Query 003167
Match_columns 843
No_of_seqs 577 out of 3794
Neff 9.6
Searched_HMMs 46136
Date Thu Mar 28 18:19:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003167.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003167hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1054 Glutamate-gated AMPA-t 100.0 1.4E-88 3E-93 698.4 47.0 715 2-766 88-846 (897)
2 KOG4440 NMDA selective glutama 100.0 2.7E-78 5.9E-83 625.1 33.5 688 3-766 94-858 (993)
3 KOG1053 Glutamate-gated NMDA-t 100.0 5.6E-73 1.2E-77 607.1 52.6 692 3-762 99-853 (1258)
4 KOG1052 Glutamate-gated kainat 100.0 8.5E-67 1.8E-71 613.1 55.3 592 123-765 5-624 (656)
5 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 2.3E-41 5.1E-46 365.8 32.5 303 1-330 53-363 (364)
6 cd06393 PBP1_iGluR_Kainate_Glu 100.0 1.1E-39 2.4E-44 359.5 32.0 303 2-332 70-383 (384)
7 cd06392 PBP1_iGluR_delta_1 N-t 100.0 1.9E-39 4.2E-44 350.3 31.5 305 1-331 59-399 (400)
8 cd06365 PBP1_Pheromone_recepto 100.0 1.6E-39 3.6E-44 365.5 30.7 302 3-327 102-453 (469)
9 cd06375 PBP1_mGluR_groupII Lig 100.0 5.4E-39 1.2E-43 359.7 33.2 300 3-326 104-454 (458)
10 cd06361 PBP1_GPC6A_like Ligand 100.0 4.7E-39 1E-43 354.1 31.6 287 3-328 102-395 (403)
11 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 6.9E-39 1.5E-43 349.4 32.2 308 1-331 54-369 (370)
12 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 9.1E-39 2E-43 347.4 32.6 304 1-331 60-370 (371)
13 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 1.3E-38 2.7E-43 343.3 32.4 304 1-330 60-371 (372)
14 cd06376 PBP1_mGluR_groupIII Li 100.0 1.3E-38 2.8E-43 359.4 33.0 302 3-326 102-452 (463)
15 cd06374 PBP1_mGluR_groupI Liga 100.0 1.3E-38 2.8E-43 360.1 32.6 308 2-332 115-469 (472)
16 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 1.7E-38 3.7E-43 349.9 32.1 276 2-327 78-364 (377)
17 cd06367 PBP1_iGluR_NMDA N-term 100.0 8.6E-39 1.9E-43 350.7 29.4 281 2-326 61-351 (362)
18 cd06380 PBP1_iGluR_AMPA N-term 100.0 4E-38 8.6E-43 348.1 33.8 313 1-330 59-381 (382)
19 cd06364 PBP1_CaSR Ligand-bindi 100.0 2.9E-38 6.4E-43 357.4 33.0 305 3-327 117-494 (510)
20 cd06362 PBP1_mGluR Ligand bind 100.0 5.9E-38 1.3E-42 354.4 32.1 306 3-330 102-450 (452)
21 cd06391 PBP1_iGluR_delta_2 N-t 100.0 2.9E-37 6.3E-42 337.4 32.7 307 1-330 59-398 (400)
22 cd06386 PBP1_NPR_C_like Ligand 100.0 5.6E-37 1.2E-41 337.8 31.1 293 2-327 65-379 (387)
23 cd06363 PBP1_Taste_receptor Li 100.0 1.3E-35 2.8E-40 330.2 30.7 288 2-327 105-396 (410)
24 cd06371 PBP1_sensory_GC_DEF_li 100.0 2.1E-35 4.6E-40 324.4 31.7 289 2-324 64-369 (382)
25 cd06385 PBP1_NPR_A Ligand-bind 100.0 1.5E-35 3.2E-40 329.9 30.6 296 2-328 72-392 (405)
26 cd06384 PBP1_NPR_B Ligand-bind 100.0 2.5E-35 5.4E-40 326.9 31.2 296 2-328 71-393 (399)
27 KOG1056 Glutamate-gated metabo 100.0 2.7E-35 5.9E-40 329.9 28.6 324 4-369 125-494 (878)
28 cd06373 PBP1_NPR_like Ligand b 100.0 6.3E-35 1.4E-39 324.0 29.5 298 2-328 71-390 (396)
29 cd06372 PBP1_GC_G_like Ligand- 100.0 1.7E-34 3.7E-39 319.9 30.9 297 2-328 66-387 (391)
30 cd06366 PBP1_GABAb_receptor Li 100.0 2E-34 4.2E-39 315.1 28.8 277 3-332 65-348 (350)
31 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 1.4E-34 3.1E-39 312.3 27.2 287 4-333 62-356 (362)
32 cd06352 PBP1_NPR_GC_like Ligan 100.0 8E-34 1.7E-38 315.1 31.2 300 2-329 66-384 (389)
33 cd06370 PBP1_Speract_GC_like L 100.0 3E-33 6.4E-38 310.6 30.3 287 2-317 67-386 (404)
34 PF01094 ANF_receptor: Recepto 100.0 2.1E-33 4.5E-38 307.4 25.0 287 3-313 50-348 (348)
35 cd06394 PBP1_iGluR_Kainate_KA1 100.0 5.9E-33 1.3E-37 294.6 20.7 262 2-331 63-332 (333)
