-
T ss_pred eeEEEEEECCC------------------------------------------------------------CCCChhhc-
Confidence 33455555543 39999999
Q ss_pred hcCCeEEEecCchHH-----HHHH-HhhCCCC---CceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcC---
Q 037761 566 TESHFVGFQSGSFVE-----DFLV-KQLNFSR---NQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKY--- 633 (753)
Q Consensus 566 ~~~~~~~~~~~~~~~-----~~~~-~~~~~~~---~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~--- 633 (753)
.|+++++...+... .... ++.+... ...+...+..+.+.+|.+|+ +|+.+.+....+.+....
T Consensus 104 -~Gk~v~~~~~~s~sg~l~~~~~L~~~~Gl~~~~~~~~~~~~~~~~~~~~l~~G~----~Da~~~~~~~~~~~~~~~~~~ 178 (243)
T PF12974_consen 104 -KGKRVAFPDPSSTSGYLIPRYELLREAGLDPGDDFKQVFVGSHDAVLEALLNGK----ADAAAIPSDAFERLEAEGPDI 178 (243)
T ss_dssp -GGSEEEEE-TT-TTTTHHHHHHTCCCCT--HHHHSSEEEEE-HHHHHHHHHTTS----SSEEEEEHHHHHHHHHH-HHH
T ss_pred -CCCEEEEecCCccHHHHHHHHHHHHHcCCChhHceeEEEeCCHHHHHHHHHcCC----ccEEEEechhHHHHHHccCcc
Confidence 69999997554322 2211 1112221 13334557889999999999 999999988888777653
Q ss_pred CCCcEEeCcccccCceEEEEcCCCC--CchHhHHHHHHhhhcchHHHHHHHhh
Q 037761 634 SSKYTTAGPIYRTDGLGFAFAKDSP--LVSHFSQAILLVRENQTRMDRIEKKY 684 (753)
Q Consensus 634 ~~~l~~~~~~~~~~~~~~~~~k~s~--l~~~~n~~i~~l~~~G~~~~~~~~~~ 684 (753)
.++++++...-......++++++-+ +++.+-.++..+..+. .-.++.+.+
T Consensus 179 ~~~~rvl~~s~~~p~~~~~~~~~~~~~~~~~l~~al~~~~~~~-~~~~~l~~~ 230 (243)
T PF12974_consen 179 PSQLRVLWTSPPYPNWPLVASPDLPPELRQRLRDALLSLSKDP-EGKAILDAF 230 (243)
T ss_dssp HTTEEEEEEEEEEE--EEEEETTS-HHHHHHHHHHHHHTTSSH-HHHHHHHHT
T ss_pred cccEEEEEEeCCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCh-hhHHHHHhc
Confidence 4578888765555556677788765 9999999999999866 555665554
No 120
>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=97.88 E-value=0.00095 Score=68.31 Aligned_cols=161 Identities=11% Similarity=0.101 Sum_probs=104.8
Q ss_pred CCChHHHHHHHHHHHhcCCeEEE-EcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAI-IGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~av-iG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
+.++..-.+...+++.+ +|.++ +.|..+....+....+...++|+|..+.... +.. ...+.+++...+..++
T Consensus 40 ~~~~~~~~~~i~~l~~~-~vdgiIi~~~~~~~~~~~~~~~~~~~iPvV~~~~~~~---~~~---~~~V~~d~~~~g~~~~ 112 (275)
T cd06320 40 EGDQQGQLSIAENMINK-GYKGLLFSPISDVNLVPAVERAKKKGIPVVNVNDKLI---PNA---TAFVGTDNKANGVRGA 112 (275)
T ss_pred CCCHHHHHHHHHHHHHh-CCCEEEECCCChHHhHHHHHHHHHCCCeEEEECCCCC---Ccc---ceEEecCcHHHHHHHH
Confidence 45777777888888877 88885 5555444334455666789999998764321 111 2235777777888899
Q ss_pred HHHHHc--CCeEEEEEEeeCC--cccchHHHHHHHHHhC-CeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh
Q 037761 88 AVLQNF--SWHEVVLMYEDTN--YGAGFISFLVDELQEN-DIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 88 ~~l~~~--~w~~vail~~d~~--~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
+++... |.++++++....+ ......+.+.+.+++. |+.+...... ..+..+....+.++.+..+++-.+++..
T Consensus 113 ~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 190 (275)
T cd06320 113 EWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTEAIKKASGIEVVASQPA--DWDREKAYDVATTILQRNPDLKAIYCNN 190 (275)
T ss_pred HHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHHHhhCCCcEEEEecCC--CccHHHHHHHHHHHHHhCCCccEEEECC
Confidence 988655 8899999975332 3345568899999998 8877543221 2223455556667665555544444444
Q ss_pred -HHHHHHHHHHHHcCCC
Q 037761 163 -ALASRLFALVAKNGMM 178 (753)
Q Consensus 163 -~~~~~~~~~a~~~g~~ 178 (753)
..+..+++.+++.|+.
T Consensus 191 d~~a~~~~~al~~~g~~ 207 (275)
T cd06320 191 DTMALGVVEAVKNAGKQ 207 (275)
T ss_pred chhHHHHHHHHHhcCCC
Confidence 4455688888998874
No 121
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=97.87 E-value=0.00086 Score=68.24 Aligned_cols=169 Identities=12% Similarity=0.080 Sum_probs=104.9
Q ss_pred CCCChHHHHHHHHHHHhcCCeEE-EEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQA-IIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~a-viG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
+..++....+...+++.+ ++++ ++++..+....+....+...++|+|......+. .+.+-.+..++...+..+
T Consensus 37 ~~~~~~~~~~~~~~~~~~-~~dgii~~~~~~~~~~~~l~~l~~~~ipvv~~~~~~~~-----~~~~~~v~~d~~~~~~~~ 110 (268)
T cd06323 37 AQNDAAKQLNDIEDLITR-GVDAIIINPTDSDAVVPAVKAANEAGIPVFTIDREANG-----GEVVSQIASDNVAGGKMA 110 (268)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEcCCChHHHHHHHHHHHHCCCcEEEEccCCCC-----CceEEEEccCcHHHHHHH
Confidence 556788788888888776 7888 555555443344545567789999998653321 122334566666677889
Q ss_pred HHHHHHc--CCeEEEEEEee--CCcccchHHHHHHHHHhC-CeEEEEeeccCCCCchhhHHHHHHHHhcCC--ccEEEEE
Q 037761 87 SAVLQNF--SWHEVVLMYED--TNYGAGFISFLVDELQEN-DIRISHMSKIPTSAEDFQISKELSKLSTMQ--TRVFIVH 159 (753)
Q Consensus 87 ~~~l~~~--~w~~vail~~d--~~~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIi~~ 159 (753)
++++... |-++++++..+ ...+....+.+++.+++. |+.+....... .+..+....+.++.+.. +++| ++
T Consensus 111 ~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~ 187 (268)
T cd06323 111 AEYLVKLLGGKGKVVELQGIPGASAARERGKGFHEVVDKYPGLKVVASQPAD--FDRAKGLNVMENILQAHPDIKGV-FA 187 (268)
T ss_pred HHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHHHHhCCCcEEEecccCC--CCHHHHHHHHHHHHHHCCCcCEE-EE
Confidence 9988666 78999999863 335667778899999984 77765322211 12223334455554433 4443 33
Q ss_pred eChHHHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 160 MNTALASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 160 ~~~~~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
.+...+..+++++++.|+ .+...++.
T Consensus 188 ~~d~~a~~~~~~l~~~g~--~di~iig~ 213 (268)
T cd06323 188 QNDEMALGAIEALKAAGK--DDVKVVGF 213 (268)
T ss_pred cCCchHHHHHHHHHHcCC--CCcEEEEe
Confidence 334445568888899987 34334443
No 122
>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=97.84 E-value=0.0012 Score=67.68 Aligned_cols=164 Identities=12% Similarity=0.091 Sum_probs=104.7
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEE-EcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAI-IGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~av-iG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
++.++.+......+++.. +++++ +++..+....+....+...++|+|....... + ..++..+.+++...+..+
T Consensus 37 ~~~~~~~~~~~i~~~~~~-~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~---~--~~~~~~v~~d~~~~g~~~ 110 (277)
T cd06319 37 AENSAKKELENLRTAIDK-GVSGIIISPTNSSAAVTLLKLAAQAKIPVVIADIGAE---G--GDYVSYIKSDNYEGAYDL 110 (277)
T ss_pred CCCCHHHHHHHHHHHHhc-CCCEEEEcCCchhhhHHHHHHHHHCCCCEEEEecCCC---C--CceEEEEeeccHHHHHHH
Confidence 567888888888888875 78887 4666555455666778889999998753221 1 123344566666667777
Q ss_pred HHHHHHc------CCeEEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEE
Q 037761 87 SAVLQNF------SWHEVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIV 158 (753)
Q Consensus 87 ~~~l~~~------~w~~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~ 158 (753)
++++.+. |-++++++... ...+....+.|++.+++.|+.+.... ...+.+..+-...+.++.+++++...+
T Consensus 111 ~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai 189 (277)
T cd06319 111 GKFLAAAMKAQGWADGKVGMVAIPQKRKNGQKRTKGFKEAMKEAGCDLAGIR-QQKDFSYQETFDYTNDLLTANPDIRAI 189 (277)
T ss_pred HHHHHHHHHhhCCCCCcEEEEeccCCCccHHHHHHHHHHHHHhcCCceEeec-cCCCCCHHHHHHHHHHHHHhCCCCCEE
Confidence 7766443 66899999743 33566778899999999997754221 111222233344555665555554333
Q ss_pred Ee-ChHHHHHHHHHHHHcCCC
Q 037761 159 HM-NTALASRLFALVAKNGMM 178 (753)
Q Consensus 159 ~~-~~~~~~~~~~~a~~~g~~ 178 (753)
++ +...+..+++++++.|+.
T Consensus 190 ~~~~d~~a~g~~~al~~~g~~ 210 (277)
T cd06319 190 WLQGSDRYQGALDAIATAGKT 210 (277)
T ss_pred EECCCccchHHHHHHHHcCCC
Confidence 33 333456788999999974
No 123
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=97.78 E-value=0.00035 Score=70.87 Aligned_cols=110 Identities=16% Similarity=0.096 Sum_probs=80.2
Q ss_pred CcCChhHhhhcCCeEEEecCchHHH------HHHHhhCCC---CCceecCCC-HHHHHHHHhcCCCCCCeeEEEeccccH
Q 037761 557 TFADLKKLRTESHFVGFQSGSFVED------FLVKQLNFS---RNQTRPLSN-FGEYKEALSNGSRKGGVSAIFEEIPYI 626 (753)
Q Consensus 557 ~i~s~~dL~~~~~~~~~~~~~~~~~------~~~~~~~~~---~~~~~~~~~-~~~~~~~l~~g~~~~~~~a~~~~~~~~ 626 (753)
+|++++|| +|+++++...++..- ++.++.... .-..+.+.. .+.++.+|.+|+ +|+........
T Consensus 135 ~i~sl~dl--kgk~~af~d~~StSG~l~P~~~L~~~g~~d~~~~f~~v~~~G~H~~a~~aV~nG~----vDva~~~~~~~ 208 (299)
T COG3221 135 PIKSLEDL--KGKRFAFGDPDSTSGYLFPLYYLAKEGGIDPDKFFGEVIFSGGHDAAVLAVANGQ----VDVAAVNSSAR 208 (299)
T ss_pred CcchHHHh--cCCeEeccCCCcchhhHhHHHHHHHhcCCChhhhhceeeccChHHHHHHHHHcCC----ceEEeccHHHH
Confidence 49999999 699999975443332 222211111 112233444 789999999999 99999888877
Q ss_pred HHHHhcC-C---CCcEEeCcccccCceEEEEcCCCC--CchHhHHHHHHhhh
Q 037761 627 KVFLKKY-S---SKYTTAGPIYRTDGLGFAFAKDSP--LVSHFSQAILLVRE 672 (753)
Q Consensus 627 ~~~~~~~-~---~~l~~~~~~~~~~~~~~~~~k~s~--l~~~~n~~i~~l~~ 672 (753)
....... . +++.++.......+..++++++-| +++.+..++..+.+
T Consensus 209 ~~~~~~~~~~~~~~l~vi~~S~~iP~~pi~vr~~L~~~~k~kl~~af~~l~~ 260 (299)
T COG3221 209 GLLKKAAPEGVAEKLRVIWKSPLIPNDPIAVRSDLPADLKEKLRDAFLDLAK 260 (299)
T ss_pred hhhhhcccccchhhceEEEecCCCCCCCEEEeCCCCHHHHHHHHHHHHhcCc
Confidence 7766665 3 478888877777777888999877 99999999999987
No 124
>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=97.77 E-value=0.00061 Score=69.96 Aligned_cols=160 Identities=14% Similarity=0.142 Sum_probs=108.4
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCC----CCCCceEEEecCcHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSP----TEHPFFIRVTQNDSLQV 83 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~----~~~~~~fr~~p~~~~~~ 83 (753)
++.++.+.....++++++ +|.++|+..++ ..... .+...++|+|..+..++.... ...+..+.+..++...+
T Consensus 42 ~~~~~~~~~~~~~~l~~~-~vd~iI~~~~~-~~~~~--~~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 117 (281)
T cd06325 42 AQGDQSNLPTIARKFVAD-KPDLIVAIATP-AAQAA--ANATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPV 117 (281)
T ss_pred CCCCHHHHHHHHHHHHhc-CCCEEEEcCcH-HHHHH--HHcCCCCCEEEEecCCccccccccccccCCCceeCeecccch
Confidence 457899999999999876 99999986443 22222 256789999988754332110 11122223444566667
Q ss_pred HHHHHHHHHc--CCeEEEEEEeeCC-cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 84 KAISAVLQNF--SWHEVVLMYEDTN-YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 84 ~a~~~~l~~~--~w~~vail~~d~~-~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
..+++++... |.+++++++.+.. ++....+.+++.+++.|++++... .. ...++...++++.+ ++|+|++..
T Consensus 118 ~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~~~~~~~g~~~~~~~-~~---~~~~~~~~~~~~~~-~~dai~~~~ 192 (281)
T cd06325 118 ETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELKKAAAKLGIEVVEAT-VS---SSNDVQQAAQSLAG-KVDAIYVPT 192 (281)
T ss_pred HHHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHHHHHHhCCCEEEEEe-cC---CHHHHHHHHHHhcc-cCCEEEEcC
Confidence 8888888765 9999999986543 677778899999999998876532 21 24567777887765 368777665
Q ss_pred ChHHHHHHHHHHHHcCC
Q 037761 161 NTALASRLFALVAKNGM 177 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~ 177 (753)
+. .+...++++.+.|+
T Consensus 193 d~-~a~~~~~~~~~~~~ 208 (281)
T cd06325 193 DN-TVASAMEAVVKVAN 208 (281)
T ss_pred ch-hHHhHHHHHHHHHH
Confidence 54 55667778877764
No 125
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=97.76 E-value=0.00027 Score=73.90 Aligned_cols=170 Identities=16% Similarity=0.139 Sum_probs=100.9
Q ss_pred cceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeeccc--cee----eeccccccccceEEEEecccCCCCcee
Q 037761 430 IHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASR--TDY----VEFTLPYSESGVTMLVPVKRDNRHNMW 503 (753)
Q Consensus 430 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r--~~~----~~fs~p~~~~~~~~~v~~~~~~~~~~~ 503 (753)
+++++... .+...++.+|.+|++|+++.+ .....+ ... +..+.++.....++++++.++
T Consensus 56 v~ie~~~~--------~~~~~~~~aL~~G~iDia~~~-~~~~~~~~~~g~~~~~v~~~~~~~~~~~lvv~~~s~------ 120 (314)
T PRK11553 56 TKISWVEF--------PAGPQMLEALNVGSIDLGSTG-DIPPIFAQAAGADLVYVGVEPPKPKAEVILVAENSP------ 120 (314)
T ss_pred CeeEEEEC--------CCcHHHHHHHHcCCCCEEccC-CHHHHHHHhCCCCEEEEEEecCCCcceEEEEeCCCC------
Confidence 56666664 134789999999999999754 222222 111 112455555667788876643
Q ss_pred EEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHH
Q 037761 504 IFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFL 583 (753)
Q Consensus 504 ~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~ 583 (753)
|++++|| .|+++++..++..+..+
T Consensus 121 ------------------------------------------------------i~s~~dL--~Gk~I~~~~gs~~~~~l 144 (314)
T PRK11553 121 ------------------------------------------------------IKTVADL--KGHKVAFQKGSSSHNLL 144 (314)
T ss_pred ------------------------------------------------------CCCHHHh--CCCEEeecCCCcHHHHH
Confidence 8899999 59999998887766655
Q ss_pred HH---hhCCCCCce-ecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCcccccCceEEEEcCCC--
Q 037761 584 VK---QLNFSRNQT-RPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTDGLGFAFAKDS-- 657 (753)
Q Consensus 584 ~~---~~~~~~~~~-~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s-- 657 (753)
.+ ..+.+...+ ..+.+..+...++.+|+ +|+++...+.......+...++......+......+++++..
T Consensus 145 ~~~l~~~g~~~~dv~~v~~~~~~~~~al~~G~----vDa~~~~ep~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 220 (314)
T PRK11553 145 LRALRKAGLKFTDIQPTYLTPADARAAFQQGN----VDAWAIWDPYYSAALLQGGVRVLKDGTDLNQTGSFYLAARPYAE 220 (314)
T ss_pred HHHHHHcCCCHHHeEEEecChHHHHHHHHcCC----CCEEEEcCcHHHHHHhcCCcEEeecCcccCcCceEEEEcHHHHH
Confidence 43 222222222 23446678899999999 999998887776655543222322233333333333343321
Q ss_pred CCchHhHHHHHHhhhcc
Q 037761 658 PLVSHFSQAILLVRENQ 674 (753)
Q Consensus 658 ~l~~~~n~~i~~l~~~G 674 (753)
...+.+++.+..+.+..
T Consensus 221 ~~p~~v~~~l~a~~~A~ 237 (314)
T PRK11553 221 KNGAFIQQVLATLTEAD 237 (314)
T ss_pred HCHHHHHHHHHHHHHHH
Confidence 25555555555555544
No 126
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=97.67 E-value=0.0021 Score=65.37 Aligned_cols=172 Identities=14% Similarity=0.035 Sum_probs=108.4
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++..-....++++.. +++++|-..+. ....+...+...++|+|......+ ....+ .+.+++...+..++
T Consensus 37 ~~~~~~~~~~~i~~l~~~-~vdgiii~~~~-~~~~~~~~l~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~~~~~~ 108 (268)
T cd06298 37 SDNDKEKELKVLNNLLAK-QVDGIIFMGGK-ISEEHREEFKRSPTPVVLAGSVDE---DNELP---SVNIDYKKAAFEAT 108 (268)
T ss_pred CCCCHHHHHHHHHHHHHh-cCCEEEEeCCC-CcHHHHHHHhcCCCCEEEEccccC---CCCCC---EEEECcHHHHHHHH
Confidence 455677777777777764 88888842222 223455556778999999865321 11222 35677777888889
Q ss_pred HHHHHcCCeEEEEEEeeC---CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCC-ccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYEDT---NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQ-TRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~---~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~-~~vIi~~~~~~ 163 (753)
++|...|-++++++..+. ..+....+.|++.+++.|+.+.....+....+.......+.++.+.. +++|++. +..
T Consensus 109 ~~l~~~g~~~i~~l~~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ai~~~-~d~ 187 (268)
T cd06298 109 ELLIKNGHKKIAFISGPLEDSINGDERLAGYKEALSEANIEFDESLIFEGDYTYESGYELAEELLEDGKPTAAFVT-DDE 187 (268)
T ss_pred HHHHHcCCceEEEEeCCcccccchhHHHHHHHHHHHHcCCCCCHHHeEeCCCChhHHHHHHHHHhcCCCCCEEEEc-CcH
Confidence 988777999999998533 35677788999999998865422111111111223334555665544 6777764 444
Q ss_pred HHHHHHHHHHHcCCCCCCEE-EEEcC
Q 037761 164 LASRLFALVAKNGMMSKGYT-WIVTA 188 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~-wi~~~ 188 (753)
.+..+++++++.|+..++.+ +++.+
T Consensus 188 ~a~~~~~~l~~~g~~vp~di~vvg~d 213 (268)
T cd06298 188 LAIGILNAAQDAGLKVPEDFEIIGFN 213 (268)
T ss_pred HHHHHHHHHHHcCCCCccceEEEeec
Confidence 46778999999998655444 34433
No 127
>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=97.58 E-value=0.004 Score=63.57 Aligned_cols=166 Identities=13% Similarity=0.082 Sum_probs=100.2
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEE-ecCcHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRV-TQNDSLQVKA 85 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~-~p~~~~~~~a 85 (753)
+..++....+....++.+ +|+++|- +..+....+....+...++|+|......+ ....++++.. .+.+...+..
T Consensus 38 ~~~~~~~~~~~~~~l~~~-~vdgiii~~~~~~~~~~~l~~~~~~~iPvV~~~~~~~---~~~~~~v~~~v~~d~~~~g~~ 113 (275)
T cd06317 38 ANGDVARQAAQVEDLIAQ-KVDGIILWPTDGQAYIPGLRKAKQAGIPVVITNSNIS---EKGFEFIKSFTGPDDISQGER 113 (275)
T ss_pred CCcCHHHHHHHHHHHHHc-CCCEEEEecCCccccHHHHHHHHHCCCcEEEeCCCCC---CCccchhhhhccccHHHHHHH
Confidence 556788888888888876 7998754 44444444555666789999998764321 1223444333 3445566777
Q ss_pred HHHHHHHc--CCeEEEEEEeeCCc--ccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc---CCccEEEE
Q 037761 86 ISAVLQNF--SWHEVVLMYEDTNY--GAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST---MQTRVFIV 158 (753)
Q Consensus 86 ~~~~l~~~--~w~~vail~~d~~~--g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~---~~~~vIi~ 158 (753)
+++.+... |-++++++....++ +....+.+++.++++|..+..........+..+....+.++.+ ..+++|++
T Consensus 114 ~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~ 193 (275)
T cd06317 114 SAEAMCKALGGKGQIVVIAGQPGNGTAIERQKGFEDELAEVCPGVEVLDTQPADWDREKAQVAMEALITKFGDDIDGVYA 193 (275)
T ss_pred HHHHHHHHcCCCceEEEEecCCCCchHHHHHHHHHHHHHhhCCCCEEEeccCCCCCHHHHHHHHHHHHHhCCCCccEEEE
Confidence 77777444 77899999764333 3455688999999986433222222111112233334444432 23576665
Q ss_pred EeChHHHHHHHHHHHHcCCC
Q 037761 159 HMNTALASRLFALVAKNGMM 178 (753)
Q Consensus 159 ~~~~~~~~~~~~~a~~~g~~ 178 (753)
. +...+..+++++++.|+.
T Consensus 194 ~-~d~~a~g~~~~l~~~g~~ 212 (275)
T cd06317 194 G-DDNMARGALNAAKEAGLA 212 (275)
T ss_pred C-CCcHHHHHHHHHHhcCCc
Confidence 4 444467789999999975
No 128
>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=97.58 E-value=0.003 Score=64.32 Aligned_cols=163 Identities=15% Similarity=0.162 Sum_probs=101.8
Q ss_pred HHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHc
Q 037761 14 GKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNF 93 (753)
Q Consensus 14 ~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~ 93 (753)
.....+.+++...+|+++|....+.........+...++|+|......+. ...++ +..+....+..+++++...
T Consensus 43 ~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvv~i~~~~~~---~~~~~---V~~d~~~~g~~a~~~l~~~ 116 (270)
T cd01545 43 DLAERVRALLQRSRVDGVILTPPLSDNPELLDLLDEAGVPYVRIAPGTPD---PDSPC---VRIDDRAAAREMTRHLIDL 116 (270)
T ss_pred HHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHHhcCCCEEEEecCCCC---CCCCe---EEeccHHHHHHHHHHHHHC
Confidence 35666777676679999987554433445556677899999988654321 12222 4556777778888988778
Q ss_pred CCeEEEEEEeeCCcc--cchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc--CCccEEEEEeChHHHHHHH
Q 037761 94 SWHEVVLMYEDTNYG--AGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST--MQTRVFIVHMNTALASRLF 169 (753)
Q Consensus 94 ~w~~vail~~d~~~g--~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIi~~~~~~~~~~~~ 169 (753)
|.++++++..+..+. ....+.|.+.+++.|+.+..........+..+-...+.++.+ .++++|+. ++...+..++
T Consensus 117 g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~-~~d~~a~~~~ 195 (270)
T cd01545 117 GHRRIAFIAGPPDHRASAERLEGYRDALAEAGLPLDPELVAQGDFTFESGLEAAEALLALPDRPTAIFA-SNDDMAAGVL 195 (270)
T ss_pred CCceEEEEeCCCCchhHHHHHHHHHHHHHHcCCCCChhhEEeCCCChhhHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHH
Confidence 999999998654432 344677888998888765211011111111222234455443 34676664 4556677899
Q ss_pred HHHHHcCCCCCCEE
Q 037761 170 ALVAKNGMMSKGYT 183 (753)
Q Consensus 170 ~~a~~~g~~~~~~~ 183 (753)
+.+++.|+..++.+
T Consensus 196 ~~~~~~g~~~p~~i 209 (270)
T cd01545 196 AVAHRRGLRVPDDL 209 (270)
T ss_pred HHHHHcCCCCCCce
Confidence 99999997544433
No 129
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=97.56 E-value=0.0047 Score=63.00 Aligned_cols=173 Identities=12% Similarity=-0.037 Sum_probs=106.1
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCC-CCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQ-IPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~-~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
++.++.........++.+ +++++|... .+.....+...+...++|+|......+. +.+..+..++...++.+
T Consensus 37 ~~~~~~~~~~~l~~~~~~-~vdgii~~~~~~~~~~~~i~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~ 109 (273)
T cd06305 37 AGGDDAKQADQIDQAIAQ-KVDAIIIQHGRAEVLKPWVKRALDAGIPVVAFDVDSDN------PKVNNTTQDDYSLARLS 109 (273)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEecCChhhhHHHHHHHHHcCCCEEEecCCCCC------CccceeeechHHHHHHH
Confidence 667888888888888876 899988743 3333344445567889999998653221 22344677888888889
Q ss_pred HHHHHH--cCCeEEEEEEee-CCcccchHHHHHHHHHhCC-eEEEEeeccCCCCchhhHHHHHHHHhcCCccE--E-EEE
Q 037761 87 SAVLQN--FSWHEVVLMYED-TNYGAGFISFLVDELQEND-IRISHMSKIPTSAEDFQISKELSKLSTMQTRV--F-IVH 159 (753)
Q Consensus 87 ~~~l~~--~~w~~vail~~d-~~~g~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~v--I-i~~ 159 (753)
++++.. .|.++++++... ........+.+.+.+++.+ +.+..........+..+....+.++....+++ - +++
T Consensus 110 ~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~ 189 (273)
T cd06305 110 LDQLVKDLGGKGNVGYVNVAGFPPLDRRYDVWQAVLKAYPGIKEVAELGDVSNNTAQDAAAQVEAVLKKYPKGGIDAIWA 189 (273)
T ss_pred HHHHHHHhCCCCCEEEEEccCCchHHHHHHHHHHHHHHCCCcEEecccccccccchhHHHHHHHHHHHHCCCcccCeEEE
Confidence 998855 588999999753 2223444567888888877 55443221111112234445555654444443 2 333
Q ss_pred eChHHHHHHHHHHHHcCCCCCCEEEEEcC
Q 037761 160 MNTALASRLFALVAKNGMMSKGYTWIVTA 188 (753)
Q Consensus 160 ~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 188 (753)
.+...+..+++.+++.|+.. +...++.+
T Consensus 190 ~~d~~a~g~~~~l~~~g~~~-di~iig~d 217 (273)
T cd06305 190 AWDEFAKGAKQALDEAGRTD-EIKIYGVD 217 (273)
T ss_pred cChhhhHHHHHHHHHcCCCC-CceEEEec
Confidence 34445666888899999742 33344443
No 130
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=97.49 E-value=0.0043 Score=65.40 Aligned_cols=207 Identities=9% Similarity=0.099 Sum_probs=130.6
Q ss_pred HHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHc
Q 037761 14 GKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNF 93 (753)
Q Consensus 14 ~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~ 93 (753)
+.+..+..-+.++++..||||.--....++..--. ..+|++.-..++..- ..+-..-+.-+.+.+++..++.+-.-
T Consensus 306 ~~l~~i~aqaqq~G~~~VVGPLlK~nVe~L~~~~q-~~i~vLALN~~~n~r---~~~~~cyfaLSPEDEa~~AA~~l~~q 381 (604)
T COG3107 306 QPLDAILAQAQQDGADFVVGPLLKPNVEALLASNQ-QPIPVLALNQPENSR---NPAQLCYFALSPEDEARDAANHLWDQ 381 (604)
T ss_pred ccHHHHHHHHHhcCCcEEeccccchhHHHHHhCcC-CCCceeeecCCcccc---CcccceeeecChhHHHHHHHHHHHHc
Confidence 34455555666789999999999888777654433 778888765433221 22334445666778889999999888
Q ss_pred CCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHH-----------------------HHHhc
Q 037761 94 SWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKEL-----------------------SKLST 150 (753)
Q Consensus 94 ~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l-----------------------~~l~~ 150 (753)
|.+...++...+++|+..+++|.+++++.|+..+..+.|.. ..++..-+ ..+.+
T Consensus 382 G~R~plvlvPr~~lG~Rv~~AF~~~Wq~~gg~~v~~~~fg~---~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~ 458 (604)
T COG3107 382 GKRNPLVLVPRNDLGDRVANAFNQEWQKLGGGTVLQQKFGS---TSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDD 458 (604)
T ss_pred cccCceEEecchHHHHHHHHHHHHHHHHhcCCchhHhhcCc---HHHHHhhcccccceeecCCccchhcccCCCCCCccc
Confidence 99999999999999999999999999999886655555432 11111111 12233
Q ss_pred CC-ccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcccccccCCChhHHhhcccEEEEEE---eCCCChhhhHHHH
Q 037761 151 MQ-TRVFIVHMNTALASRLFALVAKNGMMSKGYTWIVTACLSNSLNVLDSEVIDSMEGVLGVRS---HLPKSKELGLFDR 226 (753)
Q Consensus 151 ~~-~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~~~~~~~~~~~~~~~~g~i~~~~---~~~~~~~~~~F~~ 226 (753)
.. .|.|++...+.+++.+--.+.-.+.. ....-+.++....... .++.....+|+-.-.. ..+..|..+....
T Consensus 459 ~d~iDaVyivAtp~el~~IKP~ia~~~~~-~~~p~yaSSr~~~gT~--~P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~ 535 (604)
T COG3107 459 QDTIDAVYIVATPSELALIKPMIAMANGS-DSPPLYASSRSSQGTN--GPDFRLEMEGIQYSDIPWLAQPNPPLMQQAAA 535 (604)
T ss_pred ccccceEEEEecchhHhHHhhHHHhhcCC-CCcceeeeccccccCC--CccHHHhccCccccCCchhcCCCchHHHHHHH
Confidence 33 78999999998888776655544432 2223334333221111 1334456677654332 2234466665555
Q ss_pred HHHH
Q 037761 227 RWKS 230 (753)
Q Consensus 227 ~~~~ 230 (753)
.|.+
T Consensus 536 ~~p~ 539 (604)
T COG3107 536 AWPN 539 (604)
T ss_pred hcCC
Confidence 5543
No 131
>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein. This model identifies a cluster of ABC transporter periplasmic substrate binding proteins, apparently specific for taurine. Transport systems for taurine (NH2-CH2-CH2-SO3H), sulfonates, and sulfate esters import sulfur when sulfate levels are low. The most closely related proteins outside this family are putative aliphatic sulfonate binding proteins (TIGR01728).
Probab=97.47 E-value=0.00083 Score=69.73 Aligned_cols=173 Identities=14% Similarity=0.118 Sum_probs=100.1
Q ss_pred HHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeee-cccceeee----ccccccccceEEE
Q 037761 417 ATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIV-ASRTDYVE----FTLPYSESGVTML 491 (753)
Q Consensus 417 ~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t-~~r~~~~~----fs~p~~~~~~~~~ 491 (753)
.+++ ++|++++ +... .++..++.+|..|++|++..+.... ..+.+... +...+......++
T Consensus 20 ~~~k----~~Gl~Ve--~~~~--------~~~~~~~~al~~G~iD~~~~~~~~~~~a~~~g~~~~~v~~~~~~~~~~~lv 85 (300)
T TIGR01729 20 AAAK----EAGATID--WRKF--------DSGADISTALASGNVPIGVIGSSPLAAAASRGVPIELFWILDNIGKSEALV 85 (300)
T ss_pred chHH----hcCCeeE--EEec--------CcHHHHHHHHHcCCCCEeccCCCHHHHHHHCCCCeEEEEEeccCCccceEE
Confidence 4556 7886544 4444 2578999999999999997554332 12222222 2223333345666
Q ss_pred EecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeE
Q 037761 492 VPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFV 571 (753)
Q Consensus 492 v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~ 571 (753)
+++.+ .|++++|| .|+++
T Consensus 86 ~~~~s------------------------------------------------------------~I~s~~DL--kGK~I 103 (300)
T TIGR01729 86 AREGS------------------------------------------------------------GIEKPEDL--KGKNV 103 (300)
T ss_pred ecCCC------------------------------------------------------------CCCChhHc--CCCEE
Confidence 66554 38999999 59999
Q ss_pred EEecCchHHHHHHH---hhCCCCCceec-CCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCcc--cc
Q 037761 572 GFQSGSFVEDFLVK---QLNFSRNQTRP-LSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPI--YR 645 (753)
Q Consensus 572 ~~~~~~~~~~~~~~---~~~~~~~~~~~-~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~--~~ 645 (753)
|+..++..+.++.+ ..+.....+.. .....+...++.+|+ +|+++...+......+... .+...... ..
T Consensus 104 gv~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~G~----vDa~~~~~p~~~~~~~~g~-~~~~~~~~~~~~ 178 (300)
T TIGR01729 104 AVPFVSTTHYSLLAALKHWKTDPREVNILNLKPPQIVAAWQRGD----IDAAYVWPPALSELLKSGK-VISDSEQVGAWG 178 (300)
T ss_pred EeCCCCcHHHHHHHHHHHcCCChhheEEEecCcHHHHHHHHcCC----cCEEEEecHHHHHHHhcCc-EEecchhccccC
Confidence 99877665543332 22332222221 224678899999999 9999998887665554321 11111111 11
Q ss_pred -cCceEEEEcCC----CC-CchHhHHHHHHh
Q 037761 646 -TDGLGFAFAKD----SP-LVSHFSQAILLV 670 (753)
Q Consensus 646 -~~~~~~~~~k~----s~-l~~~~n~~i~~l 670 (753)
....+++++++ +| +.+.|.+++.+.
T Consensus 179 ~~~~~~~~~~~~~~~~~p~~~~~~~~a~~~a 209 (300)
T TIGR01729 179 APTFDGWVVRKDFAEKNPEFVAAFTKVLADA 209 (300)
T ss_pred CCceeEEEECHHHHHHCHHHHHHHHHHHHHH
Confidence 11234566544 55 666666665554
No 132
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=97.47 E-value=0.0054 Score=62.29 Aligned_cols=166 Identities=13% Similarity=0.128 Sum_probs=102.9
Q ss_pred HHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHH
Q 037761 13 CGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQN 92 (753)
Q Consensus 13 ~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~ 92 (753)
....+.+.+++.+.+|+++|...+..... ....+...++|+|......+ +..+++ +.+++...+..+++++..
T Consensus 45 ~~~~~~~~~~~~~~~vdgiii~~~~~~~~-~~~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~ 117 (268)
T cd06271 45 EDPLEVYRRLVESGLVDGVIISRTRPDDP-RVALLLERGFPFVTHGRTEL---GDPHPW---VDFDNEAAAYQAVRRLIA 117 (268)
T ss_pred HHHHHHHHHHHHcCCCCEEEEecCCCCCh-HHHHHHhcCCCEEEECCcCC---CCCCCe---EeeCcHHHHHHHHHHHHH
Confidence 44556677888776899988644332222 23455678999998854322 223343 456777788888988877
Q ss_pred cCCeEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChHHHHHH
Q 037761 93 FSWHEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTALASRL 168 (753)
Q Consensus 93 ~~w~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~~~~~~ 168 (753)
.|.++++++..... .+....+.|++.+++.|+.+.....+....+.......+.++.+. .+++|+... ...+..+
T Consensus 118 ~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~-d~~a~g~ 196 (268)
T cd06271 118 LGHRRIALLNPPEDLTFAQHRRAGYRRALAEAGLPLDPALIVSGDMTEEGGYAAAAELLALPDRPTAIVCSS-ELMALGV 196 (268)
T ss_pred cCCCcEEEecCccccchHHHHHHHHHHHHHHhCCCCCCceEEeCCCChHHHHHHHHHHHhCCCCCCEEEEcC-cHHHHHH
Confidence 89999999975432 345567889999999886542111111111222333455555432 367666654 4456678
Q ss_pred HHHHHHcCCCCCCEEEEE
Q 037761 169 FALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 169 ~~~a~~~g~~~~~~~wi~ 186 (753)
++++++.|+..++.+-+.
T Consensus 197 ~~al~~~g~~vp~~i~ii 214 (268)
T cd06271 197 LAALAEAGLRPGRDVSVV 214 (268)
T ss_pred HHHHHHhCCCCCcceeEE
Confidence 899999998655544444
No 133
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.45 E-value=0.0039 Score=63.39 Aligned_cols=168 Identities=10% Similarity=0.075 Sum_probs=103.1
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
+..++..-.....+++++ +|+++|...+......+...+...++|+|......+ +...+ .+.++....+..++
T Consensus 37 ~~~~~~~~~~~i~~~~~~-~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~~~~~~ 109 (268)
T cd06289 37 SGEDVERQEQLLSTMLEH-GVAGIILCPAAGTSPDLLKRLAESGIPVVLVAREVA---GAPFD---YVGPDNAAGARLAT 109 (268)
T ss_pred CCCChHHHHHHHHHHHHc-CCCEEEEeCCCCccHHHHHHHHhcCCCEEEEeccCC---CCCCC---EEeecchHHHHHHH
Confidence 445676666677777765 899988755544333455567788999998754322 11222 35667777888888
Q ss_pred HHHHHcCCeEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~ 163 (753)
+++...|-++++++..+. .......+.|.+.+++.|+.+.....+....+.......+.++.+. .+++|+.. +..
T Consensus 110 ~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~ 188 (268)
T cd06289 110 EHLISLGHRRIAFIGGLEDSSTRRERLAGYRAALAEAGLPFDSELVVEGPPSRQGGAEAVAQLLDLPPRPTAIVCF-NDL 188 (268)
T ss_pred HHHHHCCCCCEEEecCCccccchHHHHHHHHHHHHHcCCCCCchhEEecCcchhhHHHHHHHHHcCCCCCCEEEEc-CcH
Confidence 888777999999987533 3455677899999998885322111111111122233444554433 45665544 444
Q ss_pred HHHHHHHHHHHcCCCCCCEE
Q 037761 164 LASRLFALVAKNGMMSKGYT 183 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~ 183 (753)
.+..+++++++.|+..++.+
T Consensus 189 ~a~~~~~al~~~g~~~p~di 208 (268)
T cd06289 189 VAFGAMSGLRRAGLTPGRDI 208 (268)
T ss_pred HHHHHHHHHHHcCCCCCcce
Confidence 46668899999997654443
No 134
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=97.43 E-value=0.0097 Score=60.66 Aligned_cols=173 Identities=11% Similarity=0.062 Sum_probs=106.9
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEE-cCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAII-GPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~avi-G~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
...++..-.+...+++.. +|+++| .|..+.....+...+...++|+|......+.. .+.+..+..++...+..+
T Consensus 38 ~~~~~~~~~~~i~~l~~~-~vdgiii~~~~~~~~~~~~~~l~~~~iPvv~~~~~~~~~----~~~~~~V~~d~~~~g~~~ 112 (272)
T cd06301 38 AKNDVATQLSQVENFIAQ-GVDAIIVVPVDTAATAPIVKAANAAGIPLVYVNRRPENA----PKGVAYVGSDEVVAGRLQ 112 (272)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEecCchhhhHHHHHHHHHCCCeEEEecCCCCCC----CCeeEEEecChHHHHHHH
Confidence 456788888888888876 899876 55554444455566788999999876432211 123455777888888888
Q ss_pred HHHHHHc--CCeEEEEEEeeC--CcccchHHHHHHHHHhCC-eEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEE
Q 037761 87 SAVLQNF--SWHEVVLMYEDT--NYGAGFISFLVDELQEND-IRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVH 159 (753)
Q Consensus 87 ~~~l~~~--~w~~vail~~d~--~~g~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~ 159 (753)
+++|... +-++++++.... .......+.|++.+++.| +.+... .....+...-...+.++.+. .+++|++
T Consensus 113 ~~~l~~~~~~~~~i~~i~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~- 189 (272)
T cd06301 113 AEYVADKLGGKGNVAILMGPLGQSAQIDRTKGVEEVLAKYPDIKVVEE--QTANWSRAEAMDLMENWLSSGGKIDAVVA- 189 (272)
T ss_pred HHHHHHHhCCCccEEEEECCCCCccHHHHHHHHHHHHHHCCCcEEEec--CCCCccHHHHHHHHHHHHHhCCCCCEEEE-
Confidence 8988554 456999997543 234555688999999887 443322 11111222223445554433 3565433
Q ss_pred eChHHHHHHHHHHHHcCCCCCCEEEEEcC
Q 037761 160 MNTALASRLFALVAKNGMMSKGYTWIVTA 188 (753)
Q Consensus 160 ~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 188 (753)
.+...+..+++.+++.|+.+.+...++.+
T Consensus 190 ~~d~~a~~~~~~l~~~g~~~~di~ivg~d 218 (272)
T cd06301 190 NNDEMALGAIMALKAAGKSDKDVPVAGID 218 (272)
T ss_pred CCCchHHHHHHHHHHcCCCCCCcEEEeeC
Confidence 34445567889999999863243444443
No 135
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=97.43 E-value=0.012 Score=60.04 Aligned_cols=173 Identities=11% Similarity=0.073 Sum_probs=107.3
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
..++..-.+....++.+ +++++|- +..+.........+...++|+|......+.. ...+++.++.+++...+..++
T Consensus 38 ~~~~~~~~~~i~~l~~~-~vdgiIi~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~~--~~~~~~~~v~~d~~~~g~~~~ 114 (273)
T cd06309 38 QQKQENQISAIRSFIAQ-GVDVIILAPVVETGWDPVLKEAKAAGIPVILVDRGVDVK--DDSLYVTFIGSDFVEEGRRAA 114 (273)
T ss_pred CCCHHHHHHHHHHHHHc-CCCEEEEcCCccccchHHHHHHHHCCCCEEEEecCcCCc--cCcceeeEecCChHHHHHHHH
Confidence 34666666777787776 7888764 4443333444456778899999987532211 112456778889999999999
Q ss_pred HHHHHc--CCeEEEEEEeeCC--cccchHHHHHHHHHhC-CeEEEEeeccCCCCchhhHHHHHHHHhcC---CccEEEEE
Q 037761 88 AVLQNF--SWHEVVLMYEDTN--YGAGFISFLVDELQEN-DIRISHMSKIPTSAEDFQISKELSKLSTM---QTRVFIVH 159 (753)
Q Consensus 88 ~~l~~~--~w~~vail~~d~~--~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vIi~~ 159 (753)
++|... |-++++++..+.. ......+.|++.+++. ++++...... ..+..+....+.++.+. .+++|+..
T Consensus 115 ~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~~aI~~~ 192 (273)
T cd06309 115 DWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAEVIKKYPNMKIVASQTG--DFTRAKGKEVMEALLKAHGDDIDAVYAH 192 (273)
T ss_pred HHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHHHHHHCCCCEEeeccCC--cccHHHHHHHHHHHHHhCCCCccEEEEC
Confidence 988665 8889999975432 2345567889999987 4554432111 11223334445555433 34544333
Q ss_pred eChHHHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 160 MNTALASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 160 ~~~~~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
+...+..+++++++.|+..++.+-|.+
T Consensus 193 -~d~~a~g~~~a~~~~g~~ip~di~iig 219 (273)
T cd06309 193 -NDEMALGAIQAIKAAGKKPGKDIKIVS 219 (273)
T ss_pred -CcHHHHHHHHHHHHcCCCCCCCeEEEe
Confidence 444455688889999987555554444
No 136
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=97.41 E-value=0.0076 Score=63.47 Aligned_cols=168 Identities=14% Similarity=0.065 Sum_probs=103.5
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
..++..-....+.++.+ +|+++|--. ......+...+...++|+|..+...+ ...++ .+..++...+..+++
T Consensus 98 ~~~~~~~~~~~~~l~~~-~vdGiIi~~-~~~~~~~~~~l~~~~iPvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~ 169 (329)
T TIGR01481 98 DEDPEKEVQVLNTLLSK-QVDGIIFMG-GTITEKLREEFSRSPVPVVLAGTVDK---ENELP---SVNIDYKQATKEAVG 169 (329)
T ss_pred CCCHHHHHHHHHHHHhC-CCCEEEEeC-CCCChHHHHHHHhcCCCEEEEecCCC---CCCCC---EEEECcHHHHHHHHH
Confidence 34555555555666654 888877311 11223444556678999998764321 11222 356677777788888
Q ss_pred HHHHcCCeEEEEEEeeC--C-cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHH
Q 037761 89 VLQNFSWHEVVLMYEDT--N-YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALA 165 (753)
Q Consensus 89 ~l~~~~w~~vail~~d~--~-~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~ 165 (753)
+|...|.++++++.... . .+....+.|++.+++.|+.+..........+..+-...+.++.+.++++|++..+ ..+
T Consensus 170 ~L~~~G~~~I~~i~g~~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~ll~~~p~ai~~~~d-~~A 248 (329)
T TIGR01481 170 ELIAKGHKSIAFVGGPLSDSINGEDRLEGYKEALNKAGIQFGEDLVCEGKYSYDAGYKAFAELKGSLPTAVFVASD-EMA 248 (329)
T ss_pred HHHHCCCCeEEEEecCcccccchHHHHHHHHHHHHHcCCCCCcceEEecCCChHHHHHHHHHHhCCCCCEEEEcCc-HHH
Confidence 88888999999997432 2 2466778899999999876432111111112223344566666667887776544 466
Q ss_pred HHHHHHHHHcCCCCCCEEEE
Q 037761 166 SRLFALVAKNGMMSKGYTWI 185 (753)
Q Consensus 166 ~~~~~~a~~~g~~~~~~~wi 185 (753)
..+++++++.|+..++.+-|
T Consensus 249 ~g~~~al~~~g~~vP~dvsv 268 (329)
T TIGR01481 249 AGILNAAMDAGIKVPEDLEV 268 (329)
T ss_pred HHHHHHHHHcCCCCCCceEE
Confidence 78999999999865544433
No 137
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.40 E-value=0.01 Score=60.56 Aligned_cols=161 Identities=13% Similarity=0.085 Sum_probs=105.4
Q ss_pred ChHHHHHHHHHHHhcCCeEEEEcCCCCC-cHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHH
Q 037761 11 KDCGKLILAVDLLKKFQVQAIIGPQIPA-AAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAV 89 (753)
Q Consensus 11 ~~~~a~~~a~~Li~~~~V~aviG~~~s~-~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~ 89 (753)
++.........|+.+ +++++|....+. ........+...++|+|......+... ..+.+..+..++...+..++++
T Consensus 42 ~~~~~~~~i~~l~~~-~vdgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~~~~--~~~~~~~V~~d~~~~g~~~~~~ 118 (271)
T cd06312 42 DVADMARLIEAAIAA-KPDGIVVTIPDPDALDPAIKRAVAAGIPVISFNAGDPKYK--ELGALAYVGQDEYAAGEAAGER 118 (271)
T ss_pred CHHHHHHHHHHHHHh-CCCEEEEeCCChHHhHHHHHHHHHCCCeEEEeCCCCCccc--cccceEEeccChHHHHHHHHHH
Confidence 788788888888876 899888643332 223444555778999999865332211 1234566788889999999999
Q ss_pred HHH-cCCeEEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChHH
Q 037761 90 LQN-FSWHEVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTAL 164 (753)
Q Consensus 90 l~~-~~w~~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~~ 164 (753)
|.+ .|-++++++..+ +..+....+.+++.++++|+.+.... . ..+..+....+.++.+. ++++|+... ...
T Consensus 119 l~~~~g~~~i~~i~g~~~~~~~~~r~~g~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~~~l~~~~~~~aI~~~~-d~~ 194 (271)
T cd06312 119 LAELKGGKNVLCVIHEPGNVTLEDRCAGFADGLGGAGITEEVIE--T-GADPTEVASRIAAYLRANPDVDAVLTLG-APS 194 (271)
T ss_pred HHHhcCCCeEEEEecCCCCccHHHHHHHHHHHHHhcCceeeEee--c-CCCHHHHHHHHHHHHHhCCCccEEEEeC-Ccc
Confidence 977 899999999753 33456678889999999887543211 1 12223344455555433 356555544 344
Q ss_pred HHHHHHHHHHcCCC
Q 037761 165 ASRLFALVAKNGMM 178 (753)
Q Consensus 165 ~~~~~~~a~~~g~~ 178 (753)
+..+++.+++.|+.
T Consensus 195 a~g~~~al~~~g~~ 208 (271)
T cd06312 195 AAPAAKALKQAGLK 208 (271)
T ss_pred chHHHHHHHhcCCC
Confidence 66688888898975
No 138
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=97.33 E-value=0.01 Score=60.14 Aligned_cols=166 Identities=10% Similarity=0.001 Sum_probs=99.0
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++.........++.+ +|+++|......... ..... ..++|+|..+...+ . +.+..+..++...+..++
T Consensus 37 ~~~~~~~~~~~~~~~~~~-~vdgiii~~~~~~~~-~~~~~-~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~ 107 (267)
T cd06284 37 TRSDPEREQEYLDLLRRK-QADGIILLDGSLPPT-ALTAL-AKLPPIVQACEYIP---G---LAVPSVSIDNVAAARLAV 107 (267)
T ss_pred CCCChHHHHHHHHHHHHc-CCCEEEEecCCCCHH-HHHHH-hcCCCEEEEecccC---C---CCcceEEecccHHHHHHH
Confidence 445666555555555554 899888633322222 22223 45999998753211 1 223346777788888899
Q ss_pred HHHHHcCCeEEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~ 163 (753)
+++...|.++++++..+ +..+....+.|.+.+++.|+++..........+..+....+.++.+. .+++|+.. +..
T Consensus 108 ~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~ 186 (267)
T cd06284 108 DHLISLGHRRIALITGPRDNPLARDRLEGYRQALAEAGLPADEELIQEGDFSLESGYAAARRLLALPDRPTAIFCF-SDE 186 (267)
T ss_pred HHHHHcCCceEEEEcCCccchhHHHHHHHHHHHHHHcCCCCCcceEEeCCCChHHHHHHHHHHHhCCCCCcEEEEc-CcH
Confidence 98877799999999764 33566678889999999885432111111111122333445554433 45666665 444
Q ss_pred HHHHHHHHHHHcCCCCCCEE
Q 037761 164 LASRLFALVAKNGMMSKGYT 183 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~ 183 (753)
.+..+++++++.|+..++.+
T Consensus 187 ~a~g~~~al~~~g~~~p~~v 206 (267)
T cd06284 187 MAIGAISALKELGLRVPEDI 206 (267)
T ss_pred HHHHHHHHHHHcCCCCccce
Confidence 46678899999997544433
No 139
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=97.29 E-value=0.024 Score=58.64 Aligned_cols=171 Identities=11% Similarity=0.091 Sum_probs=101.9
Q ss_pred CCCChHHHHHHHHHHHhcCCeEE-EEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQA-IIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~a-viG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
.+.++.......++++.+ ++++ +++|..+.........+...++|+|....... ..+.+..+.+++...+..+
T Consensus 64 ~~~d~~~~~~~~~~l~~~-~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~-----~~~~~~~V~~D~~~~g~~~ 137 (295)
T PRK10653 64 SQNNPAKELANVQDLTVR-GTKILLINPTDSDAVGNAVKMANQANIPVITLDRGAT-----KGEVVSHIASDNVAGGKMA 137 (295)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEcCCChHHHHHHHHHHHHCCCCEEEEccCCC-----CCceeeEEccChHHHHHHH
Confidence 556788888888888776 6764 45555444434555677788999999864221 1122445566666667888
Q ss_pred HHHHHH-cCC-eEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC-
Q 037761 87 SAVLQN-FSW-HEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN- 161 (753)
Q Consensus 87 ~~~l~~-~~w-~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~- 161 (753)
++++.. .+. .+++++..+. .......+.|++.+++.|+.+..... ...+..+....+.++.+..++.-.+++.
T Consensus 138 ~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~gf~~al~~~g~~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 215 (295)
T PRK10653 138 GDFIAKKLGEGAKVIQLEGIAGTSAARERGEGFKQAVAAHKFNVLASQP--ADFDRTKGLNVMQNLLTAHPDVQAVFAQN 215 (295)
T ss_pred HHHHHHHhCCCceEEEEEccCCCccHHHHHHHHHHHHhhCCCEEEEecC--CCCCHHHHHHHHHHHHHhCCCcCEEEECC
Confidence 887754 354 2566655322 23456678899999999987653221 1212233444556665544443333333
Q ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEcC
Q 037761 162 TALASRLFALVAKNGMMSKGYTWIVTA 188 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~~~~~~wi~~~ 188 (753)
...+..+++++++.|+ .+...++.+
T Consensus 216 d~~A~g~l~al~~~G~--~dv~vig~d 240 (295)
T PRK10653 216 DEMALGALRALQTAGK--SDVMVVGFD 240 (295)
T ss_pred ChhHHHHHHHHHHcCC--CceEEEEeC
Confidence 3344468899999996 343444433
No 140
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=97.23 E-value=0.0099 Score=60.03 Aligned_cols=166 Identities=14% Similarity=0.131 Sum_probs=112.9
Q ss_pred cCCCChHHHHHHHHHHHhcCCeEEEE-cCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHH
Q 037761 7 LKQFKDCGKLILAVDLLKKFQVQAII-GPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKA 85 (753)
Q Consensus 7 ~d~~~~~~a~~~a~~Li~~~~V~avi-G~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a 85 (753)
..+.|+.+-.+...+++.+ ++++|| .|..+........-+...+||+|...+. .....+....+.++....+..
T Consensus 36 ~~~~d~~~q~~~i~~~i~~-~~d~Iiv~~~~~~~~~~~l~~~~~~gIpvv~~d~~----~~~~~~~~~~v~~d~~~~G~~ 110 (257)
T PF13407_consen 36 DAQNDPEEQIEQIEQAISQ-GVDGIIVSPVDPDSLAPFLEKAKAAGIPVVTVDSD----EAPDSPRAAYVGTDNYEAGKL 110 (257)
T ss_dssp ESTTTHHHHHHHHHHHHHT-TESEEEEESSSTTTTHHHHHHHHHTTSEEEEESST----HHTTSTSSEEEEE-HHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHh-cCCEEEecCCCHHHHHHHHHHHhhcCceEEEEecc----ccccccceeeeeccHHHHHHH
Confidence 3778899999999999987 799877 6777777777778889999999998654 111224456677888899999
Q ss_pred HHHHHH-HcCC-eEEEEEEeeCCc--ccchHHHHHHHHHh-CCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 86 ISAVLQ-NFSW-HEVVLMYEDTNY--GAGFISFLVDELQE-NDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 86 ~~~~l~-~~~w-~~vail~~d~~~--g~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
+++++. ..+- .+++++.....+ .....+.+++.+++ .++++..... ....+..+....+.++.+.++-..++++
T Consensus 111 ~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~l~~~~~~~i~~~ 189 (257)
T PF13407_consen 111 AAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDALKEYPGVEIVDEYE-YTDWDPEDARQAIENLLQANPVDAIIAC 189 (257)
T ss_dssp HHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHHHHHCTTEEEEEEEE-ECTTSHHHHHHHHHHHHHHTTEEEEEES
T ss_pred HHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHHHhhcceeeeeeeee-ccCCCHHHHHHHHHHhhhcCCceEEEeC
Confidence 999874 3332 688888654333 34567888889988 4666655322 2223455666666666554442233455
Q ss_pred ChHHHHHHHHHHHHcCCC
Q 037761 161 NTALASRLFALVAKNGMM 178 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~ 178 (753)
+...+..+++.+++.|+.
T Consensus 190 ~~~~~~g~~~al~~~g~~ 207 (257)
T PF13407_consen 190 NDGMALGAAQALQQAGRA 207 (257)
T ss_dssp SHHHHHHHHHHHHHTTCT
T ss_pred CChHHHHHHHHHHHcCCc
Confidence 666667789999999973
No 141
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=97.21 E-value=0.016 Score=58.60 Aligned_cols=166 Identities=13% Similarity=0.046 Sum_probs=107.3
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++..-....++|+.+ +++++|...... ...+...+...++|+|......+ . +..+.++....+..++
T Consensus 37 ~~~~~~~~~~~i~~l~~~-~~dgii~~~~~~-~~~~~~~~~~~~ipvv~~~~~~~-----~---~~~v~~d~~~~~~~~~ 106 (259)
T cd01542 37 TNFSIEKEIEALELLARQ-KVDGIILLATTI-TDEHREAIKKLNVPVVVVGQDYP-----G---ISSVVYDDYGAGYELG 106 (259)
T ss_pred CCCCHHHHHHHHHHHHhc-CCCEEEEeCCCC-CHHHHHHHhcCCCCEEEEeccCC-----C---CCEEEECcHHHHHHHH
Confidence 456777777778887765 899988643332 23455666777999999864221 1 2336677888889999
Q ss_pred HHHHHcCCeEEEEEEee-C--CcccchHHHHHHHHHhCCe-EEEEeeccCCCCchhhHHHHHHHHhcCC-ccEEEEEeCh
Q 037761 88 AVLQNFSWHEVVLMYED-T--NYGAGFISFLVDELQENDI-RISHMSKIPTSAEDFQISKELSKLSTMQ-TRVFIVHMNT 162 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d-~--~~g~~~~~~~~~~~~~~g~-~v~~~~~~~~~~~~~d~~~~l~~l~~~~-~~vIi~~~~~ 162 (753)
++|...|.++++++... + ..+....+.|++.+++.|. ...... . ..+...-...+.++.+.. +++|+... .
T Consensus 107 ~~l~~~g~~~i~~v~~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~~~l~~~~~~~i~~~~-d 182 (259)
T cd01542 107 EYLAQQGHKNIAYLGVSESDIAVGILRKQGYLDALKEHGICPPNIVE--T-DFSYESAYEAAQELLEPQPPDAIVCAT-D 182 (259)
T ss_pred HHHHHcCCCcEEEEcCCcccchhHHHHHHHHHHHHHHcCCChHHeee--c-cCchhhHHHHHHHHhcCCCCCEEEEcC-c
Confidence 99877899999998642 2 2335567889999999887 211111 1 111223334555554444 67666665 4
Q ss_pred HHHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 163 ALASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 163 ~~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
..+..+++.+++.|+..++.+.+.+
T Consensus 183 ~~a~g~~~~l~~~g~~vp~di~v~g 207 (259)
T cd01542 183 TIALGAMKYLQELGRRIPEDISVAG 207 (259)
T ss_pred HHHHHHHHHHHHcCCCCCCceEEEe
Confidence 4566788899999987666666654
No 142
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=97.21 E-value=0.018 Score=58.48 Aligned_cols=170 Identities=12% Similarity=0.105 Sum_probs=102.8
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++..-.....+++.+ +|+++|--..... ......+...++|+|......+ . +....+..+....+..++
T Consensus 37 ~~~~~~~~~~~~~~l~~~-~vdgiii~~~~~~-~~~~~~~~~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~~~~~~ 108 (268)
T cd01575 37 TGYSPEREEELLRTLLSR-RPAGLILTGLEHT-ERTRQLLRAAGIPVVEIMDLPP---D---PIDMAVGFSHAEAGRAMA 108 (268)
T ss_pred CCCCchhHHHHHHHHHHc-CCCEEEEeCCCCC-HHHHHHHHhcCCCEEEEecCCC---C---CCCCeEEeCcHHHHHHHH
Confidence 344565556666777765 7888875332222 2344455678999998743211 1 112235667778888889
Q ss_pred HHHHHcCCeEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~ 163 (753)
+++...|-++++++..+. .......+.|++.+++.|.............+.......+.++.+. .+++|+.. +..
T Consensus 109 ~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~ 187 (268)
T cd01575 109 RHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALRAAGLDPPLVVTTPEPSSFALGRELLAELLARWPDLDAVFCS-NDD 187 (268)
T ss_pred HHHHHCCCCcEEEecCCCCcccHHHHHHHHHHHHHHcCCCCCceeEeccCCCHHHHHHHHHHHHhCCCCCCEEEEC-CcH
Confidence 988888999999998654 2445567789999999886322211111111222334455555433 46766644 444
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEE
Q 037761 164 LASRLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~ 186 (753)
.+..+++.+++.|...++.+-+.
T Consensus 188 ~a~~~~~~l~~~g~~~p~di~vi 210 (268)
T cd01575 188 LALGALFECQRRGISVPEDIAIA 210 (268)
T ss_pred HHHHHHHHHHHhCCCCCcceEEE
Confidence 56678999999987555544333
No 143
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.20 E-value=0.045 Score=55.74 Aligned_cols=171 Identities=12% Similarity=0.019 Sum_probs=102.7
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCCCCc-HHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAIIGPQIPAA-APFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~-~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
..++....+..++++.+ ++.++|-...+.. ..+....+...++|+|......+. +. .+..+..++...+..++
T Consensus 40 ~~~~~~~~~~i~~l~~~-~vdgvii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~~--~~---~~~~v~~d~~~~~~~~~ 113 (273)
T cd06310 40 ETDVAGQVNLLENAIAR-GPDAILLAPTDAKALVPPLKEAKDAGIPVVLIDSGLNS--DI---AVSFVATDNVAAGKLAA 113 (273)
T ss_pred CCCHHHHHHHHHHHHHh-CCCEEEEcCCChhhhHHHHHHHHHCCCCEEEecCCCCC--Cc---ceEEEeeChHHHHHHHH
Confidence 45777777888888776 8988886333322 234445556789999998642211 11 12224555556778888
Q ss_pred HHHHHc--CCeEEEEEEeeCCc--ccchHHHHHHHHHhC-CeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe-C
Q 037761 88 AVLQNF--SWHEVVLMYEDTNY--GAGFISFLVDELQEN-DIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM-N 161 (753)
Q Consensus 88 ~~l~~~--~w~~vail~~d~~~--g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~-~ 161 (753)
+++... |.++++++....++ .....+.+++.+++. |+.+... .....+..+-...+.++.+.++++-.+++ +
T Consensus 114 ~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~a~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~ 191 (273)
T cd06310 114 EALAELLGKKGKVAVISFVPGSSTTDQREEGFLEGLKEYPGIEIVAT--QYSDSDYAKALDITEDLLTANPDLKGIFGAN 191 (273)
T ss_pred HHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHHHHHhCCCcEEEec--ccCCcCHHHHHHHHHHHHHhCCCceEEEecC
Confidence 888665 89999999754333 344568899999988 8765432 11111122333455565544444333333 4
Q ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEcC
Q 037761 162 TALASRLFALVAKNGMMSKGYTWIVTA 188 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~~~~~~wi~~~ 188 (753)
...+..+++.+++.|+. .+...++.+
T Consensus 192 d~~a~g~~~~l~~~g~~-~di~vig~d 217 (273)
T cd06310 192 EGSAVGAARAVRQAGKA-GKVKVVGFD 217 (273)
T ss_pred chhHHHHHHHHHhcCCC-CCeEEEEeC
Confidence 45567789999999974 344444433
No 144
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a
Probab=97.17 E-value=0.019 Score=58.33 Aligned_cols=172 Identities=9% Similarity=-0.000 Sum_probs=101.5
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++..-.+..+.+..+ ++++||=.........+..+....++|+|......+ +..+++ +..+....+..++
T Consensus 37 ~~~~~~~~~~~i~~l~~~-~vdgiii~~~~~~~~~~~~l~~~~~ipvV~i~~~~~---~~~~~~---V~~d~~~~~~~~~ 109 (269)
T cd06275 37 TEGDPERQRSYLRMLAQK-RVDGLLVMCSEYDQPLLAMLERYRHIPMVVMDWGPE---DDFADK---IQDNSEEGGYLAT 109 (269)
T ss_pred CCCChHHHHHHHHHHHHc-CCCEEEEecCCCChHHHHHHHhcCCCCEEEEecccC---CCCCCe---EeeCcHHHHHHHH
Confidence 455676666667777765 787766422222232223344456999998764322 112222 4566677778888
Q ss_pred HHHHHcCCeEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~ 163 (753)
+++...|-++++++.... .......+.|.+.+++.|+.+..........+..+....+.++.+. .+++|+. ++..
T Consensus 110 ~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~ 188 (269)
T cd06275 110 RHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMAEAGLPVNPGWIVEGDFECEGGYEAMQRLLAQPKRPTAVFC-GNDL 188 (269)
T ss_pred HHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHHHcCCCCCHHHhccCCCChHHHHHHHHHHHcCCCCCcEEEE-CChH
Confidence 888778999999997532 2345567889999999887653211111111222334455565544 3555444 3445
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 164 LASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
.+..+++.+++.|...++.+-+++
T Consensus 189 ~a~g~~~~l~~~g~~vp~di~vvg 212 (269)
T cd06275 189 MAMGALCAAQEAGLRVPQDLSIIG 212 (269)
T ss_pred HHHHHHHHHHHcCCCCCcceEEEE
Confidence 566788888999976555444443
No 145
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.15 E-value=0.016 Score=58.82 Aligned_cols=170 Identities=11% Similarity=0.017 Sum_probs=102.6
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++..-......+... +++++|-........ .......++|+|......+. .. +..+.+++...+..++
T Consensus 38 ~~~~~~~~~~~~~~l~~~-~~dgiii~~~~~~~~--~~~~~~~~ipvv~~~~~~~~---~~---~~~v~~d~~~~~~~a~ 108 (269)
T cd06288 38 TGGDDELEAEAVEALLDH-RVDGIIYATMYHREV--TLPPELLSVPTVLLNCYDAD---GA---LPSVVPDEEQGGYDAT 108 (269)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEecCCCChh--HHHHHhcCCCEEEEecccCC---CC---CCeEEEccHHHHHHHH
Confidence 344555555666666665 888877643322222 22345578999987643221 12 2346778888889999
Q ss_pred HHHHHcCCeEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~ 163 (753)
+++...|.++++++..+.. ......+.|.+.+++.|+.+..........+..+....+.++.+. .+++|+.. +..
T Consensus 109 ~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~ 187 (269)
T cd06288 109 RHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQALAEAGIPFDPDLVVHGDWSADDGYEAAAALLDLDDRPTAIFCG-NDR 187 (269)
T ss_pred HHHHHcCCceEEEEeCCccchhHHHHHHHHHHHHHHcCCCCCHHHeEeCCCChHHHHHHHHHHHhCCCCCCEEEEe-CcH
Confidence 9887779999999986433 335567889999999886532111111111122333445555443 46766554 445
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 164 LASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
.+..+++++++.|+..++.+.+++
T Consensus 188 ~a~~~~~~l~~~g~~vp~di~v~g 211 (269)
T cd06288 188 MAMGAYQALLERGLRIPQDVSVVG 211 (269)
T ss_pred HHHHHHHHHHHcCCCCcccceEEe
Confidence 566788999999986555555554
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=97.11 E-value=0.05 Score=55.47 Aligned_cols=167 Identities=11% Similarity=0.050 Sum_probs=95.7
Q ss_pred eeecCCC-ChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHH
Q 037761 4 LLLLKQF-KDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSL 81 (753)
Q Consensus 4 l~~~d~~-~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~ 81 (753)
+++.+.. ++..-......++.+ +++++|- |..+.........+...++|+|......+ +.. .....+.+++..
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~-~vDgiii~~~~~~~~~~~i~~~~~~gIpvV~~d~~~~---~~~-~~~~~V~~d~~~ 111 (274)
T cd06311 37 FILVTASNDTEQQNAQQDLLINR-KIDALVILPFESAPLTQPVAKAKKAGIFVVVVDRGLS---SPG-AQDLYVAGDNYG 111 (274)
T ss_pred EEEEcCCCCHHHHHHHHHHHHHc-CCCEEEEeCCCchhhHHHHHHHHHCCCeEEEEcCCCC---CCc-ccceEEcCCcHH
Confidence 3444443 444444445556654 7887663 43333322333445678999999764321 110 112235777777
Q ss_pred HHHHHHHHHHHc--CCeEEEEEEeeC-CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCC--ccEE
Q 037761 82 QVKAISAVLQNF--SWHEVVLMYEDT-NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQ--TRVF 156 (753)
Q Consensus 82 ~~~a~~~~l~~~--~w~~vail~~d~-~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vI 156 (753)
.+..+++++... |.++++++.... .......+.|.+.+++.++++... .....+..+-...+.++.+.. +++|
T Consensus 112 ~g~~aa~~l~~~~~g~~~i~~~~g~~~~~~~~R~~gf~~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai 189 (274)
T cd06311 112 MGRVAGEYIATKLGGNGNIVVLRGIPTPIDNERVDAFDAAIAKYPIKILDR--QYANWNRDDAFSVMQDLLTKFPKIDAV 189 (274)
T ss_pred HHHHHHHHHHHHhCCCCeEEEEECCCCcchhHHHHHHHHHHhhCCcEEEec--cCCCCcHHHHHHHHHHHHHhCCCcCEE
Confidence 888888888655 788999997533 233445688999999998766532 221112223334455544333 5555
Q ss_pred EEEeChHHHHHHHHHHHHcCCC
Q 037761 157 IVHMNTALASRLFALVAKNGMM 178 (753)
Q Consensus 157 i~~~~~~~~~~~~~~a~~~g~~ 178 (753)
+.. +...+..+++++++.|..
T Consensus 190 ~~~-~d~~a~g~~~al~~~g~~ 210 (274)
T cd06311 190 WAH-DDDMAVGVLAAIKQAGRT 210 (274)
T ss_pred EEC-CCcHHHHHHHHHHHcCCC
Confidence 443 333456788888898864
No 147
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.10 E-value=0.021 Score=58.10 Aligned_cols=171 Identities=10% Similarity=0.075 Sum_probs=101.5
Q ss_pred eeecCCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHH
Q 037761 4 LLLLKQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQV 83 (753)
Q Consensus 4 l~~~d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~ 83 (753)
+++.+..++..-.....+++...+++++|-...... ......+...++|+|......+. .+.+..+..++...+
T Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~~~~-----~~~~~~v~~d~~~~g 110 (270)
T cd06294 37 ISLATGKNEEELLEEVKKMIQQKRVDGFILLYSRED-DPIIDYLKEEKFPFVVIGKPEDD-----KENITYVDNDNIQAG 110 (270)
T ss_pred EEEecCCCcHHHHHHHHHHHHHcCcCEEEEecCcCC-cHHHHHHHhcCCCEEEECCCCCC-----CCCCCeEEECcHHHH
Confidence 333444445555667777776656887665322222 23344557789999998642211 012233456777777
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCc--ccchHHHHHHHHHhCCeEEE--EeeccCCCCchhhHHHHHHHHhcC--CccEEE
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNY--GAGFISFLVDELQENDIRIS--HMSKIPTSAEDFQISKELSKLSTM--QTRVFI 157 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~--g~~~~~~~~~~~~~~g~~v~--~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi 157 (753)
+.+++.|...|-++++++...... .....+.|++.+++.|+.+. ...... .+..+....+.++.++ .+++|+
T Consensus 111 ~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~ 188 (270)
T cd06294 111 YDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQGYKQALEDHGIPDRNEVIISLD--FSEEGGYKALKKLLEQHPRPTAIV 188 (270)
T ss_pred HHHHHHHHHcCCccEEEecCCcccHHHHHHHHHHHHHHHHcCCCCCcceEEecC--CchHHHHHHHHHHHhCCCCCCEEE
Confidence 888888877799999999754332 34457789999999885321 111111 1222334455555443 356555
Q ss_pred EEeChHHHHHHHHHHHHcCCCCCCEE
Q 037761 158 VHMNTALASRLFALVAKNGMMSKGYT 183 (753)
Q Consensus 158 ~~~~~~~~~~~~~~a~~~g~~~~~~~ 183 (753)
. .+...+..+++.+++.|+..++.+
T Consensus 189 ~-~~d~~a~g~~~al~~~g~~iP~dv 213 (270)
T cd06294 189 A-TDDLLALGVLKVLNELGLKVPEDL 213 (270)
T ss_pred E-CChHHHHHHHHHHHHcCCCCCcce
Confidence 5 355567778899999998654444
No 148
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.08 E-value=0.019 Score=58.43 Aligned_cols=169 Identities=10% Similarity=0.047 Sum_probs=101.3
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++.........++.+ +|.++|--.+.....++...+...++|+|......+ . ..+ .+..++...+..++
T Consensus 37 ~~~~~~~~~~~i~~l~~~-~vdgii~~~~~~~~~~~~~~~~~~~ipvV~i~~~~~--~--~~~---~V~~d~~~~g~~a~ 108 (269)
T cd06281 37 SLNDPERELEILRSFEQR-RMDGIIIAPGDERDPELVDALASLDLPIVLLDRDMG--G--GAD---AVLFDHAAGMRQAV 108 (269)
T ss_pred CCCChHHHHHHHHHHHHc-CCCEEEEecCCCCcHHHHHHHHhCCCCEEEEecccC--C--CCC---EEEECcHHHHHHHH
Confidence 455676666666666664 888887533333334455666778999999875432 1 222 24556666667788
Q ss_pred HHHHHcCCeEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc--CCccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST--MQTRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIi~~~~~~ 163 (753)
+.|...|-++++++..... .+....+.|.+.+++.|+.+.....+.... ..+-...+.++.+ ..+++|+.. +..
T Consensus 109 ~~l~~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~ai~~~-~d~ 186 (269)
T cd06281 109 EYLISLGHRRIALVGGGSNTRPGRERLEGYKAAFAAAGLPPDPALVRLSTP-AASGFDATRALLALPDRPTAIIAG-GTQ 186 (269)
T ss_pred HHHHHCCCcEEEEecCccccccHHHHHHHHHHHHHHcCCCCCHHHeecCcH-HHHHHHHHHHHHcCCCCCcEEEEc-CcH
Confidence 8777779999999975322 334556888999999886542111111111 1222334444433 346877643 444
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEE
Q 037761 164 LASRLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~ 186 (753)
.+..+++.+.+.|+..++.+-++
T Consensus 187 ~a~g~~~~l~~~g~~ip~dv~ii 209 (269)
T cd06281 187 VLVGVLRALREAGLRIPRDLSVI 209 (269)
T ss_pred HHHHHHHHHHHcCCCCCcceeEE
Confidence 55678889999998655544333
No 149
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=97.08 E-value=0.03 Score=57.29 Aligned_cols=172 Identities=11% Similarity=-0.015 Sum_probs=110.9
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++..- +....|.+ .+|+++|=.........+..+... ++|+|......... ...|++ ...+..-+..++
T Consensus 39 t~~~~~~e-~~i~~l~~-~~vDGiI~~s~~~~~~~l~~~~~~-~iPvV~~~~~~~~~--~~~~~V---~~D~~~a~~~a~ 110 (279)
T PF00532_consen 39 TGDDEEKE-EYIELLLQ-RRVDGIILASSENDDEELRRLIKS-GIPVVLIDRYIDNP--EGVPSV---YIDNYEAGYEAT 110 (279)
T ss_dssp ETTTHHHH-HHHHHHHH-TTSSEEEEESSSCTCHHHHHHHHT-TSEEEEESS-SCTT--CTSCEE---EEEHHHHHHHHH
T ss_pred CCCchHHH-HHHHHHHh-cCCCEEEEecccCChHHHHHHHHc-CCCEEEEEeccCCc--ccCCEE---EEcchHHHHHHH
Confidence 45555555 55555554 589998865333334566666666 99999976532111 133444 345666777888
Q ss_pred HHHHHcCCeE-EEEEEeeCCc--ccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccE-EEEEeChH
Q 037761 88 AVLQNFSWHE-VVLMYEDTNY--GAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRV-FIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~-vail~~d~~~--g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~v-Ii~~~~~~ 163 (753)
++|...|-++ ++++..+... .....+.++++++++|+++.....+....+..+-...+.++.+.+|++ .+++++..
T Consensus 111 ~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~Al~~~Gl~~~~~~i~~~~~~~~~g~~~~~~ll~~~p~idai~~~nd~ 190 (279)
T PF00532_consen 111 EYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDALKEAGLPIDEEWIFEGDFDYESGYEAARELLESHPDIDAIFCANDM 190 (279)
T ss_dssp HHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHHHHHTTSCEEEEEEEESSSSHHHHHHHHHHHHHTSTT-SEEEESSHH
T ss_pred HHHHhcccCCeEEEEecCcchHHHHHHHHHHHHHHHHcCCCCCcccccccCCCHHHHHHHHHHHHhhCCCCEEEEEeCHH
Confidence 8999999999 9999986554 455667899999999986544443332233344445667776666773 33444566
Q ss_pred HHHHHHHHHHHcC-CCCCCEEEEEc
Q 037761 164 LASRLFALVAKNG-MMSKGYTWIVT 187 (753)
Q Consensus 164 ~~~~~~~~a~~~g-~~~~~~~wi~~ 187 (753)
.+...++.+++.| +..++.+-++.
T Consensus 191 ~A~ga~~~l~~~gr~~ip~di~~~~ 215 (279)
T PF00532_consen 191 MAIGAIRALRERGRLKIPEDIVSGF 215 (279)
T ss_dssp HHHHHHHHHHHTT-TCTTTEEEECS
T ss_pred HHHHHHHHHHHcCCcccChhheeee
Confidence 6777899999999 77676553333
No 150
>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=97.07 E-value=0.0038 Score=64.94 Aligned_cols=68 Identities=15% Similarity=0.111 Sum_probs=49.8
Q ss_pred cCChhHhhhcCCeEEEecCchHHHHHHH---hhCCCC--CceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhc
Q 037761 558 FADLKKLRTESHFVGFQSGSFVEDFLVK---QLNFSR--NQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKK 632 (753)
Q Consensus 558 i~s~~dL~~~~~~~~~~~~~~~~~~~~~---~~~~~~--~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~ 632 (753)
|+|++|| +||+|++..++..+.++.+ ..+... .+++.. +..+...++.+|+ +||.+...+.......+
T Consensus 98 i~svaDL--KGKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~-~~~d~~aAl~~G~----VDAa~~~eP~~s~~~~~ 170 (328)
T TIGR03427 98 GKSLADL--KGQKVNLVELSVSHYLLARALESVGLSEKDVKVVNT-SDADIVAAFITKD----VTAVVTWNPQLSEIKAQ 170 (328)
T ss_pred CCCHHHc--CCCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeC-ChHHHHHHHhcCC----CcEEEEcCchHHHHHhC
Confidence 8999999 6999999988887655553 223332 344444 4578899999999 99999988886655544
No 151
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=97.06 E-value=0.041 Score=55.70 Aligned_cols=171 Identities=12% Similarity=0.082 Sum_probs=103.0
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
.+.++..-.+....++.+ +++++|-.........+. .+...++|+|......+ +...++ +...+...+..++
T Consensus 37 ~~~~~~~~~~~i~~l~~~-~vdgiii~~~~~~~~~~~-~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~g~~~~ 108 (264)
T cd06274 37 SDDDPETERETVETLIAR-QVDALIVAGSLPPDDPYY-LCQKAGLPVVALDRPGD---PSRFPS---VVSDNRDGAAELT 108 (264)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEcCCCCchHHHH-HHHhcCCCEEEecCccC---CCCCCE---EEEccHHHHHHHH
Confidence 445666666667777765 888877433332222233 45668899999864322 122233 4556666778888
Q ss_pred HHHHHcCCeEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC---CccEEEEEeCh
Q 037761 88 AVLQNFSWHEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM---QTRVFIVHMNT 162 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vIi~~~~~ 162 (753)
+++.+.|-++++++..+.. ......+.+++.+++.|+.+..........+...-...+.++.+. .+++|++. +.
T Consensus 109 ~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~~-~d 187 (264)
T cd06274 109 RELLAAPPEEVLFLGGLPELSPSRERLAGFRQALADAGLPVQPDWIYAEGYSPESGYQLMAELLARLGRLPRALFTT-SY 187 (264)
T ss_pred HHHHHCCCCcEEEEeCCCcccchHHHHHHHHHHHHHcCCCCCcceeecCCCChHHHHHHHHHHHccCCCCCcEEEEc-Ch
Confidence 8887789999999976432 345567889999999885432111111111222333445554433 36766654 45
Q ss_pred HHHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 163 ALASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 163 ~~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
..+..+++++++.|+..++.+-|++
T Consensus 188 ~~A~g~~~al~~~g~~ip~dv~v~g 212 (264)
T cd06274 188 TLLEGVLRFLRERPGLAPSDLRIAT 212 (264)
T ss_pred HHHHHHHHHHHHcCCCCCcceEEEE
Confidence 5566788999999986555555543
No 152
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.06 E-value=0.026 Score=59.71 Aligned_cols=171 Identities=10% Similarity=0.055 Sum_probs=100.7
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhcc-CCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEK-AQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~-~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
...++..-......++.+ +++++|--..... ......+.. .++|+|......+ +..+.. ...++....+..+
T Consensus 97 ~~~~~~~~~~~i~~l~~~-~vdgiii~~~~~~-~~~~~~l~~~~~iPvV~~d~~~~---~~~~~~--~v~~d~~~~g~~a 169 (341)
T PRK10703 97 AWNNLEKQRAYLSMLAQK-RVDGLLVMCSEYP-EPLLAMLEEYRHIPMVVMDWGEA---KADFTD--AIIDNAFEGGYLA 169 (341)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEecCCCC-HHHHHHHHhcCCCCEEEEecccC---CcCCCC--eEEECcHHHHHHH
Confidence 445666656666666665 7888764222222 233344444 7999998764321 111112 2455556677888
Q ss_pred HHHHHHcCCeEEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeCh
Q 037761 87 SAVLQNFSWHEVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNT 162 (753)
Q Consensus 87 ~~~l~~~~w~~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~ 162 (753)
++.|...|-+++++|... +..+....+.|.+.+++.|+.+.............+....+.++.+. .+++|++. +.
T Consensus 170 ~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-nd 248 (341)
T PRK10703 170 GRYLIERGHRDIGVIPGPLERNTGAGRLAGFMKAMEEANIKVPEEWIVQGDFEPESGYEAMQQILSQKHRPTAVFCG-GD 248 (341)
T ss_pred HHHHHHCCCCcEEEEeCCccccchHHHHHHHHHHHHHcCCCCChHHeEeCCCCHHHHHHHHHHHHhCCCCCCEEEEC-Cc
Confidence 888877799999999643 33455667889999999997653221111111223344455555433 45766654 44
Q ss_pred HHHHHHHHHHHHcCCCCCCEEEEE
Q 037761 163 ALASRLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 163 ~~~~~~~~~a~~~g~~~~~~~wi~ 186 (753)
..+..+++++++.|...++.+.|+
T Consensus 249 ~~a~g~~~al~~~g~~ip~dv~vv 272 (341)
T PRK10703 249 IMAMGAICAADEMGLRVPQDISVI 272 (341)
T ss_pred HHHHHHHHHHHHcCCCCCCceEEE
Confidence 456678899999997655555444
No 153
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=97.04 E-value=0.038 Score=55.97 Aligned_cols=170 Identities=11% Similarity=0.062 Sum_probs=102.8
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++..-.....+++.. ++++||-.........+ ..+...++|+|......+ ... +..+..++...+..++
T Consensus 37 ~~~~~~~~~~~~~~l~~~-~~dgiii~~~~~~~~~l-~~~~~~~ipvV~~~~~~~---~~~---~~~v~~d~~~~g~~~~ 108 (267)
T cd06283 37 SDNDPEKEKEYLESLLAY-QVDGLIVNPTGNNKELY-QRLAKNGKPVVLVDRKIP---ELG---VDTVTLDNYEAAKEAV 108 (267)
T ss_pred CCCCHHHHHHHHHHHHHc-CcCEEEEeCCCCChHHH-HHHhcCCCCEEEEcCCCC---CCC---CCEEEeccHHHHHHHH
Confidence 445666666777777765 78877743222223333 445678999999865322 112 2334567777888899
Q ss_pred HHHHHcCCeEEEEEEeeCC-c--ccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCC--ccEEEEEeCh
Q 037761 88 AVLQNFSWHEVVLMYEDTN-Y--GAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQ--TRVFIVHMNT 162 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~-~--g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIi~~~~~ 162 (753)
+.|...|-++++++..... . .....+.+++.+++.|+............+..+....+.++.++. +++|++.. .
T Consensus 109 ~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~-d 187 (267)
T cd06283 109 DHLIEKGYERILFVTEPLDEISPRMERYEGFKEALAEHGIGVNEELIEIDDEDADELDERLRQLLNKPKKKTAIFAAN-G 187 (267)
T ss_pred HHHHHcCCCcEEEEecCccccccHHHHHHHHHHHHHHcCCCCCcceeEecccchHHHHHHHHHHHcCCCCCCEEEEcC-c
Confidence 9888889999999975432 2 235667889999888743211111111112234455666665443 56665554 4
Q ss_pred HHHHHHHHHHHHcCCCCCCEEEEE
Q 037761 163 ALASRLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 163 ~~~~~~~~~a~~~g~~~~~~~wi~ 186 (753)
..+..+++.+++.|+..++.+.|.
T Consensus 188 ~~a~g~~~~l~~~g~~vp~di~v~ 211 (267)
T cd06283 188 LILLEVLKALKELGIRIPEDVGLI 211 (267)
T ss_pred HHHHHHHHHHHHcCCCCccceEEE
Confidence 445668888999998655544444
No 154
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.04 E-value=0.062 Score=54.75 Aligned_cols=163 Identities=10% Similarity=0.064 Sum_probs=101.4
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
...++..-.+....++.+ +|.+||= |..+.........+...++|+|......+ +...+.+..+.+++...+..+
T Consensus 37 ~~~d~~~~~~~i~~~~~~-~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~---~~~~~~~~~v~~d~~~~g~~~ 112 (272)
T cd06313 37 GALDAVKQVAAIENMASQ-GWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTLIA---PLQINVHSFLAPDNYFMGASV 112 (272)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCCCC---CCCCceEEEECCCcHHHHHHH
Confidence 445788778888888876 8887665 43333333333445667999999865332 111122344678888888999
Q ss_pred HHHHHHc--CCeEEEEEEeeCC--cccchHHHHHHHHHhCC-eEEEEeeccCCCCchhhHHHHHHHHhcCC--ccEEEEE
Q 037761 87 SAVLQNF--SWHEVVLMYEDTN--YGAGFISFLVDELQEND-IRISHMSKIPTSAEDFQISKELSKLSTMQ--TRVFIVH 159 (753)
Q Consensus 87 ~~~l~~~--~w~~vail~~d~~--~g~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIi~~ 159 (753)
+++|... |.++++++..+.. ......+.|++.+++.+ .++... .....+.......+.++.+.+ +++|+.
T Consensus 113 ~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~- 189 (272)
T cd06313 113 AQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPANWDVSKAARIWETWLTKYPQLDGAFC- 189 (272)
T ss_pred HHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCCCCCHHHHHHHHHHHHHhCCCCCEEEE-
Confidence 9988666 8889999975432 33456788999998875 554431 111222233444555554433 455444
Q ss_pred eChHHHHHHHHHHHHcCC
Q 037761 160 MNTALASRLFALVAKNGM 177 (753)
Q Consensus 160 ~~~~~~~~~~~~a~~~g~ 177 (753)
.+...+..+++.+++.|+
T Consensus 190 ~nd~~a~g~~~al~~~g~ 207 (272)
T cd06313 190 HNDSMALAAYQIMKAAGR 207 (272)
T ss_pred CCCcHHHHHHHHHHHcCC
Confidence 344456678888999887
No 155
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=97.02 E-value=0.0022 Score=64.58 Aligned_cols=137 Identities=15% Similarity=0.170 Sum_probs=86.3
Q ss_pred hcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeee---ecccce-----eeeccccccccceEEEEeccc
Q 037761 425 KLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISI---VASRTD-----YVEFTLPYSESGVTMLVPVKR 496 (753)
Q Consensus 425 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~---t~~r~~-----~~~fs~p~~~~~~~~~v~~~~ 496 (753)
+.|+++ ++... .++...+.+|..|++|++.. ... -..+.. .+.........+..++++...
T Consensus 32 ~~G~~v--e~~~~--------~~g~~~~~al~~G~iD~a~~-~~~~~~~~~~g~~~~~~~~~~~~~~~~~g~~lvv~~~~ 100 (252)
T PF13379_consen 32 KEGLDV--EWVQF--------ASGADILEALAAGEIDIAFV-LAPALIAIAKGAGGPDVDIVVLAGLSQNGNALVVRNDL 100 (252)
T ss_dssp HTTSCE--EEEEE--------SSHHHHHHHHHCTSSSEEEE-CTHHHHHHHTTTTT----EEEEEECSBSSEEEEECGGG
T ss_pred HcCCEE--EEEEc--------CCHHHHHHHHHcCCCCEEEe-chHHHHHHHcCCCCcccceEEeeccCCCceEEEEcCcc
Confidence 678665 44444 37899999999999999975 321 112222 223333445667777777641
Q ss_pred CCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhh-----cCCeE
Q 037761 497 DNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRT-----ESHFV 571 (753)
Q Consensus 497 ~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~-----~~~~~ 571 (753)
.. .+.+++++||.. .|+++
T Consensus 101 ~~--------------------------------------------------------~~~~~~~~dl~~~~~~~kGk~i 124 (252)
T PF13379_consen 101 KD--------------------------------------------------------ASDIKSLADLIKKRKAQKGKKI 124 (252)
T ss_dssp TT--------------------------------------------------------CSTTCCGHHHHHTCCSCSTEEE
T ss_pred cc--------------------------------------------------------CCCccCHHHHHhhhcccCCcEE
Confidence 10 024899999943 48899
Q ss_pred EEe-cCchHHHHHHH---hhCCCC---CceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcC
Q 037761 572 GFQ-SGSFVEDFLVK---QLNFSR---NQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKY 633 (753)
Q Consensus 572 ~~~-~~~~~~~~~~~---~~~~~~---~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~ 633 (753)
++. .++..+..++. ..+... .+++.++. .+...++++|+ +|+++...+......++.
T Consensus 125 ~~~~~gs~~~~~l~~~l~~~Gl~~~~dv~~~~~~~-~~~~~al~~g~----iDa~~~~eP~~~~~~~~g 188 (252)
T PF13379_consen 125 AVPFPGSTHDMLLRYLLKKAGLDPKDDVTLVNVPP-PEMVAALRAGE----IDAAVLWEPFASQAEAKG 188 (252)
T ss_dssp EESSTTSHHHHHHHHHHHHTT--TTTSSEEEE--G-HHHHHHHHTTS-----SEEEEETTHHHHHHHTT
T ss_pred EEcCCCCHHHHHHHHHHHhCCCCcccceEEEecCH-HHHHHHHhCCC----cCEEEecCCHHHHHHhcc
Confidence 994 55544433331 333333 45555555 89999999999 999999999887777665
No 156
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.02 E-value=0.033 Score=59.00 Aligned_cols=165 Identities=11% Similarity=0.073 Sum_probs=99.4
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++..-......++.+ ++.++|--............+...++|+|...... .....++ +..++...+..++
T Consensus 102 ~~~~~~~~~~~~~~l~~~-~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~~~~~~---~~~~~~~---V~~D~~~~~~~a~ 174 (342)
T PRK10014 102 GGKDGEQLAQRFSTLLNQ-GVDGVVIAGAAGSSDDLREMAEEKGIPVVFASRAS---YLDDVDT---VRPDNMQAAQLLT 174 (342)
T ss_pred CCCCHHHHHHHHHHHHhC-CCCEEEEeCCCCCcHHHHHHHhhcCCCEEEEecCC---CCCCCCE---EEeCCHHHHHHHH
Confidence 444565555666666655 78887742222233445556677899999875321 1122232 5667777888899
Q ss_pred HHHHHcCCeEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~ 163 (753)
++|...|.++++++..+.. ......+.|.+.+++.|+.+.....+....+...-...+.++.+. .+++|++ .+..
T Consensus 175 ~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~ 253 (342)
T PRK10014 175 EHLIRNGHQRIAWLGGQSSSLTRAERVGGYCATLLKFGLPFHSEWVLECTSSQKQAAEAITALLRHNPTISAVVC-YNET 253 (342)
T ss_pred HHHHHCCCCEEEEEcCCcccccHHHHHHHHHHHHHHcCCCCCcceEecCCCChHHHHHHHHHHHcCCCCCCEEEE-CCcH
Confidence 9998889999999975433 234466789999999987542211111111122233445555443 3566554 3445
Q ss_pred HHHHHHHHHHHcCCCCC
Q 037761 164 LASRLFALVAKNGMMSK 180 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~ 180 (753)
.+..+++.+.+.|+..+
T Consensus 254 ~A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 254 IAMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHHHHHHHHHHcCCCCC
Confidence 56678888889887654
No 157
>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=96.98 E-value=0.03 Score=57.09 Aligned_cols=162 Identities=10% Similarity=0.020 Sum_probs=96.6
Q ss_pred HHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHcCCe
Q 037761 17 ILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNFSWH 96 (753)
Q Consensus 17 ~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~ 96 (753)
..+.+.+.+.+++++|--.+.... +....+...++|+|..+...+. . .+..+.+++...+..+++++...|.+
T Consensus 54 ~~~~~~l~~~~~dgiii~~~~~~~-~~~~~~~~~~ipvV~~~~~~~~---~---~~~~V~~d~~~~g~~~a~~l~~~g~~ 126 (275)
T cd06295 54 DWLARYLASGRADGVILIGQHDQD-PLPERLAETGLPFVVWGRPLPG---Q---PYCYVGSDNVGGGRLATEHLLARGRR 126 (275)
T ss_pred HHHHHHHHhCCCCEEEEeCCCCCh-HHHHHHHhCCCCEEEECCccCC---C---CCCEEEECcHHHHHHHHHHHHHCCCC
Confidence 344455555588887632222222 3344567889999998653322 2 23346677788888999988888999
Q ss_pred EEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChHHHHHHHHHH
Q 037761 97 EVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTALASRLFALV 172 (753)
Q Consensus 97 ~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~~~~~~~~~a 172 (753)
+++++..+.. .+....+.|.+.+++.|+.+.....+....+..+....+.++.+. .+++|+... ...+..+++.+
T Consensus 127 ~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~-~~~a~g~~~~l 205 (275)
T cd06295 127 RIAFLGGPQDMPEGEERLEGYREALAEAGLPLDPRLVAPGDFTEESGRAAMRALLERGPDFDAVFAAS-DLMALGALRAL 205 (275)
T ss_pred eEEEEcCCCCcchhHHHHHHHHHHHHHcCCCCChhhEEeccCCHHHHHHHHHHHHhCCCCCCEEEECC-cHHHHHHHHHH
Confidence 9999985432 345567889999998875432211111111222333445555443 356655554 34456688888
Q ss_pred HHcCCCCCCEEEEE
Q 037761 173 AKNGMMSKGYTWIV 186 (753)
Q Consensus 173 ~~~g~~~~~~~wi~ 186 (753)
++.|+..++.+.|.
T Consensus 206 ~~~g~~ip~~i~ii 219 (275)
T cd06295 206 REAGRRVPEDVAVV 219 (275)
T ss_pred HHhCCCCccceEEE
Confidence 88897544444443
No 158
>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=96.98 E-value=0.072 Score=54.77 Aligned_cols=184 Identities=8% Similarity=0.025 Sum_probs=102.5
Q ss_pred eeecCCCChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHH
Q 037761 4 LLLLKQFKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQ 82 (753)
Q Consensus 4 l~~~d~~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~ 82 (753)
+++.+..++..-......++.. ++.++|= +..+.........+...++|+|......+.......+.+..+..+....
T Consensus 32 ~~~~~~~~~~~~~~~i~~~~~~-~~dgiii~~~~~~~~~~~~~~~~~~~iPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~ 110 (289)
T cd01540 32 VVKIDVPDGEKVLSAIDNLGAQ-GAKGFVICVPDVKLGPAIVAKAKAYNMKVVAVDDRLVDADGKPMEDVPHVGMSATKI 110 (289)
T ss_pred EEEccCCCHHHHHHHHHHHHHc-CCCEEEEccCchhhhHHHHHHHHhCCCeEEEecCCCcccCCCccccceEecCCHHHH
Confidence 3444333666666666677664 7887764 3333344555566778999999975432211100112233456667777
Q ss_pred HHHHHHHHH----HcCC--eEEEEEEe---eCCcccchHHHHHHHHHhCCeEEEEeeccCCC-CchhhHHHHHHHHhcCC
Q 037761 83 VKAISAVLQ----NFSW--HEVVLMYE---DTNYGAGFISFLVDELQENDIRISHMSKIPTS-AEDFQISKELSKLSTMQ 152 (753)
Q Consensus 83 ~~a~~~~l~----~~~w--~~vail~~---d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~~d~~~~l~~l~~~~ 152 (753)
+..++++|. ..|+ ++++++.. +........+.+++.+++.|+........... .+...-...+..+....