36 cd06382 PBP1_iGluR_Kainate N-t 100.0 1.6E-32 3.5E-37 296.9 24.3 257 2-330 61-326 (327)
37 cd06381 PBP1_iGluR_delta_like 100.0 6E-30 1.3E-34 276.8 29.1 274 2-330 60-362 (363)
38 cd06368 PBP1_iGluR_non_NMDA_li 100.0 2.6E-30 5.6E-35 279.6 24.9 258 2-330 60-323 (324)
39 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 3.5E-29 7.7E-34 272.2 27.3 267 3-312 65-334 (334)
40 PRK15404 leucine ABC transport 100.0 4.6E-29 1E-33 272.8 27.2 273 2-317 90-364 (369)
41 cd06383 PBP1_iGluR_AMPA_Like N 100.0 4.7E-30 1E-34 278.2 17.8 279 2-304 63-352 (368)
42 cd06338 PBP1_ABC_ligand_bindin 100.0 1.2E-28 2.5E-33 269.2 25.9 267 3-312 70-345 (345)
43 cd06350 PBP1_GPCR_family_C_lik 100.0 1.8E-28 3.9E-33 268.1 24.7 247 3-327 90-340 (348)
44 cd06345 PBP1_ABC_ligand_bindin 100.0 3.4E-28 7.3E-33 265.1 25.9 259 3-303 66-337 (344)
45 cd06346 PBP1_ABC_ligand_bindin 100.0 6.9E-28 1.5E-32 258.6 23.9 243 3-309 66-310 (312)
46 cd06348 PBP1_ABC_ligand_bindin 100.0 8E-27 1.7E-31 254.4 26.9 273 3-309 66-343 (344)
47 cd06340 PBP1_ABC_ligand_bindin 100.0 6.1E-27 1.3E-31 255.2 23.6 262 3-305 69-342 (347)
48 cd06355 PBP1_FmdD_like Peripla 100.0 1.7E-26 3.7E-31 251.4 27.0 274 2-317 65-341 (348)
49 cd06344 PBP1_ABC_ligand_bindin 100.0 8.3E-27 1.8E-31 252.7 23.7 259 3-305 65-327 (332)
50 cd06360 PBP1_alkylbenzenes_lik 99.9 3.9E-26 8.4E-31 248.4 26.6 266 3-307 64-332 (336)
51 COG0683 LivK ABC-type branched 99.9 2.3E-26 5E-31 251.0 24.7 275 2-316 76-356 (366)
52 cd06351 PBP1_iGluR_N_LIVBP_lik 99.9 4.1E-26 8.9E-31 247.5 25.4 257 2-326 61-322 (328)
53 cd06327 PBP1_SBP_like_1 Peripl 99.9 2.9E-26 6.4E-31 248.7 23.5 261 3-305 65-330 (334)
54 TIGR03669 urea_ABC_arch urea A 99.9 9.2E-26 2E-30 246.1 26.3 280 2-325 66-349 (374)
55 cd06329 PBP1_SBP_like_3 Peripl 99.9 5.7E-26 1.2E-30 247.2 24.0 256 2-301 64-334 (342)
56 cd06359 PBP1_Nba_like Type I p 99.9 1.1E-25 2.4E-30 244.0 25.1 265 3-310 64-331 (333)
57 cd06331 PBP1_AmiC_like Type I 99.9 1.1E-25 2.4E-30 244.1 25.0 259 3-303 66-326 (333)
58 cd06377 PBP1_iGluR_NMDA_NR3 N- 99.9 5E-25 1.1E-29 233.6 28.8 281 2-332 79-376 (382)
59 cd06343 PBP1_ABC_ligand_bindin 99.9 3.7E-25 7.9E-30 243.1 27.6 276 3-316 73-361 (362)
60 cd06347 PBP1_ABC_ligand_bindin 99.9 3.4E-25 7.4E-30 240.9 27.0 260 3-306 66-330 (334)
61 TIGR03407 urea_ABC_UrtA urea A 99.9 5E-25 1.1E-29 240.9 28.2 269 2-312 66-337 (359)
62 cd06336 PBP1_ABC_ligand_bindin 99.9 1.7E-25 3.7E-30 243.8 22.6 262 3-307 70-344 (347)
63 cd06328 PBP1_SBP_like_2 Peripl 99.9 3.8E-25 8.2E-30 239.5 24.9 257 3-303 67-327 (333)
64 cd06349 PBP1_ABC_ligand_bindin 99.9 9E-25 1.9E-29 237.8 27.7 269 2-315 65-338 (340)
65 cd06330 PBP1_Arsenic_SBP_like 99.9 9E-25 1.9E-29 238.6 23.9 259 3-299 66-333 (346)
66 cd06357 PBP1_AmiC Periplasmic 99.9 5.8E-24 1.3E-28 232.5 28.6 281 2-322 65-347 (360)
67 cd06332 PBP1_aromatic_compound 99.9 2.9E-24 6.3E-29 233.4 25.8 261 3-305 64-327 (333)
68 PF13458 Peripla_BP_6: Peripla 99.9 6.8E-24 1.5E-28 231.6 23.3 273 2-316 67-342 (343)
69 cd06358 PBP1_NHase Type I peri 99.9 9.6E-24 2.1E-28 228.8 24.2 254 3-301 66-324 (333)
70 cd06356 PBP1_Amide_Urea_BP_lik 99.9 1.2E-23 2.7E-28 227.7 24.6 258 2-301 65-325 (334)
71 cd06335 PBP1_ABC_ligand_bindin 99.9 1.6E-23 3.4E-28 228.3 25.5 255 3-298 66-334 (347)
72 cd06337 PBP1_ABC_ligand_bindin 99.9 9E-24 2E-28 230.9 22.5 268 3-315 68-355 (357)
73 cd06334 PBP1_ABC_ligand_bindin 99.9 4.1E-23 8.9E-28 224.3 25.8 267 3-298 66-344 (351)
74 cd06339 PBP1_YraM_LppC_lipopro 99.9 4E-23 8.6E-28 223.5 19.0 248 2-301 57-328 (336)