T Consensus 111 g~~~~~~l~~~~~~~g~~~~~i~~i~~~~~~~~~~~~R~~G~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 190 (289)
T cd01540 111 GEQVGEAIADEMKKRGWDPKEVGALRITYDELDTAKPRTDGALEALKAPGFPEANIFQAPQKTTDTEGAFDAAASTLTKN 190 (289)
T ss_pred HHHHHHHHHHHHHhhcCCCcceEEEEecCCCCcchhhHHHHHHHHHhcCCCCcceEecccccCcchhhHHHHHHHHHHhC
Confidence 777767553 3566 68888752 22345667888999999888653211111111 11112223444544333
Q ss_pred --ccE-EEEEeChHHHHHHHHHHHHcCCCCCCEEEEEcC
Q 037761 153 --TRV-FIVHMNTALASRLFALVAKNGMMSKGYTWIVTA 188 (753)
Q Consensus 153 --~~v-Ii~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 188 (753)
++. ++++.+...+..+++.+++.|+...+...++.+
T Consensus 191 ~~~~~~~i~~~~d~~a~g~~~al~~~g~~~~di~vig~d 229 (289)
T cd01540 191 PNVKNWIIYGLNDETVLGAVRATEQSGIAAADVIGVGIN 229 (289)
T ss_pred CCcCeeEEEeCCcHHHHHHHHHHHHcCCCCcceEEEecC
Confidence 453 445555556777888999999863333344433
No 159
>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=96.94 E-value=0.047 Score=55.28 Aligned_cols=151 Identities=10% Similarity=0.013 Sum_probs=92.9
Q ss_pred HHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHc
Q 037761 14 GKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNF 93 (753)
Q Consensus 14 ~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~ 93 (753)
.......+++.+ +|+++|--.+.... .....+...++|+|......+ + +.+..+.+++...+..+++++...
T Consensus 42 ~~~~~i~~~~~~-~vdgiii~~~~~~~-~~~~~~~~~~ipvV~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~ 113 (266)
T cd06278 42 DLDAALRQLLQY-RVDGVIVTSGTLSS-ELAEECRRNGIPVVLINRYVD---G---PGVDAVCSDNYEAGRLAAELLLAK 113 (266)
T ss_pred HHHHHHHHHHHc-CCCEEEEecCCCCH-HHHHHHhhcCCCEEEECCccC---C---CCCCEEEEChHHHHHHHHHHHHHC
Confidence 334455566654 89888864333333 335556778999999864322 1 123457788888889999998878
Q ss_pred CCeEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChHHHHHHH
Q 037761 94 SWHEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTALASRLF 169 (753)
Q Consensus 94 ~w~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~~~~~~~ 169 (753)
|-++++++..+.. ......+.|.+.+++.|+.+.... .. ..+..+....+.++.+. .+++|+... ...+..++
T Consensus 114 g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~~i~~~~-~~~a~~~~ 190 (266)
T cd06278 114 GCRRIAFIGGPADTSTSRERERGFRDALAAAGVPVVVEE-AG-DYSYEGGYEAARRLLASRPRPDAIFCAN-DLLAIGVM 190 (266)
T ss_pred CCceEEEEcCCCcccchHHHHHHHHHHHHHcCCChhhhc-cC-CCCHHHHHHHHHHHHhcCCCCCEEEEcC-cHHHHHHH
Confidence 9999999986433 445567889999999887642211 11 11222333445554433 456555553 33455677
Q ss_pred HHHHHc
Q 037761 170 ALVAKN 175 (753)
Q Consensus 170 ~~a~~~ 175 (753)
+.+++.
T Consensus 191 ~~l~~~ 196 (266)
T cd06278 191 DAARQE 196 (266)
T ss_pred HHHHHh
Confidence 777765
No 160
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=96.93 E-value=0.047 Score=54.70 Aligned_cols=161 Identities=16% Similarity=0.153 Sum_probs=109.7
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCC---C-CCCCceEEEecCcHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALS---P-TEHPFFIRVTQNDSLQV 83 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~---~-~~~~~~fr~~p~~~~~~ 83 (753)
-++|+..+.+.+++|..+. -+++++ ..+.++.++.. +.-++|+|-.+.+++.-. + -.-|----|.-+|..-.
T Consensus 70 a~~~~~~a~~iarql~~~~-~dviv~-i~tp~Aq~~~s--~~~~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v 145 (322)
T COG2984 70 AQGDLGTAAQIARQLVGDK-PDVIVA-IATPAAQALVS--ATKTIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPV 145 (322)
T ss_pred CCCChHHHHHHHHHhhcCC-CcEEEe-cCCHHHHHHHH--hcCCCCEEEEccCchhhccCCccccCCCCceeecCCcchH
Confidence 5689999999999999874 455555 34445555544 333499999887765422 1 11233334555666656
Q ss_pred HHHHHHHHH--cCCeEEEEEEeeCC-cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 84 KAISAVLQN--FSWHEVVLMYEDTN-YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 84 ~a~~~~l~~--~~w~~vail~~d~~-~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
..-+.+++. -+.++++++|.-++ ......+.+++.+++.|++++-.. ++ + ..|....++.+. .++|+|+..+
T Consensus 146 ~q~i~lik~~~Pnak~Igv~Y~p~E~ns~~l~eelk~~A~~~Gl~vve~~-v~-~--~ndi~~a~~~l~-g~~d~i~~p~ 220 (322)
T COG2984 146 AQQIELIKALLPNAKSIGVLYNPGEANSVSLVEELKKEARKAGLEVVEAA-VT-S--VNDIPRAVQALL-GKVDVIYIPT 220 (322)
T ss_pred HHHHHHHHHhCCCCeeEEEEeCCCCcccHHHHHHHHHHHHHCCCEEEEEe-cC-c--ccccHHHHHHhc-CCCcEEEEec
Confidence 666666644 48899999997555 778889999999999999986443 33 2 346666666664 6789999988
Q ss_pred ChH---HHHHHHHHHHHcCC
Q 037761 161 NTA---LASRLFALVAKNGM 177 (753)
Q Consensus 161 ~~~---~~~~~~~~a~~~g~ 177 (753)
+.. ....+++.+.+.+.
T Consensus 221 dn~i~s~~~~l~~~a~~~ki 240 (322)
T COG2984 221 DNLIVSAIESLLQVANKAKI 240 (322)
T ss_pred chHHHHHHHHHHHHHHHhCC
Confidence 855 33446777777664
No 161
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=96.91 E-value=0.068 Score=56.15 Aligned_cols=164 Identities=12% Similarity=0.047 Sum_probs=109.6
Q ss_pred ChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHH
Q 037761 11 KDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVL 90 (753)
Q Consensus 11 ~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l 90 (753)
++..-......+.+ .+|+++|=-. ..........+...++|+|..+...+ + +-+-.+..++...++.++++|
T Consensus 99 ~~~~e~~~~~~l~~-~~vdGiIi~~-~~~~~~~~~~l~~~~~P~V~i~~~~~---~---~~~~~V~~Dn~~~~~~a~~~L 170 (333)
T COG1609 99 DPEKEREYLETLLQ-KRVDGLILLG-ERPNDSLLELLAAAGIPVVVIDRSPP---G---LGVPSVGIDNFAGAYLATEHL 170 (333)
T ss_pred CHHHHHHHHHHHHH-cCCCEEEEec-CCCCHHHHHHHHhcCCCEEEEeCCCc---c---CCCCEEEEChHHHHHHHHHHH
Confidence 45555555555555 4899987543 44455556667777999999875444 2 223445788888999999999
Q ss_pred HHcCCeEEEEEEee--CCcccchHHHHHHHHHhCCeEE--EEeeccCCCCchhhHHHHHHHHhcC--C-ccEEEEEeChH
Q 037761 91 QNFSWHEVVLMYED--TNYGAGFISFLVDELQENDIRI--SHMSKIPTSAEDFQISKELSKLSTM--Q-TRVFIVHMNTA 163 (753)
Q Consensus 91 ~~~~w~~vail~~d--~~~g~~~~~~~~~~~~~~g~~v--~~~~~~~~~~~~~d~~~~l~~l~~~--~-~~vIi~~~~~~ 163 (753)
...|-++++++... ...+....+.+.+.+++.|+.. .....-. .+..+-...+.++... . +++|++. +..
T Consensus 171 ~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~~~~i~~~~--~~~~~g~~~~~~ll~~~~~~ptAif~~-nD~ 247 (333)
T COG1609 171 IELGHRRIAFIGGPLDSSASRERLEGYRAALREAGLPINPEWIVEGD--FSEESGYEAAERLLARGEPRPTAIFCA-NDL 247 (333)
T ss_pred HHCCCceEEEEeCCCccccHhHHHHHHHHHHHHCCCCCCcceEEecC--CChHHHHHHHHHHHhcCCCCCcEEEEc-CcH
Confidence 99999999999975 4456777899999999999875 2222211 1233444445555432 2 6766665 444
Q ss_pred HHHHHHHHHHHcCCCCCCEEEE
Q 037761 164 LASRLFALVAKNGMMSKGYTWI 185 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi 185 (753)
.+..+++++++.|+..++.+=|
T Consensus 248 ~Alg~l~~~~~~g~~vP~disv 269 (333)
T COG1609 248 MALGALRALRELGLRVPEDLSV 269 (333)
T ss_pred HHHHHHHHHHHcCCCCCCeeEE
Confidence 5777899999999876654433
No 162
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=96.91 E-value=0.045 Score=55.40 Aligned_cols=171 Identities=11% Similarity=0.063 Sum_probs=100.4
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++..-......++.. +|+++|-......... ...+...++|+|..+...+ ....+++ ..++...+..++
T Consensus 37 ~~~~~~~~~~~~~~l~~~-~vdgiIi~~~~~~~~~-~~~l~~~~ipvV~~~~~~~---~~~~~~v---~~d~~~~~~~~~ 108 (265)
T cd06299 37 SDENPETENRYLDNLLSQ-RVDGIIVVPHEQSAEQ-LEDLLKRGIPVVFVDREIT---GSPIPFV---TSDPQPGMTEAV 108 (265)
T ss_pred CCCCHHHHHHHHHHHHhc-CCCEEEEcCCCCChHH-HHHHHhCCCCEEEEecccC---CCCCCEE---EECcHHHHHHHH
Confidence 445665555566666655 8888775333333333 4455668999998865322 2223333 344455556667
Q ss_pred HHHHHcCCeEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHH
Q 037761 88 AVLQNFSWHEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALA 165 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~ 165 (753)
+++...|-++++++.... .......+.|.+.+++.|+.+.............+-...+.++.+.++++|+.. +...+
T Consensus 109 ~~l~~~g~~~I~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~av~~~-~d~~a 187 (265)
T cd06299 109 SLLVALGHKKIGYISGPQDTSTGRERLEAFRQACASLGLEVNEDLVVLGGYSQESGYAGATKLLDQGATAIIAG-DSMMT 187 (265)
T ss_pred HHHHHcCCCcEEEEeCCCCcccHHHHHHHHHHHHHHCCCCCChHhEEecCcchHHHHHHHHHHHcCCCCEEEEc-CcHHH
Confidence 777777999999996533 234455678999999988543211111111112233345555554458866554 44456
Q ss_pred HHHHHHHHHcCCCCCCEEEEEc
Q 037761 166 SRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 166 ~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
..+++.+++.|+..++.+.|.+
T Consensus 188 ~gv~~al~~~g~~vp~dv~v~g 209 (265)
T cd06299 188 IGAIRAIHDAGLVIGEDISLIG 209 (265)
T ss_pred HHHHHHHHHhCCCCCcceeEEE
Confidence 7788889999986555555444
No 163
>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=96.87 E-value=0.06 Score=54.66 Aligned_cols=167 Identities=10% Similarity=-0.004 Sum_probs=101.2
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++..-......++++ +|+++|--.+.... .....+...++|+|......+ +..+++ +..++...++.++
T Consensus 37 ~~~~~~~~~~~i~~~~~~-~vdgii~~~~~~~~-~~~~~~~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~~~~~~ 108 (268)
T cd06270 37 GHHSAEKEREAIEFLLER-RCDALILHSKALSD-DELIELAAQVPPLVLINRHIP---GLADRC---IWLDNEQGGYLAT 108 (268)
T ss_pred CCCchHHHHHHHHHHHHc-CCCEEEEecCCCCH-HHHHHHhhCCCCEEEEeccCC---CCCCCe---EEECcHHHHHHHH
Confidence 445566556666677765 88887753332222 223445678999999864332 112222 5677888889999
Q ss_pred HHHHHcCCeEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCC--ccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQ--TRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIi~~~~~~ 163 (753)
++|...|.++++++..... ......+.|.+.+++.|+.+.....+....+..+....+.++.+.+ +++|+.. +..
T Consensus 109 ~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~ 187 (268)
T cd06270 109 EHLIELGHRKIACITGPLTKEDARLRLQGYRDALAEAGIALDESLIIEGDFTEEGGYAAMQELLARGAPFTAVFCA-NDE 187 (268)
T ss_pred HHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHHHcCCCCCcceEEECCCCHHHHHHHHHHHHhCCCCCCEEEEc-CcH
Confidence 9887779999999975432 2334567788999988865421111111122334445556655443 5655544 344
Q ss_pred HHHHHHHHHHHcCCCCCCEE
Q 037761 164 LASRLFALVAKNGMMSKGYT 183 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~ 183 (753)
.+..+++.+++.|+..++.+
T Consensus 188 ~a~g~~~~l~~~g~~ip~di 207 (268)
T cd06270 188 MAAGAISALREHGISVPQDV 207 (268)
T ss_pred HHHHHHHHHHHcCCCCCCce
Confidence 55678899999997655444
No 164
>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=96.87 E-value=0.076 Score=53.93 Aligned_cols=170 Identities=12% Similarity=0.000 Sum_probs=100.8
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
..++..-....+.+.. .++.++|--.+......+..+. ..++|+|......+. .. +..+.+++...+..+++
T Consensus 38 ~~~~~~~~~~i~~~~~-~~~dgiii~~~~~~~~~~~~~~-~~~~pvV~i~~~~~~---~~---~~~V~~d~~~~~~~~~~ 109 (269)
T cd06293 38 RNRPERELTYLRWLDT-NHVDGLIFVTNRPDDGALAKLI-NSYGNIVLVDEDVPG---AK---VPKVFCDNEQGGRLATR 109 (269)
T ss_pred CCCHHHHHHHHHHHHH-CCCCEEEEeCCCCCHHHHHHHH-hcCCCEEEECCCCCC---CC---CCEEEECCHHHHHHHHH
Confidence 3455544455555554 4899988643322233344433 357999998653221 11 23366788888899999
Q ss_pred HHHHcCCeEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc--CCccEEEEEeChHH
Q 037761 89 VLQNFSWHEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST--MQTRVFIVHMNTAL 164 (753)
Q Consensus 89 ~l~~~~w~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIi~~~~~~~ 164 (753)
+|...|-++++++..+.. ......+.|++.+++.|+.+.....+....+..+....+.++.+ ..+++|+.. +...
T Consensus 110 ~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~ 188 (269)
T cd06293 110 HLARAGHRRIAFVGGPDALISARERYAGYREALAEAHIPEVPEYVCFGDYTREFGRAAAAQLLARGDPPTAIFAA-SDEI 188 (269)
T ss_pred HHHHCCCceEEEEecCcccccHHHHHHHHHHHHHHcCCCCChheEEecCCCHHHHHHHHHHHHcCCCCCCEEEEc-CcHH
Confidence 998889999999975433 23455688999999988653211111111112233344555443 346765555 4445
Q ss_pred HHHHHHHHHHcCCCCCCEEEEEc
Q 037761 165 ASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 165 ~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
+..+++.+++.|...++.+-|++
T Consensus 189 a~g~~~al~~~g~~vp~di~i~g 211 (269)
T cd06293 189 AIGLLEVLRERGLSIPGDMSLVG 211 (269)
T ss_pred HHHHHHHHHHcCCCCccceEEEe
Confidence 66788899999976555555543
No 165
>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=96.87 E-value=0.041 Score=55.87 Aligned_cols=167 Identities=8% Similarity=0.029 Sum_probs=98.4
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 10 FKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
.++..-.+..+.++++ +++++|- +.... . .....+...++|+|........ ....+ ...+++...+..+++
T Consensus 39 ~~~~~~~~~i~~l~~~-~~dgiii~~~~~~-~-~~~~~~~~~~ipvV~i~~~~~~--~~~~~---~v~~d~~~~~~~a~~ 110 (270)
T cd06296 39 RRTSPERQWVERLSAR-RTDGVILVTPELT-S-AQRAALRRTGIPFVVVDPAGDP--DADVP---SVGATNWAGGLAATE 110 (270)
T ss_pred CchHHHHHHHHHHHHc-CCCEEEEecCCCC-h-HHHHHHhcCCCCEEEEecccCC--CCCCC---EEEeCcHHHHHHHHH
Confidence 3444444455556654 8888763 33322 2 2345557789999998653211 11223 367777888888899
Q ss_pred HHHHcCCeEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChHH
Q 037761 89 VLQNFSWHEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTAL 164 (753)
Q Consensus 89 ~l~~~~w~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~~ 164 (753)
.+...|.++++++.... .......+.|.+.+++.|+.+..........+..+....+.++.+. .+++|+.. +...
T Consensus 111 ~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~ 189 (270)
T cd06296 111 HLLELGHRRIGFITGPPDLLCSRARLDGYRAALAEAGIPVDPALVREGDFSTESGFRAAAELLALPERPTAIFAG-NDLM 189 (270)
T ss_pred HHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHHHHcCCCCChHHheeCCCCHHHHHHHHHHHHhCCCCCcEEEEc-CcHH
Confidence 88777999999997532 2345667889999998876543211111111222333444454433 34555544 4455
Q ss_pred HHHHHHHHHHcCCCCCCEEEE
Q 037761 165 ASRLFALVAKNGMMSKGYTWI 185 (753)
Q Consensus 165 ~~~~~~~a~~~g~~~~~~~wi 185 (753)
+..+++.+++.|+..++.+-|
T Consensus 190 a~~~~~~l~~~g~~~p~~i~v 210 (270)
T cd06296 190 ALGVYEAARERGLRIPEDLSV 210 (270)
T ss_pred HHHHHHHHHHhCCCCCCceEE
Confidence 667889999999765444433
No 166
>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=96.86 E-value=0.082 Score=54.92 Aligned_cols=176 Identities=15% Similarity=0.092 Sum_probs=102.8
Q ss_pred CCCChHHHHHHHHHHHhc-CCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCC-----C--CCC-CceEEEecC
Q 037761 8 KQFKDCGKLILAVDLLKK-FQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALS-----P--TEH-PFFIRVTQN 78 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~-~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~-----~--~~~-~~~fr~~p~ 78 (753)
...++..-....+.++.+ .+|++||=...+.........+...++|+|......+... . ..+ +++-...++
T Consensus 38 ~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~d 117 (305)
T cd06324 38 AERDRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLRLAEGAGVKLFLVNSGLTEAQARELGPPREKFPDWLGQLLPN 117 (305)
T ss_pred CCCCHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHHHHHhCCCeEEEEecCCCcchhhcccccccccCceeeeeccC
Confidence 445666666667777664 2788866422222233344556779999998865432211 0 111 234556788
Q ss_pred cHHHHHHHHHHHHHcCCeE--------EEEEEeeC--CcccchHHHHHHHHHhCC-eEEEEeeccCCCCchhhHHHHHHH
Q 037761 79 DSLQVKAISAVLQNFSWHE--------VVLMYEDT--NYGAGFISFLVDELQEND-IRISHMSKIPTSAEDFQISKELSK 147 (753)
Q Consensus 79 ~~~~~~a~~~~l~~~~w~~--------vail~~d~--~~g~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~~d~~~~l~~ 147 (753)
+...++.+++.|...|-++ ++++.... .......+.|++.++++| ..+... +....+..+-...+.+
T Consensus 118 ~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~g~~~~~~~--~~~~~~~~~~~~~~~~ 195 (305)
T cd06324 118 DEEAGYLMAEALISQARSVQAPGGRIDLLAISGDPTTPAAILREAGLRRALAEHPDVRLRQV--VYAGWSEDEAYEQAEN 195 (305)
T ss_pred cHHHHHHHHHHHHHHhhcccCCCCceeEEEEeCCCCChHHHHHHHHHHHHHHHCCCceEeee--ecCCCCHHHHHHHHHH
Confidence 8888899999886666553 76666432 234556778999999887 333221 2212222333445555
Q ss_pred HhcC--CccEEEEEeChHHHHHHHHHHHHcCCCCCCEEEEE
Q 037761 148 LSTM--QTRVFIVHMNTALASRLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 148 l~~~--~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~~~wi~ 186 (753)
+.+. .+++|+ +.+...+..+++++++.|+..++.+-|+
T Consensus 196 ~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~vp~di~vi 235 (305)
T cd06324 196 LLKRYPDVRLIW-AANDQMAFGALRAAKEAGRKPGRDVLFG 235 (305)
T ss_pred HHHHCCCccEEE-ECCchHHHHHHHHHHHcCCCcCCCEEEE
Confidence 5433 456554 3445556778999999998655444333
No 167
>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=96.85 E-value=0.086 Score=53.59 Aligned_cols=171 Identities=11% Similarity=0.091 Sum_probs=102.7
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
..++..-.+....++.+ ++++||= |............+...++|+|......+ +. .....+..++...+..++
T Consensus 39 ~~~~~~~~~~i~~~~~~-~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~ 112 (270)
T cd06308 39 ADDNSKQVADIENFIRQ-GVDLLIISPNEAAPLTPVVEEAYRAGIPVILLDRKIL---SD--KYTAYIGADNYEIGRQAG 112 (270)
T ss_pred CCCHHHHHHHHHHHHHh-CCCEEEEecCchhhchHHHHHHHHCCCCEEEeCCCCC---Cc--cceEEeecCcHHHHHHHH
Confidence 35666666777777765 7777653 33322222333445678999999864221 11 123446678888888888
Q ss_pred HHHHHc--CCeEEEEEEeeCC--cccchHHHHHHHHHhC-CeEEEEeeccCCCCchhhHHHHHHHHhc--CCccEEEEEe
Q 037761 88 AVLQNF--SWHEVVLMYEDTN--YGAGFISFLVDELQEN-DIRISHMSKIPTSAEDFQISKELSKLST--MQTRVFIVHM 160 (753)
Q Consensus 88 ~~l~~~--~w~~vail~~d~~--~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIi~~~ 160 (753)
+++... |-++++++..... ......+.+++.++++ |+++.... .. ..+..+-...+.++.+ .++++|+. .
T Consensus 113 ~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~~l~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~aI~~-~ 189 (270)
T cd06308 113 EYIANLLPGKGNILEIWGLEGSSPAIERHDGFKEALSKYPKIKIVAQQ-DG-DWLKEKAEEKMEELLQANPDIDLVYA-H 189 (270)
T ss_pred HHHHHHcCCCceEEEEECCCCCchHHHHHHHHHHHHHHCCCCEEEEec-CC-CccHHHHHHHHHHHHHhCCCCcEEEe-C
Confidence 888664 8899999975333 2344568889999998 87765322 11 1122222334444432 34665544 3
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEcCc
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVTAC 189 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~~ 189 (753)
+...+..+++.+++.|+. .+...++.+.
T Consensus 190 ~d~~a~g~~~al~~~g~~-~dv~vvg~d~ 217 (270)
T cd06308 190 NDPMALGAYLAAKRAGRE-KEIKFIGIDG 217 (270)
T ss_pred CcHHHHHHHHHHHHcCCC-CCcEEEEecC
Confidence 555566788999999986 4444455444
No 168
>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=96.84 E-value=0.14 Score=51.97 Aligned_cols=160 Identities=12% Similarity=0.068 Sum_probs=98.8
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
...++....+....++++ +++++|- |..+.........+...++|+|......+ ..+.+..+.+++...+..+
T Consensus 37 ~~~~~~~~~~~~~~~~~~-~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~~~-----~~~~~~~v~~d~~~~g~~~ 110 (267)
T cd06322 37 ANQDLNKQLSDVEDFITK-KVDAIVLSPVDSKGIRAAIAKAKKAGIPVITVDIAAE-----GVAVVSHVATDNYAGGVLA 110 (267)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEcCCChhhhHHHHHHHHHCCCCEEEEcccCC-----CCceEEEEecChHHHHHHH
Confidence 445677777778888876 8898776 44333223334556678999999864211 1122344667777778888
Q ss_pred HHHHHHc--CCeEEEEEEeeC-CcccchHHHHHHHHHhC-CeEEEEeeccCCCCchhhHHHHHHHHhc--CCccEEEEEe
Q 037761 87 SAVLQNF--SWHEVVLMYEDT-NYGAGFISFLVDELQEN-DIRISHMSKIPTSAEDFQISKELSKLST--MQTRVFIVHM 160 (753)
Q Consensus 87 ~~~l~~~--~w~~vail~~d~-~~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIi~~~ 160 (753)
++++... |-+++++++..+ .......+.+++.+++. |+.+.... .. ....+-...+.++.+ .++++|+..
T Consensus 111 ~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~-~~--~~~~~~~~~~~~~l~~~~~~~ai~~~- 186 (267)
T cd06322 111 GELAAKVLNGKGQVAIIDYPTVQSVVDRVRGFKEALADYPNIKIVAVQ-PG--ITRAEALTAAQNILQANPDLDGIFAF- 186 (267)
T ss_pred HHHHHHHhCCCceEEEEecCCCccHHHHHHHHHHHHHhCCCcEEEEec-CC--CChHHHHHHHHHHHHhCCCCCEEEEc-
Confidence 8888654 788999997432 23445668899999998 88764321 11 112223333444433 245654443
Q ss_pred ChHHHHHHHHHHHHcCC
Q 037761 161 NTALASRLFALVAKNGM 177 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~ 177 (753)
+...+..+++.+++.|+
T Consensus 187 ~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 187 GDDAALGAVSAIKAAGR 203 (267)
T ss_pred CCcHHHHHHHHHHHCCC
Confidence 44455678888899896
No 169
>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family. Members of this family are substrate-binding periplasmic proteins of ABC transporters. This subfamily includes SsuA, a member of a transporter operon needed to obtain sulfur from aliphatic sulfonates. Related proteins outside the scope of this model include taurine (NH2-CH2-CH2-S03H) binding proteins, the probable sulfate ester binding protein AtsR, and the probable aromatic sulfonate binding protein AsfC. All these families make sulfur available when Cys and sulfate levels are low. Please note that phylogenetic analysis by neighbor-joining suggests that a number of sequences belonging to this family have been excluded because of scoring lower than taurine-binding proteins.
Probab=96.80 E-value=0.014 Score=59.98 Aligned_cols=71 Identities=14% Similarity=0.190 Sum_probs=48.3
Q ss_pred CcCChhHhhhcCCeEEEecCchHHHHHHH---hhCCCCCce-ecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhc
Q 037761 557 TFADLKKLRTESHFVGFQSGSFVEDFLVK---QLNFSRNQT-RPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKK 632 (753)
Q Consensus 557 ~i~s~~dL~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~-~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~ 632 (753)
+|++++|| .|+++++..++.....+.+ ..+.+...+ ..+.+..+...++.+|+ +|+++...+....+..+
T Consensus 92 ~i~s~~dL--~Gk~i~~~~~~~~~~~~~~~l~~~G~~~~~v~~~~~~~~~~~~al~~g~----vda~~~~~p~~~~~~~~ 165 (288)
T TIGR01728 92 PIRTVADL--KGKRIAVPKGGSGHDLLLRALLKAGLSGDDVTILYLGPSDARAAFAAGQ----VDAWAIWEPWGSALVEE 165 (288)
T ss_pred CCCCHHHc--CCCEEEecCCccHHHHHHHHHHHcCCCccceeEEecCcHHHHHHHHCCC----CCEEEeccchHhHHhhc
Confidence 38999999 5999998877654444432 223332222 22345678899999999 99999988877665554
Q ss_pred C
Q 037761 633 Y 633 (753)
Q Consensus 633 ~ 633 (753)
.
T Consensus 166 ~ 166 (288)
T TIGR01728 166 G 166 (288)
T ss_pred c
Confidence 4
No 170
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=96.79 E-value=0.11 Score=52.63 Aligned_cols=165 Identities=10% Similarity=0.063 Sum_probs=100.3
Q ss_pred ChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHH
Q 037761 11 KDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVL 90 (753)
Q Consensus 11 ~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l 90 (753)
++..-......++++ +++++|--.......++.. +...++|+|......+ .. +-.+..++...+..+++++
T Consensus 41 ~~~~~~~~~~~l~~~-~vdgiii~~~~~~~~~~~~-~~~~~ipvv~~~~~~~----~~---~~~v~~d~~~~g~~~~~~l 111 (264)
T cd01574 41 DEEALRAAVRRLLAQ-RVDGVIVNAPLDDADAALA-AAPADVPVVFVDGSPS----PR---VSTVSVDQEGGARLATEHL 111 (264)
T ss_pred chHHHHHHHHHHHhc-CCCEEEEeCCCCChHHHHH-HHhcCCCEEEEeccCC----CC---CCEEEeCcHHHHHHHHHHH
Confidence 445556666666665 8899874222222223433 3568899999865321 12 2335677788888999998
Q ss_pred HHcCCeEEEEEEeeCCc--ccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC-CccEEEEEeChHHHHH
Q 037761 91 QNFSWHEVVLMYEDTNY--GAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM-QTRVFIVHMNTALASR 167 (753)
Q Consensus 91 ~~~~w~~vail~~d~~~--g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~-~~~vIi~~~~~~~~~~ 167 (753)
...|-++++++..+... .....+.|.+.+++.|+.+... +....+..+-...+.++.+. .+++|+.. +...+..
T Consensus 112 ~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~ai~~~-~d~~a~g 188 (264)
T cd01574 112 LELGHRTIAHVAGPEEWLSARARLAGWRAALEAAGIAPPPV--LEGDWSAESGYRAGRELLREGDPTAVFAA-NDQMALG 188 (264)
T ss_pred HHCCCCEEEEEecCCccchHHHHHHHHHHHHHHCCCCccee--eecCCCHHHHHHHHHHHHhCCCCcEEEEc-CcHHHHH
Confidence 88899999999764332 2345678888888888765422 11111222333445555433 36765554 4555677
Q ss_pred HHHHHHHcCCCCCCEEEEEc
Q 037761 168 LFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 168 ~~~~a~~~g~~~~~~~wi~~ 187 (753)
+++.+++.|...++.+-|++
T Consensus 189 ~~~~~~~~g~~ip~~i~ii~ 208 (264)
T cd01574 189 VLRALHELGLRVPDDVSVVG 208 (264)
T ss_pred HHHHHHHcCCCCccceEEec
Confidence 88899998975454444443
No 171
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=96.77 E-value=0.12 Score=54.21 Aligned_cols=167 Identities=14% Similarity=0.122 Sum_probs=100.4
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCC-CCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAIIGPQI-PAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~aviG~~~-s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
..++..-.+....++.+ +|+++|-... ......+ ..+...++|+|......+ ...++ .+..++...+..++
T Consensus 100 ~~~~~~~~~~~~~l~~~-~vdgiIi~~~~~~~~~~~-~~l~~~~iPvV~v~~~~~---~~~~~---~V~~d~~~~~~~a~ 171 (328)
T PRK11303 100 DDQPDNEMRCAEHLLQR-QVDALIVSTSLPPEHPFY-QRLQNDGLPIIALDRALD---REHFT---SVVSDDQDDAEMLA 171 (328)
T ss_pred CCCHHHHHHHHHHHHHc-CCCEEEEcCCCCCChHHH-HHHHhcCCCEEEECCCCC---CCCCC---EEEeCCHHHHHHHH
Confidence 34555555555556554 8888774322 2222223 334567999998764321 12223 34567777778888
Q ss_pred HHHHHcCCeEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~ 163 (753)
++|...|-++++++..... .+....+.|.+.+++.|+.+..... . ..+..+-...+.++.+. .+++|++..+ .
T Consensus 172 ~~L~~~G~r~I~~i~~~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~-~-~~~~~~~~~~~~~~l~~~~~~~ai~~~~d-~ 248 (328)
T PRK11303 172 ESLLKFPAESILLLGALPELSVSFEREQGFRQALKDDPREVHYLYA-N-SFEREAGAQLFEKWLETHPMPDALFTTSY-T 248 (328)
T ss_pred HHHHHCCCCeEEEEeCccccccHHHHHHHHHHHHHHcCCCceEEEe-C-CCChHHHHHHHHHHHcCCCCCCEEEEcCc-H
Confidence 8888889999999975432 3455678899999999875432211 1 11122233345555433 4677666644 4
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEE
Q 037761 164 LASRLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~ 186 (753)
.+..+++++++.|+..++.+-|+
T Consensus 249 ~A~g~~~al~~~g~~vP~disv~ 271 (328)
T PRK11303 249 LLQGVLDVLLERPGELPSDLAIA 271 (328)
T ss_pred HHHHHHHHHHHcCCCCCCceEEE
Confidence 46678888899998666555443
No 172
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.73 E-value=0.074 Score=53.88 Aligned_cols=165 Identities=13% Similarity=0.101 Sum_probs=99.9
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++..-......+..+ +++++|=..+......+ ..+...++|+|......+ ..++ +..++...+..++
T Consensus 37 ~~~~~~~~~~~i~~l~~~-~~dgiii~~~~~~~~~~-~~~~~~~iPvv~~~~~~~-----~~~~---V~~d~~~ag~~a~ 106 (265)
T cd06285 37 TGDNPDAQRRAIEMLLDR-RVDGLILGDARSDDHFL-DELTRRGVPFVLVLRHAG-----TSPA---VTGDDVLGGRLAT 106 (265)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEecCCCChHHH-HHHHHcCCCEEEEccCCC-----CCCE---EEeCcHHHHHHHH
Confidence 345666555556666655 88887733233233333 445668999998864321 2222 4667777888888
Q ss_pred HHHHHcCCeEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~ 163 (753)
++|...|-++++++..+. ..+....+.|.+.+++.|+.+.....+....+...-...+.++.+. .+++|+.. +..
T Consensus 107 ~~L~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~ 185 (265)
T cd06285 107 RHLLDLGHRRIAVLAGPDYASTARDRLAGFRAALAEAGIEVPPERIVYSGFDIEGGEAAAEKLLRSDSPPTAIFAV-NDF 185 (265)
T ss_pred HHHHHCCCccEEEEeCCcccccHHHHHHHHHHHHHHcCCCCChhhEEeCCCCHHHHHHHHHHHHcCCCCCCEEEEc-CcH
Confidence 988878999999998543 2455667889999999887643211111111222333455555433 35655544 444
Q ss_pred HHHHHHHHHHHcCCCCCCEE
Q 037761 164 LASRLFALVAKNGMMSKGYT 183 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~ 183 (753)
.+..+++.+++.|+..++.+
T Consensus 186 ~a~g~~~~l~~~g~~~p~di 205 (265)
T cd06285 186 AAIGVMGAARDRGLRVPDDV 205 (265)
T ss_pred HHHHHHHHHHHcCCCCCcce
Confidence 56678999999998644433
No 173
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=96.72 E-value=0.084 Score=55.45 Aligned_cols=170 Identities=9% Similarity=0.034 Sum_probs=97.8
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhcc-CCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEK-AQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKA 85 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~-~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a 85 (753)
...++.+-......+.++ +|+++|= |.... . .....+.. .++|+|..+.... ...+ ..+..++...+..
T Consensus 94 ~~~~~~~~~~~~~~l~~~-~vdGiI~~~~~~~-~-~~~~~l~~~~~iPvV~i~~~~~---~~~~---~~v~~d~~~~~~~ 164 (327)
T PRK10423 94 TEGDEQRMNRNLETLMQK-RVDGLLLLCTETH-Q-PSREIMQRYPSVPTVMMDWAPF---DGDS---DLIQDNSLLGGDL 164 (327)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEeCCCcc-h-hhHHHHHhcCCCCEEEECCccC---CCCC---CEEEEChHHHHHH
Confidence 445666555666666664 7888763 22221 1 11222333 4899998863211 1111 1244555566788
Q ss_pred HHHHHHHcCCeEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeC
Q 037761 86 ISAVLQNFSWHEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMN 161 (753)
Q Consensus 86 ~~~~l~~~~w~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~ 161 (753)
++++|...|-++++++.... .......+.|++.+++.|+.+.....+....+..+-...+.++.+. .+++|++. +
T Consensus 165 a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~ 243 (327)
T PRK10423 165 ATQYLIDKGYTRIACITGPLDKTPARLRLEGYRAAMKRAGLNIPDGYEVTGDFEFNGGFDAMQQLLALPLRPQAVFTG-N 243 (327)
T ss_pred HHHHHHHcCCCeEEEEeCCccccchHHHHHHHHHHHHHcCCCCCcceEEeCCCChHHHHHHHHHHhcCCCCCCEEEEc-C
Confidence 88888888999999996432 3445567889999999987642211111111112223344555433 46665554 4
Q ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 162 TALASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
...+..+++.+++.|+..++.+-|++
T Consensus 244 d~~A~g~~~~l~~~g~~vP~dvsvig 269 (327)
T PRK10423 244 DAMAVGVYQALYQAGLSVPQDIAVIG 269 (327)
T ss_pred cHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 44566789999999987665554443
No 174
>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=96.71 E-value=0.083 Score=53.49 Aligned_cols=166 Identities=10% Similarity=0.049 Sum_probs=97.0
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++..-......++++ +++++|--.+......+..+ ..++|+|......+ +...+ .+..++...+..++
T Consensus 37 ~~~~~~~~~~~i~~l~~~-~~dgiii~~~~~~~~~~~~~--~~~iPvV~i~~~~~---~~~~~---~V~~d~~~a~~~~~ 107 (265)
T cd06290 37 GHWNQSRELEALELLKSR-RVDALILLGGDLPEEEILAL--AEEIPVLAVGRRVP---GPGAA---SIAVDNFQGGYLAT 107 (265)
T ss_pred CCCCHHHHHHHHHHHHHC-CCCEEEEeCCCCChHHHHHH--hcCCCEEEECCCcC---CCCCC---EEEECcHHHHHHHH
Confidence 445555444555556554 88887743222222223333 24899999875322 11222 35567777888888
Q ss_pred HHHHHcCCeEEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~ 163 (753)
++|...|.++++++..+ ........+.|++.+.+.|+.+.....+....+...-...+.++.+. .+++|++ ++..
T Consensus 108 ~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~aii~-~~~~ 186 (265)
T cd06290 108 QHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALEEAGLEVQPDLIVQGDFEEESGLEAVEELLQRGPDFTAIFA-ANDQ 186 (265)
T ss_pred HHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHHHcCCCCCHHHEEecCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcH
Confidence 88877799999999754 23445567888999988886543211111111122233445555443 3576554 4555
Q ss_pred HHHHHHHHHHHcCCCCCCEE
Q 037761 164 LASRLFALVAKNGMMSKGYT 183 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~ 183 (753)
.+..+++.+++.|+..++.+
T Consensus 187 ~a~~~~~~l~~~g~~ip~di 206 (265)
T cd06290 187 TAYGARLALYRRGLRVPEDV 206 (265)
T ss_pred HHHHHHHHHHHcCCCCCcce
Confidence 67778899999997654443
No 175
>PF09084 NMT1: NMT1/THI5 like; InterPro: IPR015168 This entry is found in the NMT1 and THI5 proteins. These proteins are proposed to be required for the biosynthesis of the pyrimidine moiety of thiamine [, , ]. They are regulated by thiamine []. ; PDB: 2X26_A 3E4R_A 3KSJ_A 3KSX_A 3UIF_A 4DDD_A 1US4_A 1US5_A 3IX1_B 2X7P_A ....
Probab=96.68 E-value=0.012 Score=57.58 Aligned_cols=113 Identities=20% Similarity=0.213 Sum_probs=69.5
Q ss_pred ChHHHHHHHHcCcccEEEeeeeee-cccceeeec---cccccccceEEEEecccCCCCceeEEEecCccccceeeccccc
Q 037761 447 TYDELLYQIKLKKFDAVVGDISIV-ASRTDYVEF---TLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDC 522 (753)
Q Consensus 447 ~~~~~~~~l~~~~~Di~~~~~~~t-~~r~~~~~f---s~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~ 522 (753)
....++.+|..|++|++++..... ..|.+..+. -..+......+++++.+
T Consensus 30 ~~~~~~~~l~~G~~D~~~~~~~~~~~~~~~g~~~~~i~~~~~~~~~~l~~~~~s-------------------------- 83 (216)
T PF09084_consen 30 GGGDVLEALASGKADIAVAGPDAVLFARAKGADIKIIAASYQSSPNALVVRKDS-------------------------- 83 (216)
T ss_dssp SHHHHHHHHHTTSHSEEEEECHHHHHHHHTTSTEEEEEEEEEECCEEEEEETTT--------------------------
T ss_pred ChhHHHHHHhcCCceEEeccchHHHHHHhcCCeeEEEEEecCCCceEEEEeccC--------------------------
Confidence 678999999999999998765422 233332222 12222334556666543
Q ss_pred hhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHH---hhCCCCCceecCC-
Q 037761 523 SKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVK---QLNFSRNQTRPLS- 598 (753)
Q Consensus 523 ~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~- 598 (753)
.|++++|| .|+++|+..++..+..+.. ..+.....+....
T Consensus 84 ----------------------------------~i~~~~DL--kGK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~ 127 (216)
T PF09084_consen 84 ----------------------------------GIKSPADL--KGKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNL 127 (216)
T ss_dssp ----------------------------------S-SSGGGG--TTSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES
T ss_pred ----------------------------------CCCCHHHh--CCCEEEEecCcchhHHHHHHHHHhccccccceeeee
Confidence 39999999 5999999887654443332 3344333333322
Q ss_pred CHHHHHHHHhcCCCCCCeeEEEecccc
Q 037761 599 NFGEYKEALSNGSRKGGVSAIFEEIPY 625 (753)
Q Consensus 599 ~~~~~~~~l~~g~~~~~~~a~~~~~~~ 625 (753)
+..+...+|.+|+ +|+.+.....
T Consensus 128 ~~~~~~~al~~g~----vDa~~~~~~~ 150 (216)
T PF09084_consen 128 GPPELAQALLSGQ----VDAAILWYPP 150 (216)
T ss_dssp -HHHHHHHHHTTS----SSEEEEEEEC
T ss_pred ehhhhhhhhhcCC----CCEEEEccCC
Confidence 3566777999999 9999944443
No 176
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=96.68 E-value=0.009 Score=62.64 Aligned_cols=130 Identities=15% Similarity=0.159 Sum_probs=80.2
Q ss_pred HHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeec------------ccceeeecc
Q 037761 413 EIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVA------------SRTDYVEFT 480 (753)
Q Consensus 413 dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~------------~r~~~~~fs 480 (753)
.+.+.+++ +++ .+++++.+. +.....+..|.+|++|+++....... .+.+.+...
T Consensus 49 ~la~~~~~----~~~-~i~v~~~~~--------~~~~~~~~~l~~G~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v 115 (320)
T TIGR02122 49 AIAQLINK----KSG-KLRVRVQST--------GGSVENVNLLEAGEADLAIVQSDVAYYAYEGDGEFEFEGPVEKLRAL 115 (320)
T ss_pred HHHHHHhc----cCC-CeeEEEEeC--------cchHHHHHHHhCCCCcEEEEcchhHHHHhcCcCccccCCCCccHHhH
Confidence 44555555 776 356666653 24568899999999999986532211 011222222
Q ss_pred ccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCC
Q 037761 481 LPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFAD 560 (753)
Q Consensus 481 ~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s 560 (753)
.+++.....+++++.+ ++++
T Consensus 116 ~~~~~~~~~lvv~~d~------------------------------------------------------------~i~s 135 (320)
T TIGR02122 116 ASLYPEYIQIVVRKDS------------------------------------------------------------GIKT 135 (320)
T ss_pred HHhccccEEEEEECCC------------------------------------------------------------CCCc
Confidence 3444555667776553 3889
Q ss_pred hhHhhhcCCeEEEecC-chHH----HHHHHhhCCCCCc--eecCCCHHHHHHHHhcCCCCCCeeEEEec
Q 037761 561 LKKLRTESHFVGFQSG-SFVE----DFLVKQLNFSRNQ--TRPLSNFGEYKEALSNGSRKGGVSAIFEE 622 (753)
Q Consensus 561 ~~dL~~~~~~~~~~~~-~~~~----~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~g~~~~~~~a~~~~ 622 (753)
++||. |+++++... +... .+++ ..+..... ...+.+..+.+.+|.+|+ +|+++.+
T Consensus 136 l~dL~--gk~v~~~~~~s~~~~~~~~~l~-~~G~~~~~~~~v~~~~~~~~~~al~~G~----vDa~~~~ 197 (320)
T TIGR02122 136 VADLK--GKRVAVGAPGSGTELNARAVLK-AAGLTYDDVKKVEYLGYAEAADALKDGK----IDAAFYT 197 (320)
T ss_pred HHHcC--CCEEecCCCCcchHHHHHHHHH-HcCCCHHHccchhcCCHHHHHHHHHCCC----ccEEEEe
Confidence 99994 888887543 2222 2333 22332212 356678889999999999 9999977
No 177
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=96.67 E-value=0.072 Score=54.16 Aligned_cols=161 Identities=10% Similarity=-0.010 Sum_probs=96.2
Q ss_pred HHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHcCC
Q 037761 16 LILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNFSW 95 (753)
Q Consensus 16 ~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~~w 95 (753)
.....+++...+|++||=...... ......+...++|+|......+ ..++ +.+++...+..+++.|... .
T Consensus 44 ~~~~~~~l~~~~vdgvi~~~~~~~-~~~~~~l~~~~iPvv~~~~~~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~ 113 (269)
T cd06297 44 KRYLESTTLAYLTDGLLLASYDLT-ERLAERRLPTERPVVLVDAENP-----RFDS---FYLDNRLGGRLAGAYLADF-P 113 (269)
T ss_pred HHHHHHHHHhcCCCEEEEecCccC-hHHHHHHhhcCCCEEEEccCCC-----CCCE---EEECcHHHHHHHHHHHHHh-C
Confidence 344444444457887764322222 2344445678999999865221 1223 4577888888888888666 7
Q ss_pred eEEEEEEeeC--C------cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChHHH
Q 037761 96 HEVVLMYEDT--N------YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTALA 165 (753)
Q Consensus 96 ~~vail~~d~--~------~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~~~ 165 (753)
++++++.... . .+....+.|++.+++.|+.+.....+....+..+....+.++.+. .+++|+.. +...+
T Consensus 114 ~~i~~i~~~~~~~~~~~~~~~~~R~~gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a 192 (269)
T cd06297 114 GRIGAITVEEEPDRAFRRTVFAERRAGFQQALKDAGRPFSPDLLAITDHSEEGGRLAMRHLLEKASPPLAVFAS-ADQQA 192 (269)
T ss_pred CceEEEeCccccccccccccHHHHHHHHHHHHHHcCCCCChhhEEeCCCChhhHHHHHHHHHcCCCCCcEEEEc-CcHHH
Confidence 8999886432 2 345567889999999987643211111111122344556665443 35655555 44456
Q ss_pred HHHHHHHHHcCCCCCCEEEEEc
Q 037761 166 SRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 166 ~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
..+++.+++.|...++.+-|++
T Consensus 193 ~g~~~~l~~~g~~vP~di~vvg 214 (269)
T cd06297 193 LGALQEAVELGLTVGEDVRVVG 214 (269)
T ss_pred HHHHHHHHHcCCCCCCceEEEE
Confidence 6788999999986665555543
No 178
>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=96.66 E-value=0.053 Score=54.24 Aligned_cols=120 Identities=9% Similarity=0.002 Sum_probs=70.0
Q ss_pred CCcCChhHhhhcCCeEEEecCchHHHH----HHHhhCCC------------------C--CceecCCCHHHHHHHHhcCC
Q 037761 556 PTFADLKKLRTESHFVGFQSGSFVEDF----LVKQLNFS------------------R--NQTRPLSNFGEYKEALSNGS 611 (753)
Q Consensus 556 ~~i~s~~dL~~~~~~~~~~~~~~~~~~----~~~~~~~~------------------~--~~~~~~~~~~~~~~~l~~g~ 611 (753)
..|+|++||. .|++|++..+...... |+ ..+.. . .+++.+ ...+...++.+|+
T Consensus 106 ~~~~sl~dlk-~G~~IAip~d~~n~~raL~~L~-~aGLi~l~~~~~~~~t~~DI~~n~~~v~~vel-~~~~~~~al~~g~ 182 (258)
T TIGR00363 106 KKIKNVNELQ-DGAKVAVPNDPTNLGRALLLLQ-KQGLIKLKDGNGLLPTVLDIVENPKKLNITEL-ETSQLPRALDDPK 182 (258)
T ss_pred cCCCCHHHcC-CCCEEEEeCCcchHHHHHHHHH-HcCCceecCCCCCcCChhhhhcCCCCCEEEEc-CHHHHHHHhhccc
Confidence 3699999994 4999999876543333 44 22221 1 222222 3456788999998
Q ss_pred CCCCeeEEEeccccHHHHHhcC-CCCcEEeCcccccCceEEEEcCCCCCchHhHHHHHHhhhcchHHHHHHHhh
Q 037761 612 RKGGVSAIFEEIPYIKVFLKKY-SSKYTTAGPIYRTDGLGFAFAKDSPLVSHFSQAILLVRENQTRMDRIEKKY 684 (753)
Q Consensus 612 ~~~~~~a~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~G~~~~~~~~~~ 684 (753)
+|+.+...+.+.-.--.. ...+ .....-.++-..++++.+..=.+.+...+..++... +-+.+.++|
T Consensus 183 ----vDaa~v~~~~~~~agl~~~~~~i-~~e~~~~~~~n~l~~r~~~~~~~~~~~lv~~~~s~~-v~~~i~~~~ 250 (258)
T TIGR00363 183 ----VDLAVINTTYAGQVGLNPQDDGV-FVEDKDSPYVNIIVSREDNKDAENVKDFIQSYQSEE-VYQAAQKHF 250 (258)
T ss_pred ----ccEEEEChHHHHHcCCCcCcCce-eecCCCCCeeEEEEEcCCccCCHHHHHHHHHHcCHH-HHHHHHHHc
Confidence 999998877554431111 1122 221111122234566665446788888888888877 555555543
No 179
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.64 E-value=0.11 Score=52.80 Aligned_cols=173 Identities=12% Similarity=0.073 Sum_probs=104.2
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEc-CCC-CC--cHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIG-PQI-PA--AAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQV 83 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG-~~~-s~--~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~ 83 (753)
...+++.-.+..+.|+.+ +|+++|= +.. +. ........+...++|+|..+...+. ....+ .+..++...+
T Consensus 37 ~~~~~~~~~~~i~~l~~~-~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~i~~~~~~--~~~~~---~V~~d~~~~~ 110 (273)
T cd06292 37 TYRGGVSEADYVEDLLAR-GVRGVVFISSLHADTHADHSHYERLAERGLPVVLVNGRAPP--PLKVP---HVSTDDALAM 110 (273)
T ss_pred CCCChHHHHHHHHHHHHc-CCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEEEcCCCCC--CCCCC---EEEECcHHHH
Confidence 445666666777777776 8888763 222 21 1222234456789999998753322 01223 3567788888
Q ss_pred HHHHHHHHHcCCeEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 84 KAISAVLQNFSWHEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
..+++.|...|.++++++.... .......+.|.+.++++|+.......+....+.......+.++.+.++++|++. +
T Consensus 111 ~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~ai~~~-~ 189 (273)
T cd06292 111 RLAVRHLVALGHRRIGFASGPGRTVPRRRKIAGFRAALEEAGLEPPEALVARGMFSVEGGQAAAVELLGSGPTAIVAA-S 189 (273)
T ss_pred HHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHHHcCCCCChhheEeCCCCHHHHHHHHHHHhcCCCCEEEEc-C
Confidence 8899988778999999987543 234456788999999988532111111111112233344455544448876655 4
Q ss_pred hHHHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 162 TALASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
...+..+++.+++.|+..++.+-|.+
T Consensus 190 d~~a~g~~~~l~~~g~~ip~di~ii~ 215 (273)
T cd06292 190 DLMALGAIRAARRRGLRVPEDVSVVG 215 (273)
T ss_pred cHHHHHHHHHHHHcCCCCCcceEEEe
Confidence 44566788889999976555554443
No 180
>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=96.64 E-value=0.22 Score=50.92 Aligned_cols=171 Identities=9% Similarity=-0.004 Sum_probs=97.1
Q ss_pred ChHHHHHHHHHHHhcCCeEEEEcCCCCCc-HHHHHHhhccCCccEEeecC-CCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 11 KDCGKLILAVDLLKKFQVQAIIGPQIPAA-APFLVELGEKAQVPIISFFE-TSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 11 ~~~~a~~~a~~Li~~~~V~aviG~~~s~~-~~av~~i~~~~~vP~is~~a-~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
++..-......++.+ +|+++|=...+.. ...+.. +...++|.|.... ..+.-.....+....+.+++...+..+++
T Consensus 45 ~~~~~~~~i~~l~~~-~vDgiIv~~~~~~~~~~~~~-l~~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~ 122 (280)
T cd06303 45 DHRLQSQQLNEALQS-KPDYLIFTLDSLRHRKLIER-VLASGKTKIILQNITTPVKAWLKHQPLLYVGFDHAAGARLLAD 122 (280)
T ss_pred CHHHHHHHHHHHHHc-CCCEEEEcCCchhhHHHHHH-HHhCCCCeEEEeCCCCCccccccCCCceEeCCCHHHHHHHHHH
Confidence 445555556666665 8888775333322 233333 3346677666532 22210000012234467777788888999
Q ss_pred HHHH--cCCeEEEEEEeeC-CcccchHHHHHHHHHhC-CeEEEEeeccCCCCchhhHHHHHHHHhcCC--ccEEEEEeCh
Q 037761 89 VLQN--FSWHEVVLMYEDT-NYGAGFISFLVDELQEN-DIRISHMSKIPTSAEDFQISKELSKLSTMQ--TRVFIVHMNT 162 (753)
Q Consensus 89 ~l~~--~~w~~vail~~d~-~~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIi~~~~~ 162 (753)
+|.. .|.++++++.... ..+....+.|++.++++ |+.+... +....+..+-...+.++.+.. +++|+ +++.
T Consensus 123 ~L~~~~~g~~~i~~l~~~~~~~~~~R~~gf~~al~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~nd 199 (280)
T cd06303 123 YFIKRYPNHARYAMLYFSPGYISTARGDTFIDCVHARNNWTLTSE--FYTDATRQKAYQATSDILSNNPDVDFIY-ACST 199 (280)
T ss_pred HHHHhcCCCcEEEEEECCCCcchhHHHHHHHHHHHhCCCceEEEe--ecCCCCHHHHHHHHHHHHHhCCCCcEEE-ECCc
Confidence 8866 7999999997532 23345668889999988 7664322 221222233344555554433 45544 4455
Q ss_pred HHHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 163 ALASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 163 ~~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
..+..+++.+++.|+. .+...++.
T Consensus 200 ~~A~g~l~al~~~G~~-~dv~vvg~ 223 (280)
T cd06303 200 DIALGASDALKELGRE-DDILINGW 223 (280)
T ss_pred HHHHHHHHHHHHcCCC-CCcEEEec
Confidence 5566789999999984 33333333
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=96.52 E-value=0.1 Score=53.12 Aligned_cols=172 Identities=12% Similarity=0.138 Sum_probs=104.7
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEE-cCCCCCc---HHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAII-GPQIPAA---APFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQV 83 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~avi-G~~~s~~---~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~ 83 (753)
...++..-.+..++++.. +|+++| .|..+.. .......+...++|+|......+. .. +..+..++...+
T Consensus 37 ~~~~~~~~~~~i~~l~~~-~vdgii~~~~~~~~~~~~~~~~~~~~~~~ipvV~~~~~~~~---~~---~~~V~~D~~~~g 109 (273)
T cd01541 37 TNNDPERERKCLENMLSQ-GIDGLIIEPTKSALPNPNIDLYLKLEKLGIPYVFINASYEE---LN---FPSLVLDDEKGG 109 (273)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEeccccccccccHHHHHHHHHCCCCEEEEecCCCC---CC---CCEEEECcHHHH
Confidence 456777777888888876 898887 3332221 112333456779999998643221 11 234677788888
Q ss_pred HHHHHHHHHcCCeEEEEEEeeC-CcccchHHHHHHHHHhCCeEEEEe--eccCCCCchhhHHHHHHHHhcC--CccEEEE
Q 037761 84 KAISAVLQNFSWHEVVLMYEDT-NYGAGFISFLVDELQENDIRISHM--SKIPTSAEDFQISKELSKLSTM--QTRVFIV 158 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~-~~g~~~~~~~~~~~~~~g~~v~~~--~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~ 158 (753)
..+++++...|.++++++...+ ..+....+.+.+.+++.|..+... ..+............+.++.+. .+++|+.
T Consensus 110 ~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~av~~ 189 (273)
T cd01541 110 YKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIKAYREHGIPFNPSNVITYTTEEKEEKLFEKIKEILKRPERPTAIVC 189 (273)
T ss_pred HHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHHHHHHcCCCCChHHEEeccccchhhHHHHHHHHHHcCCCCCCEEEE
Confidence 8899988888999999887432 234455677889998888643211 1111111112344455555443 4676544
Q ss_pred EeChHHHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 159 HMNTALASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 159 ~~~~~~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
.+...+..+++.+++.|+..++.+-|++
T Consensus 190 -~~d~~a~g~~~al~~~g~~~p~dv~vvg 217 (273)
T cd01541 190 -YNDEIALRVIDLLKELGLKIPEDISVVG 217 (273)
T ss_pred -cCcHHHHHHHHHHHHcCCCCCCcEEEEE
Confidence 3444566688899999986555555443
No 182
>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=96.47 E-value=0.17 Score=50.98 Aligned_cols=168 Identities=11% Similarity=-0.004 Sum_probs=100.0
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++..-......++.. +|+++|=..+.....++..+.+ .+ |+|......+ ...+ .+.++....+..++
T Consensus 37 ~~~~~~~~~~~i~~l~~~-~vdgiii~~~~~~~~~~~~~~~-~~-pvv~~~~~~~----~~~~---~v~~d~~~~~~~~~ 106 (260)
T cd06286 37 TNYDKEKELEYLELLKTK-QVDGLILCSRENDWEVIEPYTK-YG-PIVLCEEYDS----KNIS---SVYIDHYEAFYEAL 106 (260)
T ss_pred CCCChHHHHHHHHHHHHc-CCCEEEEeCCCCCHHHHHHHhc-CC-CEEEEecccC----CCCC---EEEECChHHHHHHH
Confidence 445566555666666654 8887774322222344444444 34 8887653211 1222 36777888888999
Q ss_pred HHHHHcCCeEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc--CCccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST--MQTRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIi~~~~~~ 163 (753)
+.|...|-++++++..+. .......+.|.+.+++.|+.+.....+....+..+-...+..+.+ ..+++|+ +++..
T Consensus 107 ~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~ 185 (260)
T cd06286 107 KYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDALEEYGLTPDEEWIFEGCFTIEDGERIGHQLLKMKDRPDAIF-TGSDE 185 (260)
T ss_pred HHHHHCCCceEEEEcCCcccchhHHHHHHHHHHHHHcCCCCChHheEeCCCCHHHHHHHHHHHHcCCCCCCEEE-EcchH
Confidence 998888999999997542 344556788999999998654221111111122233445555543 3567554 44555
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEE
Q 037761 164 LASRLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~ 186 (753)
.+..+++.+++.|+..++.+-+.
T Consensus 186 ~a~~~~~~l~~~g~~ip~di~v~ 208 (260)
T cd06286 186 VAAGIITEAKKQGIRVPEDLAII 208 (260)
T ss_pred HHHHHHHHHHHcCCCCCcceEEE
Confidence 67789999999997544444333
No 183
>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=96.44 E-value=0.17 Score=51.26 Aligned_cols=164 Identities=16% Similarity=0.101 Sum_probs=97.4
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
..++.+-......++.. ++.++|--...... ..+...++|+|......+ ...+ .+.++....+..+++
T Consensus 38 ~~~~~~~~~~i~~~~~~-~~dgiii~~~~~~~----~~~~~~gipvv~~~~~~~----~~~~---~V~~d~~~~g~~~~~ 105 (265)
T cd06291 38 DNDPEKEREYLEMLRQN-QVDGIIAGTHNLGI----EEYENIDLPIVSFDRYLS----ENIP---IVSSDNYEGGRLAAE 105 (265)
T ss_pred CccHHHHHHHHHHHHHc-CCCEEEEecCCcCH----HHHhcCCCCEEEEeCCCC----CCCC---eEeechHHHHHHHHH
Confidence 34565555555565554 78887743222221 244567999999875432 1223 256666777888888
Q ss_pred HHHHcCCeEEEEEEeeC---CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCC--ccEEEEEeChH
Q 037761 89 VLQNFSWHEVVLMYEDT---NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQ--TRVFIVHMNTA 163 (753)
Q Consensus 89 ~l~~~~w~~vail~~d~---~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIi~~~~~~ 163 (753)
+|...|.++++++.... .......+.|.+.+++.|+.+.... .....+..+....+.++.+.. +++|+.. +..
T Consensus 106 ~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~ 183 (265)
T cd06291 106 ELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDVLKENGLEVRIIE-IQENFDDAEKKEEIKELLEEYPDIDGIFAS-NDL 183 (265)
T ss_pred HHHHcCCcEEEEEccCcccccchHHHHHHHHHHHHHcCCCCChhe-eeccccchHHHHHHHHHHhCCCCCCEEEEC-ChH
Confidence 88777999999997533 3345667889999999887542211 111111222334455554433 4554444 444
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEE
Q 037761 164 LASRLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~ 186 (753)
.+..+++.+++.|+..++.+-++
T Consensus 184 ~a~~~~~al~~~g~~vp~di~v~ 206 (265)
T cd06291 184 TAILVLKEAQQRGIRVPEDLQII 206 (265)
T ss_pred HHHHHHHHHHHcCCCCCcceEEe
Confidence 56778889999997644444333
No 184
>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=96.44 E-value=0.32 Score=49.97 Aligned_cols=164 Identities=13% Similarity=0.076 Sum_probs=97.3
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
...++.+-....++++.+ ++.++|- +..+.........+...++|+|......+. .... +-+..++...++.+
T Consensus 37 ~~~~~~~~~~~i~~~~~~-~vdgiii~~~~~~~~~~~l~~l~~~~ipvV~~~~~~~~---~~~~--~~v~~d~~~~g~~~ 110 (288)
T cd01538 37 ANGDPAKQISQIENMIAK-GVDVLVIAPVDGEALASAVEKAADAGIPVIAYDRLILN---SNVD--YYVSFDNEKVGELQ 110 (288)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEecCChhhHHHHHHHHHHCCCCEEEECCCCCC---CCcc--eEEEeChHHHHHHH
Confidence 445677777777777765 8888774 333333344444566789999998653321 1112 22455666677777
Q ss_pred HHHHHHc------CCeEEEEEEeeCC--cccchHHHHHHHHHhCC----eEEEEeeccCCCCchhhHHHHHHHHhcC---
Q 037761 87 SAVLQNF------SWHEVVLMYEDTN--YGAGFISFLVDELQEND----IRISHMSKIPTSAEDFQISKELSKLSTM--- 151 (753)
Q Consensus 87 ~~~l~~~------~w~~vail~~d~~--~g~~~~~~~~~~~~~~g----~~v~~~~~~~~~~~~~d~~~~l~~l~~~--- 151 (753)
+++|... |-++++++..+.. ......+.|++.+++.+ +.+.... .....+..+-...+.++.+.
T Consensus 111 ~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~ 189 (288)
T cd01538 111 GQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFNGAMSVLKPLIDSGKITIVGEV-ATPDWDPETAQKRMENALTANYN 189 (288)
T ss_pred HHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHHHHHHHHHhccccCCeeEEecc-ccCCCCHHHHHHHHHHHHHhCCC
Confidence 7877544 8889999975433 33445678899999887 5443221 11111222233445554433
Q ss_pred CccEEEEEeChHHHHHHHHHHHHcCCCC
Q 037761 152 QTRVFIVHMNTALASRLFALVAKNGMMS 179 (753)
Q Consensus 152 ~~~vIi~~~~~~~~~~~~~~a~~~g~~~ 179 (753)
.+++|+.. +...+..+++++++.|+..
T Consensus 190 ~~~~I~~~-~d~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 190 KVDGVLAA-NDGTAGGAIAALKAAGLAG 216 (288)
T ss_pred CccEEEeC-CcHHHHHHHHHHHHcCCCC
Confidence 34555444 4445667888999999754
No 185
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=96.41 E-value=0.18 Score=52.96 Aligned_cols=165 Identities=10% Similarity=0.090 Sum_probs=98.5
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 10 FKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
.++..-......++.+ +|+++|- |....... ....+...++|+|......+ +..++ .+.+++...+..+++
T Consensus 100 ~~~~~~~~~~~~l~~~-~vdgiIi~~~~~~~~~-~~~~l~~~~iPvV~~~~~~~---~~~~~---~V~~dn~~~~~~~~~ 171 (327)
T TIGR02417 100 DNPDQEKVVIENLLAR-QVDALIVASCMPPEDA-YYQKLQNEGLPVVALDRSLD---DEHFC---SVISDDVDAAAELIE 171 (327)
T ss_pred CCHHHHHHHHHHHHHc-CCCEEEEeCCCCCChH-HHHHHHhcCCCEEEEccccC---CCCCC---EEEeCcHHHHHHHHH
Confidence 4555555556666654 8888764 33221222 33344567999998764322 11223 245666677777888
Q ss_pred HHHHcCCeEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC---CccEEEEEeChH
Q 037761 89 VLQNFSWHEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM---QTRVFIVHMNTA 163 (753)
Q Consensus 89 ~l~~~~w~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vIi~~~~~~ 163 (753)
+|...|.++++++..... ......+.|++.+++.|+...... ....+..+-...+.++.+. .+++|++..+ .
T Consensus 172 ~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~~~~--~~~~~~~~~~~~~~~ll~~~~~~~~Ai~~~~D-~ 248 (327)
T TIGR02417 172 RLLSQHADEFWYLGAQPELSVSRDRLAGFRQALKQATLEVEWVY--GGNYSRESGYQMFAKLCARLGRLPQALFTTSY-T 248 (327)
T ss_pred HHHHCCCCeEEEEeCcccchhHHHHHHHHHHHHHHcCCChHhEE--eCCCChHHHHHHHHHHHhcCCCCCcEEEEcCc-H
Confidence 888889999999975433 345567889999999987532111 1111122233445555432 3677666544 4
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEE
Q 037761 164 LASRLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~ 186 (753)
.+..+++++++.| ..++.+-|+
T Consensus 249 ~A~g~~~al~~~g-~vP~dvsvi 270 (327)
T TIGR02417 249 LLEGVLDYMLERP-LLDSQLHLA 270 (327)
T ss_pred HHHHHHHHHHHcC-CCCCcceEE
Confidence 5667889999999 666544444
No 186
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=96.41 E-value=0.15 Score=53.96 Aligned_cols=168 Identities=12% Similarity=0.113 Sum_probs=96.5
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCcc-EEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVP-IISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP-~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
..++..-......++.+ +|+++|-.........+..+.. ++| +|......+ +...++ +.+++...+..++
T Consensus 98 ~~~~~~~~~~i~~l~~~-~vdgiIi~~~~~~~~~~~~~~~--~~p~vV~i~~~~~---~~~~~~---V~~Dn~~~~~~a~ 168 (343)
T PRK10727 98 YHNEQKERQAIEQLIRH-RCAALVVHAKMIPDAELASLMK--QIPGMVLINRILP---GFENRC---IALDDRYGAWLAT 168 (343)
T ss_pred CCCHHHHHHHHHHHHhc-CCCEEEEecCCCChHHHHHHHh--cCCCEEEEecCCC---CCCCCE---EEECcHHHHHHHH
Confidence 34555555556666655 7888774222212233334433 677 776643221 111222 4666777778888
Q ss_pred HHHHHcCCeEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChH
Q 037761 88 AVLQNFSWHEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTA 163 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~ 163 (753)
++|...|.++++++..... ......+.|++.+++.|+.+..........+..+-...+.++.+. .+++|++. +..
T Consensus 169 ~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-nD~ 247 (343)
T PRK10727 169 RHLIQQGHTRIGYLCSNHSISDAEDRLQGYYDALAESGIPANDRLVTFGEPDESGGEQAMTELLGRGRNFTAVACY-NDS 247 (343)
T ss_pred HHHHHCCCccEEEEeCCccccchHHHHHHHHHHHHHCCCCCChhhEEeCCCChhHHHHHHHHHHhCCCCCCEEEEc-CcH
Confidence 8888889999999975432 345567889999999987542211111111111222344554433 35666544 455
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEE
Q 037761 164 LASRLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~ 186 (753)
.+..+++.+++.|+..++.+-|+
T Consensus 248 ~A~g~~~al~~~G~~vP~disVi 270 (343)
T PRK10727 248 MAAGAMGVLNDNGIDVPGEISLI 270 (343)
T ss_pred HHHHHHHHHHHcCCCCCcceeEE
Confidence 56778899999998766555444
No 187
>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=96.35 E-value=0.29 Score=49.63 Aligned_cols=170 Identities=9% Similarity=-0.028 Sum_probs=99.0
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEE-cCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAII-GPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~avi-G~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
...++..-......++.+ +++++| .|............+...++|+|..+...+ + . ...+..++...++.+
T Consensus 39 ~~~~~~~~~~~i~~~~~~-~~dgiIi~~~~~~~~~~~i~~~~~~~ipvv~~~~~~~---~-~---~~~V~~d~~~~g~~~ 110 (271)
T cd06321 39 ADYDLNKQVSQIDNFIAA-KVDLILLNAVDSKGIAPAVKRAQAAGIVVVAVDVAAE---G-A---DATVTTDNVQAGEIS 110 (271)
T ss_pred CCCCHHHHHHHHHHHHHh-CCCEEEEeCCChhHhHHHHHHHHHCCCeEEEecCCCC---C-c---cceeeechHHHHHHH
Confidence 445666555666666665 787765 343322222333344567999999865332 1 1 124677788888888
Q ss_pred HHHHHHc--CCeEEEEEEeeCC-cccchHHHHHHHHHhC-CeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEe
Q 037761 87 SAVLQNF--SWHEVVLMYEDTN-YGAGFISFLVDELQEN-DIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHM 160 (753)
Q Consensus 87 ~~~l~~~--~w~~vail~~d~~-~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~ 160 (753)
++++... |.++++++..... ......+.+++.+++. +++..... .....+...-...+.++.+. .+++|++.
T Consensus 111 ~~~l~~~~~g~~~i~~i~g~~~~~~~~R~~g~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~- 188 (271)
T cd06321 111 CQYLADRLGGKGNVAILNGPPVSAVLDRVAGCKAALAKYPGIKLLSDD-QNGKGSRDGGLRVMQGLLTRFPKLDGVFAI- 188 (271)
T ss_pred HHHHHHHhCCCceEEEEeCCCCchHHHHHHHHHHHHHhCCCcEEEeee-cCCCCChhhHHHHHHHHHHhCCCCCEEEEC-
Confidence 8988766 9999999975432 3345567888899888 56533221 11111111222344555433 35655544
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEcCc
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVTAC 189 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~~ 189 (753)
+...+..+++.+++.|+ .+..+++.+.
T Consensus 189 ~d~~a~g~~~al~~~g~--~di~v~g~d~ 215 (271)
T cd06321 189 NDPTAIGADLAAKQAGR--NDIKITSVDG 215 (271)
T ss_pred CchhHHHHHHHHHHcCC--CCcEEEEecC
Confidence 44456678889999997 3444454443
No 188
>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=96.35 E-value=0.53 Score=48.01 Aligned_cols=163 Identities=15% Similarity=0.109 Sum_probs=95.5
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 10 FKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
.++..-......++.+ ++++||- +..+.........+...++|+|......+. ..+.+..+..++...+..+++
T Consensus 39 ~~~~~~~~~i~~~~~~-~~Dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~----~~~~~~~v~~d~~~~g~~~~~ 113 (282)
T cd06318 39 GDLTKQIADVEDLLTR-GVNVLIINPVDPEGLVPAVAAAKAAGVPVVVVDSSINL----EAGVVTQVQSSNAKNGNLVGE 113 (282)
T ss_pred CCHHHHHHHHHHHHHc-CCCEEEEecCCccchHHHHHHHHHCCCCEEEecCCCCC----CcCeEEEEecCcHHHHHHHHH
Confidence 4666666666667665 8877664 333332233344556789999998643211 012344567788888889999
Q ss_pred HHHH-cCCe--EEEEEEee--CCcccchHHHHHHHHHhCCeE------EEEeeccCCCCchhhHHHHHHHHhc--CCccE
Q 037761 89 VLQN-FSWH--EVVLMYED--TNYGAGFISFLVDELQENDIR------ISHMSKIPTSAEDFQISKELSKLST--MQTRV 155 (753)
Q Consensus 89 ~l~~-~~w~--~vail~~d--~~~g~~~~~~~~~~~~~~g~~------v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~v 155 (753)
+|.. .|-+ +++++..+ ...+....+.|++.++++|+. ...........+..+-...+.++.. ..+++
T Consensus 114 ~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a 193 (282)
T cd06318 114 WVVGELGDKPMKIILLSGDAGNLVGQARRDGFLLGVSEAQLRKYGKTNFTIVAQGYGDWTREGGLKAMEDLLVAHPDINV 193 (282)
T ss_pred HHHHHhCCCCceEEEEECCCCCchHhHHHHhHHHHHhhCcccccccCCeEEEecCCCCCCHHHHHHHHHHHHHhCCCcCE
Confidence 8854 6754 88888753 334566778899999988642 1111101111112233334444433 24565
Q ss_pred EEEEeChHHHHHHHHHHHHcCCC
Q 037761 156 FIVHMNTALASRLFALVAKNGMM 178 (753)
Q Consensus 156 Ii~~~~~~~~~~~~~~a~~~g~~ 178 (753)
|+... ...+..+++.+++.|+.
T Consensus 194 i~~~~-d~~a~g~~~al~~~g~~ 215 (282)
T cd06318 194 VYSEN-DDMALGAMRVLAEAGKT 215 (282)
T ss_pred EEECC-cchHHHHHHHHHHcCCC
Confidence 55543 34456788999999973
No 189
>cd06307 PBP1_uncharacterized_sugar_binding Periplasmic sugar-binding domain of uncharacterized transport systems. Periplasmic sugar-binding domain of uncharacterized transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. The members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes.
Probab=96.31 E-value=0.26 Score=50.21 Aligned_cols=160 Identities=9% Similarity=0.004 Sum_probs=90.9
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 10 FKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
.++..-......+. . +|+++|= +..+.........+...++|+|......+. ... +..+..++...+..+++
T Consensus 43 ~~~~~~~~~i~~~~-~-~vdgiii~~~~~~~~~~~i~~~~~~~ipvV~~~~~~~~--~~~---~~~V~~d~~~~g~~~~~ 115 (275)
T cd06307 43 FDPAALAAALLRLG-A-RSDGVALVAPDHPQVRAAVARLAAAGVPVVTLVSDLPG--SPR---AGYVGIDNRAAGRTAAW 115 (275)
T ss_pred CCHHHHHHHHHHHH-h-cCCEEEEeCCCcHHHHHHHHHHHHCCCcEEEEeCCCCC--Cce---eeEEccChHHHHHHHHH
Confidence 45554445554544 4 7887763 333222223345556689999987643211 111 22345566666777777
Q ss_pred HHHHc-C--CeEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc--CCccEEEEEeC
Q 037761 89 VLQNF-S--WHEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST--MQTRVFIVHMN 161 (753)
Q Consensus 89 ~l~~~-~--w~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIi~~~~ 161 (753)
+|... | -++++++..... ......+.|++.+++.+..+.....+....+..+....+.++.+ ..+++|+...+
T Consensus 116 ~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d 195 (275)
T cd06307 116 LIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFRSVLREEFPGLRVLETLEGLDDPARAYEATRKLLARHPDLVGIYNAGG 195 (275)
T ss_pred HHHHHhCCCCCeEEEEecCCCCcchHHHHHHHHHHHHhhCCCcEEEeeccCCCChHHHHHHHHHHHHhCCCceEEEECCC
Confidence 77554 4 469999876432 33455688999998887544322222212122233445555543 34667766655
Q ss_pred hHHHHHHHHHHHHcCCC
Q 037761 162 TALASRLFALVAKNGMM 178 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~ 178 (753)
. +..+++.+++.|+.
T Consensus 196 ~--~~g~~~al~~~g~~ 210 (275)
T cd06307 196 G--NRGVIRALREAGRA 210 (275)
T ss_pred C--hHHHHHHHHHcCCC
Confidence 4 35789999999974
No 190
>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=96.30 E-value=0.39 Score=48.72 Aligned_cols=157 Identities=11% Similarity=0.019 Sum_probs=95.9
Q ss_pred ChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHH
Q 037761 11 KDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVL 90 (753)
Q Consensus 11 ~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l 90 (753)
++..-.+....++.. +|.+||-.............+...++|+|....... +. .....+..++...++.++++|
T Consensus 42 ~~~~~~~~i~~~~~~-~vdgiI~~~~~~~~~~~~~~~~~~giPvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l 115 (268)
T cd06306 42 NLAKQIAQLEDCAAW-GADAILLGAVSPDGLNEILQQVAASIPVIALVNDIN---SP--DITAKVGVSWYEMGYQAGEYL 115 (268)
T ss_pred CHHHHHHHHHHHHHc-CCCEEEEcCCChhhHHHHHHHHHCCCCEEEeccCCC---Cc--ceeEEecCChHHHHHHHHHHH
Confidence 345555667777765 888876422222221123445678999998753221 11 122345677777888888988
Q ss_pred HHcCC-----eEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc--CCccEEEEEeC
Q 037761 91 QNFSW-----HEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST--MQTRVFIVHMN 161 (753)
Q Consensus 91 ~~~~w-----~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIi~~~~ 161 (753)
...+- ++++++..... ......+.+++.+++.++++.... ....+...-...+.++.+ ..+++|+. .
T Consensus 116 ~~~g~~~~~~~~i~~l~g~~~~~~~~~R~~g~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~i~~--~ 191 (268)
T cd06306 116 AQRHPKGSKPAKVAWFPGPKGAGWVKAVEKGFRDALAGSAIEISAIK--YGDTGKEVQRKLVEEALEAHPDIDYIVG--S 191 (268)
T ss_pred HHHhhcCCCCceEEEEeCCCCCchHHHHHHHHHHHHhhcCcEEeeec--cCCccHHHHHHHHHHHHHhCCCcCEEee--c
Confidence 66665 89999975332 455667889999999998775421 111122333445555543 34677663 3
Q ss_pred hHHHHHHHHHHHHcCC
Q 037761 162 TALASRLFALVAKNGM 177 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~ 177 (753)
...+..+++.+++.|+
T Consensus 192 d~~a~~~~~~l~~~g~ 207 (268)
T cd06306 192 AVAAEAAVGILRQRGL 207 (268)
T ss_pred chhhhHHHHHHHhcCC
Confidence 5566778888999996
No 191
>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=96.24 E-value=0.51 Score=48.89 Aligned_cols=171 Identities=12% Similarity=0.126 Sum_probs=95.2
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEE-cCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAII-GPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~avi-G~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
.+.++..-......++.+ +|.++| .|..+.....+...+...++|+|......+...-...+-+..+.+++...+..+
T Consensus 39 ~~~~~~~q~~~i~~l~~~-~vdgiii~~~~~~~~~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~ 117 (303)
T cd01539 39 AKNNQSTQNEQIDTALAK-GVDLLAVNLVDPTAAQTVINKAKQKNIPVIFFNREPEEEDIKSYDKAYYVGTDAEQSGILQ 117 (303)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEecCchhhHHHHHHHHHHCCCCEEEeCCCCcccccccccccceeeecHHHHHHHH
Confidence 345677666777777776 888766 454443334444556778999999865322111011122345677777777888
Q ss_pred HHHHHHc--CCe---------E--EEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC
Q 037761 87 SAVLQNF--SWH---------E--VVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM 151 (753)
Q Consensus 87 ~~~l~~~--~w~---------~--vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~ 151 (753)
+++|... +-+ + ++++..+.. ......+.+++.+++.|+.+..........+...-...++++.+.
T Consensus 118 a~~l~~~~~~~~~~~~~~~~g~~~i~~~~g~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~ 197 (303)
T cd01539 118 GKLIADYWNANKDALDKNGDGIIQYVMLKGEPGHPDAIARTKYSIETLNDAGIKTEELASDTANWDRAQAKDKMDALLLK 197 (303)
T ss_pred HHHHHHHhhccccccccCCCCceEEEEEEcCCCCchhhhhhhhHHHHHHhcCCCeEEEEeecCCCCHHHHHHHHHHHHHh
Confidence 8877443 221 2 344543322 234456788999998887653222222121222333345554432
Q ss_pred ---CccEEEEEeChHHHHHHHHHHHHcCCCCC
Q 037761 152 ---QTRVFIVHMNTALASRLFALVAKNGMMSK 180 (753)
Q Consensus 152 ---~~~vIi~~~~~~~~~~~~~~a~~~g~~~~ 180 (753)
.+++|+.. +...+..+++++++.|...+
T Consensus 198 ~~~~~~ai~~~-~d~~a~g~~~al~~~g~~~p 228 (303)
T cd01539 198 YGDKIEAVIAN-NDAMALGAIEALQKYGYNKG 228 (303)
T ss_pred cCCCccEEEEC-CchHHHHHHHHHHHcCCCcC
Confidence 25655544 33445568888888887554
No 192
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=96.18 E-value=0.16 Score=51.23 Aligned_cols=157 Identities=13% Similarity=0.034 Sum_probs=92.4
Q ss_pred HHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHcCCeEEE
Q 037761 20 VDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNFSWHEVV 99 (753)
Q Consensus 20 ~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~~va 99 (753)
..+.. .+|+++|-..+......+ ..+...++|+|......+ ..++ .+..++...+..+++++...|-++++
T Consensus 45 ~~l~~-~~vdgii~~~~~~~~~~~-~~~~~~~ipvV~~~~~~~----~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~ 115 (261)
T cd06272 45 DLFKE-NRFDGVIIFGESASDVEY-LYKIKLAIPVVSYGVDYD----LKYP---IVNVDNEKAMELAVLYLAEKGHKKIA 115 (261)
T ss_pred HHHHH-cCcCEEEEeCCCCChHHH-HHHHHcCCCEEEEcccCC----CCCC---EEEEChHHHHHHHHHHHHHcCchhEE
Confidence 33444 478877643232222223 445678999998764322 1222 35677778888899988778999999
Q ss_pred EEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCC--ccEEEEEeChHHHHHHHHHHHHc
Q 037761 100 LMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQ--TRVFIVHMNTALASRLFALVAKN 175 (753)
Q Consensus 100 il~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIi~~~~~~~~~~~~~~a~~~ 175 (753)
++..... ......+.|++.+++.|+.+..........+..+....+.++.+.. +++|+. ++...+..+++.+++.
T Consensus 116 ~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~ 194 (261)
T cd06272 116 YIGDLSLDRRQRKRFKGFLETCDENGISISDSHIDVDGLSAEGGDNAAKKLLKESDLPTAIIC-GSYDIALGVLSALNKQ 194 (261)
T ss_pred EeecccccccHHHHHHHHHHHHHHcCCCCCHHHeeeCCCCHHHHHHHHHHHHcCCCCCCEEEE-CCcHHHHHHHHHHHHh
Confidence 9975433 3344567889999998864322111111111223334455554433 565444 4445567788999999
Q ss_pred CCCCCCEEEEE
Q 037761 176 GMMSKGYTWIV 186 (753)
Q Consensus 176 g~~~~~~~wi~ 186 (753)
|+..++.+-++
T Consensus 195 g~~vp~dv~vv 205 (261)
T cd06272 195 GISIPEDIEII 205 (261)
T ss_pred CCCCCCceEEE
Confidence 98655544443
No 193
>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=96.15 E-value=0.44 Score=49.07 Aligned_cols=175 Identities=11% Similarity=0.066 Sum_probs=100.6
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
...++..-......++.+ ++++||= +........+...+...++|+|......+.... .-+++.-+..++...+..+
T Consensus 38 ~~~~~~~~~~~l~~~~~~-~~dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~~~~-~~~~~~~v~~d~~~~g~~~ 115 (294)
T cd06316 38 AQFDPAKQVADIETTISQ-KPDIIISIPVDPVSTAAAYKKVAEAGIKLVFMDNVPSGLEH-GKDYAGIVTDDNYGNGQIA 115 (294)
T ss_pred CCCCHHHHHHHHHHHHHh-CCCEEEEcCCCchhhhHHHHHHHHcCCcEEEecCCCccccc-CcceEEEEccCcHHHHHHH
Confidence 446777777777788776 7887654 433222234445566789999987654322211 1123344566777778888
Q ss_pred HHHHHHc--CCeEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEe
Q 037761 87 SAVLQNF--SWHEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHM 160 (753)
Q Consensus 87 ~~~l~~~--~w~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~ 160 (753)
+++|... |-++++++..+.+ ......+.+.+.+++.+..+......... +.......+..+.+. .+++|+..
T Consensus 116 ~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~ai~~~- 193 (294)
T cd06316 116 ADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKETIKKNYPDITIVAEKGID-GPSKAEDIANAMLTQNPDLKGIYAV- 193 (294)
T ss_pred HHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHHHHHHhCCCcEEEeecCCc-chhHHHHHHHHHHHhCCCeeEEEeC-
Confidence 8988655 7899999975433 33445678888887665322212111111 011223344554433 35555544
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEcC
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVTA 188 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~ 188 (753)
+...+..+++.+++.|+ .+...++.+
T Consensus 194 ~d~~a~g~~~~l~~~g~--~di~vvg~d 219 (294)
T cd06316 194 WDVPAEGVIAALRAAGR--DDIKVTTVD 219 (294)
T ss_pred CCchhHHHHHHHHHcCC--CCceEEEeC
Confidence 44457778999999986 343444444
No 194
>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=96.14 E-value=0.2 Score=50.75 Aligned_cols=158 Identities=9% Similarity=-0.039 Sum_probs=88.4
Q ss_pred ChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccC-CccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHH
Q 037761 11 KDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKA-QVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAV 89 (753)
Q Consensus 11 ~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~-~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~ 89 (753)
++..-.+....|++ .+|+++|--.. .........+..+ ++|++..+...+.. +.+-....+....+..++.+
T Consensus 42 ~~~~~~~~i~~l~~-~~vdgiI~~~~-~~~~~~~~~~~~~~~~PiV~i~~~~~~~-----~~~~~v~~d~~~a~~~a~~l 114 (265)
T cd06354 42 SDADYEPNLEQLAD-AGYDLIVGVGF-LLADALKEVAKQYPDQKFAIIDAVVDDP-----PNVASIVFKEEEGSFLAGYL 114 (265)
T ss_pred CHHHHHHHHHHHHh-CCCCEEEEcCc-chHHHHHHHHHHCCCCEEEEEecccCCC-----CcEEEEEecchhHHHHHHHH
Confidence 44444455555555 48999886322 2233455555555 89999876422110 11223444454455555566
Q ss_pred HHH-cCCeEEEEEEeeCCcc-cchHHHHHHHHHhCC---eEEEEeeccCCCCc-hhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 90 LQN-FSWHEVVLMYEDTNYG-AGFISFLVDELQEND---IRISHMSKIPTSAE-DFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 90 l~~-~~w~~vail~~d~~~g-~~~~~~~~~~~~~~g---~~v~~~~~~~~~~~-~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
+.. .|-++++++..+.... ....+.+++.+++.| ..+..........+ ..+-...+.++.+.++++|+.. +..
T Consensus 115 l~~~~G~~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~~~-nd~ 193 (265)
T cd06354 115 AALMTKTGKVGFIGGMDIPLIRRFEAGFEAGVKYVNPGVPDIEVLVQYAGSFNDPAKGKEIAQAMYDQGADVIFAA-AGG 193 (265)
T ss_pred HHhhcCCCeEEEEecccChHHHHHHHHHHHHHHHHhccCCCceEEEEEcCcccCHHHHHHHHHHHHHCCCcEEEEC-CCC
Confidence 654 3899999997543212 222367888898888 65432211111111 1233345566655568875555 444
Q ss_pred HHHHHHHHHHHcC
Q 037761 164 LASRLFALVAKNG 176 (753)
Q Consensus 164 ~~~~~~~~a~~~g 176 (753)
.+..+++++++.|
T Consensus 194 ~A~gv~~al~~~g 206 (265)
T cd06354 194 TGNGVFQAAKEAG 206 (265)
T ss_pred CchHHHHHHHhcC
Confidence 5667888899887
No 195
>PRK09526 lacI lac repressor; Reviewed
Probab=96.14 E-value=0.4 Score=50.65 Aligned_cols=161 Identities=12% Similarity=0.094 Sum_probs=95.6
Q ss_pred hHHHHHHHHHHHhcCCeEEEEc--CCCCCcHHHHHHhh-ccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 12 DCGKLILAVDLLKKFQVQAIIG--PQIPAAAPFLVELG-EKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 12 ~~~a~~~a~~Li~~~~V~aviG--~~~s~~~~av~~i~-~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
+..-......|..+ +|+++|- +..+.. +..+. ...++|+|..... + +.. +..+..++...+..+++
T Consensus 106 ~~~~~~~l~~l~~~-~vdGiii~~~~~~~~---~~~~~~~~~~iPvV~~d~~-~---~~~---~~~V~~d~~~~~~~a~~ 174 (342)
T PRK09526 106 VEACQAAVNELLAQ-RVSGVIINVPLEDAD---AEKIVADCADVPCLFLDVS-P---QSP---VNSVSFDPEDGTRLGVE 174 (342)
T ss_pred HHHHHHHHHHHHhc-CCCEEEEecCCCcch---HHHHHhhcCCCCEEEEecc-C---CCC---CCEEEECcHHHHHHHHH
Confidence 34444555566654 8888774 333221 22232 2358999987542 1 111 23356677777788899
Q ss_pred HHHHcCCeEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChHH
Q 037761 89 VLQNFSWHEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTAL 164 (753)
Q Consensus 89 ~l~~~~w~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~~ 164 (753)
+|...|.++++++.... .......+.|++.+++.|+.+.... ....+..+-...+.++.+. .+++|+. ++...
T Consensus 175 ~L~~~G~~~I~~l~g~~~~~~~~~R~~Gf~~al~~~gi~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~ 251 (342)
T PRK09526 175 HLVELGHQRIALLAGPESSVSARLRLAGWLEYLTDYQLQPIAVR--EGDWSAMSGYQQTLQMLREGPVPSAILV-ANDQM 251 (342)
T ss_pred HHHHCCCCeEEEEeCCCccccHHHHHHHHHHHHHHcCCCcceEE--eCCCchHHHHHHHHHHhcCCCCCcEEEE-cCcHH
Confidence 98888999999997532 2334556789999999997643221 1111122222344454433 4565554 44455
Q ss_pred HHHHHHHHHHcCCCCCCEEEEE
Q 037761 165 ASRLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 165 ~~~~~~~a~~~g~~~~~~~wi~ 186 (753)
+..+++.+++.|+..++.+-|+
T Consensus 252 A~g~~~al~~~g~~vP~disvi 273 (342)
T PRK09526 252 ALGVLRALHESGLRVPGQISVI 273 (342)
T ss_pred HHHHHHHHHHcCCCCCCceEEE
Confidence 6778999999998766555444
No 196
>PRK09492 treR trehalose repressor; Provisional
Probab=96.10 E-value=0.32 Score=50.68 Aligned_cols=154 Identities=13% Similarity=0.044 Sum_probs=95.1
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++.........|..+ +|+++|--..+... .......++|++...... +.+-.+.+++...+..++
T Consensus 100 ~~~~~~~~~~~~~~l~~~-~vdgiIi~~~~~~~---~~~l~~~~~pvv~i~~~~--------~~~~~V~~D~~~~~~~a~ 167 (315)
T PRK09492 100 SQFSPEKVNEHLGVLKRR-NVDGVILFGFTGIT---EEMLAPWQDKLVLLARDA--------KGFSSVCYDDEGAIKLLM 167 (315)
T ss_pred cCCChHHHHHHHHHHHhc-CCCEEEEeCCCccc---HHHHHhcCCCEEEEeccC--------CCCcEEEECcHHHHHHHH
Confidence 445666655555555554 89988853322211 123344567887765311 112345667777778888
Q ss_pred HHHHHcCCeEEEEEEee-C--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHH
Q 037761 88 AVLQNFSWHEVVLMYED-T--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTAL 164 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d-~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~ 164 (753)
++|...|-++++++... . ..+....+.|++.+++.|+.+... .. ..+..+-...+.++.+.++++|++.. -..
T Consensus 168 ~~L~~~G~~~I~~i~~~~~~~~~~~~R~~Gf~~al~~~g~~~~~~--~~-~~~~~~~~~~~~~~l~~~~~ai~~~~-D~~ 243 (315)
T PRK09492 168 QRLYDQGHRHISYLGVDHSDVTTGKRRHQAYLAFCKQHKLTPVAA--LG-GLSMQSGYELVAKVLTPETTALVCAT-DTL 243 (315)
T ss_pred HHHHHcCCCeEEEEcCCcccchhHHHHHHHHHHHHHHcCCCceee--cC-CCCchHHHHHHHHHhhcCCCEEEEcC-cHH
Confidence 98888899999999632 2 234567789999999999875432 11 11112222344555455788887655 455
Q ss_pred HHHHHHHHHHcCC
Q 037761 165 ASRLFALVAKNGM 177 (753)
Q Consensus 165 ~~~~~~~a~~~g~ 177 (753)
+..+++.+++.|+
T Consensus 244 A~g~~~al~~~g~ 256 (315)
T PRK09492 244 ALGASKYLQEQGR 256 (315)
T ss_pred HHHHHHHHHHcCC
Confidence 6678899999996
No 197
>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=96.08 E-value=0.15 Score=48.99 Aligned_cols=182 Identities=18% Similarity=0.150 Sum_probs=111.8
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ +.- ++++.+... +...+++.|.+|++|+++....... ..+. ..++....+
T Consensus 19 ~~l~~~l~~~~~----~~P-~i~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~~---~~~~-~~~l~~~~~ 80 (209)
T PF03466_consen 19 SLLPPLLAEFRE----RHP-NIRIEIREG---------DSDELIEALRSGELDLAITFGPPPP---PGLE-SEPLGEEPL 80 (209)
T ss_dssp HTHHHHHHHHHH----HST-TEEEEEEEE---------SHHHHHHHHHTTSSSEEEESSSSSS---TTEE-EEEEEEEEE
T ss_pred HHHHHHHHHHHH----HCC-CcEEEEEec---------cchhhhHHHhcccccEEEEEeeccc---cccc-cccccceee
Confidence 344566666666 665 477777764 6789999999999999986544422 2222 467778889
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
++++++..+.. ....-+++||. +
T Consensus 81 ~~~~~~~~pl~-------------------------------------------------------~~~~i~~~dL~--~ 103 (209)
T PF03466_consen 81 VLVVSPDHPLA-------------------------------------------------------QKKPITLEDLA--D 103 (209)
T ss_dssp EEEEETTSGGG-------------------------------------------------------TTSSSSGGGGT--T
T ss_pred eeeeecccccc-------------------------------------------------------ccccchhhhhh--h
Confidence 99999886422 11233899994 6
Q ss_pred CeEEEec-CchHHHHHHH---hhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcE--EeCc
Q 037761 569 HFVGFQS-GSFVEDFLVK---QLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYT--TAGP 642 (753)
Q Consensus 569 ~~~~~~~-~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~--~~~~ 642 (753)
.++.... +......+.+ ..+.........++.......+..|. .-+++.. .......... ++. .+..
T Consensus 104 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p~-~~~~~~~~~~--~l~~~~~~~ 176 (209)
T PF03466_consen 104 YPLILLSPGSPYRDQLDRWLREHGFSPNIVIEVDSFESILSLVASGD----GIAILPD-SLAQDELESG--ELVFLPLPD 176 (209)
T ss_dssp SEEEEESTTTSHHHHHHHHHHHTTEEEEEEEEESSHHHHHHHHHTTS----EBEEEEH-HHHHHHHHCT--TEEEEEESS
T ss_pred ccccccccccccccccccccccccccccccccccchhhhcccccccc----ceeecCc-ccccccccCC--CEEEEECCC
Confidence 6555533 3334444432 12222233355788899999999997 5555444 3333333332 344 2333
Q ss_pred ccccCceEEEEcCCCCCchHhHHHHHHhhh
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAILLVRE 672 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~ 672 (753)
.-...+++++.+++.+....+...+..+++
T Consensus 177 ~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~ 206 (209)
T PF03466_consen 177 PPLPRPIYLVWRKDRPLSPAIQWFIDLLRE 206 (209)
T ss_dssp STEEEEEEEEEETTGTTHHHHHHHHHHHHH
T ss_pred CCCceEEEEEEECCCCCCHHHHHHHHHHHH
Confidence 223367888888888777777766666554
No 198
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=96.07 E-value=0.21 Score=50.47 Aligned_cols=118 Identities=8% Similarity=0.043 Sum_probs=65.4
Q ss_pred CcCChhHhhhcCCeEEEecCc-hHHH---HHHHhhCC-------------------C-CCceecCCCHHHHHHHHhcCCC
Q 037761 557 TFADLKKLRTESHFVGFQSGS-FVED---FLVKQLNF-------------------S-RNQTRPLSNFGEYKEALSNGSR 612 (753)
Q Consensus 557 ~i~s~~dL~~~~~~~~~~~~~-~~~~---~~~~~~~~-------------------~-~~~~~~~~~~~~~~~~l~~g~~ 612 (753)
.|+|++||. .|++|++.... .... .|+ ..+. | +.+++.. ...+....+.+|+
T Consensus 120 ~i~si~DL~-~Gk~IAip~d~~n~~r~L~lL~-~~Gli~l~~~~~~~~t~~di~~n~~~v~~v~~-~~~~~~~al~~g~- 195 (271)
T PRK11063 120 KIKSLDELQ-DGSQVAVPNDPTNLGRSLLLLQ-KVGLIKLKDGVGLLPTVLDIVENPKNLKIVEL-EAPQLPRSLDDAQ- 195 (271)
T ss_pred CCCCHHHhc-CCCEEEecCCCccHHHHHHHHH-HCCCEEecCCCCCCCCHHHHhcCCCCCEEEEC-cHHHHHHhccccc-
Confidence 599999994 59999998633 2222 222 1111 1 1222323 4567888898998
Q ss_pred CCCeeEEEeccccHHHHHhcC-CCCcEEeCcccccCceEEEEcCCCCCchHhHHHHHHhhhcchHHHHHHHh
Q 037761 613 KGGVSAIFEEIPYIKVFLKKY-SSKYTTAGPIYRTDGLGFAFAKDSPLVSHFSQAILLVRENQTRMDRIEKK 683 (753)
Q Consensus 613 ~~~~~a~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~G~~~~~~~~~ 683 (753)
+|+.+...++....-... .+.+ .....-.++-..+++++...=.+.+...+.-++... .-+.+.++
T Consensus 196 ---vDaa~i~~~~a~~a~~~~~~~~l-~~e~~~~~~~~~~~v~~~~~~~~~~~~l~~a~~s~~-v~~~i~~~ 262 (271)
T PRK11063 196 ---IALAVINTTYASQIGLTPAKDGI-FVEDKDSPYVNLIVAREDNKDAENVKKFVQAYQSDE-VYEAANKV 262 (271)
T ss_pred ---ccEEEEChHHHHHcCCCCCCCee-EECCCCCCeEEEEEECCcccCCHHHHHHHHHHcCHH-HHHHHHHH
Confidence 999998877665432222 1222 222211112234566666545566666666666666 44444444
No 199
>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=96.06 E-value=0.097 Score=51.56 Aligned_cols=133 Identities=8% Similarity=0.019 Sum_probs=89.8
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCC--CC-CCce--EEEecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHH
Q 037761 41 PFLVELGEKAQVPIISFFETSPALSP--TE-HPFF--IRVTQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFL 115 (753)
Q Consensus 41 ~av~~i~~~~~vP~is~~a~~~~l~~--~~-~~~~--fr~~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~ 115 (753)
.+++.+....++=.|.|++++..+-. .. ..-+ -+...+...-+.++.+.|+++|.+|++++. +|-.+..+.+
T Consensus 61 ~aa~~ll~~a~~dvi~~~cTsgs~~~G~~~~~~~i~~~~~g~p~tt~~~A~~~AL~alg~~RIalvT---PY~~~v~~~~ 137 (239)
T TIGR02990 61 EAAALILPDEELDVVAYSCTSASVVIGDDEVTRAINAAKPGTPVVTPSSAAVDGLAALGVRRISLLT---PYTPETSRPM 137 (239)
T ss_pred HHHHHhcCCCCCCEEEEccchhheecCHHHHHHHHHhcCCCCCeeCHHHHHHHHHHHcCCCEEEEEC---CCcHHHHHHH
Confidence 33444444456667777776654421 00 0000 011233445668999999999999999998 6888899999
Q ss_pred HHHHHhCCeEEEEeeccCCC-------CchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHH-cC
Q 037761 116 VDELQENDIRISHMSKIPTS-------AEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAK-NG 176 (753)
Q Consensus 116 ~~~~~~~g~~v~~~~~~~~~-------~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~-~g 176 (753)
++.+++.|++|+....+... .+...+...+.++...++|+|++.|..-....++.++.+ +|
T Consensus 138 ~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aDAifisCTnLrt~~vi~~lE~~lG 206 (239)
T TIGR02990 138 AQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDADALFLSCTALRAATCAQRIEQAIG 206 (239)
T ss_pred HHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCCEEEEeCCCchhHHHHHHHHHHHC
Confidence 99999999999887655431 123455555566657789999999988777888887754 45
No 200
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=96.01 E-value=0.56 Score=49.08 Aligned_cols=172 Identities=15% Similarity=0.107 Sum_probs=110.9
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEE-EcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAI-IGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~av-iG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
.+.|+..-++....++.+ ++++| |.|.++.....+..-+...+||+|...+..+.- .....-+.......+...
T Consensus 73 ~~~d~~~Q~~~i~~~ia~-~~daIiv~~~d~~~~~~~v~~a~~aGIpVv~~d~~~~~~----~~~~~~vg~dn~~~G~~~ 147 (322)
T COG1879 73 AQNDVAKQIAQIEDLIAQ-GVDAIIINPVDPDALTPAVKKAKAAGIPVVTVDSDIPGP----GDRVAYVGSDNYKAGRLA 147 (322)
T ss_pred cccChHHHHHHHHHHHHc-CCCEEEEcCCChhhhHHHHHHHHHCCCcEEEEecCCCCC----CceeEEEecCcHHHHHHH
Confidence 457888888899999876 88775 578899999999999999999999987543322 122333444666677777
Q ss_pred HHHH-HHcCC-eEEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh
Q 037761 87 SAVL-QNFSW-HEVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 87 ~~~l-~~~~w-~~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
++++ +.++- -+++++... .....+..+.+++.+++.+..+........+.+...-......+..+.||+-.+++..
T Consensus 148 a~~l~~~~~~~g~v~~~~g~~~~~~~~~R~~G~~~~l~~~~~~~~v~~~~~~~~~~~~a~~~~~~~L~~~pdi~~i~~~~ 227 (322)
T COG1879 148 AEYLAKALGGKGKVVVLVGSPGNSSAEERVKGFRDALKEHPPDIEVVDVQTGDWDRDKALEVMEDLLAANPDIDGIYAAN 227 (322)
T ss_pred HHHHHHHhCCCCeEEEEecCCCCchHHHHHhhHHHHHHhCCCcEEEeeccCCcccHHHHHHHHHHHHHhCCCceEEEECC
Confidence 7766 44442 345565543 3345667889999999988532222222222234444456677777778886666665
Q ss_pred HHHH-HHHHHHHHcCCCCCCEEEEE
Q 037761 163 ALAS-RLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 163 ~~~~-~~~~~a~~~g~~~~~~~wi~ 186 (753)
.... -..+++++.|... .+.++
T Consensus 228 d~~a~ga~~A~~~~g~~~--~v~v~ 250 (322)
T COG1879 228 DGMALGAIQALKAAGRKG--DVVVV 250 (322)
T ss_pred chhHHHHHHHHHHcCCCC--ceEEE
Confidence 4444 4556777778643 44444
No 201
>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=95.98 E-value=0.37 Score=45.12 Aligned_cols=174 Identities=14% Similarity=0.113 Sum_probs=97.8
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..++++.+.+ +.. ++++.+... .+.+++..|.+|++|+++...... ...+. ..++.....+
T Consensus 14 ~l~~~i~~~~~----~~p-~i~i~~~~~---------~~~~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~ 75 (197)
T cd05466 14 LLPPLLAAFRQ----RYP-GVELSLVEG---------GSSELLEALLEGELDLAIVALPVD---DPGLE-SEPLFEEPLV 75 (197)
T ss_pred HhHHHHHHHHH----HCC-CCEEEEEEC---------ChHHHHHHHHcCCceEEEEcCCCC---CCcce-EeeeeccceE
Confidence 44556666655 553 466776664 567899999999999998654432 22233 3566777888
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
+++++..+.. ....-+++||. +.
T Consensus 76 ~~~~~~~~~~-------------------------------------------------------~~~~~~~~~l~--~~ 98 (197)
T cd05466 76 LVVPPDHPLA-------------------------------------------------------KRKSVTLADLA--DE 98 (197)
T ss_pred EEecCCCCcc-------------------------------------------------------cCcEecHHHHc--CC
Confidence 8888775422 00124688884 55
Q ss_pred eEEEecC-chHH----HHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc--
Q 037761 570 FVGFQSG-SFVE----DFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP-- 642 (753)
Q Consensus 570 ~~~~~~~-~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~-- 642 (753)
++..... .... .++.+ .+.........++...+...+.+|. .-+++ +..... .... .++..+..
T Consensus 99 ~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~----g~~~~-p~~~~~-~~~~--~~l~~~~~~~ 169 (197)
T cd05466 99 PLILFERGSGLRRLLDRAFAE-AGFTPNIALEVDSLEAIKALVAAGL----GIALL-PESAVE-ELAD--GGLVVLPLED 169 (197)
T ss_pred CEEEecCCchHHHHHHHHHHH-cCCCceEEEEeccHHHHHHHHHhCC----CEEEe-hHHHHh-hhhc--CCeEEEEecC
Confidence 5544332 2222 23332 2222223345677788888888886 44444 333333 2222 24444322
Q ss_pred ccccCceEEEEcCCCCCchHhHHHH
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
.....+++++.++++.....+...+
T Consensus 170 ~~~~~~~~~~~~~~~~~~~~~~~~~ 194 (197)
T cd05466 170 PPLSRTIGLVWRKGRYLSPAARAFL 194 (197)
T ss_pred CcceEEEEEEEcCCCccCHHHHHHH
Confidence 3334567777787776555555444
No 202
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=95.92 E-value=0.44 Score=50.08 Aligned_cols=168 Identities=10% Similarity=0.059 Sum_probs=97.9
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHH
Q 037761 10 FKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAV 89 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~ 89 (753)
.++..-......++. .+|+++|-..... .......+...++|+|....... +. ... .+..++...+..++++
T Consensus 103 ~~~~~~~~~~~~~~~-~~vdgiI~~~~~~-~~~~~~~l~~~~iPvV~~~~~~~---~~-~~~--~V~~Dn~~~~~~a~~~ 174 (331)
T PRK14987 103 YKPEMEQERLESMLS-WNIDGLILTERTH-TPRTLKMIEVAGIPVVELMDSQS---PC-LDI--AVGFDNFEAARQMTTA 174 (331)
T ss_pred CCHHHHHHHHHHHHh-cCCCEEEEcCCCC-CHHHHHHHHhCCCCEEEEecCCC---CC-CCc--eEEeCcHHHHHHHHHH
Confidence 455544455555555 4888877522222 22333445678999998632111 11 111 3667777788888999
Q ss_pred HHHcCCeEEEEEEeeCC-cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChHHHH
Q 037761 90 LQNFSWHEVVLMYEDTN-YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTALAS 166 (753)
Q Consensus 90 l~~~~w~~vail~~d~~-~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~~~~ 166 (753)
|...|.++++++..... ......+.|++.+++.|+..... .+....+..+-...+.++.+. .+++|++. +...+.
T Consensus 175 L~~~Gh~~I~~i~~~~~~~~~~R~~Gf~~al~~~g~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-nD~~A~ 252 (331)
T PRK14987 175 IIARGHRHIAYLGARLDERTIIKQKGYEQAMLDAGLVPYSV-MVEQSSSYSSGIELIRQARREYPQLDGVFCT-NDDLAV 252 (331)
T ss_pred HHHCCCceEEEEcCCCcccHHHHHHHHHHHHHHcCCCccce-eecCCCChhhHHHHHHHHHhcCCCCCEEEEC-CcHHHH
Confidence 98889999999964322 23345678899999998632111 111111111222345555443 46766654 444566
Q ss_pred HHHHHHHHcCCCCCCEEEEEc
Q 037761 167 RLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 167 ~~~~~a~~~g~~~~~~~wi~~ 187 (753)
.+++++++.|+..++.+-|.+
T Consensus 253 g~~~al~~~g~~vP~disvig 273 (331)
T PRK14987 253 GAAFECQRLGLKVPDDMAIAG 273 (331)
T ss_pred HHHHHHHHcCCCCCCccEEEe
Confidence 788899999987666655544
No 203
>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=95.91 E-value=0.4 Score=48.41 Aligned_cols=166 Identities=9% Similarity=0.073 Sum_probs=98.2
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
...++..-......+... +++++|= |...... .. .+...++|+|......+ ...+++ +..++...+..+
T Consensus 37 ~~~~~~~~~~~i~~l~~~-~~dgiii~~~~~~~~--~~-~~~~~~iPvV~~~~~~~---~~~~~~---v~~d~~~~g~~a 106 (263)
T cd06280 37 TDEDPEKEAMYLELMEEE-RVTGVIFAPTRATLR--RL-AELRLSFPVVLIDRAGP---AGRVDA---VVLDNRAAARTL 106 (263)
T ss_pred CCCCHHHHHHHHHHHHhC-CCCEEEEeCCCCCch--HH-HHHhcCCCEEEECCCCC---CCCCCE---EEECcHHHHHHH
Confidence 345555544555555554 7777653 3322222 22 23567899999865332 223343 345677788888
Q ss_pred HHHHHHcCCeEEEEEEeeC-CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChH
Q 037761 87 SAVLQNFSWHEVVLMYEDT-NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTA 163 (753)
Q Consensus 87 ~~~l~~~~w~~vail~~d~-~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~ 163 (753)
+++|...|-++++++..+. .......+.|++.+++.|+..... .+.. +..+-...+.++... .+++|++ .+..
T Consensus 107 ~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~-~~~~--~~~~~~~~~~~~l~~~~~~~ai~~-~~d~ 182 (263)
T cd06280 107 VEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMRRHGLAPDAR-FVAP--TAEAAEAALAAWLAAPERPEALVA-SNGL 182 (263)
T ss_pred HHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHHHcCCCCChh-hccc--CHHHHHHHHHHHhcCCCCCcEEEE-CCcH
Confidence 8988888999999987532 233455678899999888764321 1121 122333344554433 4566544 4455
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 164 LASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
.+..+++.+++.|+..++.+.|.+
T Consensus 183 ~a~g~~~~l~~~g~~~p~di~iig 206 (263)
T cd06280 183 LLLGALRAVRAAGLRIPQDLALAG 206 (263)
T ss_pred HHHHHHHHHHHcCCCCCCcEEEEE
Confidence 567789999999986655554443
No 204
>PRK09701 D-allose transporter subunit; Provisional
Probab=95.90 E-value=0.92 Score=47.20 Aligned_cols=165 Identities=13% Similarity=0.070 Sum_probs=96.3
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCC--CCCCCCCceEEEecCcHHHHHHH
Q 037761 10 FKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPA--LSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~--l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
.++..-.+....++.+ +++++|- +..+.........+...++|++..+...+. +....-....-+..++...+..+
T Consensus 66 ~~~~~~~~~i~~l~~~-~vDgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~a 144 (311)
T PRK09701 66 GDFQSQLQLFEDLSNK-NYKGIAFAPLSSVNLVMPVARAWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAKG 144 (311)
T ss_pred CCHHHHHHHHHHHHHc-CCCEEEEeCCChHHHHHHHHHHHHCCCcEEEeCCCCCcccccccCCceEEEeccchHHHHHHH
Confidence 4555566666677765 7888764 333222222223345789999998653221 11111112334677788888889
Q ss_pred HHHHHH-cCC--eEEEEEEeeCC--cccchHHHHHHHHHhCC-eEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEE
Q 037761 87 SAVLQN-FSW--HEVVLMYEDTN--YGAGFISFLVDELQEND-IRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIV 158 (753)
Q Consensus 87 ~~~l~~-~~w--~~vail~~d~~--~g~~~~~~~~~~~~~~g-~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~ 158 (753)
++++.. .|. ++++++..+.. ......+.|++.++++| +++..... . ..+..+-...+.++.+. .+++|+
T Consensus 145 a~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~Gf~~al~~~~~~~~~~~~~-~-~~~~~~~~~~~~~ll~~~~~~~~I~- 221 (311)
T PRK09701 145 ASFIIDKLGAEGGEVAIIEGKAGNASGEARRNGATEAFKKASQIKLVASQP-A-DWDRIKALDVATNVLQRNPNIKAIY- 221 (311)
T ss_pred HHHHHHHhCCCCCEEEEEECCCCCccHHHHHHHHHHHHHhCCCcEEEEecC-C-CCCHHHHHHHHHHHHHhCCCCCEEE-
Confidence 997744 464 79998865333 34556788999998887 76543321 1 11222333455555433 356544
Q ss_pred EeChHHHHHHHHHHHHcCCC
Q 037761 159 HMNTALASRLFALVAKNGMM 178 (753)
Q Consensus 159 ~~~~~~~~~~~~~a~~~g~~ 178 (753)
+.+...+..+++.+++.|..
T Consensus 222 ~~~d~~A~g~~~al~~~G~~ 241 (311)
T PRK09701 222 CANDTMAMGVAQAVANAGKT 241 (311)
T ss_pred ECCcchHHHHHHHHHHcCCC
Confidence 44555667788899998974
No 205
>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=95.88 E-value=0.26 Score=50.42 Aligned_cols=153 Identities=14% Similarity=0.137 Sum_probs=93.0
Q ss_pred HHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHcCCeEEEEE
Q 037761 22 LLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNFSWHEVVLM 101 (753)
Q Consensus 22 Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~~vail 101 (753)
.+...+++++|--...... +....+...++|+|......+ +.+-.+..++...+..++++|...|-++++++
T Consensus 51 ~~~~~~~dgiii~~~~~~~-~~~~~~~~~~ipvV~~~~~~~-------~~~~~v~~d~~~~g~~~~~~L~~~g~~~i~~i 122 (283)
T cd06279 51 LVVSALVDGFIVYGVPRDD-PLVAALLRRGLPVVVVDQPLP-------PGVPSVGIDDRAAAREAARHLLDLGHRRIGIL 122 (283)
T ss_pred HHHhcCCCEEEEeCCCCCh-HHHHHHHHcCCCEEEEecCCC-------CCCCEEeeCcHHHHHHHHHHHHHcCCCcEEEe
Confidence 3444589988864333222 344456778999998864322 11234567788888889999988899999999
Q ss_pred EeeC-------------------CcccchHHHHHHHHHhCCeEEEEeeccC-CCCchhhHHHHHHHHhcCC--ccEEEEE
Q 037761 102 YEDT-------------------NYGAGFISFLVDELQENDIRISHMSKIP-TSAEDFQISKELSKLSTMQ--TRVFIVH 159 (753)
Q Consensus 102 ~~d~-------------------~~g~~~~~~~~~~~~~~g~~v~~~~~~~-~~~~~~d~~~~l~~l~~~~--~~vIi~~ 159 (753)
..+. .......+.+.+.+++.|++......+. ...+..+....+.++.+++ +++|+ +
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~ 201 (283)
T cd06279 123 GLRLGRDRNTGRVTDERLASATFSVARERLEGYLEALEEAGIDISDVPIWEIPENDRASGEEAARELLDASPRPTAIL-C 201 (283)
T ss_pred cCcccccccccccccccccccccccHHHHHHHHHHHHHHcCCCCChheEEecCCCchHHHHHHHHHHHcCCCCCcEEE-E
Confidence 7532 2234556788899998885431111111 1112234445556654443 45544 3
Q ss_pred eChHHHHHHHHHHHHcCCCCCCEE
Q 037761 160 MNTALASRLFALVAKNGMMSKGYT 183 (753)
Q Consensus 160 ~~~~~~~~~~~~a~~~g~~~~~~~ 183 (753)
++...+..+++.+++.|+..++.+
T Consensus 202 ~~d~~a~gv~~al~~~g~~ip~di 225 (283)
T cd06279 202 MSDVLALGALQVARELGLRVPEDL 225 (283)
T ss_pred CCcHHHHHHHHHHHHcCCCCCCce
Confidence 344556678889999998655443
No 206
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=95.84 E-value=0.5 Score=50.07 Aligned_cols=167 Identities=13% Similarity=0.089 Sum_probs=95.5
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCcc-EEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 10 FKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVP-IISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP-~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
.++..-......+..+ +++++|--........+..+.. ++| +|......+. ..+++ +..++...+..+++
T Consensus 99 ~~~~~~~~~i~~l~~~-~vdGiIi~~~~~~~~~~~~~~~--~~p~vV~i~~~~~~---~~~~~---V~~D~~~~~~~a~~ 169 (346)
T PRK10401 99 HEAEKERHAIEVLIRQ-RCNALIVHSKALSDDELAQFMD--QIPGMVLINRVVPG---YAHRC---VCLDNVSGARMATR 169 (346)
T ss_pred CChHHHHHHHHHHHhc-CCCEEEEeCCCCChHHHHHHHh--cCCCEEEEecccCC---CCCCE---EEECcHHHHHHHHH
Confidence 4555544555555554 7888764222222223334444 355 6766532211 11222 45566667777888
Q ss_pred HHHHcCCeEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc--CCccEEEEEeChHH
Q 037761 89 VLQNFSWHEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST--MQTRVFIVHMNTAL 164 (753)
Q Consensus 89 ~l~~~~w~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIi~~~~~~~ 164 (753)
+|...|-++++++.... ..+....+.|++.+++.|+.+..........+..+-...+.++.+ ..+++|++. +...
T Consensus 170 ~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-nd~~ 248 (346)
T PRK10401 170 MLLNNGHQRIGYLSSSHGIEDDAMRRAGWMSALKEQGIIPPESWIGTGTPDMQGGEAAMVELLGRNLQLTAVFAY-NDNM 248 (346)
T ss_pred HHHHCCCCeEEEEeCCCcCcchHHHHHHHHHHHHHcCCCCChhheecCCCChHHHHHHHHHHHcCCCCCcEEEEC-CcHH
Confidence 88888999999997533 234566788999999999754321111111111222234455543 346766654 5555
Q ss_pred HHHHHHHHHHcCCCCCCEEEEE
Q 037761 165 ASRLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 165 ~~~~~~~a~~~g~~~~~~~wi~ 186 (753)
+..+++.+++.|+..++.+-|.
T Consensus 249 A~g~~~al~~~G~~vP~disvi 270 (346)
T PRK10401 249 AAGALTALKDNGIAIPLHLSII 270 (346)
T ss_pred HHHHHHHHHHcCCCCCCceEEE
Confidence 6779999999998766555444
No 207
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=95.80 E-value=0.04 Score=57.68 Aligned_cols=66 Identities=12% Similarity=0.072 Sum_probs=44.1
Q ss_pred CcCChhHhhhcCCeEEEecCchHHH----HHHHhhCCCCCceecC-CCHHHHHHHHhcCCCCCCeeEEEeccccHHHH
Q 037761 557 TFADLKKLRTESHFVGFQSGSFVED----FLVKQLNFSRNQTRPL-SNFGEYKEALSNGSRKGGVSAIFEEIPYIKVF 629 (753)
Q Consensus 557 ~i~s~~dL~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~-~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~ 629 (753)
.|++++|| +|+++++..++..+. +++ ..+.....+... -...+...++.+|+ +|+.+...+.....
T Consensus 113 ~I~s~~DL--kGK~Iav~~~s~~~~~l~~~L~-~~Gl~~~dv~~v~~~~~~~~~Al~~G~----VDAa~~~~p~~~~~ 183 (320)
T PRK11480 113 TISKPEDL--IGKRIAVPFISTTHYSLLAALK-HWGIKPGQVEIVNLQPPAIIAAWQRGD----IDGAYVWAPAVNAL 183 (320)
T ss_pred CCCChHHc--CCCEEecCCCCchHHHHHHHHH-HcCCCHhheEEEECCcHHHHHHHHcCC----cCEEEEcchHHHHH
Confidence 39999999 599999976665443 333 333333233222 24678899999999 99988777765433
No 208
>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=95.65 E-value=0.5 Score=47.79 Aligned_cols=153 Identities=13% Similarity=0.050 Sum_probs=88.8
Q ss_pred HHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHcCCeEEE
Q 037761 20 VDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNFSWHEVV 99 (753)
Q Consensus 20 ~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~~va 99 (753)
..++. .+|++||-...... ++...+...++|+|......+ +...++ +..++...+..+++++...|.++++
T Consensus 52 ~~l~~-~~vdgiii~~~~~~--~~~~~l~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~ 122 (268)
T cd06277 52 SFLED-GKVDGIILLGGIST--EYIKEIKELGIPFVLVDHYIP---NEKADC---VLTDNYSGAYAATEYLIEKGHRKIG 122 (268)
T ss_pred HHHHH-CCCCEEEEeCCCCh--HHHHHHhhcCCCEEEEccCCC---CCCCCE---EEecchHHHHHHHHHHHHCCCCcEE
Confidence 33444 58999885333222 234556778999998754322 122223 4556666777788888777999999
Q ss_pred EEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCC-CCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHHcC
Q 037761 100 LMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPT-SAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAKNG 176 (753)
Q Consensus 100 il~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~-~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~~g 176 (753)
++..+.. ......+.|.+.+++.|+.+.....+.. ......+...+..+. ..+++|+.. +...+..+++.+++.|
T Consensus 123 ~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~ai~~~-~d~~a~g~~~a~~~~g 200 (268)
T cd06277 123 FVGDPLYSPSFEERYEGYKKALLDHGIPFNEDYDITEKEEDEEDIGKFIDELK-PLPTAFFCS-NDGVAFLLIKVLKEMG 200 (268)
T ss_pred EECCCCCCcchHHHHHHHHHHHHHcCCCCCcceEEEcchhHHHHHHHHHhcCC-CCCCEEEEC-CcHHHHHHHHHHHHcC
Confidence 9976543 2345567889999998875422111110 111223333333322 236765555 4444566788888888
Q ss_pred CCCCCEE
Q 037761 177 MMSKGYT 183 (753)
Q Consensus 177 ~~~~~~~ 183 (753)
+..++.+
T Consensus 201 ~~~p~di 207 (268)
T cd06277 201 IRVPEDV 207 (268)
T ss_pred CCCCCcc
Confidence 7544433
No 209
>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=95.65 E-value=0.23 Score=49.03 Aligned_cols=185 Identities=14% Similarity=0.099 Sum_probs=112.9
Q ss_pred HHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcC-cccEEEeeeeeecccc---eeee--ccccccccc
Q 037761 414 IFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLK-KFDAVVGDISIVASRT---DYVE--FTLPYSESG 487 (753)
Q Consensus 414 ll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~Di~~~~~~~t~~r~---~~~~--fs~p~~~~~ 487 (753)
.++.+++..+++.|+++++++. ....+...|.+| +.|+.+.+-....++. ..+. -..|+..+.
T Consensus 12 ~~~~l~~~f~~~~g~~v~v~~~-----------~s~~~~~~l~~g~~~Dv~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~ 80 (230)
T PF13531_consen 12 ALEELAEAFEKQPGIKVEVSFG-----------GSGELVRRLQAGKKPDVFIPASSEWLERLAAAGLVDPGSPAPLARSP 80 (230)
T ss_dssp HHHHHHHHHHHHHCEEEEEEEE-----------CHHHHHHHHHTT-S-SEEEESSHHHHHHHHHTTTCSGGGEEEEEEEE
T ss_pred HHHHHHHHHHhccCCeEEEEEC-----------ChHHHHHHHhcCCCceEEEECCHHHHHHHHhcccccCCcccccccCc
Confidence 4444555555599976666655 357888888877 6998875532111221 2333 567888999
Q ss_pred eEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhc
Q 037761 488 VTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTE 567 (753)
Q Consensus 488 ~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~ 567 (753)
++++++++.+. .+.+++||.+.
T Consensus 81 ~vl~~~~~~~~----------------------------------------------------------~~~~~~dL~~~ 102 (230)
T PF13531_consen 81 LVLAVPKGNPK----------------------------------------------------------GIRSWADLAQP 102 (230)
T ss_dssp EEEEEETTSTT----------------------------------------------------------STTCHHHHCST
T ss_pred eEEEeccCccc----------------------------------------------------------ccCCHHHHhhc
Confidence 99999988653 38999999877
Q ss_pred CCeEEEecCc------hHHHHHHHhhC---C-C--CCcee-cCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCC
Q 037761 568 SHFVGFQSGS------FVEDFLVKQLN---F-S--RNQTR-PLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYS 634 (753)
Q Consensus 568 ~~~~~~~~~~------~~~~~~~~~~~---~-~--~~~~~-~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~ 634 (753)
+.++++.... .....+.+ .+ . . ..++. ...+..+....+.+|+ .|+.+.......+. ...
T Consensus 103 ~~~i~~~dP~~s~~g~~~~~~l~~-~g~~~~~~~l~~~~~~~~~~~~~~~~~v~~g~----~d~~~~~~s~~~~~--~~~ 175 (230)
T PF13531_consen 103 GLRIAIPDPSTSPSGLAALQVLAA-AGGQELLDALQKNIVQYVPSTSQVLSAVASGE----ADAGIVYESQAIFA--RQG 175 (230)
T ss_dssp T--EEEE-TTTTHHHHHHHHHHHH-HTHCHHHHHHHHTEEEEESSHHHHHHHHHTTS----SSEEEEEHHHHHHC--TSH
T ss_pred cCEEEecCcccChhhHHHHHHHHH-cccHHHHHHHHHhCcccccchHHHHHHHHcCC----CcceeeHHHHHHHh--hcC
Confidence 7788887531 12222221 11 0 0 02233 4567788999999998 99988766555322 222
Q ss_pred CCcEEe--Ccccc--cCceEEEEcCCCCCchHhHHHHHHhhhcc
Q 037761 635 SKYTTA--GPIYR--TDGLGFAFAKDSPLVSHFSQAILLVRENQ 674 (753)
Q Consensus 635 ~~l~~~--~~~~~--~~~~~~~~~k~s~l~~~~n~~i~~l~~~G 674 (753)
.++..+ ++... ...+.+++-++++-.+.-...+..|....
T Consensus 176 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~a~~f~~~L~s~~ 219 (230)
T PF13531_consen 176 DPLSYVYPPDGVNSPPIDYPIAILKNAPHPEAARAFIDFLLSPE 219 (230)
T ss_dssp TTEEEEE-STTTSSSEEEEEEEEBTTCTTHHHHHHHHHHHTSHH
T ss_pred CCeEEEECCchhcCCCEEEEEEEecCCCCHHHHHHHHHHHCCHH
Confidence 245444 33333 23567788888877777777777777655
No 210
>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=95.61 E-value=0.8 Score=43.36 Aligned_cols=180 Identities=12% Similarity=0.081 Sum_probs=101.1
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+...++..+.+ +.- ++++.+... +...++.+|.+|++|+++...... .....+. +.+.....+
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~l~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~ 76 (201)
T cd08418 13 TLMPAVINRFKE----QFP-DVQISIYEG---------QLSSLLPELRDGRLDFAIGTLPDE-MYLKELI-SEPLFESDF 76 (201)
T ss_pred hhhHHHHHHHHH----HCC-CceEEEEeC---------cHHHHHHHHHcCCCcEEEEecCCC-CCCccee-EEeecCCce
Confidence 344566666666 654 466666653 678999999999999998532211 1112233 356677888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
+++++...+.. ...+++||. +
T Consensus 77 ~~v~~~~~~~~---------------------------------------------------------~~~~~~~l~--~ 97 (201)
T cd08418 77 VVVARKDHPLQ---------------------------------------------------------GARSLEELL--D 97 (201)
T ss_pred EEEeCCCCccc---------------------------------------------------------cCCCHHHHc--C
Confidence 88888665421 124788985 4
Q ss_pred CeEEEe-cCch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc-
Q 037761 569 HFVGFQ-SGSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP- 642 (753)
Q Consensus 569 ~~~~~~-~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~- 642 (753)
.++... .+.. ...++.+ .+.........++.......+..|. .-+++.. .......+. .++..+..
T Consensus 98 ~~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p~-~~~~~~~~~--~~l~~~~~~ 169 (201)
T cd08418 98 ASWVLPGTRMGYYNNLLEALRR-LGYNPRVAVRTDSIVSIINLVEKAD----FLTILSR-DMGRGPLDS--FRLITIPVE 169 (201)
T ss_pred CCCEecCCCCCHHHHHHHHHHH-cCCCCCceEEecCHHHHHHHHHhCC----EEEEeEH-HHhhhhhhc--CCEEEecCC
Confidence 433332 2221 2334442 2332223345677888899999987 5555443 333322222 24444432
Q ss_pred -ccccCceEEEEcCCCCCchHhHHHHHHhh
Q 037761 643 -IYRTDGLGFAFAKDSPLVSHFSQAILLVR 671 (753)
Q Consensus 643 -~~~~~~~~~~~~k~s~l~~~~n~~i~~l~ 671 (753)
......+.++.+++.+....+...+..+.
T Consensus 170 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~ 199 (201)
T cd08418 170 EPLPSADYYLIYRKKSRLTPLAEQLVELFR 199 (201)
T ss_pred CCCCCCceEEEEecCCCCCHHHHHHHHHHH
Confidence 22335677777877666555555554443
No 211
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=95.57 E-value=0.62 Score=48.31 Aligned_cols=169 Identities=11% Similarity=0.064 Sum_probs=95.8
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHH
Q 037761 10 FKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAV 89 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~ 89 (753)
.+...-......++.. +|++||=-.......... .......|++..+...+. ..++ .+..++...+..++++
T Consensus 75 ~~~~~~~~~i~~l~~~-~vDgiIi~~~~~~~~~~~-~~~~~~~pvv~~~~~~~~---~~~~---~V~~Dn~~~g~~a~~~ 146 (309)
T PRK11041 75 HQNQQEKTFVNLIITK-QIDGMLLLGSRLPFDASK-EEQRNLPPMVMANEFAPE---LELP---TVHIDNLTAAFEAVNY 146 (309)
T ss_pred CChHHHHHHHHHHHHc-CCCEEEEecCCCChHHHH-HHHhcCCCEEEEccccCC---CCCC---EEEECcHHHHHHHHHH
Confidence 3444444555555554 788877422221111221 122222367665432221 1223 2566777788888888
Q ss_pred HHHcCCeEEEEEEeeCC--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChHHH
Q 037761 90 LQNFSWHEVVLMYEDTN--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTALA 165 (753)
Q Consensus 90 l~~~~w~~vail~~d~~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~~~ 165 (753)
|...|-++++++..... ......+.|++.+++.|+++.....+..+.+.......+.++.+. .+++|+.. +...+
T Consensus 147 l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a 225 (309)
T PRK11041 147 LHELGHKRIACIAGPEEMPLCHYRLQGYVQALRRCGITVDPQYIARGDFTFEAGAKALKQLLDLPQPPTAVFCH-SDVMA 225 (309)
T ss_pred HHHcCCceEEEEeCCccccchHHHHHHHHHHHHHcCCCCCHHHeEeCCCCHHHHHHHHHHHHcCCCCCCEEEEc-CcHHH
Confidence 87789999999975433 344567889999999987653211111111222334455665543 36777754 44455
Q ss_pred HHHHHHHHHcCCCCCCEEEEEc
Q 037761 166 SRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 166 ~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
..+++.+++.|+..++.+.|++
T Consensus 226 ~gv~~al~~~g~~ip~di~vvg 247 (309)
T PRK11041 226 LGALSQAKRMGLRVPQDLSIIG 247 (309)
T ss_pred HHHHHHHHHcCCCCCcceEEEE
Confidence 5788889999976555555554
No 212
>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=95.55 E-value=0.59 Score=44.61 Aligned_cols=74 Identities=11% Similarity=0.039 Sum_probs=49.1
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ +.- ++++.+... +...+++.|.+|++|+++............+. +.+......
T Consensus 13 ~~l~~~l~~~~~----~~P-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~-~~~l~~~~~ 77 (202)
T cd08468 13 AVMPRLMARLEE----LAP-SVRLNLVHA---------EQKLPLDALLAGEIDFALGYSHDDGAEPRLIE-ERDWWEDTY 77 (202)
T ss_pred HHhHHHHHHHHh----hCC-CCEEEEEEC---------ChHhHHHHHHCCCccEEEecccccccCCCCEE-EEEEecCcE
Confidence 445677777777 663 467777764 67899999999999999854322100012233 356777788
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
+++++++.+
T Consensus 78 ~~~~~~~hp 86 (202)
T cd08468 78 VVIASRDHP 86 (202)
T ss_pred EEEEeCCCC
Confidence 888887754
No 213
>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=95.53 E-value=1.4 Score=44.56 Aligned_cols=158 Identities=12% Similarity=0.135 Sum_probs=90.9
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEc-CCCCCc-HHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 10 FKDCGKLILAVDLLKKFQVQAIIG-PQIPAA-APFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~-~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
.++..-......++.+ +|+++|= |..... ...+..+ .. ++|+|......+. ... +.-+..++...+..++
T Consensus 39 ~~~~~~~~~i~~l~~~-~vDgiIi~~~~~~~~~~~l~~~-~~-~ipvV~~~~~~~~--~~~---~~~V~~D~~~~g~~a~ 110 (271)
T cd06314 39 GTVNAQLRMLEDLIAE-GVDGIAISPIDPKAVIPALNKA-AA-GIKLITTDSDAPD--SGR---YVYIGTDNYAAGRTAG 110 (271)
T ss_pred CCHHHHHHHHHHHHhc-CCCEEEEecCChhHhHHHHHHH-hc-CCCEEEecCCCCc--cce---eEEEccChHHHHHHHH
Confidence 4666666666666665 8888774 433222 2333433 45 9999998643221 111 2235567777778888
Q ss_pred HHHHHc--CCeEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeC
Q 037761 88 AVLQNF--SWHEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMN 161 (753)
Q Consensus 88 ~~l~~~--~w~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~ 161 (753)
+++.+. +-.+++++.... .......+.+++.+++.|+++.... .. ..+..+-...+.++.+. .+++|+....
T Consensus 111 ~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~~i~~~~d 188 (271)
T cd06314 111 EIMKKALPGGGKVAIFVGSLGADNAKERIQGIKDAIKDSKIEIVDTR-GD-EEDFAKAKSNAEDALNAHPDLKCMFGLYA 188 (271)
T ss_pred HHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHHHHhcCCcEEEEEe-cC-ccCHHHHHHHHHHHHHhCCCccEEEecCC
Confidence 887553 334566665432 2345667889999999998765321 11 11222334455555433 3566655433
Q ss_pred hHHHHHHHHHHHHcCCC
Q 037761 162 TALASRLFALVAKNGMM 178 (753)
Q Consensus 162 ~~~~~~~~~~a~~~g~~ 178 (753)
..+..+++.+++.|+.
T Consensus 189 -~~a~~~~~al~~~g~~ 204 (271)
T cd06314 189 -YNGPAIAEAVKAAGKL 204 (271)
T ss_pred -ccHHHHHHHHHHcCCC
Confidence 3344577888888875
No 214
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=95.51 E-value=0.98 Score=47.74 Aligned_cols=164 Identities=12% Similarity=0.037 Sum_probs=96.8
Q ss_pred ChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHH
Q 037761 11 KDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAV 89 (753)
Q Consensus 11 ~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~ 89 (753)
+...-.+....++++ +|++||= |.......... .+...++|+|....... ++. ....+..++...+...+++
T Consensus 89 ~~~~q~~~i~~l~~~-~vdgIIl~~~~~~~~~~~l-~~~~~giPvV~~~~~~~--~~~---~~~~V~~D~~~~g~~aa~~ 161 (343)
T PRK10936 89 NLAKQQQQLEQCVAW-GADAILLGAVTPDGLNPDL-ELQAANIPVIALVNGID--SPQ---VTTRVGVSWYQMGYQAGRY 161 (343)
T ss_pred CHHHHHHHHHHHHHh-CCCEEEEeCCChHHhHHHH-HHHHCCCCEEEecCCCC--Ccc---ceEEEecChHHHHHHHHHH
Confidence 444445566666765 7888774 43332222222 45678999998743221 111 1234667778888888887
Q ss_pred HHHc-----CCeEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc--CCccEEEEEe
Q 037761 90 LQNF-----SWHEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST--MQTRVFIVHM 160 (753)
Q Consensus 90 l~~~-----~w~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIi~~~ 160 (753)
|... |-++++++..+. .......+.|++.+++.|+++.... .. ..+...-...++++.+ .++++|+ +
T Consensus 162 L~~~~~~~~g~~~i~~i~g~~~~~~~~~R~~Gf~~~l~~~~i~~~~~~-~~-~~~~~~~~~~~~~~l~~~~~~~ai~--~ 237 (343)
T PRK10936 162 LAQWHPKGSKPLNVALLPGPEGAGGSKAVEQGFRAAIAGSDVRIVDIA-YG-DNDKELQRNLLQELLERHPDIDYIA--G 237 (343)
T ss_pred HHHHHHhcCCCceEEEEECCCCCchHHHHHHHHHHHHhcCCCEEEEee-cC-CCcHHHHHHHHHHHHHhCCCccEEE--e
Confidence 7544 478999987532 2334557788999998898875422 11 1122233344555443 3467775 3
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
....+..+++.+++.|+ ++.+.|++
T Consensus 238 ~d~~A~ga~~al~~~g~--~~di~Vvg 262 (343)
T PRK10936 238 SAVAAEAAIGELRGRNL--TDKIKLVS 262 (343)
T ss_pred CCHHHHHHHHHHHhcCC--CCCeEEEE
Confidence 44556668888889997 34455554
No 215
>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=95.51 E-value=1.1 Score=46.31 Aligned_cols=163 Identities=11% Similarity=0.089 Sum_probs=95.1
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
...++.........++.+ +++++|- +..+.........+...++|+|......+. . . ..++...+++...+..+
T Consensus 38 ~~~d~~~~~~~i~~~~~~-~~DgiIi~~~~~~~~~~~~~~~~~~~iPvV~v~~~~~~-~--~-~~~~~v~~D~~~~g~~a 112 (298)
T cd06302 38 TTADAAGQVQIIEDLIAQ-GVDAIAVVPNDPDALEPVLKKAREAGIKVVTHDSDVQP-D--N-RDYDIEQADNKAIGETL 112 (298)
T ss_pred CCCCHHHHHHHHHHHHhc-CCCEEEEecCCHHHHHHHHHHHHHCCCeEEEEcCCCCC-C--c-ceeEEeccCHHHHHHHH
Confidence 345777777777777765 7888775 322222233334457789999998643211 0 0 12344567778888888
Q ss_pred HHHHHHc-CC-eEEEEEEeeCC--cccchHHHHHHHHHhCC---eEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEE
Q 037761 87 SAVLQNF-SW-HEVVLMYEDTN--YGAGFISFLVDELQEND---IRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFI 157 (753)
Q Consensus 87 ~~~l~~~-~w-~~vail~~d~~--~g~~~~~~~~~~~~~~g---~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi 157 (753)
+++|... +- ++++++..... ......+.|++.++++| +++.. .+....+..+-...+.++.+. .+++|+
T Consensus 113 ~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~ 190 (298)
T cd06302 113 MDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKAYQKEKYYPMLELVD--RQYGDDDADKSYQTAQELLKAYPDLKGII 190 (298)
T ss_pred HHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHHHHhhcCCCCeEEeC--cccCCCCHHHHHHHHHHHHHhCCCceEEE
Confidence 8988555 43 69999875332 23445678999999987 33321 112111222222344444333 345444
Q ss_pred EEeChHHHHHHHHHHHHcCCC
Q 037761 158 VHMNTALASRLFALVAKNGMM 178 (753)
Q Consensus 158 ~~~~~~~~~~~~~~a~~~g~~ 178 (753)
.. +...+..+++.+++.|+.
T Consensus 191 ~~-~D~~A~g~~~al~~~g~~ 210 (298)
T cd06302 191 GP-TSVGIPGAARAVEEAGLK 210 (298)
T ss_pred EC-CCcchhHHHHHHHhcCCC
Confidence 44 344567788999999974
No 216
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=95.49 E-value=0.77 Score=48.29 Aligned_cols=163 Identities=7% Similarity=0.017 Sum_probs=90.1
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
++.++..-++..+.++.+ +|.+|+- |..+....++..-+...+||+|...+..+. +. ..++-...++...+..+
T Consensus 62 ~~~d~~~q~~~i~~li~~-~vdgIiv~~~d~~al~~~l~~a~~~gIpVV~~d~~~~~--~~--~~~~V~~~~~~~~G~~~ 136 (336)
T PRK15408 62 TEPSVSGQVQLINNFVNQ-GYNAIIVSAVSPDGLCPALKRAMQRGVKVLTWDSDTKP--EC--RSYYINQGTPEQLGSML 136 (336)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEecCCHHHHHHHHHHHHHCCCeEEEeCCCCCC--cc--ceEEEecCCHHHHHHHH
Confidence 345566556777888876 8888765 444443355556677889999998754321 11 12221122334667777
Q ss_pred HHHHHH-c--CCeEEEEEEeeCC--cccchHHHHHHHHHhC--CeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEE
Q 037761 87 SAVLQN-F--SWHEVVLMYEDTN--YGAGFISFLVDELQEN--DIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVH 159 (753)
Q Consensus 87 ~~~l~~-~--~w~~vail~~d~~--~g~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~ 159 (753)
++++.+ + +-.+++++..... -.....+.+++.+++. +++++... +. ..+...-....+.+.++.||+=.++
T Consensus 137 ~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g~~~~l~~~~p~~~vv~~~-~~-~~d~~~a~~~~~~lL~~~pdi~aI~ 214 (336)
T PRK15408 137 VEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKEAKAKIAKEHPGWEIVTTQ-FG-YNDATKSLQTAEGILKAYPDLDAII 214 (336)
T ss_pred HHHHHHhcCCCCCEEEEEECCCCCccHHHHHHHHHHHHHhhCCCCEEEeec-CC-CCcHHHHHHHHHHHHHHCCCCcEEE
Confidence 776643 3 3468988875322 2233456677777543 56665332 21 1122233335556555556554444
Q ss_pred eChH-HHHHHHHHHHHcCC
Q 037761 160 MNTA-LASRLFALVAKNGM 177 (753)
Q Consensus 160 ~~~~-~~~~~~~~a~~~g~ 177 (753)
+... .+...++++++.|.
T Consensus 215 ~~~~~~~~Ga~~Al~~~g~ 233 (336)
T PRK15408 215 APDANALPAAAQAAENLKR 233 (336)
T ss_pred ECCCccHHHHHHHHHhCCC
Confidence 4333 33357788888885
No 217
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=95.48 E-value=0.021 Score=55.06 Aligned_cols=175 Identities=14% Similarity=0.186 Sum_probs=93.2
Q ss_pred cceeeeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeee-e----e--eccccee
Q 037761 404 KTTYTGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDI-S----I--VASRTDY 476 (753)
Q Consensus 404 ~~~~~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~-~----~--t~~r~~~ 476 (753)
+.+|.|+.--|.+.+.+ .++.+.+.++. -...-+++|.+|.+|+++.+- + + ..+..-.
T Consensus 23 Sr~YEGLATGl~~~f~~-----~~ip~~~aymR----------Ga~~Rie~l~~g~yDfaVvS~lAA~~~i~~~~~l~i~ 87 (232)
T PF14503_consen 23 SRRYEGLATGLYEQFEE-----SGIPLNFAYMR----------GAENRIEALKNGRYDFAVVSKLAAEHYIEEGEDLEIV 87 (232)
T ss_dssp SHHHHHHHHHHHCTTT-------TS-EEEEE-S-----------HHHHHHHHHTTS-SEEEEEHHHHCCCCCC-SSEEEE
T ss_pred hhhhHHHHHHHHHHhcc-----CCCceEEEeec----------cchHHHHHHHhCCcceEeehHHHHHHHHhhccCeEEE
Confidence 35688888777766664 56667777775 356779999999999998651 1 1 1222334
Q ss_pred eeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCC
Q 037761 477 VEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEP 556 (753)
Q Consensus 477 ~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~ 556 (753)
++|..--+.+.=+++.+.+...
T Consensus 88 ~~fG~~sYvs~Hvli~~~~~~~---------------------------------------------------------- 109 (232)
T PF14503_consen 88 LEFGPGSYVSEHVLIFRDGEKK---------------------------------------------------------- 109 (232)
T ss_dssp EE--TTSSS--EEEEEETT-GG----------------------------------------------------------
T ss_pred EeeCCCCcccceEEEEecCCcc----------------------------------------------------------
Confidence 6666655556666666665431
Q ss_pred CcCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecC-CCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCC
Q 037761 557 TFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPL-SNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSS 635 (753)
Q Consensus 557 ~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~ 635 (753)
.++ .|.++|+-..|..+..+.+ ..+.+.++... -+..+++..|.+|. +||.+.+...... ...
T Consensus 110 ---~i~----dGmRVGiD~~S~Dq~~LT~-~~~~gk~Ve~Vei~Y~q~~~~l~~g~----IDA~IWN~d~i~~--~~~-- 173 (232)
T PF14503_consen 110 ---EIE----DGMRVGIDPSSIDQKILTE-AEFEGKNVEFVEIPYNQLLELLRSGE----IDAAIWNYDEIED--KNF-- 173 (232)
T ss_dssp ---G---------EEEE-TT-HHHHHHHH-HHHTTS--EEEE--HHHHHHHHHHTS------EEEEE--HHCC--HHC--
T ss_pred ---cee----eeeEeecCCCCccHHHHHH-HHhCCCceEEEEecHHHHHHHHHCCC----ccEEEECCccccc--ccC--
Confidence 122 4889999999988887774 34444443333 25789999999999 9999998772221 111
Q ss_pred CcEEeCc-----ccccCceEEEEcCCCC-CchHhHHHH
Q 037761 636 KYTTAGP-----IYRTDGLGFAFAKDSP-LVSHFSQAI 667 (753)
Q Consensus 636 ~l~~~~~-----~~~~~~~~~~~~k~s~-l~~~~n~~i 667 (753)
++...+- ......-++.++|+++ +...+++.|
T Consensus 174 ~l~~~~l~~~~~~~~~seAVivi~~~~~~i~~ll~~~i 211 (232)
T PF14503_consen 174 GLKYVPLKDDPMSKDASEAVIVIRKDNEPIKALLRKLI 211 (232)
T ss_dssp TEEEEE--SSCHHHHTT-EEEEEETT-HHHHHHHHHH-
T ss_pred CeeEEeCCchHHHHhcCeeEEEEeCCCHHHHHHHHHhc
Confidence 3333221 1123456788899886 666666544
No 218
>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=95.45 E-value=0.52 Score=47.84 Aligned_cols=158 Identities=13% Similarity=0.086 Sum_probs=94.1
Q ss_pred HHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHcCCeEEEEE
Q 037761 22 LLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNFSWHEVVLM 101 (753)
Q Consensus 22 Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~~vail 101 (753)
.+...+|+++|-.........+. .+...++|+|........ +..+++ +..++...+..+++.|...|.++++++
T Consensus 51 ~l~~~~vdgiIi~~~~~~~~~~~-~l~~~~iPvV~i~~~~~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i 124 (269)
T cd06287 51 PLDALDIDGAILVEPMADDPQVA-RLRQRGIPVVSIGRPPGD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIALI 124 (269)
T ss_pred hhhccCcCeEEEecCCCCCHHHH-HHHHcCCCEEEeCCCCCC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEE
Confidence 34455888866422111222233 345679999998643210 112233 445677777888888888899999999
Q ss_pred EeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChHHHHHHHHHHHHcCC
Q 037761 102 YEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTALASRLFALVAKNGM 177 (753)
Q Consensus 102 ~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~~~~~~~~~a~~~g~ 177 (753)
.... .......+.|++.+++.|+...... +....+..+-...+.++.+. ++++|++. +...+..+++.+++.|+
T Consensus 125 ~~~~~~~~~~~R~~gf~~a~~~~g~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~gvl~al~~~gl 202 (269)
T cd06287 125 VGSARRNSYLEAEAAYRAFAAEHGMPPVVLR-VDEAGGEEAGYAACAQLLAQHPDLDALCVP-VDAFAVGAVRAATELGR 202 (269)
T ss_pred eCCcccccHHHHHHHHHHHHHHcCCCcceeE-ecCCCChHHHHHHHHHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHcCC
Confidence 6432 2345567789999999987542211 11111222333445555433 46766654 55567778999999998
Q ss_pred CCCCEEEEEc
Q 037761 178 MSKGYTWIVT 187 (753)
Q Consensus 178 ~~~~~~wi~~ 187 (753)
..++-+=|++
T Consensus 203 ~vP~dvsvig 212 (269)
T cd06287 203 AVPDQLRVVT 212 (269)
T ss_pred CCCCceEEEe
Confidence 7776665554
No 219
>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=95.38 E-value=0.1 Score=52.56 Aligned_cols=212 Identities=12% Similarity=0.103 Sum_probs=111.2
Q ss_pred HHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeee-ccccccccceEEEE
Q 037761 414 IFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVE-FTLPYSESGVTMLV 492 (753)
Q Consensus 414 ll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~-fs~p~~~~~~~~~v 492 (753)
.++.+++.++|+.+-++++++.+.+. -+...++++.+++|.+|++.........+...+. +..||......-+.
T Consensus 14 ~~~~f~~~v~e~t~G~v~v~~~~~g~-----Lg~~~e~~~~v~~G~~d~~~~~~~~~~~~~p~~~~~~lP~~~~~~~~~~ 88 (257)
T TIGR00787 14 AAEKFAKLVNEKTNGEIKISVFPSSQ-----LGSDRAMLEALQGGALDMTAPSSSKFGPLVPELAVFDLPFLFRDYNHVH 88 (257)
T ss_pred HHHHHHHHHHHHcCCeEEEEEcCCCC-----CCChHHHHHHHhCCCccEEecccccccccCcchhhccCCeecCCHHHHH
Confidence 45556666666998778877765311 1356899999999999999755443333222211 23454432211000
Q ss_pred ecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEE
Q 037761 493 PVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFVG 572 (753)
Q Consensus 493 ~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~ 572 (753)
. +-.+...+.+.--+---.+.+...|......+.+. ..+|+|++|| +|+++.
T Consensus 89 ~-----------------------~~~~~~~~~~~~~~~~~g~~~l~~~~~g~~~~~~~---~~~i~s~~Dl--~G~kir 140 (257)
T TIGR00787 89 K-----------------------VLDGEVGKALKKSLEKKGLKGLAYWDNGFRQFTSS---KKPITKPEDL--KGLKIR 140 (257)
T ss_pred H-----------------------HHcCHHHHHHHHHHHHcCcEEEeecCCceeEeeeC---CCccCChHHh--CCCEEe
Confidence 0 00000000000000001122222232222222221 2569999999 699999
Q ss_pred EecCchHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcC--CCCcEEeCcccccCceE
Q 037761 573 FQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKY--SSKYTTAGPIYRTDGLG 650 (753)
Q Consensus 573 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~~ 650 (753)
+..++.....++. . ....+ ..+..|.+.+|..|. +|++......... .+-+ ...+...+ .......
T Consensus 141 ~~~~~~~~~~~~~---~-Ga~~v-~~~~~e~~~aL~~G~----vDg~~~~~~~~~~-~~~~ev~~y~~~~~--~~~~~~~ 208 (257)
T TIGR00787 141 IPNSPMNEAQFKA---L-GANPE-PMAFSEVYTALQTGV----VDGQENPLSNVYS-SKFYEVQKYLSMTN--HGYLGYL 208 (257)
T ss_pred cCCCHHHHHHHHH---c-CCccc-ccCHHHHHHHHHcCC----cccccCCHHHHhh-cchhhhcchheecC--CcccceE
Confidence 8877777777773 2 23444 667889999999999 9998876443322 1111 21222222 2234455
Q ss_pred EEEcCC--CCCchHhHHHHHHh
Q 037761 651 FAFAKD--SPLVSHFSQAILLV 670 (753)
Q Consensus 651 ~~~~k~--s~l~~~~n~~i~~l 670 (753)
+.+.++ +.|-+.....|...
T Consensus 209 ~~~n~~~~~~L~~e~q~~i~~a 230 (257)
T TIGR00787 209 VVVNKAFWKSLPPDLQAVVKEA 230 (257)
T ss_pred EEEeHHHHhcCCHHHHHHHHHH
Confidence 667665 22555555555443
No 220
>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=95.35 E-value=0.54 Score=47.43 Aligned_cols=158 Identities=9% Similarity=-0.032 Sum_probs=88.7
Q ss_pred ChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccC-CccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHH
Q 037761 11 KDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKA-QVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAV 89 (753)
Q Consensus 11 ~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~-~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~ 89 (753)
++....+..+.+... +|.++|=...+ ...++...+... ++|++......+. +.. +-.+..++..-++.++.+
T Consensus 41 ~~~~~~~~~~~l~~~-~vdgiii~~~~-~~~~~~~~~~~~~~ipvv~~~~~~~~--~~~---~~~v~~d~~~~~~~a~~l 113 (260)
T cd06304 41 EDADYEPNLRQLAAQ-GYDLIFGVGFG-FMDAVEKVAKEYPDVKFAIIDGVVDA--PPN---VASYVFREYEGSYLAGVL 113 (260)
T ss_pred CHHHHHHHHHHHHHc-CCCEEEECCcc-hhHHHHHHHHHCCCCEEEEecCccCC--CCC---eeeeecchHHHHHHHHHH
Confidence 666555666666655 78877653222 234444555543 7898887543211 011 112334444444555555
Q ss_pred HHHc-CCeEEEEEEeeC-CcccchHHHHHHHHHhCCeEEEEeeccCCCCc-hhhHHHHHHHHhcCCccEEEEEeChHHHH
Q 037761 90 LQNF-SWHEVVLMYEDT-NYGAGFISFLVDELQENDIRISHMSKIPTSAE-DFQISKELSKLSTMQTRVFIVHMNTALAS 166 (753)
Q Consensus 90 l~~~-~w~~vail~~d~-~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~-~~d~~~~l~~l~~~~~~vIi~~~~~~~~~ 166 (753)
+... |-++++++..+. .......+.|++.+++.|.............+ ..+-...++++.+.++++| ++.+...+.
T Consensus 114 ~~~~~g~~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~ 192 (260)
T cd06304 114 AALMTKTGKVGFVGGMPIPEVNRFINGFAAGAKSVNPDITVLVIYTGSFFDPAKGKEAALALIDQGADVI-FAAAGGTGP 192 (260)
T ss_pred HHHhccCCceEEEeccccHHHHHHHHHHHHHHHHhCCCcEEEEEEecCccCcHHHHHHHHHHHhCCCCEE-EEcCCCCch
Confidence 5554 889999997532 23344567889999998864332211111111 1233345666655667876 445555566
Q ss_pred HHHHHHHHcC
Q 037761 167 RLFALVAKNG 176 (753)
Q Consensus 167 ~~~~~a~~~g 176 (753)
.+++++++.|
T Consensus 193 gv~~al~~~g 202 (260)
T cd06304 193 GVIQAAKEAG 202 (260)
T ss_pred HHHHHHHHcC
Confidence 7888888887
No 221
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=95.34 E-value=1 Score=46.75 Aligned_cols=154 Identities=12% Similarity=-0.007 Sum_probs=92.7
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
...++..-......+.. .+|+++|--..+.... ......++|+|..+... .. +-.+.+++...+..++
T Consensus 97 ~~~~~~~~~~~~~~l~~-~~vdGvIi~~~~~~~~---~~l~~~~~p~V~i~~~~-----~~---~~~V~~D~~~~~~~a~ 164 (311)
T TIGR02405 97 SQFSPQLTNEHLSVLQK-RNVDGVILFGFTGCDE---EILESWNHKAVVIARDT-----GG---FSSVCYDDYGAIELLM 164 (311)
T ss_pred CCCChHHHHHHHHHHHh-cCCCEEEEeCCCCCCH---HHHHhcCCCEEEEecCC-----CC---ccEEEeCcHHHHHHHH
Confidence 44556555444444444 4888877422221111 13345678988775421 11 2235677777888889
Q ss_pred HHHHHcCCeEEEEEEee-C--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHH
Q 037761 88 AVLQNFSWHEVVLMYED-T--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTAL 164 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d-~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~ 164 (753)
++|...|-++++++... . ..+....+.+++.+++.|+..... .. ..+..+-...+.++.+.++++|+ |++...
T Consensus 165 ~~L~~~Ghr~I~~i~~~~~~~~~~~~R~~gf~~a~~~~gi~~~~~--~~-~~~~~~~~~~~~~~l~~~~tAi~-~~~D~~ 240 (311)
T TIGR02405 165 ANLYQQGHRHISFLGVDPSDKTTGLMRHNAYLAYCESANLEPIYQ--TG-QLSHESGYVLTDKVLKPETTALV-CATDTL 240 (311)
T ss_pred HHHHHcCCCcEEEEccCcccchhHHHHHHHHHHHHHHcCCCceee--eC-CCCHHHHHHHHHHHHhcCCCEEE-ECCcHH
Confidence 99988899999999732 2 245566788999999999863211 11 11122333344554445688776 445556
Q ss_pred HHHHHHHHHHcCC
Q 037761 165 ASRLFALVAKNGM 177 (753)
Q Consensus 165 ~~~~~~~a~~~g~ 177 (753)
+..+++.+++.|.
T Consensus 241 A~g~~~~l~~~g~ 253 (311)
T TIGR02405 241 ALGAAKYLQELDR 253 (311)
T ss_pred HHHHHHHHHHcCC
Confidence 6778899999885
No 222
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=95.25 E-value=1.6 Score=45.81 Aligned_cols=167 Identities=16% Similarity=0.131 Sum_probs=89.9
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
+.++....+....++.+ +|.++|= +..+....+....+...++|+|......+.-.-...+-...+..++...++.++
T Consensus 64 ~~~~~~~~~~i~~l~~~-~vdgiIi~~~~~~~~~~~l~~l~~~giPvV~vd~~~~~~~~~~~~~~~~V~~D~~~ag~~a~ 142 (330)
T PRK15395 64 QNDQSKQNDQIDVLLAK-GVKALAINLVDPAAAPTVIEKARGQDVPVVFFNKEPSRKALDSYDKAYYVGTDSKESGIIQG 142 (330)
T ss_pred CCCHHHHHHHHHHHHHc-CCCEEEEeccCHHHHHHHHHHHHHCCCcEEEEcCCccccccccccceeEEccChHHHHHHHH
Confidence 34566566666666665 8888774 333332344445567789999998753211000111112335666666667666
Q ss_pred HHHHHc------------CCeEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--
Q 037761 88 AVLQNF------------SWHEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM-- 151 (753)
Q Consensus 88 ~~l~~~------------~w~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~-- 151 (753)
+++.+. |-.+++++.... .......+.+++.+++.|+.+..........+..+-...+.++.+.
T Consensus 143 ~~l~~~~~~~~~~~~~~~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~ 222 (330)
T PRK15395 143 DLIAKHWKANPAWDLNKDGKIQYVLLKGEPGHPDAEARTTYVIKELNDKGIKTEQLQLDTAMWDTAQAKDKMDAWLSGPN 222 (330)
T ss_pred HHHHHHHhhccccccCCCCceEEEEEecCCCCchHHHHHHHHHHHHHhcCCCeeeeecccCCcCHHHHHHHHHHHHhhCc
Confidence 655321 333445554322 2334557788999999887654321111111122333445555433
Q ss_pred --CccEEEEEeChHHHHHHHHHHHHcCC
Q 037761 152 --QTRVFIVHMNTALASRLFALVAKNGM 177 (753)
Q Consensus 152 --~~~vIi~~~~~~~~~~~~~~a~~~g~ 177 (753)
++++|+ +++...+..+++.+++.|+
T Consensus 223 ~~~~~ai~-~~~d~~A~gvl~al~~~Gl 249 (330)
T PRK15395 223 ANKIEVVI-ANNDAMAMGAVEALKAHNK 249 (330)
T ss_pred CCCeeEEE-ECCchHHHHHHHHHHhcCC
Confidence 345554 4445556678899999987
No 223
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=95.21 E-value=1.5 Score=45.34 Aligned_cols=162 Identities=10% Similarity=0.047 Sum_probs=94.5
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
.+.++..-.+....++.+ +|++||= +..+.........+...++|+|......+. .+....+..++...+..+
T Consensus 36 ~~~~~~~q~~~i~~l~~~-~vDgIIi~~~~~~~~~~~l~~~~~~~iPvV~~d~~~~~-----~~~~~~V~~d~~~~g~~~ 109 (302)
T TIGR02634 36 ANGNEAKQISQIENLIAR-GVDVLVIIPQNGQVLSNAVQEAKDEGIKVVAYDRLIND-----ADIDFYLSFDNEKVGEMQ 109 (302)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEeCCChhHHHHHHHHHHHCCCeEEEecCcCCC-----CCccEEEecCHHHHHHHH
Confidence 445666666677777766 8887664 333332344445567789999998643211 112334667778888889
Q ss_pred HHHHHHcCCe-EEEEEEeeC--CcccchHHHHHHHHHhC----CeEEEEeeccCCCCchhhHHHHHHHHhc---CCccEE
Q 037761 87 SAVLQNFSWH-EVVLMYEDT--NYGAGFISFLVDELQEN----DIRISHMSKIPTSAEDFQISKELSKLST---MQTRVF 156 (753)
Q Consensus 87 ~~~l~~~~w~-~vail~~d~--~~g~~~~~~~~~~~~~~----g~~v~~~~~~~~~~~~~d~~~~l~~l~~---~~~~vI 156 (753)
+++|...+-+ +++++..+. .......+.+++.+++. ++.+.... +.......+-...+.++.. ..+++|
T Consensus 110 ~~~L~~~g~~~~i~~i~g~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ll~~~~~~~~aI 188 (302)
T TIGR02634 110 ARAVLEAAPKGNYFLMGGSPTDNNAKLLRGGQMKVLQPAIDSGDIKIVGDQ-WVDGWLPENALRIMENALTANDNKVDAV 188 (302)
T ss_pred HHHHHhhCCCCCEEEEeCCCCCcchHHHHHHHHHHHhhhccCCCeEEecCc-CCCCCCHHHHHHHHHHHHHhCCCCccEE
Confidence 9988666655 788776432 22333456777777763 35543221 1111122333455556543 246765
Q ss_pred EEEeChHHHHHHHHHHHHcCC
Q 037761 157 IVHMNTALASRLFALVAKNGM 177 (753)
Q Consensus 157 i~~~~~~~~~~~~~~a~~~g~ 177 (753)
++.. ...+..+++++++.|+
T Consensus 189 ~~~~-D~~A~g~~~al~~~g~ 208 (302)
T TIGR02634 189 VASN-DATAGGAIQALTAQGL 208 (302)
T ss_pred EECC-CchHHHHHHHHHHCCC
Confidence 5543 3345578889999997
No 224
>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=95.17 E-value=0.96 Score=42.95 Aligned_cols=177 Identities=13% Similarity=0.051 Sum_probs=100.2
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..+++..+.+ +.- ++++.+... +..+++..|.+|++|+++...... ...+. +.|......+
T Consensus 14 ~l~~~l~~~~~----~~P-~v~v~i~~~---------~~~~~~~~l~~g~~D~~i~~~~~~---~~~l~-~~~l~~~~~~ 75 (201)
T cd08459 14 FLPRLLAALRE----VAP-GVRIETVRL---------PVDELEEALESGEIDLAIGYLPDL---GAGFF-QQRLFRERYV 75 (201)
T ss_pred HHHHHHHHHHH----HCC-CCeEEEEec---------CccCHHHHhhCCCceEEEEcCCCC---cccce-EEEeecCceE
Confidence 44566666666 653 466766653 567889999999999998543221 22233 4678888888
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
+++++..+.. ... -+++||. +.
T Consensus 76 ~v~~~~~~l~-------------------------------------------------------~~~-i~~~~L~--~~ 97 (201)
T cd08459 76 CLVRKDHPRI-------------------------------------------------------GST-LTLEQFL--AA 97 (201)
T ss_pred EEEcCCCccc-------------------------------------------------------cCC-cCHHHHh--hC
Confidence 8888765421 111 4788985 43
Q ss_pred eEEE-ecCc----hHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEe--Cc
Q 037761 570 FVGF-QSGS----FVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTA--GP 642 (753)
Q Consensus 570 ~~~~-~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~--~~ 642 (753)
++.. ..+. ..+.++.+ .+.........++.......+..|. .-+++.. ......... .++..+ .+
T Consensus 98 ~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~lp~-~~~~~~~~~--~~l~~~~~~~ 169 (201)
T cd08459 98 RHVVVSASGTGHGLVEQALRE-AGIRRRIALRVPHFLALPLIVAQTD----LVATVPE-RLARLFARA--GGLRIVPLPF 169 (201)
T ss_pred CcEEEccCCCCcchHHHHHHH-hCccccEEEEcCcHHHHHHHHhcCC----EEEecHH-HHHHHHhhc--CCeeEecCCC
Confidence 3333 2212 23444542 2332223345677888888888886 4444443 333322222 134433 22
Q ss_pred ccccCceEEEEcCCCCCchHhHHHHHHh
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAILLV 670 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i~~l 670 (753)
......++++.+++......+...+..+
T Consensus 170 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 197 (201)
T cd08459 170 PLPPFEVKLYWHRRFHRDPGNRWLRQLV 197 (201)
T ss_pred CCCCceEEEEEccccCCChHHHHHHHHH
Confidence 3334567888887766555555554443
No 225
>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=95.04 E-value=1 Score=42.66 Aligned_cols=177 Identities=10% Similarity=0.044 Sum_probs=98.4
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..+++..+.+ +.- ++++.+... +...+...|.+|++|+++.... .....+. ..++.....+
T Consensus 14 ~~~~~i~~~~~----~~P-~i~l~~~~~---------~~~~~~~~l~~g~~D~~i~~~~---~~~~~~~-~~~l~~~~~~ 75 (200)
T cd08417 14 LLPPLLARLRQ----EAP-GVRLRFVPL---------DRDDLEEALESGEIDLAIGVFP---ELPPGLR-SQPLFEDRFV 75 (200)
T ss_pred HHHHHHHHHHh----hCC-CeEEEeccC---------CHHHHHHHHHcCCCCEEEeecc---cCCCccc-hhhhhcCceE
Confidence 44555666655 653 456666543 6789999999999999985322 1222232 4677888899
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
++++...+.. . ..-+++||. +.
T Consensus 76 ~v~~~~~~~~-------------------------------------------------------~-~~~~~~~L~--~~ 97 (200)
T cd08417 76 CVARKDHPLA-------------------------------------------------------G-GPLTLEDYL--AA 97 (200)
T ss_pred EEecCCCccc-------------------------------------------------------c-cccCHHHHh--CC
Confidence 9888765421 1 134788885 44
Q ss_pred eEEEe-cCch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc--
Q 037761 570 FVGFQ-SGSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP-- 642 (753)
Q Consensus 570 ~~~~~-~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~-- 642 (753)
++.+. .++. ...++.+ .+.........++.....+.+..|. .-+++ +......... ..++..+..
T Consensus 98 ~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~l-p~~~~~~~~~--~~~l~~~~~~~ 169 (200)
T cd08417 98 PHVLVSPRGRGHGLVDDALAE-LGLSRRVALTVPHFLAAPALVAGTD----LIATV-PRRLAEALAE--RLGLRVLPLPF 169 (200)
T ss_pred CeEEeccccchHHHHHHHHHH-cCcccceEEeeCcHHHHHHHHhcCC----eeeec-cHHHHHhhcc--cCCcEEecCCC
Confidence 44332 2222 2334442 2222223345677888889998886 44444 3333332221 124544432
Q ss_pred ccccCceEEEEcCCCCCchHhHHHHHHh
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAILLV 670 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i~~l 670 (753)
......++++.+++.+....+...+..+
T Consensus 170 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 197 (200)
T cd08417 170 ELPPFTVSLYWHPRRDRDPAHRWLRELI 197 (200)
T ss_pred CCCcceeEEEeccccccChHHHHHHHHH
Confidence 2234567777777766555555444433
No 226
>cd08421 PBP2_LTTR_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=94.94 E-value=1.7 Score=40.97 Aligned_cols=176 Identities=14% Similarity=0.105 Sum_probs=99.0
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+-.+++..+.+ +.- ++++.+... +..++++.|.+|++|+++..... ....+. ..+.....++
T Consensus 14 ~l~~~l~~~~~----~~P-~i~i~~~~~---------~~~~~~~~l~~~~~D~~i~~~~~---~~~~~~-~~~l~~~~~~ 75 (198)
T cd08421 14 FLPEDLASFLA----AHP-DVRIDLEER---------LSADIVRAVAEGRADLGIVAGNV---DAAGLE-TRPYRTDRLV 75 (198)
T ss_pred hhHHHHHHHHH----HCC-CceEEEEec---------CcHHHHHHHhcCCceEEEEecCC---CCCCcE-EEEeecCcEE
Confidence 34566666666 653 466666653 56889999999999999853222 222333 3577788888
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
++++++.+.. ....-+++||. +.
T Consensus 76 ~v~~~~~pl~-------------------------------------------------------~~~~~~~~~l~--~~ 98 (198)
T cd08421 76 VVVPRDHPLA-------------------------------------------------------GRASVAFADTL--DH 98 (198)
T ss_pred EEeCCCCCcc-------------------------------------------------------ccCCCCHHHhc--CC
Confidence 8888765421 11234788885 44
Q ss_pred eEEE-ecCchHHHHHHH---hhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC--cc
Q 037761 570 FVGF-QSGSFVEDFLVK---QLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG--PI 643 (753)
Q Consensus 570 ~~~~-~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~--~~ 643 (753)
++.. ..+.....++.+ ..+.........++.......+..|. .-+++.. .......+. .++.... +.
T Consensus 99 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~----gia~~p~-~~~~~~~~~--~~l~~~~~~~~ 171 (198)
T cd08421 99 DFVGLPAGSALHTFLREAAARLGRRLRLRVQVSSFDAVCRMVAAGL----GIGIVPE-SAARRYARA--LGLRVVPLDDA 171 (198)
T ss_pred ceEeecCCcchHHHHHHHHHHcCCCceEEEEECCHHHHHHHHHcCC----CeEEccc-hhhhhhccc--CCeEEEeccCC
Confidence 3333 333222222221 22222223345678888899998887 5444443 333322222 2444332 22
Q ss_pred cccCceEEEEcCCCCCchHhHHHH
Q 037761 644 YRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 644 ~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
.....++++.+++..+...+...+
T Consensus 172 ~~~~~~~~~~~~~~~~~~~~~~~~ 195 (198)
T cd08421 172 WARRRLLLCVRSFDALPPAARALV 195 (198)
T ss_pred cccceEEEEEeCCCcCCHHHHHHH
Confidence 233467788888776666555544
No 227
>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=94.79 E-value=0.75 Score=46.47 Aligned_cols=156 Identities=15% Similarity=0.104 Sum_probs=92.4
Q ss_pred HhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHcCCeEEEEEE
Q 037761 23 LKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNFSWHEVVLMY 102 (753)
Q Consensus 23 i~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~~vail~ 102 (753)
+.+.+|+++|-...+ ......+...++|+|......+. +.+-.+..++...+..+++++...|.++++++.
T Consensus 46 l~~~~vdGiI~~~~~---~~~~~~l~~~~~PvV~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~ 116 (265)
T cd01543 46 LKDWQGDGIIARIDD---PEMAEALQKLGIPVVDVSGSREK------PGIPRVTTDNAAIGRMAAEHFLERGFRHFAFYG 116 (265)
T ss_pred ccccccceEEEECCC---HHHHHHHhhCCCCEEEEeCccCC------CCCCEEeeCHHHHHHHHHHHHHHCCCcEEEEEc
Confidence 344589988853222 22334456679999998653221 123457788888888899988888999999987
Q ss_pred eeCC-cccchHHHHHHHHHhCCeEEEEeeccC-CCC-chhhHHHHHHHHhcC--CccEEEEEeChHHHHHHHHHHHHcCC
Q 037761 103 EDTN-YGAGFISFLVDELQENDIRISHMSKIP-TSA-EDFQISKELSKLSTM--QTRVFIVHMNTALASRLFALVAKNGM 177 (753)
Q Consensus 103 ~d~~-~g~~~~~~~~~~~~~~g~~v~~~~~~~-~~~-~~~d~~~~l~~l~~~--~~~vIi~~~~~~~~~~~~~~a~~~g~ 177 (753)
.... ......+.|++++++.|+.+....... ... +..+-...+.++.+. .+++|+.. +...+..+++.+++.|+
T Consensus 117 ~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~ 195 (265)
T cd01543 117 LPGARWSDEREEAFRQLVAEAGYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVGIFAC-TDARARQLLEACRRAGI 195 (265)
T ss_pred CCCCHHHHHHHHHHHHHHHHcCCccccccCccccccccHHHHHHHHHHHHhcCCCCcEEEec-ChHHHHHHHHHHHHhCC
Confidence 5433 223445789999999997652111111 010 111223344454332 45655544 44556678888889897
Q ss_pred CCCCEE-EEEcC
Q 037761 178 MSKGYT-WIVTA 188 (753)
Q Consensus 178 ~~~~~~-wi~~~ 188 (753)
..++.+ .++.+
T Consensus 196 ~vp~di~vigfd 207 (265)
T cd01543 196 AVPEEVAVLGVD 207 (265)
T ss_pred CCCCceEEEeeC
Confidence 544433 34433
No 228
>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=94.75 E-value=2.8 Score=43.16 Aligned_cols=162 Identities=12% Similarity=-0.014 Sum_probs=94.0
Q ss_pred ChHHHHHHHHHHHhcCCeEEEEc-CCCCCc-HHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 11 KDCGKLILAVDLLKKFQVQAIIG-PQIPAA-APFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 11 ~~~~a~~~a~~Li~~~~V~aviG-~~~s~~-~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
++..-......++.+ +|+++|= +..... ...+.. +. .++|+|....... .+ ..+..+..++...+..+++
T Consensus 42 ~~~~~~~~i~~l~~~-~vDgiIi~~~~~~~~~~~l~~-~~-~~iPvV~~~~~~~--~~---~~~~~V~~D~~~~g~~~~~ 113 (295)
T TIGR02955 42 NLDKQLAQIEQCKSW-GADAILLGTVSPEALNHDLAQ-LT-KSIPVFALVNQID--SN---QVKGRVGVDWYQMGYQAGE 113 (295)
T ss_pred CHHHHHHHHHHHHHc-CCCEEEEecCChhhhhHHHHH-Hh-cCCCEEEEecCCC--cc---ceeEEEeecHHHHHHHHHH
Confidence 555555666666665 8988764 322221 122333 33 4899988643211 11 1234466777777788888
Q ss_pred HHHHcC------CeEEEEEEeeC--CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc--CCccEEEE
Q 037761 89 VLQNFS------WHEVVLMYEDT--NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST--MQTRVFIV 158 (753)
Q Consensus 89 ~l~~~~------w~~vail~~d~--~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIi~ 158 (753)
+|.. + -++++++.... .......+.+++.+++.|+.+.... ....+..+-...+.++.+ ..+++|
T Consensus 114 ~L~~-~~~~~~g~~~I~~i~g~~~~~~~~~R~~Gf~~al~~~g~~~~~~~--~~~~~~~~~~~~~~~~L~~~~~~d~i-- 188 (295)
T TIGR02955 114 YLAQ-RHPKGSGPTTLAWLPGPKNRGGTKPVTQGFRAALEGSDVEISAIL--WADNDKELQRNLLQDLLKKHPDIDYL-- 188 (295)
T ss_pred HHHH-hcccCCCCeeEEEEeCCCcCCchhHHHHHHHHHHhcCCcEEEEEe--cCCCcHHHHHHHHHHHHHhCCCcCEE--
Confidence 7755 3 34699997543 3455667889999999998765421 111122233345555543 345754
Q ss_pred EeChHHHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 159 HMNTALASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 159 ~~~~~~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
+++...+...++.+++.|+ ++.+.+.+
T Consensus 189 ~~~d~~a~g~l~al~~~g~--~~dv~vvg 215 (295)
T TIGR02955 189 VGSAVAAEAAISELRSLHM--TQQIKLVS 215 (295)
T ss_pred EeccHHHHHHHHHHHhhCc--cCCeEEEE
Confidence 4555556778888888886 34455554
No 229
>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=94.68 E-value=1.4 Score=41.81 Aligned_cols=176 Identities=11% Similarity=0.136 Sum_probs=98.0
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..+++..+.+ +.. ++++.+... +..++++.|.+|++|+++...... ...+. ..++.....+
T Consensus 15 ~l~~~l~~~~~----~~P-~i~i~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~ 76 (200)
T cd08411 15 LLPRLLPALRQ----AYP-KLRLYLRED---------QTERLLEKLRSGELDAALLALPVD---EPGLE-EEPLFDEPFL 76 (200)
T ss_pred hhHHHHHHHHH----HCC-CcEEEEEeC---------cHHHHHHHHHcCCccEEEEeccCC---CCCce-EEEeeccceE
Confidence 44666666666 654 467777653 678899999999999998532211 12222 3466777888
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
++++...+.. ....-+++||. +.
T Consensus 77 ~v~~~~~pl~-------------------------------------------------------~~~~~~~~~l~--~~ 99 (200)
T cd08411 77 LAVPKDHPLA-------------------------------------------------------KRKSVTPEDLA--GE 99 (200)
T ss_pred EEecCCCCcc-------------------------------------------------------ccCccCHHHHc--CC
Confidence 8888765421 01234789995 44
Q ss_pred eEEE-ecCchH----HHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHH-HHhcCCCCcEEeC--
Q 037761 570 FVGF-QSGSFV----EDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKV-FLKKYSSKYTTAG-- 641 (753)
Q Consensus 570 ~~~~-~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~-~~~~~~~~l~~~~-- 641 (753)
++.. ..+... ..++.+ .+.........++......++..|. .-+++.. ..... ... ..++....
T Consensus 100 ~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p~-~~~~~~~~~--~~~l~~~~l~ 171 (200)
T cd08411 100 RLLLLEEGHCLRDQALELCRL-AGAREQTDFEATSLETLRQMVAAGL----GITLLPE-LAVPSEELR--GDRLVVRPFA 171 (200)
T ss_pred ceEecCCCCcHHHHHHHHHHH-cCCCcceEEEeccHHHHHHHHHcCC----CEEEeCH-HHhcccccC--CCceEEEECC
Confidence 4433 333322 223331 2222223445678888899999987 5444433 22222 111 12343332
Q ss_pred cccccCceEEEEcCCCCCchHhHHHHH
Q 037761 642 PIYRTDGLGFAFAKDSPLVSHFSQAIL 668 (753)
Q Consensus 642 ~~~~~~~~~~~~~k~s~l~~~~n~~i~ 668 (753)
......+++++.+++.++...+...+.
T Consensus 172 ~~~~~~~~~l~~~~~~~~~~~~~~~~~ 198 (200)
T cd08411 172 EPAPSRTIGLVWRRSSPRAAAFEALAE 198 (200)
T ss_pred CCCcceEEEEEEcCCccCCHHHHHHHh
Confidence 222334667777777777666665553
No 230
>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=94.65 E-value=0.6 Score=48.15 Aligned_cols=146 Identities=12% Similarity=0.144 Sum_probs=86.1
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCC---C-CCC--CceEEEecCcHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALS---P-TEH--PFFIRVTQNDSL 81 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~---~-~~~--~~~fr~~p~~~~ 81 (753)
.+.|+..+...++++.+. +.+.|+.- ++.++.++....... +|+|-.+.++|... + ... +.+..+. +..
T Consensus 41 a~~d~~~~~~~~~~l~~~-~~DlIi~~-gt~aa~~~~~~~~~~-iPVVf~~V~dp~~~~l~~~~~~~~~nvTGv~--~~~ 115 (294)
T PF04392_consen 41 AEGDPEKLRQIARKLKAQ-KPDLIIAI-GTPAAQALAKHLKDD-IPVVFCGVSDPVGAGLVDSLDRPGKNVTGVS--ERP 115 (294)
T ss_dssp -TT-HHHHHHHHHHHCCT-S-SEEEEE-SHHHHHHHHHH-SS--S-EEEECES-TTTTTS-S-SSS--SSEEEEE--E--
T ss_pred CCCCHHHHHHHHHHHhcC-CCCEEEEe-CcHHHHHHHHhcCCC-cEEEEEeccChhhhhccccccCCCCCEEEEE--CCc
Confidence 578899999999887665 67766652 244455555554443 99998877666432 1 222 3565555 444
Q ss_pred HHHHHHHHHHHc--CCeEEEEEEeeCCc-ccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEE
Q 037761 82 QVKAISAVLQNF--SWHEVVLMYEDTNY-GAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIV 158 (753)
Q Consensus 82 ~~~a~~~~l~~~--~w~~vail~~d~~~-g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~ 158 (753)
.....+++++++ +.++++++|++++- +....+.+++.+++.|+++.... ++ +..++...+..+. .+.|++++
T Consensus 116 ~~~~~l~l~~~l~P~~k~igvl~~~~~~~~~~~~~~~~~~a~~~g~~l~~~~-v~---~~~~~~~~~~~l~-~~~da~~~ 190 (294)
T PF04392_consen 116 PIEKQLELIKKLFPDAKRIGVLYDPSEPNSVAQIEQLRKAAKKLGIELVEIP-VP---SSEDLEQALEALA-EKVDALYL 190 (294)
T ss_dssp -HHHHHHHHHHHSTT--EEEEEEETT-HHHHHHHHHHHHHHHHTT-EEEEEE-ES---SGGGHHHHHHHHC-TT-SEEEE
T ss_pred CHHHHHHHHHHhCCCCCEEEEEecCCCccHHHHHHHHHHHHHHcCCEEEEEe-cC---cHhHHHHHHHHhh-ccCCEEEE
Confidence 555666666543 57999999976653 45677888999999999876543 32 2558888888875 45788888
Q ss_pred EeChH
Q 037761 159 HMNTA 163 (753)
Q Consensus 159 ~~~~~ 163 (753)
..+..
T Consensus 191 ~~~~~ 195 (294)
T PF04392_consen 191 LPDNL 195 (294)
T ss_dssp -S-HH
T ss_pred ECCcc
Confidence 76643
No 231
>cd08438 PBP2_CidR The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold. This CD includes the substrate binding domain of CidR which positively up-regulates the expression of cidABC operon in the presence of acetic acid produced by the metabolism of excess glucose. The CidR affects the control of murein hydrolase activity by enhancing cidABC expression in the presence of acetic acid. Thus, up-regulation of cidABC expression results in increased murein hydrolase activity. This substrate binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate
Probab=94.64 E-value=2.1 Score=40.18 Aligned_cols=175 Identities=12% Similarity=0.074 Sum_probs=98.9
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..++++.+.+ +.. ++++.+... +..+++..|.+|++|+++...... ...+. ..++....+
T Consensus 13 ~~l~~~l~~~~~----~~p-~v~i~i~~~---------~~~~~~~~L~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~ 74 (197)
T cd08438 13 LLFAPLLAAFRQ----RYP-NIELELVEY---------GGKKVEQAVLNGELDVGITVLPVD---EEEFD-SQPLCNEPL 74 (197)
T ss_pred hhcHHHHHHHHH----HCc-CeEEEEEEc---------CcHHHHHHHHcCCCCEEEEecccc---cCCce-eEEeccccE
Confidence 345677777777 664 467777653 668899999999999998543221 12222 356778888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
++++++..+.. ....-+++||. +
T Consensus 75 ~~v~~~~~~l~-------------------------------------------------------~~~~~~~~~l~--~ 97 (197)
T cd08438 75 VAVLPRGHPLA-------------------------------------------------------GRKTVSLADLA--D 97 (197)
T ss_pred EEEecCCCChh-------------------------------------------------------hccccCHHHHc--C
Confidence 88888765421 01235788995 4
Q ss_pred CeEEEe-cCchHH----HHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC--
Q 037761 569 HFVGFQ-SGSFVE----DFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG-- 641 (753)
Q Consensus 569 ~~~~~~-~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~-- 641 (753)
.++... .+.... .++. ..+.........++.....+.+..|. .-+++... ..... .. .++....
T Consensus 98 ~~~i~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~v~~g~----gia~~p~~-~~~~~-~~--~~l~~~~~~ 168 (197)
T cd08438 98 EPFILFNEDFALHDRIIDACQ-QAGFTPNIAARSSQWDFIAELVAAGL----GVALLPRS-IAQRL-DN--AGVKVIPLT 168 (197)
T ss_pred CCeEEECCCccHHHHHHHHHH-HcCCCCCEEEeeCCHHHHHHHHHcCC----ceEEechh-hHhhh-cc--CCeEEEEcC
Confidence 444443 222222 2333 22332233344567778888888886 55555543 33322 11 1344332
Q ss_pred cccccCceEEEEcCCCCCchHhHHHH
Q 037761 642 PIYRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 642 ~~~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
.......++++.+++..........+
T Consensus 169 ~~~~~~~~~l~~~~~~~~~~~~~~~~ 194 (197)
T cd08438 169 DPDLRWQLALIWRKGRYLSHAARAWL 194 (197)
T ss_pred CCCceEEEEEEEeCCCcCCHHHHHHH
Confidence 22223456677777766555555444
No 232
>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=94.63 E-value=1.5 Score=41.33 Aligned_cols=176 Identities=7% Similarity=0.016 Sum_probs=97.5
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
++..+++..+.+ +.- ++++.+... +..++++.|.+|++|+++...... ...+. +.+......
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~l~i~~~---------~~~~~~~~l~~~~~D~~i~~~~~~---~~~~~-~~~l~~~~~ 74 (199)
T cd08426 13 ELLPSLIARFRQ----RYP-GVFFTVDVA---------STADVLEAVLSGEADIGLAFSPPP---EPGIR-VHSRQPAPI 74 (199)
T ss_pred HHHHHHHHHHHH----hCC-CeEEEEEeC---------CcHHHHHHHHCCCccEEEecCCCC---CCCeE-EEeeccCcE
Confidence 334566666666 653 466666653 568899999999999998532221 12233 467778888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
++++++..+.. ....-+++||. +
T Consensus 75 ~~v~~~~hpl~-------------------------------------------------------~~~~~~~~~l~--~ 97 (199)
T cd08426 75 GAVVPPGHPLA-------------------------------------------------------RQPSVTLAQLA--G 97 (199)
T ss_pred EEEecCCCCcc-------------------------------------------------------cCCccCHHHHh--C
Confidence 88888765421 01134688985 4
Q ss_pred CeEEEe-cCchH----HHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC--
Q 037761 569 HFVGFQ-SGSFV----EDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG-- 641 (753)
Q Consensus 569 ~~~~~~-~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~-- 641 (753)
.++... .+... +.++.+ .+.........++.......+..|. .-+++.. ......... .++..+.
T Consensus 98 ~~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p~-~~~~~~~~~--~~l~~~~~~ 169 (199)
T cd08426 98 YPLALPPPSFSLRQILDAAFAR-AGVQLEPVLISNSIETLKQLVAAGG----GISLLTE-LAVRREIRR--GQLVAVPLA 169 (199)
T ss_pred CCeEecCCcchHHHHHHHHHHH-cCCCcceEEecCCHHHHHHHHHcCC----CEEEEch-HhhhHhhhc--CcEEEEEcC
Confidence 444433 22222 233332 2222223345678888889999887 5444443 323222222 2344432
Q ss_pred ccc-ccCceEEEEcCCCCCchHhHHHH
Q 037761 642 PIY-RTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 642 ~~~-~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
... ....++++.+++......+...+
T Consensus 170 ~~~~~~~~~~l~~~~~~~~~~~~~~~~ 196 (199)
T cd08426 170 DPHMNHRQLELQTRAGRQLPAAASAFL 196 (199)
T ss_pred CcccCceEEEEEEcCCCCCCHHHHHHH
Confidence 221 22456777777766555555444
No 233
>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=94.61 E-value=0.79 Score=46.48 Aligned_cols=151 Identities=8% Similarity=0.019 Sum_probs=89.1
Q ss_pred CCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHcCCeEEEEEEee
Q 037761 26 FQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNFSWHEVVLMYED 104 (753)
Q Consensus 26 ~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~~vail~~d 104 (753)
.+|+++|- +..+. .....+...++|+|...... .+..++ .+..++...+..+++.+.+.|-++++++...
T Consensus 51 ~~vdgii~~~~~~~---~~~~~~~~~~~pvV~~~~~~---~~~~~~---~v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~ 121 (270)
T cd01544 51 EDVDGIIAIGKFSQ---EQLAKLAKLNPNLVFVDSNP---APDGFD---SVVPDFEQAVEKALDYLLELGHTRIGFIGGE 121 (270)
T ss_pred cCcCEEEEecCCCH---HHHHHHHhhCCCEEEECCCC---CCCCCC---EEEECHHHHHHHHHHHHHHcCCCcEEEECCC
Confidence 46777652 22222 33344566789999975422 222233 3567778888889998888899999999864
Q ss_pred CC-------cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC----CccEEEEEeChHHHHHHHHHHH
Q 037761 105 TN-------YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM----QTRVFIVHMNTALASRLFALVA 173 (753)
Q Consensus 105 ~~-------~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~----~~~vIi~~~~~~~~~~~~~~a~ 173 (753)
.. ......+.|.+.+.+.|.. .....+....+..+-...+.++.+. .+++|+. ++...+..+++.++
T Consensus 122 ~~~~~~~~~~~~~R~~gf~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~-~~d~~a~g~~~~l~ 199 (270)
T cd01544 122 EKTTDGHEYIEDPRETAFREYMKEKGLY-DPELIYIGDFTVESGYQLMKEALKSLGDNLPTAFFI-ASDPMAIGALRALQ 199 (270)
T ss_pred cccccccchhhhHHHHHHHHHHHHcCCC-ChheEeeCCCCHHHHHHHHHHHHhccCCCCCCEEEE-cCcHHHHHHHHHHH
Confidence 32 3345577889999988841 1000111111122223444454332 3565554 45666777889999
Q ss_pred HcCCCCCCEEEEEc
Q 037761 174 KNGMMSKGYTWIVT 187 (753)
Q Consensus 174 ~~g~~~~~~~wi~~ 187 (753)
+.|+..++.+-|.+
T Consensus 200 ~~g~~vp~di~v~g 213 (270)
T cd01544 200 EAGIKVPEDVSVIS 213 (270)
T ss_pred HcCCCCCCceEEEE
Confidence 99986555444443
No 234
>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=94.60 E-value=2.2 Score=40.18 Aligned_cols=176 Identities=14% Similarity=0.082 Sum_probs=99.4
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ ... ++++.+... +..++...|.+|++|+++..... ....+ -+.+.....+
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~i~~~~~---------~~~~~~~~l~~~~~D~~i~~~~~---~~~~~-~~~~l~~~~~ 74 (198)
T cd08433 13 VLAVPLLRAVRR----RYP-GIRLRIVEG---------LSGHLLEWLLNGRLDLALLYGPP---PIPGL-STEPLLEEDL 74 (198)
T ss_pred hcchHHHHHHHH----HCC-CcEEEEEec---------CcHHHHHHHhCCCCcEEEEeCCC---CCCCe-eEEEeccccE
Confidence 344667777776 654 466666653 55788999999999999853221 11222 2457778888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
+++++...+.. ....-+++||. +
T Consensus 75 ~~~~~~~~~~~-------------------------------------------------------~~~~~~~~~l~--~ 97 (198)
T cd08433 75 FLVGPADAPLP-------------------------------------------------------RGAPVPLAELA--R 97 (198)
T ss_pred EEEecCCCccc-------------------------------------------------------cCCCCCHHHhC--C
Confidence 88888765421 00234788995 5
Q ss_pred CeEEEe-cCchH----HHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC--
Q 037761 569 HFVGFQ-SGSFV----EDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG-- 641 (753)
Q Consensus 569 ~~~~~~-~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~-- 641 (753)
.++... .+... ..++.+ .+.........++.....+.+..|. .-+++.. ......... .++..+.