75 TIGR03863 PQQ_ABC_bind ABC tra 99.9 7.7E-23 1.7E-27 219.8 18.7 252 2-311 57-314 (347)
76 cd06269 PBP1_glutamate_recepto 99.9 2.4E-22 5.2E-27 214.5 21.5 165 3-172 70-235 (298)
77 KOG1055 GABA-B ion channel rec 99.9 2.8E-23 6E-28 225.5 13.3 301 5-328 114-431 (865)
78 PRK09495 glnH glutamine ABC tr 99.9 9E-22 1.9E-26 203.6 21.8 219 373-714 23-243 (247)
79 PRK10797 glutamate and asparta 99.9 1.6E-21 3.5E-26 206.2 22.9 222 374-714 39-271 (302)
80 cd06369 PBP1_GC_C_enterotoxin_ 99.9 1.3E-20 2.8E-25 194.3 22.8 275 4-328 81-366 (380)
81 PF00497 SBP_bac_3: Bacterial 99.9 2.7E-21 5.8E-26 197.2 16.3 221 377-714 1-224 (225)
82 PRK11260 cystine transporter s 99.9 1.3E-20 2.9E-25 197.0 21.9 221 373-714 39-261 (266)
83 PRK11917 bifunctional adhesin/ 99.9 2.2E-20 4.7E-25 193.6 22.7 219 373-713 36-258 (259)
84 PRK15010 ABC transporter lysin 99.9 2.1E-20 4.4E-25 194.8 22.6 222 373-714 24-254 (260)
85 cd06326 PBP1_STKc_like Type I 99.9 3.3E-20 7.1E-25 201.9 24.8 255 3-298 67-326 (336)
86 PF13433 Peripla_BP_5: Peripla 99.9 4.1E-20 8.8E-25 191.5 22.3 255 2-300 66-325 (363)
87 PRK15007 putative ABC transpor 99.9 4.2E-20 9E-25 190.9 22.1 217 374-714 20-242 (243)
88 TIGR01096 3A0103s03R lysine-ar 99.9 3.5E-20 7.7E-25 192.4 21.5 218 375-713 24-250 (250)
89 PRK15437 histidine ABC transpo 99.8 8.6E-20 1.9E-24 190.0 21.4 222 373-714 24-254 (259)
90 TIGR02995 ectoine_ehuB ectoine 99.8 1.1E-19 2.4E-24 190.8 20.2 222 373-713 31-260 (275)
91 cd06341 PBP1_ABC_ligand_bindin 99.8 9.7E-19 2.1E-23 190.6 21.8 247 3-292 66-318 (341)
92 cd04509 PBP1_ABC_transporter_G 99.8 8.6E-19 1.9E-23 187.0 19.7 218 4-233 67-290 (299)
93 cd06333 PBP1_ABC-type_HAAT_lik 99.8 3.9E-18 8.4E-23 183.3 22.2 219 3-235 65-293 (312)
94 PRK10859 membrane-bound lytic 99.8 2.4E-18 5.2E-23 193.8 19.8 221 373-714 41-266 (482)
95 PRK09959 hybrid sensory histid 99.8 2.5E-17 5.5E-22 209.0 23.7 216 374-714 301-520 (1197)
96 cd06268 PBP1_ABC_transporter_L 99.8 3.3E-17 7.2E-22 174.7 20.8 220 2-235 64-287 (298)
97 PF00060 Lig_chan: Ligand-gate 99.7 1.6E-19 3.5E-24 170.7 0.2 107 496-602 1-115 (148)
98 TIGR03870 ABC_MoxJ methanol ox 99.7 2.8E-17 6.1E-22 169.3 16.7 210 376-712 1-241 (246)
99 TIGR02285 conserved hypothetic 99.7 5.5E-17 1.2E-21 169.8 17.1 229 374-714 17-261 (268)
100 cd00134 PBPb Bacterial peripla 99.7 4.5E-16 9.9E-21 157.1 21.0 214 377-713 1-218 (218)
101 COG0834 HisJ ABC-type amino ac 99.7 3.9E-16 8.4E-21 164.6 20.7 225 373-714 32-264 (275)
102 smart00062 PBPb Bacterial peri 99.7 8.5E-16 1.8E-20 155.0 20.0 215 376-713 1-219 (219)
103 PRK09959 hybrid sensory histid 99.7 4.8E-16 1E-20 197.4 20.7 221 373-715 54-278 (1197)
104 TIGR03871 ABC_peri_MoxJ_2 quin 99.7 5.1E-15 1.1E-19 151.7 18.9 210 377-713 2-228 (232)
105 smart00079 PBPe Eukaryotic hom 99.5 4.7E-13 1E-17 124.0 11.4 123 591-714 1-133 (134)
106 COG4623 Predicted soluble lyti 99.3 1.4E-11 3.1E-16 124.2 14.3 219 374-714 22-247 (473)
107 cd01391 Periplasmic_Binding_Pr 99.2 2.8E-10 6.1E-15 118.7 16.8 162 3-170 57-220 (269)
108 TIGR01098 3A0109s03R phosphate 99.0 4.6E-09 1E-13 109.1 14.7 199 374-699 31-254 (254)
109 PRK00489 hisG ATP phosphoribos 98.9 7.2E-09 1.6E-13 108.6 12.1 164 433-714 51-219 (287)
110 PF10613 Lig_chan-Glu_bd: Liga 98.7 2.8E-09 6.1E-14 81.7 1.2 49 396-444 14-65 (65)
111 PF04348 LppC: LppC putative l 98.7 2.6E-07 5.6E-12 104.7 16.6 252 2-311 276-532 (536)
112 TIGR03431 PhnD phosphonate ABC 98.4 7.7E-06 1.7E-10 86.6 15.2 117 590-708 125-258 (288)
113 cd01537 PBP1_Repressors_Sugar_ 98.1 4E-05 8.7E-10 79.7 13.1 154 3-166 54-212 (264)