T Consensus 98 ~~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gia~~p~-~~~~~~~~~--~~l~~~~~~ 169 (198)
T cd08433 98 LPLILPSRGHGLRRLVDEAAAR-AGLTLNVVVEIDSVATLKALVAAGL----GYTILPA-SAVAAEVAA--GRLVAAPIV 169 (198)
T ss_pred CceEEcCCCCcHHHHHHHHHHH-cCCCceeEEEeCcHHHHHHHHHcCC----cEEEcch-hhhhhhhhc--CceEEEECC
Confidence 444443 23222 233432 2222223345678888889998886 5555443 333222222 2344332
Q ss_pred cccccCceEEEEcCCCCCchHhHHHH
Q 037761 642 PIYRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 642 ~~~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
......+++++.+|+......+...+
T Consensus 170 ~~~~~~~~~l~~~~~~~~~~~~~~~~ 195 (198)
T cd08433 170 DPALTRTLSLATPRDRPLSPAALAVR 195 (198)
T ss_pred CCCcceEEEEEEcCCCCCCHHHHHHH
Confidence 22234567777787766665555544
No 235
>PRK01686 hisG ATP phosphoribosyltransferase catalytic subunit; Reviewed
Probab=94.53 E-value=0.91 Score=43.65 Aligned_cols=152 Identities=12% Similarity=0.024 Sum_probs=99.6
Q ss_pred hHHHHHHHHcCcccEEEeeeeeecccceeeecccc--ccccceEEEEecccCCCCceeEEEecCccccceeeccccchhh
Q 037761 448 YDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLP--YSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKF 525 (753)
Q Consensus 448 ~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p--~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~ 525 (753)
-.++-..+..|-+|+++.+.-.-.|....+.--.. +....+++.+|....
T Consensus 54 ~~DIp~yV~~G~~DlGItG~D~l~E~~~~v~~l~dLgfG~crl~vAvp~~~~---------------------------- 105 (215)
T PRK01686 54 ATDVPTYVEHGAADLGIVGKDVLLEHGKDLYEPLDLGIGKCRMSVAVPPGFD---------------------------- 105 (215)
T ss_pred HHHHHHHHhCCCccEEEeeeeEeeecCCCeEEEecCCccCEEEEEEEECccc----------------------------
Confidence 37888999999999999998665554444443333 444445555554432
Q ss_pred HHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecCCCHHHHHH
Q 037761 526 VLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYKE 605 (753)
Q Consensus 526 ~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 605 (753)
+.+..+.. .+++++.........||.+ .+. +.++......-|.
T Consensus 106 --------------------------------~~~~~~~~-~~~rIATkYp~it~~yf~~-~gv-~~~iv~l~GsvE~-- 148 (215)
T PRK01686 106 --------------------------------YAPAVKQG-PRLRVATKYPNIARRYFAE-KGE-QVEIIKLYGSVEL-- 148 (215)
T ss_pred --------------------------------ccchhhcc-CCCEEEeCCHHHHHHHHHH-cCC-eEEEEECcCceee--
Confidence 44444422 5789999988899999985 333 3566666555554
Q ss_pred HHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCcccccCceEEEEcCCCC--CchHhHHHHHHhhh
Q 037761 606 ALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTDGLGFAFAKDSP--LVSHFSQAILLVRE 672 (753)
Q Consensus 606 ~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~--l~~~~n~~i~~l~~ 672 (753)
+-..|- .|++++-..+...+-++ +|.++.+ +......++..+.+. -.+.++..+.+|++
T Consensus 149 aP~~Gl----AD~IvDivsTG~TLr~N---gL~~ie~-Il~s~A~LI~n~~s~~~k~~~i~~l~~~l~~ 209 (215)
T PRK01686 149 APLVGL----ADAIVDIVETGNTLRAN---GLVEVEE-IMDISARLIVNRASLKLKREEIRPLIEKLRE 209 (215)
T ss_pred ccccCC----ccEEEEeecChHHHHHC---cCEEeeE-EEeeEEEEEEecccchhhHHHHHHHHHHHHH
Confidence 344466 89999888877776666 6777764 444566677777765 34567777776643
No 236
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=94.46 E-value=1.8 Score=44.82 Aligned_cols=181 Identities=13% Similarity=0.136 Sum_probs=104.7
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
++-..++..+.+ ..- .+++.+... +.++++++|.+|++|+++........ .+ .+.++....+
T Consensus 104 ~~~~~~l~~~~~----~~P-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~~~---~l-~~~~l~~~~~ 165 (305)
T PRK11151 104 YLLPHIIPMLHQ----TFP-KLEMYLHEA---------QTHQLLAQLDSGKLDCAILALVKESE---AF-IEVPLFDEPM 165 (305)
T ss_pred HHHHHHHHHHHH----HCC-CcEEEEEeC---------CHHHHHHHHHcCCccEEEEecCCCCC---Ce-EEEEeccCcE
Confidence 344566666666 543 467766653 56899999999999999854322211 22 3578888999
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
++++++..+.. ....-+++||. +
T Consensus 166 ~~~~~~~hpl~-------------------------------------------------------~~~~i~~~~L~--~ 188 (305)
T PRK11151 166 LLAVYEDHPWA-------------------------------------------------------NRDRVPMSDLA--G 188 (305)
T ss_pred EEEecCCCCcc-------------------------------------------------------cCCccCHHHhc--C
Confidence 99998775421 11245789995 4
Q ss_pred CeEEEe-cCchHH----HHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCcc
Q 037761 569 HFVGFQ-SGSFVE----DFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPI 643 (753)
Q Consensus 569 ~~~~~~-~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~ 643 (753)
.++... .+.... .++.+ .+.........++.......+..|. .-+++... ........ .++..++..
T Consensus 189 ~~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gi~ilp~~-~~~~~~~~--~~l~~~~~~ 260 (305)
T PRK11151 189 EKLLMLEDGHCLRDQAMGFCFE-AGADEDTHFRATSLETLRNMVAAGS----GITLLPAL-AVPNERKR--DGVCYLPCI 260 (305)
T ss_pred CCeEeecCCccHHHHHHHHHHH-CCCCCCceEEeccHHHHHHHHHcCC----CEEEeeHH-hhhhhccc--CCEEEEECc
Confidence 433333 333222 22321 1222222345677888888888886 54444443 23221111 245444432
Q ss_pred --cccCceEEEEcCCCCCchHhHHHHHHhhh
Q 037761 644 --YRTDGLGFAFAKDSPLVSHFSQAILLVRE 672 (753)
Q Consensus 644 --~~~~~~~~~~~k~s~l~~~~n~~i~~l~~ 672 (753)
.....+.++.+++.++.......+..+.+
T Consensus 261 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 291 (305)
T PRK11151 261 KPEPRRTIGLVYRPGSPLRSRYEQLAEAIRA 291 (305)
T ss_pred CCccceEEEEEEcCCCcchHHHHHHHHHHHH
Confidence 22346778888888877777777666543
No 237
>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=94.45 E-value=0.76 Score=44.86 Aligned_cols=76 Identities=9% Similarity=-0.053 Sum_probs=45.1
Q ss_pred ceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCccc-ccCceEEEEcCCCCCchHhHHHHHHhh
Q 037761 593 QTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIY-RTDGLGFAFAKDSPLVSHFSQAILLVR 671 (753)
Q Consensus 593 ~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~~k~s~l~~~~n~~i~~l~ 671 (753)
++....+..+....+.+|+ +|+.+......... .... ....++... ....+++++.|+++-.+.-.++|..|.
T Consensus 131 n~~~~~~~~~~~~~~~~Ge----~~~~~~~~~~~~~~-~~~~-~~~~~P~~~~~~~~~~~ai~k~a~~~~~A~~fi~fl~ 204 (216)
T TIGR01256 131 KLVYGEDVRQALQFVETGN----APAGIVALSDVIPS-KKVG-SVATFPEDLYKPIRYPAVIVKGGKNNAAAKAFIDYLK 204 (216)
T ss_pred heeecCcHHHHHHHHHcCC----CCEEeeehhhhccc-CCcc-EEEEeCccccCCccccEEEEECCCChHHHHHHHHHHc
Confidence 3334456678888999999 99888655432211 1112 222333332 233568889999887676666676666
Q ss_pred hcc
Q 037761 672 ENQ 674 (753)
Q Consensus 672 ~~G 674 (753)
...
T Consensus 205 s~e 207 (216)
T TIGR01256 205 SPE 207 (216)
T ss_pred CHH
Confidence 554
No 238
>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=94.45 E-value=2 Score=40.49 Aligned_cols=177 Identities=11% Similarity=0.078 Sum_probs=98.8
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
++..+++..+.+ +.- ++++.+... +..+++.+|.+|++|+++..... ....+. +.++.....
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~l~i~~~---------~~~~~~~~l~~~~~D~~i~~~~~---~~~~~~-~~~l~~~~~ 74 (198)
T cd08412 13 YYLPGLLRRFRE----AYP-GVEVRVVEG---------NQEELEEGLRSGELDLALTYDLD---LPEDIA-FEPLARLPP 74 (198)
T ss_pred hhhHHHHHHHHH----HCC-CcEEEEEEC---------CHHHHHHHHHcCCCcEEEEcCCC---CCcccc-eeeeeccce
Confidence 455677777777 654 466766653 67889999999999999853221 122232 467778888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
+++++++.+.. ....-+++||. +
T Consensus 75 ~~~~~~~~~l~-------------------------------------------------------~~~~~~~~~l~--~ 97 (198)
T cd08412 75 YVWLPADHPLA-------------------------------------------------------GKDEVSLADLA--A 97 (198)
T ss_pred EEEecCCCCCC-------------------------------------------------------CCCcCCHHHHc--C
Confidence 88888765421 01134789994 5
Q ss_pred CeEEEecCch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc--
Q 037761 569 HFVGFQSGSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP-- 642 (753)
Q Consensus 569 ~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~-- 642 (753)
.++....... ...++.+ .+.........++.....+.+..|. .-+++..........+ ..++..++-
T Consensus 98 ~~~i~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p~~~~~~~~~~--~~~l~~~~~~~ 170 (198)
T cd08412 98 EPLILLDLPHSREYFLSLFAA-AGLTPRIAYRTSSFEAVRSLVANGL----GYSLLNDRPYRPWSYD--GKRLVRRPLAD 170 (198)
T ss_pred CcEEecCchhHHHHHHHHHHH-cCCCccEEEEeCcHHHHHHHHHcCC----CEEEeecccccccccC--CCceEEeecCC
Confidence 5444432222 2233442 2222222345678889999999987 5554443322211111 124444432
Q ss_pred ccccCceEEEEcCCCCCchHhHHHH
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
......+.++.+++......+...+
T Consensus 171 ~~~~~~~~~~~~~~~~~~~~~~~~~ 195 (198)
T cd08412 171 PVPPLRLGLAWRRGARLTRAARAFV 195 (198)
T ss_pred ccccEEEEEEEecCCCCCHHHHHHH
Confidence 2233456667777665555544443
No 239
>cd08442 PBP2_YofA_SoxR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold. YofA is a LysR-like transcriptional regulator of cell growth in Bacillus subtillis. YofA controls cell viability and the formation of constrictions during cell division. YofaA positively regulates expression of the cell division gene ftsW, and thus is essential for cell viability during stationary-phase growth of Bacillus substilis. YofA shows significant homology to SoxR from Arthrobacter sp. TE1826. SoxR is a negative regulator for the sarcosine oxidase gene soxA. Sarcosine oxidase catalyzes the oxidative demethylation of sarcosine, which is involved in the metabolism of creatine and choline. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides
Probab=94.36 E-value=2.4 Score=39.62 Aligned_cols=71 Identities=13% Similarity=0.078 Sum_probs=47.7
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ +.. ++++.+... +..+++..|.+|++|+++.... .....+. ..+......
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~l~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~ 74 (193)
T cd08442 13 VRLPPLLAAYHA----RYP-KVDLSLSTG---------TTGALIQAVLEGRLDGAFVAGP---VEHPRLE-QEPVFQEEL 74 (193)
T ss_pred hhhHHHHHHHHH----HCC-CceEEEEeC---------CcHHHHHHHHCCCccEEEEeCC---CCCCCcE-EEEeecCcE
Confidence 445677777777 664 466766653 6688999999999999985322 1222222 356777888
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
+++++...+
T Consensus 75 ~~v~~~~~~ 83 (193)
T cd08442 75 VLVSPKGHP 83 (193)
T ss_pred EEEecCCCc
Confidence 888887654
No 240
>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=94.36 E-value=3 Score=43.01 Aligned_cols=160 Identities=12% Similarity=0.115 Sum_probs=85.2
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEec-CcHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQ-NDSLQVKAI 86 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p-~~~~~~~a~ 86 (753)
..++..-......++++ ++.+||= |..+.........+...++|+|......+. + .....+.. +....++..
T Consensus 39 ~~d~~~q~~~i~~l~~~-~vdgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~~~~--~---~~~~~v~~~Dn~~~g~~a 112 (302)
T TIGR02637 39 GTTAEGQIEVVNSLIAQ-KVDAIAISANDPDALVPALKKAMKRGIKVVTWDSGVAP--E---GRNLFLNQASADLIGRTQ 112 (302)
T ss_pred CCCHHHHHHHHHHHHHc-CCCEEEEeCCChHHHHHHHHHHHHCCCEEEEeCCCCCC--C---ceeEEEecCCHHHHHHHH
Confidence 45677777777787776 7887654 433333333344466789999987643221 1 11233333 333444545
Q ss_pred HHHH-HHc-CCeEEEEEEeeCC--cccchHHHHHHHHHhCC---eEEEEeeccCCCCchhhHHHHHHHHhcCC--ccEEE
Q 037761 87 SAVL-QNF-SWHEVVLMYEDTN--YGAGFISFLVDELQEND---IRISHMSKIPTSAEDFQISKELSKLSTMQ--TRVFI 157 (753)
Q Consensus 87 ~~~l-~~~-~w~~vail~~d~~--~g~~~~~~~~~~~~~~g---~~v~~~~~~~~~~~~~d~~~~l~~l~~~~--~~vIi 157 (753)
++.+ +++ +-.+++++..+.. ......+.+++.++++| .++.... ....+..+-...+..+.+.+ +++|+
T Consensus 113 a~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~L~~~~~~~ai~ 190 (302)
T TIGR02637 113 VQLAAEQIGNGGEIAILSAASTATNQNAWIEIMKKELKDPKYPKVKLVATV--YGDDDAQKSYQEAQGLLKSYPNLKGII 190 (302)
T ss_pred HHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHHHHHhhccCCCCEEEeee--cCCchHHHHHHHHHHHHHhCCCccEEE
Confidence 5544 332 2268999875432 22234577777777653 3443221 11112223334455554444 44555
Q ss_pred EEeChHHHHHHHHHHHHcCC
Q 037761 158 VHMNTALASRLFALVAKNGM 177 (753)
Q Consensus 158 ~~~~~~~~~~~~~~a~~~g~ 177 (753)
.. ....+...++.+++.|.
T Consensus 191 ~~-~d~~a~ga~~al~~~g~ 209 (302)
T TIGR02637 191 AP-TTVGIKAAAQAVSDAKL 209 (302)
T ss_pred eC-CCchHHHHHHHHHhcCC
Confidence 43 34455667788888886
No 241
>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=94.31 E-value=2.3 Score=40.15 Aligned_cols=177 Identities=10% Similarity=0.020 Sum_probs=96.7
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..+++..+.+ +.- ++++++... +...++.+|.+|++|+++.... .....+. +.++.....+
T Consensus 14 ~l~~~l~~f~~----~~P-~v~l~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~ 75 (200)
T cd08466 14 LLPRLLARLKQ----LAP-NISLRESPS---------SEEDLFEDLRLQEVDLVIDYVP---FRDPSFK-SELLFEDELV 75 (200)
T ss_pred HHHHHHHHHHH----HCC-CCEEEEecC---------chHhHHHHHHcCCccEEEeccc---CCCCCce-eeeecccceE
Confidence 44566666666 653 466666653 6788999999999999984321 1122232 4577888899
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
++++...+.. ..+ -+++||.+ .
T Consensus 76 lv~~~~~~~~-------------------------------------------------------~~~-~~~~~L~~--~ 97 (200)
T cd08466 76 CVARKDHPRI-------------------------------------------------------QGS-LSLEQYLA--E 97 (200)
T ss_pred EEEeCCCCCC-------------------------------------------------------CCC-cCHHHHhh--C
Confidence 9998775421 112 37888853 2
Q ss_pred eEEEecC----chHHHHHHHhhCCCCC-ceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc--
Q 037761 570 FVGFQSG----SFVEDFLVKQLNFSRN-QTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP-- 642 (753)
Q Consensus 570 ~~~~~~~----~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~-- 642 (753)
++.+... ...+.++.+ .+.+.. .....++.......+..|. .-+++ .........+. .++..+..
T Consensus 98 ~~i~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~l-p~~~~~~~~~~--~~l~~~~~~~ 169 (200)
T cd08466 98 KHVVLSLRRGNLSALDLLTE-EVLPQRNIAYEVSSLLSMLAVVSQTD----LIAIA-PRWLADQYAEQ--LNLQILPLPF 169 (200)
T ss_pred CcEEecCCCCcchHHHHHHH-hcCCcccEEEEcCchhhHHHHHcCCC----eehhh-HHHHHHHhhhc--CCeeEecCCC
Confidence 2222211 223455542 233122 2345667778888888886 44443 33333322222 23444322
Q ss_pred ccccCceEEEEcCCCCCchHhHHHHHHh
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAILLV 670 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i~~l 670 (753)
......++++.+++......+...+..+
T Consensus 170 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 197 (200)
T cd08466 170 KTKPIPLYMVWHKSRERDPAHQWLREQI 197 (200)
T ss_pred CCCCccEEEEEcCCCCCChHHHHHHHHH
Confidence 2224567777777765544544444443
No 242
>PLN02245 ATP phosphoribosyl transferase
Probab=94.31 E-value=0.53 Score=49.31 Aligned_cols=154 Identities=10% Similarity=0.077 Sum_probs=101.3
Q ss_pred HHHHHHHHcCcccEEEeeeeeecccc----eeeecc--ccccccceEEEEecccCCCCceeEEEecCccccceeeccccc
Q 037761 449 DELLYQIKLKKFDAVVGDISIVASRT----DYVEFT--LPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDC 522 (753)
Q Consensus 449 ~~~~~~l~~~~~Di~~~~~~~t~~r~----~~~~fs--~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~ 522 (753)
.++-..+..|.+|+++.+.-.-.|.. ..++.- ..|....+++.+|......
T Consensus 121 ~DIp~yV~~G~~DlGItG~D~l~E~~~~~~~~v~~l~~LgFG~crlvvAvP~~~~~~----------------------- 177 (403)
T PLN02245 121 KDIVRKLLSGDLDLGIVGYDMLREYGQGNEDLVIVHDALGFGDCHLSIAIPKYGIFE----------------------- 177 (403)
T ss_pred HHHHHHHhCCCccEEEeeeeeeeccCCCccceEEEeecCCCCceEEEEEEEccCCcc-----------------------
Confidence 67889999999999999986555422 233332 3445555666666442011
Q ss_pred hhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC---------CeEEEecCchHHHHHHHhhCCCCCc
Q 037761 523 SKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES---------HFVGFQSGSFVEDFLVKQLNFSRNQ 593 (753)
Q Consensus 523 ~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~ 593 (753)
.+++++||. | ++|+.........||.+ .+....+
T Consensus 178 ----------------------------------~~~s~~dL~--g~~~~~~~~~~RIATkYp~ltr~ff~~-~Gv~~v~ 220 (403)
T PLN02245 178 ----------------------------------NINSLKELA--QMPQWTEERPLRVVTGFTYLGPKFMKD-NGFKHVT 220 (403)
T ss_pred ----------------------------------ccCCHHHhc--ccccccccCceEEEeCCHHHHHHHHHH-cCCCeEE
Confidence 278999995 5 79999888888999984 4443356
Q ss_pred eecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC-cccccCceEEEEcCCCC-----CchHhHHHH
Q 037761 594 TRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG-PIYRTDGLGFAFAKDSP-----LVSHFSQAI 667 (753)
Q Consensus 594 ~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~k~s~-----l~~~~n~~i 667 (753)
+......-|. +...|- .|++++-..+...+-.+ +|++++ +.+......++..|++. -++.++..+
T Consensus 221 Iv~l~GAvE~--AP~lGl----ADaIvDIVsTGtTLraN---gLk~i~~~~Il~S~A~LIan~~sl~~~~~~~~~i~~ll 291 (403)
T PLN02245 221 FSTADGALEA--APAMGI----ADAILDLVSSGTTLREN---NLKEIEGGVVLESQAVLVASRRALLERKGALEVVHEIL 291 (403)
T ss_pred EEECcCceec--ccccCc----hhhhcchhccHHHHHHC---CCEEccCceEEEEEEEEEEecchhhcchhHHHHHHHHH
Confidence 6666555554 455566 78887776666665555 788886 56666666677777753 333666666
Q ss_pred HHhh
Q 037761 668 LLVR 671 (753)
Q Consensus 668 ~~l~ 671 (753)
.+|+
T Consensus 292 ~rl~ 295 (403)
T PLN02245 292 ERLE 295 (403)
T ss_pred HHHH
Confidence 6664
No 243
>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=94.25 E-value=2.9 Score=39.99 Aligned_cols=180 Identities=12% Similarity=0.072 Sum_probs=100.0
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ +.- .+++++... ++..++++.|.+|++|+++...... ...+. ..++.....
T Consensus 13 ~~~~~~l~~~~~----~~P-~~~v~~~~~--------~~~~~l~~~L~~g~lDl~i~~~~~~---~~~l~-~~~l~~~~~ 75 (203)
T cd08463 13 LFLPELVARFRR----EAP-GARLEIHPL--------GPDFDYERALASGELDLVIGNWPEP---PEHLH-LSPLFSDEI 75 (203)
T ss_pred HHhHHHHHHHHH----HCC-CCEEEEEeC--------CcchhHHHHHhcCCeeEEEeccccC---CCCcE-EeEeecCce
Confidence 455677777777 664 466666642 1457899999999999998532211 12233 357778888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
++++++..+.. ....-+++||. +
T Consensus 76 ~lv~~~~h~l~-------------------------------------------------------~~~~i~~~~l~--~ 98 (203)
T cd08463 76 VCLMRADHPLA-------------------------------------------------------RRGLMTLDDYL--E 98 (203)
T ss_pred EEEEeCCCCcc-------------------------------------------------------cCCCCCHHHHh--h
Confidence 99988776532 01134788996 4
Q ss_pred CeEE-EecC-----chHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc
Q 037761 569 HFVG-FQSG-----SFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP 642 (753)
Q Consensus 569 ~~~~-~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~ 642 (753)
.++. ...+ ...+.++.+ .+..........+.......+..|. .-++ ............ .++.....
T Consensus 99 ~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~i~~~v~~~~----~i~~-~p~~~~~~~~~~--~~l~~~~~ 170 (203)
T cd08463 99 APHLAPTPYSVGQRGVIDSHLAR-LGLKRNIVVTVPYFGLAPYMLAQSD----LVFT-TGRHFAEHYAKL--LPLAVVDA 170 (203)
T ss_pred CCcEEEEcCCCCCCchHHHHHHH-cCCCceEEEEeChHHHHHHHHhCCC----eeEe-cHHHHHHHhhhh--cCceEeCC
Confidence 3332 2221 234455553 2222122234567777777887775 3333 333333322222 23444432
Q ss_pred --ccccCceEEEEcCCCCCchHhHHHHHHh
Q 037761 643 --IYRTDGLGFAFAKDSPLVSHFSQAILLV 670 (753)
Q Consensus 643 --~~~~~~~~~~~~k~s~l~~~~n~~i~~l 670 (753)
......++++.+++..+-......+..+
T Consensus 171 ~~~~~~~~~~l~~~~~~~~~~~~~~l~~~~ 200 (203)
T cd08463 171 PIEFPRMRYYQLWHERSHRSPEHRWLRRLV 200 (203)
T ss_pred CCCCCCeeEEEeecccccCChHHHHHHHHH
Confidence 2334567778888777665555555444
No 244
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=94.13 E-value=1.4 Score=44.50 Aligned_cols=123 Identities=8% Similarity=0.004 Sum_probs=66.3
Q ss_pred CCCcCChhHhhhcCCeEEEecCch---HHHHHHHhhC---------C-----------CCCceecCCCHHHHHHHHhcCC
Q 037761 555 EPTFADLKKLRTESHFVGFQSGSF---VEDFLVKQLN---------F-----------SRNQTRPLSNFGEYKEALSNGS 611 (753)
Q Consensus 555 ~~~i~s~~dL~~~~~~~~~~~~~~---~~~~~~~~~~---------~-----------~~~~~~~~~~~~~~~~~l~~g~ 611 (753)
...|+|++||. .|.+|++..+.. ..-.+.+..+ . .+.+++. -...+....+.+|+
T Consensus 119 s~~iksl~DL~-~Ga~IAipnd~~n~~ral~lL~~agli~l~~~~g~~~t~~di~~np~~l~~ve-~~~~q~~~al~dg~ 196 (272)
T PRK09861 119 SKKIKTVAQIK-EGATVAIPNDPTNLGRALLLLQKEKLITLKEGKGLLPTALDITDNPRHLQIME-LEGAQLPRVLDDPK 196 (272)
T ss_pred ccCCCCHHHcC-CCCEEEEeCCCccHHHHHHHHHHCCCEEEcCCCCCCCCHhHHhcCCCCCEEEE-cCHHHhHhhccCcc
Confidence 34699999995 699999986322 2222222211 1 0111111 24567888898888
Q ss_pred CCCCeeEEEeccccHHHHHhcCCCCcEEeCcccccCceEEEEcCCCCCchHhHHHHHHhhhcchHHHHHHHhh
Q 037761 612 RKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTDGLGFAFAKDSPLVSHFSQAILLVRENQTRMDRIEKKY 684 (753)
Q Consensus 612 ~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~G~~~~~~~~~~ 684 (753)
+|+.+....+..-.--+....-........++-..++++.+..=.+.+...+..++... .-+.+.++|
T Consensus 197 ----vD~a~i~~~~~~~ag~~~~~~~l~~e~~~~~~~n~~~~r~~~~~~~~~~~lv~~~~s~~-v~~~i~~~~ 264 (272)
T PRK09861 197 ----VDVAIISTTYIQQTGLSPVHDSVFIEDKNSPYVNILVAREDNKNAENVKEFLQSYQSPE-VAKAAETIF 264 (272)
T ss_pred ----cCEEEEchhHHHHcCCCcccceeEEcCCCCCeEEEEEEcCCccCCHHHHHHHHHHcCHH-HHHHHHHHc
Confidence 99988887665421001111111111111112233455655446778888888888777 555555554
No 245
>TIGR00035 asp_race aspartate racemase.
Probab=94.08 E-value=0.49 Score=46.67 Aligned_cols=89 Identities=16% Similarity=0.094 Sum_probs=57.8
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHH
Q 037761 10 FKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAV 89 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~ 89 (753)
.++...+..+.+.+.+.++.+++=+..+.... +..+-+..++|+|+.. ++.++.
T Consensus 58 ~~~~~~l~~~~~~L~~~g~d~iviaCNTah~~-~~~l~~~~~iPii~i~-------------------------~~~~~~ 111 (229)
T TIGR00035 58 DRPRPILIDIAVKLENAGADFIIMPCNTAHKF-AEDIQKAIGIPLISMI-------------------------EETAEA 111 (229)
T ss_pred chHHHHHHHHHHHHHHcCCCEEEECCccHHHH-HHHHHHhCCCCEechH-------------------------HHHHHH
Confidence 34666666666676777999988877665444 5566666788888842 333444
Q ss_pred HHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEE
Q 037761 90 LQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRIS 127 (753)
Q Consensus 90 l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~ 127 (753)
++..+.++|+++.+... -....+++.+++.|+++.
T Consensus 112 ~~~~~~~~VgvLaT~~T---~~s~~y~~~l~~~g~~v~ 146 (229)
T TIGR00035 112 VKEDGVKKAGLLGTKGT---MKDGVYEREMKKHGIEIV 146 (229)
T ss_pred HHHcCCCEEEEEecHHH---HHhHHHHHHHHHCCCEEE
Confidence 45557788888875433 233457777777776654
No 246
>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=94.07 E-value=1.5 Score=41.81 Aligned_cols=103 Identities=11% Similarity=0.053 Sum_probs=63.7
Q ss_pred CcCChhHhhhcCCeEEE-ecCchHHHHHHHhh---CCCCCceec----CCCHHHHHHHHhcCCCCCCeeEEEeccccHHH
Q 037761 557 TFADLKKLRTESHFVGF-QSGSFVEDFLVKQL---NFSRNQTRP----LSNFGEYKEALSNGSRKGGVSAIFEEIPYIKV 628 (753)
Q Consensus 557 ~i~s~~dL~~~~~~~~~-~~~~~~~~~~~~~~---~~~~~~~~~----~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~ 628 (753)
.|.+++||.+.+.++.- ..|+-...+|.+-. +.....+.. ..+..+...+|..|+ .|+-+........
T Consensus 82 ~i~~~~dL~~~~~r~vnR~~GSGtR~l~d~~l~~~gi~~~~i~gy~~~~~th~~vA~aVa~G~----AD~G~g~~~~A~~ 157 (193)
T PF12727_consen 82 GITSLEDLADPGLRFVNRQPGSGTRILFDQLLAEEGIDPEDIPGYAQEANTHLAVAAAVASGK----ADAGIGIRAAAEE 157 (193)
T ss_pred cCCCHHHhccCCcEEEECCCCCHHHHHHHHHHHHcCCChhhCCCccccccChHHHHHHHHcCC----CCEEeehHHHHHh
Confidence 49999999766766544 45565565555422 223223333 346678889999999 9999976554431
Q ss_pred HHhcCCCCcEEeCcccccCceEEEEcCCCCCchHhHHHHHHh
Q 037761 629 FLKKYSSKYTTAGPIYRTDGLGFAFAKDSPLVSHFSQAILLV 670 (753)
Q Consensus 629 ~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~l~~~~n~~i~~l 670 (753)
+ + +|..+ ++..+.|-+++++..-..+.+.+.|.-+
T Consensus 158 ~---~--gL~Fv--pl~~E~~dlv~~~~~~~~~~vq~ll~~l 192 (193)
T PF12727_consen 158 F---Y--GLDFV--PLAEERYDLVIRREDLEDPAVQALLDFL 192 (193)
T ss_pred h---c--CCCcE--EccccceEEEEEhhHcCCHHHHHHHHHh
Confidence 1 1 22222 2344678888998877666666666544
No 247
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=94.06 E-value=2.7 Score=43.78 Aligned_cols=195 Identities=11% Similarity=0.102 Sum_probs=120.7
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..++++.+.+ ... .+++.+... +...++++|.+|++|+++...... . ...+. +.++.....
T Consensus 106 ~~l~~~l~~f~~----~~P-~i~l~l~~~---------~~~~~~~~L~~g~~Dl~i~~~~~~-~-~~~l~-~~~l~~~~~ 168 (316)
T PRK12679 106 YSLPEVIKAFRE----LFP-EVRLELIQG---------TPQEIATLLQNGEADIGIASERLS-N-DPQLV-AFPWFRWHH 168 (316)
T ss_pred cchHHHHHHHHH----HCC-CeEEEEecC---------CHHHHHHHHHcCCCCEEEecccCC-C-CCCce-EEEccCCcE
Confidence 445677777777 654 466666643 567899999999999998532211 1 12233 357788888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
++++++..+.. ....-+++||. +
T Consensus 169 ~~v~~~~hpl~-------------------------------------------------------~~~~i~~~~L~--~ 191 (316)
T PRK12679 169 SLLVPHDHPLT-------------------------------------------------------QITPLTLESIA--K 191 (316)
T ss_pred EEEecCCCccc-------------------------------------------------------cCCCCCHHHHh--C
Confidence 88888776432 01134889995 4
Q ss_pred CeEE-EecCch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc-
Q 037761 569 HFVG-FQSGSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP- 642 (753)
Q Consensus 569 ~~~~-~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~- 642 (753)
.++. ...+.. .+.++.+ .+.........++.......+..|. .-+++... .... .+ ..++..+..
T Consensus 192 ~~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~s~~~~~~~v~~g~----Gi~~lp~~-~~~~-~~--~~~L~~~~~~ 262 (316)
T PRK12679 192 WPLITYRQGITGRSRIDDAFAR-KGLLADIVLSAQDSDVIKTYVALGL----GIGLVAEQ-SSGE-QE--ESNLIRLDTR 262 (316)
T ss_pred CCeEEecCCCcHHHHHHHHHHH-cCCCceEEEEeccHHHHHHHHHcCC----cEEEeccc-cccc-cc--CCcEEEEECc
Confidence 4333 333322 3344442 2333233345677888889999987 55555433 2322 11 224554432
Q ss_pred -ccccCceEEEEcCCCCCchHhHHHHHHhhhcchHHHHHHHhhcCC
Q 037761 643 -IYRTDGLGFAFAKDSPLVSHFSQAILLVRENQTRMDRIEKKYFGE 687 (753)
Q Consensus 643 -~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~G~~~~~~~~~~~~~ 687 (753)
.....++.++.+++.++.......+.-+.+.= .++++.++-+..
T Consensus 263 ~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~~~-~~~~~~~~~~~~ 307 (316)
T PRK12679 263 HLFDANTVWLGLKRGQLQRNYVWRFLELCNAGL-SVEDIKRQVMEN 307 (316)
T ss_pred ccCCCceEEEEEeCCchhhHHHHHHHHHHhccc-CHHHHHHHHhhc
Confidence 23345688889999888888888888777776 888998887765
No 248
>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=94.02 E-value=3.1 Score=39.01 Aligned_cols=175 Identities=11% Similarity=0.079 Sum_probs=96.3
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+...++..+.+ +.- ++++++... ....++.+|.+|++|+++....... ..+ -+.++....++
T Consensus 13 ~l~~~l~~~~~----~~P-~i~l~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~~---~~~-~~~~l~~~~~~ 74 (197)
T cd08419 13 FAPRLLGAFCR----RHP-GVEVSLRVG---------NREQVLERLADNEDDLAIMGRPPED---LDL-VAEPFLDNPLV 74 (197)
T ss_pred HhhHHHHHHHH----HCC-CceEEEEEC---------CHHHHHHHHhcCCccEEEecCCCCC---CCe-EEEEeccCCEE
Confidence 44566666666 653 466666653 5688899999999999985322211 112 24577788888
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
++++...+.. ....-+++||. +.
T Consensus 75 ~~~~~~~~l~-------------------------------------------------------~~~~~~~~~l~--~~ 97 (197)
T cd08419 75 VIAPPDHPLA-------------------------------------------------------GQKRIPLERLA--RE 97 (197)
T ss_pred EEecCCCCCc-------------------------------------------------------CCCCcCHHHHh--CC
Confidence 8888665321 01134789995 44
Q ss_pred eEEE-ecCch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc--
Q 037761 570 FVGF-QSGSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP-- 642 (753)
Q Consensus 570 ~~~~-~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~-- 642 (753)
++.. ..+.. ...++.+ .+.........++.......+..|. .-+++.. ......... .++..+..
T Consensus 98 ~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p~-~~~~~~~~~--~~l~~~~~~~ 169 (197)
T cd08419 98 PFLLREPGSGTRLAMERFFAE-HGVTLRVRMELGSNEAIKQAVMAGL----GLSVLSL-HTLALELAT--GRLAVLDVEG 169 (197)
T ss_pred CcEEecCCCcHHHHHHHHHHH-CCCCcceEEEECCHHHHHHHHHhCC----ceEeecH-HHHHHHHhh--CCeEEEEcCC
Confidence 3333 22222 2334442 2333233345678888889998886 5444443 333322222 23444322
Q ss_pred ccccCceEEEEcCCCCCchHhHHHH
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
......+.++.+++......+...+
T Consensus 170 ~~~~~~~~~~~~~~~~~~~~~~~~~ 194 (197)
T cd08419 170 FPIRRQWYVVHRKGKRLSPAAQAFL 194 (197)
T ss_pred cceEEEEEEEEcCCCcCCHHHHHHH
Confidence 2222356667777665555544443
No 249
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=94.00 E-value=2 Score=44.47 Aligned_cols=182 Identities=8% Similarity=-0.002 Sum_probs=104.1
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ +.. ++++.+... +..+++.+|.+|++|+++....... ....+. ..|+....+
T Consensus 108 ~~l~~~l~~~~~----~~p-~i~~~~~~~---------~~~~~~~~l~~g~~Di~i~~~~~~~-~~~~~~-~~~l~~~~~ 171 (302)
T PRK09791 108 SLMPAVISRFHQ----QHP-QVKVRIMEG---------QLVSMINELRQGELDFTINTYYQGP-YDHEFT-FEKLLEKQF 171 (302)
T ss_pred hhhHHHHHHHHH----HCC-CeEEEEEeC---------ChHHHHHHHHCCCccEEEEecCCcc-ccccee-EEEeccceE
Confidence 344677777776 654 466666653 6789999999999999985321111 112233 368888999
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
++++++..+.. ...+++||. .
T Consensus 172 ~l~~~~~~~~~---------------------------------------------------------~~~~~~~l~--~ 192 (302)
T PRK09791 172 AVFCRPGHPAI---------------------------------------------------------GARSLKQLL--D 192 (302)
T ss_pred EEEEcCCCCcC---------------------------------------------------------CCCCHHHHh--c
Confidence 99999776532 123688885 4
Q ss_pred CeEEEe-cCch-H---HHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc-
Q 037761 569 HFVGFQ-SGSF-V---EDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP- 642 (753)
Q Consensus 569 ~~~~~~-~~~~-~---~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~- 642 (753)
..+... .+.. . .+++.+ .+.........++....+..+.+|. .-+++ +......... ..++..+..
T Consensus 193 ~~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~l-p~~~~~~~~~--~~~l~~~~~~ 264 (302)
T PRK09791 193 YSWTMPTPHGSYYKQLSELLDD-QAQTPQVGVVCETFSACISLVAKSD----FLSIL-PEEMGCDPLH--GQGLVMLPVS 264 (302)
T ss_pred CCeecCCCCCcHHHHHHHHHHh-cCCCCCcceEEccHHHHHHHHHcCC----eEEEe-eHhhhccccc--CCceEEEecC
Confidence 444332 2222 2 223332 1222122234567788888998886 44444 3322221111 224555543
Q ss_pred -ccccCceEEEEcCCCCCchHhHHHHHHhhhc
Q 037761 643 -IYRTDGLGFAFAKDSPLVSHFSQAILLVREN 673 (753)
Q Consensus 643 -~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~ 673 (753)
......++++.+|+++........+..+++.
T Consensus 265 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 296 (302)
T PRK09791 265 EILPKATYYLIQRRDTRQTPLTASLITLFRRE 296 (302)
T ss_pred CCCCCcceEEEEecCCCCCHHHHHHHHHHHHH
Confidence 2234567788888887777777766665543
No 250
>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=93.95 E-value=3.8 Score=38.26 Aligned_cols=174 Identities=10% Similarity=0.078 Sum_probs=95.8
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ +.- ++++.+... +..++.+.|.+|++|+++..... ....+. +.++.....
T Consensus 13 ~~l~~~l~~~~~----~~p-~v~i~i~~~---------~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~ 74 (197)
T cd08440 13 TLLPPVLAAFRR----RHP-GIRVRLRDV---------SAEQVIEAVRSGEVDFGIGSEPE---ADPDLE-FEPLLRDPF 74 (197)
T ss_pred hHHHHHHHHHHH----hCC-CcEEEEEeC---------ChHHHHHHHHcCCccEEEEeCCC---CCCCee-EEEeecccE
Confidence 444666766666 654 466666653 56889999999999999853322 122222 356777888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
++++++..+.. ....-+++||. +
T Consensus 75 ~~~~~~~~pl~-------------------------------------------------------~~~~~~~~~l~--~ 97 (197)
T cd08440 75 VLVCPKDHPLA-------------------------------------------------------RRRSVTWAELA--G 97 (197)
T ss_pred EEEecCCCCcc-------------------------------------------------------cCCccCHHHHc--c
Confidence 88888765421 01134788984 4
Q ss_pred CeEEE-ecCchHHHHHHH---hhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC--c
Q 037761 569 HFVGF-QSGSFVEDFLVK---QLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG--P 642 (753)
Q Consensus 569 ~~~~~-~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~--~ 642 (753)
.++.. ..+.....++.+ ..+.........++.......+.+|. .-+++... ..... .. .++.... .
T Consensus 98 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p~~-~~~~~-~~--~~l~~~~~~~ 169 (197)
T cd08440 98 YPLIALGRGSGVRALIDRALAAAGLTLRPAYEVSHMSTALGMVAAGL----GVAVLPAL-ALPLA-DH--PGLVARPLTE 169 (197)
T ss_pred CCEEecCCCccHHHHHHHHHHHcCCCcceEEEeccHHHHHHHHHcCC----eEEEcchh-HHHHh-hc--CceEEEEcCC
Confidence 44443 333333333221 22332233445678888888898886 55544433 23221 11 2344332 2
Q ss_pred ccccCceEEEEcCCCCCchHhHH
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQ 665 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~ 665 (753)
......++++.+++......+..
T Consensus 170 ~~~~~~~~l~~~~~~~~~~~~~~ 192 (197)
T cd08440 170 PVVTRTVGLIRRRGRSLSPAAQA 192 (197)
T ss_pred CccceEEEEEEcCCCcCCHHHHH
Confidence 22334566677766544444433
No 251
>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=93.94 E-value=2.1 Score=40.63 Aligned_cols=177 Identities=11% Similarity=0.041 Sum_probs=97.0
Q ss_pred ehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceEE
Q 037761 411 CMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTM 490 (753)
Q Consensus 411 ~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 490 (753)
...++..+.+ +.- ++++.+... +. ++++.|.+|++|+++..-... ...+. ..|......++
T Consensus 15 l~~~i~~~~~----~~P-~i~l~i~~~---------~~-~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~ 75 (200)
T cd08462 15 LPPVIERVAR----EAP-GVRFELLPP---------DD-QPHELLERGEVDLLIAPERFM---SDGHP-SEPLFEEEFVC 75 (200)
T ss_pred HHHHHHHHHH----HCC-CCEEEEecC---------Ch-hHHHHHhcCCeeEEEecCCCC---CCCce-eeeeeccceEE
Confidence 3555666655 654 466666653 44 899999999999998532211 12233 34777788888
Q ss_pred EEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCe
Q 037761 491 LVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHF 570 (753)
Q Consensus 491 ~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~ 570 (753)
+++...+.. ...-+++||.+...
T Consensus 76 v~~~~hpl~--------------------------------------------------------~~~~~~~~l~~~~~- 98 (200)
T cd08462 76 VVWADNPLV--------------------------------------------------------GGELTAEQYFSAGH- 98 (200)
T ss_pred EEcCCCCcc--------------------------------------------------------CCCCCHHHHhhCCC-
Confidence 888775421 01357899963332
Q ss_pred EEEecCc----hHHH-HHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc--c
Q 037761 571 VGFQSGS----FVED-FLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP--I 643 (753)
Q Consensus 571 ~~~~~~~----~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~--~ 643 (753)
+.+..+. ...+ ++. ..+.........++.......+..|. .-+++ ........... .++..+.- .
T Consensus 99 i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~v~~g~----giail-p~~~~~~~~~~--~~l~~~~~~~~ 170 (200)
T cd08462 99 VVVRFGRNRRPSFEDWFLN-EYGLKRRVEVVTPSFSSIPPLLVGTN----RIATL-HRRLAEQFARR--LPLRILPLPFP 170 (200)
T ss_pred EEEecCCCCCccHHHHHHH-HcCCcceEEEEeChHHHHHHHHHcCc----hhhhh-HHHHHHhhhhc--CCceEeCCCcC
Confidence 2222221 1222 233 22332223345678888888898886 44444 33333322222 13443332 2
Q ss_pred cccCceEEEEcCCCCCchHhHHHHHHhh
Q 037761 644 YRTDGLGFAFAKDSPLVSHFSQAILLVR 671 (753)
Q Consensus 644 ~~~~~~~~~~~k~s~l~~~~n~~i~~l~ 671 (753)
.....++++.+|+...-..+...+..+.
T Consensus 171 ~~~~~~~l~~~~~~~~~~~~~~~~~~i~ 198 (200)
T cd08462 171 LPPMREALQWHRYRNNDPGLIWLRELII 198 (200)
T ss_pred CCCeeEEEEEcccccCChHHHHHHHHHh
Confidence 3345678888887665555555544443
No 252
>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=93.86 E-value=0.93 Score=46.06 Aligned_cols=121 Identities=20% Similarity=0.183 Sum_probs=73.0
Q ss_pred CcCChhHhhhc-----C-CeEEEec-CchH---HHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccH
Q 037761 557 TFADLKKLRTE-----S-HFVGFQS-GSFV---EDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYI 626 (753)
Q Consensus 557 ~i~s~~dL~~~-----~-~~~~~~~-~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~ 626 (753)
+++|++||++. + .++|... ++.. ...+.+..+. +.+.++|....+.+.+|..|+ +|+.+......
T Consensus 89 p~~t~~eli~~ak~~p~~~~~g~~g~g~~~hl~~~~l~~~~G~-~~~~Vpy~G~~~~~~allgG~----vd~~~~~~~~~ 163 (274)
T PF03401_consen 89 PYKTLEELIEYAKANPGKLTFGSSGPGSSDHLAAALLAKAAGI-KFTHVPYDGGAEALTALLGGH----VDAAFGSPGEA 163 (274)
T ss_dssp S-SSHHHHHHHHHCSCCC-EEEESSTTSHHHHHHHHHHHHHT----EEEE-SSHHHHHHHHHTTS----SSEEEEEHHHH
T ss_pred ccccHHHHHHHHHhCCCCeEEEecCCCchHHHHHHHHHHHhCC-ceEEEEeCCccHHHHHHhCCe----eeEEeecHHHH
Confidence 48999999632 2 2666652 3322 2333434444 356789999999999999999 99999886666
Q ss_pred HHHHhcCC---------CC------cEEeCcc-----cccCceEEEEcCCCC--CchHhHHHHHHhhhcchHHHHHHHh
Q 037761 627 KVFLKKYS---------SK------YTTAGPI-----YRTDGLGFAFAKDSP--LVSHFSQAILLVRENQTRMDRIEKK 683 (753)
Q Consensus 627 ~~~~~~~~---------~~------l~~~~~~-----~~~~~~~~~~~k~s~--l~~~~n~~i~~l~~~G~~~~~~~~~ 683 (753)
.-+++... ++ +..+.+. ......++++||+-| .++.+..++.+..++. .+.+..++
T Consensus 164 ~~~~~~G~~k~Lav~~~~r~~~~pdvPT~~E~G~~d~~~~~~~g~~~p~gtp~~~~~~l~~a~~~~~~~p-e~~~~~~~ 241 (274)
T PF03401_consen 164 LPYVEAGDLKPLAVFSDERSPALPDVPTFKEQGYPDIVFGSWRGLFAPKGTPDEIVDKLADAIKKALEDP-EFQEFLEK 241 (274)
T ss_dssp HHHHHTTSEEEEEECSSS-BTTCTTS-BTTTTT-TTG--EEEEEEEEETTS-HHHHHHHHHHHHHHHT-H-HHHHHHHH
T ss_pred HHHHhCCCceEEEEecCccccccCCCCCHHHhCccceeeeeeeeeecCCCCCHHHHHHHHHHHHHHhCCH-HHHHHHHH
Confidence 55554320 11 1111111 011235788899988 9999999999999988 66555544
No 253
>cd08434 PBP2_GltC_like The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold. GltC, a member of the LysR family of bacterial transcriptional factors, activates the expression of gltA gene of glutamate synthase operon and is essential for cell growth in the absence of glutamate. Glutamate synthase is a heterodimeric protein that encoded by gltA and gltB, whose expression is subject to nutritional regulation. GltC also negatively auto-regulates its own expression. This substrate-binding domain has strong homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity,
Probab=93.84 E-value=3.6 Score=38.41 Aligned_cols=70 Identities=17% Similarity=0.209 Sum_probs=45.8
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+...++..+.+ +.- ++++.+... ....++.+|.+|++|+++..... ....+. +.++.....+
T Consensus 14 ~l~~~l~~~~~----~~P-~i~i~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~---~~~~l~-~~~l~~~~~~ 75 (195)
T cd08434 14 LVPDLIRAFRK----EYP-NVTFELHQG---------STDELLDDLKNGELDLALCSPVP---DEPDIE-WIPLFTEELV 75 (195)
T ss_pred hhHHHHHHHHH----hCC-CeEEEEecC---------cHHHHHHHHHcCCccEEEEccCC---CCCCee-EEEeecceEE
Confidence 44556666666 653 356666653 56788999999999999853222 222333 3567788888
Q ss_pred EEEecccC
Q 037761 490 MLVPVKRD 497 (753)
Q Consensus 490 ~~v~~~~~ 497 (753)
+++++..+
T Consensus 76 ~v~~~~~~ 83 (195)
T cd08434 76 LVVPKDHP 83 (195)
T ss_pred EEecCCCc
Confidence 88887654
No 254
>cd08435 PBP2_GbpR The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold. Galactose-binding protein regulator (GbpR), a member of the LysR family of bacterial transcriptional regulators, regulates the expression of chromosomal virulence gene chvE. The chvE gene is involved in the uptake of specific sugars, in chemotaxis to these sugars, and in the VirA-VirG two-component signal transduction system. In the presence of an inducing sugar such as L-arabinose, D-fucose, or D-galactose, GbpR activates chvE expression, while in the absence of an inducing sugar, GbpR represses expression. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a ma
Probab=93.74 E-value=5.2 Score=37.57 Aligned_cols=177 Identities=11% Similarity=0.119 Sum_probs=96.3
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+-.+++..+.+ ... ++++.+... +..+++++|.+|++|+++.... ...+...+. ..++....++
T Consensus 14 ~l~~~l~~~~~----~~P-~v~i~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~-~~~~~~~~~-~~~l~~~~~~ 77 (201)
T cd08435 14 LLPPAIARLLA----RHP-RLTVRVVEG---------TSDELLEGLRAGELDLAIGRLA-DDEQPPDLA-SEELADEPLV 77 (201)
T ss_pred HHHHHHHHHHH----HCC-CeEEEEEeC---------CHHHHHHHHHcCCccEEEEecC-cccCCCCcE-EEEcccCcEE
Confidence 34566666665 654 466666643 5688999999999999985322 111122233 3577788889
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
+++++..+.. ....-+++||. +.
T Consensus 78 ~~~~~~~~l~-------------------------------------------------------~~~~~~~~dL~--~~ 100 (201)
T cd08435 78 VVARPGHPLA-------------------------------------------------------RRARLTLADLA--DY 100 (201)
T ss_pred EEEeCCCcCc-------------------------------------------------------ccCCcCHHHHh--cC
Confidence 8888765422 11235789995 44
Q ss_pred eEEEe-cCchH----HHHHHHhhCCC-CCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc-
Q 037761 570 FVGFQ-SGSFV----EDFLVKQLNFS-RNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP- 642 (753)
Q Consensus 570 ~~~~~-~~~~~----~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~- 642 (753)
++... .+... ..++. ..+.. .......++.....+.+..|. .-+++.. ......... .++..+..
T Consensus 101 ~~i~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p~-~~~~~~~~~--~~l~~~~~~ 172 (201)
T cd08435 101 PWVLPPPGTPLRQRLEQLFA-AAGLPLPRNVVETASISALLALLARSD----MLAVLPR-SVAEDELRA--GVLRELPLP 172 (201)
T ss_pred CEEecCCCCcHHHHHHHHHH-HcCCCCCCceEEEccHHHHHHHHhcCC----eEEEeEH-HHhhhhhcc--CceEEeccc
Confidence 44332 22222 23333 22222 112234567788888898887 5444443 333332222 24444432
Q ss_pred -ccccCceEEEEcCCCCCchHhHHHH
Q 037761 643 -IYRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 643 -~~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
......+.++.+++......+...+
T Consensus 173 ~~~~~~~~~l~~~~~~~~~~~~~~~~ 198 (201)
T cd08435 173 LPTSRRPIGITTRRGGPLSPAARALL 198 (201)
T ss_pred CCCCcccEEEEEcCCCCCCHHHHHHH
Confidence 2233456677777655544444443
No 255
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=93.71 E-value=2.1 Score=44.42 Aligned_cols=179 Identities=9% Similarity=0.037 Sum_probs=97.2
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+...++..+.+ +.. ++++.+... ....+...|.+|++|+++..-.... ..+. ..++....++
T Consensus 106 ~~~~~l~~~~~----~~p-~i~l~~~~~---------~~~~~~~~l~~g~~Di~i~~~~~~~---~~~~-~~~l~~~~~~ 167 (305)
T PRK11233 106 LTMPLLQAVRA----EFP-GIVLYLHEN---------SGATLNEKLMNGQLDMAVIYEHSPV---AGLS-SQPLLKEDLF 167 (305)
T ss_pred HHHHHHHHHHH----HCC-CcEEEEEEC---------CcHHHHHHHHCCCCCEEEEcCCcCC---CCcE-EEEEeeeeEE
Confidence 33456677766 653 456666553 5578899999999999985322211 2222 4577788888
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
++++.+.+. ..-+++||. +.
T Consensus 168 lv~~~~~~~----------------------------------------------------------~~~~~~~l~--~~ 187 (305)
T PRK11233 168 LVGTQDCPG----------------------------------------------------------QSVDLAAVA--QM 187 (305)
T ss_pred EEEcCccCC----------------------------------------------------------CCcCHHHHh--CC
Confidence 888766322 245888985 44
Q ss_pred eEEEec-Cch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCccc
Q 037761 570 FVGFQS-GSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIY 644 (753)
Q Consensus 570 ~~~~~~-~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~ 644 (753)
++.... +.. ...++. ..+.........++.......+..|. .-+++. ..............+..+....
T Consensus 188 ~~i~~~~~~~~~~~~~~~~~-~~g~~~~~~~~~~~~~~~~~~v~~g~----gi~~lp-~~~~~~~~~~~~~~~~~~~~~~ 261 (305)
T PRK11233 188 NLFLPRDYSAVRLRVDEAFS-LRRLTAKVIGEIESIATLTAAIASGM----GVTVLP-ESAARSLCGAVNGWMARITTPS 261 (305)
T ss_pred CeecCCCCccHHHHHHHHHH-HcCCCCceEEEEcCHHHHHHHHHcCC----eeEecc-hhHhhcccccCceeEEeecCCc
Confidence 443322 222 233343 22332222345678888888898886 444443 3332222221111122222222
Q ss_pred ccCceEEEEcCCCCCchHhHHHHHHhhh
Q 037761 645 RTDGLGFAFAKDSPLVSHFSQAILLVRE 672 (753)
Q Consensus 645 ~~~~~~~~~~k~s~l~~~~n~~i~~l~~ 672 (753)
...+++++.+++.+........+..+.+
T Consensus 262 ~~~~~~~~~~~~~~~~~~~~~f~~~l~~ 289 (305)
T PRK11233 262 MSLSLSLNLSARLPLSPQAQAVKEILLS 289 (305)
T ss_pred cceEEEEEecCCCCCCHHHHHHHHHHHH
Confidence 3456788888887655555555544433
No 256
>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=93.71 E-value=0.32 Score=44.77 Aligned_cols=99 Identities=11% Similarity=0.111 Sum_probs=65.6
Q ss_pred HHHHHHcCCeEEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHH-HHHhcCCccEEEEEeChH
Q 037761 87 SAVLQNFSWHEVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKEL-SKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 87 ~~~l~~~~w~~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l-~~l~~~~~~vIi~~~~~~ 163 (753)
+++|...|.++++++... ..+.....+.|+..+++.|+........... ...+..... ..+++..+++|++ ++..
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~~pdaii~-~~~~ 78 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSDD-DSEDAREAQLLWLRRLRPDAIIC-SNDR 78 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESS-SHHHHHHHHHHHHHTCSSSEEEE-SSHH
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCC-cchhHHHHHHHHHhcCCCcEEEE-cCHH
Confidence 467778899999999943 3355666788999999999986655444322 222333222 2344447786655 6777
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 164 LASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 164 ~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
.+..+++.+.+.|+..++.+-|.+
T Consensus 79 ~a~~~~~~l~~~g~~vP~di~vv~ 102 (160)
T PF13377_consen 79 LALGVLRALRELGIRVPQDISVVS 102 (160)
T ss_dssp HHHHHHHHHHHTTSCTTTTSEEEE
T ss_pred HHHHHHHHHHHcCCcccccccEEE
Confidence 888899999999986554444443
No 257
>cd08429 PBP2_NhaR The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold. NhaR is a positive regulator of the LysR family and is known to be an activator of the nhaA gene encoding a Na(+)/H(+) antiporter. In Escherichia coli, NhaA is the vital antiporter that protects against high sodium stress, and it is essential for growth in high sodium levels, while NhaB becomes essential only if NhaA is not available. The nhaA gene of nhaAR operon is induced by monovalent cations. The nhaR of the operon activates nhaAR, as well as the osmC transcription which is induced at elevated osmolarity. OsmC is transcribed from the two overlapping promoters (osmCp1 and osmP2) and that NhaR is shown to activate only the expression of osmCp1. NhaR also activates the transcription of the pgaABCD operon which is required for production of the biofilm adhesion, poly-beta-1,6-N-acetyl-d-glucosamine
Probab=93.65 E-value=4.1 Score=39.02 Aligned_cols=183 Identities=10% Similarity=0.029 Sum_probs=100.9
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..++++.+.+ +.. .++++.... +...++..|.+|++|+++........-...+ ...|.....+
T Consensus 13 ~~l~~~l~~f~~----~~P-~v~l~i~~~---------~~~~~~~~L~~~~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~ 77 (204)
T cd08429 13 SIAYRLLEPAMD----LHE-PIRLVCREG---------KLEQLLADLALHRLDMVLADRPMPSSLDVKG-YSHRLGECGV 77 (204)
T ss_pred HHHHHHHHHHHH----hCC-CcEEEEEeC---------CHHHHHHHHHcCCccEEEecCCCccccchhe-eeccccccce
Confidence 344566666666 654 466766653 7899999999999999984322111100112 2357777777
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
+++++.+.... ..+ .+++||. +
T Consensus 78 ~~~~~~~~~~~-------------------------------------------------------~~~-~~~~dL~--~ 99 (204)
T cd08429 78 SFFAAPPLAKR-------------------------------------------------------LEK-PFPASLD--E 99 (204)
T ss_pred EEEecCCcccc-------------------------------------------------------ccc-CCHhHhc--c
Confidence 77765442210 012 3788885 4
Q ss_pred CeEEE-ecCch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc-
Q 037761 569 HFVGF-QSGSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP- 642 (753)
Q Consensus 569 ~~~~~-~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~- 642 (753)
.++.. ..++. ...++.+ .+.........++.+.....+..|. .-+++.. ......... ..+..+..
T Consensus 100 ~~~i~~~~~~~~~~~~~~~~~~-~g~~~~~~~~~~~~~~~~~~v~~G~----Gv~~lp~-~~~~~~~~~--~~l~~~~~~ 171 (204)
T cd08429 100 APLLLPGEDSALRRKLLQWFER-QGLRPQIVGEFDDSALMKAFGQAGA----GIFAAPT-VIADEVARQ--YGVVEIGRT 171 (204)
T ss_pred CCeeecCCCCcHHHHHHHHHHH-cCCCcceEEEeCCHHHHHHHHHcCC----CeEeccH-HHHHHHHhc--CCeEeeccC
Confidence 44433 33332 3344442 2333334445678888899999997 5555443 333222222 13444321
Q ss_pred ccccCceEEEEcCCCCCchHhHHHHHHhhh
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAILLVRE 672 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~ 672 (753)
......++++.+|+......+...+..+++
T Consensus 172 ~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~ 201 (204)
T cd08429 172 DEVVEEFYAISVERRITHPAVVAISEAARS 201 (204)
T ss_pred ccceeeEEEEeecccCCCHHHHHHHHhhcc
Confidence 112346778888876666666666655544
No 258
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=93.65 E-value=0.25 Score=52.10 Aligned_cols=71 Identities=15% Similarity=0.100 Sum_probs=49.7
Q ss_pred CcCChhHhhhcCCeEEEecCch-HHHHHHH---hhCCCCCcee-cCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHh
Q 037761 557 TFADLKKLRTESHFVGFQSGSF-VEDFLVK---QLNFSRNQTR-PLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLK 631 (753)
Q Consensus 557 ~i~s~~dL~~~~~~~~~~~~~~-~~~~~~~---~~~~~~~~~~-~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~ 631 (753)
.|++++|| +|+++|+..++. ....++. ..+.....+. ..-.+.++..++..|+ +|+++...+.......
T Consensus 127 ~i~~~adl--kGk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~g~----vda~~~~ep~~~~~~~ 200 (335)
T COG0715 127 GIKSVADL--KGKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNLPPADAVAALAAGQ----VDAFVVWEPWNAAAEG 200 (335)
T ss_pred CcccccCC--CCceEEEeCCCchHHHHHHHHHHHcCCCcccceEEeeCcHHHHHHHhcCC----cceEEecCCchhhhhc
Confidence 38999999 699999988875 3333332 3334332322 3334558899999999 9999988888877766
Q ss_pred cC
Q 037761 632 KY 633 (753)
Q Consensus 632 ~~ 633 (753)
+.
T Consensus 201 ~~ 202 (335)
T COG0715 201 EG 202 (335)
T ss_pred cC
Confidence 65
No 259
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=93.62 E-value=3.5 Score=42.78 Aligned_cols=192 Identities=12% Similarity=0.070 Sum_probs=109.6
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..++++.+.+ +.. ++++.+... +.+.+++.|.+|++|+++..-... ....+. +.|+.....
T Consensus 106 ~~l~~~l~~~~~----~~P-~i~i~i~~~---------~~~~~~~~l~~g~~D~~i~~~~~~--~~~~l~-~~~l~~~~~ 168 (309)
T PRK12682 106 YVLPRVVAAFRK----RYP-KVNLSLHQG---------SPDEIARMVISGEADIGIATESLA--DDPDLA-TLPCYDWQH 168 (309)
T ss_pred HHHHHHHHHHHH----hCC-CeEEEEecC---------CHHHHHHHHHcCCccEEEecCccc--CCCcce-EEEeeeeeE
Confidence 445677777776 664 466666653 568899999999999998532211 112233 357788888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
+++++...+.. ....-+++||. +
T Consensus 169 ~~~~~~~~pl~-------------------------------------------------------~~~~~~~~~L~--~ 191 (309)
T PRK12682 169 AVIVPPDHPLA-------------------------------------------------------QEERITLEDLA--E 191 (309)
T ss_pred EEEecCCCccc-------------------------------------------------------cCCCcCHHHHh--c
Confidence 88888775421 11234788885 4
Q ss_pred CeE-EEecCch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc-
Q 037761 569 HFV-GFQSGSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP- 642 (753)
Q Consensus 569 ~~~-~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~- 642 (753)
.++ ....+.. ...++. ..+.........++....+.++..|. .-+++. ...... .. .+++..++.
T Consensus 192 ~~~i~~~~~~~~~~~~~~~~~-~~g~~~~~~~~~~~~~~~~~~v~~g~----Gi~~lp-~~~~~~-~~--~~~l~~~~~~ 262 (309)
T PRK12682 192 YPLITYHPGFTGRSRIDRAFA-AAGLQPDIVLEAIDSDVIKTYVRLGL----GVGIVA-EMAYRP-DR--DGDLVALPAG 262 (309)
T ss_pred CCceeeCCCccHHHHHHHHHH-HcCCCCcEEEEeCCHHHHHHHHHhCC----ceEEeh-hhhhhh-cc--CCcEEEeeCC
Confidence 433 3333322 233444 22333233345678888999999997 544443 333332 22 224554432
Q ss_pred -ccccCceEEEEcCCCCCchHhHHHHHHhhhcchHHHHHHHhhc
Q 037761 643 -IYRTDGLGFAFAKDSPLVSHFSQAILLVRENQTRMDRIEKKYF 685 (753)
Q Consensus 643 -~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~G~~~~~~~~~~~ 685 (753)
......+.++.+++......+...+..+.+.- -.++.++-.
T Consensus 263 ~~~~~~~~~l~~~~~~~~~~~~~~f~~~l~~~~--~~~~~~~~~ 304 (309)
T PRK12682 263 HLFGPNTAWVALKRGAYLRNYVYKFIELCAPHL--SRELIKRAV 304 (309)
T ss_pred CCCcceeEEEeeecCCcCCHHHHHHHHHHHHHc--CcHHHHHHh
Confidence 22334577888888776666666666554432 344444433
No 260
>cd08469 PBP2_PnbR The C-terminal substrate binding domain of LysR-type transcriptional regulator PnbR, which is involved in regulating the pnb genes encoding enzymes for 4-nitrobenzoate catabolism, contains the type 2 periplasmic binding fold. PnbR is the regulator of one or both of the two pnb genes that encoding enzymes for 4-nitrobenzoate catabolism. In Pseudomonas putida strain, pnbA encodes a 4-nitrobenzoate reductase, which is responsible for catalyzing the direct reduction of 4-nitrobenzoate to 4-hydroxylaminobenzoate, and pnbB encodes a 4-hydroxylaminobenzoate lyase, which catalyzes the conversion of 4-hydroxylaminobenzoate to 3, 4-dihydroxybenzoic acid and ammonium. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft bet
Probab=93.60 E-value=2.3 Score=41.13 Aligned_cols=70 Identities=13% Similarity=0.111 Sum_probs=46.6
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..+++..+.+ +.. ++++.+... +...+.+.|.+|++|+++.... .....+. ..+......+
T Consensus 14 ~l~~~l~~f~~----~~P-~v~l~i~~~---------~~~~~~~~l~~g~~Di~i~~~~---~~~~~l~-~~~l~~~~~~ 75 (221)
T cd08469 14 LLPALVRRLET----EAP-GIDLRIRPV---------TRLDLAEQLDLGRIDLVIGIFE---QIPPRFR-RRTLFDEDEV 75 (221)
T ss_pred HHHHHHHHHHH----HCC-CcEEEEeeC---------ChhhHHHHHHCCCccEEEecCC---CCCccce-eeeeeccceE
Confidence 34555555555 554 466666653 6678999999999999985322 1123333 4677888889
Q ss_pred EEEecccC
Q 037761 490 MLVPVKRD 497 (753)
Q Consensus 490 ~~v~~~~~ 497 (753)
++++...+
T Consensus 76 ~v~~~~~p 83 (221)
T cd08469 76 WVMRKDHP 83 (221)
T ss_pred EEEeCCCc
Confidence 99887654
No 261
>PF01634 HisG: ATP phosphoribosyltransferase; InterPro: IPR013820 ATP phosphoribosyltransferase (2.4.2.17 from EC) is the enzyme that catalyzes the first step in the biosynthesis of histidine in bacteria, fungi and plants as shown below. It is a member of the larger phosphoribosyltransferase superfamily of enzymes which catalyse the condensation of 5-phospho-alpha-D-ribose 1-diphosphate with nitrogenous bases in the presence of divalent metal ions []. ATP + 5-phospho-alpha-D-ribose 1-diphosphate = 1-(5-phospho-D-ribosyl)-ATP + diphosphate Histidine biosynthesis is an energetically expensive process and ATP phosphoribosyltransferase activity is subject to control at several levels. Transcriptional regulation is based primarily on nutrient conditions and determines the amount of enzyme present in the cell, while feedback inihibition rapidly modulates activity in response to cellular conditions. The enzyme has been shown to be inhibited by 1-(5-phospho-D-ribosyl)-ATP, histidine, ppGpp (a signal associated with adverse environmental conditions) and ADP and AMP (which reflect the overall energy status of the cell). As this pathway of histidine biosynthesis is present only in prokayrotes, plants and fungi, this enzyme is a promising target for the development of novel antimicrobial compounds and herbicides. ATP phosphoribosyltransferase is found in two distinct forms: a long form containing two catalytic domains and a C-terminal regulatory domain, and a short form in which the regulatory domain is missing. The long form is catalytically competent, but in organisms with the short form, a histidyl-tRNA synthetase paralogue, HisZ, is required for enzyme activity []. This entry represents the catalytic region of this enzyme. The structures of the long form enzymes from Escherichia coli (P60757 from SWISSPROT) and Mycobacterium tuberculosis (P60759 from SWISSPROT) have been determined [, ]. The enzyme itself exists in equilibrium between an active dimeric form, an inactive hexameric form and higher aggregates. Interconversion between the various forms is largely reversible and is influenced by the binding of the natural substrates and inhibitors of the enzyme. The two catalytic domains are linked by a two-stranded beta-sheet and togther form a "periplasmic binding protein fold". A crevice between these domains contains the active site. The C-terminal domain is not directly involved in catalysis but appears to be involved the formation of hexamers, induced by the binding of inhibitors such as histidine to the enzyme, thus regulating activity.; GO: 0003879 ATP phosphoribosyltransferase activity, 0000105 histidine biosynthetic process, 0005737 cytoplasm; PDB: 1VE4_A 2VD3_B 1NH7_A 1NH8_A 1Z7N_G 1Z7M_E 1O64_A 1O63_A 1USY_F 1Q1K_A ....
Probab=93.55 E-value=0.3 Score=44.71 Aligned_cols=151 Identities=11% Similarity=0.090 Sum_probs=99.0
Q ss_pred HHHHHHHHcCcccEEEeeeeeecccc----eeee-ccccccccceEEEEecccCCCCceeEEEecCccccceeeccccch
Q 037761 449 DELLYQIKLKKFDAVVGDISIVASRT----DYVE-FTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCS 523 (753)
Q Consensus 449 ~~~~~~l~~~~~Di~~~~~~~t~~r~----~~~~-fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~ 523 (753)
.++-..+..|.+|+++.+.-.-.|.. .... .-.+|....+++.+|....
T Consensus 4 ~DIp~yV~~G~~DlGI~G~D~l~E~~~~~~~v~~~~dL~fg~crl~vAvp~~~~-------------------------- 57 (163)
T PF01634_consen 4 QDIPTYVEDGIADLGITGKDVLLESGLGRADVEELLDLGFGKCRLVVAVPEDWP-------------------------- 57 (163)
T ss_dssp GHHHHHHHTTSSSEEEEEHHHHHHHTHH-SSEEEEEEESCSEEEEEEEEETTSC--------------------------
T ss_pred HHHHHHHHCCCCcEEEeehheeccCCCCccceEEEeecccccEEEEEEEECCcC--------------------------
Confidence 46677899999999998875433322 2222 2335666666777776532
Q ss_pred hhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecCCCHHHH
Q 037761 524 KFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEY 603 (753)
Q Consensus 524 R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 603 (753)
+++++||. .+++++.........||.+ .-.+.++......-|.
T Consensus 58 ----------------------------------~~~~~~l~-~~~rIATkyp~l~~~yf~~--~g~~~~ii~l~GsvE~ 100 (163)
T PF01634_consen 58 ----------------------------------YKSVEDLK-AGLRIATKYPNLTRRYFAE--KGINVEIIKLSGSVEL 100 (163)
T ss_dssp ----------------------------------GCCGGGGS-STEEEEES-HHHHHHHHHH--CT-EEEEEE-SS-TTH
T ss_pred ----------------------------------CCCHHHhc-cCCEEEECCHHHHHHHHHH--cCCcEEEEEccCCccc
Confidence 78999994 2889999888889999995 3334566665555554
Q ss_pred HHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCcccccCceEEEEcCCCC--CchHhHHHHHHhhh
Q 037761 604 KEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTDGLGFAFAKDSP--LVSHFSQAILLVRE 672 (753)
Q Consensus 604 ~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~--l~~~~n~~i~~l~~ 672 (753)
. ...|- .|++++-..+...+-++ +|++++ .+......+...|.+. -.+.++..+.+|++
T Consensus 101 a--p~~gl----AD~IvDiv~TG~TLr~N---gL~~i~-~i~~s~a~LI~n~~~~~~k~~~i~~l~~~l~~ 161 (163)
T PF01634_consen 101 A--PPLGL----ADAIVDIVETGTTLRAN---GLKEIE-TILESSARLIANKASLKEKEEKIDELVTRLRG 161 (163)
T ss_dssp H--HHTTS----SSEEEEEESSSHHHHHT---TEEEEE-EEEEEEEEEEEEHHHHHHCHHHHHHHHHHHHH
T ss_pred c--CCCCC----CCEEEEeccCcHHHHHC---CCEEeE-EEEEEEEEEEEcCccchhhHHHHHHHHHHHHh
Confidence 4 34566 89999888887766666 677774 4444566677776654 44557777776653
No 262
>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=93.54 E-value=0.3 Score=50.09 Aligned_cols=196 Identities=19% Similarity=0.188 Sum_probs=108.3
Q ss_pred HHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeee-ccccccccceEEEEec
Q 037761 416 NATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVE-FTLPYSESGVTMLVPV 494 (753)
Q Consensus 416 ~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~-fs~p~~~~~~~~~v~~ 494 (753)
+.+++.++++.|-++++++.+.+. -+...+++++|++|.+||+.........+...+. +..|++.....-+...
T Consensus 16 ~~fa~~v~e~t~G~v~i~v~~~g~-----lg~~~e~~~~v~~G~vdm~~~~~~~~~~~~p~~~~~~lP~~~~~~~~~~~~ 90 (286)
T PF03480_consen 16 EKFAEEVEERTGGRVKIEVFPAGQ-----LGKEAEVLEAVQDGAVDMAVVSPSYLAGFVPEFGVFDLPFLFRDYEELDRV 90 (286)
T ss_dssp HHHHHHHHHHTTTSEEEEEEETTS-----SSSHHHHHHHHHTTSSSEEEEEGGGGTTTSGGGGGGGSTTTSSSHHHHHHH
T ss_pred HHHHHHHHHHcCCeEEEEEecCcc-----cCCHHHHHHHHhCCCccEEeecchhhhhhchhheeeeCCCCCCCHHHHHHH
Confidence 555555555999888888877421 1367899999999999999765544444333322 3446554321100000
Q ss_pred ccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEe
Q 037761 495 KRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQ 574 (753)
Q Consensus 495 ~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~ 574 (753)
.. +...+.+.--.---.+.+...|......+.+ ...+|++++|| +|+++-+.
T Consensus 91 ~~-----------------------~~~~~~l~~~~~~~g~~~L~~~~~g~~~~~~---~~~pi~s~~Dl--kG~kiR~~ 142 (286)
T PF03480_consen 91 MD-----------------------SGYGPELREELEEKGIKLLGWFPGGPRQFFS---TKKPIRSPEDL--KGLKIRVP 142 (286)
T ss_dssp HH-----------------------SHHHHHHHHHHHHTTEEEEEEEEEEEEEEEE---SSS--SSGGGG--TTEEEEET
T ss_pred Hh-----------------------CcHHHHHHHHHHhhceEEEEEecCCceEEEe---cccCCccHhhH--hhCeEEec
Confidence 00 0000111110001122223345555555555 23569999999 69999887
Q ss_pred cCchHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcC--CCCcEEeCcccccCceEEE
Q 037761 575 SGSFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKY--SSKYTTAGPIYRTDGLGFA 652 (753)
Q Consensus 575 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~~~~ 652 (753)
.+......++ ..+ ...+.. ...|...+|..|. +|+.......... .+-+ . +...... ....+..++
T Consensus 143 ~~~~~~~~~~-~lG---a~pv~i-p~~evy~aLq~G~----vDg~~~~~~~~~~-~~~~ev~-~y~~~~~-~~~~~~~~~ 210 (286)
T PF03480_consen 143 GSPVMSDFFE-ALG---ASPVPI-PWSEVYQALQQGV----VDGAENSASSIYS-LGLYEVA-KYFTDTN-HGWSPYAVI 210 (286)
T ss_dssp SSHHHHHHHH-HCT---SEEEE--TGGGHHHHHHTTS----SSEEEEEHHHHHH-TTGGGTS-SEEEEEE-EEEEEEEEE
T ss_pred CCHHHHHHHH-HcC---CeeecC-cHHHHHHHHhcCC----cCeEecCHHHHHh-cChhhhC-CeeEeec-ccCcceEEE
Confidence 6666777777 232 233333 4568999999999 9999988776632 2222 3 3322222 334456666
Q ss_pred EcCC
Q 037761 653 FAKD 656 (753)
Q Consensus 653 ~~k~ 656 (753)
+.+.
T Consensus 211 ~n~~ 214 (286)
T PF03480_consen 211 MNKD 214 (286)
T ss_dssp EEHH
T ss_pred EcHH
Confidence 6654
No 263
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=93.44 E-value=4.8 Score=41.66 Aligned_cols=182 Identities=12% Similarity=0.064 Sum_probs=102.9
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..+++..+.+ +.. ++++.+... ....++..|.+|++|+++..-.........+ ...++....++
T Consensus 109 ~~~~~l~~~~~----~~P-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~-~~~~l~~~~~~ 173 (305)
T CHL00180 109 LMPRLIGLFRQ----RYP-QINVQLQVH---------STRRIAWNVANGQIDIAIVGGEVPTELKKIL-EITPYVEDELA 173 (305)
T ss_pred HHHHHHHHHHH----HCC-CceEEEEeC---------CHHHHHHHHHcCCccEEEEcCccCcccccce-eEEEeccCcEE
Confidence 34566666666 653 366666653 6788999999999999985322111111122 24677888899
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
++++...+.. ....-+++||. +.
T Consensus 174 ~v~~~~~pl~-------------------------------------------------------~~~~i~~~dL~--~~ 196 (305)
T CHL00180 174 LIIPKSHPFA-------------------------------------------------------KLKKIQKEDLY--RL 196 (305)
T ss_pred EEECCCCccc-------------------------------------------------------cCCccCHHHHc--cC
Confidence 9998775432 11234788984 44
Q ss_pred eEEE-ecCchH----HHHHHHhhCCCCC---ceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC
Q 037761 570 FVGF-QSGSFV----EDFLVKQLNFSRN---QTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG 641 (753)
Q Consensus 570 ~~~~-~~~~~~----~~~~~~~~~~~~~---~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~ 641 (753)
++.. ..+... ..++.+ .+.... .....++.......+..|. ..+++... ......+. .++..+.
T Consensus 197 ~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~v~~g~----g~~~lp~~-~~~~~~~~--~~l~~~~ 268 (305)
T CHL00180 197 NFITLDSNSTIRKVIDNILIQ-NGIDSKRFKIEMELNSIEAIKNAVQSGL----GAAFVSVS-AIEKELEL--GLLHWIK 268 (305)
T ss_pred CceEecCCCcHHHHHHHHHHH-cCCCcccceEEEEeCCHHHHHHHHHcCC----cEEEeEhH-HHHHHhhc--CcEEEEE
Confidence 4443 333322 233442 222211 2344678888899998887 55555543 22222222 2444333
Q ss_pred --cccccCceEEEEcCCCCCchHhHHHHHHhh
Q 037761 642 --PIYRTDGLGFAFAKDSPLVSHFSQAILLVR 671 (753)
Q Consensus 642 --~~~~~~~~~~~~~k~s~l~~~~n~~i~~l~ 671 (753)
.......+.++.+++.++.......+..++
T Consensus 269 ~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~ 300 (305)
T CHL00180 269 IENITIKRMLSIITNPNRYKSKASETFYNEIL 300 (305)
T ss_pred cCCCCceEEEEEEEeCCCccCHHHHHHHHHHH
Confidence 222334677788888776666666665544
No 264
>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=93.43 E-value=1.5 Score=41.72 Aligned_cols=169 Identities=9% Similarity=0.037 Sum_probs=93.6
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ +.- .+++.+... +. .+++.|.+|++|+++..... ....+. ..++....+
T Consensus 13 ~~l~~~l~~~~~----~~P-~v~v~l~~~---------~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~ 73 (200)
T cd08460 13 AFGPALLAAVAA----EAP-GVRLRFVPE---------SD-KDVDALREGRIDLEIGVLGP---TGPEIR-VQTLFRDRF 73 (200)
T ss_pred HHHHHHHHHHHH----HCC-CCEEEEecC---------ch-hHHHHHHCCCccEEEecCCC---CCcchh-eeeeeccce
Confidence 455666666666 653 466666543 45 78899999999999853222 112233 467788888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
+++++...+.. ...+ +++||.+..
T Consensus 74 ~~v~~~~hpl~-------------------------------------------------------~~~~-~l~dl~~~~ 97 (200)
T cd08460 74 VGVVRAGHPLA-------------------------------------------------------RGPI-TPERYAAAP 97 (200)
T ss_pred EEEEeCCCCCC-------------------------------------------------------CCCC-CHHHHhcCC
Confidence 99998776532 1123 899996322
Q ss_pred CeEEEecCc----hHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc--
Q 037761 569 HFVGFQSGS----FVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP-- 642 (753)
Q Consensus 569 ~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~-- 642 (753)
-+....+. ..+.++.+ .+.........++......++..|. .-+++ .........+. .++..+.-
T Consensus 98 -~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~l-p~~~~~~~~~~--~~l~~~~~~~ 168 (200)
T cd08460 98 -HVSVSRRGRLHGPIDDALAA-LGLTRRVVAVVPTFAAALFLARGSD----LIALV-PERVTAAARAG--LGLRTFPLPL 168 (200)
T ss_pred -CEEEecCCCCcchHHHHHHh-cCCceeEEEEcCcHHHHHHHHhcCC----HHHHH-HHHHHHHHhhc--CCceEECCCC
Confidence 23333333 24455552 2332233345678888899998886 43333 33322222211 13443322
Q ss_pred ccccCceEEEEcCCCCCch
Q 037761 643 IYRTDGLGFAFAKDSPLVS 661 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~ 661 (753)
......++++.+++.....
T Consensus 169 ~~~~~~i~l~~~~~~~~~~ 187 (200)
T cd08460 169 ELPAVTVSQAWHPRFDADP 187 (200)
T ss_pred CCCCeeeEEeEcCccccCh
Confidence 2334467777766544333
No 265
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=93.35 E-value=5.9 Score=41.53 Aligned_cols=170 Identities=8% Similarity=0.039 Sum_probs=98.2
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCC-CcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIP-AAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAI 86 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s-~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~ 86 (753)
.+.++..-.+....++++ +|+++|=.... .........+...++|+|...... .+. +....+.+++...+..+
T Consensus 63 ~~~~~~~~~~~i~~l~~~-~vDGiIi~~~~~~~~~~~l~~~~~~~iPvV~id~~~---~~~--~~~~~V~~D~~~~g~~a 136 (330)
T PRK10355 63 ANGNEETQMSQIENMINR-GVDVLVIIPYNGQVLSNVIKEAKQEGIKVLAYDRMI---NNA--DIDFYISFDNEKVGELQ 136 (330)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEeCCChhhHHHHHHHHHHCCCeEEEECCCC---CCC--CccEEEecCHHHHHHHH
Confidence 345666666667777765 88887643222 222344455678899999985422 111 12235788888899999
Q ss_pred HHHHHHcCCeEEEEEEee---CCcccchHHHHHHHHHhC---C-eEEEEeeccCCCCchhhHHHHHHHHh-c--CCccEE
Q 037761 87 SAVLQNFSWHEVVLMYED---TNYGAGFISFLVDELQEN---D-IRISHMSKIPTSAEDFQISKELSKLS-T--MQTRVF 156 (753)
Q Consensus 87 ~~~l~~~~w~~vail~~d---~~~g~~~~~~~~~~~~~~---g-~~v~~~~~~~~~~~~~d~~~~l~~l~-~--~~~~vI 156 (753)
+++|...|-++++++... ...+....+.+++.+++. | +.+....... ..+..+-...+.++. + ..+++|
T Consensus 137 ~~~L~~~g~~~i~~i~~g~~~~~~~~~R~~gf~~~l~~~~~~~~i~~~~~~~~~-~~~~~~~~~~~~~lL~~~~~~~~aI 215 (330)
T PRK10355 137 AKALVDKVPQGNYFLMGGSPVDNNAKLFRAGQMKVLKPYIDSGKIKVVGDQWVD-GWLPENALKIMENALTANNNKIDAV 215 (330)
T ss_pred HHHHHHhcCCCCEEEEeCCCCCccHHHHHHHHHHHHhhhccCCCeEEecccCCC-CCCHHHHHHHHHHHHHhCCCCccEE
Confidence 999977787887665432 223345567788888763 4 4442221111 111222233444443 2 236755
Q ss_pred EEEeChHHHHHHHHHHHHcCCCCCCEEEEEc
Q 037761 157 IVHMNTALASRLFALVAKNGMMSKGYTWIVT 187 (753)
Q Consensus 157 i~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~ 187 (753)
+.. +...+..+++.++++|+. +.+.|.+
T Consensus 216 ~~~-nD~~A~g~l~al~~~g~~--~di~IiG 243 (330)
T PRK10355 216 VAS-NDATAGGAIQALSAQGLS--GKVAISG 243 (330)
T ss_pred EEC-CCchHHHHHHHHHHCCCC--CCceEEc
Confidence 544 444566788899999974 3444554
No 266
>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=93.33 E-value=3.1 Score=39.36 Aligned_cols=176 Identities=13% Similarity=0.048 Sum_probs=99.6
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+...++..+.+ +.- .+++.+... ....+++.|.+|++|+++...... ....+. +.+......
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~v~~~~~---------~~~~~~~~l~~g~~D~~i~~~~~~--~~~~~~-~~~l~~~~~ 75 (198)
T cd08413 13 YVLPPVIAAFRK----RYP-KVKLSLHQG---------TPSQIAEMVLKGEADIAIATEALD--DHPDLV-TLPCYRWNH 75 (198)
T ss_pred hhccHHHHHHHH----hCC-ceEEEEEeC---------CHHHHHHHHHcCCCCEEEEccCCC--CCCCcE-EEEeeeeeE
Confidence 445677777777 664 467777653 678899999999999998532221 112233 466778888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
++++++..+.. ....-+++||. +
T Consensus 76 ~~v~~~~hpl~-------------------------------------------------------~~~~i~~~~l~--~ 98 (198)
T cd08413 76 CVIVPPGHPLA-------------------------------------------------------DLGPLTLEDLA--Q 98 (198)
T ss_pred EEEecCCCccc-------------------------------------------------------ccCCCCHHHHh--c
Confidence 88888775422 01234788985 4
Q ss_pred CeEEEe-cCch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC--
Q 037761 569 HFVGFQ-SGSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG-- 641 (753)
Q Consensus 569 ~~~~~~-~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~-- 641 (753)
.++... .+.. .+.++.+ .+.........++.......+.+|. .-+++... ..... +. +++..+.
T Consensus 99 ~~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----Gi~~lp~~-~~~~~-~~--~~l~~~~~~ 169 (198)
T cd08413 99 YPLITYDFGFTGRSSIDRAFAR-AGLEPNIVLTALDADVIKTYVRLGL----GVGIIAEM-AYDPQ-RD--ADLVALDAG 169 (198)
T ss_pred CCEEECCCCccHHHHHHHHHHH-cCCCcceEEEeCCHHHHHHHHHhCC----CEEEcccc-ccCcc-cc--CcEEEeecC
Confidence 444332 2222 2233432 2222223344678888899999997 55555443 22222 21 2444432
Q ss_pred cccccCceEEEEcCCCCCchHhHHHH
Q 037761 642 PIYRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 642 ~~~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
+......+.++.+++..+.......+
T Consensus 170 ~~~~~~~~~l~~~~~~~~~~~~~~f~ 195 (198)
T cd08413 170 HLFGPNTTRIALRRGTYLRSYAYDFI 195 (198)
T ss_pred CcCcceeEEEEEeehhhhhHHHHHHH
Confidence 22223456666677665555555444
No 267
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=93.30 E-value=4 Score=42.48 Aligned_cols=194 Identities=8% Similarity=0.014 Sum_probs=114.4
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ +.. ++++.+... +...++..|.+|++|+++..-.... ...+. +.++.....
T Consensus 106 ~~l~~~l~~~~~----~~p-~i~l~~~~~---------~~~~~~~~L~~g~~D~~i~~~~~~~--~~~l~-~~~l~~~~~ 168 (313)
T PRK12684 106 YALPAAIKEFKK----RYP-KVRLSILQG---------SPTQIAEMVLHGQADLAIATEAIAD--YKELV-SLPCYQWNH 168 (313)
T ss_pred HHhHHHHHHHHH----HCC-CceEEEEeC---------ChHHHHHHHHCCCcCEEEeecCCCC--CCCce-EEEeccceE
Confidence 344677777766 553 466666653 6789999999999999985321111 11222 467777888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
+++++...+.. ....-+++||. +
T Consensus 169 ~~v~~~~~pl~-------------------------------------------------------~~~~i~~~dL~--~ 191 (313)
T PRK12684 169 CVVVPPDHPLL-------------------------------------------------------ERKPLTLEDLA--Q 191 (313)
T ss_pred EEEeCCCCccc-------------------------------------------------------cCCCcCHHHHh--c
Confidence 88888765421 11134788885 4
Q ss_pred Ce-EEEecCchH----HHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc-
Q 037761 569 HF-VGFQSGSFV----EDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP- 642 (753)
Q Consensus 569 ~~-~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~- 642 (753)
.+ +....++.. ..++. ..+.........++......++..|. .-+++.. ....... ..++..++.
T Consensus 192 ~~~i~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~v~~g~----Gv~~lp~-~~~~~~~---~~~l~~~~i~ 262 (313)
T PRK12684 192 YPLITYDFAFAGRSKINKAFA-LRGLKPDIVLEAIDADVIKTYVELGL----GVGIVAD-MAFDPER---DRNLRAIDAG 262 (313)
T ss_pred CCcEecCCCCcHHHHHHHHHH-HcCCCCCeEEEeCCHHHHHHHHHhCC----ceEEeeh-hhccccc---cCCeEEEECC
Confidence 33 333333322 33443 22333333455678888899999987 5555543 3222221 124544432
Q ss_pred -ccccCceEEEEcCCCCCchHhHHHHHHhhhcchHHHHHHHhhcCC
Q 037761 643 -IYRTDGLGFAFAKDSPLVSHFSQAILLVRENQTRMDRIEKKYFGE 687 (753)
Q Consensus 643 -~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~G~~~~~~~~~~~~~ 687 (753)
......++++.+++.++...+...+..+.+. +..++.++-++.
T Consensus 263 ~~~~~~~~~l~~~~~~~~~~~~~~f~~~l~~~--~~~~~~~~~~~~ 306 (313)
T PRK12684 263 HLFGSSTTRLGLRRGAYLRGYVYTFIELFAPT--LNRKLVEQALKG 306 (313)
T ss_pred CCCcceeEEEEEECCCcCCHHHHHHHHHHHHH--hCHHHHHHHhcc
Confidence 2233467888999988888888777776654 466666665543
No 268
>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=93.26 E-value=3.2 Score=39.12 Aligned_cols=177 Identities=12% Similarity=0.069 Sum_probs=99.1
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
++..+++..+.+ +.- ++++.+... +...++..|.+|++|+++..... ....+. +.+......
T Consensus 13 ~~l~~~l~~f~~----~~P-~v~i~i~~~---------~~~~~~~~l~~~~~Di~i~~~~~---~~~~~~-~~~l~~~~~ 74 (198)
T cd08461 13 AILPPLLAALRQ----EAP-GVRVAIRDL---------ESDNLEAQLERGEVDLALTTPEY---APDGLR-SRPLFEERY 74 (198)
T ss_pred HHhHHHHHHHHH----HCC-CcEEEEeeC---------CcccHHHHHhcCCCcEEEecCcc---CCccce-eeeeecCcE
Confidence 344666666666 654 466666543 45678999999999999853221 112232 567778888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
+++++...+.. . ...+++||....
T Consensus 75 ~lv~~~~~p~~-------------------------------------------------------~-~~~~~~~L~~~~ 98 (198)
T cd08461 75 VCVTRRGHPLL-------------------------------------------------------Q-GPLSLDQFCALD 98 (198)
T ss_pred EEEEcCCChhh-------------------------------------------------------c-CCCCHHHHhhCC
Confidence 88888765321 1 235788996332
Q ss_pred CeEEEec-C----chHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc-
Q 037761 569 HFVGFQS-G----SFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP- 642 (753)
Q Consensus 569 ~~~~~~~-~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~- 642 (753)
. +.... + .....++.+ .+.........++....+..+..|. .-+++.. ...... .++..+..
T Consensus 99 ~-i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----Gi~~lp~-~~~~~~-----~~l~~~~~~ 166 (198)
T cd08461 99 H-IVVSPSGGGFAGSTDEALAA-LGLTRNVVLSVPSFLVVPEILAATD----MVAFVPS-RLVPNL-----EGLQEVELP 166 (198)
T ss_pred c-EEEecCCCCCCCHHHHHHHH-cCCCCcEEEEcCchhhHHHHHhcCC----eEEEchH-HHHHhh-----cCceeecCC
Confidence 2 22222 2 234555553 2222222334677788888898886 5554443 333222 13444332
Q ss_pred -ccccCceEEEEcCCCCCchHhHHHHHHhh
Q 037761 643 -IYRTDGLGFAFAKDSPLVSHFSQAILLVR 671 (753)
Q Consensus 643 -~~~~~~~~~~~~k~s~l~~~~n~~i~~l~ 671 (753)
......+.++.+++.+....+...+..++
T Consensus 167 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 (198)
T cd08461 167 LEPPGFDVVMAWHERTHRDPAHRWLRELLA 196 (198)
T ss_pred CCCCCccEEEecChhhcCCHHHHHHHHHHh
Confidence 22334677777777665555555554444
No 269
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=93.23 E-value=0.68 Score=47.22 Aligned_cols=143 Identities=16% Similarity=0.168 Sum_probs=83.3
Q ss_pred CcceeeeeehHHHHHHHHHHHH-hcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeee----------ec
Q 037761 403 NKTTYTGFCMEIFNATLEIVEE-KLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISI----------VA 471 (753)
Q Consensus 403 ~~~~~~G~~~dll~~ia~~~~~-~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~----------t~ 471 (753)
++|...|.-.-+...|++.+.+ ..| +++..++. +-.-.-++.+.+||+|+++...-+ -+
T Consensus 31 gTG~~~G~YY~ig~~ia~~~~~~~~~--i~~~v~~t--------ggSv~Nl~~i~~Ge~d~alvq~d~a~~ay~G~g~f~ 100 (321)
T COG2358 31 GTGSTGGVYYPIGGGLAQLLNKDEKG--IECSVVPT--------GGSVENLKLLASGEADLALVQSDVAYEAYNGTGSFE 100 (321)
T ss_pred eecCCCceeeehHHHHHHHHhccCCC--eEEEEeec--------cchHHHHHhHhcCccchhhhhHHHHHHHHhCccccc
Confidence 4444556666666677775554 344 55555554 234455779999999998632111 11
Q ss_pred c--cceeeeccccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeE
Q 037761 472 S--RTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSIL 549 (753)
Q Consensus 472 ~--r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~l 549 (753)
. ..+.+..--+++.....+++++...
T Consensus 101 ~~~~~~~lr~v~~lype~~~vv~r~d~~---------------------------------------------------- 128 (321)
T COG2358 101 GKGKDENLRAVAALYPEPFHVVTRKDAG---------------------------------------------------- 128 (321)
T ss_pred ccccccchhhheecccceEEEEEecCCC----------------------------------------------------
Confidence 1 1113333445666777777776653
Q ss_pred EeeccCCCcCChhHhhhcCCeEEEec-CchHHHHHH---HhhCCCCCceec--CCCHHHHHHHHhcCCCCCCeeEEEe
Q 037761 550 TVDQLEPTFADLKKLRTESHFVGFQS-GSFVEDFLV---KQLNFSRNQTRP--LSNFGEYKEALSNGSRKGGVSAIFE 621 (753)
Q Consensus 550 t~~~~~~~i~s~~dL~~~~~~~~~~~-~~~~~~~~~---~~~~~~~~~~~~--~~~~~~~~~~l~~g~~~~~~~a~~~ 621 (753)
|+|+.|| .|||+.+.. +|-.+...+ +..++....... .-...+..+++++|. +||++.
T Consensus 129 --------Ikti~DL--~GKrV~iG~~gSgt~~~a~~il~a~Gi~~~~~~~~~~~~~a~~~~~l~~g~----iDA~~~ 192 (321)
T COG2358 129 --------IKTIADL--KGKRVAIGPPGSGTEATARQILEALGITYDDYELDLGLGDAESADALKNGT----IDAAFY 192 (321)
T ss_pred --------cceehhc--CCCEEeecCCCCccHHHHHHHHHHcCCCCcchhhhhhcCchhhHHHhhCCc----ccEEEE
Confidence 9999999 699998853 333332222 133333322222 223445688999999 998874
No 270
>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=93.19 E-value=3.6 Score=39.05 Aligned_cols=71 Identities=15% Similarity=0.149 Sum_probs=47.0
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ +.- ++++.+... ....+++.|.+|++|+++..... . ...+. ..+.....+
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~l~~~~~---------~~~~~~~~l~~g~~D~~i~~~~~--~-~~~~~-~~~l~~~~~ 74 (200)
T cd08467 13 ALLPRLAPRLRE----RAP-GLDLRLCPI---------GDDLAERGLEQGTIDLAVGRFAV--P-PDGLV-VRRLYDDGF 74 (200)
T ss_pred HHHHHHHHHHHh----hCC-CCEEEEecC---------CcccHHHHhhCCCcCEEEecCCC--C-Cccce-eEEeeeccE
Confidence 445666666666 654 467777653 56789999999999999843211 1 12233 356778888
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
++++++..+
T Consensus 75 ~~v~~~~h~ 83 (200)
T cd08467 75 ACLVRHGHP 83 (200)
T ss_pred EEEEcCCCc
Confidence 888887654
No 271
>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=93.16 E-value=5.4 Score=37.36 Aligned_cols=176 Identities=14% Similarity=0.095 Sum_probs=96.9
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ +.. ++++.+... +...++.+|.+|++|+++...... ...+. +.+.....+
T Consensus 13 ~~l~~~l~~~~~----~~P-~~~l~~~~~---------~~~~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~ 74 (201)
T cd08420 13 YLLPRLLARFRK----RYP-EVRVSLTIG---------NTEEIAERVLDGEIDLGLVEGPVD---HPDLI-VEPFAEDEL 74 (201)
T ss_pred hhhHHHHHHHHH----HCC-CceEEEEeC---------CcHHHHHHHHCCCccEEEecCCCC---CcceE-EEeecCccE
Confidence 344566666666 653 456666653 567889999999999998543222 22232 356777888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
.+++++..+.. ....-+++||. +
T Consensus 75 ~~v~~~~~~~~-------------------------------------------------------~~~~i~~~~l~--~ 97 (201)
T cd08420 75 VLVVPPDHPLA-------------------------------------------------------GRKEVTAEELA--A 97 (201)
T ss_pred EEEecCCCCcc-------------------------------------------------------ccCccCHHHHh--c
Confidence 88888665421 01134688884 5
Q ss_pred CeEEEe-cCch----HHHHHHHhhCCCC---CceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEe
Q 037761 569 HFVGFQ-SGSF----VEDFLVKQLNFSR---NQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTA 640 (753)
Q Consensus 569 ~~~~~~-~~~~----~~~~~~~~~~~~~---~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~ 640 (753)
.++... .+.. ...++.+ .+... ......++.......+..|. .-+++.. ..+...... .++..+
T Consensus 98 ~~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p~-~~~~~~~~~--~~l~~~ 169 (201)
T cd08420 98 EPWILREPGSGTREVFERALAE-AGLDGLDLNIVMELGSTEAIKEAVEAGL----GISILSR-LAVRKELEL--GRLVAL 169 (201)
T ss_pred CCEEEecCCCCHHHHHHHHHHH-cCcccccCceEEEECCHHHHHHHHHcCC----CEEEeeH-HHHHhhhcC--CceEEE
Confidence 544443 3332 2334432 11111 12345678888899999887 5555544 323222222 245544
Q ss_pred Ccc--cccCceEEEEcCCCCCchHhHHHH
Q 037761 641 GPI--YRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 641 ~~~--~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
+.. .....++++.+++...-..+...+
T Consensus 170 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 198 (201)
T cd08420 170 PVEGLRLTRPFSLIYHKDKYLSPAAEAFL 198 (201)
T ss_pred ECCCCcceEEEEEEEecCCcCCHHHHHHH
Confidence 332 223456677777665444444433
No 272
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=93.05 E-value=2.9 Score=39.64 Aligned_cols=106 Identities=15% Similarity=0.134 Sum_probs=66.0
Q ss_pred CcCChhHhhhcCCeEE-EecCchHHHHHHH---hhCCCCCceecCC----CHHHHHHHHhcCCCCCCeeEEEeccccHHH
Q 037761 557 TFADLKKLRTESHFVG-FQSGSFVEDFLVK---QLNFSRNQTRPLS----NFGEYKEALSNGSRKGGVSAIFEEIPYIKV 628 (753)
Q Consensus 557 ~i~s~~dL~~~~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~~~~----~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~ 628 (753)
.|++++||.+.+.++- =.+|+-....+.+ +.+.....+.-|. +....-.++.+|+ .|+-++ +++
T Consensus 88 ~i~~~edl~~~d~~fVNR~rGSGTR~LlD~~L~~~~~~~~~I~GY~~e~~th~avA~aVa~G~----AD~GvG----lr~ 159 (223)
T COG1910 88 NISSLEDLLRKDLRFVNRNRGSGTRILLDELLGELNILPDSIKGYSDEATTHDAVASAVASGR----ADAGVG----LRH 159 (223)
T ss_pred ccccHHHHhhcCcEEEecCCCccHHHHHHHHHHHcCcCchhcCCccccccccHHHHHHHHcCC----CCcccc----HHH
Confidence 4999999985554432 1355555544443 2233334444443 3345567889999 999998 444
Q ss_pred HHhcCCCCcEEeCcccccCceEEEEcCCCCCchHhHHHHHHhhhcc
Q 037761 629 FLKKYSSKYTTAGPIYRTDGLGFAFAKDSPLVSHFSQAILLVRENQ 674 (753)
Q Consensus 629 ~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~G 674 (753)
...++. |..+ ++..+.|-++++|+.-=++.+...+..|...+
T Consensus 160 ~A~~~g--L~Fi--pl~~E~YD~virke~~~~~~vr~fi~~L~s~~ 201 (223)
T COG1910 160 AAEKYG--LDFI--PLGDEEYDFVIRKERLDKPVVRAFIKALKSEG 201 (223)
T ss_pred HHHHcC--CceE--EcccceEEEEEehhHccCHHHHHHHHHhcccc
Confidence 444542 3222 34556788999998777777777777777766
No 273
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=92.93 E-value=2.1 Score=40.84 Aligned_cols=89 Identities=16% Similarity=0.134 Sum_probs=65.1
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhc-cCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 10 FKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGE-KAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~-~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
.++...+..+-+-+++-++.+++=|..+ +..+++-.. ..++|+|+ ..++.++
T Consensus 58 ~~~~~~L~~~a~~Le~~GAd~i~l~~NT--~H~~~d~iq~~~~iPllh-------------------------IidaTa~ 110 (230)
T COG1794 58 DEAGEILIDAAKKLERAGADFIVLPTNT--MHKVADDIQKAVGIPLLH-------------------------IIDATAK 110 (230)
T ss_pred ccHHHHHHHHHHHHHhcCCCEEEEeCCc--HHHHHHHHHHhcCCCeeh-------------------------HHHHHHH
Confidence 4566667666666777799998875544 666666544 78899987 4577788
Q ss_pred HHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEE
Q 037761 89 VLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISH 128 (753)
Q Consensus 89 ~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~ 128 (753)
-+++.|.+||+++.+...- .....++.++++|++++.
T Consensus 111 ~ik~~g~kkvgLLgT~~Tm---~~~fY~~~l~~~gievvv 147 (230)
T COG1794 111 AIKAAGAKKVGLLGTRFTM---EQGFYRKRLEEKGIEVVV 147 (230)
T ss_pred HHHhcCCceeEEeeccchH---HhHHHHHHHHHCCceEec
Confidence 8888899999999975442 345677889999988753
No 274
>cd08414 PBP2_LTTR_aromatics_like The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold. This CD includes the C-terminal substrate binding domain of LTTRs involved in degradation of aromatic compounds, such as CbnR, BenM, CatM, ClcR and TfdR, as well as that of other transcriptional regulators clustered together in phylogenetic trees, including XapR, HcaR, MprR, IlvR, BudR, AlsR, LysR, and OccR. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they ca
Probab=92.90 E-value=6.9 Score=36.56 Aligned_cols=69 Identities=10% Similarity=0.085 Sum_probs=45.2
Q ss_pred ehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceEE
Q 037761 411 CMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTM 490 (753)
Q Consensus 411 ~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 490 (753)
...++..+.+ ... ++++.+... +...+...|.+|++|+++...... ...+. ..+......++
T Consensus 15 l~~~l~~~~~----~~p-~i~i~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~ 76 (197)
T cd08414 15 LPRLLRRFRA----RYP-DVELELREM---------TTAEQLEALRAGRLDVGFVRPPPD---PPGLA-SRPLLREPLVV 76 (197)
T ss_pred HHHHHHHHHH----HCC-CcEEEEecC---------ChHHHHHHHHcCCccEEEEcCCCC---CCCee-EEEEeeccEEE
Confidence 3455555555 653 466666653 568899999999999998532221 22232 35677888888
Q ss_pred EEecccC
Q 037761 491 LVPVKRD 497 (753)
Q Consensus 491 ~v~~~~~ 497 (753)
++++..+
T Consensus 77 v~~~~~~ 83 (197)
T cd08414 77 ALPADHP 83 (197)
T ss_pred EecCCCc
Confidence 8887654
No 275
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=92.89 E-value=2.1 Score=44.83 Aligned_cols=151 Identities=9% Similarity=-0.019 Sum_probs=87.0
Q ss_pred CCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHcCCeEEEEEEeeC
Q 037761 26 FQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNFSWHEVVLMYEDT 105 (753)
Q Consensus 26 ~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~~vail~~d~ 105 (753)
.+|+++|--... .......+...++|+|......+ +..++ .+..++...+..++++|...|.++++++....
T Consensus 113 ~~vDgiI~~~~~--~~~~~~~l~~~~~pvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~~~~ 184 (327)
T PRK10339 113 KNVTGILIVGKP--TPALRAAASALTDNICFIDFHEP---GSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIGGED 184 (327)
T ss_pred ccCCEEEEeCCC--CHHHHHHHHhcCCCEEEEeCCCC---CCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeCCcc
Confidence 367776642221 22333455677899998753221 12223 25667777778888988888999999996543
Q ss_pred C--cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc--CCccEEEEEeChHHHHHHHHHHHHcCCCCCC
Q 037761 106 N--YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST--MQTRVFIVHMNTALASRLFALVAKNGMMSKG 181 (753)
Q Consensus 106 ~--~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~--~~~~vIi~~~~~~~~~~~~~~a~~~g~~~~~ 181 (753)
. ......+.|.+.++..|+. .....+....+..+-...+.++.+ ..+++|++. +...+..+++++++.|+..++
T Consensus 185 ~~~~~~~R~~gf~~~~~~~g~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~D~~A~g~~~al~~~g~~vP~ 262 (327)
T PRK10339 185 EPGKADIREVAFAEYGRLKQVV-REEDIWRGGFSSSSGYELAKQMLAREDYPKALFVA-SDSIAIGVLRAIHERGLNIPQ 262 (327)
T ss_pred ccchhhHHHHHHHHHHHHcCCC-ChhheeecCcChhHHHHHHHHHHhCCCCCCEEEEC-CcHHHHHHHHHHHHcCCCCCC
Confidence 2 3344567788888888761 110111111112223334555443 246665554 445567799999999986555
Q ss_pred EEEEE
Q 037761 182 YTWIV 186 (753)
Q Consensus 182 ~~wi~ 186 (753)
.+-|.
T Consensus 263 di~vi 267 (327)
T PRK10339 263 DISLI 267 (327)
T ss_pred ceEEE
Confidence 44444
No 276
>cd08436 PBP2_LTTR_like_3 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=92.84 E-value=7 Score=36.40 Aligned_cols=173 Identities=10% Similarity=0.033 Sum_probs=96.9
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+...+++.+.+ +.- ++++++... +..++++.|.+|++|+++..... .....+. ..+......
T Consensus 13 ~~l~~~l~~~~~----~~P-~v~i~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~ 75 (194)
T cd08436 13 VDLPELLARFHR----RHP-GVDIRLRQA---------GSDDLLAAVREGRLDLAFVGLPE--RRPPGLA-SRELAREPL 75 (194)
T ss_pred HHHHHHHHHHHH----HCC-CcEEEEecC---------CHHHHHHHHHcCCccEEEEecCC--CCCCCcE-EEEeecceE
Confidence 344566666666 654 466666653 56889999999999999854322 1222232 356677788
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
+++++...+.. ....-+++||. +
T Consensus 76 ~~~~~~~~~l~-------------------------------------------------------~~~~~~~~~L~--~ 98 (194)
T cd08436 76 VAVVAPDHPLA-------------------------------------------------------GRRRVALADLA--D 98 (194)
T ss_pred EEEecCCCccc-------------------------------------------------------CCCccCHHHHh--C
Confidence 88888765422 01134789995 5
Q ss_pred CeEEEe-cCchH----HHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc-
Q 037761 569 HFVGFQ-SGSFV----EDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP- 642 (753)
Q Consensus 569 ~~~~~~-~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~- 642 (753)
.++... .+... +.++.+ .+.........++.......+..|. .-+++..... ... .++..+..
T Consensus 99 ~~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p~~~~-----~~~-~~l~~~~~~ 167 (194)
T cd08436 99 EPFVDFPPGTGARRQVDRAFAA-AGVRRRVAFEVSDVDLLLDLVARGL----GVALLPASVA-----ARL-PGLAALPLE 167 (194)
T ss_pred CCeEEecCcccHHHHHHHHHHH-cCCCCceEEEeccHHHHHHHHHcCC----ceEEecchhh-----cCC-CCeEEEecC
Confidence 444443 23222 233332 2222222334678888889999887 5555544332 122 24544433
Q ss_pred ccccCceEEEEcCCCCCchHhHHHH
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
......+.++.+++.. -......+
T Consensus 168 ~~~~~~~~l~~~~~~~-~~~~~~~~ 191 (194)
T cd08436 168 PAPRRRLYLAWSAPPP-SPAARAFL 191 (194)
T ss_pred CcceEEEEEEEeCCCC-CHHHHHHH
Confidence 2233456777777766 55554443
No 277
>PRK10200 putative racemase; Provisional
Probab=92.84 E-value=0.91 Score=44.66 Aligned_cols=91 Identities=14% Similarity=0.066 Sum_probs=63.6
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
+.-+|...+....+.+.+.++.+++=|..+..+. ...+-+..++|+|+. .++..
T Consensus 56 ~~~~~~~~l~~~~~~L~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------i~~~~ 109 (230)
T PRK10200 56 EWDKTGDILAEAALGLQRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLHI-------------------------ADATG 109 (230)
T ss_pred CcchHHHHHHHHHHHHHHcCCCEEEECCchHHHH-HHHHHHhCCCCEeeh-------------------------HHHHH
Confidence 3456888888888888888999999877776665 466667788988873 23444
Q ss_pred HHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhC-CeEEE
Q 037761 88 AVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQEN-DIRIS 127 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~-g~~v~ 127 (753)
+.++..+-++|+++.+... -....+.+.+++. |+++.
T Consensus 110 ~~~~~~~~~~VglLaT~~T---i~s~~Y~~~l~~~~g~~~~ 147 (230)
T PRK10200 110 RAITGAGMTRVALLGTRYT---MEQDFYRGRLTEQFSINCL 147 (230)
T ss_pred HHHHHcCCCeEEEeccHHH---HHHhHHHHHHHHhcCCeEe
Confidence 4455557788999886543 3445666776654 76663
No 278
>cd08415 PBP2_LysR_opines_like The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate-domain of LysR-type transcriptional regulators, OccR and NocR, involved in the catabolism of opines and that of LysR for lysine biosynthesis which clustered together in phylogenetic trees. Opines, such as octopine and nopaline, are low molecular weight compounds found in plant crown gall tumors that are produced by the parasitic bacterium Agrobacterium. There are at least 30 different opines identified so far. Opines are utilized by tumor-colonizing bacteria as a source of carbon, nitrogen, and energy. NocR and OccR belong to the family of LysR-type transcriptional regulators that positively regulates the catabolism of nopaline and octopine, respectively. Both nopaline and octopalin are arginine derivatives. In Agrobacterium tumefa
Probab=92.77 E-value=4.8 Score=37.66 Aligned_cols=71 Identities=6% Similarity=0.040 Sum_probs=48.5
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ ..- ++++.+... ...++..+|.+|++|+++...... ...+ .+.++.....
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~l~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~-~~~~l~~~~~ 74 (196)
T cd08415 13 SLLPRAIARFRA----RHP-DVRISLHTL---------SSSTVVEAVLSGQADLGLASLPLD---HPGL-ESEPLASGRA 74 (196)
T ss_pred cccHHHHHHHHH----HCC-CcEEEEEec---------chHHHHHHHHcCCccEEEEeCCCC---CCcc-eeeeecccce
Confidence 455677777777 653 466666653 668899999999999998533221 1222 3567788888
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
++++++..+
T Consensus 75 ~~v~~~~~~ 83 (196)
T cd08415 75 VCVLPPGHP 83 (196)
T ss_pred EEEEcCCCC
Confidence 888887653
No 279
>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=92.71 E-value=4.8 Score=37.86 Aligned_cols=181 Identities=10% Similarity=0.048 Sum_probs=97.7
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
++...++..+.+ +.- ++++.+... ....+++.|.+|++|+++...... ...+. ..+.....+
T Consensus 13 ~~l~~~l~~~~~----~~P-~v~l~i~~~---------~~~~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~ 74 (200)
T cd08464 13 WLAPPLLAALRA----EAP-GVRLVFRQV---------DPFNVGDMLDRGEIDLAIGVFGEL---PAWLK-REVLYTEGY 74 (200)
T ss_pred HHHHHHHHHHHH----HCC-CcEEEEecC---------CcccHHHHHhcCcccEEEecCCCC---cccce-eeeecccce
Confidence 444566666666 653 466666653 567889999999999998532211 22232 457777788
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
+++++...... . ..-+++||.+..
T Consensus 75 ~~v~~~~~~~~-------------------------------------------------------~-~~~~~~~l~~~~ 98 (200)
T cd08464 75 ACLFDPQQLSL-------------------------------------------------------S-APLTLEDYVARP 98 (200)
T ss_pred EEEEeCCCccc-------------------------------------------------------c-CCCCHHHHhcCC
Confidence 88887654311 0 135788885322
Q ss_pred CeEEEecCc----hHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc--
Q 037761 569 HFVGFQSGS----FVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP-- 642 (753)
Q Consensus 569 ~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~-- 642 (753)
-+....+. ..+.++.+ .+.........++.......+..|. .-+++. .......... .++..+..
T Consensus 99 -~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p-~~~~~~~~~~--~~l~~~~~~~ 169 (200)
T cd08464 99 -HVLVSYRGGLRGFVDDALAE-LGRSRRVVASTPHFAALPALLRGTP----LIATVP-ARLARAWAAA--LGLRASPPPL 169 (200)
T ss_pred -cEEecCCCCCcchHHHHHHH-cCCCcceEEEcCchhhHHHHHcCCC----ceeecH-HHHHHHhhhc--CCceeecCCC
Confidence 22222222 23455552 2332223345667778888888886 444443 3333322222 24444322
Q ss_pred ccccCceEEEEcCCCCCchHhHHHHHHhhh
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAILLVRE 672 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~ 672 (753)
......+.++.+++......+...+..+++
T Consensus 170 ~~~~~~~~l~~~~~~~~~~~~~~l~~~~~~ 199 (200)
T cd08464 170 DLPEFPISLLWHARTDNDPALVWLREQIVQ 199 (200)
T ss_pred CCCCceEEEEEcccccCCchHHHHHHHHhh
Confidence 223345777777766555555555555443
No 280
>cd08444 PBP2_Cbl The C-terminal substrate binding domain of LysR-type transcriptional regulator Cbl, which is required for expression of sulfate starvation-inducible (ssi) genes, contains the type 2 periplasmic binding fold. Cbl is a member of the LysR transcriptional regulators that comprise the largest family of prokaryotic transcription factor. Cbl shows high sequence similarity to CysB, the LysR-type transcriptional activator of genes involved in sulfate and thiosulfate transport, sulfate reduction, and cysteine synthesis. In Escherichia coli, the function of Cbl is required for expression of sulfate starvation-inducible (ssi) genes, coupled with the biosynthesis of cysteine from the organic sulfur sources (sulfonates). The ssi genes include the ssuEADCB and tauABCD operons encoding uptake systems for organosulfur compounds, aliphatic sulfonates, and taurine. The genes in these operons encode an ABC-type transport system required for uptake of aliphatic sulfonates and a desulfonati
Probab=92.65 E-value=7.3 Score=36.76 Aligned_cols=176 Identities=12% Similarity=0.065 Sum_probs=101.5
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
++..+++..+.+ +.. ++++.+... +...+++.|.+|++|+++..-... ....+. +.++.....
T Consensus 13 ~~l~~~l~~~~~----~~P-~v~l~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~~-~~~l~~~~~ 75 (198)
T cd08444 13 YALPWVVQAFKE----QFP-NVHLVLHQG---------SPEEIASMLANGQADIGIATEALE--NHPELV-SFPYYDWHH 75 (198)
T ss_pred hhhhHHHHHHHH----HCC-CeEEEEEeC---------CHHHHHHHHHCCCccEEEeccccC--CCcCcE-Eeeccccce
Confidence 455677777777 764 466666653 667899999999999998532211 112232 467778888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
+++++...+.. ....-+++||. +
T Consensus 76 ~~~~~~~hpl~-------------------------------------------------------~~~~~~~~~l~--~ 98 (198)
T cd08444 76 HIIVPVGHPLE-------------------------------------------------------SITPLTIETIA--K 98 (198)
T ss_pred eEEecCCCccc-------------------------------------------------------cCCCcCHHHHh--C
Confidence 88888775421 01134788984 5
Q ss_pred CeEEEe-cCchH----HHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc-
Q 037761 569 HFVGFQ-SGSFV----EDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP- 642 (753)
Q Consensus 569 ~~~~~~-~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~- 642 (753)
.++... .+... ..++.+ .+.........++.....+.+..|. .-+++.+. ...... ..++..+..
T Consensus 99 ~~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----Gi~~lp~~-~~~~~~---~~~l~~~~~~ 169 (198)
T cd08444 99 WPIITYHGGFTGRSRIDRAFSR-AELTPNIVLSALDADVIKTYVGLGM----GIGIVAEM-AFEGQR---DTNLIKLDTS 169 (198)
T ss_pred CCEEEecCCCchHHHHHHHHHH-cCCCCceEEEeCCHHHHHHHHHcCC----cEEeccHH-HHhhhh---cCceEEeecC
Confidence 544443 33222 334432 2222223345678888899999997 55555432 222221 124555532
Q ss_pred -ccccCceEEEEcCCCCCchHhHHHH
Q 037761 643 -IYRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 643 -~~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
......++++.+++.++.......+
T Consensus 170 ~~~~~~~~~~~~~~~~~~~~~~~~f~ 195 (198)
T cd08444 170 HLFGKNTTWIALRRGGDLRNFAYRFI 195 (198)
T ss_pred CCccceeEEEEEcCCCccCHHHHHHH
Confidence 2233467778888777666555443
No 281
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=92.60 E-value=5.5 Score=40.89 Aligned_cols=177 Identities=7% Similarity=0.050 Sum_probs=101.5
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ +.. ++++.+... ....++..|.+|++|+++..... ....+ .+.++....+
T Consensus 104 ~~l~~~l~~~~~----~~p-~~~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~---~~~~l-~~~~l~~~~~ 165 (296)
T PRK11242 104 YLIGPLIDAFHA----RYP-GITLTIREM---------SQERIEALLADDELDVGIAFAPV---HSPEI-EAQPLFTETL 165 (296)
T ss_pred hhhHHHHHHHHH----HCC-CCEEEEEeC---------CHHHHHHHHHCCCCcEEEEecCC---CCcce-eEEEeeeccE
Confidence 345677777777 654 466666654 66889999999999999853222 22222 2467778888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
++++++..+.. .....-+++||. .
T Consensus 166 ~~~~~~~~pl~------------------------------------------------------~~~~~i~~~~L~--~ 189 (296)
T PRK11242 166 ALVVGRHHPLA------------------------------------------------------ARRKALTLDELA--D 189 (296)
T ss_pred EEEEcCCCccc------------------------------------------------------ccCCCcCHHHHh--C
Confidence 99988775431 001136888995 3
Q ss_pred CeEEE-ecCch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC--
Q 037761 569 HFVGF-QSGSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG-- 641 (753)
Q Consensus 569 ~~~~~-~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~-- 641 (753)
.++.. ..+.. ...++. ..+.........++..-....+..|. ..+++.. .... ... ++..+.
T Consensus 190 ~~~i~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p~-~~~~----~~~-~l~~~~~~ 258 (296)
T PRK11242 190 EPLVLLSAEFATREQIDRYFR-RHGVTPRVAIEANSISAVLEIVRRGR----LATLLPA-AIAR----EHD-GLCAIPLD 258 (296)
T ss_pred CCcEeeCCCccHHHHHHHHHH-HcCCCccEEEEeccHHHHHHHHHhCC----eEEEeeh-hhcc----cCC-CeEEEECC
Confidence 33333 23322 233444 22332222345677888888898887 5555543 2222 122 344432
Q ss_pred cccccCceEEEEcCCCCCchHhHHHHHHh
Q 037761 642 PIYRTDGLGFAFAKDSPLVSHFSQAILLV 670 (753)
Q Consensus 642 ~~~~~~~~~~~~~k~s~l~~~~n~~i~~l 670 (753)
.......++++.+++.++.......+..+
T Consensus 259 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~l 287 (296)
T PRK11242 259 PPLPQRTAALLRRKGAYRSAAARAFIELA 287 (296)
T ss_pred CCCccceEEEEEeCCCCCCHHHHHHHHHH
Confidence 22233467777888776666555554443
No 282
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=92.59 E-value=4.5 Score=41.99 Aligned_cols=174 Identities=13% Similarity=0.114 Sum_probs=98.6
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..+++..+.+ ..- ++++.+... ...+++.+|.+|++|+++...... .....+ -..|+.....+
T Consensus 111 ~l~~~l~~~~~----~~p-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~l-~~~~l~~~~~~ 174 (312)
T PRK10341 111 FMSDMINKFKE----VFP-KAQVSMYEA---------QLSSFLPAIRDGRLDFAIGTLSNE-MKLQDL-HVEPLFESEFV 174 (312)
T ss_pred hHHHHHHHHHH----hCC-CCEEEEEeC---------CHHHHHHHHHcCCCcEEEecCCcc-cccCCe-eEEEEecccEE
Confidence 34567777776 543 467777764 678999999999999998532211 111223 24678888899
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
+++++..+.. ..-+++||. +.
T Consensus 175 lv~~~~~pl~---------------------------------------------------------~~i~~~dL~--~~ 195 (312)
T PRK10341 175 LVASKSRTCT---------------------------------------------------------GTTTLESLK--NE 195 (312)
T ss_pred EEEcCCCchh---------------------------------------------------------ccCCHHHHh--CC
Confidence 9998765421 135789995 44
Q ss_pred eEEEe-cCchH-H---HHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc--
Q 037761 570 FVGFQ-SGSFV-E---DFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP-- 642 (753)
Q Consensus 570 ~~~~~-~~~~~-~---~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~-- 642 (753)
++... .+... . .++.+ .+.........++.......+..|. .-+++. ....... . ..++..+..
T Consensus 196 ~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p-~~~~~~~-~--~~~l~~i~l~~ 266 (312)
T PRK10341 196 QWVLPQTNMGYYSELLTTLQR-NGISIENIVKTDSVVTIYNLVLNAD----FLTVIP-CDMTSPF-G--SNQFITIPIEE 266 (312)
T ss_pred CeEccCCCCcHHHHHHHHHHH-cCcCCCceEEecCHHHHHHHHHhCC----cEEEee-HHhcCcc-c--cCcEEEEecCC
Confidence 44332 22221 1 23332 2333233455678888899998886 444443 3222221 1 124544432
Q ss_pred ccccCceEEEEcCCCCCchHhHHHH
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
......++++.+|+..........+
T Consensus 267 ~~~~~~~~l~~~~~~~~~~~~~~~~ 291 (312)
T PRK10341 267 TLPVAQYAAVWSKNYRIKKAASVLV 291 (312)
T ss_pred CCCCCcEEEEEecCCCCCHHHHHHH
Confidence 2233467777888765554444443
No 283
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=92.48 E-value=1.7 Score=46.52 Aligned_cols=88 Identities=10% Similarity=0.114 Sum_probs=66.4
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.+.++.+|.+++.|+++..-...+..+.+.+.+++.|+.+.....+.++.+..+....+..+++.++|+|+-.|-+.
T Consensus 20 ~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~np~~~~v~~~~~~~~~~~~D~IiaiGGGS 99 (383)
T PRK09860 20 TDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPNPTTENVAAGLKLLKENNCDSVISLGGGS 99 (383)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEEeCCch
Confidence 44677888899999998886443445677889999999998765554555566677888899999999999999876644
Q ss_pred --HHHHHHHH
Q 037761 164 --LASRLFAL 171 (753)
Q Consensus 164 --~~~~~~~~ 171 (753)
|+...+..
T Consensus 100 ~iD~AK~ia~ 109 (383)
T PRK09860 100 PHDCAKGIAL 109 (383)
T ss_pred HHHHHHHHHH
Confidence 66655544
No 284
>cd08437 PBP2_MleR The substrate binding domain of LysR-type transcriptional regulator MleR which required for malolactic fermentation, contains type 2 periplasmic binidning fold. MleR, a transcription activator of malolactic fermentation system, is found in gram-positive bacteria and belongs to the lysR family of bacterial transcriptional regulators. The mleR gene is required for the expression and induction of malolactic fermentation. This substrate binding domain has significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase dom
Probab=92.47 E-value=8 Score=36.34 Aligned_cols=174 Identities=11% Similarity=0.048 Sum_probs=97.5
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+...++..+.+ +.- ++++++... ....+++.|.+|++|+++... ........+. ..++.....+
T Consensus 14 ~l~~~l~~~~~----~~P-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~-~~~~~~~~l~-~~~l~~~~~~ 77 (198)
T cd08437 14 YFPKLAKDLIK----TGL-MIQIDTYEG---------GSAELLEQLLQGDLDIALLGS-LTPLENSALH-SKIIKTQHFM 77 (198)
T ss_pred HhHHHHHHHHH----hCC-ceEEEEEEc---------CHHHHHHHHHcCCCCEEEecC-CCCCCcccce-EEEeecceEE
Confidence 34566666666 654 467777653 678999999999999998432 1111222333 3577788888
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
++++...+.. ....-+++||. +.
T Consensus 78 ~~~~~~hpl~-------------------------------------------------------~~~~i~~~dL~--~~ 100 (198)
T cd08437 78 IIVSKDHPLA-------------------------------------------------------KAKKVNFADLK--KE 100 (198)
T ss_pred EEecCCCccc-------------------------------------------------------ccCcccHHHHc--CC
Confidence 8888765422 01235788994 55
Q ss_pred eEEEe-cCc----hHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC--c
Q 037761 570 FVGFQ-SGS----FVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG--P 642 (753)
Q Consensus 570 ~~~~~-~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~--~ 642 (753)
++... .+. ..+.++. ..+.........++.......+..|. .-+++..... .+.. ++..+. +
T Consensus 101 ~~i~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p~~~~-----~~~~-~l~~~~l~~ 169 (198)
T cd08437 101 NFILLNEHFVHPKAFDSLCQ-QANFQPNIVYRTNDIHILKSMVRENV----GIGFLTDIAV-----KPDD-HLVAIPLLD 169 (198)
T ss_pred CeEEecccchHHHHHHHHHH-HcCCCccEEEEeCcHHHHHHHHHcCC----cEEEEEhhhc-----cCCC-CeEEEEccC
Confidence 44433 222 1223333 22332223345677888888998887 5555543222 1222 444432 2
Q ss_pred -ccccCceEEEEcCCCCCchHhHHHH
Q 037761 643 -IYRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 643 -~~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
......++++.+++.++.......+
T Consensus 170 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 195 (198)
T cd08437 170 NEQPTFYISLAHRKDQLLTPAQKKLL 195 (198)
T ss_pred CcccCeEEEEEEcCccCCCHHHHHHH
Confidence 2223456677777776666555544
No 285
>cd08441 PBP2_MetR The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold. MetR, a member of the LysR family, is a positive regulator for the metA, metE, metF, and metH genes. The sulfur-containing amino acid methionine is the universal initiator of protein synthesis in all known organisms and its derivative S-adenosylmethionine (SAM) and autoinducer-2 (AI-2) are involved in various cellular processes. SAM plays a central role as methyl donor in methylation reactions, which are essential for the biosynthesis of phospholipids, proteins, DNA and RNA. The interspecies signaling molecule AI-2 is involved in cell-cell communication process (quorum sensing) and gene regulation in bacteria. Although methionine biosynthetic enzymes and metabolic pathways are well conserved in bacteria, the regulation of methionine biosynthesis involves various regulatory mecha
Probab=92.45 E-value=7.6 Score=36.48 Aligned_cols=70 Identities=13% Similarity=0.106 Sum_probs=44.7
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+...++..+.+ +.- ++++.+... ....+.+.|.+|++|+++..-... ...+. ..++....++
T Consensus 14 ~~~~~l~~~~~----~~P-~i~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~ 75 (198)
T cd08441 14 WLMPVLDQFRE----RWP-DVELDLSSG---------FHFDPLPALLRGELDLVITSDPLP---LPGIA-YEPLFDYEVV 75 (198)
T ss_pred hhHHHHHHHHH----hCC-CeEEEEEeC---------CchhHHHHHHcCCceEEEecCCcC---CCCcE-EEEccCCcEE
Confidence 33556666666 654 366666653 567899999999999998432211 12222 3466777788
Q ss_pred EEEecccC
Q 037761 490 MLVPVKRD 497 (753)
Q Consensus 490 ~~v~~~~~ 497 (753)
++++...+
T Consensus 76 ~~~~~~~~ 83 (198)
T cd08441 76 LVVAPDHP 83 (198)
T ss_pred EEEcCCCC
Confidence 88876654
No 286
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=92.42 E-value=3.5 Score=38.65 Aligned_cols=134 Identities=12% Similarity=0.082 Sum_probs=83.5
Q ss_pred HHHHHhhccCCccEEeecCCCCCCCC-CCCCc--eEEE----ecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHH
Q 037761 41 PFLVELGEKAQVPIISFFETSPALSP-TEHPF--FIRV----TQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFIS 113 (753)
Q Consensus 41 ~av~~i~~~~~vP~is~~a~~~~l~~-~~~~~--~fr~----~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~ 113 (753)
...+..+...++=+|.|++++.++.. .+|.- --|+ .-....-+.+.++.|+.++.+++.++. +|-.+..+
T Consensus 57 ~~aAl~Lada~vdvI~Y~CtsgS~i~G~~~d~ei~~~ie~~~~v~vvTts~Avv~aL~al~a~ri~vlT---PY~~evn~ 133 (238)
T COG3473 57 ERAALELADAGVDVIVYGCTSGSLIGGPGYDKEIAQRIEEAKGVPVVTTSTAVVEALNALGAQRISVLT---PYIDEVNQ 133 (238)
T ss_pred HHHHHhcCccccCEEEEeccceeeecCCchhHHHHHHHHhccCCceeechHHHHHHHHhhCcceEEEec---cchhhhhh
Confidence 34455556667777777776665542 22210 0000 000011235788899999999999998 67778889
Q ss_pred HHHHHHHhCCeEEEEeeccCCC--C-----chhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHH-cCC
Q 037761 114 FLVDELQENDIRISHMSKIPTS--A-----EDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAK-NGM 177 (753)
Q Consensus 114 ~~~~~~~~~g~~v~~~~~~~~~--~-----~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~-~g~ 177 (753)
...+.++++|++|+....+... . .....-....++...++|.|++.|..--...++..+.+ .|.
T Consensus 134 ~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~DaiFiSCTnlRt~eii~~lE~~~G~ 205 (238)
T COG3473 134 REIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADAIFISCTNLRTFEIIEKLERDTGV 205 (238)
T ss_pred HHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCeEEEEeeccccHHHHHHHHHHhCC
Confidence 9999999999999887654321 0 01233334556667889999998775555556555543 453
No 287
>TIGR02424 TF_pcaQ pca operon transcription factor PcaQ. Members of this family are LysR-family transcription factors associated with operons for catabolism of protocatechuate. Members occur only in Proteobacteria.
Probab=92.40 E-value=5.4 Score=41.10 Aligned_cols=181 Identities=12% Similarity=0.067 Sum_probs=101.6
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..+++..+.+ +.- ++++.+... +...++.+|.+|++|++++.... ......+. ..|......+
T Consensus 107 ~~~~~l~~~~~----~~P-~~~i~~~~~---------~~~~~~~~l~~g~~D~~i~~~~~-~~~~~~~~-~~~l~~~~~~ 170 (300)
T TIGR02424 107 LMPEVVKRFLA----RAP-RLRVRIMTG---------PNAYLLDQLRVGALDLVVGRLGA-PETMQGLS-FEHLYNEPVV 170 (300)
T ss_pred hhHHHHHHHHH----hCC-CcEEEEEeC---------chHHHHHHHHCCCCCEEEEecCC-ccccccee-eeeecCCceE
Confidence 34666777776 665 567777763 56889999999999999854332 12222333 4577888889
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
+++++..+.. ....-+++||. +.
T Consensus 171 ~~~~~~hpl~-------------------------------------------------------~~~~i~~~dL~--~~ 193 (300)
T TIGR02424 171 FVVRAGHPLL-------------------------------------------------------AAPSLPVASLA--DY 193 (300)
T ss_pred EEEcCCCccc-------------------------------------------------------cCCCCCHHHHh--CC
Confidence 9988765422 00123789995 44
Q ss_pred eEEE-ecCc----hHHHHHHHhhCCCCCc-eecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc-
Q 037761 570 FVGF-QSGS----FVEDFLVKQLNFSRNQ-TRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP- 642 (753)
Q Consensus 570 ~~~~-~~~~----~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~- 642 (753)
++.. ..+. ....++.+ .+....+ .....+...+...+..|. .-++ .+...+....+. .++..+..
T Consensus 194 ~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~-lp~~~~~~~~~~--~~l~~i~~~ 265 (300)
T TIGR02424 194 PVLLPPEGSAIRPLAERLFIA-CGIPPPPQRIETVSGSFGRRYVQESD----AIWI-ISRGVVALDLAD--GTLVELPFD 265 (300)
T ss_pred CEEecCCCCchHHHHHHHHHH-CCCCCCCceEEeccHHHHHHHHHhCC----ceEe-CcHHHHhhhhcC--CcEEEccCC
Confidence 4433 3332 22345542 2332112 244566677788888886 4443 333233222222 24555433
Q ss_pred -ccccCceEEEEcCCCCCchHhHHHHHHhh
Q 037761 643 -IYRTDGLGFAFAKDSPLVSHFSQAILLVR 671 (753)
Q Consensus 643 -~~~~~~~~~~~~k~s~l~~~~n~~i~~l~ 671 (753)
......++++.+|+...-......+..+.
T Consensus 266 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 295 (300)
T TIGR02424 266 TRETGGPVGLCTRPDTQLSRAAQLFVDALR 295 (300)
T ss_pred CCCCCCceEEEEeCCCCCCHHHHHHHHHHH
Confidence 22335678888887665555555554443
No 288
>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=92.26 E-value=7.2 Score=36.43 Aligned_cols=71 Identities=10% Similarity=-0.043 Sum_probs=47.0
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ +.- ++++++... +..++...+.+|++|+++.... .....+. +.++....+
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~i~i~~~---------~~~~~~~~l~~~~~Di~i~~~~---~~~~~~~-~~~l~~~~~ 74 (197)
T cd08448 13 RGLPRILRAFRA----EYP-GIEVALHEM---------SSAEQIEALLRGELDLGFVHSR---RLPAGLS-ARLLHREPF 74 (197)
T ss_pred HHHHHHHHHHHH----HCC-CCeEEEEeC---------CHHHHHHHHHcCCcceEEEeCC---CCCcCce-EEEEecCcE
Confidence 344566666666 664 467766653 6789999999999999975322 1222232 456778888
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
+++++...+
T Consensus 75 ~~~~~~~hp 83 (197)
T cd08448 75 VCCLPAGHP 83 (197)
T ss_pred EEEeeCCCC
Confidence 888887654
No 289
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=92.23 E-value=8.4 Score=39.94 Aligned_cols=182 Identities=10% Similarity=0.034 Sum_probs=107.7
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+...+++.+.+ +.. ++++.+... ++++++..|.+|++|+++...... ....+.+ .|+.....+
T Consensus 107 ~l~~~i~~f~~----~~P-~i~l~~~~~---------~~~~~~~~L~~~~~D~~i~~~~~~--~~~~l~~-~~l~~~~~~ 169 (309)
T PRK12683 107 ALPKVVRQFKE----VFP-KVHLALRQG---------SPQEIAEMLLNGEADIGIATEALD--REPDLVS-FPYYSWHHV 169 (309)
T ss_pred HHHHHHHHHHH----HCC-CceEEEEeC---------CHHHHHHHHHcCCccEEEecCCCC--CCCCceE-EEcccCeEE
Confidence 34566666666 653 466666654 789999999999999998532111 1122333 467777888
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
+++++..+.. ...--+++||. +.
T Consensus 170 ~v~~~~hpl~-------------------------------------------------------~~~~~~~~~L~--~~ 192 (309)
T PRK12683 170 VVVPKGHPLT-------------------------------------------------------GRENLTLEAIA--EY 192 (309)
T ss_pred EEecCCCCcc-------------------------------------------------------cCCccCHHHHh--cC
Confidence 8888765432 11235788985 44
Q ss_pred eEE-EecCchH----HHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc--
Q 037761 570 FVG-FQSGSFV----EDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP-- 642 (753)
Q Consensus 570 ~~~-~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~-- 642 (753)
++. ...++.. ..++. ..+.........++.......+..|. .-+++.. ...... ...++..++.
T Consensus 193 ~~i~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~v~~g~----Gi~~lp~-~~~~~~---~~~~l~~~~~~~ 263 (309)
T PRK12683 193 PIITYDQGFTGRSRIDQAFA-EAGLVPDIVLTALDADVIKTYVELGM----GVGIVAA-MAYDPQ---RDTGLVALDTDH 263 (309)
T ss_pred CeEeccCCCcHHHHHHHHHH-HCCCCceeEEEeccHHHHHHHHHhCC----CeEEeeh-hhcccc---CCCceEEEeCCC
Confidence 333 3333332 33444 22332233445677788888898887 5555533 222211 1224555542
Q ss_pred ccccCceEEEEcCCCCCchHhHHHHHHhhhcc
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAILLVRENQ 674 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~G 674 (753)
.....+++++.+|+.++.......+..+.+..
T Consensus 264 ~~~~~~~~l~~~~~~~~~~~~~~fi~~l~~~~ 295 (309)
T PRK12683 264 LFEANTTRVGLRRGAYLRGYAYRFIELFAPHL 295 (309)
T ss_pred CcccceEEEEEECCCcCCHHHHHHHHHHHhhh
Confidence 22345788889999888877777777776665
No 290
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=92.23 E-value=8.3 Score=39.41 Aligned_cols=181 Identities=10% Similarity=-0.009 Sum_probs=102.5
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..++++.+.+ +.- .+++.+... ...+++..|.+|++|+++...... ...+. ..++.....+
T Consensus 103 ~~~~~l~~~~~----~~P-~i~i~v~~~---------~~~~~~~~l~~g~~Di~i~~~~~~---~~~~~-~~~l~~~~~~ 164 (290)
T PRK10837 103 ILPAMIARYRR----DYP-QLPLELSVG---------NSQDVINAVLDFRVDIGLIEGPCH---SPELI-SEPWLEDELV 164 (290)
T ss_pred hhHHHHHHHHH----HCC-CceEEEEEC---------CHHHHHHHHHhCCceEEEecCCCC---CCcee-EEEeecceEE
Confidence 34566666666 653 356666653 568899999999999998532211 12222 3566777888
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
++++++.+.. ...-+++||. +.
T Consensus 165 lv~~~~hpl~--------------------------------------------------------~~~i~~~~L~--~~ 186 (290)
T PRK10837 165 VFAAPDSPLA--------------------------------------------------------RGPVTLEQLA--AA 186 (290)
T ss_pred EEEcCCChhh--------------------------------------------------------cCCCCHHHHh--cC
Confidence 8888665421 1235789995 44
Q ss_pred eEEE-ecCchHHHHHHH---hhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC--cc
Q 037761 570 FVGF-QSGSFVEDFLVK---QLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG--PI 643 (753)
Q Consensus 570 ~~~~-~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~--~~ 643 (753)
++.. ..+......+.. ..+.........++.......+..|. .-+++... ......+.. ++..++ ..
T Consensus 187 ~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p~~-~~~~~~~~~--~l~~~~~~~~ 259 (290)
T PRK10837 187 PWILRERGSGTREIVDYLLLSHLPRFELAMELGNSEAIKHAVRHGL----GISCLSRR-VIADQLQAG--TLVEVAVPLP 259 (290)
T ss_pred CeEEecCCCcHHHHHHHHHHHcCCCCceEEEeCCHHHHHHHHHhCC----cEEEeeHH-HHHHHHhCC--cEEEEEcCCc
Confidence 4433 333333333221 11221223345677888889998887 55555443 332222222 344332 22
Q ss_pred cccCceEEEEcCCCCCchHhHHHHHHhhhc
Q 037761 644 YRTDGLGFAFAKDSPLVSHFSQAILLVREN 673 (753)
Q Consensus 644 ~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~ 673 (753)
.....++++.+++.++.......+..+.+.
T Consensus 260 ~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~ 289 (290)
T PRK10837 260 RLMRTLYRIHHRQKHLSNALQRFLSYCQEA 289 (290)
T ss_pred cceEEEEEEEeCCCCCCHHHHHHHHHHHhc
Confidence 233466777788877777777777666543
No 291
>PRK13583 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=92.21 E-value=2.2 Score=41.30 Aligned_cols=153 Identities=11% Similarity=0.069 Sum_probs=97.0
Q ss_pred HHHHHHHHcCcccEEEeeeeeecccc----e-eee-ccccccccceEEEEecccCCCCceeEEEecCccccceeeccccc
Q 037761 449 DELLYQIKLKKFDAVVGDISIVASRT----D-YVE-FTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDC 522 (753)
Q Consensus 449 ~~~~~~l~~~~~Di~~~~~~~t~~r~----~-~~~-fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~ 522 (753)
.++-..+..|.+|+++.+.-.-.|.. . ... .-..+....+++.+|....
T Consensus 55 ~DIp~yV~~G~~DlGI~G~D~l~E~~~~~~~~v~elldLgfG~crl~vA~p~~~~------------------------- 109 (228)
T PRK13583 55 SEIPRELGAGRVDLGVTGEDLVREKLADWDKRVEIVARLGFGHADLVVAVPEIWI------------------------- 109 (228)
T ss_pred HHHHHHHhCCCCcEEEeeeeeeecccccCCCCeEEEecCCCCceEEEEEEECccc-------------------------
Confidence 67889999999999999986555431 1 111 2235566666777765422
Q ss_pred hhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhh--------cC--CeEEEecCchHHHHHHHhhCCCCC
Q 037761 523 SKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRT--------ES--HFVGFQSGSFVEDFLVKQLNFSRN 592 (753)
Q Consensus 523 ~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~--------~~--~~~~~~~~~~~~~~~~~~~~~~~~ 592 (753)
.+++++||.+ .| ++|+.........||.+ .+....
T Consensus 110 ----------------------------------~~~~~~dl~~~~~~~~~~~g~~~RIATkYp~it~~yf~~-~Gv~~~ 154 (228)
T PRK13583 110 ----------------------------------DVDTMADLDDVAADFRARHGRRLRIATKYWRLTQQFLSQ-KGVQDY 154 (228)
T ss_pred ----------------------------------ccCCHHHhhhhhhhhhhccCCceEEEeCCHHHHHHHHHH-cCCcee
Confidence 2688888851 13 58998888888999984 333223
Q ss_pred ceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC-cccccCceEEEEcCCCC---CchHhHHHHH
Q 037761 593 QTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG-PIYRTDGLGFAFAKDSP---LVSHFSQAIL 668 (753)
Q Consensus 593 ~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~k~s~---l~~~~n~~i~ 668 (753)
++.+....-|. +-.-|- .|++++-..+...+-++ +|.+++ +.+......++..+.+. ..+.+++.+.
T Consensus 155 ~Iv~l~GsvEl--aP~~Gl----AD~IvDivsTG~TLr~N---gL~~i~~~~Il~SsA~LI~n~~s~~~~~~~~~~~l~~ 225 (228)
T PRK13583 155 RIVESLGATEG--APANGS----AEIIVDITSTGETLRAN---HLKILSDGVILRSQACLVRARKADWSETEARVQAIAA 225 (228)
T ss_pred EEEECCCceec--ccccCc----chhhhhhhchhHHHHHC---CCEEecCceEEEEEEEEEEecccccchhHHHHHHHHH
Confidence 56665554444 334455 67777776666655554 788887 46666677777788763 3345555554
Q ss_pred Hh
Q 037761 669 LV 670 (753)
Q Consensus 669 ~l 670 (753)
++
T Consensus 226 r~ 227 (228)
T PRK13583 226 RI 227 (228)
T ss_pred hh
Confidence 44
No 292
>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=92.19 E-value=7.6 Score=36.38 Aligned_cols=173 Identities=8% Similarity=0.084 Sum_probs=96.1
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+...++..+.+ +.. ++++.+... ...++.+.|.+|++|+++...... ...+. ..++.....+
T Consensus 15 ~l~~~l~~~~~----~~P-~v~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~ 76 (197)
T cd08425 15 LIGPLIDRFHA----RYP-GIALSLREM---------PQERIEAALADDRLDLGIAFAPVR---SPDID-AQPLFDERLA 76 (197)
T ss_pred hhHHHHHHHHH----HCC-CcEEEEEEC---------cHHHHHHHHHcCCccEEEEecCCC---CCCcE-EEEeccccEE
Confidence 34566777766 654 467777653 567899999999999998532221 22222 3567778888
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
++++++.+.. ......+++||. +.
T Consensus 77 ~v~~~~~pl~------------------------------------------------------~~~~~~~~~dL~--~~ 100 (197)
T cd08425 77 LVVGATHPLA------------------------------------------------------QRRTALTLDDLA--AE 100 (197)
T ss_pred EEecCCCchh------------------------------------------------------HhcccCCHHHHh--cC
Confidence 8888765421 000136788995 44
Q ss_pred eEEEe-cCch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC--c
Q 037761 570 FVGFQ-SGSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG--P 642 (753)
Q Consensus 570 ~~~~~-~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~--~ 642 (753)
++... .... ...++.+ .+.........++.......+..|. .-+++.. .... .. .++..+. .
T Consensus 101 ~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p~-~~~~----~~-~~l~~~~~~~ 169 (197)
T cd08425 101 PLALLSPDFATRQHIDRYFQK-QGIKPRIAIEANSISAVLEVVRRGR----LATILPD-AIAR----EQ-PGLCAVALEP 169 (197)
T ss_pred CcEecCCCccHHHHHHHHHHH-cCCCeeeEEeeCcHHHHHHHHhcCC----cEEeech-hhhc----cc-CCeEEEECCC
Confidence 44332 2221 2344442 2222222334677888889999887 5554433 2221 12 2343332 2
Q ss_pred ccccCceEEEEcCCCCCchHhHHHH
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
......+.++.+++..+-..+...+
T Consensus 170 ~~~~~~~~~~~~~~~~~~~~~~~~~ 194 (197)
T cd08425 170 PLPGRTAALLRRKGAYRSAAARAFA 194 (197)
T ss_pred CCcCceEEEEEcCCcccCHHHHHHH
Confidence 2223456677777766555554443
No 293
>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=92.17 E-value=7.4 Score=36.48 Aligned_cols=72 Identities=11% Similarity=0.074 Sum_probs=47.4
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ +.. ++++++... ++..++++|.+|++|+++..-.... ...+. ..++....+
T Consensus 13 ~~l~~~l~~~~~----~~P-~v~l~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~~--~~~l~-~~~l~~~~~ 75 (199)
T cd08430 13 SFLPPILERFRA----QHP-QVEIKLHTG---------DPADAIDKVLNGEADIAIAARPDKL--PARLA-FLPLATSPL 75 (199)
T ss_pred eeccHHHHHHHH----HCC-CceEEEEeC---------CHHHHHHHHHCCCCCEEEEecCCCC--CcccE-EEeeccceE
Confidence 455677888877 764 467766653 6788999999999999985322111 11222 355667777
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
++++++..+
T Consensus 76 ~~~~~~~~~ 84 (199)
T cd08430 76 VFIAPNIAC 84 (199)
T ss_pred EEEEeCCch
Confidence 888876643
No 294
>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=91.97 E-value=7.1 Score=36.52 Aligned_cols=71 Identities=8% Similarity=-0.010 Sum_probs=46.4
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ +.- ++++.+... ....++++|.+|++|+++...... ...+. +.+......
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~~~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~ 74 (196)
T cd08456 13 SFLPRAIKAFLQ----RHP-DVTISIHTR---------DSPTVEQWLSAQQCDLGLVSTLHE---PPGIE-RERLLRIDG 74 (196)
T ss_pred hhHHHHHHHHHH----HCC-CcEEEEEeC---------CHHHHHHHHHcCCccEEEEecCCC---CCCee-EEEeeccCe
Confidence 344566666666 664 467777664 567889999999999998532211 12222 456677888
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
+++++...+
T Consensus 75 ~~~~~~~~~ 83 (196)
T cd08456 75 VCVLPPGHR 83 (196)
T ss_pred EEEecCCCc
Confidence 888876543
No 295
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=91.94 E-value=1.5 Score=46.05 Aligned_cols=91 Identities=11% Similarity=0.151 Sum_probs=73.8
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.+.++.+|++++-||++..-...+..+.+.+.+++.|+.+.....+.++.+.+.....+..+++.++|.||-++-+.
T Consensus 18 ~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~v~p~P~~~~v~~~~~~~~~~~~D~iIalGGGS 97 (377)
T COG1454 18 KELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDEVEPEPTIETVEAGAEVAREFGPDTIIALGGGS 97 (377)
T ss_pred HHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeEEEecCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCcc
Confidence 45666778889999999998777777899999999999998877777777777788888899999999999999887644
Q ss_pred --HHHHHHHHHHH
Q 037761 164 --LASRLFALVAK 174 (753)
Q Consensus 164 --~~~~~~~~a~~ 174 (753)
|+...+.-...
T Consensus 98 ~~D~AK~i~~~~~ 110 (377)
T COG1454 98 VIDAAKAIALLAE 110 (377)
T ss_pred HHHHHHHHHHHhh
Confidence 66666555444
No 296
>TIGR00070 hisG ATP phosphoribosyltransferase. Members of this family from B. subtilis, Aquifex aeolicus, and Synechocystis PCC6803 (and related taxa) lack the C-terminal third of the sequence. The sole homolog from Archaeoglobus fulgidus lacks the N-terminal 50 residues (as reported) and is otherwise atypical of the rest of the family. This model excludes the C-terminal extension.
Probab=91.81 E-value=1.6 Score=40.70 Aligned_cols=123 Identities=13% Similarity=0.168 Sum_probs=85.3
Q ss_pred HHHHHHHHcCcccEEEeeeeeeccc-ceeeecc-ccccccceEEEEecccCCCCceeEEEecCccccceeeccccchhhH
Q 037761 449 DELLYQIKLKKFDAVVGDISIVASR-TDYVEFT-LPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFV 526 (753)
Q Consensus 449 ~~~~~~l~~~~~Di~~~~~~~t~~r-~~~~~fs-~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~ 526 (753)
.++-..+..|.+|+++.+...-.+. ......- .+|....+++.+|++..
T Consensus 50 ~Dip~yV~~G~aDlGI~G~D~l~E~~~~v~~~~dL~fg~crl~vA~p~~~~----------------------------- 100 (182)
T TIGR00070 50 QDIPTYVEHGAADLGITGYDVLLESGADVYELLDLGFGKCRLVLAVPQESD----------------------------- 100 (182)
T ss_pred chhHHHHhCCCccEEEecchhhhhCCCCEEEEeecCcCceEEEEEEECCCC-----------------------------
Confidence 6778999999999999877543333 3333332 46667777777776642
Q ss_pred HHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecCCCHHHHHHH
Q 037761 527 LVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYKEA 606 (753)
Q Consensus 527 ~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 606 (753)
+++.+|| .+++++.........||.+ .+. +.++.+....-|. +
T Consensus 101 -------------------------------~~~~~~l--~~~rIATkyp~i~~~~f~~-~Gi-~v~ii~l~GsvE~--a 143 (182)
T TIGR00070 101 -------------------------------ISSVEDL--KGKRIATKYPNLARRYFEK-KGI-DVEIIKLNGSVEL--A 143 (182)
T ss_pred -------------------------------CCChHHh--CCCEEEECCHHHHHHHHHH-cCC-eEEEEECcceeec--c
Confidence 7899999 5999999888888999985 333 4566655554444 2
Q ss_pred HhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCccc
Q 037761 607 LSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIY 644 (753)
Q Consensus 607 l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~ 644 (753)
-..|. .|++++-..+...+.++ +|.++.+.+
T Consensus 144 P~~Gl----aD~IvDiv~TG~TL~~N---gL~~ie~i~ 174 (182)
T TIGR00070 144 PLLGL----ADAIVDIVSTGTTLREN---GLRIIEVIL 174 (182)
T ss_pred cCCCc----eeEEEEEeCCHHHHHHC---CCEEeeEEE
Confidence 33566 89999888887776665 666665433
No 297
>cd08416 PBP2_MdcR The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold. This family includes the C-terminal substrate binding domain of LysR-type transcriptional regulator (LTTR) MdcR that controls the expression of the malonate decarboxylase (mdc) genes. Like other members of the LTTRs, MdcR is a positive regulatory protein for its target promoter and composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins (PBP2). The PBP2 are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these dom
Probab=91.78 E-value=8.1 Score=36.23 Aligned_cols=178 Identities=13% Similarity=0.132 Sum_probs=96.0
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
++..+++..+.+ +.- ++++.+... ...+++..|.+|++|+++..... ......+. +.+......
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~l~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~-~~~~~~l~-~~~l~~~~~ 76 (199)
T cd08416 13 NTVPRIIMGLKL----RRP-ELDIELTLG---------SNKDLLKKLKDGELDAILVATPE-GLNDPDFE-VVPLFEDDI 76 (199)
T ss_pred hhhHHHHHHHHH----hCC-CeEEEEEEc---------CcHHHHHHHhCCCCCEEEEecCC-cCCCCCeE-EEEeecceE
Confidence 345566666666 664 466666653 56788999999999999854221 10112222 456777888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
++++++..+.. ....-+++||. +
T Consensus 77 ~~v~~~~hp~~-------------------------------------------------------~~~~~~~~~L~--~ 99 (199)
T cd08416 77 FLAVPATSPLA-------------------------------------------------------ASSEIDLRDLK--D 99 (199)
T ss_pred EEEECCCCccc-------------------------------------------------------ccCccCHHHhc--C
Confidence 88888765421 11235788985 4
Q ss_pred CeEEE-ecCch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCcc
Q 037761 569 HFVGF-QSGSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPI 643 (753)
Q Consensus 569 ~~~~~-~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~ 643 (753)
.++.. ..+.. ....+. ..+.........++....+.++..|. .-+++.. ...... .....+..+...
T Consensus 100 ~~~i~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~p~-~~~~~~--~~~~~~~~~~~~ 171 (199)
T cd08416 100 EKFVTLSEGFATYRGFDEAFE-IAGFEPNVVMRVNDIFSLMSMVSGGV----GYALLPG-RIADVY--EDKVQLIPLAEP 171 (199)
T ss_pred CceEEecCCCcHHHHHHHHHH-HcCCCCCceEEeCCHHHHHHHHHcCC----cEEEech-hhhhhc--cCCeEEEECCcc
Confidence 44433 23322 222333 12222223345678888889999887 4444443 222211 111123333322
Q ss_pred -cccCceEEEEcCCCCCchHhHHHH
Q 037761 644 -YRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 644 -~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
.....+.++.+++......+...+
T Consensus 172 ~~~~~~~~~~~~~~~~~~~~~~~~~ 196 (199)
T cd08416 172 YQIRQTIGLVFLRSRERDPNLLALA 196 (199)
T ss_pred cCCceeEEEEEcCCCcCCHHHHHHH
Confidence 123457777777766655555444
No 298
>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=91.74 E-value=9.9 Score=35.56 Aligned_cols=71 Identities=15% Similarity=0.143 Sum_probs=47.4
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..++++.+.+ +.- .+++++... +..+++..|.+|++|+++...... ....+ .+.+.+....+
T Consensus 15 ~l~~~l~~~~~----~~P-~i~l~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~-~~~~l~~~~~~ 77 (199)
T cd08451 15 LVPGLIRRFRE----AYP-DVELTLEEA---------NTAELLEALREGRLDAAFVRPPVA--RSDGL-VLELLLEEPML 77 (199)
T ss_pred ccHHHHHHHHH----HCC-CcEEEEecC---------ChHHHHHHHHCCCccEEEEecCCC--CCCce-eEEEeecccEE
Confidence 45677777777 653 466666653 678899999999999998543221 11222 24677788888
Q ss_pred EEEecccC
Q 037761 490 MLVPVKRD 497 (753)
Q Consensus 490 ~~v~~~~~ 497 (753)
++++...+
T Consensus 78 ~v~~~~~~ 85 (199)
T cd08451 78 VALPAGHP 85 (199)
T ss_pred EEecCCCC
Confidence 88876654
No 299
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=91.70 E-value=6.3 Score=39.44 Aligned_cols=183 Identities=13% Similarity=0.148 Sum_probs=111.3
Q ss_pred ehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCc-ccEEEeeeeeeccc--ce---eeecccccc
Q 037761 411 CMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKK-FDAVVGDISIVASR--TD---YVEFTLPYS 484 (753)
Q Consensus 411 ~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~Di~~~~~~~t~~r--~~---~~~fs~p~~ 484 (753)
--+-++.|+++.+++.|.++++++- ....+...+.+|. +|+.+..-....+. .. .-+...++.
T Consensus 40 L~~~l~~i~~~F~~~~~~~V~~~f~-----------gS~~l~~qIe~Ga~~D~fiSa~~~~~~~l~~~g~~~~~~~~~fa 108 (258)
T COG0725 40 LTDALEEIAKQFEKETGVKVEVEFG-----------GSGALARQIEQGAPADLFISADDAYMDKLEDKGLIYADSRIVFA 108 (258)
T ss_pred hHHHHHHHHHHHHHHHCCeEEEEec-----------chHHHHHHHHcCCCcCEEEECCHHHHHHHHhcCCccCCceEEee
Confidence 3455666666666688766665555 4577888898886 89887543222111 11 122466788
Q ss_pred ccceEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHh
Q 037761 485 ESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKL 564 (753)
Q Consensus 485 ~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL 564 (753)
...+++++++.+... +.++++|
T Consensus 109 ~n~lvl~~~~~~~~~----------------------------------------------------------~~~~~~l 130 (258)
T COG0725 109 GNRLVLAVPKGSKKK----------------------------------------------------------IESLEDL 130 (258)
T ss_pred CCeEEEEEeCCCccC----------------------------------------------------------cccHHHH
Confidence 899999999876644 5558888
Q ss_pred hhc-CCeEEEe------cCchHHHHHHHhhCCC---CCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCC
Q 037761 565 RTE-SHFVGFQ------SGSFVEDFLVKQLNFS---RNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYS 634 (753)
Q Consensus 565 ~~~-~~~~~~~------~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~ 634 (753)
... +.++++. .|.+....++. .+.- ..++..-.+.++.+..|..|+ +|+.+.-.......- ..
T Consensus 131 ~~~~~~~lai~~p~~~P~G~ya~~~l~~-~g~~~~~~~k~v~~~~v~~~l~~V~~G~----ad~g~vy~sd~~~~~--~~ 203 (258)
T COG0725 131 LERPDVRLAIGDPKTVPAGKYAKEALEL-LGLWYTLKDKLVLATNVRQALAYVETGE----ADAGFVYVSDALLSK--KV 203 (258)
T ss_pred hcCcCcEEEecCCCCCCchHHHHHHHHH-hchhhhccccEEecCcHHHHHHHHHcCC----CCeEEEEEEhhhccC--Cc
Confidence 863 5588874 35556666663 2211 235566778889999999999 988776655332211 11
Q ss_pred CCcEEeCcccc-cCceEEEEcCCCC---CchHhHHHHHH
Q 037761 635 SKYTTAGPIYR-TDGLGFAFAKDSP---LVSHFSQAILL 669 (753)
Q Consensus 635 ~~l~~~~~~~~-~~~~~~~~~k~s~---l~~~~n~~i~~ 669 (753)
..+..+++... +..+.+++.+++. ....|-..+..
T Consensus 204 ~~~~~~~~~~~~Pi~y~iav~~~~~~~~~A~~f~~fl~s 242 (258)
T COG0725 204 KIVGVFPEDLHSPIVYPIAVLKNAKNPELAKEFVDFLLS 242 (258)
T ss_pred eEEEEcccccCCCeEEEEEEEcCCCCHHHHHHHHHHHhC
Confidence 12333333322 3456677777655 45555555544
No 300
>cd08427 PBP2_LTTR_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=91.68 E-value=7.3 Score=36.36 Aligned_cols=73 Identities=14% Similarity=0.167 Sum_probs=47.0
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ ... ++++.+... +.+.+++.|.+|++|+++..-... .....+. +.+......
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~l~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~ 76 (195)
T cd08427 13 GLLPRALARLRR----RHP-DLEVHIVPG---------LSAELLARVDAGELDAAIVVEPPF-PLPKDLV-WTPLVREPL 76 (195)
T ss_pred HHhHHHHHHHHH----HCC-CceEEEEeC---------CcHHHHHHHHCCCCCEEEEcCCCC-ccccCce-EEEcccCcE
Confidence 344667777766 654 466666653 678999999999999998532211 1012232 456777888
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
++++++..+
T Consensus 77 ~~v~~~~~p 85 (195)
T cd08427 77 VLIAPAELA 85 (195)
T ss_pred EEEECCCCC
Confidence 888887653
No 301
>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=91.56 E-value=2.5 Score=45.20 Aligned_cols=92 Identities=10% Similarity=0.157 Sum_probs=67.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh
Q 037761 83 VKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 83 ~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
...+.+.++.+|-+++.|+++...+.....+.+.+.+++.|+++.....+..+.+.......+..+++.++|+|+-.|-+
T Consensus 14 l~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 93 (374)
T cd08189 14 LAQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPDPTIENVEAGLALYRENGCDAILAVGGG 93 (374)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 34567778888888998888655544456788999999999877655555556667788889999999999999987654
Q ss_pred H--HHHHHHHHHHH
Q 037761 163 A--LASRLFALVAK 174 (753)
Q Consensus 163 ~--~~~~~~~~a~~ 174 (753)
. |+..++.....
T Consensus 94 S~~D~aK~ia~~~~ 107 (374)
T cd08189 94 SVIDCAKAIAARAA 107 (374)
T ss_pred cHHHHHHHHHHHHh
Confidence 4 66666554433
No 302
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=91.55 E-value=0.76 Score=47.84 Aligned_cols=215 Identities=16% Similarity=0.167 Sum_probs=122.1
Q ss_pred HHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeeccccee-eeccccccccceEEE
Q 037761 413 EIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDY-VEFTLPYSESGVTML 491 (753)
Q Consensus 413 dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~-~~fs~p~~~~~~~~~ 491 (753)
.-++.+++.++++.|-++++++.|.+ . =|.-..++++|+.|.+|+...+......+... --|+.||.....--+
T Consensus 44 ~~~~~fa~~v~ekt~G~l~i~vfP~~-q----LG~~~~~ie~l~~G~id~~~~s~~~l~~~~P~~~v~~lPflf~d~~~~ 118 (332)
T COG1638 44 KAAKKFAELVEEKTGGRLKIEVFPNS-Q----LGGEAEMIEQLRSGTLDIGVVSLGFLAGLVPEFGVFDLPFLFRDEEHA 118 (332)
T ss_pred HHHHHHHHHHHHHhCCeEEEEECCCc-c----cCcHHHHHHHHhcCCeeEEeccchhhcccCCcceeecCCeeeCCHHHH
Confidence 34556666666699988888777631 1 13568999999999999998776655544432 235566654433111
Q ss_pred EecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeE
Q 037761 492 VPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFV 571 (753)
Q Consensus 492 v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~ 571 (753)
-+.-. +..++-+.-..=--++...+.+.....++.++.+ ||.+++|| +|+++
T Consensus 119 ~~~~~-----------------------~~~g~~l~~~~e~~g~~~l~~~~~G~R~~t~~k~---PI~~peDl--kGlki 170 (332)
T COG1638 119 RRVLD-----------------------SEFGEELLKSLEAKGLKGLAFWENGFRQFTSNKR---PIKTPEDL--KGLKI 170 (332)
T ss_pred HHHHc-----------------------cHHHHHHHHHHHHcCCEEEEEecCceeeeecCCC---CCCChHHh--CCCee
Confidence 00000 1111111111111233344444444444443332 69999999 69999
Q ss_pred EEecCchHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHH----HHHhcCCCCcEEeCcccccC
Q 037761 572 GFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIK----VFLKKYSSKYTTAGPIYRTD 647 (753)
Q Consensus 572 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~ 647 (753)
-+.........++ ..+. +..+. ...|.+.+|..|. +|+.-.+...+. |-++++ +...+. ...
T Consensus 171 Rv~~s~~~~~~~~-a~GA---~P~pm-~f~Evy~aLqtGv----VDGqEnp~~~i~~~k~~EVqky---~t~tnH--~~~ 236 (332)
T COG1638 171 RVPQSPLLLAMFK-ALGA---NPTPM-PFAEVYTALQTGV----VDGQENPLSNIYSAKLYEVQKY---LTLTNH--IYL 236 (332)
T ss_pred ecCCCHHHHHHHH-HcCC---CCCCC-CHHHHHHHHHcCC----cccccCCHHHHhhccHHHHhHH---hhhccc--ccc
Confidence 8888888888888 3332 33333 5678999999999 888776654433 122222 111111 122
Q ss_pred ceEEEEcCC--CCCchHhHHHHHHhhhcc
Q 037761 648 GLGFAFAKD--SPLVSHFSQAILLVRENQ 674 (753)
Q Consensus 648 ~~~~~~~k~--s~l~~~~n~~i~~l~~~G 674 (753)
++.+.+.+. ..|-+...++|.+.-...
T Consensus 237 ~~~~~~s~~~w~~L~~e~q~il~~aa~e~ 265 (332)
T COG1638 237 PLAVLVSKAFWDSLPEEDQTILLEAAKEA 265 (332)
T ss_pred ceeeEEcHHHHhcCCHHHHHHHHHHHHHH
Confidence 444556554 237777777776655554
No 303
>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=91.54 E-value=2.3 Score=42.78 Aligned_cols=158 Identities=8% Similarity=-0.037 Sum_probs=85.0
Q ss_pred ecCCC-ChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCC-ccEEeecCCCCCCCCCCCCceEEEecCcH---
Q 037761 6 LLKQF-KDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQ-VPIISFFETSPALSPTEHPFFIRVTQNDS--- 80 (753)
Q Consensus 6 ~~d~~-~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~-vP~is~~a~~~~l~~~~~~~~fr~~p~~~--- 80 (753)
..+.. ++.......++++++ ++.+||+ .+.....++..++..+. +..+...+.. .. |.+........
T Consensus 36 ~~e~~~~~~~~~~~i~~~~~~-g~dlIi~-~g~~~~~~~~~vA~~~p~~~F~~~d~~~---~~---~Nv~~~~~~~~e~~ 107 (258)
T cd06353 36 YVENVPEGADAERVLRELAAQ-GYDLIFG-TSFGFMDAALKVAKEYPDVKFEHCSGYK---TA---PNVGSYFARIYEGR 107 (258)
T ss_pred EEecCCchHhHHHHHHHHHHc-CCCEEEE-CchhhhHHHHHHHHHCCCCEEEECCCCC---CC---CCeeeEechhhHHH
Confidence 33444 778888888889876 8999998 34445555666666553 3333322211 11 33322222222
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEeeCC-cccchHHHHHHHHHhCCeEEEEeeccCCCCch-hhHHHHHHHHhcCCccEEEE
Q 037761 81 LQVKAISAVLQNFSWHEVVLMYEDTN-YGAGFISFLVDELQENDIRISHMSKIPTSAED-FQISKELSKLSTMQTRVFIV 158 (753)
Q Consensus 81 ~~~~a~~~~l~~~~w~~vail~~d~~-~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~-~d~~~~l~~l~~~~~~vIi~ 158 (753)
+.+-.++.++. .-.+|++|..... ........|.+-++..+..+.....+.....+ ..-......+.+.++|+|+.
T Consensus 108 ylaG~~Aa~~t--~t~kVG~I~g~~~~~~~~~~~gF~~G~~~~~p~~~v~~~~~g~~~D~~~a~~~a~~l~~~G~DvI~~ 185 (258)
T cd06353 108 YLAGVVAGKMT--KTNKVGYVAAFPIPEVVRGINAFALGARSVNPDATVKVIWTGSWFDPAKEKEAALALIDQGADVIYQ 185 (258)
T ss_pred HHHHHHHHHhh--cCCcEEEEcCcccHHHHHHHHHHHHHHHHHCCCcEEEEEEecCCCCcHHHHHHHHHHHHCCCcEEEe
Confidence 22222333333 2358999986432 33445566776666544333323333221222 22344556666789998888
Q ss_pred EeChHHHHHHHHHHHHcC
Q 037761 159 HMNTALASRLFALVAKNG 176 (753)
Q Consensus 159 ~~~~~~~~~~~~~a~~~g 176 (753)
.+.. ...++++++.|
T Consensus 186 ~~~~---~g~~~aa~~~g 200 (258)
T cd06353 186 HTDS---PGVIQAAEEKG 200 (258)
T ss_pred cCCC---hHHHHHHHHhC
Confidence 8732 35677888866
No 304
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=91.49 E-value=2.5 Score=45.41 Aligned_cols=88 Identities=14% Similarity=0.053 Sum_probs=65.5
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.+.++.+|.+++.|+.+..-...+..+.+.+.|++.|+.+.....+.++.+.......+..+++.++|+|+-.|-+.
T Consensus 38 ~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~IiavGGGS 117 (395)
T PRK15454 38 SSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIAFGGGS 117 (395)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEEeCChH
Confidence 45677788889888877765444445667889999999999876554455555667788888999999999999988765
Q ss_pred --HHHHHHHH
Q 037761 164 --LASRLFAL 171 (753)
Q Consensus 164 --~~~~~~~~ 171 (753)
|+...+..
T Consensus 118 ~iD~AKaia~ 127 (395)
T PRK15454 118 VLDAAKAVAL 127 (395)
T ss_pred HHHHHHHHHH
Confidence 55555443
No 305
>cd08423 PBP2_LTTR_like_6 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=91.48 E-value=7.9 Score=36.26 Aligned_cols=73 Identities=12% Similarity=0.081 Sum_probs=46.9
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeee--cccceeeeccccccccc
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIV--ASRTDYVEFTLPYSESG 487 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t--~~r~~~~~fs~p~~~~~ 487 (753)
+..+++..+.+ +.. ++++.+... +...++..|.+|++|+++..-... ......+ .+.+.....
T Consensus 14 ~l~~~l~~~~~----~~P-~i~i~~~~~---------~~~~~~~~l~~~~~Dl~i~~~~~~~~~~~~~~~-~~~~l~~~~ 78 (200)
T cd08423 14 LLPPALAALRA----RHP-GLEVRLREA---------EPPESLDALRAGELDLAVVFDYPVTPPPDDPGL-TRVPLLDDP 78 (200)
T ss_pred hhhHHHHHHHH----hCC-CCeEEEEeC---------CHHHHHHHHhcCCccEEEEeccccccCCCCCCc-EEEEeccCc
Confidence 44566666666 654 466666653 567899999999999998532110 1122223 256777888
Q ss_pred eEEEEecccC
Q 037761 488 VTMLVPVKRD 497 (753)
Q Consensus 488 ~~~~v~~~~~ 497 (753)
.++++++..+
T Consensus 79 ~~~~~~~~~p 88 (200)
T cd08423 79 LDLVLPADHP 88 (200)
T ss_pred EEEEecCCCC
Confidence 8888887654
No 306
>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=91.26 E-value=2.8 Score=44.72 Aligned_cols=90 Identities=11% Similarity=0.176 Sum_probs=67.2
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.++++.+|.+++.|+++.........+.+.+.+++.|+++.....+..+.+.......+...+..++|.||-.|.+.
T Consensus 13 ~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGS 92 (370)
T cd08192 13 KELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAALFDEVPPNPTEAAVEAGLAAYRAGGCDGVIAFGGGS 92 (370)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 45677788889899988886555444567889999999998876554455556677888888999999999999876544
Q ss_pred --HHHHHHHHHH
Q 037761 164 --LASRLFALVA 173 (753)
Q Consensus 164 --~~~~~~~~a~ 173 (753)
|+..++....
T Consensus 93 viD~aK~ia~~~ 104 (370)
T cd08192 93 ALDLAKAVALMA 104 (370)
T ss_pred HHHHHHHHHHHH
Confidence 6666665443
No 307
>cd08457 PBP2_OccR The C-terminal substrate-domain of LysR-type transcriptional regulator, OccR, involved in the catabolism of octopine, contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate-domain of LysR-type transcriptional regulator OccR, which is involved in the catabolism of octopine. Opines are low molecular weight compounds found in plant crown gall tumors produced by the parasitic bacterium Agrobacterium. There are at least 30 different opines identified so far. Opines are utilized by tumor-colonizing bacteria as a source of carbon, nitrogen, and energy. In Agrobacterium tumefaciens, OccR protein activates the occQ operon of the Ti plasmid in response to octopine. This operon encodes proteins required for the uptake and catabolism of octopine, an arginine derivative. The occ operon also encodes the TraR protein, which is a quorum-sensing transcriptional regulator of the Ti plasmid tra regulon. This substrate-binding domain shows significant h
Probab=91.19 E-value=13 Score=34.82 Aligned_cols=71 Identities=15% Similarity=0.147 Sum_probs=45.6
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+...++..+.+ +.- .+++.+... ...++...|.+|++|+++...... ...+. ..++.....
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~l~~~~~---------~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~ 74 (196)
T cd08457 13 GFLPRFLAAFLR----LRP-NLHLSLMGL---------SSSQVLEAVASGRADLGIADGPLE---ERQGF-LIETRSLPA 74 (196)
T ss_pred cccHHHHHHHHH----HCC-CeEEEEEec---------CcHHHHHHHHcCCccEEEeccCCC---CCCcE-EEEeccCCe
Confidence 445677777777 664 466666653 457888999999999998533221 12222 345667777
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
+++++...+
T Consensus 75 ~~~~~~~~~ 83 (196)
T cd08457 75 VVAVPMGHP 83 (196)
T ss_pred EEEeeCCCc
Confidence 888876543
No 308
>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=91.10 E-value=17 Score=36.83 Aligned_cols=169 Identities=13% Similarity=0.159 Sum_probs=86.7
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCC-CcHHHHHHhhccCCccEEeecCCCCCCCCCCCC-ceEEEecCcHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIP-AAAPFLVELGEKAQVPIISFFETSPALSPTEHP-FFIRVTQNDSLQVKA 85 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s-~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~-~~fr~~p~~~~~~~a 85 (753)
...+++.-.+....++.+ +|.++|=-... .........+...++|+|........ .....+ .+-.+...+...+..
T Consensus 38 ~~~~~~~~~~~i~~l~~~-~vdgiil~~~~~~~~~~~~~~~~~~~iPvV~~d~~~~~-~~~~~~~~~~~v~~D~~~~~~~ 115 (280)
T cd06315 38 GRGSEAGQAAALNQAIAL-KPDGIVLGGVDAAELQAELELAQKAGIPVVGWHAGPEP-GPIEEPGIFYNVTTDPLAVAEV 115 (280)
T ss_pred CCCCHHHHHHHHHHHHHc-CCCEEEEcCCCHHHHHHHHHHHHHCCCCEEEecCCCCC-CcccCCceeEEecCCHHHHHHH
Confidence 334666555666666655 88887753222 21122333456689999998653111 110011 133456677777788
Q ss_pred HHHHHHHc--CCeEEEEEEeeCC-ccc---chHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc---CCccEE
Q 037761 86 ISAVLQNF--SWHEVVLMYEDTN-YGA---GFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST---MQTRVF 156 (753)
Q Consensus 86 ~~~~l~~~--~w~~vail~~d~~-~g~---~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~---~~~~vI 156 (753)
++++|... |-++++++..... ... ...+.+.+.+++.++ ..................+.++.+ ..+++|
T Consensus 116 ~~~~L~~~~~G~~~i~~i~~~~~~~~~~r~~~~~~~~~a~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai 193 (280)
T cd06315 116 AALYAIANSGGKAGVVIFTDSRFSIAKAKANAMKEIIEACKGCTV--LSIEDVPISRTATRMPALTARLLQRYGDKWTHS 193 (280)
T ss_pred HHHHHHHHcCCCceEEEEeCCCCccHHHHHHHHHHHHHhCCCCEE--EEecccCcchhhhhhHHHHHHHHHhcCccccee
Confidence 88888665 8899998864321 111 223333344333333 111111111111111134444433 236755
Q ss_pred EEEeChHHHHHHHHHHHHcCCCCCC
Q 037761 157 IVHMNTALASRLFALVAKNGMMSKG 181 (753)
Q Consensus 157 i~~~~~~~~~~~~~~a~~~g~~~~~ 181 (753)
+.. +...+..+++.+++.|+..++
T Consensus 194 ~~~-~D~~A~g~~~~l~~~g~~~p~ 217 (280)
T cd06315 194 LAI-NDLYFDYMAPPLASAGRKADE 217 (280)
T ss_pred ccc-chhhhHHhHHHHHHhcccCCC
Confidence 555 444566788899999986543
No 309
>cd08458 PBP2_NocR The C-terminal substrate-domain of LysR-type transcriptional regulator, NocR, involved in the catabolism of nopaline, contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate-domain of LysR-type transcriptional regulator NocR, which is involved in the catabolism of nopaline. Opines are low molecular weight compounds found in plant crown gall tumors produced by the parasitic bacterium Agrobacterium. There are at least 30 different opines identified so far. Opines are utilized by tumor-colonizing bacteria as a source of carbon, nitrogen, and energy. In Agrobacterium tumefaciens, NocR regulates expression of the divergently transcribed nocB and nocR genes of the nopaline catabolism (noc) region. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, an
Probab=90.88 E-value=14 Score=34.72 Aligned_cols=173 Identities=13% Similarity=0.074 Sum_probs=94.7
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..+++..+.+ +.- .+++++... +..++...|.+|++|+++...... ...+. +.++.....+
T Consensus 14 ~l~~~l~~f~~----~~P-~v~i~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~ 75 (196)
T cd08458 14 FMSGVIQTFIA----DRP-DVSVYLDTV---------PSQTVLELVSLQHYDLGISILAGD---YPGLT-TEPVPSFRAV 75 (196)
T ss_pred hhHHHHHHHHH----HCC-CcEEEEecc---------ChHHHHHHHHcCCCCEEEEeccCC---CCCce-EEEeccCceE
Confidence 34566667766 654 466666653 567889999999999998532221 12222 3567777888
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
++++...+.. ....-+++||. +.
T Consensus 76 ~v~~~~hpl~-------------------------------------------------------~~~~i~~~dL~--~~ 98 (196)
T cd08458 76 CLLPPGHRLE-------------------------------------------------------DKETVHATDLE--GE 98 (196)
T ss_pred EEecCCCccc-------------------------------------------------------cCCccCHHHhC--CC
Confidence 8888665321 01134788985 44
Q ss_pred eEEE-ecCch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEe--Cc
Q 037761 570 FVGF-QSGSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTA--GP 642 (753)
Q Consensus 570 ~~~~-~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~--~~ 642 (753)
++.. ..+.. ...++++ .+.........++.......+..|. .-+++.. ......... ++... ..
T Consensus 99 ~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----Gia~l~~-~~~~~~~~~---~~~~~~~~~ 169 (196)
T cd08458 99 SLICLSPVSLLRMQTDAALDS-CGVHCNRRIESSLALNLCDLVSRGM----GVGIVDP-FTADYYSAN---PVIQRSFDP 169 (196)
T ss_pred ccEEecCCCcHHHHHHHHHHH-cCCCcceEEEeccHHHHHHHHHcCC----cEEEECc-hhhhhccCC---CeEEeeCCC
Confidence 4443 22222 2334442 2222222334677888889999987 6665533 322222221 22222 22
Q ss_pred ccccCceEEEEcCCCCCchHhHHHH
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
. ....++++.+++......+...+
T Consensus 170 ~-~~~~~~l~~~~~~~~~~~~~~f~ 193 (196)
T cd08458 170 V-VPYHFAIVLPTDSPPPRLVSEFR 193 (196)
T ss_pred C-ceEEEEEEeeCCCCCCHHHHHHH
Confidence 1 23456777777766555555444
No 310
>TIGR03339 phn_lysR aminoethylphosphonate catabolism associated LysR family transcriptional regulator. This group of sequences represents a number of related clades with numerous examples of members adjacent to operons for the degradation of 2-aminoethylphosphonate (AEP) in Pseudomonas, Ralstonia, Bordetella and Burkholderia species. These are transcriptional regulators of the LysR family which contain a helix-turn-helix (HTH) domain (pfam00126) and a periplasmic substrate-binding protein-like domain (pfam03466).
Probab=90.82 E-value=15 Score=37.20 Aligned_cols=171 Identities=11% Similarity=0.071 Sum_probs=97.2
Q ss_pred ehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceEE
Q 037761 411 CMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTM 490 (753)
Q Consensus 411 ~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 490 (753)
-.+++..+.+ +.. .+++.+... ...+++..|.+|++|+++..-.... ..+. ..|+....+++
T Consensus 99 ~~~~l~~~~~----~~p-~v~l~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~~---~~~~-~~~l~~~~~~l 160 (279)
T TIGR03339 99 VLDLVARFRQ----RYP-GIEVSVRIG---------NSQEVLQALQSYRVDVAVSSEVVDD---PRLD-RVVLGNDPLVA 160 (279)
T ss_pred HHHHHHHHHH----HCC-CcEEEEEEC---------CHHHHHHHHHcCCCcEEEEecccCC---CceE-EEEcCCceEEE
Confidence 3556666665 554 366666653 6788999999999999985322221 2222 36777888899
Q ss_pred EEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCe
Q 037761 491 LVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHF 570 (753)
Q Consensus 491 ~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~ 570 (753)
+++++.+.. ....-+++||. +.+
T Consensus 161 v~s~~~pl~-------------------------------------------------------~~~~i~~~~L~--~~~ 183 (279)
T TIGR03339 161 VVHRQHPLA-------------------------------------------------------ERESVTLEELA--GQP 183 (279)
T ss_pred EECCCCccc-------------------------------------------------------cCCCcCHHHHh--CCC
Confidence 988775432 00134788995 333
Q ss_pred E-EEecCch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc--c
Q 037761 571 V-GFQSGSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP--I 643 (753)
Q Consensus 571 ~-~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~--~ 643 (753)
+ ....+.. ...++.+ .+.........++.......+.+|. .-+++... . ... ..++..+.. .
T Consensus 184 ~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~lp~~-~----~~~-~~~l~~~~l~~~ 252 (279)
T TIGR03339 184 LLMREPGSVTRQTTEEALAA-AGVAPRPALEIGSREAIREAVLAGL----GVSVVSAA-E----VGR-DPRLRVLPIVGA 252 (279)
T ss_pred eEEecCCCChHHHHHHHHHH-cCCCccEEEEeCCHHHHHHHHHcCC----CEEEcchh-h----hcc-CCceEEEECCCC
Confidence 3 3333322 3344442 2333233445678888888888886 44554432 1 111 224554433 2
Q ss_pred cccCceEEEEcCCCCCchHhHHHH
Q 037761 644 YRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 644 ~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
.....++++.+++......+...+
T Consensus 253 ~~~~~~~~~~~~~~~~~~~~~~~i 276 (279)
T TIGR03339 253 EPTMDEYLYCLKERRGARLIAAFL 276 (279)
T ss_pred cccceEEEEEECCCCCCHHHHHHH
Confidence 233467778887766555555444
No 311
>cd08465 PBP2_ToxR The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold. In soil bacterium Burkholderia glumae, ToxR regulates the toxABCDE and toxFGHI operons in the presence of toxoflavin as a coinducer. Additionally, the expression of both operons requires a transcriptional activator, ToxJ, whose expression is regulated by the TofI or TofR quorum-sensing system. The biosynthesis of toxoflavin is suggested to be synthesized in a pathway common to the synthesis of riboflavin. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After
Probab=90.80 E-value=4.4 Score=38.42 Aligned_cols=70 Identities=10% Similarity=0.049 Sum_probs=46.6
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
++..+++..+.+ +.- .+++..... +..+++++|.+|++|+++...... ...+. +.+......
T Consensus 13 ~~l~~~l~~f~~----~~P-~i~l~i~~~---------~~~~~~~~L~~g~~Dl~i~~~~~~---~~~~~-~~~l~~~~~ 74 (200)
T cd08465 13 LVLPALMRQLRA----EAP-GIDLAVSQA---------SREAMLAQVADGEIDLALGVFPEL---PEELH-AETLFEERF 74 (200)
T ss_pred HhhhHHHHHHHH----HCC-CcEEEEecC---------ChHhHHHHHHCCCccEEEeccccC---CcCee-EEEeeeccE
Confidence 455666666666 543 466666653 678999999999999998532221 12233 246667788
Q ss_pred EEEEeccc
Q 037761 489 TMLVPVKR 496 (753)
Q Consensus 489 ~~~v~~~~ 496 (753)
++++++..
T Consensus 75 ~lv~~~~h 82 (200)
T cd08465 75 VCLADRAT 82 (200)
T ss_pred EEEEeCCC
Confidence 88888765
No 312
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=90.74 E-value=2.2 Score=45.72 Aligned_cols=88 Identities=7% Similarity=0.124 Sum_probs=65.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh
Q 037761 83 VKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 83 ~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
...+.+.++.+|.+++.|+++....-.+..+.+.+.+++.|+++.....+..+.+..+....+..+++.++|+||-.|-+
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 97 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIGGG 97 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCh
Confidence 34567788888999998888655554457888999999999877655445445556778888888999999999987765
Q ss_pred H--HHHHHHH
Q 037761 163 A--LASRLFA 170 (753)
Q Consensus 163 ~--~~~~~~~ 170 (753)
. |+...+.
T Consensus 98 S~iD~aK~ia 107 (382)
T PRK10624 98 SPQDTCKAIG 107 (382)
T ss_pred HHHHHHHHHH
Confidence 4 5555544
No 313
>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=90.73 E-value=2 Score=46.61 Aligned_cols=87 Identities=11% Similarity=0.118 Sum_probs=66.0
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.++++.+|.+++.|+++...+.....+.+.+.+++.|+++.....+..+.+.......+..+++.++|+||-.|-+.
T Consensus 12 ~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 91 (414)
T cd08190 12 AEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAVGGGS 91 (414)
T ss_pred HHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCcc
Confidence 45667788899999999987665555567889999999998876554455555667788888889999999999887654
Q ss_pred --HHHHHHH
Q 037761 164 --LASRLFA 170 (753)
Q Consensus 164 --~~~~~~~ 170 (753)
|+...+.
T Consensus 92 viD~AKaia 100 (414)
T cd08190 92 VIDTAKAAN 100 (414)
T ss_pred HHHHHHHHH
Confidence 5555544
No 314
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=90.73 E-value=8.4 Score=40.27 Aligned_cols=182 Identities=9% Similarity=0.014 Sum_probs=102.9
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ +.. ++++.+... +..+++..|.+|++|+++..-.. .....+. ..++.....
T Consensus 106 ~~l~~~l~~f~~----~~P-~i~i~i~~~---------~~~~~~~~L~~g~iDl~i~~~~~--~~~~~l~-~~~l~~~~~ 168 (324)
T PRK12681 106 YALPPVIKGFIE----RYP-RVSLHMHQG---------SPTQIAEAAAKGNADFAIATEAL--HLYDDLI-MLPCYHWNR 168 (324)
T ss_pred HhhHHHHHHHHH----HCC-CcEEEEEeC---------CHHHHHHHHHcCCCCEEEecCcc--cCCCCeE-EEEecccee
Confidence 345667777766 654 467777664 67899999999999999853211 1112232 356677777
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
+++++...+.. ....-+++||. +
T Consensus 169 ~~v~~~~hpl~-------------------------------------------------------~~~~~~~~~L~--~ 191 (324)
T PRK12681 169 SVVVPPDHPLA-------------------------------------------------------KKKKLTIEELA--Q 191 (324)
T ss_pred EEEeCCCChhh-------------------------------------------------------cCCCcCHHHHh--C
Confidence 88887665421 11245788885 4
Q ss_pred CeEEEe-cCchHHHHHHH---hhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC--c
Q 037761 569 HFVGFQ-SGSFVEDFLVK---QLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG--P 642 (753)
Q Consensus 569 ~~~~~~-~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~--~ 642 (753)
.++... .+......+.+ ..+.........++.......+..|. .-+++. ......... .++..+. .
T Consensus 192 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~v~~g~----Gi~~lp-~~~~~~~~~---~~l~~~~~~~ 263 (324)
T PRK12681 192 YPLVTYVFGFTGRSELDTAFNRAGLTPRIVFTATDADVIKTYVRLGL----GVGVIA-SMAVDPVAD---PDLVAIDASH 263 (324)
T ss_pred CCeEeccCCCchHHHHHHHHHHcCCCCceEEEeCCHHHHHHHHHhCC----CEEEee-hhhcccccC---CceEEeecCC
Confidence 444443 23322222221 12322223345678888889999997 555553 322222111 2444443 2
Q ss_pred ccccCceEEEEcCCCCCchHhHHHHHHhhh
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAILLVRE 672 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~ 672 (753)
......++++.+|+.++.......+..+.+
T Consensus 264 ~~~~~~~~l~~~~~~~~~~~~~~fi~~~~~ 293 (324)
T PRK12681 264 LFSHSTTKIGFRRGTFLRSYMYDFIERFAP 293 (324)
T ss_pred CCCceEEEEEEECCchhhHHHHHHHHHHHH
Confidence 233446788889987766655555554443
No 315
>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=90.52 E-value=2.3 Score=45.55 Aligned_cols=89 Identities=12% Similarity=0.199 Sum_probs=66.9
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.++++.++.+++.|+++......+..+.+...+++.|+++.....+..+.+..+....+..+++.++|.|+-.|-+.
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGs 94 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEVTVFDDVEADPPEAVVEAAVEAARAAGADGVIGFGGGS 94 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 45667788888899988886554444567889999999998776554555566677888899999999999999887655
Q ss_pred --HHHHHHHHH
Q 037761 164 --LASRLFALV 172 (753)
Q Consensus 164 --~~~~~~~~a 172 (753)
|+..++...
T Consensus 95 ~iD~aK~ia~~ 105 (376)
T cd08193 95 SMDVAKLVAVL 105 (376)
T ss_pred HHHHHHHHHHH
Confidence 666665443
No 316
>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=90.41 E-value=3.7 Score=43.92 Aligned_cols=91 Identities=11% Similarity=0.188 Sum_probs=67.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh
Q 037761 83 VKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 83 ~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
...+.+.++.++.+++.|+++...+.....+.+.+.+++.|+++.....+..+.+..+....+..++..++|+|+-.|.+
T Consensus 11 l~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IiaiGGG 90 (370)
T cd08551 11 IEKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPNPTLSNVDAAVAAYREEGCDGVIAVGGG 90 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 35667778888889999998655544467788999999998877644445555567788889999998999999987765
Q ss_pred H--HHHHHHHHHH
Q 037761 163 A--LASRLFALVA 173 (753)
Q Consensus 163 ~--~~~~~~~~a~ 173 (753)
. |+..++....
T Consensus 91 s~~D~AK~va~~~ 103 (370)
T cd08551 91 SVLDTAKAIALLA 103 (370)
T ss_pred hHHHHHHHHHHHH
Confidence 4 6666665443
No 317
>cd08453 PBP2_IlvR The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold. The IlvR is an activator of the upstream and divergently transcribed ilvD gene, which encodes dihydroxy acid dehydratase that participates in isoleucine, leucine, and valine biosynthesis. As in the case of other members of the LysR family, the expression of ilvR gene is repressed in the presence of its own gene product. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport
Probab=90.24 E-value=16 Score=34.25 Aligned_cols=73 Identities=19% Similarity=0.066 Sum_probs=46.4
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+...++..+.+ +.- ++++.+... ....+..+|.+|++|+++............+. +.+.....++
T Consensus 14 ~l~~~l~~~~~----~~P-~i~l~i~~~---------~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~~-~~~l~~~~~~ 78 (200)
T cd08453 14 VLPELVRRFRE----AYP-DVELQLREA---------TSDVQLEALLAGEIDAGIVIPPPGASAPPALA-YRPLLSEPLV 78 (200)
T ss_pred HHHHHHHHHHH----hCC-CceEEEEeC---------CHHHHHHHHHcCCCCEEEEecCcccCCCccee-EEEeeeCceE
Confidence 44566666665 654 466766653 56789999999999999853221110112222 4667788888
Q ss_pred EEEecccC
Q 037761 490 MLVPVKRD 497 (753)
Q Consensus 490 ~~v~~~~~ 497 (753)
+++++..+
T Consensus 79 ~v~~~~hp 86 (200)
T cd08453 79 LAVPAAWA 86 (200)
T ss_pred EEEECCCc
Confidence 88887654
No 318
>cd08450 PBP2_HcaR The C-terminal substrate binding domain of LysR-type transcriptional regulator HcaR in involved in 3-phenylpropionic acid catabolism, contains the type2 periplasmic binding fold. HcaR, a member of the LysR family of transcriptional regulators, controls the expression of the hcA1, A2, B, C, and D operon, encoding for the 3-phenylpropionate dioxygenase complex and 3-phenylpropionate-2',3'-dihydrodiol dehydrogenase, that oxidizes 3-phenylpropionate to 3-(2,3-dihydroxyphenyl) propionate. Dioxygenases play an important role in protecting the cell against the toxic effects of dioxygen. The expression of hcaR is negatively auto-regulated, as for other members of the LysR family, and is strongly repressed in the presence of glucose. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, an
Probab=90.19 E-value=16 Score=34.07 Aligned_cols=71 Identities=13% Similarity=0.127 Sum_probs=46.5
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..++++.+.+ +.- .+++++... ...+++..|.+|++|+++...... ...+. +.+.....+
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~l~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~ 74 (196)
T cd08450 13 QWLPEVLPILRE----EHP-DLDVELSSL---------FSPQLAEALMRGKLDVAFMRPEIQ---SDGID-YQLLLKEPL 74 (196)
T ss_pred hhHHHHHHHHHh----hCC-CcEEEEEec---------ChHHHHHHHhcCCccEEEEeCCCC---CCCcE-EEEEEccce
Confidence 344566666666 654 466766653 568899999999999998532211 12222 456777888
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
+++++...+
T Consensus 75 ~~~~~~~~p 83 (196)
T cd08450 75 IVVLPADHR 83 (196)
T ss_pred EEEecCCCC
Confidence 888887654
No 319
>cd08443 PBP2_CysB The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold. CysB is a transcriptional activator of genes involved in sulfate and thiosulfate transport, sulfate reduction, and cysteine synthesis. In Escherichia coli, the regulation of transcription in response to sulfur source is attributed to two transcriptional regulators, CysB and Cbl. CysB, in association with Cbl, downregulates the expression of ssuEADCB operon which is required for the utilization of sulfur from aliphatic sulfonates, in the presence of cysteine. Also, Cbl and CysB together directly function as transcriptional activators of tauABCD genes, which are required for utilization of taurine as sulfur source for growth. Like many other members of the LTTR family, CysB is composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding speci
Probab=90.19 E-value=15 Score=34.53 Aligned_cols=178 Identities=10% Similarity=0.050 Sum_probs=101.4
Q ss_pred eeeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccc
Q 037761 408 TGFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESG 487 (753)
Q Consensus 408 ~G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~ 487 (753)
..+..+++..+.+ +.- ++++.+... +...++..|.+|++|+++..-... ....+. +.++....