114 cd06267 PBP1_LacI_sugar_bindin 97.9 0.00015 3.3E-09 75.3 13.0 154 3-166 54-211 (264)
115 cd01536 PBP1_ABC_sugar_binding 97.9 0.00037 8.1E-09 72.6 15.9 145 3-157 54-206 (267)
116 PF12974 Phosphonate-bd: ABC t 97.6 0.00052 1.1E-08 70.6 11.4 121 590-712 95-230 (243)
117 cd06282 PBP1_GntR_like_2 Ligan 97.6 0.00099 2.1E-08 69.4 13.4 151 3-165 54-209 (266)
118 cd06300 PBP1_ABC_sugar_binding 97.5 0.0024 5.1E-08 66.9 14.9 144 3-158 59-210 (272)
119 PRK11553 alkanesulfonate trans 97.4 0.0013 2.9E-08 70.5 12.1 70 591-662 120-193 (314)
120 cd06320 PBP1_allose_binding Pe 97.4 0.0054 1.2E-07 64.3 16.2 145 3-157 56-207 (275)
121 COG3107 LppC Putative lipoprot 97.3 0.0057 1.2E-07 66.1 14.4 252 2-313 317-596 (604)
122 cd06323 PBP1_ribose_binding Pe 97.3 0.0076 1.7E-07 62.7 15.6 144 3-156 54-205 (268)
123 TIGR01729 taurine_ABC_bnd taur 97.1 0.004 8.8E-08 66.2 12.0 70 590-662 90-164 (300)
124 cd06325 PBP1_ABC_uncharacteriz 97.1 0.0064 1.4E-07 63.9 13.1 144 2-156 58-208 (281)
125 cd06319 PBP1_ABC_sugar_binding 97.1 0.013 2.8E-07 61.4 15.3 146 3-157 54-210 (277)
126 cd06273 PBP1_GntR_like_1 This 97.0 0.0071 1.5E-07 63.0 12.3 151 3-165 54-211 (268)
127 PF13379 NMT1_2: NMT1-like fam 96.9 0.0042 9.1E-08 64.2 9.5 74 590-664 104-189 (252)
128 cd01545 PBP1_SalR Ligand-bindi 96.8 0.014 3.1E-07 60.8 13.1 152 2-162 54-209 (270)
129 cd06301 PBP1_rhizopine_binding 96.8 0.042 9E-07 57.4 16.0 154 3-165 55-216 (272)
130 cd06317 PBP1_ABC_sugar_binding 96.7 0.029 6.3E-07 58.6 14.6 149 3-157 55-212 (275)
131 cd06309 PBP1_YtfQ_like Peripla 96.7 0.047 1E-06 57.0 15.6 157 3-166 54-219 (273)
132 cd06312 PBP1_ABC_sugar_binding 96.6 0.066 1.4E-06 55.9 15.8 147 3-157 56-208 (271)
133 cd06305 PBP1_methylthioribose_ 96.6 0.047 1E-06 57.0 14.5 146 3-157 54-208 (273)
134 TIGR03427 ABC_peri_uca ABC tra 96.5 0.017 3.7E-07 61.7 11.1 68 592-662 98-170 (328)
135 PRK10653 D-ribose transporter 96.5 0.093 2E-06 55.6 16.4 144 3-156 81-231 (295)
136 cd06298 PBP1_CcpA_like Ligand- 96.5 0.031 6.7E-07 58.2 12.5 151 3-165 54-210 (268)
137 cd06289 PBP1_MalI_like Ligand- 96.3 0.039 8.4E-07 57.4 12.2 154 3-165 54-211 (268)
138 COG3221 PhnD ABC-type phosphat 96.3 0.1 2.2E-06 54.5 14.9 110 590-701 134-260 (299)
139 cd06271 PBP1_AglR_RafR_like Li 96.3 0.058 1.3E-06 56.0 13.2 153 3-165 58-214 (268)
140 TIGR01481 ccpA catabolite cont 96.2 0.053 1.1E-06 58.5 13.0 150 3-164 114-268 (329)
141 cd06313 PBP1_ABC_sugar_binding 96.2 0.22 4.8E-06 52.0 16.9 146 3-156 54-207 (272)
142 TIGR01728 SsuA_fam ABC transpo 96.0 0.083 1.8E-06 55.6 13.1 71 590-662 91-165 (288)
143 cd06310 PBP1_ABC_sugar_binding 96.0 0.39 8.5E-06 50.0 17.9 152 3-165 56-215 (273)
144 TIGR02122 TRAP_TAXI TRAP trans 96.0 0.028 6E-07 60.4 9.1 60 590-652 131-197 (320)
145 cd06284 PBP1_LacI_like_6 Ligan 95.9 0.091 2E-06 54.5 12.6 149 3-162 54-206 (267)
146 PF09084 NMT1: NMT1/THI5 like; 95.9 0.05 1.1E-06 54.6 9.9 61 590-652 83-147 (216)
147 cd06278 PBP1_LacI_like_2 Ligan 95.9 0.11 2.4E-06 53.8 12.9 140 3-154 53-196 (266)
148 cd06311 PBP1_ABC_sugar_binding 95.7 0.37 7.9E-06 50.3 16.4 146 3-157 59-210 (274)
149 cd06308 PBP1_sensor_kinase_lik 95.7 0.3 6.6E-06 50.8 15.6 153 4-167 56-216 (270)
150 cd01542 PBP1_TreR_like Ligand- 95.7 0.14 2.9E-06 53.0 12.8 149 3-166 54-207 (259)
151 PF13407 Peripla_BP_4: Peripla 95.7 0.087 1.9E-06 54.4 11.2 149 3-158 54-208 (257)
152 cd01575 PBP1_GntR Ligand-bindi 95.7 0.15 3.3E-06 52.8 13.2 154 3-166 54-211 (268)
153 cd05466 PBP2_LTTR_substrate Th 95.7 0.52 1.1E-05 45.2 16.2 70 402-483 13-82 (197)
154 cd06295 PBP1_CelR Ligand bindi 95.6 0.17 3.8E-06 52.8 13.1 151 3-165 63-219 (275)
155 cd06322 PBP1_ABC_sugar_binding 95.5 0.5 1.1E-05 49.0 16.3 143 3-156 54-203 (267)
156 cd06288 PBP1_sucrose_transcrip 95.5 0.13 2.9E-06 53.4 11.8 153 3-166 55-211 (269)
157 cd06303 PBP1_LuxPQ_Quorum_Sens 95.4 0.59 1.3E-05 49.0 16.6 149 3-157 59-215 (280)
158 cd01574 PBP1_LacI Ligand-bindi 95.4 0.3 6.5E-06 50.5 14.0 149 3-166 55-208 (264)
159 cd06281 PBP1_LacI_like_5 Ligan 95.3 0.15 3.2E-06 53.2 11.6 152 3-165 54-209 (269)
160 TIGR00363 lipoprotein, YaeC fa 95.3 1.2 2.6E-05 45.8 17.7 121 590-712 106-250 (258)
161 cd06274 PBP1_FruR Ligand bindi 95.3 0.32 6.9E-06 50.4 14.0 153 3-166 54-212 (264)
162 cd01540 PBP1_arabinose_binding 95.3 0.6 1.3E-05 49.1 16.2 155 3-158 53-220 (289)
163 cd06283 PBP1_RegR_EndR_KdgR_li 95.1 0.35 7.6E-06 50.1 13.5 153 3-166 54-212 (267)
164 cd06299 PBP1_LacI_like_13 Liga 95.1 0.3 6.5E-06 50.6 13.0 154 3-166 54-209 (265)
165 PRK10703 DNA-binding transcrip 95.0 0.28 6.1E-06 53.1 13.0 137 22-166 132-273 (341)
166 PRK10014 DNA-binding transcrip 95.0 0.34 7.3E-06 52.5 13.6 147 3-159 119-270 (342)
167 cd06324 PBP1_ABC_sugar_binding 95.0 0.53 1.2E-05 50.1 14.8 156 4-165 58-235 (305)
168 cd06275 PBP1_PurR Ligand-bindi 95.0 0.33 7.2E-06 50.4 12.9 135 23-166 74-212 (269)
169 cd06293 PBP1_LacI_like_11 Liga 94.9 0.54 1.2E-05 48.8 14.4 154 3-166 54-211 (269)
170 cd06294 PBP1_ycjW_transcriptio 94.9 0.36 7.8E-06 50.1 13.0 153 4-165 60-216 (270)
171 cd06270 PBP1_GalS_like Ligand 94.9 0.41 9E-06 49.7 13.4 152 3-164 54-209 (268)
172 COG1609 PurR Transcriptional r 94.9 0.45 9.8E-06 51.3 13.8 148 3-162 113-267 (333)
173 cd06285 PBP1_LacI_like_7 Ligan 94.9 0.34 7.4E-06 50.2 12.6 147 3-162 54-205 (265)
174 PRK11303 DNA-binding transcrip 94.8 0.57 1.2E-05 50.4 14.7 151 3-165 116-271 (328)
175 cd06272 PBP1_hexuronate_repres 94.8 0.31 6.8E-06 50.3 12.2 134 22-165 68-205 (261)
176 TIGR02990 ectoine_eutA ectoine 94.8 0.53 1.2E-05 47.6 13.1 134 17-153 60-203 (239)
177 cd08442 PBP2_YofA_SoxR_like Th 94.8 1.8 3.8E-05 41.7 16.9 70 402-483 13-82 (193)
178 cd08468 PBP2_Pa0477 The C-term 94.6 1.8 3.8E-05 42.3 16.6 73 402-483 13-85 (202)
179 cd08440 PBP2_LTTR_like_4 TThe 94.6 2.3 5E-05 40.8 17.3 70 402-483 13-82 (197)
180 PF03466 LysR_substrate: LysR 94.6 1.2 2.5E-05 43.7 15.3 195 375-700 6-205 (209)
181 cd06292 PBP1_LacI_like_10 Liga 94.5 0.61 1.3E-05 48.5 13.6 137 22-166 77-215 (273)
182 cd06296 PBP1_CatR_like Ligand- 94.5 0.43 9.4E-06 49.5 12.3 153 3-165 54-211 (270)
183 cd08420 PBP2_CysL_like C-termi 94.4 2.5 5.3E-05 40.8 16.9 70 402-483 13-82 (201)
184 cd08438 PBP2_CidR The C-termin 94.3 3.1 6.7E-05 40.0 17.4 70 402-483 13-82 (197)
185 cd06306 PBP1_TorT-like TorT-li 94.3 1.1 2.5E-05 46.4 15.0 142 3-156 56-207 (268)
186 PRK11151 DNA-binding transcrip 94.2 2.4 5.1E-05 45.1 17.6 194 375-699 91-289 (305)
187 cd01539 PBP1_GGBP Periplasmic 94.2 1.9 4.2E-05 45.7 16.8 154 3-159 56-228 (303)
188 cd06277 PBP1_LacI_like_1 Ligan 94.2 0.73 1.6E-05 47.8 13.3 152 3-165 57-210 (268)
189 PRK10936 TMAO reductase system 94.2 1.4 3E-05 47.8 15.8 150 3-166 103-262 (343)
190 cd08421 PBP2_LTTR_like_1 The C 94.2 2.7 5.9E-05 40.6 16.7 69 403-483 14-82 (198)
191 CHL00180 rbcR LysR transcripti 94.2 2.7 5.8E-05 44.7 17.8 86 375-483 95-180 (305)
192 TIGR02417 fruct_sucro_rep D-fr 94.1 0.7 1.5E-05 49.7 13.4 150 3-165 115-270 (327)
193 cd06307 PBP1_uncharacterized_s 94.1 2.1 4.5E-05 44.6 16.7 145 4-157 58-210 (275)
194 cd06316 PBP1_ABC_sugar_binding 94.1 2 4.4E-05 45.3 16.7 149 3-156 55-210 (294)