T Consensus 12 ~~~l~~~l~~f~~----~~P-~~~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~~-~~~l~~~~ 74 (198)
T cd08443 12 RYVLPPVIKGFIE----RYP-RVSLQMHQG---------SPTQIAEMVSKGLVDFAIATEALH--DYDDLI-TLPCYHWN 74 (198)
T ss_pred eeECcHHHHHHHH----HCC-CeEEEEEeC---------CHHHHHHHHHCCCccEEEEecccc--ccCCce-Eeeeeece
Confidence 3556788888877 654 466666653 667899999999999998432211 112232 45677778
Q ss_pred eEEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhc
Q 037761 488 VTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTE 567 (753)
Q Consensus 488 ~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~ 567 (753)
.+++++...+.. ....-+++||.
T Consensus 75 ~~~v~~~~hpl~-------------------------------------------------------~~~~i~~~~l~-- 97 (198)
T cd08443 75 RCVVVKRDHPLA-------------------------------------------------------DKQSISIEELA-- 97 (198)
T ss_pred EEEEEcCCCccc-------------------------------------------------------cCCCCCHHHHh--
Confidence 888888665421 01134788995
Q ss_pred CCeEEE-ecCchH----HHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC-
Q 037761 568 SHFVGF-QSGSFV----EDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG- 641 (753)
Q Consensus 568 ~~~~~~-~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~- 641 (753)
+.++.. ..+... ..++.+ .+.........++.......+..|. .-+++... ..... . ..++..+.
T Consensus 98 ~~~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----Gia~~p~~-~~~~~-~--~~~l~~~~~ 168 (198)
T cd08443 98 TYPIVTYTFGFTGRSELDTAFNR-AGLTPNIVLTATDADVIKTYVRLGL----GVGVIASM-AYDPV-D--DPDLVIRDA 168 (198)
T ss_pred cCCEEEecCCccHHHHHHHHHHH-cCCCceEEEEECCHHHHHHHHHcCC----cEEEeecc-ccccc-C--CCCEEEEEc
Confidence 444433 333222 233332 2322223345678888999999997 66666432 22211 1 12444442
Q ss_pred -cccccCceEEEEcCCCCCchHhHHHHH
Q 037761 642 -PIYRTDGLGFAFAKDSPLVSHFSQAIL 668 (753)
Q Consensus 642 -~~~~~~~~~~~~~k~s~l~~~~n~~i~ 668 (753)
+......++++.+|+..+.......+.
T Consensus 169 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 (198)
T cd08443 169 RDLFPWSVTKIAFRRGTFLRSYMYDFIQ 196 (198)
T ss_pred ccccCceeeeeEEEcCCcCCHHHHHHHh
Confidence 222233466778887776666655443
No 320
>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=90.06 E-value=4.3 Score=37.87 Aligned_cols=101 Identities=8% Similarity=0.008 Sum_probs=67.2
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhC--CeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEE
Q 037761 81 LQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQEN--DIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIV 158 (753)
Q Consensus 81 ~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~ 158 (753)
.....+.+.+...++ +++++....+ ..+.+.+.+++. |+.++....-+ .+..+...+++.|++++||+|++
T Consensus 35 dl~~~l~~~~~~~~~-~ifllG~~~~----~~~~~~~~l~~~yP~l~ivg~~~g~--f~~~~~~~i~~~I~~~~pdiv~v 107 (172)
T PF03808_consen 35 DLFPDLLRRAEQRGK-RIFLLGGSEE----VLEKAAANLRRRYPGLRIVGYHHGY--FDEEEEEAIINRINASGPDIVFV 107 (172)
T ss_pred HHHHHHHHHHHHcCC-eEEEEeCCHH----HHHHHHHHHHHHCCCeEEEEecCCC--CChhhHHHHHHHHHHcCCCEEEE
Confidence 345566666665554 8888887654 344455555554 66776554422 24668888999999999999999
Q ss_pred EeChHHHHHHHHHHHHcCCCCCCEEEEEcCccc
Q 037761 159 HMNTALASRLFALVAKNGMMSKGYTWIVTACLS 191 (753)
Q Consensus 159 ~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~~ 191 (753)
....+-.-.++.+.++.. +..+|+..++..
T Consensus 108 glG~PkQE~~~~~~~~~l---~~~v~i~vG~~~ 137 (172)
T PF03808_consen 108 GLGAPKQERWIARHRQRL---PAGVIIGVGGAF 137 (172)
T ss_pred ECCCCHHHHHHHHHHHHC---CCCEEEEECchh
Confidence 988776677777666643 233777776543
No 321
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=89.81 E-value=6.5 Score=40.87 Aligned_cols=71 Identities=10% Similarity=0.142 Sum_probs=48.3
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
++..+++..+.+ +.- ++++.+... +...++.+|.+|++|+++...... ...+. ..++....+
T Consensus 125 ~~l~~~l~~f~~----~~P-~i~l~i~~~---------~~~~~~~~l~~g~~Di~i~~~~~~---~~~l~-~~~l~~~~~ 186 (314)
T PRK09508 125 RLTSQIYNRIEQ----IAP-NIHVVFKSS---------LNQNIEHQLRYQETEFVISYEEFD---RPEFT-SVPLFKDEL 186 (314)
T ss_pred HHHHHHHHHHHH----hCC-CcEEEEEeC---------cchhHHHHHhcCCccEEEecCCCC---ccccc-eeeeecCce
Confidence 455777777777 653 466666653 568899999999999998643221 22233 346778888
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
+++++...+
T Consensus 187 ~lv~~~~hp 195 (314)
T PRK09508 187 VLVASKNHP 195 (314)
T ss_pred EEEEcCCCC
Confidence 999887754
No 322
>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=89.76 E-value=1.9 Score=46.02 Aligned_cols=89 Identities=12% Similarity=0.218 Sum_probs=69.3
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.+.++.+| |+.||++.........+.+.+.+++.|+++.....+....+..+....+..+++.++|.||-.|.+.
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 89 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSKSGLVDRVLDALEEAGIEVQVFDGVGPNPTLEDVDEAAEQARKFGADCIIAIGGGS 89 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHHHTHHHHHHHHHHHTTCEEEEEEEESSS-BHHHHHHHHHHHHHTTSSEEEEEESHH
T ss_pred HHHHHHHHhcC--CEEEEECchHHhCccHHHHHHHHhhCceEEEEEecCCCCCcHHHHHHHHHHHHhcCCCEEEEcCCCC
Confidence 45666777777 9989987633344478999999999999987777677677788999999999999999999998866
Q ss_pred --HHHHHHHHHHH
Q 037761 164 --LASRLFALVAK 174 (753)
Q Consensus 164 --~~~~~~~~a~~ 174 (753)
++.+.+..+..
T Consensus 90 ~~D~aK~va~~~~ 102 (366)
T PF00465_consen 90 VMDAAKAVALLLA 102 (366)
T ss_dssp HHHHHHHHHHHHT
T ss_pred cCcHHHHHHhhcc
Confidence 66666655554
No 323
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=89.70 E-value=15 Score=38.20 Aligned_cols=178 Identities=10% Similarity=-0.040 Sum_probs=98.5
Q ss_pred ehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceEE
Q 037761 411 CMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTM 490 (753)
Q Consensus 411 ~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 490 (753)
..+++..+.+ +.- ++++++... .-.+++..|.+|++|+++..-. .....+. ..++.....++
T Consensus 104 l~~~l~~~~~----~~P-~i~l~~~~~---------~~~~~~~~L~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~l 165 (317)
T PRK15421 104 LTPALENFHK----NWP-QVEMDFKSG---------VTFDPQPALQQGELDLVMTSDI---LPRSGLH-YSPMFDYEVRL 165 (317)
T ss_pred HHHHHHHHHH----HCC-CceEEEEeC---------ccHHHHHHHHCCCcCEEEecCc---ccCCCce-EEEeccceEEE
Confidence 3556666666 543 456666543 4578899999999999985322 1122333 36777888889
Q ss_pred EEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCe
Q 037761 491 LVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHF 570 (753)
Q Consensus 491 ~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~ 570 (753)
+++...+.. ....-+++||. +.+
T Consensus 166 v~~~~hpl~-------------------------------------------------------~~~~i~~~~L~--~~p 188 (317)
T PRK15421 166 VLAPDHPLA-------------------------------------------------------AKTRITPEDLA--SET 188 (317)
T ss_pred EEcCCCCcc-------------------------------------------------------ccCcCCHHHhC--CCc
Confidence 988775432 11245788995 444
Q ss_pred EEEe-cCc----hHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeC-ccc
Q 037761 571 VGFQ-SGS----FVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAG-PIY 644 (753)
Q Consensus 571 ~~~~-~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~-~~~ 644 (753)
+... .+. ..+.++. ..+.. .++...++.......+..|. .-+++.. ......... +.+.+.. ...
T Consensus 189 ~i~~~~~~~~~~~~~~~~~-~~~~~-~~~~~~~~~~~~~~~v~~g~----Gi~i~p~-~~~~~~~~~--~~l~~~~~~~~ 259 (317)
T PRK15421 189 LLIYPVQRSRLDVWRHFLQ-PAGVS-PSLKSVDNTLLLIQMVAARM----GIAALPH-WVVESFERQ--GLVVTKTLGEG 259 (317)
T ss_pred EEecCCchhhHHHHHHHHH-HhCCC-CceeecCCHHHHHHHHHhCC----cEEEecc-hhcchhhcC--CcEEEeecCCc
Confidence 4432 221 1223333 22332 23334677788889999987 5555443 322222221 1333321 121
Q ss_pred ccCceEEEEcCCCCCchHhHHHHHHhhh
Q 037761 645 RTDGLGFAFAKDSPLVSHFSQAILLVRE 672 (753)
Q Consensus 645 ~~~~~~~~~~k~s~l~~~~n~~i~~l~~ 672 (753)
....+.++.+++.++.......+..+++
T Consensus 260 ~~~~~~~~~~~~~~~~~~~~~fi~~l~~ 287 (317)
T PRK15421 260 LWSRLYAAVRDGEQRQPVTEAFIRSARN 287 (317)
T ss_pred ceeEEEEEEEcCCCCChHHHHHHHHHHH
Confidence 2235667777777666666666555443
No 324
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=89.66 E-value=16 Score=37.84 Aligned_cols=180 Identities=7% Similarity=-0.016 Sum_probs=98.8
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..+++..+.+ ..- ++++.+... +-..++..|.+|++|+++...... ...+. ..+.+.....
T Consensus 108 ~l~~~l~~~~~----~~P-~v~i~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~ 169 (309)
T PRK11013 108 LLPGLCQPFLA----RYP-DVSLNIVPQ---------ESPLLEEWLSAQRHDLGLTETLHT---PAGTE-RTELLTLDEV 169 (309)
T ss_pred hHHHHHHHHHH----HCC-CCeEEEEeC---------CHHHHHHHHHcCCCCEEEEcCCCC---CCCce-eeeecceeEE
Confidence 44566666666 553 466666654 557788999999999998532211 11122 3455566677
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
+++++.++.. ....-+++||. ..
T Consensus 170 ~~~~~~~pl~-------------------------------------------------------~~~~i~~~dL~--~~ 192 (309)
T PRK11013 170 CVLPAGHPLA-------------------------------------------------------AKKVLTPDDFA--GE 192 (309)
T ss_pred EEEcCCCccc-------------------------------------------------------cCCccCHHHHC--CC
Confidence 7777665421 11234788994 54
Q ss_pred eEEE-ecCchH----HHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCccc
Q 037761 570 FVGF-QSGSFV----EDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIY 644 (753)
Q Consensus 570 ~~~~-~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~ 644 (753)
++.. ..++.. +.++.. .+.........++.......+..|. .-+++.... ...... .++.+.+...
T Consensus 193 ~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----Gv~~~p~~~-~~~~~~---~~l~~~~~~~ 263 (309)
T PRK11013 193 NFISLSRTDSYRQLLDQLFAE-HGVKRRMVVETHSAASVCAMVRAGV----GVSIVNPLT-ALDYAG---SGLVVRRFSI 263 (309)
T ss_pred cEEeecCCCcHHHHHHHHHHH-cCCCcceEEEeccHHHHHHHHHcCC----eEEEeChhh-hccccC---CCEEEEeCCC
Confidence 4443 333332 334442 2232223344567777888888886 555553322 222211 1344433221
Q ss_pred -ccCceEEEEcCCCCCchHhHHHHHHhhhc
Q 037761 645 -RTDGLGFAFAKDSPLVSHFSQAILLVREN 673 (753)
Q Consensus 645 -~~~~~~~~~~k~s~l~~~~n~~i~~l~~~ 673 (753)
....+.++.+|+.+........+..+.+.
T Consensus 264 ~~~~~~~l~~~~~~~~~~~~~~f~~~i~~~ 293 (309)
T PRK11013 264 SVPFTVSLIRPLHRPASALVDAFSEHLQQQ 293 (309)
T ss_pred CCceeEEEEecCCCCCCHHHHHHHHHHHHH
Confidence 22457778888877766666666655443
No 325
>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=89.61 E-value=13 Score=34.79 Aligned_cols=129 Identities=12% Similarity=0.075 Sum_probs=77.8
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
.++-+.|+..|++++.++++.++|+-..+ ..-+-+..++|+|.... +......++.+
T Consensus 16 ~~~~e~~v~~a~~~~~~~g~dViIsRG~t-----a~~lr~~~~iPVV~I~~------------------s~~Dil~al~~ 72 (176)
T PF06506_consen 16 EASLEEAVEEARQLLESEGADVIISRGGT-----AELLRKHVSIPVVEIPI------------------SGFDILRALAK 72 (176)
T ss_dssp E--HHHHHHHHHHHHTTTT-SEEEEEHHH-----HHHHHCC-SS-EEEE---------------------HHHHHHHHHH
T ss_pred EecHHHHHHHHHHhhHhcCCeEEEECCHH-----HHHHHHhCCCCEEEECC------------------CHhHHHHHHHH
Confidence 45678999999999656699999974332 33344566899998532 23334444444
Q ss_pred HHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHH
Q 037761 89 VLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRL 168 (753)
Q Consensus 89 ~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~ 168 (753)
+- .++ ++++++...+... ..+.+.+.+ |+.+.... +. +..|+...+.++++.+.++|+-.+. .
T Consensus 73 a~-~~~-~~Iavv~~~~~~~--~~~~~~~ll---~~~i~~~~-~~---~~~e~~~~i~~~~~~G~~viVGg~~------~ 135 (176)
T PF06506_consen 73 AK-KYG-PKIAVVGYPNIIP--GLESIEELL---GVDIKIYP-YD---SEEEIEAAIKQAKAEGVDVIVGGGV------V 135 (176)
T ss_dssp CC-CCT-SEEEEEEESS-SC--CHHHHHHHH---T-EEEEEE-ES---SHHHHHHHHHHHHHTT--EEEESHH------H
T ss_pred HH-hcC-CcEEEEecccccH--HHHHHHHHh---CCceEEEE-EC---CHHHHHHHHHHHHHcCCcEEECCHH------H
Confidence 33 334 8999999866542 255566655 55554332 22 3679999999999999998876532 3
Q ss_pred HHHHHHcCC
Q 037761 169 FALVAKNGM 177 (753)
Q Consensus 169 ~~~a~~~g~ 177 (753)
.+.|++.|+
T Consensus 136 ~~~A~~~gl 144 (176)
T PF06506_consen 136 CRLARKLGL 144 (176)
T ss_dssp HHHHHHTTS
T ss_pred HHHHHHcCC
Confidence 566778886
No 326
>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=89.60 E-value=2.9 Score=44.74 Aligned_cols=89 Identities=8% Similarity=0.131 Sum_probs=65.2
Q ss_pred HHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh
Q 037761 83 VKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 83 ~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
...+.+.++.+|.+++.|+++....-.+..+.+.+.+++.|+++.....+..+.+.......+..+++.++|+|+-.|-+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiaiGGG 96 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPNPTITVVKAGVAAFKASGADYLIAIGGG 96 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCh
Confidence 34566778888989998888655444457788999999999877655445545566788888888999999999988765
Q ss_pred H--HHHHHHHH
Q 037761 163 A--LASRLFAL 171 (753)
Q Consensus 163 ~--~~~~~~~~ 171 (753)
. |+.+.+..
T Consensus 97 SviD~aKaia~ 107 (379)
T TIGR02638 97 SPIDTAKAIGI 107 (379)
T ss_pred HHHHHHHHHHH
Confidence 4 55554443
No 327
>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=89.56 E-value=3.2 Score=44.44 Aligned_cols=87 Identities=14% Similarity=0.188 Sum_probs=65.7
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.++++.++.+++.|+++...+..+..+.+.+.+++.|+++.....+..+.+.......+..++..++|+|+-.|.+.
T Consensus 12 ~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 91 (375)
T cd08194 12 DETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSEPTDESVEEGVKLAKEGGCDVIIALGGGS 91 (375)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 44566777778899999986555544577889999999998876555566566677888889999999999999887654
Q ss_pred --HHHHHHH
Q 037761 164 --LASRLFA 170 (753)
Q Consensus 164 --~~~~~~~ 170 (753)
|+...+.
T Consensus 92 ~~D~AKaia 100 (375)
T cd08194 92 PIDTAKAIA 100 (375)
T ss_pred HHHHHHHHH
Confidence 5555554
No 328
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=89.20 E-value=20 Score=37.48 Aligned_cols=182 Identities=9% Similarity=-0.020 Sum_probs=104.2
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..++++.+.+ +.- ++++.+... ...+++++|.+|++|+++..-.... ..... ..|++....
T Consensus 106 ~~l~~~l~~f~~----~~P-~v~i~l~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~~--~~~~~-~~~l~~~~~ 168 (327)
T PRK12680 106 FVLPPAVAQIKQ----AYP-QVSVHLQQA---------AESAALDLLGQGDADIAIVSTAGGE--PSAGI-AVPLYRWRR 168 (327)
T ss_pred HhhHHHHHHHHH----HCC-CcEEEEEeC---------ChHHHHHHHHCCCCcEEEEecCCCC--CCcce-EEEeeccce
Confidence 345677777777 664 466766653 6789999999999999984321111 11222 467778888
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
+++++...+.. . ....-+++||. +
T Consensus 169 ~l~~~~~hpl~-----------------------------------------------------~-~~~~~~~~dl~--~ 192 (327)
T PRK12680 169 LVVVPRGHALD-----------------------------------------------------T-PRRAPDMAALA--E 192 (327)
T ss_pred EEEEeCCChhh-----------------------------------------------------c-cCCCCCHHHHh--c
Confidence 88888765421 0 01134788995 4
Q ss_pred CeEEE-ecCch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCcc
Q 037761 569 HFVGF-QSGSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPI 643 (753)
Q Consensus 569 ~~~~~-~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~ 643 (753)
.++.. ..+.. ...++.+ .+..........+.......+..|. .-+++..... . .....+..++..
T Consensus 193 ~~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~G~----Gia~lp~~~~-~----~~~~~l~~~p~~ 262 (327)
T PRK12680 193 HPLISYESSTRPGSSLQRAFAQ-LGLEPSIALTALDADLIKTYVRAGL----GVGLLAEMAV-N----ANDEDLRAWPAP 262 (327)
T ss_pred CCEEEecCCCchHHHHHHHHHH-CCCCCcEEEEECCHHHHHHHHHcCC----CEEEeechhc-c----CCCCCeEEEECC
Confidence 44433 33332 2334442 2222223345678888899999997 5555544322 1 111234444322
Q ss_pred --cccCceEEEEcCCCCCchHhHHHHHHhhhc
Q 037761 644 --YRTDGLGFAFAKDSPLVSHFSQAILLVREN 673 (753)
Q Consensus 644 --~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~ 673 (753)
.....+.++.+++..+.+.+...+..+.+.
T Consensus 263 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 294 (327)
T PRK12680 263 APIAECIAWAVLPRDRVLRDYALELVHVLAPQ 294 (327)
T ss_pred CCCCCceEEEEEeCCchhHHHHHHHHHHhcCC
Confidence 122233455677777888888777766444
No 329
>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=89.09 E-value=14 Score=36.66 Aligned_cols=148 Identities=8% Similarity=-0.009 Sum_probs=89.1
Q ss_pred HHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHH--cCCe
Q 037761 19 AVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQN--FSWH 96 (753)
Q Consensus 19 a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~--~~w~ 96 (753)
..+++. .+|.++|=-.+..........+...++|+|..+...+. ...++ .+..++...+..+++.+.. .|-+
T Consensus 45 ~~~~~~-~~vdGvIi~~~~~~~~~~~~~~~~~~~PvV~i~~~~~~--~~~~~---~V~~D~~~~~~~a~~~L~~~~~G~~ 118 (247)
T cd06276 45 IISNTK-GKYSGYVVMPHFKNEIQYFLLKKIPKEKLLILDHSIPE--GGEYS---SVAQDFEKAIYNALQEGLEKLKKYK 118 (247)
T ss_pred HHHHHh-cCCCEEEEecCCCCcHHHHHHhccCCCCEEEEcCcCCC--CCCCC---eEEEccHHHHHHHHHHHHHHhcCCC
Confidence 334443 47777663111111122444556678999987643211 11222 3566777788888888877 8999
Q ss_pred EEEEEEeeC-CcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHHc
Q 037761 97 EVVLMYEDT-NYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAKN 175 (753)
Q Consensus 97 ~vail~~d~-~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~~ 175 (753)
++++|.... ..+....+.+++.+++.|+.... .. . ..+ ... .++++ +++.+...+..+++.+++.
T Consensus 119 ~Ia~i~~~~~~~~~~R~~gf~~~l~~~g~~~~~---~~-~--~~~------~~~-~~~~a-i~~~~d~~A~g~~~~l~~~ 184 (247)
T cd06276 119 KLILVFPNKTAIPKEIKRGFERFCKDYNIETEI---IN-D--YEN------REI-EKGDL-YIILSDTDLVFLIKKARES 184 (247)
T ss_pred EEEEEecCccHhHHHHHHHHHHHHHHcCCCccc---cc-c--cch------hhc-cCCcE-EEEeCHHHHHHHHHHHHHc
Confidence 999997543 34556678899999999976432 11 0 001 000 13465 4444666677899999999
Q ss_pred CCCCCCEEEEE
Q 037761 176 GMMSKGYTWIV 186 (753)
Q Consensus 176 g~~~~~~~wi~ 186 (753)
|+..++.+=|.
T Consensus 185 g~~iP~disvi 195 (247)
T cd06276 185 GLLLGKDIGII 195 (247)
T ss_pred CCcCCceeEEE
Confidence 98666544433
No 330
>cd08449 PBP2_XapR The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold. In Escherichia coli, XapR is a positive regulator for the expression of xapA gene, encoding xanthosine phosphorylase, and xapB gene, encoding a polypeptide similar to the nucleotide transport protein NupG. As an operon, the expression of both xapA and xapB is fully dependent on the presence of both XapR and the inducer xanthosine. Expression of the xapR is constitutive but not auto-regulated, unlike many other LysR family proteins. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their
Probab=88.94 E-value=20 Score=33.40 Aligned_cols=73 Identities=5% Similarity=-0.039 Sum_probs=46.5
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+...++..+.+ +.- ++++.+... ...+.++.|.+|++|+++....... +...+. ..++.....
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~i~~~~~---------~~~~~~~~l~~~~~Dl~i~~~~~~~-~~~~~~-~~~l~~~~~ 76 (197)
T cd08449 13 GGLGPALRRFKR----QYP-NVTVRFHEL---------SPEAQKAALLSKRIDLGFVRFADTL-NDPPLA-SELLWREPM 76 (197)
T ss_pred hhHHHHHHHHHH----HCC-CeEEEEEEC---------CHHHHHHHHhCCCccEEEecccccC-CCCCce-EEEEEEeeE
Confidence 344566666666 653 466666653 6788999999999999985332110 112222 356777788
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
+++++...+
T Consensus 77 ~~v~~~~~~ 85 (197)
T cd08449 77 VVALPEEHP 85 (197)
T ss_pred EEEecCCCC
Confidence 888876643
No 331
>PRK11482 putative DNA-binding transcriptional regulator; Provisional
Probab=88.86 E-value=17 Score=37.84 Aligned_cols=176 Identities=10% Similarity=0.047 Sum_probs=95.2
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+...++..+.+ ..- ++++... .++++++.|.+|++|+++..... ....+. +.+.....++
T Consensus 131 ~l~~~l~~f~~----~~P-~i~i~~~-----------~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~ 190 (317)
T PRK11482 131 VMPVIYQAIKT----HYP-QLLLRNI-----------PISDAENQLSQFQTDLIIDTHSC---SNRTIQ-HHVLFTDNVV 190 (317)
T ss_pred HHHHHHHHHHH----HCC-CCEEEEe-----------cchhHHHHHHCCCcCEEEeccCC---CCCceE-EEEEecCcEE
Confidence 44666666666 553 3444433 45688999999999999854322 223343 3577888889
Q ss_pred EEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC
Q 037761 490 MLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH 569 (753)
Q Consensus 490 ~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~ 569 (753)
++++..++.. .. ..+++||...+.
T Consensus 191 lv~~~~hpl~-------------------------------------------------------~~-~~~~~dL~~~~~ 214 (317)
T PRK11482 191 LVCRQGHPLL-------------------------------------------------------SL-EDDEETLDNAEH 214 (317)
T ss_pred EEEeCCCCcc-------------------------------------------------------CC-CCCHHHHhhCCC
Confidence 9988776532 11 238999964333
Q ss_pred eEEEec-C--chHHHHHHHhhCCCCCce-ecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc-cc
Q 037761 570 FVGFQS-G--SFVEDFLVKQLNFSRNQT-RPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP-IY 644 (753)
Q Consensus 570 ~~~~~~-~--~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~-~~ 644 (753)
.+-... + ......+.+ .....++ ....+.......+..|. .-+ +.....+....... ++..++- ..
T Consensus 215 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~v~~g~----gv~-ilp~~~~~~~~~~~--~l~~~~l~~~ 285 (317)
T PRK11482 215 TLLLPEGQNFSGLRQRLQE--MFPDRQISFSSYNILTIAALIASSD----MLG-IMPSRFYNLFSRCW--PLEKLPFPSL 285 (317)
T ss_pred EEEecCCCCcchHHHHHHH--hCCCceEEEEcCcHHHHHHHHHcCC----eeE-EeHHHHHHHHHhhC--CceEecCCCC
Confidence 222222 2 123444443 2222222 23456667788888886 444 43333333222221 3443331 11
Q ss_pred --ccCceEEEEcCCCCCchHhHHHHHHh
Q 037761 645 --RTDGLGFAFAKDSPLVSHFSQAILLV 670 (753)
Q Consensus 645 --~~~~~~~~~~k~s~l~~~~n~~i~~l 670 (753)
...+++++.++++.....+...+..+
T Consensus 286 ~~~~~~~~l~~~~~~~~~~~~~~~~~~i 313 (317)
T PRK11482 286 NEEQIDFSLHYNKLSLRDPVLENVIDVI 313 (317)
T ss_pred CCCCeEEEEEecccccCCcHHHHHHHHH
Confidence 23467778877765555555544443
No 332
>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=88.46 E-value=6.1 Score=42.37 Aligned_cols=88 Identities=5% Similarity=0.122 Sum_probs=64.5
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCc-ccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNY-GAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~-g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
..+.++++.+| +++.||++...+ .....+.+.+.+++.|+++.....+.++.+..+....+..+++.++|+|+-.|-+
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 44666777777 899888865542 4567788999999999887655455556667788888888999999999987664
Q ss_pred H--HHHHHHHHH
Q 037761 163 A--LASRLFALV 172 (753)
Q Consensus 163 ~--~~~~~~~~a 172 (753)
. |+...+...
T Consensus 94 S~iD~aK~ia~~ 105 (380)
T cd08185 94 SSMDTAKAIAFM 105 (380)
T ss_pred cHHHHHHHHHHH
Confidence 4 666655443
No 333
>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=88.40 E-value=22 Score=33.23 Aligned_cols=70 Identities=14% Similarity=0.133 Sum_probs=46.2
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..+++..+.+ +.. .+++.+... .+..+...|.+|++|+++...... ...+. +.++.....+
T Consensus 15 ~l~~~i~~~~~----~~P-~v~l~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~ 76 (198)
T cd08446 15 TVPRLLRAFLT----ARP-DVTVSLHNM---------TKDEQIEALRAGRIHIGFGRFYPV---EPDIA-VENVAQERLY 76 (198)
T ss_pred HHHHHHHHHHH----HCC-CeEEEEeeC---------CHHHHHHHHHCCCccEEEEecCCC---CCCce-eEEeeeccEE
Confidence 44566666666 654 466666653 678899999999999998532221 12222 4567778888
Q ss_pred EEEecccC
Q 037761 490 MLVPVKRD 497 (753)
Q Consensus 490 ~~v~~~~~ 497 (753)
++++...+
T Consensus 77 ~v~~~~~p 84 (198)
T cd08446 77 LAVPKSHP 84 (198)
T ss_pred EEEeCCCC
Confidence 88887654
No 334
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=88.25 E-value=3.7 Score=41.55 Aligned_cols=97 Identities=14% Similarity=0.140 Sum_probs=78.5
Q ss_pred CCCCceEEEecCcHHHHHHHHH----HHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHH
Q 037761 67 TEHPFFIRVTQNDSLQVKAISA----VLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQIS 142 (753)
Q Consensus 67 ~~~~~~fr~~p~~~~~~~a~~~----~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~ 142 (753)
..-++-|-+.|+....+.+... .++..|.|++.++++.+.--....+-..+.++++|+++..........+...+.
T Consensus 38 k~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~~vyD~v~~ePtv~s~~ 117 (465)
T KOG3857|consen 38 KMMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINVEVYDKVQPEPTVGSVT 117 (465)
T ss_pred ccceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCceEEecCccCCCchhhHH
Confidence 4456778888888877766443 568899999999998777777778889999999999987776666667788999
Q ss_pred HHHHHHhcCCccEEEEEeChH
Q 037761 143 KELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 143 ~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..++-+|+.+.|.++..+.+.
T Consensus 118 ~alefak~~~fDs~vaiGGGS 138 (465)
T KOG3857|consen 118 AALEFAKKKNFDSFVAIGGGS 138 (465)
T ss_pred HHHHHHHhcccceEEEEcCcc
Confidence 999999999999988876654
No 335
>PRK10677 modA molybdate transporter periplasmic protein; Provisional
Probab=88.02 E-value=11 Score=37.88 Aligned_cols=74 Identities=9% Similarity=0.126 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCc-ccEEEeeeeeecccc---eeeec-c-cccccc
Q 037761 413 EIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKK-FDAVVGDISIVASRT---DYVEF-T-LPYSES 486 (753)
Q Consensus 413 dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~Di~~~~~~~t~~r~---~~~~f-s-~p~~~~ 486 (753)
..++.+++.++++.|.++++.+-. ...+..++.+|. +|+.+.+-....++. ..+.. + .++...
T Consensus 39 ~~~~~l~~~Fe~~~g~~v~~~~~~-----------Sg~l~~qi~~g~~~Dv~~~a~~~~~~~l~~~gl~~~~~~~~~a~n 107 (257)
T PRK10677 39 NALQDIAAQYKKEKGVDVVSSFAS-----------SSTLARQIEQGAPADLFISADQKWMDYAVDKKAIDTATRYTLLGN 107 (257)
T ss_pred HHHHHHHHHHHhhhCCeEEEEecc-----------cHHHHHHHHcCCCCCEEEECCHHHHHHHHHCCCCCCcchheeecC
Confidence 567777776766887655554443 346777888877 999986532211111 22221 1 357888
Q ss_pred ceEEEEecccC
Q 037761 487 GVTMLVPVKRD 497 (753)
Q Consensus 487 ~~~~~v~~~~~ 497 (753)
.++++++++.+
T Consensus 108 ~lvl~~~~~~~ 118 (257)
T PRK10677 108 SLVVVAPKASE 118 (257)
T ss_pred EEEEEEECCCc
Confidence 88999998754
No 336
>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=87.75 E-value=5 Score=42.94 Aligned_cols=88 Identities=13% Similarity=0.161 Sum_probs=63.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh
Q 037761 83 VKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 83 ~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
...+.++++.+|.+++.|+++.........+.+.+.+++.|+.+.....+..+.+..+....+..+++.++|+|+-.|-+
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 95 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPNPRDEEVMAGAELYLENGCDVIIAVGGG 95 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 34566778888889999888655444456788999999988876554444445556678888888999999999988765
Q ss_pred H--HHHHHHH
Q 037761 163 A--LASRLFA 170 (753)
Q Consensus 163 ~--~~~~~~~ 170 (753)
. |+...+.
T Consensus 96 sviD~AK~ia 105 (377)
T cd08188 96 SPIDCAKGIG 105 (377)
T ss_pred hHHHHHHHHH
Confidence 4 5555443
No 337
>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=87.65 E-value=8 Score=41.03 Aligned_cols=86 Identities=10% Similarity=0.097 Sum_probs=62.7
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcc-cchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYG-AGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g-~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
..+.++++.+| +++.|+++...+- .+..+.+.+.+++.|+++.....+..+.+..+....+..+++.++|+|+-.|-+
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 34566777788 8888887655433 345678999999999887655445555667788889999999999999998775
Q ss_pred H--HHHHHHH
Q 037761 163 A--LASRLFA 170 (753)
Q Consensus 163 ~--~~~~~~~ 170 (753)
. |+...+.
T Consensus 94 SviD~aK~ia 103 (357)
T cd08181 94 SPLDAAKAIA 103 (357)
T ss_pred hHHHHHHHHH
Confidence 5 5555544
No 338
>COG0040 HisG ATP phosphoribosyltransferase [Amino acid transport and metabolism]
Probab=87.53 E-value=7.1 Score=39.21 Aligned_cols=152 Identities=10% Similarity=0.088 Sum_probs=98.7
Q ss_pred hHHHHHHHHcCcccEEEeeeeeecccc---eeeec--cccccccceEEEEecccCCCCceeEEEecCccccceeeccccc
Q 037761 448 YDELLYQIKLKKFDAVVGDISIVASRT---DYVEF--TLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDC 522 (753)
Q Consensus 448 ~~~~~~~l~~~~~Di~~~~~~~t~~r~---~~~~f--s~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~ 522 (753)
-.++-..+..|.+|+++.+--.-.++. ..+.. -.+|....+++.+|....
T Consensus 52 ~~DIP~yV~~G~~DlGItG~D~l~E~~~~~~~v~~l~dL~fG~crl~vAvp~~~~------------------------- 106 (290)
T COG0040 52 AQDIPTYVEDGVADLGITGEDVLRESGLDDASVEELLDLGFGGCRLVVAVPEESD------------------------- 106 (290)
T ss_pred hHHhhHHHhcCceeeeeechhhhhhcccCccCceehccCCCCcEEEEEEecCCcC-------------------------
Confidence 378889999999999998876554443 12222 234555556666665532
Q ss_pred hhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCC-eEEEecCchHHHHHHHhhCCCCCceecCCCHH
Q 037761 523 SKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESH-FVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFG 601 (753)
Q Consensus 523 ~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 601 (753)
+.+.+||. |+ +++.........||+. .--..++......-
T Consensus 107 -----------------------------------~~~~~~l~--~~~rIATkYp~l~~~yf~~--~g~~~~Ii~l~Gsv 147 (290)
T COG0040 107 -----------------------------------YTSPEDLK--GRLRIATKYPNLARKYFAE--KGIDVEIIKLSGSV 147 (290)
T ss_pred -----------------------------------ccChhHhc--CCceEEEccHHHHHHHHHH--cCceEEEEEccCcE
Confidence 78899995 55 9999888888999984 33334555554444
Q ss_pred HHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCcccccCceEEEEcCCCC---CchHhHHHHHHhhhc
Q 037761 602 EYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTDGLGFAFAKDSP---LVSHFSQAILLVREN 673 (753)
Q Consensus 602 ~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~---l~~~~n~~i~~l~~~ 673 (753)
|.. ...|- .|++++-..+...+-.+ +|..+ +.+.....++..++... -.+.+++.+.+++..
T Consensus 148 E~a--P~~Gl----ADaIvDivsTG~TLkaN---gL~~i-d~i~~ssa~LI~n~~~~~~~k~~~i~~l~~rl~gv 212 (290)
T COG0040 148 ELA--PALGL----ADAIVDIVSTGTTLKAN---GLKEI-EVIYDSSARLIVNAKASLKDKQELIDQLVTRLKGV 212 (290)
T ss_pred eec--cccCc----cceEEEeecCCHhHHHC---CCEEE-EEEEeeEEEEEeccccccchhHHHHHHHHHHHHHH
Confidence 433 34466 89999888887776666 67777 45555566666663333 234677777777654
No 339
>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=87.23 E-value=5.8 Score=42.62 Aligned_cols=89 Identities=9% Similarity=0.150 Sum_probs=62.3
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.++++.+| +++.|+++...+.....+.+.+.+++.|+++.....+.++.+..+....+...++.++|+||-.|.+.
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~~~~~~v~~~~~~~~~~~~D~IIaiGGGS 90 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAGTPVFAELVQALAAAGVEVEVFDGVLPDLPRSELCDAASAAARAGPDVIIGLGGGS 90 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhhcchHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCch
Confidence 44667788888 88888885444444677889999999998765444443333455677777778888999999887655
Q ss_pred --HHHHHHHHHH
Q 037761 164 --LASRLFALVA 173 (753)
Q Consensus 164 --~~~~~~~~a~ 173 (753)
|+..++....
T Consensus 91 ~iD~aK~ia~~~ 102 (386)
T cd08191 91 CIDLAKIAGLLL 102 (386)
T ss_pred HHHHHHHHHHHH
Confidence 6666655433
No 340
>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=87.12 E-value=4.9 Score=43.06 Aligned_cols=87 Identities=13% Similarity=0.171 Sum_probs=63.6
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.+.++.+|-+++.|+++...+-....+.+.+.+++.|+++.....+..+.+.......+..+++.++|+|+-.|.+.
T Consensus 17 ~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS 96 (377)
T cd08176 17 KEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISIGGGS 96 (377)
T ss_pred HHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCcH
Confidence 45667788888888888875444333677889999999998776554455455667788888889899999999887654
Q ss_pred --HHHHHHH
Q 037761 164 --LASRLFA 170 (753)
Q Consensus 164 --~~~~~~~ 170 (753)
|+.+.+.
T Consensus 97 ~iD~aK~ia 105 (377)
T cd08176 97 PHDCAKAIG 105 (377)
T ss_pred HHHHHHHHH
Confidence 5555544
No 341
>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=86.86 E-value=7.7 Score=36.14 Aligned_cols=101 Identities=8% Similarity=-0.062 Sum_probs=62.7
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 81 LQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 81 ~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
.....+.+.+...+ .+++++....+......+.+++.. -|+.++....-+. ...+-...++.|++++||+|++..
T Consensus 33 dl~~~ll~~~~~~~-~~v~llG~~~~~~~~~~~~l~~~y--p~l~i~g~~~g~~--~~~~~~~i~~~I~~~~pdiv~vgl 107 (171)
T cd06533 33 DLMPALLELAAQKG-LRVFLLGAKPEVLEKAAERLRARY--PGLKIVGYHHGYF--GPEEEEEIIERINASGADILFVGL 107 (171)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCHHHHHHHHHHHHHHC--CCcEEEEecCCCC--ChhhHHHHHHHHHHcCCCEEEEEC
Confidence 44556666665544 688888866654333333333322 2677776433322 234555589999999999999998
Q ss_pred ChHHHHHHHHHHHHcCCCCCCEEEEEcCc
Q 037761 161 NTALASRLFALVAKNGMMSKGYTWIVTAC 189 (753)
Q Consensus 161 ~~~~~~~~~~~a~~~g~~~~~~~wi~~~~ 189 (753)
..+..-.++...++.. +..+++..++
T Consensus 108 G~PkQE~~~~~~~~~l---~~~v~~~vG~ 133 (171)
T cd06533 108 GAPKQELWIARHKDRL---PVPVAIGVGG 133 (171)
T ss_pred CCCHHHHHHHHHHHHC---CCCEEEEece
Confidence 8777777777766644 3446666554
No 342
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=86.54 E-value=41 Score=34.39 Aligned_cols=70 Identities=10% Similarity=0.119 Sum_probs=48.9
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..+++..+.+ +.. ++++.+... +..+++..|.+|++|+++..... ....+. +.|+.....+
T Consensus 104 ~l~~~~~~~~~----~~p-~v~i~~~~~---------~~~~~~~~l~~~~~D~~i~~~~~---~~~~l~-~~~l~~~~~~ 165 (296)
T PRK09906 104 LLPKVLPMFRL----RHP-DTLIELVSL---------ITTQQEEKLRRGELDVGFMRHPV---YSDEID-YLELLDEPLV 165 (296)
T ss_pred HHHHHHHHHHH----HCC-CeEEEEEeC---------CcHHHHHHHHcCCeeEEEecCCC---CCCCce-EEEEecccEE
Confidence 34566666666 654 466666653 56899999999999999854332 223344 3688889999
Q ss_pred EEEecccC
Q 037761 490 MLVPVKRD 497 (753)
Q Consensus 490 ~~v~~~~~ 497 (753)
+++++..+
T Consensus 166 ~v~~~~~p 173 (296)
T PRK09906 166 VVLPVDHP 173 (296)
T ss_pred EEecCCCc
Confidence 99987754
No 343
>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=86.06 E-value=6.5 Score=41.96 Aligned_cols=86 Identities=10% Similarity=0.123 Sum_probs=62.6
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.+.++.+|.+++.||++...+ ..+.+.+.+++.|+.+.....+..+.+.......+..+++.++|+||-.|.+.
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGs 88 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA---IASGLTDILKPLGTLVVVFDDVQPNPDLEDLAAGIRLLREFGPDAVLAVGGGS 88 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH---HHHHHHHHHHHcCCeEEEEcCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCcH
Confidence 446677788888999999865554 55667888888887765554455555566788888888889999999887654
Q ss_pred --HHHHHHHHH
Q 037761 164 --LASRLFALV 172 (753)
Q Consensus 164 --~~~~~~~~a 172 (753)
|+..++...
T Consensus 89 ~~D~aK~ia~~ 99 (367)
T cd08182 89 VLDTAKALAAL 99 (367)
T ss_pred HHHHHHHHHHH
Confidence 666666544
No 344
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=85.70 E-value=27 Score=36.12 Aligned_cols=179 Identities=8% Similarity=0.047 Sum_probs=96.9
Q ss_pred hHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceEEE
Q 037761 412 MEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTML 491 (753)
Q Consensus 412 ~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~ 491 (753)
.+++..+.+ +.- .+++.+... +..++.+.|.+|++|++++. .........+. ..+.....++++
T Consensus 109 ~~~l~~~~~----~~P-~i~l~l~~~---------~~~~~~~~l~~g~~D~~i~~-~~~~~~~~~l~-~~~l~~~~~~~v 172 (308)
T PRK10094 109 AQLLAWLNE----RYP-FTQFHISRQ---------IYMGVWDSLLYEGFSLAIGV-TGTEALANTFS-LDPLGSVQWRFV 172 (308)
T ss_pred HHHHHHHHH----hCC-CcEEEEEee---------hhhhHHHHHhCCCccEEEec-ccCccccCCee-EEEecceeEEEE
Confidence 566666666 664 466766653 56788999999999998852 21111122333 357778888888
Q ss_pred EecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCe-
Q 037761 492 VPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHF- 570 (753)
Q Consensus 492 v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~- 570 (753)
++...+.. .....-+++||. +.+
T Consensus 173 ~~~~hpl~------------------------------------------------------~~~~~~~~~~L~--~~~~ 196 (308)
T PRK10094 173 MAADHPLA------------------------------------------------------NVEEPLTEAQLR--RFPA 196 (308)
T ss_pred ECCCCCCc------------------------------------------------------CCCCCCCHHHHH--hCCe
Confidence 87665421 001245788996 333
Q ss_pred EEEecCchH-HHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEe--CcccccC
Q 037761 571 VGFQSGSFV-EDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTA--GPIYRTD 647 (753)
Q Consensus 571 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~ 647 (753)
+.+..+... ...+.. ..........++.......+..|. .-+++.. .......+.. .+..+ +......
T Consensus 197 i~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~v~~g~----gi~~lp~-~~~~~~~~~~--~l~~~~l~~~~~~~ 267 (308)
T PRK10094 197 VNIEDSARTLTKRVAW--RLPGQKEIIVPDMETKIAAHLAGV----GIGFLPK-SLCQSMIDNQ--QLVSRVIPTMRPPS 267 (308)
T ss_pred eEeeccccccchhhcc--ccCCCcEEEECCHHHHHHHHHcCC----cEEeCCh-HhhhHHhhcC--ceEEEeCCCCCCCc
Confidence 333333211 111110 111122345678888899999987 5555543 3333333222 34333 3333445
Q ss_pred ceEEEEcCCCCCchHhHHHHHHhhh
Q 037761 648 GLGFAFAKDSPLVSHFSQAILLVRE 672 (753)
Q Consensus 648 ~~~~~~~k~s~l~~~~n~~i~~l~~ 672 (753)
+++++.+++.+ .......+..+.+
T Consensus 268 ~~~l~~~~~~~-~~~~~~~~~~~~~ 291 (308)
T PRK10094 268 PLSLAWRKFGS-GKAVEDIVTLFTQ 291 (308)
T ss_pred ceEEEEecCCC-CcHHHHHHHHHhC
Confidence 77778777743 4444444444443
No 345
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=85.50 E-value=9.6 Score=37.86 Aligned_cols=101 Identities=12% Similarity=0.180 Sum_probs=58.8
Q ss_pred HHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHH
Q 037761 85 AISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTAL 164 (753)
Q Consensus 85 a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~ 164 (753)
.+.+++++++.+++.++++.+.| ....+.+.+.++..|+++..........+..+......+++..++|+|+-++.+.-
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~-~~~g~~v~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vGgG~i 87 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY-KAAGEKVEESLKSAGIEVAVIEEFVGDADEDEVEKLVEALRPKDADLIIGVGGGTI 87 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH-HHHHHHHHHHHHTTT-EEEEEE-EE---BHHHHHHHHTTS--TT--EEEEEESHHH
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH-HHHHHHHHHHHHHcCCeEEEEecCCCCCCHHHHHHHHHHhcccCCCEEEEeCCcHH
Confidence 35667877788999888876654 34567888999999998875443222334455666666776678999999999873
Q ss_pred HHHHHHHHHHcCCCCCCEEEEEcCc
Q 037761 165 ASRLFALVAKNGMMSKGYTWIVTAC 189 (753)
Q Consensus 165 ~~~~~~~a~~~g~~~~~~~wi~~~~ 189 (753)
.-.--..|.+.| .+++-|-+..
T Consensus 88 ~D~~K~~A~~~~---~p~isVPTa~ 109 (250)
T PF13685_consen 88 IDIAKYAAFELG---IPFISVPTAA 109 (250)
T ss_dssp HHHHHHHHHHHT-----EEEEES--
T ss_pred HHHHHHHHHhcC---CCEEEecccc
Confidence 322223456666 3455555543
No 346
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=85.32 E-value=22 Score=36.50 Aligned_cols=176 Identities=11% Similarity=0.093 Sum_probs=97.1
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
++..+++..+.+ +.- ++++.+... +...++.+|.+|++|+++............+ ...|+.....
T Consensus 106 ~~l~~~l~~f~~----~~P-~i~l~~~~~---------~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~l-~~~~l~~~~~ 170 (296)
T PRK11062 106 RLVSRVLLTAVP----EDE-SIHLRCFES---------THEMLLEQLSQHKLDMILSDCPVDSTQQEGL-FSKKLGECGV 170 (296)
T ss_pred hhHHHHHHHHHh----cCC-ceEEEEEeC---------CHHHHHHHHHcCCCCEEEecCCCccccccch-hhhhhhccCc
Confidence 455677776665 542 456655542 6789999999999999984322111112222 2356777777
Q ss_pred EEEEecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcC
Q 037761 489 TMLVPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTES 568 (753)
Q Consensus 489 ~~~v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~ 568 (753)
+++++.+.+. ..+++||. .
T Consensus 171 ~~~~~~~~~~-----------------------------------------------------------~~~~~~l~--~ 189 (296)
T PRK11062 171 SFFCTNPLPE-----------------------------------------------------------KPFPACLE--E 189 (296)
T ss_pred ceEecCCCcc-----------------------------------------------------------ccChHHHh--c
Confidence 7777765431 23578885 3
Q ss_pred CeEEE-ecCch----HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCc-
Q 037761 569 HFVGF-QSGSF----VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGP- 642 (753)
Q Consensus 569 ~~~~~-~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~- 642 (753)
.++.. ..+.. ...++.+ .+.........++.......+..|. .-++ .+........+. .++..++.
T Consensus 190 ~~~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~v~~g~----Gi~~-lp~~~~~~~~~~--~~l~~l~~~ 261 (296)
T PRK11062 190 RRLLIPGRRTMLGRKLLNWFNS-QGLNVEILGEFDDAALMKAFGAYHD----AIFV-APSLYAQDFYAD--HSVVEIGRV 261 (296)
T ss_pred CCeeecCCCchHHHHHHHHHHH-cCCCceeeeeeCcHHHHHHHHHcCC----ceEE-CCHHHHHHHHHc--CCeEEcCCc
Confidence 33333 22222 3344442 2221111234678888889999887 4444 444444333332 24555532
Q ss_pred ccccCceEEEEcCCCCCchHhHHHHH
Q 037761 643 IYRTDGLGFAFAKDSPLVSHFSQAIL 668 (753)
Q Consensus 643 ~~~~~~~~~~~~k~s~l~~~~n~~i~ 668 (753)
.....++.++.+++......+...+.
T Consensus 262 ~~~~~~~~lv~~~~~~~~~~~~~f~~ 287 (296)
T PRK11062 262 DNVKEEYHVIFAERMIQHPAVQRICN 287 (296)
T ss_pred cccceEEEEEEecCCCCcHHHHHHHh
Confidence 22234678888888766655554443
No 347
>cd08445 PBP2_BenM_CatM_CatR The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold. This CD includes the C-terminal of LysR-type transcription regulators, BenM, CatM, and CatR, which are involved in the benzoate catabolism. The BenM and CatM are paralogs with overlapping functions. BenM responds synergistically to two effectors, benzoate and cis,cis-muconate, to activate expression of the benABCDE operon which is involved in benzoate catabolism, while CatM responses only to muconate. BenM and CatM share high protein sequence identity and bind to the operator-promoter regions that have similar DNA sequences. In Pseudomonas species, phenolic compounds are converted by different enzymes to central intermediates, such as protocatechuate and catechols. Generally, unsubstituted compounds, such as benzoate, are metabolized by an ortho-cleavage pathway. The catBCA operon encodes three enzymes
Probab=85.21 E-value=33 Score=32.19 Aligned_cols=71 Identities=14% Similarity=0.215 Sum_probs=46.5
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
++..+++..+.+ +.- ++++.+... ...+++..|.+|++|++++..... ...+. +.+......
T Consensus 14 ~~l~~~l~~~~~----~~P-~i~l~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~ 75 (203)
T cd08445 14 GLLPELIRRFRQ----AAP-DVEIELIEM---------TTVQQIEALKEGRIDVGFGRLRIE---DPAIR-RIVLREEPL 75 (203)
T ss_pred hHHHHHHHHHHH----HCC-CeEEEEEeC---------ChHHHHHHHHcCCCcEEEecCCCC---CCCce-eEEEEeccE
Confidence 445666666666 654 466666653 578999999999999998532211 12232 446777888
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
++++++..+
T Consensus 76 ~~v~~~~hp 84 (203)
T cd08445 76 VVALPAGHP 84 (203)
T ss_pred EEEeeCCCC
Confidence 888887654
No 348
>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=85.12 E-value=7.6 Score=41.00 Aligned_cols=86 Identities=13% Similarity=0.121 Sum_probs=60.7
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.+.++.++ +|+.|+++...+ ....+.+.+.+++.|+.+.....+..+.+..+....+...++.++|+|+-.|-+.
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~-~~~~~~v~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavGGGs 89 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL-AAAKDKIKAALEQSGIEITDFIWYGGESTYENVERLKKNPAVQEADMIFAVGGGK 89 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH-HHHHHHHHHHHHHCCCeEEEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeCCcH
Confidence 44566777777 888888765444 3457778888998898776554555455566777788888888999999887655
Q ss_pred --HHHHHHHH
Q 037761 164 --LASRLFAL 171 (753)
Q Consensus 164 --~~~~~~~~ 171 (753)
|+..++..
T Consensus 90 ~~D~aK~ia~ 99 (345)
T cd08171 90 AIDTVKVLAD 99 (345)
T ss_pred HHHHHHHHHH
Confidence 66655543
No 349
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=85.10 E-value=8.8 Score=44.36 Aligned_cols=157 Identities=10% Similarity=-0.017 Sum_probs=94.9
Q ss_pred ChHHHHHHHHcCcccEEEeeeeeeccc------------ceeeeccccccccceEEEEecccCCCCceeEEEecCccccc
Q 037761 447 TYDELLYQIKLKKFDAVVGDISIVASR------------TDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKPWTWDLW 514 (753)
Q Consensus 447 ~~~~~~~~l~~~~~Di~~~~~~~t~~r------------~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~PF~~~~W 514 (753)
+..+++++|.+|++|+++......... ...++ +.|++...++++++..++..
T Consensus 449 ~s~~vl~~L~~GeiDlai~~~~~~~~~~~~~~~~~~~~~~~~l~-~~~l~~d~lvlvvp~~hPl~--------------- 512 (633)
T PRK14498 449 GSMGGLMALKRGEADIAGIHLLDPETGEYNIPYIKKYLLGEDAV-LVKGYRREQGLVVRKGNPKG--------------- 512 (633)
T ss_pred CCHHHHHHHHcCCceEEEEcccCcccccccHHHHHhhcCCCCEE-EEEEEEEeEEEEECCCCCCC---------------
Confidence 779999999999999998533221110 01133 46788888999999886532
Q ss_pred eeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEEe-cCchHHHHHHH---hhCCC
Q 037761 515 LALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGFQ-SGSFVEDFLVK---QLNFS 590 (753)
Q Consensus 515 ~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~~-~~~~~~~~~~~---~~~~~ 590 (753)
.-+++||.+.+.++.+. .++.....+.+ ..+..
T Consensus 513 -------------------------------------------~isl~dL~~~~~plI~~~~gs~~r~~le~~l~~~Gi~ 549 (633)
T PRK14498 513 -------------------------------------------IEGIEDLVRKDVRFVNRQRGSGTRILLDYHLKELAID 549 (633)
T ss_pred -------------------------------------------CCCHHHhccCCcEEEecCCCchHHHHHHHHHHHcCCC
Confidence 46999996333266664 34444333332 22222
Q ss_pred CCc----eecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCcccccCceEEEEcCCCCCchHhHHH
Q 037761 591 RNQ----TRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTDGLGFAFAKDSPLVSHFSQA 666 (753)
Q Consensus 591 ~~~----~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~l~~~~n~~ 666 (753)
... .....+.+....++..|. +|+.+.-..... ...- .+..+. ...++++.+++..+......+
T Consensus 550 ~~~i~~~~~e~~s~~~i~~~V~~G~----~d~Gi~i~~~~~---~~~l-~~i~l~----~~~~~l~~~~~~~~s~a~~aF 617 (633)
T PRK14498 550 PERINGYDREEKTHMAVAAAVAQGR----ADAGLGIRAAAK---ALGL-DFIPLA----EEEYDLLIPKERLEKPAVRAF 617 (633)
T ss_pred HHHCCCcccccCCHHHHHHHHHcCC----CcchHhHHHHHH---HcCC-CCeeee----eEEEEEEEEhhHccCHHHHHH
Confidence 211 345677888999999997 777664433211 1111 122221 125677888887777777777
Q ss_pred HHHhhhcc
Q 037761 667 ILLVRENQ 674 (753)
Q Consensus 667 i~~l~~~G 674 (753)
+..+.+..
T Consensus 618 l~~l~~~~ 625 (633)
T PRK14498 618 LEALKSPE 625 (633)
T ss_pred HHHHcCHH
Confidence 77777665
No 350
>TIGR03414 ABC_choline_bnd choline ABC transporter, periplasmic binding protein. Partial phylogenetic profiling (PubMed:16930487) vs. the genome property of glycine betaine biosynthesis from choline consistently reveals a member of this ABC transporter periplasmic binding protein as the best match, save for the betaine biosynthesis enzymes themselves. Genomes often carry several paralogs, one encoded together with the permease and ATP-binding components and another encoded next to a choline-sulfatase gene, suggesting that different members of this protein family interact with shared components and give some flexibility in substrate. Of two members from Sinorhizobium meliloti 1021, one designated ChoX has been shown experimentally to bind choline (though not various related compounds such as betaine) and to be required for about 60 % of choline uptake. Members of this protein have an invariant Cys residue near the N-terminus and likely are lipoproteins.
Probab=84.90 E-value=26 Score=35.94 Aligned_cols=69 Identities=14% Similarity=0.106 Sum_probs=39.6
Q ss_pred hHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeec-c-------cceeeeccccc
Q 037761 412 MEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVA-S-------RTDYVEFTLPY 483 (753)
Q Consensus 412 ~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~-~-------r~~~~~fs~p~ 483 (753)
..|++.+.+ ++|+++++ ... +-.-+..+|.+|++|+.+....+.. + +.+.+....-+
T Consensus 24 ~~i~~~iLE----~~Gy~Ve~--~~~---------~~~~~~~al~~GdiD~~~e~W~p~~~~~~~~~~~~~~l~~lg~~~ 88 (290)
T TIGR03414 24 TALASVLLE----GLGYQPKV--TLL---------SVPVTYAGLKDGDLDVFLGNWMPAMEPDIKPYLESGSVEVLGPNL 88 (290)
T ss_pred HHHHHHHHH----HcCCccee--EEc---------cHHHHHHHHHcCCceEeccccCCcCHHHHHhhccCCeEEEecccC
Confidence 345555555 78876654 443 4577889999999999875543321 1 11122222333
Q ss_pred cccceEEEEecc
Q 037761 484 SESGVTMLVPVK 495 (753)
Q Consensus 484 ~~~~~~~~v~~~ 495 (753)
.....+++||+.
T Consensus 89 ~~~~~g~~Vp~y 100 (290)
T TIGR03414 89 EGAKYTLAVPTY 100 (290)
T ss_pred CCceEEEEEChh
Confidence 445667777754
No 351
>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=84.73 E-value=12 Score=40.19 Aligned_cols=87 Identities=10% Similarity=0.221 Sum_probs=62.3
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCc-ccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNY-GAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~-g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
..+.+.++.++ +++.||.+...+ .....+.+.+.+++.|+++.....+..+.+..+....+..+++.++|+|+-.|.+
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 96 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPNPRLETVREGIELCKEEKVDFILAVGGG 96 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCCCCHHHHHHHHHHHHHcCCCEEEEeCCh
Confidence 44566777775 888888764433 2355788999999999887655455555566788888899999999999988765
Q ss_pred H--HHHHHHHH
Q 037761 163 A--LASRLFAL 171 (753)
Q Consensus 163 ~--~~~~~~~~ 171 (753)
. |+..++..
T Consensus 97 S~iD~aK~ia~ 107 (382)
T cd08187 97 SVIDSAKAIAA 107 (382)
T ss_pred HHHHHHHHHHh
Confidence 4 55555433
No 352
>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=84.60 E-value=7.7 Score=41.07 Aligned_cols=85 Identities=8% Similarity=0.008 Sum_probs=61.7
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.+.++.++ +++.|+++...+. ...+.+.+.+++.|+.+.+. .+..+.+..+....++.+++.++|+||-.|-+.
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~~-~~~~~v~~~L~~~~i~~~~~-~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGGS 88 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVLD-LVGAKIEESLAAAGIDARFE-VFGGECTRAEIERLAEIARDNGADVVIGIGGGK 88 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHHH-HHHHHHHHHHHhCCCeEEEE-EeCCcCCHHHHHHHHHHHhhcCCCEEEEecCch
Confidence 34566777776 8888888544444 67888999999999887644 354455667888888888899999999887755
Q ss_pred --HHHHHHHH
Q 037761 164 --LASRLFAL 171 (753)
Q Consensus 164 --~~~~~~~~ 171 (753)
|+..++..
T Consensus 89 ~iD~aK~ia~ 98 (351)
T cd08170 89 TLDTAKAVAD 98 (351)
T ss_pred hhHHHHHHHH
Confidence 55555543
No 353
>PRK07475 hypothetical protein; Provisional
Probab=84.54 E-value=4.9 Score=39.99 Aligned_cols=123 Identities=14% Similarity=0.076 Sum_probs=73.9
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHH
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAIS 87 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~ 87 (753)
+..++..+...+.+.+.+.++.+|+.+.+. .......+.+..++|+++.+ .+.+
T Consensus 59 ~~~~~~~~l~~aa~~L~~~G~d~I~~~Cgt-~~~~~~~l~~~~~VPv~~ss-------------------------~~~v 112 (245)
T PRK07475 59 DDPSLLDAFVAAARELEAEGVRAITTSCGF-LALFQRELAAALGVPVATSS-------------------------LLQV 112 (245)
T ss_pred CCccHHHHHHHHHHHHHHcCCCEEEechHH-HHHHHHHHHHHcCCCEeccH-------------------------HHHH
Confidence 456677777777777777899999986533 34444556667889988621 2333
Q ss_pred HHHHHc--CCeEEEEEEeeCCcccchHHHHHHHHHhCCeEE-E----E-eec--------cCCCC---c----hhhHHHH
Q 037761 88 AVLQNF--SWHEVVLMYEDTNYGAGFISFLVDELQENDIRI-S----H-MSK--------IPTSA---E----DFQISKE 144 (753)
Q Consensus 88 ~~l~~~--~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v-~----~-~~~--------~~~~~---~----~~d~~~~ 144 (753)
+.++.. +-++|+|+..+... ...+.+++.|++. + . ... +.... + ..++...
T Consensus 113 ~~l~~~~~~~~kIGILtt~~t~------l~~~~l~~~Gi~~~~~~~~~~g~e~~~~~~~~I~~~~~~~d~~~~~~~l~~~ 186 (245)
T PRK07475 113 PLIQALLPAGQKVGILTADASS------LTPAHLLAVGVPPDTSSLPIAGLEEGGEFRRNILENRGELDNEAAEQEVVAA 186 (245)
T ss_pred HHHHHhccCCCeEEEEeCCchh------hhHHHHHhCCCCCCCccccccCcccchHHHHHHhcccccccHHHHHHHHHHH
Confidence 344333 36899999976552 2356688888752 1 1 000 10000 1 2356666
Q ss_pred HHHHh--cCCccEEEEEeCh
Q 037761 145 LSKLS--TMQTRVFIVHMNT 162 (753)
Q Consensus 145 l~~l~--~~~~~vIi~~~~~ 162 (753)
+.++. ..++++|++.|..
T Consensus 187 ~~~l~~~~~~~daIvL~CTe 206 (245)
T PRK07475 187 ARALLERHPDIGAIVLECTN 206 (245)
T ss_pred HHHHHhhCCCCCEEEEcCcC
Confidence 66665 3478988887664
No 354
>cd08452 PBP2_AlsR The C-terminal substrate binding domain of LysR-type trnascriptional regulator AlsR, which regulates acetoin formation under stationary phase growth conditions; contains the type 2 periplasmic binding fold. AlsR is responsible for activating the expression of the acetoin operon (alsSD) in response to inducing signals such as glucose and acetate. Like many other LysR family proteins, AlsR is transcribed divergently from the alsSD operon. The alsS gene encodes acetolactate synthase, an enzyme involved in the production of acetoin in cells of stationary-phase. AlsS catalyzes the conversion of two pyruvate molecules to acetolactate and carbon dioxide. Acetolactate is then converted to acetoin at low pH by acetolactate decarboxylase which encoded by the alsD gene. Acetoin is an important physiological metabolite excreted by many microorganisms grown on glucose or other fermentable carbon sources. This substrate-binding domain shows significant homology to the type 2 perip
Probab=84.24 E-value=36 Score=31.78 Aligned_cols=70 Identities=10% Similarity=0.079 Sum_probs=45.4
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..+++..+.+ +.- ++++++... ...++...|.+|++|+++..-. .....+. +.+.......
T Consensus 14 ~l~~~l~~~~~----~~P-~v~i~i~~~---------~~~~~~~~l~~~~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~ 75 (197)
T cd08452 14 FLPPIVREYRK----KFP-SVKVELREL---------SSPDQVEELLKGRIDIGFLHPP---IQHTALH-IETVQSSPCV 75 (197)
T ss_pred HHHHHHHHHHH----HCC-CcEEEEEec---------ChHHHHHHHHCCCccEEEeeCC---CCCCCee-EEEeeeccEE
Confidence 34566666666 654 466666653 6788999999999999984321 1122233 3566777788
Q ss_pred EEEecccC
Q 037761 490 MLVPVKRD 497 (753)
Q Consensus 490 ~~v~~~~~ 497 (753)
++++...+
T Consensus 76 lv~~~~hp 83 (197)
T cd08452 76 LALPKQHP 83 (197)
T ss_pred EEEeCCCc
Confidence 88876644
No 355
>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=84.05 E-value=8.4 Score=41.33 Aligned_cols=89 Identities=15% Similarity=0.191 Sum_probs=63.2
Q ss_pred HHHHHHHHHc---CCeEEEEEEeeCCcc-cchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEE
Q 037761 84 KAISAVLQNF---SWHEVVLMYEDTNYG-AGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVH 159 (753)
Q Consensus 84 ~a~~~~l~~~---~w~~vail~~d~~~g-~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~ 159 (753)
..+.++++.+ |.+++.|+++...+. .+..+.+.+.+++.|+.+.....+.++.+..+....+..+++.++|+|+..
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 3455667666 778998888654433 345678899999999876655445555566788888898999999999987
Q ss_pred eChH--HHHHHHHHH
Q 037761 160 MNTA--LASRLFALV 172 (753)
Q Consensus 160 ~~~~--~~~~~~~~a 172 (753)
|-+. |+..++...
T Consensus 92 GGGS~iD~aK~ia~~ 106 (383)
T cd08186 92 GGGSPIDSAKSAAIL 106 (383)
T ss_pred CCccHHHHHHHHHHH
Confidence 6544 666665443
No 356
>PRK11716 DNA-binding transcriptional regulator IlvY; Provisional
Probab=84.04 E-value=37 Score=33.99 Aligned_cols=70 Identities=10% Similarity=0.068 Sum_probs=45.5
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..+++..+.+ +.. ++++.+... ...+++.+|.+|++|+++...... . ...+. ..+.....++
T Consensus 81 ~~~~~l~~~~~----~~p-~i~l~i~~~---------~~~~~~~~l~~~~~D~~i~~~~~~-~-~~~~~-~~~l~~~~~~ 143 (269)
T PRK11716 81 HLPPILDRFRA----EHP-LVEIKLTTG---------DAADAVEKVQSGEADLAIAAKPET-L-PASVA-FSPIDEIPLV 143 (269)
T ss_pred HHHHHHHHHHH----HCC-CeEEEEEEC---------CHHHHHHHHHCCCccEEEEecCCC-C-CcceE-EEEcccceEE
Confidence 44677777777 664 467777653 567899999999999998532211 1 11222 3556677778
Q ss_pred EEEeccc
Q 037761 490 MLVPVKR 496 (753)
Q Consensus 490 ~~v~~~~ 496 (753)
++++...
T Consensus 144 ~v~~~~~ 150 (269)
T PRK11716 144 LIAPALP 150 (269)
T ss_pred EEEcCCc
Confidence 8876653
No 357
>PRK13584 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=83.75 E-value=25 Score=33.48 Aligned_cols=92 Identities=11% Similarity=-0.039 Sum_probs=60.3
Q ss_pred CCeEEEecCchHHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCcccccC
Q 037761 568 SHFVGFQSGSFVEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTD 647 (753)
Q Consensus 568 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 647 (753)
.++++.........||.+ .+. +.++.+....-|. +-.-|- .|++++-..+...+-.+ +|.++...+ ..
T Consensus 105 ~~rVATkyp~it~~yf~~-~Gi-~~~ii~l~GsvEl--aP~~Gl----AD~IvDiv~TG~TLr~N---gL~~~e~I~-~s 172 (204)
T PRK13584 105 YRKIATSYVHTAETYFKS-KGI-DVELIKLNGSVEL--ACVVDM----VDGIVDIVQTGTTLKAN---GLVEKQHIS-DI 172 (204)
T ss_pred ceEEEeCcHHHHHHHHHH-cCC-eEEEEECCCceee--ccccCC----ccEEEEEECccHHHHHC---CCEEEEEEE-ee
Confidence 468888888888899984 343 5666666655554 445566 78888887777766555 677775444 44
Q ss_pred ceEEEEcCCCC--CchHhHHHHHHhh
Q 037761 648 GLGFAFAKDSP--LVSHFSQAILLVR 671 (753)
Q Consensus 648 ~~~~~~~k~s~--l~~~~n~~i~~l~ 671 (753)
...+...+.+. -.+.++..+.+|+
T Consensus 173 sa~LI~n~~s~~~k~~~i~~l~~~l~ 198 (204)
T PRK13584 173 NARLITNKAAYFKKSQLIEQFIRSLE 198 (204)
T ss_pred EEEEEEccccchhhHHHHHHHHHHHH
Confidence 45566677654 4456666666654
No 358
>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=83.58 E-value=13 Score=34.73 Aligned_cols=98 Identities=9% Similarity=-0.013 Sum_probs=60.3
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHh--CCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEE
Q 037761 81 LQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQE--NDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIV 158 (753)
Q Consensus 81 ~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~ 158 (753)
+....+++.....+ .++.++....+- .+.+.+.+++ -|++++....+ .+..+-..+++.|.+++||++++
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-LPIFLYGGKPDV----LQQLKVKLIKEYPKLKIVGAFGP---LEPEERKAALAKIARSGAGIVFV 106 (177)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCHHH----HHHHHHHHHHHCCCCEEEEECCC---CChHHHHHHHHHHHHcCCCEEEE
Confidence 45556666665556 588888765543 3444444443 36777765222 23445567899999999999999
Q ss_pred EeChHHHHHHHHHHHHcCCCCCCEEEEEcCc
Q 037761 159 HMNTALASRLFALVAKNGMMSKGYTWIVTAC 189 (753)
Q Consensus 159 ~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~ 189 (753)
....+-...++.+.++.- +..++++.++
T Consensus 107 glG~PkQE~~~~~~~~~~---~~~v~~gvGg 134 (177)
T TIGR00696 107 GLGCPKQEIWMRNHRHLK---PDAVMIGVGG 134 (177)
T ss_pred EcCCcHhHHHHHHhHHhC---CCcEEEEece
Confidence 887776667776554432 2335555433
No 359
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=83.57 E-value=35 Score=35.04 Aligned_cols=71 Identities=4% Similarity=0.027 Sum_probs=44.8
Q ss_pred ehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceEE
Q 037761 411 CMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTM 490 (753)
Q Consensus 411 ~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 490 (753)
..+++..+.+ +.- .+++.+... +..+++..|.+|++|++++... .......+. ..++....+++
T Consensus 107 l~~~l~~~~~----~~p-~i~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~~~-~~~~~~~l~-~~~l~~~~~~~ 170 (300)
T PRK11074 107 TRQLIVDFYR----HFD-DVELIIRQE---------VFNGVWDALADGRVDIAIGATR-AIPVGGRFA-FRDMGMLSWAC 170 (300)
T ss_pred HHHHHHHHHH----hCC-CceEEEEeh---------hhhHHHHHHHCCCCCEEEecCc-cCCcccccc-eeecccceEEE
Confidence 3566666666 554 356666653 5678999999999999985322 111111222 35677788888
Q ss_pred EEecccC
Q 037761 491 LVPVKRD 497 (753)
Q Consensus 491 ~v~~~~~ 497 (753)
++++..+
T Consensus 171 v~~~~hp 177 (300)
T PRK11074 171 VVSSDHP 177 (300)
T ss_pred EEcCCCc
Confidence 8887754
No 360
>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=83.26 E-value=14 Score=38.74 Aligned_cols=87 Identities=8% Similarity=0.116 Sum_probs=61.2
Q ss_pred HHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH-
Q 037761 85 AISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA- 163 (753)
Q Consensus 85 a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~- 163 (753)
.+.+.++.++.+++.|+++...+. ...+.+.+.+++. +++........+.+..+....+..+++.++|+|+..|.+.
T Consensus 13 ~l~~~~~~~g~~~~liv~~~~~~~-~~~~~v~~~l~~~-~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs~ 90 (332)
T cd07766 13 KIGEEIKRGGFDRALVVSDEGVVK-GVGEKVADSLKKL-IAVHIFDGVGPNPTFEEVKEAVERARAAEVDAVIAVGGGST 90 (332)
T ss_pred HHHHHHHhcCCCeEEEEeCCchhh-hHHHHHHHHHHhc-CcEEEeCCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCchH
Confidence 456677778889998988654444 6778888889886 6554443333344566788888888888999999887654
Q ss_pred -HHHHHHHHHH
Q 037761 164 -LASRLFALVA 173 (753)
Q Consensus 164 -~~~~~~~~a~ 173 (753)
|+..++....
T Consensus 91 ~D~aK~ia~~~ 101 (332)
T cd07766 91 LDTAKAVAALL 101 (332)
T ss_pred HHHHHHHHHHh
Confidence 6666665443
No 361
>cd08486 PBP2_CbnR The C-terminal substrate binding domain of LysR-type transcriptional regulator, CbnR, involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold. This CD represents the substrate binding domain of LysR-type regulator CbnR which is involved in the regulation of chlorocatechol breakdown. The chlorocatechol-degradative pathway is often found in bacteria that can use chlorinated aromatic compounds as carbon and energy sources. CbnR is found in the 3-chlorobenzoate degradative bacterium Ralstonia eutropha NH9 and forms a tetramer. CbnR activates the expression of the cbnABCD genes, which are responsible for the degradation of chlorocatechol converted from 3-chlorobenzoate and are transcribed divergently from cbnR. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccha
Probab=83.00 E-value=24 Score=33.25 Aligned_cols=71 Identities=13% Similarity=0.048 Sum_probs=46.4
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+...++..+.+ +.- ++++.+... +...+++.|.+|++|+++..-. .....+. +.+.....+
T Consensus 14 ~~l~~~l~~f~~----~~P-~v~i~i~~~---------~~~~l~~~l~~g~~D~~~~~~~---~~~~~~~-~~~l~~~~~ 75 (198)
T cd08486 14 RSLPLLLRAFLT----STP-TATVSLTHM---------TKDEQVEGLLAGTIHVGFSRFF---PRHPGIE-IVNIAQEDL 75 (198)
T ss_pred HHHHHHHHHHHH----hCC-CeEEEEEEC---------CHHHHHHHHHcCCceEEEecCC---CCCCceE-EEEEeeccE
Confidence 344566666666 653 466666653 6789999999999999984321 1122232 455667788
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
.++++++.+
T Consensus 76 ~lv~~~~h~ 84 (198)
T cd08486 76 YLAVHRSQS 84 (198)
T ss_pred EEEecCCCc
Confidence 888887654
No 362
>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=82.23 E-value=2.9 Score=41.82 Aligned_cols=78 Identities=8% Similarity=0.060 Sum_probs=59.6
Q ss_pred EEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC-hHHHHHHHHHHHH
Q 037761 98 VVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN-TALASRLFALVAK 174 (753)
Q Consensus 98 vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~-~~~~~~~~~~a~~ 174 (753)
|+++.. ++.|.....+.+++.+++.|..+... .+...+.......++++.+.++|.|++... ......+++.+.+
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~--~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~~~ 78 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGYEVEIV--FDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKAKA 78 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTCEEEEE--EESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCCEEEEe--CCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHHhh
Confidence 455554 45588889999999999999988775 222334567777888888899999998854 5567789999999
Q ss_pred cCC
Q 037761 175 NGM 177 (753)
Q Consensus 175 ~g~ 177 (753)
.|+
T Consensus 79 ~gI 81 (257)
T PF13407_consen 79 AGI 81 (257)
T ss_dssp TTS
T ss_pred cCc
Confidence 886
No 363
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=81.36 E-value=16 Score=36.11 Aligned_cols=90 Identities=11% Similarity=-0.046 Sum_probs=57.7
Q ss_pred HHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEE
Q 037761 80 SLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVH 159 (753)
Q Consensus 80 ~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~ 159 (753)
.+....+.+.....| .++.++..+.+-....++.+++. .|+.++....=. .+..+-..++.+|.+++||+|++.
T Consensus 91 ~dl~~~ll~~~~~~~-~~v~llG~~~~v~~~a~~~l~~~---y~l~i~g~~~Gy--f~~~e~~~i~~~I~~s~~dil~Vg 164 (243)
T PRK03692 91 ADLWEALMARAGKEG-TPVFLVGGKPEVLAQTEAKLRTQ---WNVNIVGSQDGY--FTPEQRQALFERIHASGAKIVTVA 164 (243)
T ss_pred HHHHHHHHHHHHhcC-CeEEEECCCHHHHHHHHHHHHHH---hCCEEEEEeCCC--CCHHHHHHHHHHHHhcCCCEEEEE
Confidence 344555666665556 68888886665444444444433 377776554311 224456678999999999999998
Q ss_pred eChHHHHHHHHHHHHc
Q 037761 160 MNTALASRLFALVAKN 175 (753)
Q Consensus 160 ~~~~~~~~~~~~a~~~ 175 (753)
...+-.-.++...++.
T Consensus 165 lG~PkQE~~~~~~~~~ 180 (243)
T PRK03692 165 MGSPKQEIFMRDCRLV 180 (243)
T ss_pred CCCcHHHHHHHHHHHh
Confidence 8777666677665553
No 364
>PRK13348 chromosome replication initiation inhibitor protein; Provisional
Probab=81.28 E-value=46 Score=33.97 Aligned_cols=167 Identities=9% Similarity=-0.040 Sum_probs=93.7
Q ss_pred ccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceEEEEecccCCCCceeEEEec
Q 037761 429 KIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTMLVPVKRDNRHNMWIFLKP 508 (753)
Q Consensus 429 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v~~~~~~~~~~~~~~~P 508 (753)
++++.+... +..+++.+|.+|++|+++..... ....+. +.+.....++++++......
T Consensus 117 ~i~i~~~~~---------~~~~~~~~L~~~~~d~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~~~~~~--------- 174 (294)
T PRK13348 117 RILLELIVD---------DQDHTFALLERGEVVGCVSTQPK---PMRGCL-AEPLGTMRYRCVASPAFAAR--------- 174 (294)
T ss_pred CeEEEEEEc---------chHHHHHHHhcCCeEEEEecCCc---ccCCcc-cccccccceEEEEccchhhh---------
Confidence 356665543 56889999999999988743222 223344 57788888888887653210
Q ss_pred CccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEEE-ecCch-HHHHHHHh
Q 037761 509 WTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFVGF-QSGSF-VEDFLVKQ 586 (753)
Q Consensus 509 F~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~~-~~~~~-~~~~~~~~ 586 (753)
.....-+++||. +.++.. ..+.. ...++...
T Consensus 175 ---------------------------------------------~~~~~v~~~~l~--~~~~i~~~~~~~~~~~~~~~~ 207 (294)
T PRK13348 175 ---------------------------------------------YFAQGLTRHSAL--KAPAVAFNRKDTLQDSFLEQL 207 (294)
T ss_pred ---------------------------------------------hccCCCCHHHHc--CCCEEEecCCchHHHHHHHHH
Confidence 001234788995 444433 33332 33444431
Q ss_pred hCCC-C-CceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCcccccCceEEEEcCCCCCchHhH
Q 037761 587 LNFS-R-NQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTDGLGFAFAKDSPLVSHFS 664 (753)
Q Consensus 587 ~~~~-~-~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s~l~~~~n 664 (753)
.... . ......++......++.+|. .-+ +.+........... .+..+... ....++++.+|+.+......
T Consensus 208 ~~~~~~~~~~~~~~~~~~~~~~v~~g~----gi~-~lp~~~~~~~~~~~--~l~~l~~~-~~~~~~l~~~~~~~~~~~~~ 279 (294)
T PRK13348 208 FGLPVGAYPRHYVPSTHAHLAAIRHGL----GYG-MVPELLIGPLLAAG--RLVDLAPG-HPVDVALYWHHWEVESPTME 279 (294)
T ss_pred HhccccccceEEeCcHHHHHHHHHcCC----eeE-eCCHHHHHHHHhcC--eeeecCCC-CCCCceeEEeeccccChHHH
Confidence 1111 1 12234567788889999997 444 44444333333222 34444332 34567788888877666666
Q ss_pred HHHHHhhh
Q 037761 665 QAILLVRE 672 (753)
Q Consensus 665 ~~i~~l~~ 672 (753)
..+..+.+
T Consensus 280 ~~~~~i~~ 287 (294)
T PRK13348 280 ALSQRVVE 287 (294)
T ss_pred HHHHHHHH
Confidence 66655544
No 365
>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=81.16 E-value=12 Score=39.98 Aligned_cols=84 Identities=14% Similarity=0.241 Sum_probs=60.0
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.+.++.++ +++.|+++.... ..+.+.+.+++.|+.+.... +..+.+.......+..+++.++|+|+-.|.+.
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~~---~~~~v~~~L~~~g~~~~~~~-~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS 86 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASSL---RAAWLIEALRAAGIEVTHVV-VAGEPSVELVDAAVAEARNAGCDVVIAIGGGS 86 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCchH---HHHHHHHHHHHcCCeEEEec-CCCCcCHHHHHHHHHHHHhcCCCEEEEecCch
Confidence 34666777775 889888864443 67778889999998765443 33355566788888888899999999887655
Q ss_pred --HHHHHHHHH
Q 037761 164 --LASRLFALV 172 (753)
Q Consensus 164 --~~~~~~~~a 172 (753)
|+..++...
T Consensus 87 ~~D~aK~ia~~ 97 (374)
T cd08183 87 VIDAGKAIAAL 97 (374)
T ss_pred HHHHHHHHHHH
Confidence 666655443
No 366
>COG3181 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=80.96 E-value=72 Score=32.87 Aligned_cols=119 Identities=18% Similarity=0.127 Sum_probs=76.1
Q ss_pred cCChhHhhhcCC----eEEEe-cC--ch---HHHHHHHhhCCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHH
Q 037761 558 FADLKKLRTESH----FVGFQ-SG--SF---VEDFLVKQLNFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIK 627 (753)
Q Consensus 558 i~s~~dL~~~~~----~~~~~-~~--~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~ 627 (753)
++|++||++.-+ .+... .+ +. ....+.+..+. +.+.++|+...+.+.+|+.|+ +|+...+...+.
T Consensus 134 ~~t~~dlv~~~k~~p~~v~~~~~g~Gs~dhl~~~~~~k~~Gi-~~~~Vpy~g~gea~taLlgg~----v~a~~~~~se~~ 208 (319)
T COG3181 134 YKTLKDLVAYAKADPGSVIGGGSGLGSADHLAGALFAKAAGI-KITYVPYKGGGEALTALLGGH----VDAGSTNLSELL 208 (319)
T ss_pred cccHHHHHHHHHhCCCeEEecCCCCCcHHHHHHHHHHHHhCC-ceeEEeecCccHHHHHHhcCc----eeeeecChhhhh
Confidence 789999984321 12221 11 11 11223323343 678889999999999999999 999999988777
Q ss_pred HHHhcC-C--------CCcEEeCc----------ccccCceEEEEcCCCC--CchHhHHHHHHhhhcchHHHHHHH
Q 037761 628 VFLKKY-S--------SKYTTAGP----------IYRTDGLGFAFAKDSP--LVSHFSQAILLVRENQTRMDRIEK 682 (753)
Q Consensus 628 ~~~~~~-~--------~~l~~~~~----------~~~~~~~~~~~~k~s~--l~~~~n~~i~~l~~~G~~~~~~~~ 682 (753)
-.++.. - +++...+. .+.....+++.|++-| ....++..+.++.++. -+.+..+
T Consensus 209 ~~vksG~lr~Lav~s~eRl~~~pdvPT~~E~G~~~~~~~wrgvfap~g~~~e~~~~~~~a~kk~l~s~-e~~~~~~ 283 (319)
T COG3181 209 SQVKSGTLRLLAVFSEERLPGLPDVPTLKEQGYDVVMSIWRGVFAPAGTPDEIIAKLSAALKKALASP-EWQKRLK 283 (319)
T ss_pred hhhccCceEEEEeechhhcCCCCCCCChHhcCCceeeeeeeEEEeCCCCCHHHHHHHHHHHHHHhcCH-HHHHHHH
Confidence 666653 1 12222111 0112235677899977 9999999999999998 5544433
No 367
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=80.23 E-value=15 Score=39.18 Aligned_cols=84 Identities=10% Similarity=0.065 Sum_probs=60.4
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.+.++.+| +++.||++...+ ....+.+.+.+++.|+++.+.. +..+.+.......+..+++.++|+|+-.|.+.
T Consensus 19 ~~l~~~l~~~g-~~~livtd~~~~-~~~~~~v~~~l~~~~~~~~~~~-~~~ep~~~~v~~~~~~~~~~~~d~IIavGGGs 95 (366)
T PRK09423 19 ARLGEYLKPLG-KRALVIADEFVL-GIVGDRVEASLKEAGLTVVFEV-FNGECSDNEIDRLVAIAEENGCDVVIGIGGGK 95 (366)
T ss_pred HHHHHHHHHcC-CEEEEEEChhHH-HHHHHHHHHHHHhCCCeEEEEE-eCCCCCHHHHHHHHHHHHhcCCCEEEEecChH
Confidence 44566778888 898888854444 3467888888999998775443 44445566778888888888999999887655
Q ss_pred --HHHHHHH
Q 037761 164 --LASRLFA 170 (753)
Q Consensus 164 --~~~~~~~ 170 (753)
|+..++.
T Consensus 96 v~D~aK~iA 104 (366)
T PRK09423 96 TLDTAKAVA 104 (366)
T ss_pred HHHHHHHHH
Confidence 5555554
No 368
>TIGR01276 thiB thiamine ABC transporter, periplasmic binding protein. This model finds the thiamine (and thiamine pyrophosphate) ABC transporter periplasmic binding protein ThiB in proteobacteria. Completed genomes having this protein (E. coli, Vibrio cholera, Haemophilus influenzae) also have the permease ThiP, described by TIGRFAMs equivalog model TIGR01253.
Probab=79.92 E-value=47 Score=34.31 Aligned_cols=81 Identities=10% Similarity=-0.015 Sum_probs=45.7
Q ss_pred CCHHHHHHHHhcCCCCCCeeEEEeccccHHH-HHhcCCCCcEEe--CcccccCceEEEEcCCCCCchHhHHHHHHhhhcc
Q 037761 598 SNFGEYKEALSNGSRKGGVSAIFEEIPYIKV-FLKKYSSKYTTA--GPIYRTDGLGFAFAKDSPLVSHFSQAILLVRENQ 674 (753)
Q Consensus 598 ~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~-~~~~~~~~l~~~--~~~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~G 674 (753)
.+..+....+.+|+ +++.+.......+ .......++.++ ++-......++++.|+++-.+.-.++|.-|....
T Consensus 177 ~~~~~~~~~~~~Ge----~~i~i~~~~~~~~~~~~~~~~~~~~~~~~eG~~~~~~~~ai~k~a~n~e~A~~Fidflls~e 252 (309)
T TIGR01276 177 KGWSEAYGLFLKGE----SDLVLSYTTSPAYHILEEKKDNYAAANFSEGHYLQVEVAARTAASKQPELAQKFLQFLVSPA 252 (309)
T ss_pred CChHHHHHHHHcCC----cCEEEecCCcHHHHhhcccCcccceEecCCCCEeEEEEEEEeCCCCCHHHHHHHHHHHcCHH
Confidence 34556678898998 8887755433222 111211133222 2222222356788999987777777777777665
Q ss_pred hHHHHHHHh
Q 037761 675 TRMDRIEKK 683 (753)
Q Consensus 675 ~~~~~~~~~ 683 (753)
....+...
T Consensus 253 -~Q~~~~~~ 260 (309)
T TIGR01276 253 -FQNAIPTG 260 (309)
T ss_pred -HHHHHHhh
Confidence 34445444
No 369
>cd08428 PBP2_IciA_ArgP The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold. The inhibitor of chromosomal replication (iciA) protein encoded by Mycobacterium tuberculosis, which is implicated in chromosome replication initiation in vitro, has been identified as arginine permease (ArgP), a LysR-type transcriptional regulator for arginine outward transport, based on the same amino sequence and similar DNA binding targets. Arp has been shown to regulate various targets including DnaA (replication), ArgO (arginine export), dapB (lysine biosynthesis), and gdhA (glutamate biosynthesis). With abundant nutrition, ArgP activates the DnaA gene (to increase replication) and the ArgO (to export redundant molecules). However, when nutrition supply is limited, it is suggested that ArgP might function as an inhibitor of chromosome replication in order to slow replication. This substrate-
Probab=79.64 E-value=52 Score=30.51 Aligned_cols=172 Identities=8% Similarity=-0.004 Sum_probs=91.1
Q ss_pred HHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceEEEE
Q 037761 413 EIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTMLV 492 (753)
Q Consensus 413 dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v 492 (753)
.++..+.+ +. .+++.+... +...+.+.|.+|++|+++..-. .....+ .+.++......+++
T Consensus 17 ~~l~~f~~----~~--~v~l~l~~~---------~~~~~~~~l~~~~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~~~ 77 (195)
T cd08428 17 PALAPVLK----RE--RILLDLIVD---------DEDRTHDLLRDGEVVGCISTQA---QPMQGC-RSDYLGSMDYLLVA 77 (195)
T ss_pred HHHHHHHh----Cc--CeEEEEEeC---------CchhHHHHHHcCcceEEEEecC---CCCCCc-eeEEeeeeeEEEEE
Confidence 44555555 63 466666653 5678999999999998763211 111222 24566666777776
Q ss_pred ecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEE
Q 037761 493 PVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFVG 572 (753)
Q Consensus 493 ~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~ 572 (753)
+...... .....-+++||. +.++.
T Consensus 78 ~~~~~~~------------------------------------------------------~~~~~i~~~~L~--~~~~i 101 (195)
T cd08428 78 SPDFAAR------------------------------------------------------YFPNGLTREALL--KAPAV 101 (195)
T ss_pred CCcchhh------------------------------------------------------cCCCCCCHHHHh--cCcEE
Confidence 6442210 001245788995 44443
Q ss_pred E-ecCchHH-HHHHHhhCCCC--CceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCcccccCc
Q 037761 573 F-QSGSFVE-DFLVKQLNFSR--NQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTDG 648 (753)
Q Consensus 573 ~-~~~~~~~-~~~~~~~~~~~--~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 648 (753)
. ..+.... .++.+...... ......++......++..|. .-+++.+ .......... .+..+.+ .....
T Consensus 102 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~G~----Gi~~lp~-~~~~~~~~~~--~l~~l~~-~~~~~ 173 (195)
T cd08428 102 AFNRKDDLHQSFLQQHFGLPPGSYPCHYVPSSEAFVDLAAQGL----AYGMIPE-LQIEPELASG--ELIDLAP-GHLLR 173 (195)
T ss_pred EEcCCCchhHHHHHHHhccCCCCceEEEECCHHHHHHHHHhCC----eeEeccH-HHHHHHhcCC--CEEEccC-ccccc
Confidence 3 3333322 33332222221 12244678888899999997 5444443 3333222221 3444432 23456
Q ss_pred eEEEEcCCCCCchHhHHHH
Q 037761 649 LGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 649 ~~~~~~k~s~l~~~~n~~i 667 (753)
++++.+++.++-......+
T Consensus 174 ~~l~~~~~~~~s~~~~~~~ 192 (195)
T cd08428 174 VTLYWHRWNLESGLMKRLS 192 (195)
T ss_pred ceEEEecccccCHHHHHhh
Confidence 7778888766555555444
No 370
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=79.54 E-value=5.6 Score=26.85 Aligned_cols=39 Identities=21% Similarity=0.420 Sum_probs=22.3
Q ss_pred hhhHHHHHHHHHHHHHHHH--HHHhccchhhHHhhhcccCCCCCC
Q 037761 711 GGLFIIVGIATLLALLISE--RYIWQKPVSLVNKYLTSQKSPSNE 753 (753)
Q Consensus 711 ~~~f~il~~g~~l~~~vf~--~~~~~~~~~~~~~~~~~~~~~~~~ 753 (753)
...|+.+++|+++++.+|. ..+|- ..+.++-|...|+||
T Consensus 5 LRs~L~~~F~~lIC~Fl~~~~~F~~F----~~Kqilfr~~~~sne 45 (54)
T PF06716_consen 5 LRSYLLLAFGFLICLFLFCLVVFIWF----VYKQILFRNNPQSNE 45 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHccCCCcch
Confidence 3467888888887776665 22332 123344455555665
No 371
>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=79.47 E-value=15 Score=36.91 Aligned_cols=85 Identities=8% Similarity=0.106 Sum_probs=58.1
Q ss_pred EEEEEEe----eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHH
Q 037761 97 EVVLMYE----DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALV 172 (753)
Q Consensus 97 ~vail~~----d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a 172 (753)
+|++|++ |..|.....+.+.+..++.|+++...+..+ +..++...++.+.+.++|+|+..+.. ....+.+.|
T Consensus 1 kva~l~~g~~~D~~~n~~~~~G~~~~~~~~gv~~~~~e~~~---~~~~~~~~i~~~~~~g~dlIi~~g~~-~~~~~~~vA 76 (258)
T cd06353 1 KVAFVYVGPIGDQGWNYAHDEGRKAAEKALGVEVTYVENVP---EGADAERVLRELAAQGYDLIFGTSFG-FMDAALKVA 76 (258)
T ss_pred CEEEEEeCCCCccchhHHHHHHHHHHHHhcCCeEEEEecCC---chHhHHHHHHHHHHcCCCEEEECchh-hhHHHHHHH
Confidence 4778875 444666667888888888899988877653 25689999999988899999884432 223345555
Q ss_pred HHcCCCCCCEEEEEcCc
Q 037761 173 AKNGMMSKGYTWIVTAC 189 (753)
Q Consensus 173 ~~~g~~~~~~~wi~~~~ 189 (753)
.+. ++..|+..+.
T Consensus 77 ~~~----p~~~F~~~d~ 89 (258)
T cd06353 77 KEY----PDVKFEHCSG 89 (258)
T ss_pred HHC----CCCEEEECCC
Confidence 553 4556666544
No 372
>cd08485 PBP2_ClcR The C-terminal substrate binding domain of LysR-type transcriptional regulator ClcR involved in the chlorocatechol catabolism, contains type 2 periplasmic binding fold. In soil bacterium Pseudomonas putida, the ortho-pathways of catechol and 3-chlorocatechol are central catabolic pathways that convert aromatic and chloroaromaric compounds to tricarboxylic acid (TCA) cycle intermediates. The 3-chlorocatechol-degradative pathway is encoded by clcABD operon, which requires the divergently transcribed clcR and an intermediate of the pathway, 2-chloromuconate, as an inducer for activation. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding th
Probab=79.38 E-value=55 Score=30.61 Aligned_cols=69 Identities=9% Similarity=-0.003 Sum_probs=43.6
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceE
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVT 489 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~ 489 (753)
+..+++..+.+ +.- ++++.+... +.++++.+|.+|++|+++...... ...+. +.++......