195 cd08459 PBP2_DntR_NahR_LinR_li 94.0 1.7 3.8E-05 42.2 15.0 70 402-483 13-82 (201)
196 cd06279 PBP1_LacI_like_3 Ligan 94.0 0.71 1.5E-05 48.4 12.9 152 3-164 55-227 (283)
197 cd01538 PBP1_ABC_xylose_bindin 94.0 1.6 3.5E-05 45.8 15.6 147 3-158 54-216 (288)
198 cd06314 PBP1_tmGBP Periplasmic 94.0 2.4 5.1E-05 44.1 16.7 143 3-157 54-204 (271)
199 cd06297 PBP1_LacI_like_12 Liga 94.0 0.71 1.5E-05 48.0 12.7 136 19-166 69-214 (269)
200 cd06290 PBP1_LacI_like_9 Ligan 93.9 0.81 1.8E-05 47.3 13.0 128 27-163 76-207 (265)
201 PRK12679 cbl transcriptional r 93.9 4 8.6E-05 43.6 18.5 207 375-714 93-306 (316)
202 cd06354 PBP1_BmpA_PnrA_like Pe 93.8 0.91 2E-05 47.1 13.0 145 3-155 56-206 (265)
203 PRK10423 transcriptional repre 93.8 0.93 2E-05 48.7 13.6 131 27-166 135-269 (327)
204 cd08433 PBP2_Nac The C-teminal 93.8 4.4 9.6E-05 39.1 17.4 70 402-483 13-82 (198)
205 cd01544 PBP1_GalR Ligand-bindi 93.8 1.1 2.4E-05 46.5 13.8 150 3-166 51-213 (270)
206 cd08412 PBP2_PAO1_like The C-t 93.8 3.7 8.1E-05 39.5 16.8 71 401-483 12-82 (198)
207 PRK11242 DNA-binding transcrip 93.7 3.2 6.9E-05 43.8 17.2 83 375-483 91-173 (296)
208 cd01543 PBP1_XylR Ligand-bindi 93.7 1.4 3.1E-05 45.6 14.3 152 3-164 49-203 (265)
209 cd06321 PBP1_ABC_sugar_binding 93.7 2.3 5E-05 44.1 15.9 150 4-166 57-213 (271)
210 PF00532 Peripla_BP_1: Peripla 93.7 0.48 1E-05 49.6 10.6 149 3-162 55-211 (279)
211 PRK12684 transcriptional regul 93.7 2.7 5.8E-05 44.9 16.6 206 374-711 92-302 (313)
212 PRK09526 lacI lac repressor; R 93.6 1.4 3E-05 47.7 14.5 148 3-165 119-273 (342)
213 PRK10727 DNA-binding transcrip 93.6 0.94 2E-05 49.1 13.1 111 52-165 156-270 (343)
214 cd06291 PBP1_Qymf_like Ligand 93.5 1 2.2E-05 46.6 12.9 132 23-165 70-206 (265)
215 cd08418 PBP2_TdcA The C-termin 93.5 5.3 0.00012 38.5 17.5 72 402-483 13-84 (201)
216 PRK11480 tauA taurine transpor 93.4 0.61 1.3E-05 50.0 11.1 68 590-659 112-183 (320)
217 cd08462 PBP2_NodD The C-termin 93.4 3.3 7.2E-05 40.2 15.7 68 403-483 14-81 (200)
218 PRK09701 D-allose transporter 93.4 4.2 9E-05 43.3 17.5 150 3-157 81-241 (311)
219 COG2984 ABC-type uncharacteriz 93.3 3.1 6.8E-05 43.1 15.2 144 3-156 87-240 (322)
220 cd08463 PBP2_DntR_like_4 The C 93.3 6 0.00013 38.7 17.5 71 402-483 13-83 (203)
221 PF07885 Ion_trans_2: Ion chan 93.3 0.23 4.9E-06 40.7 5.8 55 530-584 22-78 (79)
222 cd08415 PBP2_LysR_opines_like 93.3 4.9 0.00011 38.6 16.7 70 402-483 13-82 (196)
223 PRK11063 metQ DL-methionine tr 93.3 2.2 4.8E-05 44.3 14.4 121 590-712 119-263 (271)
224 cd01541 PBP1_AraR Ligand-bindi 93.2 0.77 1.7E-05 47.8 11.4 155 3-166 54-217 (273)
225 cd08411 PBP2_OxyR The C-termin 93.2 3.9 8.4E-05 39.6 15.9 69 403-483 15-83 (200)
226 TIGR00787 dctP tripartite ATP- 93.1 0.32 7E-06 50.3 8.0 102 590-699 126-230 (257)
227 cd08413 PBP2_CysB_like The C-t 93.0 4.8 0.0001 39.0 16.2 71 402-483 13-83 (198)
228 cd06318 PBP1_ABC_sugar_binding 93.0 4.6 0.0001 42.1 17.0 148 3-157 54-215 (282)
229 cd08460 PBP2_DntR_like_1 The C 93.0 2.9 6.4E-05 40.6 14.6 69 402-483 13-81 (200)
230 cd06287 PBP1_LacI_like_8 Ligan 92.9 2.2 4.7E-05 44.4 14.1 135 23-166 74-212 (269)
231 cd06286 PBP1_CcpB_like Ligand- 92.9 1.5 3.2E-05 45.2 12.8 150 3-165 54-208 (260)
232 cd08434 PBP2_GltC_like The sub 92.8 6.4 0.00014 37.6 16.7 70 402-483 13-82 (195)
233 cd08426 PBP2_LTTR_like_5 The C 92.6 8.4 0.00018 37.1 17.3 70 402-483 13-82 (199)
234 cd08417 PBP2_Nitroaromatics_li 92.6 4.5 9.8E-05 39.0 15.4 70 402-483 13-82 (200)
235 PRK12681 cysB transcriptional 92.6 4.2 9.2E-05 43.6 16.1 85 374-483 92-176 (324)
236 cd06302 PBP1_LsrB_Quorum_Sensi 92.5 5.7 0.00012 42.0 16.9 146 3-157 55-210 (298)
237 cd08419 PBP2_CbbR_RubisCO_like 92.4 10 0.00023 36.2 17.8 70 402-483 12-81 (197)
238 PRK12683 transcriptional regul 92.3 8 0.00017 41.1 17.8 195 375-701 93-293 (309)
239 PRK10401 DNA-binding transcrip 92.2 2.3 5E-05 46.1 13.8 111 52-165 156-270 (346)
240 COG1879 RbsB ABC-type sugar tr 92.1 4.7 0.0001 43.2 15.9 155 3-165 90-250 (322)
241 PF13377 Peripla_BP_3: Peripla 92.1 0.65 1.4E-05 43.7 8.3 99 64-166 1-102 (160)
242 PRK09492 treR trehalose repres 92.1 2.3 5E-05 45.3 13.5 137 3-156 117-256 (315)
243 PRK10837 putative DNA-binding 92.0 9.6 0.00021 39.9 18.0 83 375-483 89-171 (290)
244 PRK11233 nitrogen assimilation 92.0 4.7 0.0001 42.8 15.5 83 375-482 91-173 (305)
245 cd08443 PBP2_CysB The C-termin 91.9 12 0.00026 36.2 17.5 72 401-483 12-83 (198)
246 cd08436 PBP2_LTTR_like_3 The C 91.8 11 0.00025 35.8 17.1 71 402-483 13-83 (194)
247 PRK09791 putative DNA-binding 91.8 5.6 0.00012 42.1 15.9 86 374-483 94-179 (302)
248 TIGR02955 TMAO_TorT TMAO reduc 91.7 4.9 0.00011 42.4 15.3 149 3-166 56-215 (295)
249 cd06280 PBP1_LacI_like_4 Ligan 91.6 2.6 5.7E-05 43.5 12.9 130 25-166 74-206 (263)
250 cd08466 PBP2_LeuO The C-termin 91.6 8.3 0.00018 37.2 15.9 70 402-483 13-82 (200)
251 cd08461 PBP2_DntR_like_3 The C 91.6 9.1 0.0002 36.8 16.2 70 402-483 13-82 (198)
252 cd08435 PBP2_GbpR The C-termin 91.5 14 0.00029 35.5 17.8 71 403-483 14-84 (201)
253 cd08465 PBP2_ToxR The C-termin 91.5 4.5 9.7E-05 39.4 13.8 70 402-483 13-82 (200)
254 PRK12682 transcriptional regul 91.2 11 0.00025 39.9 17.5 192 375-699 93-291 (309)
255 PRK14987 gluconate operon tran 91.2 2.7 5.7E-05 45.3 12.8 153 3-166 118-273 (331)
256 cd08425 PBP2_CynR The C-termin 91.1 9.7 0.00021 36.6 15.8 70 402-483 14-83 (197)
257 TIGR02424 TF_pcaQ pca operon t 90.9 9.8 0.00021 40.1 16.6 86 374-483 92-177 (300)
258 cd08444 PBP2_Cbl The C-termina 90.8 14 0.00031 35.6 16.8 71 402-483 13-83 (198)
259 cd06304 PBP1_BmpA_like Peripla 90.3 3.5 7.5E-05 42.6 12.2 145 3-155 55-202 (260)
260 PRK15408 autoinducer 2-binding 90.3 8.3 0.00018 41.6 15.4 146 2-156 78-233 (336)
261 cd08449 PBP2_XapR The C-termin 90.2 16 0.00035 34.9 16.4 72 402-483 13-84 (197)
262 cd08441 PBP2_MetR The C-termin 90.2 15 0.00033 35.3 16.2 69 403-483 14-82 (198)
263 PRK11041 DNA-binding transcrip 90.1 4.3 9.3E-05 43.0 13.1 112 52-166 132-247 (309)
264 PRK15395 methyl-galactoside AB 90.1 13 0.00028 39.9 16.9 151 3-156 80-249 (330)
265 PRK10339 DNA-binding transcrip 90.1 4.4 9.4E-05 43.5 13.2 135 21-165 129-267 (327)
266 COG3473 Maleate cis-trans isom 90.0 10 0.00022 36.6 13.3 134 16-152 55-200 (238)
267 PRK12680 transcriptional regul 89.9 16 0.00034 39.3 17.2 84 375-483 93-176 (327)
268 cd08427 PBP2_LTTR_like_2 The C 89.9 18 0.00039 34.4 16.5 72 402-483 13-84 (195)
269 PF03808 Glyco_tran_WecB: Glyc 89.9 5.4 0.00012 38.2 12.1 99 59-169 36-136 (172)
270 cd08464 PBP2_DntR_like_2 The C 89.8 17 0.00037 34.9 16.3 70 402-483 13-82 (200)
271 PF03480 SBP_bac_7: Bacterial 89.7 0.33 7.1E-06 51.2 3.9 88 590-685 126-214 (286)
272 cd08467 PBP2_SyrM The C-termin 89.5 14 0.0003 35.8 15.4 70 402-483 13-82 (200)
273 cd08486 PBP2_CbnR The C-termin 89.5 16 0.00034 35.4 15.8 70 402-483 14-83 (198)
274 cd08423 PBP2_LTTR_like_6 The C 89.4 15 0.00033 35.1 15.6 73 402-483 13-87 (200)
275 PRK11482 putative DNA-binding 89.4 15 0.00032 39.2 16.5 82 374-483 116-197 (317)
276 cd08429 PBP2_NhaR The C-termin 89.2 23 0.0005 34.6 17.4 71 402-481 13-83 (204)
277 cd08414 PBP2_LTTR_aromatics_li 89.2 19 0.00042 34.3 16.1 70 402-483 13-82 (197)