T Consensus 15 ~l~~~l~~~~~----~~P-~i~l~~~~~---------~~~~~~~~l~~~~~D~~i~~~~~~---~~~l~-~~~l~~~~~~ 76 (198)
T cd08485 15 TLPLLLRQLLS----VAP-SATVSLTQM---------SKNRQIEALDAGTIDIGFGRFYPY---QEGVV-VRNVTNERLF 76 (198)
T ss_pred HHHHHHHHHHH----hCC-CcEEEEEEC---------CHHHHHHHHHcCCccEEEecCCCC---CCCeE-EEEeeccceE
Confidence 44566666666 543 466666653 567899999999999998532211 12222 3466677777
Q ss_pred EEEeccc
Q 037761 490 MLVPVKR 496 (753)
Q Consensus 490 ~~v~~~~ 496 (753)
+++++..
T Consensus 77 ~~~~~~~ 83 (198)
T cd08485 77 LGAQKSR 83 (198)
T ss_pred EEeCCCC
Confidence 7776554
No 373
>PF01177 Asp_Glu_race: Asp/Glu/Hydantoin racemase; InterPro: IPR015942 This entry represents a group of related proteins that includes aspartate racemase, glutamate racemase, hydantoin racemase and arylmalonate decarboxylase. Aspartate racemase (5.1.1.13 from EC) and glutamate racemase (5.1.1.3 from EC) are two evolutionary related bacterial enzymes that do not seem to require a cofactor for their activity []. Glutamate racemase, which interconverts L-glutamate into D-glutamate, is required for the biosynthesis of peptidoglycan and some peptide-based antibiotics such as gramicidin S. In addition to characterised aspartate and glutamate racemases, this family also includes a hypothetical protein from Erwinia carotovora and one from Escherichia coli (ygeA). Two conserved cysteines are present in the sequence of these enzymes. They are expected to play a role in catalytic activity by acting as bases in proton abstraction from the substrate.; PDB: 3S7Z_A 3S81_C 3OUT_A 3EIS_B 3IXL_A 3IP8_A 2VLB_D 3DTV_A 3IXM_A 3DG9_A ....
Probab=78.62 E-value=26 Score=33.89 Aligned_cols=126 Identities=16% Similarity=0.156 Sum_probs=75.5
Q ss_pred HHHHHHhcCCeEEEEcCCCCCcHHHHHHhh-ccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHcCCe
Q 037761 18 LAVDLLKKFQVQAIIGPQIPAAAPFLVELG-EKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNFSWH 96 (753)
Q Consensus 18 ~a~~Li~~~~V~aviG~~~s~~~~av~~i~-~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~ 96 (753)
++.+|. +.++++++-+.+|. ...+..+- ...++|+++.. .+.++.+.. +-+
T Consensus 57 ~~~~l~-~~g~d~i~i~C~s~-~~~~~~~~~~~~~iPv~~~~-------------------------~a~~~~~~~-~~~ 108 (216)
T PF01177_consen 57 AAEKLE-KAGVDAIVIACNSA-HPFVDELRKERVGIPVVGIV-------------------------EAALEAAKA-GGK 108 (216)
T ss_dssp HHHHHH-HTTESEEEESSHHH-HHHHHHHHHHHHSSEEEESH-------------------------HHHHHHHHH-TSS
T ss_pred HHHHHH-hCCCCEEEEcCCch-hhhHHHHhhhcCceEEEecc-------------------------HHHHHHHHh-cCC
Confidence 334444 46999988754443 23344444 66789988743 233555555 889
Q ss_pred EEEEEEeeCCcccchHHHHHHHHHhC-Ce--EEEEee------ccCCCC-ch---hhHHHHHHHH-hcCCccEEEEEeCh
Q 037761 97 EVVLMYEDTNYGAGFISFLVDELQEN-DI--RISHMS------KIPTSA-ED---FQISKELSKL-STMQTRVFIVHMNT 162 (753)
Q Consensus 97 ~vail~~d~~~g~~~~~~~~~~~~~~-g~--~v~~~~------~~~~~~-~~---~d~~~~l~~l-~~~~~~vIi~~~~~ 162 (753)
+++|+.. ++......+.+.+++. |+ +++... ....+. +. ..+...+.++ +..++|+|++.|..
T Consensus 109 ri~vl~t---~~~~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~ 185 (216)
T PF01177_consen 109 RIGVLTT---YTTEKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELGDIPPEQIEILAEAARELIKEDGADAIILGCTH 185 (216)
T ss_dssp EEEEEES---HHHHHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTTCTTHHHHHHHHHHHHHHHHCTTSSEEEEESTT
T ss_pred EEEEEec---CcccchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhhcCCHHHHHHHHHHHHHHhccCCCCEEEECCCc
Confidence 9999995 5556677888888888 87 554421 110111 12 2344455555 47899999998875
Q ss_pred HHHH-HHHHHHHH
Q 037761 163 ALAS-RLFALVAK 174 (753)
Q Consensus 163 ~~~~-~~~~~a~~ 174 (753)
-... .....+.+
T Consensus 186 l~~~~~~~~~l~~ 198 (216)
T PF01177_consen 186 LPLLLGAIEALEE 198 (216)
T ss_dssp GGGGHHHHHHHHH
T ss_pred hHHHHHHHHhhcc
Confidence 4333 45555444
No 374
>cd08447 PBP2_LTTR_aromatics_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type regulator similar to CbnR which is involved in the regulation of chlorocatechol breakdown. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Ve
Probab=78.29 E-value=57 Score=30.20 Aligned_cols=71 Identities=14% Similarity=0.116 Sum_probs=45.7
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
.+..+++..+.+ ... ++++.+... ....+...|.+|++|+++.... .....+. +.+......
T Consensus 13 ~~l~~~l~~~~~----~~P-~i~v~~~~~---------~~~~~~~~l~~g~~D~~i~~~~---~~~~~~~-~~~l~~~~~ 74 (198)
T cd08447 13 SFLPRLLAAARA----ALP-DVDLVLREM---------VTTDQIEALESGRIDLGLLRPP---FARPGLE-TRPLVREPL 74 (198)
T ss_pred HHHHHHHHHHHH----HCC-CeEEEEEeC---------CHHHHHHHHHcCCceEEEecCC---CCCCCee-EEEeecCce
Confidence 344566666666 654 466666653 6789999999999999984321 1112222 356677778
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
+++++...+
T Consensus 75 ~~v~~~~~p 83 (198)
T cd08447 75 VAAVPAGHP 83 (198)
T ss_pred EEEecCCCc
Confidence 888876543
No 375
>cd08431 PBP2_HupR The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold. HupR, a member of the LysR family, activates hupA transcription under low-iron conditions in the presence of hemin. The expression of many iron-uptake genes, such as hupA, is regulated at the transcriptional level by iron and an iron-binding repressor protein called Fur (ferric uptake regulation). Under iron-abundant conditions with heme, the active Fur repressor protein represses transcription of the iron-uptake gene hupA, and prevents transcriptional activation via HupR. Under low-iron conditions with heme, the Fur repressor is inactive and transcription of the hupA is allowed. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, p
Probab=78.15 E-value=39 Score=31.39 Aligned_cols=72 Identities=13% Similarity=0.029 Sum_probs=46.2
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
++..+++..+.+ +.- ++++++... +.+.++.+|.+|++|+++...... ....+ .+.+......
T Consensus 13 ~~l~~~l~~~~~----~~P-~v~i~i~~~---------~~~~~~~~l~~g~~D~~i~~~~~~--~~~~~-~~~~l~~~~~ 75 (195)
T cd08431 13 QPLYPLIAEFYQ----LNK-ATRIRLSEE---------VLGGTWDALASGRADLVIGATGEL--PPGGV-KTRPLGEVEF 75 (195)
T ss_pred HHHHHHHHHHHH----HCC-CCceEEEEe---------ccchHHHHHhCCCCCEEEEecCCC--CCCce-EEEecccceE
Confidence 445677777777 653 366666653 567889999999999998532111 11122 2456667778
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
+++++...+
T Consensus 76 ~~v~~~~hp 84 (195)
T cd08431 76 VFAVAPNHP 84 (195)
T ss_pred EEEEcCCCh
Confidence 888886643
No 376
>PRK00865 glutamate racemase; Provisional
Probab=78.06 E-value=20 Score=36.14 Aligned_cols=40 Identities=25% Similarity=0.367 Sum_probs=29.4
Q ss_pred HHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEe
Q 037761 16 LILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIIS 56 (753)
Q Consensus 16 ~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is 56 (753)
.+.+..|. +.++.+++=+..+..+.++..+-+...+|+|+
T Consensus 57 ~~~~~~L~-~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 57 LEIVEFLL-EYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHHHHHHH-hCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 34444444 45899998877777777777777788999998
No 377
>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=78.00 E-value=19 Score=37.98 Aligned_cols=84 Identities=17% Similarity=0.129 Sum_probs=57.0
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.++++.+| +++.|+++...+- ...+.+.+.+++.|+.+.... +....+.......+..+++.++|.||-.|.+.
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~~-~~~~~v~~~l~~~~i~~~~~~-~~~~p~~~~v~~~~~~~~~~~~d~IIavGGGs 88 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVLK-KSRPRFEAALAKSIIVVDVIV-FGGECSTEEVVKALCGAEEQEADVIIGVGGGK 88 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHHH-HHHHHHHHHHHhcCCeeEEEE-cCCCCCHHHHHHHHHHHHhcCCCEEEEecCcH
Confidence 44667788888 8887777544433 556788888998887653332 43333455677778888888999999887655
Q ss_pred --HHHHHHH
Q 037761 164 --LASRLFA 170 (753)
Q Consensus 164 --~~~~~~~ 170 (753)
|+..++.
T Consensus 89 ~~D~aK~ia 97 (349)
T cd08550 89 TLDTAKAVA 97 (349)
T ss_pred HHHHHHHHH
Confidence 5555553
No 378
>PRK11119 proX glycine betaine transporter periplasmic subunit; Provisional
Probab=77.90 E-value=41 Score=35.13 Aligned_cols=72 Identities=14% Similarity=0.129 Sum_probs=41.2
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeec----ccc----eeeeccc
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVA----SRT----DYVEFTL 481 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~----~r~----~~~~fs~ 481 (753)
+...+++.+.+ ++|.+++ ++.+. +-.-++..|.+|++|+......++. +.. +.++...
T Consensus 43 ~~t~v~~~iLe----~~GY~V~-e~~~~---------~~~~~~~ala~GdiDv~~~~W~P~~~~~~~~~~~~~~v~~~g~ 108 (331)
T PRK11119 43 FQTLLVSRALE----KLGYDVN-KPKEV---------DYNVFYTSIANGDATFTAVNWFPLHDDMYEAAGGDKKFYREGV 108 (331)
T ss_pred HHHHHHHHHHH----HcCCcee-eeccc---------CcHHHHHHHHcCCCeEehhhcccccHHHHHHhhccCcEEeccc
Confidence 33455656656 8886440 34443 3478899999999999876655431 111 1223333
Q ss_pred cccccceEEEEecc
Q 037761 482 PYSESGVTMLVPVK 495 (753)
Q Consensus 482 p~~~~~~~~~v~~~ 495 (753)
.+-.....++||+-
T Consensus 109 ~~~~a~~G~~VP~y 122 (331)
T PRK11119 109 YVGGAAQGYLIDKK 122 (331)
T ss_pred cCCCcceeeeecHH
Confidence 33444567777753
No 379
>PRK10852 thiosulfate transporter subunit; Provisional
Probab=77.51 E-value=91 Score=32.72 Aligned_cols=77 Identities=18% Similarity=0.114 Sum_probs=40.7
Q ss_pred hHHHHHHHHHHHH----h-cCCccceEEEecCCCCCCCCCChHHHHHHHHcC-cccEEEeeeeeecccc--e--eee---
Q 037761 412 MEIFNATLEIVEE----K-LGMKIHPQLVPYEDENGEMAGTYDELLYQIKLK-KFDAVVGDISIVASRT--D--YVE--- 478 (753)
Q Consensus 412 ~dll~~ia~~~~~----~-l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~Di~~~~~~~t~~r~--~--~~~--- 478 (753)
-++++.|...+++ + -|.+++++..- +........+.+| ++|+.+.+....-++. + .+.
T Consensus 37 ~e~~~~i~~~F~~~~~~~~~g~~v~i~~s~---------ggSg~~~~qi~~G~~ADV~~~A~~~~~d~l~~~g~li~~~~ 107 (338)
T PRK10852 37 RELFAALNPPFEQQWAKDNPGDKLTIKQSH---------AGSSKQALAILQGLKADVVTYNQVTDVQILHDKGKLIPADW 107 (338)
T ss_pred HHHHHHHHHHHHHHHHhhCCCCceEEEEcC---------CCcHHHHHHHhcCCCcCEEecCCHHHHHHHHHCCCCCCcch
Confidence 3555666665553 2 26444433332 2445566666666 6898875553222221 1 111
Q ss_pred ------ccccccccceEEEEecccCC
Q 037761 479 ------FTLPYSESGVTMLVPVKRDN 498 (753)
Q Consensus 479 ------fs~p~~~~~~~~~v~~~~~~ 498 (753)
-+.|| .+.++|++++.++.
T Consensus 108 ~~~~~~n~~p~-~s~lV~vv~kgnpk 132 (338)
T PRK10852 108 QSRLPNNSSPF-YSTMAFLVRKGNPK 132 (338)
T ss_pred hhcccccCCcc-cceEEEEEECCCCC
Confidence 23455 56799999987654
No 380
>cd08180 PDD 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism. 1,3-propanediol dehydrogenase (PPD) plays a role in glycerol metabolism of some bacteria in anaerobic conditions. In this degradation pathway, glycerol is converted in a two-step process to 1,3-propanediol (1,3-PD) which is then excreted into the extracellular medium. The first reaction involves the transformation of glycerol into 3-hydroxypropionaldehyde (3-HPA) by a coenzyme B-12-dependent dehydratase. The second reaction involves the dismutation of the 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol by the NADH-linked 1,3-propanediol dehydrogenase (PPD). The enzyme require iron ion for its function. Because many genes in this pathway are present in the pdu (propanediol utilisation) operon, they are also named pdu genes. PPD is a member of the iron-containing alcohol dehydrogenase superfamily. The PPD structure has a dehydroquinat
Probab=77.21 E-value=16 Score=38.37 Aligned_cols=79 Identities=13% Similarity=0.207 Sum_probs=53.2
Q ss_pred HHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH--HHHHH
Q 037761 91 QNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA--LASRL 168 (753)
Q Consensus 91 ~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~--~~~~~ 168 (753)
..++.+++.++++...+.....+.+.+.+++. +.+.....+..+.+.......+..+++.++|+|+-.|-+. |+...
T Consensus 18 ~~~~~~~~lvv~~~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IiaiGGGs~~D~aKa 96 (332)
T cd08180 18 KELKNKRVLIVTDPFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPDPPIEVVAKGIKKFLDFKPDIVIALGGGSAIDAAKA 96 (332)
T ss_pred HHhCCCeEEEEeCchhhhCccHHHHHHHHHhc-CcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEECCchHHHHHHH
Confidence 44556898888854444444677888888876 5544333344445566777888888899999999876644 55555
Q ss_pred HH
Q 037761 169 FA 170 (753)
Q Consensus 169 ~~ 170 (753)
+.
T Consensus 97 ~a 98 (332)
T cd08180 97 II 98 (332)
T ss_pred HH
Confidence 43
No 381
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=77.00 E-value=27 Score=34.83 Aligned_cols=43 Identities=19% Similarity=0.225 Sum_probs=32.8
Q ss_pred HHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEee
Q 037761 15 KLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISF 57 (753)
Q Consensus 15 a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~ 57 (753)
..+.+..|.++.++.+++=|..+..+.+...+-+...+|+|+.
T Consensus 49 ~~~~~~~L~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~i 91 (251)
T TIGR00067 49 VLELLTFLKERHNIKLLVVACNTASALALEDLQRNFDFPVVGV 91 (251)
T ss_pred HHHHHHHHHHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEEee
Confidence 3344455552568999999888887788888888889999984
No 382
>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=76.97 E-value=25 Score=30.56 Aligned_cols=80 Identities=6% Similarity=-0.083 Sum_probs=50.7
Q ss_pred EeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh----HHHHHHHHHHHHcCC
Q 037761 102 YEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT----ALASRLFALVAKNGM 177 (753)
Q Consensus 102 ~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~----~~~~~~~~~a~~~g~ 177 (753)
...++.-.-....+...++..|.++.+-.... .....+..+++.+|++|.+++.. +.+..+++++++.|.
T Consensus 6 ~~~gd~H~lG~~~~~~~l~~~G~~vi~lG~~v------p~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~ 79 (122)
T cd02071 6 KPGLDGHDRGAKVIARALRDAGFEVIYTGLRQ------TPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELGA 79 (122)
T ss_pred ecCCChhHHHHHHHHHHHHHCCCEEEECCCCC------CHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcCC
Confidence 33344444455667778999999987664422 23356677777899999998753 355667777888765
Q ss_pred CCCCEEEEEcC
Q 037761 178 MSKGYTWIVTA 188 (753)
Q Consensus 178 ~~~~~~wi~~~ 188 (753)
. .-.+|+++.
T Consensus 80 ~-~i~i~~GG~ 89 (122)
T cd02071 80 G-DILVVGGGI 89 (122)
T ss_pred C-CCEEEEECC
Confidence 2 233444443
No 383
>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=76.13 E-value=14 Score=39.98 Aligned_cols=79 Identities=11% Similarity=0.178 Sum_probs=57.7
Q ss_pred cCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH--HHHHHHH
Q 037761 93 FSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA--LASRLFA 170 (753)
Q Consensus 93 ~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~--~~~~~~~ 170 (753)
.+.+++.||++.........+.+.+.+++.|+++.....+..+.+.......+..+++.++|+||-.|-+. |+..++.
T Consensus 19 ~~~~k~liVtd~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD~AK~iA 98 (398)
T cd08178 19 KGKKRAFIVTDRFMVKLGYVDKVIDVLKRRGVETEVFSDVEPDPSLETVRKGLELMNSFKPDTIIALGGGSPMDAAKIMW 98 (398)
T ss_pred cCCCeEEEEcChhHHhCccHHHHHHHHHHCCCeEEEecCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHHHH
Confidence 35688888885444444577889999999998876554555566667788888889999999999876543 6666654
Q ss_pred H
Q 037761 171 L 171 (753)
Q Consensus 171 ~ 171 (753)
.
T Consensus 99 ~ 99 (398)
T cd08178 99 L 99 (398)
T ss_pred H
Confidence 3
No 384
>TIGR03298 argP transcriptional regulator, ArgP family. ArgP used to be known as IciA. ArgP is a positive regulator of argK. It is a negative autoregulator in presence of arginine. It competes with DnaA for oriC iteron (13-mer) binding. It activates dnaA and nrd transcription. It has been demonstrated to be part of the pho regulon (PubMed:10589831). ArgP mutants convey canavanine (an L-arginine structural homolog) sensitivity (PubMed: 15150242).
Probab=76.05 E-value=95 Score=31.57 Aligned_cols=173 Identities=12% Similarity=0.008 Sum_probs=92.7
Q ss_pred HHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceEEEE
Q 037761 413 EIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTMLV 492 (753)
Q Consensus 413 dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~v 492 (753)
.++..+.+ +.+ +++..... +-...++.|.+|++|+++...... ...+. +.++.....++++
T Consensus 107 ~~l~~~~~----~~~--i~i~l~~~---------~~~~~~~~l~~g~~d~~i~~~~~~---~~~l~-~~~l~~~~~~~v~ 167 (292)
T TIGR03298 107 PALAPVLA----QEG--VLLDLVVE---------DQDHTAELLRSGEVLGAVTTQAKP---VQGCR-VVPLGAMRYLAVA 167 (292)
T ss_pred HHHHHHHh----CCC--ceEEEEeC---------cchhHHHHHhCCCceEEEecCCCC---CCCce-EEecCCceEEEEE
Confidence 45555555 533 55555542 456789999999999998542221 22333 4677888888888
Q ss_pred ecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeEE
Q 037761 493 PVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFVG 572 (753)
Q Consensus 493 ~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~~ 572 (753)
+++.... ....--+++||. +.++.
T Consensus 168 ~~~~~~~------------------------------------------------------~~~~~i~~~dL~--~~~~i 191 (292)
T TIGR03298 168 SPAFAAR------------------------------------------------------YFPDGVTAEALA--RAPVI 191 (292)
T ss_pred Cchhhhh------------------------------------------------------ccCCCCCHHHhc--CCCEE
Confidence 7653210 000123788995 44443
Q ss_pred Ee-cCch-HHHHHHHhh--CCCCCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCcccccCc
Q 037761 573 FQ-SGSF-VEDFLVKQL--NFSRNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTDG 648 (753)
Q Consensus 573 ~~-~~~~-~~~~~~~~~--~~~~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 648 (753)
.. .+.. ...++.... .. .......++.......+..|. .-+++.. .......... .+..+... ...+
T Consensus 192 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~v~~g~----Gi~~~p~-~~~~~~~~~~--~l~~~~~~-~~~~ 262 (292)
T TIGR03298 192 VFNRKDDLQDRFLRRLFGLPV-SPPRHYVPSSEGFVEAARAGL----GWGMVPE-LQAEPHLAAG--RLVDLAPG-RALD 262 (292)
T ss_pred EeCCCCccHHHHHHHHhcCCC-CCCeEecCCHHHHHHHHHhCC----CeEeCcH-HHHHHHHhcC--CeEEecCC-CCCC
Confidence 33 3222 223333211 11 123456778888899999987 5555443 3333322222 34444432 2456
Q ss_pred eEEEEcCCCCCchHhHHHHHH
Q 037761 649 LGFAFAKDSPLVSHFSQAILL 669 (753)
Q Consensus 649 ~~~~~~k~s~l~~~~n~~i~~ 669 (753)
++++.+|+.+.-......+..
T Consensus 263 ~~l~~~~~~~~~~~~~~~~~~ 283 (292)
T TIGR03298 263 VPLYWHHWRLESRVLERLTDA 283 (292)
T ss_pred ceEEEeccCCCChHHHHHHHH
Confidence 777777765544444444433
No 385
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=75.86 E-value=96 Score=31.51 Aligned_cols=71 Identities=11% Similarity=0.058 Sum_probs=45.7
Q ss_pred ehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceEE
Q 037761 411 CMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTM 490 (753)
Q Consensus 411 ~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 490 (753)
...+++.+.+ +.. ++++.+... +-.+++.+|.+|++|+++.... .......+. +.|+....+++
T Consensus 112 l~~~l~~f~~----~~p-~i~l~i~~~---------~~~~~~~~l~~g~~D~~i~~~~-~~~~~~~l~-~~~l~~~~~~~ 175 (294)
T PRK09986 112 LRPAMRHFLK----ENP-NVEWLLREL---------SPSMQMAALERRELDAGIWRMA-DLEPNPGFT-SRRLHESAFAV 175 (294)
T ss_pred HHHHHHHHHH----hCC-CeEEEEEeC---------CHHHHHHHHHcCCCCEEEecCC-ccCCCCCeE-EEEeecccEEE
Confidence 3556666665 554 456666653 5578999999999999984211 011123343 36777888999
Q ss_pred EEecccC
Q 037761 491 LVPVKRD 497 (753)
Q Consensus 491 ~v~~~~~ 497 (753)
++++..+
T Consensus 176 v~~~~~~ 182 (294)
T PRK09986 176 AVPEEHP 182 (294)
T ss_pred EEcCCCC
Confidence 9987764
No 386
>COG4588 AcfC Accessory colonization factor AcfC, contains ABC-type periplasmic domain [General function prediction only]
Probab=75.34 E-value=7.6 Score=36.28 Aligned_cols=73 Identities=22% Similarity=0.250 Sum_probs=44.4
Q ss_pred HHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeec---ccceeeec----cccccccc
Q 037761 415 FNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVA---SRTDYVEF----TLPYSESG 487 (753)
Q Consensus 415 l~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~---~r~~~~~f----s~p~~~~~ 487 (753)
++.+|+..+|+.|.++.+.+-|. .+|.+ =..+.+|+.+++-.-+. .+...=+| -.|.+.-.
T Consensus 35 L~~vA~~~~ektg~kVnvt~GPq--------~tW~~----kAkknADilfgaseqsalaia~~~~~~fs~~~i~ply~R~ 102 (252)
T COG4588 35 LKDVAKKYEEKTGIKVNVTAGPQ--------ATWNE----KAKKNADILFGASEQSALAIAEDHKDSFSEKNIQPLYLRP 102 (252)
T ss_pred HHHHHHHHHHHhCeEEEEecCCc--------chhhh----hhhccCceeecccHHHHHHHHHhccccccccccceeeeec
Confidence 33444445559998888877775 36765 35677898876532111 01111113 25777788
Q ss_pred eEEEEecccCCC
Q 037761 488 VTMLVPVKRDNR 499 (753)
Q Consensus 488 ~~~~v~~~~~~~ 499 (753)
..++|++.++..
T Consensus 103 aiIlvkkgNPkn 114 (252)
T COG4588 103 AIILVKKGNPKN 114 (252)
T ss_pred eEEEecCCCccc
Confidence 889999887765
No 387
>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=74.92 E-value=15 Score=37.00 Aligned_cols=78 Identities=5% Similarity=0.141 Sum_probs=54.7
Q ss_pred EEEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC-hHHHHHHHHHHH
Q 037761 97 EVVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN-TALASRLFALVA 173 (753)
Q Consensus 97 ~vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~-~~~~~~~~~~a~ 173 (753)
+|+++.. ++.|.....+.+.+++++.|.++..... ..+.......+..+.+.++|.|++... .......++.+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~~ 77 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEALGGDLRVYDA---GGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRAL 77 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHHH
Confidence 3667765 5667788889999999999998876432 223344556777777778999999753 333456677788
Q ss_pred HcCC
Q 037761 174 KNGM 177 (753)
Q Consensus 174 ~~g~ 177 (753)
+.|+
T Consensus 78 ~~~i 81 (273)
T cd06305 78 DAGI 81 (273)
T ss_pred HcCC
Confidence 8775
No 388
>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=74.74 E-value=53 Score=34.62 Aligned_cols=75 Identities=13% Similarity=0.164 Sum_probs=49.2
Q ss_pred HHHHHHHHhcCCeEEEEcCCCCCcHHHHHHh------------------------hccCCccEEeecCCCCCCCCCCCCc
Q 037761 16 LILAVDLLKKFQVQAIIGPQIPAAAPFLVEL------------------------GEKAQVPIISFFETSPALSPTEHPF 71 (753)
Q Consensus 16 ~~~a~~Li~~~~V~aviG~~~s~~~~av~~i------------------------~~~~~vP~is~~a~~~~l~~~~~~~ 71 (753)
..++.+|++..+|+.+++.+-+..++++... +.+.+||+|+-++.
T Consensus 12 ~~a~~~l~~~g~~d~l~~d~LaE~tma~~~~~~~~~p~~gY~~~~~~~L~~~L~~~~~~gIkvI~NaGg----------- 80 (362)
T PF07287_consen 12 PDAAVRLARGGDVDYLVGDYLAERTMAILARAKRKDPTKGYAPDFVRDLRPLLPAAAEKGIKVITNAGG----------- 80 (362)
T ss_pred HHHHHHHHhcCCCCEEEEecHHHHHHHHHHHHHhhCCCCCchHHHHHHHHHHHHHHHhCCCCEEEeCCC-----------
Confidence 3567788888899999998888766665552 23445555553321
Q ss_pred eEEEecCcHHHHHHHHHHHHHcCCe-EEEEEEeeCC
Q 037761 72 FIRVTQNDSLQVKAISAVLQNFSWH-EVVLMYEDTN 106 (753)
Q Consensus 72 ~fr~~p~~~~~~~a~~~~l~~~~w~-~vail~~d~~ 106 (753)
.+....++.+.+++++.|.+ |||.|+.|+.
T Consensus 81 -----~np~~~a~~v~eia~e~Gl~lkvA~V~gDd~ 111 (362)
T PF07287_consen 81 -----LNPAGCADIVREIARELGLSLKVAVVYGDDL 111 (362)
T ss_pred -----CCHHHHHHHHHHHHHhcCCCeeEEEEECccc
Confidence 12333667777788777764 8888887665
No 389
>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=74.46 E-value=13 Score=39.74 Aligned_cols=79 Identities=10% Similarity=0.119 Sum_probs=56.1
Q ss_pred cCCeEEEEEEeeCCcc-cchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH--HHHHHH
Q 037761 93 FSWHEVVLMYEDTNYG-AGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA--LASRLF 169 (753)
Q Consensus 93 ~~w~~vail~~d~~~g-~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~--~~~~~~ 169 (753)
++.+++.|+++...+- .+..+.+.+.+++.|+++.....+..+.+.......+..+++.++|+||-.|-+. |+...+
T Consensus 21 ~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGGSviD~AK~i 100 (375)
T cd08179 21 LKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPDPSVETVLKGAEAMREFEPDWIIALGGGSPIDAAKAM 100 (375)
T ss_pred hcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHHH
Confidence 3457888887544332 3556788899999998876554454456677888889999999999999887654 555555
Q ss_pred HH
Q 037761 170 AL 171 (753)
Q Consensus 170 ~~ 171 (753)
..
T Consensus 101 a~ 102 (375)
T cd08179 101 WI 102 (375)
T ss_pred HH
Confidence 43
No 390
>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=74.03 E-value=62 Score=36.30 Aligned_cols=130 Identities=11% Similarity=0.067 Sum_probs=79.0
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
.++-..++..|.+.+.++++++||.-.+++. -+-....+|+|...-+. ...-+++ .
T Consensus 36 ~~~~~~~~~~a~~~~~~~~~dviIsrG~ta~-----~i~~~~~iPVv~i~~s~------------------~Dil~al-~ 91 (526)
T TIGR02329 36 QLGFEDAVREIRQRLGAERCDVVVAGGSNGA-----YLKSRLSLPVIVIKPTG------------------FDVMQAL-A 91 (526)
T ss_pred eccHHHHHHHHHHHHHhCCCcEEEECchHHH-----HHHHhCCCCEEEecCCh------------------hhHHHHH-H
Confidence 4566788888866555568899997655422 22234578888764321 1233343 3
Q ss_pred HHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHH
Q 037761 89 VLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRL 168 (753)
Q Consensus 89 ~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~ 168 (753)
..+.++ .++++|...+.. ...+.+.+.+ ++.+.... +. +..|....+.++++.+.++|+..+ ..
T Consensus 92 ~a~~~~-~~ia~vg~~~~~--~~~~~~~~ll---~~~i~~~~-~~---~~~e~~~~~~~l~~~G~~~viG~~------~~ 155 (526)
T TIGR02329 92 RARRIA-SSIGVVTHQDTP--PALRRFQAAF---NLDIVQRS-YV---TEEDARSCVNDLRARGIGAVVGAG------LI 155 (526)
T ss_pred HHHhcC-CcEEEEecCccc--HHHHHHHHHh---CCceEEEE-ec---CHHHHHHHHHHHHHCCCCEEECCh------HH
Confidence 335554 578888764432 2334444444 44544332 22 366999999999999999888442 23
Q ss_pred HHHHHHcCCC
Q 037761 169 FALVAKNGMM 178 (753)
Q Consensus 169 ~~~a~~~g~~ 178 (753)
...|+++||.
T Consensus 156 ~~~A~~~gl~ 165 (526)
T TIGR02329 156 TDLAEQAGLH 165 (526)
T ss_pred HHHHHHcCCc
Confidence 4678889974
No 391
>PRK03635 chromosome replication initiation inhibitor protein; Validated
Probab=73.98 E-value=70 Score=32.68 Aligned_cols=179 Identities=11% Similarity=0.006 Sum_probs=98.5
Q ss_pred hHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceEEE
Q 037761 412 MEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTML 491 (753)
Q Consensus 412 ~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~~ 491 (753)
..++..+.+ +-+ +++++... .-...+..+.+|++|+++..-.. ....+ .+.++....++++
T Consensus 106 ~~~l~~f~~----~~~--i~i~l~~~---------~~~~~~~~l~~~~~d~~i~~~~~---~~~~l-~~~~l~~~~~~lv 166 (294)
T PRK03635 106 LPALAPVLA----RSG--VLLDLVVE---------DQDHTAELLRRGEVVGAVTTEPQ---PVQGC-RVDPLGAMRYLAV 166 (294)
T ss_pred HHHHHHHHh----CCC--cEEEEEec---------CcHHHHHHHhCCCceEEEeccCC---CCCCc-eeeecccceEEEE
Confidence 445555555 644 56666553 45788999999999999753221 22223 3578888999999
Q ss_pred EecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeE
Q 037761 492 VPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFV 571 (753)
Q Consensus 492 v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~ 571 (753)
++...... .....-+++||. ..++
T Consensus 167 ~~~~~~~~------------------------------------------------------~~~~~~~~~~l~--~~~~ 190 (294)
T PRK03635 167 ASPAFAAR------------------------------------------------------YFPDGVTAEALA--KAPA 190 (294)
T ss_pred EcchHHHh------------------------------------------------------hccCCCCHHHHh--hCCe
Confidence 88653210 000134788995 3333
Q ss_pred E-EecCchH-HHHHHHhhCCC--CCceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCCCcEEeCcccccC
Q 037761 572 G-FQSGSFV-EDFLVKQLNFS--RNQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSSKYTTAGPIYRTD 647 (753)
Q Consensus 572 ~-~~~~~~~-~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 647 (753)
. ...+... ..++.+..... .......++.......+..|. .-++ .+.......... ..+..+... ...
T Consensus 191 I~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~-lp~~~~~~~~~~--~~l~~l~~~-~~~ 262 (294)
T PRK03635 191 VVFNRKDDLQDRFLRQAFGLPPGSVPCHYVPSSEAFVRAALAGL----GWGM-IPELQIEPELAS--GELVDLTPG-RPL 262 (294)
T ss_pred EeecCCCchHHHHHHHhhccCcccCceeecCCHHHHHHHHHhCC----CeEe-CcHHHHhhhhcc--CceeecCCC-CCC
Confidence 3 3333322 23433211111 123345677888899998886 4444 333333322222 134444322 245
Q ss_pred ceEEEEcCCCCCchHhHHHHHHhhhc
Q 037761 648 GLGFAFAKDSPLVSHFSQAILLVREN 673 (753)
Q Consensus 648 ~~~~~~~k~s~l~~~~n~~i~~l~~~ 673 (753)
.+.++.+++.+........+..+++.
T Consensus 263 ~~~l~~~~~~~~~~~~~~~~~~i~~~ 288 (294)
T PRK03635 263 DVPLYWQHWRLESRLLDRLTDALLAA 288 (294)
T ss_pred CceeeeeeeccCCHHHHHHHHHHHHH
Confidence 66777888777666666666655544
No 392
>cd08432 PBP2_GcdR_TrpI_HvrB_AmpR_like The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate domain of LysR-type transcriptional regulators involved in controlling the expression of glutaryl-CoA dehydrogenase (GcdH), S-adenosyl-L-homocysteine hydrolase, cell division protein FtsW, tryptophan synthase, and beta-lactamase. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex compris
Probab=73.50 E-value=39 Score=31.20 Aligned_cols=65 Identities=6% Similarity=-0.102 Sum_probs=38.1
Q ss_pred ehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccceEE
Q 037761 411 CMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGVTM 490 (753)
Q Consensus 411 ~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~~~ 490 (753)
...++..+.+ +.- .+++.+... . .+..|.+|++|+++..... ....+ .+.+......++
T Consensus 15 l~~~l~~~~~----~~P-~v~i~~~~~---------~---~~~~l~~g~~D~~i~~~~~---~~~~~-~~~~l~~~~~~~ 73 (194)
T cd08432 15 LIPRLARFQA----RHP-DIDLRLSTS---------D---RLVDFAREGIDLAIRYGDG---DWPGL-EAERLMDEELVP 73 (194)
T ss_pred HHHHhHHHHH----HCC-CeEEEEEec---------C---CccccccccccEEEEecCC---CCCCc-ceEEccCCcEEE
Confidence 3444555554 543 456666542 2 4677999999999843221 11222 245677788888
Q ss_pred EEeccc
Q 037761 491 LVPVKR 496 (753)
Q Consensus 491 ~v~~~~ 496 (753)
++++..
T Consensus 74 v~~~~~ 79 (194)
T cd08432 74 VCSPAL 79 (194)
T ss_pred ecCHHH
Confidence 887653
No 393
>TIGR02136 ptsS_2 phosphate binding protein. Members of this family are phosphate-binding proteins. Most are found in phosphate ABC-transporter operons, but some are found in phosphate regulatory operons. This model separates members of the current family from the phosphate ABC transporter phosphate binding protein described by TIGRFAMs model TIGR00975.
Probab=73.36 E-value=36 Score=34.79 Aligned_cols=72 Identities=7% Similarity=-0.068 Sum_probs=46.9
Q ss_pred eehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeeccc-----cee--eecccc
Q 037761 410 FCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASR-----TDY--VEFTLP 482 (753)
Q Consensus 410 ~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r-----~~~--~~fs~p 482 (753)
+..++++.+.+ +.. ++++.+... ...++++.|.+|++|+++..-....+. .+. +. ..+
T Consensus 49 ~lp~~l~~f~~----~~P-~i~v~i~~~---------~s~~l~~~L~~G~iDlai~~~~~~~~~~~~~~~~~~~l~-~~~ 113 (287)
T TIGR02136 49 LAEAAAEEFQK----IHP-GVSVTVQGA---------GSGTGIKALINGTVDIGNSSRPIKDEELQKDKQKGIKLI-EHK 113 (287)
T ss_pred HHHHHHHHHHh----hCC-CceEEEccC---------CchHHHHHHHcCCCchhhccCCCCHHHHHHHhhcCCCce-EEE
Confidence 44666666666 664 356666653 689999999999999987432222221 001 22 457
Q ss_pred ccccceEEEEeccc
Q 037761 483 YSESGVTMLVPVKR 496 (753)
Q Consensus 483 ~~~~~~~~~v~~~~ 496 (753)
+....+++++++++
T Consensus 114 l~~~~l~lvv~~~h 127 (287)
T TIGR02136 114 VAVDGLAVVVNKKN 127 (287)
T ss_pred EEEeeEEEEECCCC
Confidence 88888999988765
No 394
>TIGR00971 3a0106s03 sulfate/thiosulfate-binding protein. This model describes binding proteins functionally associated with the sulfate ABC transporter. In the model bacterium E. coli, two different members work with the same transporter; mutation analysis says each enables the uptake of both sulfate and thiosulfate. In many species, a single binding protein is found, and may be referred to in general terms as a sulfate ABC transporter sulfate-binding protein.
Probab=73.24 E-value=1.2e+02 Score=31.46 Aligned_cols=80 Identities=14% Similarity=0.139 Sum_probs=47.6
Q ss_pred eeehHHHHHHHHHHHHh----cCCccceEEEecCCCCCCCCCChHHHHHHHHcC-cccEEEeeeeeecccc---eeeec-
Q 037761 409 GFCMEIFNATLEIVEEK----LGMKIHPQLVPYEDENGEMAGTYDELLYQIKLK-KFDAVVGDISIVASRT---DYVEF- 479 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~----l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~Di~~~~~~~t~~r~---~~~~f- 479 (753)
+..-+.++.|++.++++ .|.++++++.- +....+..+|.+| .+|+.+++-.-..++. ..+..
T Consensus 19 ~~~~~~~~~i~~~fe~~~~~~~g~~v~v~~~~---------g~Sg~l~~Qi~~Ga~~Dvf~sa~~~~~~~l~~~g~i~~~ 89 (315)
T TIGR00971 19 DPTRELYEQYNKAFEAHWKQDTGDNVVIRQSH---------GGSGKQATSVINGIEADVVTLALAYDVDAIAERGRIDKD 89 (315)
T ss_pred cccHHHHHHHHHHHHHHHHhcCCCceEEEEec---------CCcHHHHHHHHcCCCcCEEecCCHHHHHHHHHCCCCCcc
Confidence 33456777888877763 67554454332 3567888888886 5899876543211121 12221
Q ss_pred --------cccccccceEEEEecccCC
Q 037761 480 --------TLPYSESGVTMLVPVKRDN 498 (753)
Q Consensus 480 --------s~p~~~~~~~~~v~~~~~~ 498 (753)
+.||. ..+++++++++..
T Consensus 90 ~~~~~~~n~~~~~-~~lvl~v~k~~~~ 115 (315)
T TIGR00971 90 WIKRLPDNSAPYT-STIVFLVRKGNPK 115 (315)
T ss_pred hhhhCccCCCccc-eeEEEEEeCCCCC
Confidence 34555 4789999887553
No 395
>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=72.03 E-value=55 Score=28.94 Aligned_cols=74 Identities=8% Similarity=-0.025 Sum_probs=49.9
Q ss_pred EEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH----HHHHHHHHHH
Q 037761 98 VVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA----LASRLFALVA 173 (753)
Q Consensus 98 vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~----~~~~~~~~a~ 173 (753)
+.+-....+--....+.+...|+..|.+|.....+. .....++.+++.++|+|.+++... .+..++++++
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 ILVAKMGQDGHDRGAKVIATAYADLGFDVDVGPLFQ------TPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKELD 78 (132)
T ss_pred EEEEeeCCCccHHHHHHHHHHHHhCCcEEEECCCCC------CHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHHH
Confidence 333333334444566777888999999987665432 233567777889999999987543 5566777777
Q ss_pred HcCC
Q 037761 174 KNGM 177 (753)
Q Consensus 174 ~~g~ 177 (753)
+.|.
T Consensus 79 ~~g~ 82 (132)
T TIGR00640 79 KLGR 82 (132)
T ss_pred hcCC
Confidence 7775
No 396
>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=71.58 E-value=19 Score=37.83 Aligned_cols=85 Identities=7% Similarity=-0.004 Sum_probs=58.8
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.+.++.+|.+++.|+++...+-. ..+.+.+.+++.+..+ + ..+..+.+.......+..+++.++|.|+-.|.+.
T Consensus 12 ~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~~~~-~-~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs 88 (337)
T cd08177 12 AALAAELERLGASRALVLTTPSLATK-LAERVASALGDRVAGT-F-DGAVMHTPVEVTEAAVAAAREAGADGIVAIGGGS 88 (337)
T ss_pred HHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCCcEE-e-CCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCcH
Confidence 45677888899999988886554444 6677888888775432 2 2333344566777888888888999999887655
Q ss_pred --HHHHHHHH
Q 037761 164 --LASRLFAL 171 (753)
Q Consensus 164 --~~~~~~~~ 171 (753)
|+..++..
T Consensus 89 ~iD~aK~ia~ 98 (337)
T cd08177 89 TIDLAKAIAL 98 (337)
T ss_pred HHHHHHHHHH
Confidence 55655543
No 397
>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=71.43 E-value=16 Score=36.67 Aligned_cols=78 Identities=5% Similarity=0.079 Sum_probs=55.7
Q ss_pred EEEEEEee--CCcccchHHHHHHHHHh-CCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH-HHHHHHHHH
Q 037761 97 EVVLMYED--TNYGAGFISFLVDELQE-NDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA-LASRLFALV 172 (753)
Q Consensus 97 ~vail~~d--~~~g~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~-~~~~~~~~a 172 (753)
+|+++..+ ++|.....+.+.+++++ .|..+..... ..+.......+..+.+.++|.|++.+... ....++.++
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~---~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~l 77 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGVELQFEDA---KNDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVKAA 77 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCcEEEEeCC---CCCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHHHH
Confidence 46777754 66888888999999999 8988876532 12344566778888888999999876543 345667777
Q ss_pred HHcCC
Q 037761 173 AKNGM 177 (753)
Q Consensus 173 ~~~g~ 177 (753)
.+.|+
T Consensus 78 ~~~~i 82 (272)
T cd06301 78 NAAGI 82 (272)
T ss_pred HHCCC
Confidence 77664
No 398
>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=71.42 E-value=34 Score=32.67 Aligned_cols=89 Identities=11% Similarity=0.039 Sum_probs=61.5
Q ss_pred eEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC----hHHHHHHHHH
Q 037761 96 HEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN----TALASRLFAL 171 (753)
Q Consensus 96 ~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~----~~~~~~~~~~ 171 (753)
.+|.+....++.-.-...-+...++..|.++.+--. +......+..+++.+||+|.+.+. ...+..++++
T Consensus 85 ~~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~LG~------~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i~~ 158 (197)
T TIGR02370 85 GKVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDLGR------DVPIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDINDK 158 (197)
T ss_pred CeEEEEeCCCchhHHHHHHHHHHHHhCCcEEEECCC------CCCHHHHHHHHHHcCCCEEEEccccccCHHHHHHHHHH
Confidence 466555556666566667788889999999875532 223445667777789999988764 4477888889
Q ss_pred HHHcCCCCCCEEEEEcCcc
Q 037761 172 VAKNGMMSKGYTWIVTACL 190 (753)
Q Consensus 172 a~~~g~~~~~~~wi~~~~~ 190 (753)
+++.|....-++|+++...
T Consensus 159 l~~~~~~~~v~i~vGG~~~ 177 (197)
T TIGR02370 159 LKEEGYRDSVKFMVGGAPV 177 (197)
T ss_pred HHHcCCCCCCEEEEEChhc
Confidence 9998865445667776554
No 399
>COG4521 TauA ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=70.79 E-value=23 Score=34.28 Aligned_cols=173 Identities=14% Similarity=0.090 Sum_probs=96.4
Q ss_pred HHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeec---ccceee-e-ccccccccceEEE
Q 037761 417 ATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVA---SRTDYV-E-FTLPYSESGVTML 491 (753)
Q Consensus 417 ~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~---~r~~~~-~-fs~p~~~~~~~~~ 491 (753)
..++ ..|.+++ +... .+-.+++.+|.+|.++|+.-+-++.. .|.-.+ . +-..-.-.+-.++
T Consensus 50 ~~aK----~~gatiD--WRkF--------dSG~~vv~AlASGdvqiG~iGSsplaaAaSr~vpie~f~~~~~ig~sEALV 115 (334)
T COG4521 50 AFAK----ESGATID--WRKF--------DSGASIVRALASGDVQIGNIGSSPLAAAASRQVPIEVFLLASQIGNSEALV 115 (334)
T ss_pred hhHH----hcCCccc--hhhc--------CchhHHHHHHhcCCccccccCCchhhHHhhcCCceEEeehhhhcCccceee
Confidence 5666 7775444 4333 25689999999999999843433322 232111 1 1222233445778
Q ss_pred EecccCCCCceeEEEecCccccceeeccccchhhHHHHHHHHHHHhhhceeeeeeeeEEeeccCCCcCChhHhhhcCCeE
Q 037761 492 VPVKRDNRHNMWIFLKPWTWDLWLALVVKDCSKFVLVIWLWLAFILMQSYTASLSSILTVDQLEPTFADLKKLRTESHFV 571 (753)
Q Consensus 492 v~~~~~~~~~~~~~~~PF~~~~W~~ip~s~~~R~~~~~w~l~~lvl~~~Y~a~L~s~lt~~~~~~~i~s~~dL~~~~~~~ 571 (753)
+++... |...+||+ |+++
T Consensus 116 vr~gsg------------------------------------------------------------I~kpeDL~--GK~i 133 (334)
T COG4521 116 VRKGSG------------------------------------------------------------IEKPEDLI--GKRI 133 (334)
T ss_pred eecCCC------------------------------------------------------------cCChHHhc--cCee
Confidence 887754 89999995 9999
Q ss_pred EEecCchHH-HHHHH--hhCCCCCceecC-CCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCC--CCcEEeCcccc
Q 037761 572 GFQSGSFVE-DFLVK--QLNFSRNQTRPL-SNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYS--SKYTTAGPIYR 645 (753)
Q Consensus 572 ~~~~~~~~~-~~~~~--~~~~~~~~~~~~-~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~--~~l~~~~~~~~ 645 (753)
++.--++.+ ..+.. .-+....++..+ -.+.+...+.+.|. +|+.....+.+.-+.+... .+-.-++.--.
T Consensus 134 avPFvSTtHysLLaaLkhw~idp~~V~IlNl~Pp~IaAAwqRGD----IDgAyVW~PAl~el~ksGkVltDs~qvgqwga 209 (334)
T COG4521 134 AVPFVSTTHYSLLAALKHWGIDPGQVEILNLQPPAIAAAWQRGD----IDGAYVWAPALSELKKSGKVLTDSEQVGQWGA 209 (334)
T ss_pred ccceeehhHHHHHHHHHHcCCCccceeEeccCCHHHHHHHHcCC----CCceeeccHhHHHHhhcCcEeccHHHhhccCC
Confidence 986444433 33331 111212222211 24567888889998 9988877777765555432 01111122222
Q ss_pred cCceEEEEcCC----CC-CchHhHHHHHH
Q 037761 646 TDGLGFAFAKD----SP-LVSHFSQAILL 669 (753)
Q Consensus 646 ~~~~~~~~~k~----s~-l~~~~n~~i~~ 669 (753)
+.--+++++|+ .| ....|-+....
T Consensus 210 PTfdvwVvrkdfAekhPe~v~aFakv~~d 238 (334)
T COG4521 210 PTFDVWVVRKDFAEKHPEVVAAFAKVALD 238 (334)
T ss_pred CceeeEEeehHhhHhChHHHHHHHHHHHH
Confidence 33345777776 44 55555555544
No 400
>PRK11139 DNA-binding transcriptional activator GcvA; Provisional
Probab=70.60 E-value=1.1e+02 Score=31.16 Aligned_cols=102 Identities=8% Similarity=-0.014 Sum_probs=50.8
Q ss_pred cCChhHhhhcCCeEEE-ecCchHHHHHHHhhCCCC--Cc-eecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcC
Q 037761 558 FADLKKLRTESHFVGF-QSGSFVEDFLVKQLNFSR--NQ-TRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKY 633 (753)
Q Consensus 558 i~s~~dL~~~~~~~~~-~~~~~~~~~~~~~~~~~~--~~-~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~ 633 (753)
.-+++||. +.++.. ........++.+ ..... .+ ...+.+.+.....+..|. .-+++. ...........
T Consensus 180 ~i~~~dL~--~~p~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~lp-~~~~~~~~~~~ 251 (297)
T PRK11139 180 LKTPEDLA--RHTLLHDDSREDWRAWFRA-AGLDDLNVQQGPIFSHSSMALQAAIHGQ----GVALGN-RVLAQPEIEAG 251 (297)
T ss_pred CCCHHHhh--cCceEeecCcccHHHHHHH-hCCCCcCcccceeeCCHHHHHHHHHhCC----CeEecc-hhhhHHHHHCC
Confidence 45889995 443333 333345556663 23211 11 234567777788888886 444444 33333333332
Q ss_pred CCCcEE-eCccc-ccCceEEEEcCCCCCchHhHHHHHH
Q 037761 634 SSKYTT-AGPIY-RTDGLGFAFAKDSPLVSHFSQAILL 669 (753)
Q Consensus 634 ~~~l~~-~~~~~-~~~~~~~~~~k~s~l~~~~n~~i~~ 669 (753)
.+.. ..+.. ....+.++.+|+.+....+...+..
T Consensus 252 --~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~ 287 (297)
T PRK11139 252 --RLVCPFDTVLPSPNAFYLVCPDSQAELPKVAAFRQW 287 (297)
T ss_pred --ceecccccCcCCCccEEEEeccccccChhHHHHHHH
Confidence 1221 22221 2346778888776555544444433
No 401
>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=70.51 E-value=14 Score=36.59 Aligned_cols=78 Identities=12% Similarity=0.136 Sum_probs=54.1
Q ss_pred EEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHH
Q 037761 97 EVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAK 174 (753)
Q Consensus 97 ~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~ 174 (753)
+++++... +.+.......+++.+++.|+.+..... ..+..+....++++.+.++|.|++..........+..+.+
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~g~~l~~~~~---~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l~~ 77 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAAGYQVLLANS---QNDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLARK 77 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHcCCeEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHhhh
Confidence 36777764 668888999999999999988765432 2223456677788877899998887654433335666666
Q ss_pred cCC
Q 037761 175 NGM 177 (753)
Q Consensus 175 ~g~ 177 (753)
.|+
T Consensus 78 ~~i 80 (264)
T cd01537 78 AGI 80 (264)
T ss_pred cCC
Confidence 564
No 402
>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=70.48 E-value=25 Score=37.09 Aligned_cols=85 Identities=12% Similarity=0.230 Sum_probs=56.4
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCC--CCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPT--SAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~--~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
..+.++++.++.+++.|+++...+.. ..+.+.+.+++.|+.+........ ..+.......+..+++ ++|+|+-.+-
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~~~-~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIGG 89 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTYAA-AGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVGS 89 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHHHH-HHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEECC
Confidence 34667777788889888885433322 357888899999986643332222 2445566677777777 8999998876
Q ss_pred hH--HHHHHHH
Q 037761 162 TA--LASRLFA 170 (753)
Q Consensus 162 ~~--~~~~~~~ 170 (753)
+. |+..++.
T Consensus 90 Gs~~D~aK~vA 100 (348)
T cd08175 90 GTINDITKYVS 100 (348)
T ss_pred cHHHHHHHHHH
Confidence 54 6666664
No 403
>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=70.23 E-value=16 Score=36.22 Aligned_cols=76 Identities=11% Similarity=0.087 Sum_probs=54.7
Q ss_pred EEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHHc
Q 037761 98 VVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAKN 175 (753)
Q Consensus 98 vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~~ 175 (753)
++++..+ ++|.....+.+++++++.|+.+..... ..+.......++.+.+.++|+|++......... ++.+.+.
T Consensus 2 i~~v~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~~~ 77 (264)
T cd06267 2 IGVIVPDISNPFFAELLRGIEEAAREAGYSVLLCNS---DEDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELAAL 77 (264)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHcCCEEEEEcC---CCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHHHc
Confidence 5666654 778888999999999999988765422 223345667778888889999998776554444 7777777
Q ss_pred CC
Q 037761 176 GM 177 (753)
Q Consensus 176 g~ 177 (753)
|+
T Consensus 78 ~i 79 (264)
T cd06267 78 GI 79 (264)
T ss_pred CC
Confidence 75
No 404
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=70.18 E-value=55 Score=34.75 Aligned_cols=92 Identities=11% Similarity=0.075 Sum_probs=60.2
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEe--eccCCCCchhhHHHHHHHHhcCCc---cEEEE
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHM--SKIPTSAEDFQISKELSKLSTMQT---RVFIV 158 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~--~~~~~~~~~~d~~~~l~~l~~~~~---~vIi~ 158 (753)
..+.+.++.++.+++.++++... .....+.+.+.+++.|+.+... .....+.+.......+..+++.++ |+|+.
T Consensus 20 ~~l~~~l~~~~~~~~livtd~~~-~~~~~~~v~~~L~~~gi~~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIa 98 (358)
T PRK00002 20 SELGELLAPLKGKKVAIVTDETV-APLYLEKLRASLEAAGFEVDVVVLPDGEQYKSLETLEKIYDALLEAGLDRSDTLIA 98 (358)
T ss_pred HHHHHHHHhcCCCeEEEEECCch-HHHHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEE
Confidence 44666777778889988886544 3457788888899888765422 122223345677777788876655 99998
Q ss_pred EeChH--HHHHHHHHHHHcC
Q 037761 159 HMNTA--LASRLFALVAKNG 176 (753)
Q Consensus 159 ~~~~~--~~~~~~~~a~~~g 176 (753)
.|.+. |+..++......|
T Consensus 99 vGGGsv~D~aK~iA~~~~~g 118 (358)
T PRK00002 99 LGGGVIGDLAGFAAATYMRG 118 (358)
T ss_pred EcCcHHHHHHHHHHHHhcCC
Confidence 87654 6666665434434
No 405
>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=69.13 E-value=19 Score=36.20 Aligned_cols=80 Identities=6% Similarity=0.037 Sum_probs=53.9
Q ss_pred EEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHH
Q 037761 97 EVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAK 174 (753)
Q Consensus 97 ~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~ 174 (753)
+|+++..+ +.|.......+.+++++.|..+.....-. ..+..+....+..+.+.++|.|++.....+....+.++.+
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~~~-~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~~~ 79 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLGVSLKLLEAGG-YPNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQVA 79 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcCCEEEEecCCC-CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHHHH
Confidence 46777753 66778888899999999998876653211 1123345567777778899999987654333224667777
Q ss_pred cCC
Q 037761 175 NGM 177 (753)
Q Consensus 175 ~g~ 177 (753)
.|+
T Consensus 80 ~gi 82 (268)
T cd06306 80 ASI 82 (268)
T ss_pred CCC
Confidence 675
No 406
>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=69.08 E-value=57 Score=34.51 Aligned_cols=92 Identities=12% Similarity=0.098 Sum_probs=59.9
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEee--ccCCCCchhhHHHHHHHHhcCCcc---EEEE
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMS--KIPTSAEDFQISKELSKLSTMQTR---VFIV 158 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~--~~~~~~~~~d~~~~l~~l~~~~~~---vIi~ 158 (753)
..+.+++..++.+++.++++.+.+ ....+.+.+.+++.|+.+.... ....+.+.......+..+++.++| +|+.
T Consensus 12 ~~l~~~l~~~g~~rvlvVtd~~v~-~~~~~~l~~~L~~~g~~~~~~~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~IIA 90 (355)
T cd08197 12 DSVLGYLPELNADKYLLVTDSNVE-DLYGHRLLEYLREAGAPVELLSVPSGEEHKTLSTLSDLVERALALGATRRSVIVA 90 (355)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEE
Confidence 335566777777899888865554 3367788899998887643221 122233446777788888888888 8887
Q ss_pred EeChH--HHHHHHHHHHHcC
Q 037761 159 HMNTA--LASRLFALVAKNG 176 (753)
Q Consensus 159 ~~~~~--~~~~~~~~a~~~g 176 (753)
.|.+. |+..++......|
T Consensus 91 vGGGsv~D~ak~~A~~~~rg 110 (355)
T cd08197 91 LGGGVVGNIAGLLAALLFRG 110 (355)
T ss_pred ECCcHHHHHHHHHHHHhccC
Confidence 76644 6666665443334
No 407
>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=68.83 E-value=16 Score=37.06 Aligned_cols=80 Identities=15% Similarity=0.225 Sum_probs=51.8
Q ss_pred EEEEEEee---CCcccchHHHHHHHHHhCCeEEEEeeccCCC-CchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHH
Q 037761 97 EVVLMYED---TNYGAGFISFLVDELQENDIRISHMSKIPTS-AEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALV 172 (753)
Q Consensus 97 ~vail~~d---~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~-~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a 172 (753)
+|++|..+ ++|.....+.+.+.+++.|..+......+.. .+.......+..+.+.++|.|++..........++.+
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~l 80 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEELNIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIERV 80 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHHcCCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHHH
Confidence 36777764 4577788889999999999776544221111 1233445677778888999999875433233455666
Q ss_pred HHcC
Q 037761 173 AKNG 176 (753)
Q Consensus 173 ~~~g 176 (753)
.+.+
T Consensus 81 ~~~~ 84 (280)
T cd06303 81 LASG 84 (280)
T ss_pred HhCC
Confidence 6655
No 408
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=68.80 E-value=1.3e+02 Score=30.36 Aligned_cols=71 Identities=6% Similarity=0.011 Sum_probs=48.2
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecccceeeeccccccccce
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVASRTDYVEFTLPYSESGV 488 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~r~~~~~fs~p~~~~~~ 488 (753)
++..+++..+.+ ..- ++++.+... ...++++.|.+|++|+++....... ..+ ...++....+
T Consensus 102 ~~l~~~l~~f~~----~~P-~v~v~~~~~---------~~~~~~~~l~~g~~Dl~i~~~~~~~---~~l-~~~~l~~~~~ 163 (275)
T PRK03601 102 CMLTPWLGRLYQ----NQE-ALQFEARIA---------QRQSLVKQLHERQLDLLITTEAPKM---DEF-SSQLLGHFTL 163 (275)
T ss_pred HHHHHHHHHHHH----hCC-CcEEEEEEC---------ChHHHHHHHHcCCCCEEEEcCCCcc---CCc-cEEEecceeE
Confidence 455677777766 432 466666653 6788999999999999986433221 223 3457888888
Q ss_pred EEEEecccC
Q 037761 489 TMLVPVKRD 497 (753)
Q Consensus 489 ~~~v~~~~~ 497 (753)
+++++++.+
T Consensus 164 ~~v~~~~~~ 172 (275)
T PRK03601 164 ALYTSAPSK 172 (275)
T ss_pred EEEecCchh
Confidence 999986643
No 409
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=68.65 E-value=1.4e+02 Score=33.05 Aligned_cols=141 Identities=13% Similarity=0.130 Sum_probs=78.1
Q ss_pred EEcCCCCCcHHHHHHhhc-cCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcc-
Q 037761 31 IIGPQIPAAAPFLVELGE-KAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYG- 108 (753)
Q Consensus 31 viG~~~s~~~~av~~i~~-~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g- 108 (753)
+++|++..+..++..+.+ ...+=+|.++- .-++|- +.........+......-+++.|+|. +.||
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~H----------G~i~r~--~~~~~l~~Y~~~~~~~~~~kv~IvY~-S~~Gn 264 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATSH----------GVVWRD--NPTQIVELYLKWAADYQEDRITIFYD-TMSNN 264 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCC----------CceEeC--CHHHHHHHHHHHhhccCcCcEEEEEE-CCccH
Confidence 678887776666666654 23444555532 124552 22222233333333334578988884 4444
Q ss_pred -cchHHHHHHHHHhC--CeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh------HHHHHHHHHHHHcCCCC
Q 037761 109 -AGFISFLVDELQEN--DIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT------ALASRLFALVAKNGMMS 179 (753)
Q Consensus 109 -~~~~~~~~~~~~~~--g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~------~~~~~~~~~a~~~g~~~ 179 (753)
+.+++.+.+.+++. |+.+.... +. +.+...++..+. .+|.|++.++. +.+..++..+....+..
T Consensus 265 Te~mA~~ia~gl~~~g~gv~v~~~~-v~----~~~~~~i~~~~~--~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l~g 337 (479)
T PRK05452 265 TRMMADAIAQGIAEVDPRVAVKIFN-VA----RSDKNEILTNVF--RSKGVLVGSSTMNNVMMPKIAGLLEEITGLRFRN 337 (479)
T ss_pred HHHHHHHHHHHHHhhCCCceEEEEE-CC----CCCHHHHHhHHh--hCCEEEEECCccCCcchHHHHHHHHHhhccCcCC
Confidence 67788999999876 45544332 22 224444444443 46788877652 24666777766666544
Q ss_pred CCEEEEEcCccc
Q 037761 180 KGYTWIVTACLS 191 (753)
Q Consensus 180 ~~~~wi~~~~~~ 191 (753)
+...-+++.+|.
T Consensus 338 K~~~vFGSygw~ 349 (479)
T PRK05452 338 KRASAFGSHGWS 349 (479)
T ss_pred CEEEEEECCCcC
Confidence 333445555553
No 410
>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=68.39 E-value=20 Score=36.02 Aligned_cols=79 Identities=4% Similarity=0.052 Sum_probs=54.7
Q ss_pred EEEEEEee---CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH-HHHHHHHHH
Q 037761 97 EVVLMYED---TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA-LASRLFALV 172 (753)
Q Consensus 97 ~vail~~d---~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~-~~~~~~~~a 172 (753)
+|+++..+ +.|.....+.+.+++++.|..+..... . ..+.......+.++...++|.|++..... .....++.+
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g~~v~~~~~-~-~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~~~ 78 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLGVDVEYRGP-E-TFDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIKRA 78 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhCCEEEEECC-C-CCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHHHH
Confidence 46777753 468888899999999999988765432 1 11344566777888888999999876433 234566777
Q ss_pred HHcCC
Q 037761 173 AKNGM 177 (753)
Q Consensus 173 ~~~g~ 177 (753)
.+.|+
T Consensus 79 ~~~~i 83 (271)
T cd06312 79 VAAGI 83 (271)
T ss_pred HHCCC
Confidence 77664
No 411
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=68.04 E-value=28 Score=36.52 Aligned_cols=82 Identities=7% Similarity=0.010 Sum_probs=59.0
Q ss_pred CCeEEEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh-HHHHHHHH
Q 037761 94 SWHEVVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT-ALASRLFA 170 (753)
Q Consensus 94 ~w~~vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~-~~~~~~~~ 170 (753)
.-.+++++.. +++|.....+.+++.+++.|.++.... +...+...-...++.+.+.++|.|++.... ......++
T Consensus 22 ~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~~~--~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~l~ 99 (336)
T PRK15408 22 AAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTYDG--PTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPALK 99 (336)
T ss_pred CCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEEEC--CCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHHHH
Confidence 4468888885 467888889999999999998886532 222223334467788888999999997643 33456888
Q ss_pred HHHHcCC
Q 037761 171 LVAKNGM 177 (753)
Q Consensus 171 ~a~~~g~ 177 (753)
+|.+.|+
T Consensus 100 ~a~~~gI 106 (336)
T PRK15408 100 RAMQRGV 106 (336)
T ss_pred HHHHCCC
Confidence 8888875
No 412
>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=67.27 E-value=1.6e+02 Score=30.41 Aligned_cols=157 Identities=15% Similarity=0.063 Sum_probs=82.9
Q ss_pred hHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccC-CccEEeecCCCCCCCCCCCCceEEEecCcHHH---HHHHH
Q 037761 12 DCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKA-QVPIISFFETSPALSPTEHPFFIRVTQNDSLQ---VKAIS 87 (753)
Q Consensus 12 ~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~-~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~---~~a~~ 87 (753)
+.......++++++ +...||++ +..-..++..++..+ ++-.+...+..... .|.+.......... +-.++
T Consensus 47 ~~~~~~~~~~~~~~-g~dlIi~~-g~~~~~~~~~vA~~yPd~~F~~~d~~~~~~----~~Nv~~~~f~~~e~~fLaG~~A 120 (306)
T PF02608_consen 47 DADYEEAIRQLADQ-GYDLIIGH-GFEYSDALQEVAKEYPDTKFIIIDGYIDAP----EPNVISITFREEEASFLAGYLA 120 (306)
T ss_dssp CHHHHHHHHHHHHT-T-SEEEEE-SGGGHHHHHHHHTC-TTSEEEEESS---ST-----TTEEEEEE-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHc-CCCEEEEc-cHHHHHHHHHHHHHCCCCEEEEEecCcCCC----CCcEEEEEccccchhHHHHHHH
Confidence 66667777777765 88888883 344566777888777 44444443322211 13454444443332 22233
Q ss_pred HHHHHcCCeEEEEEE---e-eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhh-HHHHHHHHhcCCccEEEEEeCh
Q 037761 88 AVLQNFSWHEVVLMY---E-DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQ-ISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 88 ~~l~~~~w~~vail~---~-d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d-~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
.++.. -.+++++. . +.+.-..+...|..-++..+..+.....+..+..+.+ -......+.+.++|||+..+..
T Consensus 121 a~~tk--t~~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~np~i~v~~~~~gs~~D~~~~~~~a~~li~~GaDvI~~~ag~ 198 (306)
T PF02608_consen 121 ALMTK--TGKVGFIGDIGGMDIPPVNRFINGFIAGAKYVNPDIKVNVSYTGSFNDPAKAKEAAEALIDQGADVIFPVAGG 198 (306)
T ss_dssp HHHHS--STEEEEEEEEES--SCTTHHHHHHHHHHHHHTTTT-EEEEEE-SSSS-HHHHHHHHHHHHHTT-SEEEEE-CC
T ss_pred HHHhc--cCcccccccccCCCcHhHHHHHHHHHHHHHHhCcCceEEEEEcCCcCchHHHHHHHHHHhhcCCeEEEECCCC
Confidence 33332 25788888 3 4444455667777777666543333333332233333 3334455567999999986665
Q ss_pred HHHHHHHHHHHHcCC
Q 037761 163 ALASRLFALVAKNGM 177 (753)
Q Consensus 163 ~~~~~~~~~a~~~g~ 177 (753)
. ...++++|++.|.
T Consensus 199 ~-~~gv~~aa~e~g~ 212 (306)
T PF02608_consen 199 S-GQGVIQAAKEAGV 212 (306)
T ss_dssp C-HHHHHHHHHHHTH
T ss_pred C-chHHHHHHHHcCC
Confidence 4 3557788888774
No 413
>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=67.20 E-value=13 Score=32.05 Aligned_cols=86 Identities=12% Similarity=0.151 Sum_probs=46.7
Q ss_pred eEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHh--cCCccEEEEEeChHHHHHHHHHHH
Q 037761 96 HEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLS--TMQTRVFIVHMNTALASRLFALVA 173 (753)
Q Consensus 96 ~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~--~~~~~vIi~~~~~~~~~~~~~~a~ 173 (753)
|++|++...+.-+. ....+...+.+.|.++..+.. ..+.-+=......+. -..+|+++++........+++++.
T Consensus 1 ksiAVvGaS~~~~~-~g~~v~~~l~~~G~~v~~Vnp---~~~~i~G~~~y~sl~e~p~~iDlavv~~~~~~~~~~v~~~~ 76 (116)
T PF13380_consen 1 KSIAVVGASDNPGK-FGYRVLRNLKAAGYEVYPVNP---KGGEILGIKCYPSLAEIPEPIDLAVVCVPPDKVPEIVDEAA 76 (116)
T ss_dssp -EEEEET--SSTTS-HHHHHHHHHHHTT-EEEEEST---TCSEETTEE-BSSGGGCSST-SEEEE-S-HHHHHHHHHHHH
T ss_pred CEEEEEcccCCCCC-hHHHHHHHHHhCCCEEEEECC---CceEECcEEeeccccCCCCCCCEEEEEcCHHHHHHHHHHHH
Confidence 46777775544333 333444555557766543321 111100001223333 367899999999999999999999
Q ss_pred HcCCCCCCEEEEEcC
Q 037761 174 KNGMMSKGYTWIVTA 188 (753)
Q Consensus 174 ~~g~~~~~~~wi~~~ 188 (753)
+.| .+.+|+.++
T Consensus 77 ~~g---~~~v~~~~g 88 (116)
T PF13380_consen 77 ALG---VKAVWLQPG 88 (116)
T ss_dssp HHT----SEEEE-TT
T ss_pred HcC---CCEEEEEcc
Confidence 998 568999988
No 414
>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=67.08 E-value=31 Score=34.55 Aligned_cols=75 Identities=11% Similarity=0.034 Sum_probs=50.6
Q ss_pred EEEEEee-----CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHH
Q 037761 98 VVLMYED-----TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALV 172 (753)
Q Consensus 98 vail~~d-----~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a 172 (753)
|+++..+ +.|.....+.+.+.+++.|..+..... . ....+....+..+.+.++|.|++.....+. .++.+
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~--~~~~l 76 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGYNLILKFV-S--DEDEEEFELPSFLEDGKVDGIILLGGISTE--YIKEI 76 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCCEEEEEeC-C--CChHHHHHHHHHHHHCCCCEEEEeCCCChH--HHHHH
Confidence 5666655 678888899999999999988765532 2 123344455666777889999987654332 36667
Q ss_pred HHcCC
Q 037761 173 AKNGM 177 (753)
Q Consensus 173 ~~~g~ 177 (753)
.+.|.
T Consensus 77 ~~~~i 81 (268)
T cd06277 77 KELGI 81 (268)
T ss_pred hhcCC
Confidence 77664
No 415
>cd08184 Fe-ADH3 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the iron-containing alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron or zinc ions. Members of this family are mainly found in bacteria.
Probab=66.72 E-value=52 Score=34.66 Aligned_cols=85 Identities=8% Similarity=0.051 Sum_probs=55.3
Q ss_pred HHHHHHHHHcCC--eEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC---CccEEEE
Q 037761 84 KAISAVLQNFSW--HEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM---QTRVFIV 158 (753)
Q Consensus 84 ~a~~~~l~~~~w--~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vIi~ 158 (753)
..+.++++.+|. +++.+++ |...-. +.+.+.+++.|+.+.....+..+.+..+.....+..++. ++|+|+-
T Consensus 12 ~~l~~~~~~~g~~~~~~lvvt-d~~~~~---~~v~~~L~~~g~~~~~f~~v~~nPt~~~v~~~~~~~~~~~~~~~D~IIa 87 (347)
T cd08184 12 DQLNDLLAPKRKNKDPAVFFV-DDVFQG---KDLISRLPVESEDMIIWVDATEEPKTDQIDALTAQVKSFDGKLPCAIVG 87 (347)
T ss_pred HHHHHHHHHcCCCCCeEEEEE-Ccchhh---hHHHHHHHhcCCcEEEEcCCCCCcCHHHHHHHHHHHHhhCCCCCCEEEE
Confidence 456667777763 4555556 332211 567778888888765554555566677788888888876 8999998
Q ss_pred EeChH--HHHHHHHHH
Q 037761 159 HMNTA--LASRLFALV 172 (753)
Q Consensus 159 ~~~~~--~~~~~~~~a 172 (753)
.|-+. |+...+..+
T Consensus 88 iGGGS~iD~AKaia~~ 103 (347)
T cd08184 88 IGGGSTLDVAKAVSNM 103 (347)
T ss_pred eCCcHHHHHHHHHHHH
Confidence 87654 555555433
No 416
>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=66.71 E-value=89 Score=31.08 Aligned_cols=164 Identities=10% Similarity=0.087 Sum_probs=94.5
Q ss_pred hHHHHHHHHHHHhcCCeEEEEc-CCCCCcHHHHHHhhc-cCCccEEeecCCCC-CCCCCCCCceEEEecCcHHHHHHHHH
Q 037761 12 DCGKLILAVDLLKKFQVQAIIG-PQIPAAAPFLVELGE-KAQVPIISFFETSP-ALSPTEHPFFIRVTQNDSLQVKAISA 88 (753)
Q Consensus 12 ~~~a~~~a~~Li~~~~V~aviG-~~~s~~~~av~~i~~-~~~vP~is~~a~~~-~l~~~~~~~~fr~~p~~~~~~~a~~~ 88 (753)
-.+.......|..+..+.|||= ..-.+++.|...+=+ +-.|..|+-....+ ..-...-. .-+.+.....+..++.
T Consensus 47 ~EttIskI~~lAdDp~mKaIVv~q~vpGt~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aD--i~~~~D~~~~G~~i~~ 124 (275)
T PF12683_consen 47 QETTISKIVSLADDPDMKAIVVSQAVPGTAEAFRKIKEKRPDILLIAGEPHEDPEVISSAAD--IVVNPDEISRGYTIVW 124 (275)
T ss_dssp HHHHHHHHHGGGG-TTEEEEEEE-SS---HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSS--EEEE--HHHHHHHHHH
T ss_pred HHHHHHHHHHhccCCCccEEEEeCCCcchHHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccC--eEeccchhhccHHHHH
Confidence 5666777777788888988774 444667777776655 34455555332221 11111111 3345778888999999
Q ss_pred HHHHcCCeEEEEEEeeCCcccch----HHHHHHHHHhCCeEEEEeeccCCCCc--hhhHHH-----HHHHHhcCCccEEE
Q 037761 89 VLQNFSWHEVVLMYEDTNYGAGF----ISFLVDELQENDIRISHMSKIPTSAE--DFQISK-----ELSKLSTMQTRVFI 157 (753)
Q Consensus 89 ~l~~~~w~~vail~~d~~~g~~~----~~~~~~~~~~~g~~v~~~~~~~~~~~--~~d~~~-----~l~~l~~~~~~vIi 157 (753)
..+.+|.+.+.-+......+... .+.+++.+++.|++.+....-++..+ ...... +-+++++-+.++-+
T Consensus 125 ~Ak~mGAktFVh~sfprhms~~~l~~Rr~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaf 204 (275)
T PF12683_consen 125 AAKKMGAKTFVHYSFPRHMSYELLARRRDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAF 204 (275)
T ss_dssp HHHHTT-S-EEEEEETTGGGSHHHHHHHHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EE
T ss_pred HHHHcCCceEEEEechhhcchHHHHHHHHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeE
Confidence 99999999998886655544433 45677889999999987765443211 111111 22446667999999
Q ss_pred EEeChHHHHHHHHHHHHcCC
Q 037761 158 VHMNTALASRLFALVAKNGM 177 (753)
Q Consensus 158 ~~~~~~~~~~~~~~a~~~g~ 177 (753)
++++......+++++.+.|.
T Consensus 205 f~TN~a~~epllk~~~~~g~ 224 (275)
T PF12683_consen 205 FCTNDAMTEPLLKQALEYGG 224 (275)
T ss_dssp EESSHHHHHHHHHHHHHH--
T ss_pred EecCccccHHHHHHHHHcCC
Confidence 99999999999999999874
No 417
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=66.28 E-value=94 Score=34.92 Aligned_cols=128 Identities=13% Similarity=0.118 Sum_probs=78.3
Q ss_pred ChHHHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHH
Q 037761 11 KDCGKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVL 90 (753)
Q Consensus 11 ~~~~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l 90 (753)
.-..|+..+.+.+.++++++||.-.+++. -+-+...+|+|....+. .+..+++. ..
T Consensus 48 ~~~~~v~~~~~~~~~~~~dviIsrG~ta~-----~i~~~~~iPVv~i~~s~------------------~Dil~al~-~a 103 (538)
T PRK15424 48 GFEKAVTYIRKRLATERCDAIIAAGSNGA-----YLKSRLSVPVILIKPSG------------------FDVMQALA-RA 103 (538)
T ss_pred hHHHHHHHHHHHHhhCCCcEEEECchHHH-----HHHhhCCCCEEEecCCH------------------hHHHHHHH-HH
Confidence 34678888866555668999998665532 23345679998864322 12333332 23
Q ss_pred HHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHH
Q 037761 91 QNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFA 170 (753)
Q Consensus 91 ~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~ 170 (753)
+.++ .++++|...+.. ...+.+.+.+ ++.+.... +. +..|....+.++++.+.++|+..+. ...
T Consensus 104 ~~~~-~~iavv~~~~~~--~~~~~~~~~l---~~~i~~~~-~~---~~~e~~~~v~~lk~~G~~~vvG~~~------~~~ 167 (538)
T PRK15424 104 RKLT-SSIGVVTYQETI--PALVAFQKTF---NLRIEQRS-YV---TEEDARGQINELKANGIEAVVGAGL------ITD 167 (538)
T ss_pred HhcC-CcEEEEecCccc--HHHHHHHHHh---CCceEEEE-ec---CHHHHHHHHHHHHHCCCCEEEcCch------HHH
Confidence 4554 578888765442 2334444444 45554332 22 3679999999999999998885432 345
Q ss_pred HHHHcCCC
Q 037761 171 LVAKNGMM 178 (753)
Q Consensus 171 ~a~~~g~~ 178 (753)
.|.++|+.
T Consensus 168 ~A~~~g~~ 175 (538)
T PRK15424 168 LAEEAGMT 175 (538)
T ss_pred HHHHhCCc
Confidence 67788874
No 418
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=66.20 E-value=5.3 Score=35.27 Aligned_cols=25 Identities=28% Similarity=0.258 Sum_probs=10.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHhccch
Q 037761 713 LFIIVGIATLLALLISERYIWQKPV 737 (753)
Q Consensus 713 ~f~il~~g~~l~~~vf~~~~~~~~~ 737 (753)
+|+++.++++|.+++|.+..+||++
T Consensus 4 l~~iii~~i~l~~~~~~~~~rRR~r 28 (130)
T PF12273_consen 4 LFAIIIVAILLFLFLFYCHNRRRRR 28 (130)
T ss_pred eHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4444444444444444333333333
No 419
>cd08549 G1PDH_related Glycerol-1-phosphate_dehydrogenase and related proteins. Bacterial and archeal glycerol-1-phosphate dehydrogenase-like oxidoreductases. The proteins have similarity with glycerol-1-phosphate dehydrogenase (G1PDH). G1PDH plays a role in the synthesis of phosphoglycerolipids in gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires Ni++ ion. It also contains archaeal Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) that plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids.
Probab=65.53 E-value=57 Score=34.15 Aligned_cols=85 Identities=9% Similarity=0.231 Sum_probs=55.6
Q ss_pred HHHHHHHHHcCC-eEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEee-ccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 84 KAISAVLQNFSW-HEVVLMYEDTNYGAGFISFLVDELQENDIRISHMS-KIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 84 ~a~~~~l~~~~w-~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~-~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
..+.++++.++. +++.|+++...+.. ..+.+.+.+++.|+.+.... ....+.+.......+..+++ ++|+|+..|-
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~~-~~~~i~~~L~~~~~~~~i~~~~~~~~p~~~~v~~~~~~~~~-~~d~IIaiGG 89 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYKV-AGKEIIERLESNNFTKEVLERDSLLIPDEYELGEVLIKLDK-DTEFLLGIGS 89 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHHH-HHHHHHHHHHHcCCeEEEEecCCCCCCCHHHHHHHHHHhhc-CCCEEEEECC
Confidence 345566777775 78888886555433 34788889998887554321 12223345677777788877 8999998876
Q ss_pred hH--HHHHHHH
Q 037761 162 TA--LASRLFA 170 (753)
Q Consensus 162 ~~--~~~~~~~ 170 (753)
+. |+..++.
T Consensus 90 Gsv~D~aK~iA 100 (332)
T cd08549 90 GTIIDLVKFVS 100 (332)
T ss_pred cHHHHHHHHHH
Confidence 54 6666664
No 420
>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=65.31 E-value=88 Score=27.69 Aligned_cols=73 Identities=10% Similarity=0.016 Sum_probs=50.6
Q ss_pred cchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC----hHHHHHHHHHHHHcCCCCCCEEE
Q 037761 109 AGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN----TALASRLFALVAKNGMMSKGYTW 184 (753)
Q Consensus 109 ~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~----~~~~~~~~~~a~~~g~~~~~~~w 184 (753)
.-....+...++.+|.+|..--. +......++.+++.+||+|.+..- ......+++.+++.|+ .+..|
T Consensus 15 diGk~iv~~~l~~~GfeVi~LG~------~v~~e~~v~aa~~~~adiVglS~l~~~~~~~~~~~~~~l~~~gl--~~~~v 86 (134)
T TIGR01501 15 AVGNKILDHAFTNAGFNVVNLGV------LSPQEEFIKAAIETKADAILVSSLYGHGEIDCKGLRQKCDEAGL--EGILL 86 (134)
T ss_pred hHhHHHHHHHHHHCCCEEEECCC------CCCHHHHHHHHHHcCCCEEEEecccccCHHHHHHHHHHHHHCCC--CCCEE
Confidence 34456777889999999875533 123445677778889999887653 3457778888889997 34556
Q ss_pred EEcCc
Q 037761 185 IVTAC 189 (753)
Q Consensus 185 i~~~~ 189 (753)
+.++.
T Consensus 87 ivGG~ 91 (134)
T TIGR01501 87 YVGGN 91 (134)
T ss_pred EecCC
Confidence 66654
No 421
>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=65.13 E-value=58 Score=34.26 Aligned_cols=82 Identities=15% Similarity=0.032 Sum_probs=56.0
Q ss_pred HHHHHHH-HcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 85 AISAVLQ-NFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 85 a~~~~l~-~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
.+.++++ ..+.+++.|+++...+ ....+.+.+.+++.| .+... +..+.+.......+..+++.++|+|+..|.+.
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 3556666 3567899888854443 366778888898888 44332 22234566788888888888999999887654
Q ss_pred --HHHHHHH
Q 037761 164 --LASRLFA 170 (753)
Q Consensus 164 --~~~~~~~ 170 (753)
|+..++.
T Consensus 90 ~~D~aK~~a 98 (339)
T cd08173 90 VIDVAKVAA 98 (339)
T ss_pred HHHHHHHHH
Confidence 6666664
No 422
>PRK11205 tbpA thiamine transporter substrate binding subunit; Provisional
Probab=64.28 E-value=1.6e+02 Score=30.74 Aligned_cols=82 Identities=7% Similarity=-0.047 Sum_probs=46.8
Q ss_pred CCCHHHHHHHHhcCCCCCCeeEEEeccccHHH-HHhcCCCCcE--EeCcccccCceEEEEcCCCCCchHhHHHHHHhhhc
Q 037761 597 LSNFGEYKEALSNGSRKGGVSAIFEEIPYIKV-FLKKYSSKYT--TAGPIYRTDGLGFAFAKDSPLVSHFSQAILLVREN 673 (753)
Q Consensus 597 ~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~-~~~~~~~~l~--~~~~~~~~~~~~~~~~k~s~l~~~~n~~i~~l~~~ 673 (753)
..+..+....+.+|+ +++.+.......+ ..+....++. +.++-......++++.|+++-.+.-.+.+..|...
T Consensus 197 ~~~~~~~~~~~~~Ge----~~~~i~~~~~~~~~~~~~~~~~~~~~~~~eG~~~~~~~~ai~k~a~n~e~A~~Fi~fllS~ 272 (330)
T PRK11205 197 TKGWSEAYGLFLKGE----ADLVLSYTTSPAYHIIAEKKDNYAAANFSEGHYLQVEVAARTAASKQPELAQKFLQFMVSP 272 (330)
T ss_pred CCChHHHHHHHHcCC----ccEEEeCCCcHHHHHhhccCCceeEEEcCCCCeEEEEEEEEeCCCCCHHHHHHHHHHHcCH
Confidence 345567778899998 8887765533222 2222211222 22221122234678899998777777778777766
Q ss_pred chHHHHHHHh
Q 037761 674 QTRMDRIEKK 683 (753)
Q Consensus 674 G~~~~~~~~~ 683 (753)
. ....+.+.
T Consensus 273 e-~Q~~~~~~ 281 (330)
T PRK11205 273 A-FQNAIPTG 281 (330)
T ss_pred H-HHHHhhhh
Confidence 5 34444443
No 423
>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=64.14 E-value=28 Score=34.92 Aligned_cols=80 Identities=6% Similarity=0.049 Sum_probs=53.7
Q ss_pred EEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHH-HHHHHHHHH
Q 037761 97 EVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTAL-ASRLFALVA 173 (753)
Q Consensus 97 ~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~-~~~~~~~a~ 173 (753)
||+++..+ ++|-......+.+.+++.|..+.....-. ..+.......+.++...++|.|++.....+ ....+..+.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~~~ 79 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKELGVKVTFQGPAS-ETDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKEAK 79 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHcCCEEEEecCcc-CCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHHHH
Confidence 57777754 56777888999999999998876653211 112345556777777788999998754333 244666666
Q ss_pred HcCC
Q 037761 174 KNGM 177 (753)
Q Consensus 174 ~~g~ 177 (753)
+.|+
T Consensus 80 ~~~i 83 (273)
T cd06310 80 DAGI 83 (273)
T ss_pred HCCC
Confidence 6663
No 424
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=63.83 E-value=39 Score=34.38 Aligned_cols=77 Identities=8% Similarity=0.010 Sum_probs=55.3
Q ss_pred EEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC-hHHHHHHHHHHHH
Q 037761 98 VVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN-TALASRLFALVAK 174 (753)
Q Consensus 98 vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~-~~~~~~~~~~a~~ 174 (753)
|+++.. ++.|.....+.+.+++++.|.++...... .+.......++.+.+.++|.|++... .......++++.+
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~~~---~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l~~ 78 (288)
T cd01538 2 IGLSLPTKTEERWIRDRPNFEAALKELGAEVIVQNAN---GDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKAAD 78 (288)
T ss_pred eEEEEeCCCcHHHHHHHHHHHHHHHHcCCEEEEECCC---CCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHHHH
Confidence 567775 35677888899999999999987765331 22345567788888889999998764 3334567778887
Q ss_pred cCC
Q 037761 175 NGM 177 (753)
Q Consensus 175 ~g~ 177 (753)
.|.
T Consensus 79 ~~i 81 (288)
T cd01538 79 AGI 81 (288)
T ss_pred CCC
Confidence 774
No 425
>cd08481 PBP2_GcdR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold. GcdR is involved in the glutaconate/glutarate-specific activation of the Pg promoter driving expression of a glutaryl-CoA dehydrogenase-encoding gene (gcdH). The GcdH protein is essential for the anaerobic catabolism of many aromatic compounds and some alicyclic and dicarboxylic acids. The structural topology of this substrate-binding domain is most similar to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplas
Probab=63.50 E-value=75 Score=29.19 Aligned_cols=99 Identities=11% Similarity=0.046 Sum_probs=50.0
Q ss_pred CChhHhhhcCCeEEEec--CchHHHHHHHhhCCCC---CceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcC
Q 037761 559 ADLKKLRTESHFVGFQS--GSFVEDFLVKQLNFSR---NQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKY 633 (753)
Q Consensus 559 ~s~~dL~~~~~~~~~~~--~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~ 633 (753)
-+++||. +.++.... ......++.+ .+... .....+++.......+..|. .-+++.. ..........
T Consensus 86 ~~~~dl~--~~~~i~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~v~~g~----Gi~~~p~-~~~~~~~~~~ 157 (194)
T cd08481 86 AAPADLA--HLPLLQQTTRPEAWRDWFEE-VGLEVPTAYRGMRFEQFSMLAQAAVAGL----GVALLPR-FLIEEELARG 157 (194)
T ss_pred CcHHHHh--hCceEecCCCCcCHHHHHHH-cCCCCCCccCceEeccHHHHHHHHHhCC----CeEEecH-HHHHHHHHCC
Confidence 4788985 44333322 1234555553 23221 11234467788889998887 5555544 3333332221
Q ss_pred CCCcEEeCc--ccccCceEEEEcCCCCCchHhHHHH
Q 037761 634 SSKYTTAGP--IYRTDGLGFAFAKDSPLVSHFSQAI 667 (753)
Q Consensus 634 ~~~l~~~~~--~~~~~~~~~~~~k~s~l~~~~n~~i 667 (753)
.+..... ......++++.+++.+....+...+
T Consensus 158 --~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 191 (194)
T cd08481 158 --RLVVPFNLPLTSDKAYYLVYPEDKAESPPVQAFR 191 (194)
T ss_pred --CEEeecCccccCCCeEEEEeCcccccCHHHHHHH
Confidence 2332221 2234577788888766555544443
No 426
>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=63.14 E-value=30 Score=34.54 Aligned_cols=77 Identities=14% Similarity=0.141 Sum_probs=52.5
Q ss_pred EEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHHc
Q 037761 98 VVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAKN 175 (753)
Q Consensus 98 vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~~ 175 (753)
++++.. .+.|.....+.+.+++++.|.++.... . ..+.......++.+.+.++|.|++..........++++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~~--~-~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (268)
T cd06289 2 IGLVINDLTNPFFAELAAGLEEVLEEAGYTVFLAN--S-GEDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLAES 78 (268)
T ss_pred EEEEecCCCcchHHHHHHHHHHHHHHcCCeEEEec--C-CCChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHHhc
Confidence 456664 466777888899999999998875432 1 22234456677888888999998886543333466777777
Q ss_pred CC
Q 037761 176 GM 177 (753)
Q Consensus 176 g~ 177 (753)
|+
T Consensus 79 ~i 80 (268)
T cd06289 79 GI 80 (268)
T ss_pred CC
Confidence 74
No 427
>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=63.13 E-value=32 Score=34.16 Aligned_cols=78 Identities=6% Similarity=0.040 Sum_probs=53.1
Q ss_pred EEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH-HHHHHHHHHH
Q 037761 97 EVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA-LASRLFALVA 173 (753)
Q Consensus 97 ~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~-~~~~~~~~a~ 173 (753)
+|++|..+ +.|.....+.+.+++++.|..+.....- .+.......++++...++|.|++..... .....+..++
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~~---~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~l~ 77 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGVELIVLDAQ---NDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKKAN 77 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCceEEEECCC---CCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHHHH
Confidence 46777764 5688888999999999999887654321 1234455677777777899998875433 3334666666
Q ss_pred HcCC
Q 037761 174 KNGM 177 (753)
Q Consensus 174 ~~g~ 177 (753)
+.+.
T Consensus 78 ~~~i 81 (267)
T cd01536 78 AAGI 81 (267)
T ss_pred HCCC
Confidence 6553
No 428
>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=62.68 E-value=83 Score=26.95 Aligned_cols=67 Identities=4% Similarity=0.004 Sum_probs=44.0
Q ss_pred eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC----hHHHHHHHHHHHHcC
Q 037761 104 DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN----TALASRLFALVAKNG 176 (753)
Q Consensus 104 d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~----~~~~~~~~~~a~~~g 176 (753)
..+.-.-....+...++..|.++.+-.. .. .....+..+.+.+||+|.+++. ...+..+++++++.+
T Consensus 8 ~~e~H~lG~~~~~~~l~~~G~~V~~lg~---~~---~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~ 78 (119)
T cd02067 8 GGDGHDIGKNIVARALRDAGFEVIDLGV---DV---PPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAG 78 (119)
T ss_pred CCchhhHHHHHHHHHHHHCCCEEEECCC---CC---CHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcC
Confidence 3444444556777888899988854432 11 2335566667789999998875 335666777887765
No 429
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=62.47 E-value=87 Score=26.64 Aligned_cols=85 Identities=15% Similarity=0.113 Sum_probs=46.8
Q ss_pred HHHHHcCCeEEEEEEeeCC-cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHH
Q 037761 88 AVLQNFSWHEVVLMYEDTN-YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALAS 166 (753)
Q Consensus 88 ~~l~~~~w~~vail~~d~~-~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~ 166 (753)
+-+...|.+.|.-+-.|.+ .+.-....+.+.+++.|+..+..=......+..++......+.+..-.|.+.|..+.-+.
T Consensus 21 ~~la~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~~~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra~ 100 (110)
T PF04273_consen 21 AQLAAQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHIPVDGGAITEEDVEAFADALESLPKPVLAHCRSGTRAS 100 (110)
T ss_dssp HHHHHCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE----TTT--HHHHHHHHHHHHTTTTSEEEE-SCSHHHH
T ss_pred HHHHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEeecCCCCCCHHHHHHHHHHHHhCCCCEEEECCCChhHH
Confidence 3455689999888877755 345566778899999999876543222334455666665556554446777777777666
Q ss_pred HHHHHH
Q 037761 167 RLFALV 172 (753)
Q Consensus 167 ~~~~~a 172 (753)
.+...+
T Consensus 101 ~l~~l~ 106 (110)
T PF04273_consen 101 ALWALA 106 (110)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 665443
No 430
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=62.23 E-value=73 Score=33.66 Aligned_cols=83 Identities=13% Similarity=0.088 Sum_probs=56.3
Q ss_pred HHHHHHHHHcCC-eEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh
Q 037761 84 KAISAVLQNFSW-HEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 84 ~a~~~~l~~~~w-~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
..+.++++.++. +++.||++...+.. ..+.+.+.+++.| .+... +..+.+.......+..+++.++|+|+..|.+
T Consensus 22 ~~l~~~l~~~~~~~~~livtd~~~~~~-~~~~l~~~l~~~~-~~~~~--~~~~~t~~~v~~~~~~~~~~~~d~IIaiGGG 97 (350)
T PRK00843 22 DDIGDVCSDLKLTGRALIVTGPTTKKI-AGDRVEENLEDAG-DVEVV--IVDEATMEEVEKVEEKAKDVNAGFLIGVGGG 97 (350)
T ss_pred HHHHHHHHHhCCCCeEEEEECCcHHHH-HHHHHHHHHHhcC-CeeEE--eCCCCCHHHHHHHHHHhhccCCCEEEEeCCc
Confidence 345667777775 78888886555433 4567888888877 44322 3334456678888888888889999987765
Q ss_pred H--HHHHHHH
Q 037761 163 A--LASRLFA 170 (753)
Q Consensus 163 ~--~~~~~~~ 170 (753)
. |+..++.
T Consensus 98 sv~D~ak~vA 107 (350)
T PRK00843 98 KVIDVAKLAA 107 (350)
T ss_pred hHHHHHHHHH
Confidence 4 6666664
No 431
>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=62.09 E-value=32 Score=34.28 Aligned_cols=77 Identities=10% Similarity=0.081 Sum_probs=52.9
Q ss_pred EEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHHc
Q 037761 98 VVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAKN 175 (753)
Q Consensus 98 vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~~ 175 (753)
|+++.. .++|.....+.+.+++++.|..+..... ..+..+....++++.+.++|.|++..........++.+.+.
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYSLLLATT---DYDAEREADAVETLLRQRVDGLILTVADAATSPALDLLDAE 78 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCEEEEeeC---CCCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHhhC
Confidence 566664 3567778889999999999988876533 12344556777888788899999864332223466777777
Q ss_pred CC
Q 037761 176 GM 177 (753)
Q Consensus 176 g~ 177 (753)
|+
T Consensus 79 ~i 80 (266)
T cd06282 79 RV 80 (266)
T ss_pred CC
Confidence 74
No 432
>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=61.93 E-value=34 Score=33.63 Aligned_cols=78 Identities=13% Similarity=0.150 Sum_probs=54.5
Q ss_pred EEEEEEee---CCcccchHHHHHHHHHh--CCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHH
Q 037761 97 EVVLMYED---TNYGAGFISFLVDELQE--NDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFAL 171 (753)
Q Consensus 97 ~vail~~d---~~~g~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~ 171 (753)
+|+++... +.++....+.+...+++ .++++..... ..+..+....+.++...++++|++.........+...
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~ 77 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEIGRGLEVILADS---QSDPERALEALRDLIQQGVDGIIGPPSSSSALAVVEL 77 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHhCCceEEEEecC---CCCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHHHH
Confidence 46777764 46778888899999999 7777765533 2223466677778877889999988776555446677
Q ss_pred HHHcCC
Q 037761 172 VAKNGM 177 (753)
Q Consensus 172 a~~~g~ 177 (753)
+.+.++
T Consensus 78 ~~~~~i 83 (269)
T cd01391 78 AAAAGI 83 (269)
T ss_pred HHHcCC
Confidence 777664
No 433
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=61.44 E-value=97 Score=27.57 Aligned_cols=87 Identities=11% Similarity=0.021 Sum_probs=55.3
Q ss_pred eEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC----hHHHHHHHHH
Q 037761 96 HEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN----TALASRLFAL 171 (753)
Q Consensus 96 ~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~----~~~~~~~~~~ 171 (753)
.+|.+.....+.-.-....+...++..|.++.+--.- ......+..+.+.+||+|.+.+. ...+..++.+
T Consensus 4 ~~vl~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG~~------vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~~~~~~ 77 (137)
T PRK02261 4 KTVVLGVIGADCHAVGNKILDRALTEAGFEVINLGVM------TSQEEFIDAAIETDADAILVSSLYGHGEIDCRGLREK 77 (137)
T ss_pred CEEEEEeCCCChhHHHHHHHHHHHHHCCCEEEECCCC------CCHHHHHHHHHHcCCCEEEEcCccccCHHHHHHHHHH
Confidence 3444444444444455667778899999998765431 12344566667789999998763 4467778888
Q ss_pred HHHcCCCCCCEEEEEcCc
Q 037761 172 VAKNGMMSKGYTWIVTAC 189 (753)
Q Consensus 172 a~~~g~~~~~~~wi~~~~ 189 (753)
+++.+.. .-.+|+++..
T Consensus 78 L~~~~~~-~~~i~vGG~~ 94 (137)
T PRK02261 78 CIEAGLG-DILLYVGGNL 94 (137)
T ss_pred HHhcCCC-CCeEEEECCC
Confidence 8888763 2345555543
No 434
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=60.92 E-value=1.3e+02 Score=28.89 Aligned_cols=49 Identities=18% Similarity=0.106 Sum_probs=28.0
Q ss_pred CCCChHHHHHHHHHHHhc---CCeEEEEcCCCCCcHHHHHHhhccCCccEEeec
Q 037761 8 KQFKDCGKLILAVDLLKK---FQVQAIIGPQIPAAAPFLVELGEKAQVPIISFF 58 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~---~~V~aviG~~~s~~~~av~~i~~~~~vP~is~~ 58 (753)
.+.|...++.....++.+ +||+|++=.-.+....+ -+=+.+.+|+|...
T Consensus 47 g~~de~~a~~~~l~ei~~~~~~GvdaiiIaCf~DPgl~--~~Re~~~~PviGi~ 98 (230)
T COG4126 47 GQEDEALAAPGLLREIADGEEQGVDAIIIACFSDPGLA--AARERAAIPVIGIC 98 (230)
T ss_pred CcchHHHhhhHHHHHhhcccccCCcEEEEEecCChHHH--HHHHHhCCCceehh
Confidence 445556666555555553 46888665444443333 34466778877753
No 435
>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=60.85 E-value=72 Score=30.89 Aligned_cols=88 Identities=14% Similarity=0.013 Sum_probs=60.3
Q ss_pred eEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC----hHHHHHHHHH
Q 037761 96 HEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN----TALASRLFAL 171 (753)
Q Consensus 96 ~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~----~~~~~~~~~~ 171 (753)
.++.+.....+.-.-...-+...++.+|.++.+--. + ......+..+++.+||+|.+.+. ...+..++++
T Consensus 89 ~~vvl~t~~gd~HdiG~~iv~~~l~~~G~~Vi~LG~---~---vp~e~~v~~~~~~~~~~V~lS~~~~~~~~~~~~~i~~ 162 (213)
T cd02069 89 GKIVLATVKGDVHDIGKNLVGVILSNNGYEVIDLGV---M---VPIEKILEAAKEHKADIIGLSGLLVPSLDEMVEVAEE 162 (213)
T ss_pred CeEEEEeCCCchhHHHHHHHHHHHHhCCCEEEECCC---C---CCHHHHHHHHHHcCCCEEEEccchhccHHHHHHHHHH
Confidence 466566656666666677788889999999876532 1 23344566666789999998755 3467778888
Q ss_pred HHHcCCCCCCEEEEEcCccc
Q 037761 172 VAKNGMMSKGYTWIVTACLS 191 (753)
Q Consensus 172 a~~~g~~~~~~~wi~~~~~~ 191 (753)
+++.|. .-++|+++....
T Consensus 163 L~~~~~--~~~i~vGG~~~~ 180 (213)
T cd02069 163 MNRRGI--KIPLLIGGAATS 180 (213)
T ss_pred HHhcCC--CCeEEEEChhcC
Confidence 888875 556777775533
No 436
>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=60.84 E-value=31 Score=35.17 Aligned_cols=79 Identities=9% Similarity=0.182 Sum_probs=52.6
Q ss_pred EEEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHH-HHHHHHHHH
Q 037761 97 EVVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTAL-ASRLFALVA 173 (753)
Q Consensus 97 ~vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~-~~~~~~~a~ 173 (753)
||+++.. ++.|.......+.+.+++.|..+.... ....+.......+..+.+.++|.|++...... ....+.++.
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~--~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~~~ 78 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKLGIEVVATT--DAQFDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKKVA 78 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHcCCEEEEec--CCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHHHH
Confidence 4676664 345667788889999999998876331 11223344556777777788999888654322 356678888
Q ss_pred HcCC
Q 037761 174 KNGM 177 (753)
Q Consensus 174 ~~g~ 177 (753)
+.|+
T Consensus 79 ~~~i 82 (294)
T cd06316 79 EAGI 82 (294)
T ss_pred HcCC
Confidence 8774
No 437
>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=60.74 E-value=40 Score=33.70 Aligned_cols=77 Identities=6% Similarity=0.060 Sum_probs=53.0
Q ss_pred EEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHH-HHHHHHHHHH
Q 037761 98 VVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTAL-ASRLFALVAK 174 (753)
Q Consensus 98 vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~-~~~~~~~a~~ 174 (753)
|+++..+ +.|.....+.+.+.+++.|.++..... ..+.......+..+.+.++|.|++...... ....+.++++
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~i~~~---~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~~~ 78 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVNLIVSIA---NQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKAKK 78 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCEEEEecC---CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHH
Confidence 4566654 567788889999999999988765422 122345566777777889999998765332 3456677777
Q ss_pred cCC
Q 037761 175 NGM 177 (753)
Q Consensus 175 ~g~ 177 (753)
.|+
T Consensus 79 ~~i 81 (267)
T cd06322 79 AGI 81 (267)
T ss_pred CCC
Confidence 664
No 438
>smart00094 TR_FER Transferrin.
Probab=60.59 E-value=21 Score=37.16 Aligned_cols=19 Identities=26% Similarity=0.216 Sum_probs=17.5
Q ss_pred ChHHHHHHHHcCcccEEEe
Q 037761 447 TYDELLYQIKLKKFDAVVG 465 (753)
Q Consensus 447 ~~~~~~~~l~~~~~Di~~~ 465 (753)
+..+++++|++|++|++..
T Consensus 36 s~~~Ci~~I~~g~AD~a~l 54 (332)
T smart00094 36 STEECIKAIQKGEADAVTL 54 (332)
T ss_pred CHHHHHHHHHCCCCCEEEE
Confidence 7899999999999999963
No 439
>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=60.47 E-value=87 Score=30.01 Aligned_cols=88 Identities=8% Similarity=0.050 Sum_probs=56.8
Q ss_pred eEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC----hHHHHHHHHH
Q 037761 96 HEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN----TALASRLFAL 171 (753)
Q Consensus 96 ~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~----~~~~~~~~~~ 171 (753)
.++.+.....+.-.-...-+...++..|.++.+--. + ......+..+++.+||+|.+.+. .+.+..++.+
T Consensus 83 ~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG~---~---~p~~~l~~~~~~~~~d~v~lS~~~~~~~~~~~~~i~~ 156 (201)
T cd02070 83 GKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDLGR---D---VPPEEFVEAVKEHKPDILGLSALMTTTMGGMKEVIEA 156 (201)
T ss_pred CeEEEEecCCccchHHHHHHHHHHHHCCCEEEECCC---C---CCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHH
Confidence 455555545555555567777889999999854321 1 23444566667789999998764 4467778888
Q ss_pred HHHcCCCCCCEEEEEcCc
Q 037761 172 VAKNGMMSKGYTWIVTAC 189 (753)
Q Consensus 172 a~~~g~~~~~~~wi~~~~ 189 (753)
+++.+....-.+++++..
T Consensus 157 lr~~~~~~~~~i~vGG~~ 174 (201)
T cd02070 157 LKEAGLRDKVKVMVGGAP 174 (201)
T ss_pred HHHCCCCcCCeEEEECCc
Confidence 888764223456666654
No 440
>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=60.46 E-value=97 Score=26.48 Aligned_cols=71 Identities=13% Similarity=0.075 Sum_probs=41.1
Q ss_pred EEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe-Ch---HHHHHHHHHHHHc
Q 037761 100 LMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM-NT---ALASRLFALVAKN 175 (753)
Q Consensus 100 il~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~-~~---~~~~~~~~~a~~~ 175 (753)
+.....++-.-....+...+++.|.++...... . +.....+.+++.+||+|.+.+ .. ..+..+.+.+++.
T Consensus 5 ~~~~~~~~~~lGl~~la~~l~~~G~~v~~~d~~---~---~~~~l~~~~~~~~pd~V~iS~~~~~~~~~~~~l~~~~k~~ 78 (121)
T PF02310_consen 5 LACVPGEVHPLGLLYLAAYLRKAGHEVDILDAN---V---PPEELVEALRAERPDVVGISVSMTPNLPEAKRLARAIKER 78 (121)
T ss_dssp EEEBTTSSTSHHHHHHHHHHHHTTBEEEEEESS---B----HHHHHHHHHHTTCSEEEEEESSSTHHHHHHHHHHHHHTT
T ss_pred EEeeCCcchhHHHHHHHHHHHHCCCeEEEECCC---C---CHHHHHHHHhcCCCcEEEEEccCcCcHHHHHHHHHHHHhc
Confidence 333334444455667777888888877655321 1 224556667677888888877 32 2445555555543
Q ss_pred C
Q 037761 176 G 176 (753)
Q Consensus 176 g 176 (753)
+
T Consensus 79 ~ 79 (121)
T PF02310_consen 79 N 79 (121)
T ss_dssp C
T ss_pred C
Confidence 3
No 441
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=60.23 E-value=14 Score=24.42 Aligned_cols=30 Identities=17% Similarity=0.332 Sum_probs=18.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHhccchhhHHh
Q 037761 713 LFIIVGIATLLALLISERYIWQKPVSLVNK 742 (753)
Q Consensus 713 ~f~il~~g~~l~~~vf~~~~~~~~~~~~~~ 742 (753)
+|.++++..+..+..|+..-|..|++..++
T Consensus 13 VF~lVglv~i~iva~~iYRKw~aRkr~l~r 42 (43)
T PF08114_consen 13 VFCLVGLVGIGIVALFIYRKWQARKRALQR 42 (43)
T ss_pred ehHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 566666665555566666666666655443
No 442
>cd00494 HMBS Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of porphobilinogen (PBG) into hydroxymethylbilane (HMB). HMBS consists of three domains, and is believed to bind substrate through a hinge-bending motion of domains I and II. HMBS is found in all organisms except viruses.
Probab=60.20 E-value=2e+02 Score=29.28 Aligned_cols=62 Identities=23% Similarity=0.212 Sum_probs=41.2
Q ss_pred CChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecC-CCHHHHHHHHhcCCCCCCeeEEEeccccHHH
Q 037761 559 ADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPL-SNFGEYKEALSNGSRKGGVSAIFEEIPYIKV 628 (753)
Q Consensus 559 ~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~ 628 (753)
.+++||- .|.+||..+--- ...+++ ..|+.++..+ .+.+.-+..|.+|+ .|+++....-+..
T Consensus 109 ~~l~~Lp-~ga~IGTsS~RR-~aql~~--~rpdl~~~~iRGNV~TRL~KL~~ge----~DaiiLA~AGL~R 171 (292)
T cd00494 109 SSLEDLP-AGSVVGTSSLRR-QAQLKR--KRPDLKFEPLRGNVDTRLRKLDEGE----YDAIILAAAGLKR 171 (292)
T ss_pred CChhHCC-CCCEEecCCHHH-HHHHHH--HCCCCEEEEcCCCHHHHHHHhcCCC----CCEeehHhhHHHH
Confidence 4788885 566776532222 233332 5666677655 46788899999998 9999987665554
No 443
>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=59.94 E-value=37 Score=33.89 Aligned_cols=78 Identities=12% Similarity=0.114 Sum_probs=51.5
Q ss_pred EEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHHc
Q 037761 98 VVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAKN 175 (753)
Q Consensus 98 vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~~ 175 (753)
|+++.. ++.|.....+.+.+++++.|.++.....-. + ........++.+.+.++|.|++..........++.+.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~-~-~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~ 79 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQLVIEPCDS-G-SPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLDEA 79 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCeEEEEeCCC-C-chHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHHhc
Confidence 466664 467888999999999999998876553211 1 122455566667778899998875432234556666666
Q ss_pred CC
Q 037761 176 GM 177 (753)
Q Consensus 176 g~ 177 (753)
|+
T Consensus 80 ~i 81 (270)
T cd01545 80 GV 81 (270)
T ss_pred CC
Confidence 64
No 444
>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=59.78 E-value=1.1e+02 Score=32.23 Aligned_cols=92 Identities=7% Similarity=0.047 Sum_probs=57.5
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHh-CCeEEEEeeccCCCCchhhHHHHHHHHhcC---CccEEEEE
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQE-NDIRISHMSKIPTSAEDFQISKELSKLSTM---QTRVFIVH 159 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~-~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~---~~~vIi~~ 159 (753)
..+.++++.++-+++.++++...+. ...+.+.+.+++ .++.+........+.+...+...+..+++. ++|.|+..
T Consensus 12 ~~l~~~~~~~~~~k~livtd~~v~~-~~~~~v~~~L~~~~~~~~~~~~~~e~~k~~~~v~~~~~~~~~~~~~r~d~IIai 90 (344)
T cd08169 12 ESVESYTTRDLFDQYFFISDSGVAD-LIAHYIAEYLSKILPVHILVIEGGEEYKTFETVTRILERAIALGANRRTAIVAV 90 (344)
T ss_pred HHHHHHHHhcCCCeEEEEECccHHH-HHHHHHHHHHHhhcCceEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEEE
Confidence 3455667777778888888654433 567778888876 566543332223333455677777777754 48999988
Q ss_pred eChH--HHHHHHHHHHHcC
Q 037761 160 MNTA--LASRLFALVAKNG 176 (753)
Q Consensus 160 ~~~~--~~~~~~~~a~~~g 176 (753)
|.+. |+..++......|
T Consensus 91 GGGsv~D~ak~vA~~~~rg 109 (344)
T cd08169 91 GGGATGDVAGFVASTLFRG 109 (344)
T ss_pred CCcHHHHHHHHHHHHhccC
Confidence 7654 6666665544334
No 445
>TIGR03730 tungstate_WtpA tungstate ABC transporter binding protein WtpA. Members of this protein family are tungstate (and, more weakly, molybdate) binding proteins of tungstate(/molybdate) ABC transporters, as first characterized in Pyrococcus furiosus. Model seed members and cutoffs, pending experimental evidence for more distant homologs, were chosen such that this model identifies select archaeal proteins, excluding weaker archaeal and all bacterial homologs. Note that this family is homologous to molybdate transporters, and that at least one other family of tungstate transporter binding protein, TupA, also exists.
Probab=59.30 E-value=1.3e+02 Score=30.40 Aligned_cols=73 Identities=11% Similarity=0.163 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHhc-CCccceEEEecCCCCCCCCCChHHHHHHHH-cC-cccEEEeeeeeecccc---eeeecccccccc
Q 037761 413 EIFNATLEIVEEKL-GMKIHPQLVPYEDENGEMAGTYDELLYQIK-LK-KFDAVVGDISIVASRT---DYVEFTLPYSES 486 (753)
Q Consensus 413 dll~~ia~~~~~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~-~~Di~~~~~~~t~~r~---~~~~fs~p~~~~ 486 (753)
+.+++|++.++++. |.++++.+- ....++.++. +| .+|+.+..-.-..++. ..+....++...
T Consensus 13 ~~~~ei~~~Fe~~~~gvkv~~~~~-----------gSg~L~~Qi~e~Gap~DVfisAd~~~~~~L~~~g~~~~~~~~a~n 81 (273)
T TIGR03730 13 VPFEEMEKEFEAKHPNVDVQREAA-----------GSVAAVRKITELGKPADILASADYTLIPQMMIPNYADWYIMFATN 81 (273)
T ss_pred HHHHHHHHHHHhhCCCceEEEEeC-----------cHHHHHHHHHHcCCCeeEEEeCCHHHHHHHHhCCCcCceeeEEcc
Confidence 55666777666565 654444332 4567888885 55 5898875432222222 223434578899
Q ss_pred ceEEEEeccc
Q 037761 487 GVTMLVPVKR 496 (753)
Q Consensus 487 ~~~~~v~~~~ 496 (753)
.++++++...
T Consensus 82 ~LVL~~~~~~ 91 (273)
T TIGR03730 82 EIVLAYTDKS 91 (273)
T ss_pred cEEEEEeCCC
Confidence 9999988553
No 446
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=59.16 E-value=46 Score=35.01 Aligned_cols=81 Identities=7% Similarity=0.026 Sum_probs=55.3
Q ss_pred CeEEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH-HHHHHHHH
Q 037761 95 WHEVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA-LASRLFAL 171 (753)
Q Consensus 95 w~~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~-~~~~~~~~ 171 (753)
-+.|+++..+ +.|.....+.+.+++++.|..+.....-. ..+.......++.+.+.++|.|++.+... .....+ +
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~-~~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l-~ 123 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGG-YYNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL-E 123 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCC-CCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH-H
Confidence 3788888864 56777788899999999998876653211 11233455677778888999999876443 333445 6
Q ss_pred HHHcCC
Q 037761 172 VAKNGM 177 (753)
Q Consensus 172 a~~~g~ 177 (753)
+++.|+
T Consensus 124 ~~~~gi 129 (343)
T PRK10936 124 LQAANI 129 (343)
T ss_pred HHHCCC
Confidence 777664
No 447
>PRK10752 sulfate transporter subunit; Provisional
Probab=58.54 E-value=33 Score=35.80 Aligned_cols=47 Identities=11% Similarity=-0.002 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcC-cccEEEeeee
Q 037761 413 EIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLK-KFDAVVGDIS 468 (753)
Q Consensus 413 dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~Di~~~~~~ 468 (753)
++...+.++=+++.|.++++...- +....+...|.+| ++|+.+++..
T Consensus 38 ~~~~~f~~~~~~~tG~~V~v~~s~---------ggSg~l~~qI~~g~~aDV~~~a~~ 85 (329)
T PRK10752 38 QYNKAFSAHWKQQTGDNVVIRQSH---------GGSGKQATSVINGIEADVVTLALA 85 (329)
T ss_pred HHHHHHHHHHHhccCCceEEEeCC---------CChHHHHHHHHcCCCCCEEEeCCH
Confidence 455566653333668766654443 2567888888876 6899887653
No 448
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=58.37 E-value=65 Score=32.03 Aligned_cols=76 Identities=13% Similarity=0.091 Sum_probs=53.5
Q ss_pred EEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHHc
Q 037761 98 VVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAKN 175 (753)
Q Consensus 98 vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~~ 175 (753)
|+++.. +++|-....+.+.+++++.|..+..... ..+.......+..+.+.++|.|++....... ..++++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~~~ 77 (265)
T cd06299 2 IGVIVPDIRNPYFASLATAIQDAASAAGYSTIIGNS---DENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLLKR 77 (265)
T ss_pred EEEEecCCCCccHHHHHHHHHHHHHHcCCEEEEEeC---CCCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHHhC
Confidence 566665 4667778889999999999988775532 1223455667888888899999987643332 346777777
Q ss_pred CC
Q 037761 176 GM 177 (753)
Q Consensus 176 g~ 177 (753)
|.
T Consensus 78 ~i 79 (265)
T cd06299 78 GI 79 (265)
T ss_pred CC
Confidence 74
No 449
>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=58.18 E-value=38 Score=34.20 Aligned_cols=78 Identities=9% Similarity=0.042 Sum_probs=52.9
Q ss_pred EEEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHH-HHHHHHHHH
Q 037761 97 EVVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTAL-ASRLFALVA 173 (753)
Q Consensus 97 ~vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~-~~~~~~~a~ 173 (753)
+|+++.. .+.|.......+.+.+++.|..+..... ..+...-...+..+.+.++|.|++.....+ ....++.+.
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~~---~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~~ 77 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKALGYELISTDA---QGDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAAK 77 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHcCCEEEEEcC---CCCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHHH
Confidence 3566664 3667778888999999999988765432 122334456788888899999998754332 235667777
Q ss_pred HcCC
Q 037761 174 KNGM 177 (753)
Q Consensus 174 ~~g~ 177 (753)
+.|.
T Consensus 78 ~~~i 81 (282)
T cd06318 78 AAGV 81 (282)
T ss_pred HCCC
Confidence 7664
No 450
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=58.08 E-value=60 Score=32.13 Aligned_cols=168 Identities=11% Similarity=0.036 Sum_probs=86.0
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCCC-----cHHHHHHhhccCCccEEeecCCCC-----CCCCCCCCceEEEec
Q 037761 8 KQFKDCGKLILAVDLLKKFQVQAIIGPQIPA-----AAPFLVELGEKAQVPIISFFETSP-----ALSPTEHPFFIRVTQ 77 (753)
Q Consensus 8 d~~~~~~a~~~a~~Li~~~~V~aviG~~~s~-----~~~av~~i~~~~~vP~is~~a~~~-----~l~~~~~~~~fr~~p 77 (753)
|..+..+++...+..+.+.+..-|+-..... .-.+...+.+++.. |.+.+..- .+... |.--|.
T Consensus 18 ~~~~~~~~~~~i~~~~~~~~~~~vv~~N~e~~~~a~~d~e~~~~i~~A~l--i~pDG~gvV~~ar~~~g~--~~~~rv-- 91 (253)
T COG1922 18 DNVTWDEAVALILGRIEQGKPTTVVTLNAEKVLLARKDPEFREILNQADL--ILPDGIGVVRAARRLLGQ--PLPERV-- 91 (253)
T ss_pred ecCCHHHHHHHHHHHHhcCCccEEEEcCHHHHHHhccCHHHHHHHhhcCE--EccCchhHHHHHHHHhCc--cCcccC--
Confidence 7788888888888888875543333211111 11122233332221 11111110 11111 111122
Q ss_pred CcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEee-ccCCCCchhhHHHHHHHHhcCCccEE
Q 037761 78 NDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMS-KIPTSAEDFQISKELSKLSTMQTRVF 156 (753)
Q Consensus 78 ~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~-~~~~~~~~~d~~~~l~~l~~~~~~vI 156 (753)
+..+...++.+.+..-+ ++|.++....+-.....+.+++.... ..|+... -|... ..+ .+++++|.+++||++
T Consensus 92 ~G~Dl~~~Ll~~a~~~~-~~vfllGgkp~V~~~a~~~l~~~~p~--l~ivg~h~GYf~~--~e~-~~i~~~I~~s~pdil 165 (253)
T COG1922 92 AGTDLVEALLKRAAEEG-KRVFLLGGKPGVAEQAAAKLRAKYPG--LKIVGSHDGYFDP--EEE-EAIVERIAASGPDIL 165 (253)
T ss_pred ChHHHHHHHHHHhCccC-ceEEEecCCHHHHHHHHHHHHHHCCC--ceEEEecCCCCCh--hhH-HHHHHHHHhcCCCEE
Confidence 23344556666664443 57878876655444444444444333 3444443 23211 223 689999999999999
Q ss_pred EEEeChHHHHHHHHHHHHcCCCCCCEEEEEcCcc
Q 037761 157 IVHMNTALASRLFALVAKNGMMSKGYTWIVTACL 190 (753)
Q Consensus 157 i~~~~~~~~~~~~~~a~~~g~~~~~~~wi~~~~~ 190 (753)
++....+-...++.+-++. + +.-++|+.++.
T Consensus 166 ~VgmG~P~QE~wi~~~~~~-~--~~~v~igVGg~ 196 (253)
T COG1922 166 LVGMGVPRQEIWIARNRQQ-L--PVAVAIGVGGS 196 (253)
T ss_pred EEeCCCchhHHHHHHhHHh-c--CCceEEeccce
Confidence 9987766556666554442 2 34567776553
No 451
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=57.73 E-value=77 Score=29.38 Aligned_cols=88 Identities=15% Similarity=0.233 Sum_probs=52.8
Q ss_pred HHhcCCeEEEEcCCCCC---cHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHcCCeEE
Q 037761 22 LLKKFQVQAIIGPQIPA---AAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNFSWHEV 98 (753)
Q Consensus 22 Li~~~~V~aviG~~~s~---~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~~v 98 (753)
+-+..+.+.++|+.... ...++..+++..++|+++...+...+.+.+ ..|. ......+..++..-+|.-+
T Consensus 31 I~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~~~~~~~kg------v~~~-~~~lg~lg~~~~~p~~e~~ 103 (171)
T PRK00945 31 IKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGSYKGLIDKG------VDAK-YINLHELTNYLKDPNWKGL 103 (171)
T ss_pred HHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEccccccccccCC------ccCC-cccHHHHHhhccCchhhhh
Confidence 33456888999987754 677789999999999998776566665432 1111 2233455556655455433
Q ss_pred ---------EEEEeeCCcccchHHHHH
Q 037761 99 ---------VLMYEDTNYGAGFISFLV 116 (753)
Q Consensus 99 ---------ail~~d~~~g~~~~~~~~ 116 (753)
.++..+..+.......++
T Consensus 104 ~g~~~~DlvlfvG~~~~~~~~~l~~lk 130 (171)
T PRK00945 104 DGNGNYDLVIFIGVTYYYASQGLSALK 130 (171)
T ss_pred cCCCCcCEEEEecCCchhHHHHHHHHh
Confidence 344445555444444444
No 452
>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=57.59 E-value=46 Score=34.08 Aligned_cols=78 Identities=9% Similarity=0.052 Sum_probs=53.4
Q ss_pred EEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh-HHHHHHHHHHHH
Q 037761 98 VVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT-ALASRLFALVAK 174 (753)
Q Consensus 98 vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~-~~~~~~~~~a~~ 174 (753)
|+++.. .+.|-....+.+.+++++.|..+.....- ..+.......++.+...++|.|++.... ......++++++
T Consensus 2 I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~v~~~~~~--~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~~~ 79 (298)
T cd06302 2 IAFVPKVTGIPYFNRMEEGAKEAAKELGVDAIYVGPT--TADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKARE 79 (298)
T ss_pred EEEEEcCCCChHHHHHHHHHHHHHHHhCCeEEEECCC--CCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHHHH
Confidence 566664 45677788899999999999887643211 1234455667777777889999987543 333566777777
Q ss_pred cCC
Q 037761 175 NGM 177 (753)
Q Consensus 175 ~g~ 177 (753)
.|+
T Consensus 80 ~~i 82 (298)
T cd06302 80 AGI 82 (298)
T ss_pred CCC
Confidence 664
No 453
>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=57.37 E-value=46 Score=33.35 Aligned_cols=80 Identities=9% Similarity=0.138 Sum_probs=52.7
Q ss_pred EEEEEEe--eCCcccchHHHHHHHHHhC---CeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH-HHHHHHH
Q 037761 97 EVVLMYE--DTNYGAGFISFLVDELQEN---DIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA-LASRLFA 170 (753)
Q Consensus 97 ~vail~~--d~~~g~~~~~~~~~~~~~~---g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~-~~~~~~~ 170 (753)
||+++.. ++.|-....+.+.+.+++. |..+.... ++...+.......+.++...++|.|++..... .....+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i-~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~l~ 79 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIV-TSADGDVAQQIADIRNLIAQGVDAIIINPASPTALNPVIE 79 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEE-ecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHHHH
Confidence 4666664 4557778888999999999 86432221 12122345667788888888999999976543 2344667
Q ss_pred HHHHcCC
Q 037761 171 LVAKNGM 177 (753)
Q Consensus 171 ~a~~~g~ 177 (753)
.+.+.|.
T Consensus 80 ~~~~~~i 86 (272)
T cd06300 80 EACEAGI 86 (272)
T ss_pred HHHHCCC
Confidence 7777664
No 454
>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=56.30 E-value=57 Score=33.51 Aligned_cols=78 Identities=6% Similarity=0.101 Sum_probs=52.8
Q ss_pred EEEEEEee--CCcccchHHHHHHHHHh--CCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC-hHHHHHHHHH
Q 037761 97 EVVLMYED--TNYGAGFISFLVDELQE--NDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN-TALASRLFAL 171 (753)
Q Consensus 97 ~vail~~d--~~~g~~~~~~~~~~~~~--~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~-~~~~~~~~~~ 171 (753)
+|+++..+ +.|.....+.+.+++++ .|..+..... ..+.......+.++.+.++|.|++... .......+++
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~~~~~~~~---~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~ 77 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKVEFTFYDA---KNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVINK 77 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCeeEEEecC---CCCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHHHH
Confidence 46666653 55777788899999999 7777654422 222344556788888889999888653 3334567777
Q ss_pred HHHcCC
Q 037761 172 VAKNGM 177 (753)
Q Consensus 172 a~~~g~ 177 (753)
+.+.|+
T Consensus 78 ~~~~gi 83 (303)
T cd01539 78 AKQKNI 83 (303)
T ss_pred HHHCCC
Confidence 777775
No 455
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=56.25 E-value=59 Score=34.02 Aligned_cols=79 Identities=13% Similarity=0.177 Sum_probs=54.3
Q ss_pred eEEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHH
Q 037761 96 HEVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVA 173 (753)
Q Consensus 96 ~~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~ 173 (753)
+.++++..+ ++|.....+.+.+++++.|..+..... ..+.......+..+.+.++|.|++..........+..+.
T Consensus 65 ~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~ 141 (342)
T PRK10014 65 GVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQG---GKDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREMAE 141 (342)
T ss_pred CEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEeC---CCCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHHHh
Confidence 468888863 667788888999999999977654321 222345567778888889999998764333345666666
Q ss_pred HcCC
Q 037761 174 KNGM 177 (753)
Q Consensus 174 ~~g~ 177 (753)
+.|+
T Consensus 142 ~~~i 145 (342)
T PRK10014 142 EKGI 145 (342)
T ss_pred hcCC
Confidence 6664
No 456
>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=56.18 E-value=49 Score=33.09 Aligned_cols=77 Identities=10% Similarity=0.024 Sum_probs=52.7
Q ss_pred EEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHHc
Q 037761 98 VVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAKN 175 (753)
Q Consensus 98 vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~~ 175 (753)
|+++.. ++.|-....+.+.+.+++.|..+..... ..+.......+..+.+.++|.|++.....+...+++++++.
T Consensus 2 Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~---~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~ 78 (269)
T cd06281 2 IGCLVSDITNPLLAQLFSGAEDRLRAAGYSLLIANS---LNDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALASL 78 (269)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEeC---CCChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHHhC
Confidence 566664 4667788889999999999988765432 12233456677778888899999875433334456666666
Q ss_pred CC
Q 037761 176 GM 177 (753)
Q Consensus 176 g~ 177 (753)
+.
T Consensus 79 ~i 80 (269)
T cd06281 79 DL 80 (269)
T ss_pred CC
Confidence 63
No 457
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=56.06 E-value=41 Score=34.11 Aligned_cols=77 Identities=9% Similarity=0.188 Sum_probs=53.9
Q ss_pred EEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh-HHHHHHHHHHH
Q 037761 97 EVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT-ALASRLFALVA 173 (753)
Q Consensus 97 ~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~-~~~~~~~~~a~ 173 (753)
+|+++..+ +.|.....+.+.+++++.|..+..... . +.......+..+...++|.|++.... ......++++.
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~~~ 76 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEKGFTVVKIDV---P-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAKAK 76 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHcCCEEEEccC---C-CHHHHHHHHHHHHHcCCCEEEEccCchhhhHHHHHHHH
Confidence 35666653 557778889999999999988764422 2 23445567777888899999987643 33455778888
Q ss_pred HcCC
Q 037761 174 KNGM 177 (753)
Q Consensus 174 ~~g~ 177 (753)
+.|+
T Consensus 77 ~~~i 80 (289)
T cd01540 77 AYNM 80 (289)
T ss_pred hCCC
Confidence 8774
No 458
>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=55.93 E-value=66 Score=33.21 Aligned_cols=88 Identities=16% Similarity=0.177 Sum_probs=60.0
Q ss_pred eEEEEEEe----eCCcccchHHHHHHHHHhC-CeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHH
Q 037761 96 HEVVLMYE----DTNYGAGFISFLVDELQEN-DIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFA 170 (753)
Q Consensus 96 ~~vail~~----d~~~g~~~~~~~~~~~~~~-g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~ 170 (753)
++++++.. |..|.+...+.+.+..++. |+++...+..+. +..++...+..+.+.++|+|+..+..-. -.+..
T Consensus 2 ~~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~~~i~~~~~e~~~~--~~~~~~~~~~~~~~~g~dlIi~~g~~~~-~~~~~ 78 (306)
T PF02608_consen 2 KKVALLDPGGINDKGFNQSAYEGLKRAEKELDGIEIIYVENVPE--TDADYEEAIRQLADQGYDLIIGHGFEYS-DALQE 78 (306)
T ss_dssp EEEEEESSS-CCCSSHHHHHHHHHHHHHHHCTTEEEEEEES-S---TCHHHHHHHHHHHHTT-SEEEEESGGGH-HHHHH
T ss_pred eEEEEEECCCCCCccHHHHHHHHHHHHHHHcCCceEEEEecCCc--cHHHHHHHHHHHHHcCCCEEEEccHHHH-HHHHH
Confidence 46667663 5567778888899999999 999988887652 3568999999999999999999875432 23344
Q ss_pred HHHHcCCCCCCEEEEEcCcc
Q 037761 171 LVAKNGMMSKGYTWIVTACL 190 (753)
Q Consensus 171 ~a~~~g~~~~~~~wi~~~~~ 190 (753)
.|.+. ++..|+..++.
T Consensus 79 vA~~y----Pd~~F~~~d~~ 94 (306)
T PF02608_consen 79 VAKEY----PDTKFIIIDGY 94 (306)
T ss_dssp HHTC-----TTSEEEEESS-
T ss_pred HHHHC----CCCEEEEEecC
Confidence 44442 45566665543
No 459
>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=55.85 E-value=70 Score=29.44 Aligned_cols=65 Identities=14% Similarity=0.186 Sum_probs=45.9
Q ss_pred CeEEEEEEeeCCcc---cchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc-CCccEEEEEeC
Q 037761 95 WHEVVLMYEDTNYG---AGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST-MQTRVFIVHMN 161 (753)
Q Consensus 95 w~~vail~~d~~~g---~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~-~~~~vIi~~~~ 161 (753)
..++++|...|+-+ ......+...+++.|.++.....++++ ..++...+.+..+ .++|+|+..+.
T Consensus 4 ~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~Dd--~~~i~~~l~~~~~~~~~DlVIttGG 72 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVKDD--IYQIRAQVSAWIADPDVQVILITGG 72 (163)
T ss_pred ccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcCCC--HHHHHHHHHHHHhcCCCCEEEECCC
Confidence 45788887655432 233457788899999998888777754 5577778877643 57899988765
No 460
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=55.80 E-value=61 Score=33.89 Aligned_cols=79 Identities=6% Similarity=0.065 Sum_probs=57.2
Q ss_pred eEEEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHH-HHHHHHHH
Q 037761 96 HEVVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTAL-ASRLFALV 172 (753)
Q Consensus 96 ~~vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~-~~~~~~~a 172 (753)
.+|+++.. +++|.....+.+.+++++.|..+..... ..+.......+..+.+.++|.|++...... ....+..+
T Consensus 26 ~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l~i~~~---~~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l~~~ 102 (330)
T PRK10355 26 VKIGMAIDDLRLERWQKDRDIFVKKAESLGAKVFVQSA---NGNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVIKEA 102 (330)
T ss_pred ceEEEEecCCCchHHHHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHHHHH
Confidence 67888775 5778899999999999999998876532 123445667888888889999999865332 33456666
Q ss_pred HHcCC
Q 037761 173 AKNGM 177 (753)
Q Consensus 173 ~~~g~ 177 (753)
.+.|.
T Consensus 103 ~~~~i 107 (330)
T PRK10355 103 KQEGI 107 (330)
T ss_pred HHCCC
Confidence 66663
No 461
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=55.69 E-value=55 Score=29.70 Aligned_cols=98 Identities=11% Similarity=0.032 Sum_probs=59.5
Q ss_pred ecCcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccE
Q 037761 76 TQNDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRV 155 (753)
Q Consensus 76 ~p~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~v 155 (753)
.+.-..++..+++.+...+..--.|+.+.-.=..+.++.+.+.+.. ...+.....+.+..+..++...+..+.....+.
T Consensus 24 t~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l~~~~~~-~~~~~~~~~l~p~~~~~~~~~~l~~~~~~~~~~ 102 (152)
T TIGR00249 24 TTNGCDESRLVAQWLKGQGVEIERILVSPFVRAEQTAEIVGDCLNL-PSSAEVLEGLTPCGDIGLVSDYLEALTNEGVAS 102 (152)
T ss_pred CHHHHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHHcCC-CcceEEccCcCCCCCHHHHHHHHHHHHhcCCCE
Confidence 4445678888999887765543445555444444455555444321 123333334443334456667777776555678
Q ss_pred EEEEeChHHHHHHHHHHHH
Q 037761 156 FIVHMNTALASRLFALVAK 174 (753)
Q Consensus 156 Ii~~~~~~~~~~~~~~a~~ 174 (753)
|+++++.+....++..+..
T Consensus 103 vliVgH~P~i~~l~~~l~~ 121 (152)
T TIGR00249 103 VLLVSHLPLVGYLVAELCP 121 (152)
T ss_pred EEEEeCCCCHHHHHHHHhC
Confidence 8999999988888887753
No 462
>PRK10216 DNA-binding transcriptional regulator YidZ; Provisional
Probab=55.52 E-value=2.5e+02 Score=28.92 Aligned_cols=73 Identities=7% Similarity=-0.085 Sum_probs=43.4
Q ss_pred eeehHHHHHHHHHHHHhcCCccceEEEecCCCCCCCCCChHHHHHHHHcCcccEEEeeeeeecc-------cceeeeccc
Q 037761 409 GFCMEIFNATLEIVEEKLGMKIHPQLVPYEDENGEMAGTYDELLYQIKLKKFDAVVGDISIVAS-------RTDYVEFTL 481 (753)
Q Consensus 409 G~~~dll~~ia~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Di~~~~~~~t~~-------r~~~~~fs~ 481 (753)
.+..+++..+.+ ..- ++++.+... +. ..++.|.+|++|+++........ ....+ -+.
T Consensus 110 ~~~~~~l~~f~~----~~P-~v~v~i~~~---------~~-~~~~~l~~g~~D~~i~~~~~~~~~~~~~~~~~~~~-~~~ 173 (319)
T PRK10216 110 IMLNALSKRIYQ----RYP-QATIKLRNW---------DY-DSLDAITRGEVDIGFTGRESHPRSRELLSLLPLAI-DFE 173 (319)
T ss_pred HHHHHHHHHHHH----HCC-CCEEEEEeC---------Cc-chHHHHhcCCccEEEecCCCCcccccccccccccc-cee
Confidence 445677777766 543 356666543 22 46899999999999853211110 01112 235
Q ss_pred cccccceEEEEecccC
Q 037761 482 PYSESGVTMLVPVKRD 497 (753)
Q Consensus 482 p~~~~~~~~~v~~~~~ 497 (753)
+.+....++++++..+
T Consensus 174 ~l~~~~~~~v~~~~hp 189 (319)
T PRK10216 174 VLFSDLPCVWLRKDHP 189 (319)
T ss_pred eeeecceEEEEeCCCC
Confidence 5666778888887754
No 463
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=55.07 E-value=64 Score=33.47 Aligned_cols=80 Identities=10% Similarity=0.113 Sum_probs=52.2
Q ss_pred CeEEEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHH
Q 037761 95 WHEVVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALV 172 (753)
Q Consensus 95 w~~vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a 172 (753)
-+.|+++.. ++.|.....+.+.+.+++.|..+.....- .+.......+..+.+.++|.|++..........+.++
T Consensus 61 ~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l 137 (328)
T PRK11303 61 TRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLIACSD---DQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQRL 137 (328)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeCC---CCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHHHH
Confidence 357888875 35566778889999999999887654321 1223344567777778899999875422223455666
Q ss_pred HHcCC
Q 037761 173 AKNGM 177 (753)
Q Consensus 173 ~~~g~ 177 (753)
.+.|+
T Consensus 138 ~~~~i 142 (328)
T PRK11303 138 QNDGL 142 (328)
T ss_pred HhcCC
Confidence 66664
No 464
>PRK09701 D-allose transporter subunit; Provisional
Probab=55.06 E-value=1.2e+02 Score=31.34 Aligned_cols=85 Identities=12% Similarity=0.096 Sum_probs=57.7
Q ss_pred HcCCeEEEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH-HHHHH
Q 037761 92 NFSWHEVVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA-LASRL 168 (753)
Q Consensus 92 ~~~w~~vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~-~~~~~ 168 (753)
.+--..++++.. ++.|.....+.+.+++++.|..+..... +...+..+....+..+...++|.|++..... .....
T Consensus 21 ~~~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~v~~~~~-~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~ 99 (311)
T PRK09701 21 AFAAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFAS-PSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVMP 99 (311)
T ss_pred hccCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCeEEEecC-CCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHH
Confidence 344568999986 4668888899999999999988765421 1111233455677778888899999876533 23344
Q ss_pred HHHHHHcCC
Q 037761 169 FALVAKNGM 177 (753)
Q Consensus 169 ~~~a~~~g~ 177 (753)
+.++.+.|+
T Consensus 100 l~~~~~~gi 108 (311)
T PRK09701 100 VARAWKKGI 108 (311)
T ss_pred HHHHHHCCC
Confidence 566677664
No 465
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=54.80 E-value=1.2e+02 Score=29.16 Aligned_cols=98 Identities=12% Similarity=0.128 Sum_probs=59.2
Q ss_pred HHHHHHHHHHHcCCeEEEEEEeeCCcc--cchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEE
Q 037761 82 QVKAISAVLQNFSWHEVVLMYEDTNYG--AGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVH 159 (753)
Q Consensus 82 ~~~a~~~~l~~~~w~~vail~~d~~~g--~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~ 159 (753)
.-.-+.+.++.. -++|+.|-.-+.-. ..+.+.+++.+++.|..+........ +..++...|. ++|+|++.
T Consensus 20 ~~~~i~n~l~g~-~~~i~FIPtAs~~~~~~~Yv~k~~~~l~~lg~~v~~L~l~~~--~~~~Ie~~l~-----~~d~IyVg 91 (224)
T COG3340 20 FLPFIANFLQGK-RKTIAFIPTASVDSEDDFYVEKVRNALAKLGLEVSELHLSKP--PLAAIENKLM-----KADIIYVG 91 (224)
T ss_pred hhHHHHHHhcCC-CceEEEEecCccccchHHHHHHHHHHHHHcCCeeeeeeccCC--CHHHHHHhhh-----hccEEEEC
Confidence 334455555443 36888877532222 34788899999999998876654432 2333333332 36887776
Q ss_pred eChHHHHHHHHHHHHcCCCC-------CCEEEEEcCc
Q 037761 160 MNTALASRLFALVAKNGMMS-------KGYTWIVTAC 189 (753)
Q Consensus 160 ~~~~~~~~~~~~a~~~g~~~-------~~~~wi~~~~ 189 (753)
+- .+..++++.++.|+.. .+.++|+.+.
T Consensus 92 GG--NTF~LL~~lke~gld~iIr~~vk~G~~YiG~SA 126 (224)
T COG3340 92 GG--NTFNLLQELKETGLDDIIRERVKAGTPYIGWSA 126 (224)
T ss_pred Cc--hHHHHHHHHHHhCcHHHHHHHHHcCCceEEecc
Confidence 44 3577888888877631 3456666554
No 466
>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=54.59 E-value=82 Score=31.39 Aligned_cols=76 Identities=9% Similarity=0.020 Sum_probs=51.7
Q ss_pred EEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHHc
Q 037761 98 VVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAKN 175 (753)
Q Consensus 98 vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~~ 175 (753)
++++.. ++.|.....+.+.+.+++.|..+..... ..+...-...++.+.+.++|.|++.+..... ..++++.+.
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~---~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~~~ 77 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHLIITAG---HHSAEKEREAIEFLLERRCDALILHSKALSD-DELIELAAQ 77 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEEEEEeC---CCchHHHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHhhC
Confidence 455554 4678888899999999999988765432 1123345567777778899999998653222 226677776
Q ss_pred CC
Q 037761 176 GM 177 (753)
Q Consensus 176 g~ 177 (753)
|.
T Consensus 78 ~i 79 (268)
T cd06270 78 VP 79 (268)
T ss_pred CC
Confidence 64
No 467
>cd08172 GlyDH-like1 Glycerol dehydrogenases-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=54.51 E-value=1e+02 Score=32.58 Aligned_cols=83 Identities=11% Similarity=0.135 Sum_probs=54.5
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA 163 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~ 163 (753)
..+.++++.++ +++.|+++...+ ....+.+.+.+++.++.+...... .+..+....+..+++.++|+|+-.|.+.
T Consensus 13 ~~l~~~~~~~~-~~~liv~d~~~~-~~~~~~l~~~L~~~~~~~~~~~~~---p~~~~v~~~~~~~~~~~~D~iIavGGGs 87 (347)
T cd08172 13 DELGELLKRFG-KRPLIVTGPRSW-AAAKPYLPESLAAGEAFVLRYDGE---CSEENIERLAAQAKENGADVIIGIGGGK 87 (347)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHH-HHHHHHHHHHHhcCeEEEEEeCCC---CCHHHHHHHHHHHHhcCCCEEEEeCCcH
Confidence 34556676665 888888865554 346667777776566544322222 3466788888888889999999887655
Q ss_pred --HHHHHHHH
Q 037761 164 --LASRLFAL 171 (753)
Q Consensus 164 --~~~~~~~~ 171 (753)
|+..++..
T Consensus 88 ~~D~aK~ia~ 97 (347)
T cd08172 88 VLDTAKAVAD 97 (347)
T ss_pred HHHHHHHHHH
Confidence 55555543
No 468
>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=54.50 E-value=58 Score=29.24 Aligned_cols=49 Identities=18% Similarity=0.232 Sum_probs=37.0
Q ss_pred chHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 110 GFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 110 ~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
.....+...+++.|.++.....++++ ..++...+.++.+ ++|+|+..+.
T Consensus 27 ~n~~~l~~~l~~~G~~v~~~~~v~Dd--~~~i~~~l~~~~~-~~DliIttGG 75 (144)
T TIGR00177 27 SNGPLLAALLEEAGFNVSRLGIVPDD--PEEIREILRKAVD-EADVVLTTGG 75 (144)
T ss_pred CcHHHHHHHHHHCCCeEEEEeecCCC--HHHHHHHHHHHHh-CCCEEEECCC
Confidence 34567888899999998888777654 5577777777654 6899998764
No 469
>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=54.22 E-value=30 Score=33.93 Aligned_cols=116 Identities=13% Similarity=0.118 Sum_probs=70.2
Q ss_pred CCccEEeecC-CCCCCCCCCCCceEEEecCcHHHHHHHHHHHH-HcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEE
Q 037761 50 AQVPIISFFE-TSPALSPTEHPFFIRVTQNDSLQVKAISAVLQ-NFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRIS 127 (753)
Q Consensus 50 ~~vP~is~~a-~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~-~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~ 127 (753)
.++++++.|. ++..+...+++-. ..|.....++.+++.+. ...-+++.++..+. ....+.+.+++.|..+.
T Consensus 72 ~~~~i~avG~~Ta~~l~~~G~~~~--~~~~~~~~s~~L~~~l~~~~~~~~vl~~~g~~-----~~~~l~~~L~~~g~~v~ 144 (231)
T PF02602_consen 72 KNIKIFAVGPKTAEALREYGFQPD--FVPSSEGSSEGLAELLKEQLRGKRVLILRGEG-----GRPDLPEKLREAGIEVT 144 (231)
T ss_dssp HHSEEEESSHHHHHHHHHTT-EEC--EE-TTSSSHHHHHGGHHHCCTTEEEEEEESSS-----SCHHHHHHHHHTTEEEE
T ss_pred cCCeEEEEcHHHHHHHHHcCCCcc--ccCCCCCCHHHHHHHHHhhCCCCeEEEEcCCC-----ccHHHHHHHHHCCCeEE
Confidence 3566666543 2333333231111 15665667788888776 44447877766433 34678899999999998
Q ss_pred EeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHH
Q 037761 128 HMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAK 174 (753)
Q Consensus 128 ~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~ 174 (753)
....|.. .....-......+.....++| ++.++..+..++..+.+
T Consensus 145 ~~~vY~~-~~~~~~~~~~~~l~~~~~~~v-~ftS~~~~~~~~~~~~~ 189 (231)
T PF02602_consen 145 EVIVYET-PPEELSPELKEALDRGEIDAV-VFTSPSAVRAFLELLKK 189 (231)
T ss_dssp EEECEEE-EEHHHHHHHHHHHHHTTTSEE-EESSHHHHHHHHHHSSG
T ss_pred EEEEeec-ccccchHHHHHHHHcCCCCEE-EECCHHHHHHHHHHhHh
Confidence 8877764 333344445566666677755 45566667777776654
No 470
>cd08195 DHQS Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway, which involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds, is found in bacteria, microbial eukaryotes, and plants, but not in mammals. Therefore, enzymes of this pathway are attractive targets for the development of non-toxic antimicrobial compounds, herbicides and anti-parasitic agents. The activity of DHQS requires nicotinamide adenine dinucleotide (NAD) as cofactor. A single active site in DHQS catalyzes five sequential reactions involving alcohol oxidation, phosphate elimination, carbonyl reduction, ring opening, and intramolecular aldol
Probab=54.06 E-value=1.8e+02 Score=30.58 Aligned_cols=91 Identities=10% Similarity=0.068 Sum_probs=57.9
Q ss_pred HHHHHHHH-cCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEee--ccCCCCchhhHHHHHHHHhcCCc---cEEEE
Q 037761 85 AISAVLQN-FSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMS--KIPTSAEDFQISKELSKLSTMQT---RVFIV 158 (753)
Q Consensus 85 a~~~~l~~-~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~--~~~~~~~~~d~~~~l~~l~~~~~---~vIi~ 158 (753)
.+.+++.. .+.+++.|+++...+ ....+.+.+.+++.|+.+.... ....+.+.......+..+++.++ |+|+.
T Consensus 13 ~l~~~~~~~~~~~~~livtd~~~~-~~~~~~l~~~L~~~g~~~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIa 91 (345)
T cd08195 13 ELGELLAKLPKGSKILIVTDENVA-PLYLEKLKAALEAAGFEVEVIVIPAGEASKSLETLEKLYDALLEAGLDRKSLIIA 91 (345)
T ss_pred HHHHHHHhccCCCeEEEEECCchH-HHHHHHHHHHHHhcCCceEEEEeCCCCCcCCHHHHHHHHHHHHHcCCCCCCeEEE
Confidence 34444433 355888888855444 3677888899998886654221 12223345677778888887666 88888
Q ss_pred EeChH--HHHHHHHHHHHcC
Q 037761 159 HMNTA--LASRLFALVAKNG 176 (753)
Q Consensus 159 ~~~~~--~~~~~~~~a~~~g 176 (753)
.|.+. |+..++......|
T Consensus 92 iGGGsv~D~ak~vA~~~~rg 111 (345)
T cd08195 92 LGGGVVGDLAGFVAATYMRG 111 (345)
T ss_pred ECChHHHhHHHHHHHHHhcC
Confidence 87654 6677776545545
No 471
>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=53.85 E-value=58 Score=28.72 Aligned_cols=62 Identities=13% Similarity=0.090 Sum_probs=41.6
Q ss_pred EEEEEEeeCCc--c---cchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 97 EVVLMYEDTNY--G---AGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 97 ~vail~~d~~~--g---~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
+++|+...++- | ......+...+++.|.++.....++++ ...+.+.+.+..+. +|+|+..+-
T Consensus 1 ~v~ii~~G~El~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~Dd--~~~i~~~i~~~~~~-~DlvittGG 67 (133)
T cd00758 1 RVAIVTVSDELSQGQIEDTNGPALEALLEDLGCEVIYAGVVPDD--ADSIRAALIEASRE-ADLVLTTGG 67 (133)
T ss_pred CEEEEEeCccccCCceEEchHHHHHHHHHHCCCEEEEeeecCCC--HHHHHHHHHHHHhc-CCEEEECCC
Confidence 35566554431 2 334567888899999988777666543 55777788777654 899998754
No 472
>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=53.72 E-value=56 Score=32.56 Aligned_cols=76 Identities=14% Similarity=0.068 Sum_probs=51.4
Q ss_pred EEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHHc
Q 037761 98 VVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAKN 175 (753)
Q Consensus 98 vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~~ 175 (753)
|+++.. ++.|.....+.+.+++++.|..+.... ...+.......++.+.+.++|.|++.+.... ...++.+.+.
T Consensus 2 i~vv~p~~~~~~~~~~~~~i~~~~~~~g~~~~~~~---~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~l~~~ 77 (268)
T cd06273 2 IGAIVPTLDNAIFARVIQAFQETLAAHGYTLLVAS---SGYDLDREYAQARKLLERGVDGLALIGLDHS-PALLDLLARR 77 (268)
T ss_pred eEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEec---CCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHHhC
Confidence 566665 466778888999999999998876532 2223445566778888888999888754322 2445566666
Q ss_pred CC
Q 037761 176 GM 177 (753)
Q Consensus 176 g~ 177 (753)
|.
T Consensus 78 ~i 79 (268)
T cd06273 78 GV 79 (268)
T ss_pred CC
Confidence 64
No 473
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=53.62 E-value=54 Score=32.88 Aligned_cols=80 Identities=4% Similarity=-0.004 Sum_probs=52.3
Q ss_pred EEEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh-HHHHHHHHHHH
Q 037761 97 EVVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT-ALASRLFALVA 173 (753)
Q Consensus 97 ~vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~-~~~~~~~~~a~ 173 (753)
+++++.. +++|.....+.+.+++++.|..+.....-. ..+...-...+.++...++|.|++.... ......++.+.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~~~ 79 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKLGVSVDIQAAPS-EGDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVERAK 79 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHhCCeEEEEccCC-CCCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHHHH
Confidence 4667765 456777888899999999998876543211 1123344566777777889998876543 33344567777
Q ss_pred HcCC
Q 037761 174 KNGM 177 (753)
Q Consensus 174 ~~g~ 177 (753)
+.|.
T Consensus 80 ~~~i 83 (275)
T cd06320 80 KKGI 83 (275)
T ss_pred HCCC
Confidence 7664
No 474
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=53.59 E-value=53 Score=32.79 Aligned_cols=76 Identities=11% Similarity=0.107 Sum_probs=52.1
Q ss_pred EEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHHHHHHHHHHHHc
Q 037761 98 VVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTALASRLFALVAKN 175 (753)
Q Consensus 98 vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~~~~~~~~a~~~ 175 (753)
++++.. ++.|.....+.+.+.+++.|.++.....- .+.......++.+.+.++|.|++....... ..++.+.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~~~ 77 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAAGYDVVLSESG---RRTSPERQWVERLSARRTDGVILVTPELTS-AQRAALRRT 77 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHcCCeEEEecCC---CchHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHhcC
Confidence 566664 46788899999999999999887655332 123355567788888899998876543222 346666666
Q ss_pred CC
Q 037761 176 GM 177 (753)
Q Consensus 176 g~ 177 (753)
+.
T Consensus 78 ~i 79 (270)
T cd06296 78 GI 79 (270)
T ss_pred CC
Confidence 63
No 475
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.51 E-value=1.7e+02 Score=30.92 Aligned_cols=104 Identities=13% Similarity=0.180 Sum_probs=65.6
Q ss_pred CCCCceEEEec----CcHHHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHH
Q 037761 67 TEHPFFIRVTQ----NDSLQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQIS 142 (753)
Q Consensus 67 ~~~~~~fr~~p----~~~~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~ 142 (753)
.+-|+++-++- .-+.-..-++-++++.|| ++++++.| .|-.+..+.+++-+.+.++.+... ++..-...=..
T Consensus 98 K~kpsVimfVGLqG~GKTTtc~KlA~y~kkkG~-K~~LvcaD-TFRagAfDQLkqnA~k~~iP~ygs--yte~dpv~ia~ 173 (483)
T KOG0780|consen 98 KGKPSVIMFVGLQGSGKTTTCTKLAYYYKKKGY-KVALVCAD-TFRAGAFDQLKQNATKARVPFYGS--YTEADPVKIAS 173 (483)
T ss_pred cCCCcEEEEEeccCCCcceeHHHHHHHHHhcCC-ceeEEeec-ccccchHHHHHHHhHhhCCeeEec--ccccchHHHHH
Confidence 44566665542 222334556667777787 56677754 466677888888888888877543 33211122333
Q ss_pred HHHHHHhcCCccEEEEEeChH--HHHHHHHHHHH
Q 037761 143 KELSKLSTMQTRVFIVHMNTA--LASRLFALVAK 174 (753)
Q Consensus 143 ~~l~~l~~~~~~vIi~~~~~~--~~~~~~~~a~~ 174 (753)
.-+.+.|+.+.|+||+-.++. +-..++.++++
T Consensus 174 egv~~fKke~fdvIIvDTSGRh~qe~sLfeEM~~ 207 (483)
T KOG0780|consen 174 EGVDRFKKENFDVIIVDTSGRHKQEASLFEEMKQ 207 (483)
T ss_pred HHHHHHHhcCCcEEEEeCCCchhhhHHHHHHHHH
Confidence 466788889999999998865 34446666665
No 476
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=53.36 E-value=2.1e+02 Score=27.25 Aligned_cols=129 Identities=12% Similarity=0.091 Sum_probs=66.1
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEc--CCC-------CCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcH
Q 037761 10 FKDCGKLILAVDLLKKFQVQAIIG--PQI-------PAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDS 80 (753)
Q Consensus 10 ~~~~~a~~~a~~Li~~~~V~aviG--~~~-------s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~ 80 (753)
-|...|+..+.+. ..+|.+++- |.. ......+..+++..++|++...... +..
T Consensus 10 kDS~~al~~a~~~--G~~v~~l~~~~~~~~~~~~~h~~~~e~~~~~A~~lgipl~~i~~~~----------------~~e 71 (194)
T cd01994 10 KDSCYALYRALEE--GHEVVALLNLTPEEGSSMMYHTVNHELLELQAEAMGIPLIRIEISG----------------EEE 71 (194)
T ss_pred HHHHHHHHHHHHc--CCEEEEEEEEecCCCCcccccccCHHHHHHHHHHcCCcEEEEeCCC----------------Cch
Confidence 3445555555552 335665552 111 1134456667778888876543210 112
Q ss_pred HHHHHHHHHHHHcCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe
Q 037761 81 LQVKAISAVLQNFSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM 160 (753)
Q Consensus 81 ~~~~a~~~~l~~~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~ 160 (753)
.+...+.+.++...-+.+-.+..-+.+.......+...+++.|+....... . .+-...+..+.+.+-++|++..
T Consensus 72 ~~~~~l~~~l~~~~~~g~~~vv~G~i~sd~~~~~~e~~~~~~gl~~~~PLW---~---~~~~~ll~e~~~~g~~~~iv~v 145 (194)
T cd01994 72 DEVEDLKELLRKLKEEGVDAVVFGAILSEYQRTRVERVCERLGLEPLAPLW---G---RDQEELLREMIEAGFKAIIIKV 145 (194)
T ss_pred HHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHHHHHHcCCEEEeccc---C---CCHHHHHHHHHHcCCeEEEEEe
Confidence 222444444433221112233333444445667777777888877655543 1 2344567777777777777665
Q ss_pred Ch
Q 037761 161 NT 162 (753)
Q Consensus 161 ~~ 162 (753)
..
T Consensus 146 ~~ 147 (194)
T cd01994 146 AA 147 (194)
T ss_pred cc
Confidence 43
No 477
>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=53.25 E-value=1.6e+02 Score=25.87 Aligned_cols=70 Identities=9% Similarity=0.032 Sum_probs=47.4
Q ss_pred hHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC----hHHHHHHHHHHHHcCCCCCCEEEEE
Q 037761 111 FISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN----TALASRLFALVAKNGMMSKGYTWIV 186 (753)
Q Consensus 111 ~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~----~~~~~~~~~~a~~~g~~~~~~~wi~ 186 (753)
..+.+...++.+|.+|..--.. .....+++.+++.+||+|.+.+- ......++.++++.|+. +..++.
T Consensus 15 Gkniv~~~L~~~GfeVidLG~~------v~~e~~v~aa~~~~adiVglS~L~t~~~~~~~~~~~~l~~~gl~--~v~viv 86 (128)
T cd02072 15 GNKILDHAFTEAGFNVVNLGVL------SPQEEFIDAAIETDADAILVSSLYGHGEIDCKGLREKCDEAGLK--DILLYV 86 (128)
T ss_pred HHHHHHHHHHHCCCEEEECCCC------CCHHHHHHHHHHcCCCEEEEeccccCCHHHHHHHHHHHHHCCCC--CCeEEE
Confidence 4466777889999998755331 13345677777889999988653 44677788888898873 344444
Q ss_pred cC
Q 037761 187 TA 188 (753)
Q Consensus 187 ~~ 188 (753)
++
T Consensus 87 GG 88 (128)
T cd02072 87 GG 88 (128)
T ss_pred EC
Confidence 43
No 478
>COG1732 OpuBC Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]
Probab=53.19 E-value=77 Score=32.16 Aligned_cols=116 Identities=16% Similarity=0.133 Sum_probs=67.5
Q ss_pred CcCChhHhhhcC--CeEEEecC----chHHHHHHHhhCCCCCc-eecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHH
Q 037761 557 TFADLKKLRTES--HFVGFQSG----SFVEDFLVKQLNFSRNQ-TRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVF 629 (753)
Q Consensus 557 ~i~s~~dL~~~~--~~~~~~~~----~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~ 629 (753)
.|+|+.||.+.- .+.|+... .--..-|++.+++...+ ++.++. .-..+++.+|. +|+...-....+-
T Consensus 151 ~i~TiSDLak~~~~l~~g~~~eF~~R~DG~~~l~k~Yg~~~~~~~~~m~~-gl~y~Al~~g~----~d~~~~YsTDg~I- 224 (300)
T COG1732 151 NLETISDLAKHSNQLKLGADSEFAERADGLPALQKAYGFDFKPDLRTMDG-GLTYQALKNGT----VDAADAYSTDGRI- 224 (300)
T ss_pred CCccHHHHHHhhhhceecCChhhhccccccHHHHHHhCCccCCCceecCc-hHHHHHHHcCC----CCeEeeccccccc-
Confidence 499999997543 24443210 11112334455554433 444433 36688999998 8877654433321
Q ss_pred HhcCCCCcEEeCc---ccccCceEEEEc----CCCC-CchHhHHHHHHhhhcchHHHHHHHh
Q 037761 630 LKKYSSKYTTAGP---IYRTDGLGFAFA----KDSP-LVSHFSQAILLVRENQTRMDRIEKK 683 (753)
Q Consensus 630 ~~~~~~~l~~~~~---~~~~~~~~~~~~----k~s~-l~~~~n~~i~~l~~~G~~~~~~~~~ 683 (753)
.. .+|.++.. .+.++..+-.++ |..| +.+.+|....++..+. |+++--+
T Consensus 225 -~~--~~L~VLkDDK~~fP~Y~~apvvre~vlk~~Pel~~~l~~l~~kid~~t--Mq~LNy~ 281 (300)
T COG1732 225 -AA--YGLKVLKDDKGFFPPYQAAPVVREEVLKKHPELKTILNKLSGKIDTET--MQALNYR 281 (300)
T ss_pred -cc--cCcEEEecCCcCCCCCcccceecHHHHhHCHHHHHHHHHHhccCCHHH--HHHHHHH
Confidence 11 26777754 344555555565 4577 8999999888888887 6665444
No 479
>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=53.06 E-value=57 Score=32.62 Aligned_cols=77 Identities=6% Similarity=0.107 Sum_probs=52.3
Q ss_pred EEEEEe---eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHH-HHHHHHHHH
Q 037761 98 VVLMYE---DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTAL-ASRLFALVA 173 (753)
Q Consensus 98 vail~~---d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~-~~~~~~~a~ 173 (753)
|++|.. +++|.....+.+...+++.|..+..... ..+.......+..+...++|.|++.....+ ....++++.
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~---~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~~~ 78 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVEVIVLDA---NGDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRKAK 78 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCEEEEEcC---CcCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHHHH
Confidence 456664 3568888899999999999988765432 223344556677777788999988764332 345667777
Q ss_pred HcCC
Q 037761 174 KNGM 177 (753)
Q Consensus 174 ~~g~ 177 (753)
+.|.
T Consensus 79 ~~~i 82 (275)
T cd06317 79 QAGI 82 (275)
T ss_pred HCCC
Confidence 7664
No 480
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=52.99 E-value=1.4e+02 Score=29.99 Aligned_cols=43 Identities=26% Similarity=0.333 Sum_probs=34.8
Q ss_pred HHHHHHHHHHhcCCeEEEEcCCCCCcHHHHHHhhccCCccEEee
Q 037761 14 GKLILAVDLLKKFQVQAIIGPQIPAAAPFLVELGEKAQVPIISF 57 (753)
Q Consensus 14 ~a~~~a~~Li~~~~V~aviG~~~s~~~~av~~i~~~~~vP~is~ 57 (753)
...+.+..|+++ ++.++|=.-.++++.|+..+=+++.+|+|..
T Consensus 55 ~~~~i~~~l~~~-~ik~lVIACNTASa~al~~LR~~~~iPVvGv 97 (269)
T COG0796 55 RTLEIVDFLLER-GIKALVIACNTASAVALEDLREKFDIPVVGV 97 (269)
T ss_pred HHHHHHHHHHHc-CCCEEEEecchHHHHHHHHHHHhCCCCEEEe
Confidence 445555666666 5999999888999999999999999999985
No 481
>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=52.82 E-value=78 Score=31.97 Aligned_cols=79 Identities=9% Similarity=0.089 Sum_probs=54.0
Q ss_pred eEEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHH-HHHHHHHH
Q 037761 96 HEVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTAL-ASRLFALV 172 (753)
Q Consensus 96 ~~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~-~~~~~~~a 172 (753)
++|+++..+ +.|.....+.+.+.+++.|..+..... ..+.......+..+...++|.|++.....+ ....+..+
T Consensus 1 ~~ig~i~~~~~~~~~~~~~~gi~~~a~~~gy~~~~~~~---~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~~~ 77 (280)
T cd06315 1 KNIIFVASDLKNGGILGVGEGVREAAKAIGWNLRILDG---RGSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELELA 77 (280)
T ss_pred CeEEEEecccCCcHHHHHHHHHHHHHHHcCcEEEEECC---CCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHHH
Confidence 467777764 567778889999999999988765422 223445567888888889999999865322 23445666
Q ss_pred HHcCC
Q 037761 173 AKNGM 177 (753)
Q Consensus 173 ~~~g~ 177 (753)
.+.|+
T Consensus 78 ~~~~i 82 (280)
T cd06315 78 QKAGI 82 (280)
T ss_pred HHCCC
Confidence 66664
No 482
>PRK00072 hemC porphobilinogen deaminase; Reviewed
Probab=52.75 E-value=2e+02 Score=29.34 Aligned_cols=64 Identities=23% Similarity=0.250 Sum_probs=42.1
Q ss_pred cCChhHhhhcCCeEEEecCchHHHHHHHhhCCCCCceecC-CCHHHHHHHHhcCCCCCCeeEEEeccccHHHH
Q 037761 558 FADLKKLRTESHFVGFQSGSFVEDFLVKQLNFSRNQTRPL-SNFGEYKEALSNGSRKGGVSAIFEEIPYIKVF 629 (753)
Q Consensus 558 i~s~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~ 629 (753)
-.+++||. .|.+||..+--- ...+++ ..|+.++..+ .+.+.-+..|.+|+ .|+++....-+..+
T Consensus 112 ~~~l~~Lp-~ga~IGTsS~RR-~aql~~--~~Pdl~~~~iRGNV~TRL~KL~~g~----~DaivLA~AGL~RL 176 (295)
T PRK00072 112 YKSLDDLP-EGAVVGTSSLRR-QAQLLA--LRPDLEIKPLRGNVDTRLRKLDEGE----YDAIILAAAGLKRL 176 (295)
T ss_pred CCChhHCC-CCCEEecCcHHH-HHHHHH--HCcCCEEEECccCHHHHHHHhhCCC----CCEeehHhhHHHHc
Confidence 36788885 566777532222 223332 5666666655 47788899999998 99999876655543
No 483
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=52.68 E-value=2.7e+02 Score=28.45 Aligned_cols=164 Identities=16% Similarity=0.178 Sum_probs=92.4
Q ss_pred CCChHHHHHHHHHHHhcCCeEE-EEcCCCCCcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEe--cCcHHHHHH
Q 037761 9 QFKDCGKLILAVDLLKKFQVQA-IIGPQIPAAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVT--QNDSLQVKA 85 (753)
Q Consensus 9 ~~~~~~a~~~a~~Li~~~~V~a-viG~~~s~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~--p~~~~~~~a 85 (753)
+.+...=+.....++.+ ++.+ ||++..+.+...+...+...+||+|+|. ..+.+....|+..+- ---..|+.+
T Consensus 64 ~~~~~~Q~~qien~i~q-g~~vlvi~a~d~~~l~~~i~~A~~~gikViaYD---RlI~n~dvd~YvsFDN~~VG~lQa~~ 139 (341)
T COG4213 64 DGDEEKQLAQIENMINQ-GVKVLVIGAIDGGVLSNAVEKAKSEGIKVIAYD---RLINNADVDFYVSFDNEKVGELQAKA 139 (341)
T ss_pred ccChhHHHHHHHHHHhc-CCCEEEEEeccchhHHHHHHHHHHcCCeEEEee---cccccCCccEEEEecchhHHHHHHHH
Confidence 45666667778888988 6655 6799999999999999999999999984 444443333333221 112335555
Q ss_pred HHHHHHHcC---CeEEEEEEe--eCC----cccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc---CCc
Q 037761 86 ISAVLQNFS---WHEVVLMYE--DTN----YGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST---MQT 153 (753)
Q Consensus 86 ~~~~l~~~~---w~~vail~~--d~~----~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~---~~~ 153 (753)
+++.++.-. -..+.++.- +|. +-.+..+-+...+..-.+.++.....+ .-..+.-...+..+.. .+.
T Consensus 140 l~~~lk~k~~~~~gn~~l~~GSp~DnNA~lf~~G~m~VLkp~idsGkik~~Ge~~~d-~W~ps~Aq~~men~lta~~~~v 218 (341)
T COG4213 140 LVKGLKLKPLTSEGNYVLLGGSPDDNNAKLFFAGAMKVLKPLIDSGKIKVVGEQWTD-GWLPSNAQQIMENLLTANYNDI 218 (341)
T ss_pred HHHHhccCCCCCCCCEEEecCCCCCcchHHHHhcHHHHHHHHhhCCceEEeeecccc-ccCHHHHHHHHHHHHhcccCce
Confidence 555553322 223444442 111 112233334444444445664444333 3333344444444442 334
Q ss_pred cEEEEEeChHHHHHHHHHHHHcCCC
Q 037761 154 RVFIVHMNTALASRLFALVAKNGMM 178 (753)
Q Consensus 154 ~vIi~~~~~~~~~~~~~~a~~~g~~ 178 (753)
|.|+..-+ ..+...+..+...|+.
T Consensus 219 daVvA~nD-gtagGaI~aL~a~Gl~ 242 (341)
T COG4213 219 DAVVAPND-GTAGGAIAALKAQGLA 242 (341)
T ss_pred eEEEcCCC-chhHHHHHHHHhcccC
Confidence 55554444 3456678888889985
No 484
>PRK15138 aldehyde reductase; Provisional
Probab=52.47 E-value=93 Score=33.40 Aligned_cols=84 Identities=10% Similarity=0.198 Sum_probs=53.7
Q ss_pred HHHHHHHHHcCCeEEEEEEeeCCc-ccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh
Q 037761 84 KAISAVLQNFSWHEVVLMYEDTNY-GAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT 162 (753)
Q Consensus 84 ~a~~~~l~~~~w~~vail~~d~~~-g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~ 162 (753)
..+.++++. + +++.|++.+..+ ..+..+.+.+.++ |+.+.....+.++.+..+........++.++|+|+-.|-+
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 334455555 4 788777754332 2345566777775 5555444344445566788888888899999999987765
Q ss_pred H--HHHHHHHH
Q 037761 163 A--LASRLFAL 171 (753)
Q Consensus 163 ~--~~~~~~~~ 171 (753)
. |+...+..
T Consensus 96 S~iD~AK~ia~ 106 (387)
T PRK15138 96 SVLDGTKFIAA 106 (387)
T ss_pred HHHHHHHHHHH
Confidence 4 55555543
No 485
>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=52.02 E-value=58 Score=32.38 Aligned_cols=77 Identities=9% Similarity=0.104 Sum_probs=52.5
Q ss_pred EEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH-HHHHHHHHHHH
Q 037761 98 VVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA-LASRLFALVAK 174 (753)
Q Consensus 98 vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~-~~~~~~~~a~~ 174 (753)
|+++.. ++.|.....+.+.+.+++.|..+..... ..+..+....+.++.+.++|.|++..... .....++++.+
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~~---~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l~~ 78 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKELGYELTVLDA---QNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAANE 78 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHcCceEEecCC---CCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHH
Confidence 455554 4668888889999999999988765322 22344566778888888899988865433 23456677777
Q ss_pred cCC
Q 037761 175 NGM 177 (753)
Q Consensus 175 ~g~ 177 (753)
.|.
T Consensus 79 ~~i 81 (268)
T cd06323 79 AGI 81 (268)
T ss_pred CCC
Confidence 664
No 486
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=51.41 E-value=1.3e+02 Score=28.20 Aligned_cols=95 Identities=14% Similarity=0.148 Sum_probs=50.6
Q ss_pred CCeEEEEcCCCCCcHHHHHHhhccCC--ccE-EeecCCCCCCCC-CCCCceEEEecCcHHHHHHHHHHHHHcCCeEEEEE
Q 037761 26 FQVQAIIGPQIPAAAPFLVELGEKAQ--VPI-ISFFETSPALSP-TEHPFFIRVTQNDSLQVKAISAVLQNFSWHEVVLM 101 (753)
Q Consensus 26 ~~V~aviG~~~s~~~~av~~i~~~~~--vP~-is~~a~~~~l~~-~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~~vail 101 (753)
.++.+++||.+|+-..-+..++.... ++. +++....+.-.+ .+-.|.|- . ......+. +.-..=..+-
T Consensus 2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~TTR~~r~~E~~g~~y~fv--s--~~~f~~~~---~~~~fie~~~- 73 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHTTRPPRPGEVDGVDYHFV--S--KEEFERMI---KAGEFIEYGE- 73 (183)
T ss_dssp SSEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEESS-GGTTS-TTTSEEE------HHHHHHHH---HTTHEEEEEE-
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhcccccccceeecccCCcccccCCcceEEE--e--echhhhhh---ccccEEEEee-
Confidence 37889999999998887777776543 433 344333334333 34455553 1 11222222 1111101111
Q ss_pred EeeCCcccchHHHHHHHHHhCCeEEEEe
Q 037761 102 YEDTNYGAGFISFLVDELQENDIRISHM 129 (753)
Q Consensus 102 ~~d~~~g~~~~~~~~~~~~~~g~~v~~~ 129 (753)
+.++.||.. .+.+.+.+++...|+...
T Consensus 74 ~~g~~YGt~-~~~i~~~~~~gk~~il~~ 100 (183)
T PF00625_consen 74 YDGNYYGTS-KSAIDKVLEEGKHCILDV 100 (183)
T ss_dssp ETTEEEEEE-HHHHHHHHHTTTEEEEEE
T ss_pred ecchhhhhc-cchhhHhhhcCCcEEEEc
Confidence 334567754 467888888877776543
No 487
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=51.21 E-value=1.1e+02 Score=35.55 Aligned_cols=91 Identities=13% Similarity=0.189 Sum_probs=55.4
Q ss_pred CcHHHHHHHHHHHHH----cCCeEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhH--HHHHHHHhcC
Q 037761 78 NDSLQVKAISAVLQN----FSWHEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQI--SKELSKLSTM 151 (753)
Q Consensus 78 ~~~~~~~a~~~~l~~----~~w~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~--~~~l~~l~~~ 151 (753)
+..+.++.+++++.. ..-++|.++. |....+.+.+.+.+.|..|.....|.......+. ...+..+...
T Consensus 118 ~~~~~se~Ll~~l~~~~~~~~g~rVLi~r-----G~~gr~~L~~~L~~~Ga~V~~v~vY~~~~~~~~~~~~~~~~~~l~~ 192 (656)
T PRK06975 118 EARYDSEALFAEIDAAFGALAGKRVLIVR-----GDGGREWLAERLREAGAEVELVEAYRRVVPEPSIGAWERVHALLSG 192 (656)
T ss_pred CCccchHHHHHhHHHhccCCCCCEEEEEc-----CCCCcHHHHHHHHHCCCEEEEEeEEEeeCCCcchhHHHHHHHHHhC
Confidence 455667888887743 3456777765 3345567889999999988776666421111111 1223333344
Q ss_pred CccEEEEEeChHHHHHHHHHHHH
Q 037761 152 QTRVFIVHMNTALASRLFALVAK 174 (753)
Q Consensus 152 ~~~vIi~~~~~~~~~~~~~~a~~ 174 (753)
+.++|+ +.++..+..|+..+.+
T Consensus 193 ~idav~-fTS~s~v~~f~~la~~ 214 (656)
T PRK06975 193 APHAWL-LTSSEAVRNLDELARA 214 (656)
T ss_pred CCcEEE-ECCHHHHHHHHHHHHh
Confidence 567554 6677778888876543
No 488
>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=50.99 E-value=78 Score=28.70 Aligned_cols=63 Identities=13% Similarity=0.140 Sum_probs=43.1
Q ss_pred EEEEEEeeCC--ccc---chHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhc-CCccEEEEEeC
Q 037761 97 EVVLMYEDTN--YGA---GFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLST-MQTRVFIVHMN 161 (753)
Q Consensus 97 ~vail~~d~~--~g~---~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~-~~~~vIi~~~~ 161 (753)
+++||...++ .|+ .....+.+.+++.|.++.....++++ ..++.+.+++..+ +++|+|+..+.
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~Dd--~~~i~~~l~~~~~~~~~DlVittGG 70 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAYEIVPDD--KDEIREALIEWADEDGVDLILTTGG 70 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeEEEcCCC--HHHHHHHHHHHHhcCCCCEEEECCC
Confidence 5777766553 222 23456888899999988887777654 4567777776544 37899998765
No 489
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=50.95 E-value=97 Score=31.57 Aligned_cols=80 Identities=5% Similarity=0.099 Sum_probs=55.2
Q ss_pred CeEEEEEEe--eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHH-HHHHHHH
Q 037761 95 WHEVVLMYE--DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTAL-ASRLFAL 171 (753)
Q Consensus 95 w~~vail~~--d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~-~~~~~~~ 171 (753)
-+.++++.. .+.|-......+.+++++.|..+..... ..+.......++++...++|.|++.....+ ....+..
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~~~~~~---~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l~~ 102 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDS---QNNPAKELANVQDLTVRGTKILLINPTDSDAVGNAVKM 102 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeEEEecC---CCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHH
Confidence 568888886 3567788889999999999988865422 122345556777777788998887654433 2356667
Q ss_pred HHHcCC
Q 037761 172 VAKNGM 177 (753)
Q Consensus 172 a~~~g~ 177 (753)
+.+.|.
T Consensus 103 ~~~~~i 108 (295)
T PRK10653 103 ANQANI 108 (295)
T ss_pred HHHCCC
Confidence 777664
No 490
>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=50.61 E-value=55 Score=32.86 Aligned_cols=80 Identities=9% Similarity=0.026 Sum_probs=52.0
Q ss_pred EEEEEEee--CCcccchHHHHHHHHHhCCeEEEEeecc-CCCCchhhHHHHHHHHhcCCccEEEEEeCh-HHHHHHHHHH
Q 037761 97 EVVLMYED--TNYGAGFISFLVDELQENDIRISHMSKI-PTSAEDFQISKELSKLSTMQTRVFIVHMNT-ALASRLFALV 172 (753)
Q Consensus 97 ~vail~~d--~~~g~~~~~~~~~~~~~~g~~v~~~~~~-~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~-~~~~~~~~~a 172 (753)
+|+++..+ +.|.....+.+.+++++.|.++...... ....+.......+..+.+ ++|.|++.... .....+++++
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 46777754 5577788889999999988654333221 111223445567777777 99999887643 3335677888
Q ss_pred HHcCC
Q 037761 173 AKNGM 177 (753)
Q Consensus 173 ~~~g~ 177 (753)
.+.|.
T Consensus 80 ~~~~i 84 (275)
T cd06307 80 AAAGV 84 (275)
T ss_pred HHCCC
Confidence 87764
No 491
>PRK13805 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional
Probab=50.31 E-value=1.5e+02 Score=35.89 Aligned_cols=78 Identities=13% Similarity=0.190 Sum_probs=57.1
Q ss_pred CCeEEEEEEeeCCcccchHHHHHHHHH--hCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChH--HHHHHH
Q 037761 94 SWHEVVLMYEDTNYGAGFISFLVDELQ--ENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTA--LASRLF 169 (753)
Q Consensus 94 ~w~~vail~~d~~~g~~~~~~~~~~~~--~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~--~~~~~~ 169 (753)
+.+++.|+++......+..+.+.+.++ +.|+.+.....+.++.+.......+..+++.++|.||-.|-+. |+..++
T Consensus 479 ~~~~~lvVtd~~~~~~g~~~~v~~~L~~~~~~i~~~~~~~v~~np~~~~v~~~~~~~~~~~~D~IIaiGGGSviD~AK~i 558 (862)
T PRK13805 479 GKKRAFIVTDRFMVELGYVDKVTDVLKKRENGVEYEVFSEVEPDPTLSTVRKGAELMRSFKPDTIIALGGGSPMDAAKIM 558 (862)
T ss_pred CCCEEEEEECcchhhcchHHHHHHHHhcccCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCchHHHHHHHH
Confidence 668988888655554557788999998 7788766554455555667888889999999999999887654 666555
Q ss_pred HH
Q 037761 170 AL 171 (753)
Q Consensus 170 ~~ 171 (753)
..
T Consensus 559 a~ 560 (862)
T PRK13805 559 WL 560 (862)
T ss_pred HH
Confidence 43
No 492
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=49.95 E-value=75 Score=32.50 Aligned_cols=77 Identities=9% Similarity=-0.010 Sum_probs=50.3
Q ss_pred EEEEe--eCCcccchHHHHHHHHHhCCe-EEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC-hHHHHHHHHHHHH
Q 037761 99 VLMYE--DTNYGAGFISFLVDELQENDI-RISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN-TALASRLFALVAK 174 (753)
Q Consensus 99 ail~~--d~~~g~~~~~~~~~~~~~~g~-~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~-~~~~~~~~~~a~~ 174 (753)
+++.. .+.|.....+.+.+++++.|. .+.....- ..+.......++.+.+.++|.|++... .......++++++
T Consensus 2 gvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~i~~~~~--~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~ 79 (302)
T TIGR02637 2 GLVVKSLGNPFFEAANKGAEEAAKELGSVYIIYTGPT--GTTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMK 79 (302)
T ss_pred EEEeccCCCHHHHHHHHHHHHHHHHhCCeeEEEECCC--CCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHH
Confidence 44443 356777788899999999994 44332111 122445566788888889999998764 3344566777887
Q ss_pred cCC
Q 037761 175 NGM 177 (753)
Q Consensus 175 ~g~ 177 (753)
.|+
T Consensus 80 ~gi 82 (302)
T TIGR02637 80 RGI 82 (302)
T ss_pred CCC
Confidence 774
No 493
>TIGR00315 cdhB CO dehydrogenase/acetyl-CoA synthase complex, epsilon subunit. Nomenclature follows the description for Methanosarcina thermophila. The complex is also found in Archaeoglobus fulgidus, not considered a methanogen, but is otherwise generally associated with methanogenesis.
Probab=49.77 E-value=2e+02 Score=26.46 Aligned_cols=68 Identities=21% Similarity=0.355 Sum_probs=42.9
Q ss_pred hcCCeEEEEcCCCC--CcHHHHHHhhccCCccEEeecCCCCCCCCCCCCceEEEecCcHHHHHHHHHHHHHcCCeEE
Q 037761 24 KKFQVQAIIGPQIP--AAAPFLVELGEKAQVPIISFFETSPALSPTEHPFFIRVTQNDSLQVKAISAVLQNFSWHEV 98 (753)
Q Consensus 24 ~~~~V~aviG~~~s--~~~~av~~i~~~~~vP~is~~a~~~~l~~~~~~~~fr~~p~~~~~~~a~~~~l~~~~w~~v 98 (753)
+..+.+.++|+... .....+..+++..++|+++.......+.+.+ +. .-| .....+..++..-+|.-+
T Consensus 26 ~AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~~~~~~~kg---v~-~~~---~~lg~~g~~~~~p~~e~~ 95 (162)
T TIGR00315 26 RAKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADTYRALIEAG---IE-SEE---MNLHEITQFLADPSWEGF 95 (162)
T ss_pred cCCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCccccccccCC---ee-cCC---CCHHHHHHhccCchhhhc
Confidence 44688899997664 7788899999999999998665444444432 11 111 122355566655555443
No 494
>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=49.71 E-value=1.6e+02 Score=28.56 Aligned_cols=74 Identities=9% Similarity=0.104 Sum_probs=51.1
Q ss_pred eEEEEEEeeCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEe--ChHHHHHHHHHHH
Q 037761 96 HEVVLMYEDTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHM--NTALASRLFALVA 173 (753)
Q Consensus 96 ~~vail~~d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~--~~~~~~~~~~~a~ 173 (753)
.+++++....+ ......+.++..+..+.+...=|...+..++...-+.+++.++|+|++-| +....+.+++++.
T Consensus 126 ~~vGVivP~~e----Q~~~~~~kW~~l~~~~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r~~~~~~~ 201 (221)
T PF07302_consen 126 HQVGVIVPLPE----QIAQQAEKWQPLGNPVVVAAASPYEGDEEELAAAARELAEQGADLIVLDCMGYTQEMRDIVQRAL 201 (221)
T ss_pred CeEEEEecCHH----HHHHHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHHHHHHHHh
Confidence 79999997664 33344455555654444443333324577899999999999999999865 5677888887643
No 495
>cd08487 PBP2_BlaA The C-terminal substrate-binding domain of LysR-type trnascriptional regulator BlaA which involved in control of the beta-lactamase gene expression; contains the type 2 periplasmic binding fold. This CD represents the C-terminal substrate binding domain of LysR-type transcriptional regulator, BlaA, that involved in control of the expression of beta-lactamase genes, blaA and blaB. Beta-lactamases are responsible for bacterial resistance to beta-lactam antibiotics such as penicillins. The blaA gene is located just upstream of blaB in the opposite direction and regulates the expression of the blaB. BlaA also negatively auto-regulates the expression of its own gene, blaA. BlaA (a constitutive class A penicllinase) belongs to the LysR family of transcriptional regulators, whereas BlaB (an inducible class C cephalosporinase or AmpC) can be referred to as a penicillin binding protein but it does not act as a beta-lactamase. The topology of this substrate-binding domain is
Probab=49.61 E-value=2e+02 Score=26.10 Aligned_cols=100 Identities=9% Similarity=-0.027 Sum_probs=48.3
Q ss_pred CChhHhhhcCCeEEEe-cCchHHHHHHHhhCCCCCc--eecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHHHHhcCCC
Q 037761 559 ADLKKLRTESHFVGFQ-SGSFVEDFLVKQLNFSRNQ--TRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKVFLKKYSS 635 (753)
Q Consensus 559 ~s~~dL~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~~~~~~~~ 635 (753)
-+++||. +.++... ......+++.+ .+..... ....++.......+..|. .-+++.. ..........
T Consensus 84 ~~~~~l~--~~~~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~v~~g~----Gi~~~p~-~~~~~~~~~~-- 153 (189)
T cd08487 84 SHPADLI--NETLLRSYRTDEWLQWFEA-ANMPPIKIRGPVFDSSRLMVEAAMQGA----GVALAPA-KMFSREIENG-- 153 (189)
T ss_pred CCHHHHh--cCceeecCCchHHHHHHHH-cCCCCccccCCccccHHHHHHHHHhCC----CeEeehH-HHHHHHHhCC--
Confidence 4678885 4444321 22223445552 2222111 124566777788888886 5444433 3333222222
Q ss_pred CcE-EeCcccccCceEEEEcCCCCCchHhHHHHH
Q 037761 636 KYT-TAGPIYRTDGLGFAFAKDSPLVSHFSQAIL 668 (753)
Q Consensus 636 ~l~-~~~~~~~~~~~~~~~~k~s~l~~~~n~~i~ 668 (753)
.+. .+........++++.+++.+........+.
T Consensus 154 ~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~ 187 (189)
T cd08487 154 QLVQPFKIEVETGSYWLTWLKSKPMTPAMELFRQ 187 (189)
T ss_pred CEEcccCcccCCCcEEEEecccccCCHHHHHHHh
Confidence 122 222222334667777888776666555543
No 496
>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=49.23 E-value=85 Score=32.42 Aligned_cols=67 Identities=15% Similarity=0.215 Sum_probs=49.3
Q ss_pred cCCeEEEEEEeeCCc--c---cchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeC
Q 037761 93 FSWHEVVLMYEDTNY--G---AGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMN 161 (753)
Q Consensus 93 ~~w~~vail~~d~~~--g---~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~ 161 (753)
|.-.+++|+...++- | ......+...+++.|.++.....++++ ...+...+.++.+.++|+|++.+.
T Consensus 157 ~r~~rv~II~TG~Ev~~G~i~D~~~~~l~~~L~~~G~~v~~~~iv~Dd--~~~I~~ai~~~~~~g~DlIItTGG 228 (312)
T cd03522 157 FRPLRVGLIVTGSEVYGGRIEDKFGPVLRARLAALGVELVEQVIVPHD--EAAIAAAIAEALEAGAELLILTGG 228 (312)
T ss_pred cCCCEEEEEEcCCcCCCCcEEEhHHHHHHHHHHHCCCEEEEEEEcCCC--HHHHHHHHHHHhcCCCCEEEEeCC
Confidence 344688999875532 2 234567888899999999888777754 567888888877667899998865
No 497
>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=49.20 E-value=64 Score=33.14 Aligned_cols=71 Identities=8% Similarity=0.067 Sum_probs=51.6
Q ss_pred eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeCh-HHHHHHHHHHHHcCC
Q 037761 104 DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNT-ALASRLFALVAKNGM 177 (753)
Q Consensus 104 d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~-~~~~~~~~~a~~~g~ 177 (753)
+++|.....+.+.+++++.|..+..... ..+.......++.+.+.++|.|++.... ......++.+.+.|+
T Consensus 9 ~~~~~~~~~~~i~~~a~~~g~~v~~~~~---~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~i 80 (302)
T TIGR02634 9 RLERWQKDRDIFVAAAESLGAKVFVQSA---NGNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGI 80 (302)
T ss_pred chhhHHHHHHHHHHHHHhcCCEEEEEeC---CCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCC
Confidence 5678888889999999999988865422 2234455578888888899999987643 334567777777764
No 498
>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=49.14 E-value=65 Score=33.08 Aligned_cols=77 Identities=14% Similarity=0.279 Sum_probs=52.0
Q ss_pred EEEEEe---eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcC--CccEEEEEeChHHHHHHHHHH
Q 037761 98 VVLMYE---DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTM--QTRVFIVHMNTALASRLFALV 172 (753)
Q Consensus 98 vail~~---d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~--~~~vIi~~~~~~~~~~~~~~a 172 (753)
|+++.. ++.|.......+.+++++.|..+..... ..+.......+..+.+. ++|.|++..........++.+
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~g~~v~~~~~---~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~~~ 78 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDLGIELEVLYA---ERDRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLRLA 78 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhcCCeEEEEeC---CCCHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHHHH
Confidence 556663 3457777888999999999988765432 22334455677777778 999999875433344566777
Q ss_pred HHcCC
Q 037761 173 AKNGM 177 (753)
Q Consensus 173 ~~~g~ 177 (753)
.+.|+
T Consensus 79 ~~~gi 83 (305)
T cd06324 79 EGAGV 83 (305)
T ss_pred HhCCC
Confidence 77664
No 499
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=49.11 E-value=52 Score=32.98 Aligned_cols=71 Identities=6% Similarity=0.067 Sum_probs=51.3
Q ss_pred eCCcccchHHHHHHHHHhCCeEEEEeeccCCCCchhhHHHHHHHHhcCCccEEEEEeChHH-HHHHHHHHHHcCC
Q 037761 104 DTNYGAGFISFLVDELQENDIRISHMSKIPTSAEDFQISKELSKLSTMQTRVFIVHMNTAL-ASRLFALVAKNGM 177 (753)
Q Consensus 104 d~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vIi~~~~~~~-~~~~~~~a~~~g~ 177 (753)
++.|-....+.+.+.+++.|.++.....- .+.......++.+...++|.|++.....+ ....++++.+.|+
T Consensus 10 ~~~~~~~~~~~~~~~a~~~g~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~i 81 (273)
T cd06309 10 ESPWRTAETKSIKDAAEKRGFDLKFADAQ---QKQENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAGI 81 (273)
T ss_pred CCHHHHHHHHHHHHHHHhcCCEEEEeCCC---CCHHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCCC
Confidence 56787888999999999999998765321 13445567788888889999988754333 2456777877774
No 500
>TIGR03418 chol_sulf_TF putative choline sulfate-utilization transcription factor. Members of this protein family are transcription factors of the LysR family. Their genes typically are divergently transcribed from choline-sulfatase genes. That enzyme makes choline, a precursor to the osmoprotectant glycine-betaine, available by hydrolysis of choline sulfate.
Probab=49.05 E-value=1.3e+02 Score=30.63 Aligned_cols=106 Identities=8% Similarity=-0.049 Sum_probs=54.5
Q ss_pred cCChhHhhhcCCeE-EEecCc-----hHHHHHHHhhCCCC---CceecCCCHHHHHHHHhcCCCCCCeeEEEeccccHHH
Q 037761 558 FADLKKLRTESHFV-GFQSGS-----FVEDFLVKQLNFSR---NQTRPLSNFGEYKEALSNGSRKGGVSAIFEEIPYIKV 628 (753)
Q Consensus 558 i~s~~dL~~~~~~~-~~~~~~-----~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~l~~g~~~~~~~a~~~~~~~~~~ 628 (753)
.-+++||. +.++ +...+. ....++.+ .+... .....+++......++..|. .-+++. ......
T Consensus 175 ~i~~~dl~--~~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~v~~g~----gi~~~~-~~~~~~ 246 (291)
T TIGR03418 175 PLSAADLL--RLPLLHLEPTQPARWFDWAGWFDA-HGLERPPAPGGLTFNNYTLVIQAAIGGQ----GVALGW-APLVDE 246 (291)
T ss_pred CCChhHHh--hCCEEeeccccCCCCccHHHHHHH-cCCCcccCCCCeeeccHHHHHHHHHhCC----ceEEec-hHhhHH
Confidence 35788986 3333 332221 13455653 22211 12345677888888888886 444444 333333
Q ss_pred HHhcCCCCcEEeCccc-ccCceEEEEcCCCCCchHhHHHHHHhhh
Q 037761 629 FLKKYSSKYTTAGPIY-RTDGLGFAFAKDSPLVSHFSQAILLVRE 672 (753)
Q Consensus 629 ~~~~~~~~l~~~~~~~-~~~~~~~~~~k~s~l~~~~n~~i~~l~~ 672 (753)
...... -.....+.. ....+.++.+|++.........+..+++
T Consensus 247 ~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~ 290 (291)
T TIGR03418 247 LLEAGQ-LVRLIDEPVVTERGYYLVRPPRKRRGPAVRRFRDWLLD 290 (291)
T ss_pred HHhCCc-ccccCCcccCCCCcEEEEeCchhhcChHHHHHHHHHhc
Confidence 333221 111222222 2357788888887766666666655543
Done!