278 TIGR01256 modA molybdenum ABC 89.0 5.5 0.00012 39.7 12.2 69 627-696 131-200 (216)
279 TIGR02637 RhaS rhamnose ABC tr 88.8 21 0.00044 37.7 17.1 152 3-166 55-217 (302)
280 cd08469 PBP2_PnbR The C-termin 88.7 16 0.00035 36.0 15.5 69 403-483 14-82 (221)
281 cd08445 PBP2_BenM_CatM_CatR Th 88.7 22 0.00047 34.4 16.2 70 402-483 14-83 (203)
282 TIGR02405 trehalos_R_Ecol treh 88.7 7.6 0.00016 41.3 13.7 118 25-156 133-253 (311)
283 PRK09860 putative alcohol dehy 88.5 4 8.8E-05 44.8 11.5 88 61-150 20-109 (383)
284 COG0715 TauA ABC-type nitrate/ 88.4 3 6.6E-05 44.9 10.5 73 590-664 126-203 (335)
285 cd08456 PBP2_LysR The C-termin 88.3 24 0.00052 33.6 16.2 70 402-483 13-82 (196)
286 TIGR02634 xylF D-xylose ABC tr 88.3 12 0.00027 39.5 14.9 146 3-157 53-209 (302)
287 PRK09508 leuO leucine transcri 88.2 9 0.0002 40.8 13.9 84 374-483 111-194 (314)
288 PRK10341 DNA-binding transcrip 88.2 18 0.00039 38.4 16.2 71 403-483 111-181 (312)
289 PF12727 PBP_like: PBP superfa 87.9 9.8 0.00021 37.2 12.6 102 590-697 81-190 (193)
290 PRK09861 cytoplasmic membrane 87.9 13 0.00029 38.5 14.2 121 589-712 119-264 (272)
291 cd08457 PBP2_OccR The C-termin 87.8 26 0.00057 33.5 17.8 70 402-483 13-82 (196)
292 cd08437 PBP2_MleR The substrat 87.7 27 0.00058 33.5 17.1 71 403-483 14-84 (198)
293 cd08448 PBP2_LTTR_aromatics_li 87.3 27 0.00059 33.2 16.7 70 402-483 13-82 (197)
294 cd08430 PBP2_IlvY The C-termin 86.9 29 0.00063 33.1 17.4 71 402-483 13-83 (199)
295 COG1638 DctP TRAP-type C4-dica 86.8 4.2 9.2E-05 43.5 10.0 103 590-703 157-265 (332)
296 cd08451 PBP2_BudR The C-termin 86.7 30 0.00065 33.0 18.7 70 403-483 15-84 (199)
297 PF13531 SBP_bac_11: Bacterial 86.7 6.4 0.00014 39.7 11.1 185 401-701 10-217 (230)
298 COG1910 Periplasmic molybdate- 86.4 14 0.0003 36.1 12.1 107 590-703 87-201 (223)
299 PRK10355 xylF D-xylose transpo 86.3 16 0.00036 39.2 14.5 153 3-166 80-243 (330)
300 cd08192 Fe-ADH7 Iron-containin 86.2 6.7 0.00014 43.0 11.5 89 61-151 13-103 (370)
301 PRK15454 ethanol dehydrogenase 85.4 4 8.7E-05 45.0 9.3 87 61-149 38-126 (395)
302 COG1454 EutG Alcohol dehydroge 85.3 5.2 0.00011 43.3 9.7 91 61-153 18-110 (377)
303 cd08189 Fe-ADH5 Iron-containin 85.2 7.7 0.00017 42.6 11.4 89 61-151 15-105 (374)
304 cd08190 HOT Hydroxyacid-oxoaci 85.0 4.5 9.8E-05 45.0 9.6 87 61-149 12-100 (414)
305 TIGR03339 phn_lysR aminoethylp 84.7 49 0.0011 34.2 17.0 69 403-483 98-166 (279)
306 PRK10624 L-1,2-propanediol oxi 84.6 5 0.00011 44.2 9.7 87 61-149 19-107 (382)
307 PRK15421 DNA-binding transcrip 84.4 33 0.00071 36.6 15.7 69 403-483 103-171 (317)
308 PRK11062 nhaR transcriptional 84.1 40 0.00088 35.4 16.2 86 375-483 93-178 (296)
309 PRK11013 DNA-binding transcrip 84.0 43 0.00094 35.4 16.4 104 592-700 183-291 (309)
310 cd06533 Glyco_transf_WecG_TagA 84.0 19 0.0004 34.5 12.1 98 59-168 34-133 (171)
311 cd08193 HVD 5-hydroxyvalerate 83.9 5.4 0.00012 43.8 9.5 88 61-150 15-104 (376)
312 cd08551 Fe-ADH iron-containing 83.7 6.2 0.00013 43.3 9.9 89 61-151 12-102 (370)
313 PRK11074 putative DNA-binding 83.6 35 0.00077 35.9 15.5 85 375-483 92-176 (300)
314 PF00465 Fe-ADH: Iron-containi 82.8 5.6 0.00012 43.5 9.1 89 61-153 12-102 (366)
315 COG0725 ModA ABC-type molybdat 82.6 30 0.00064 35.6 13.6 115 592-712 124-252 (258)
316 cd08458 PBP2_NocR The C-termin 82.4 47 0.001 31.8 16.8 70 402-483 13-82 (196)
317 cd08194 Fe-ADH6 Iron-containin 82.3 7.2 0.00016 42.8 9.7 87 61-149 12-100 (375)
318 PRK10094 DNA-binding transcrip 82.3 62 0.0014 34.2 16.8 70 404-483 108-177 (308)
319 TIGR02638 lactal_redase lactal 82.2 6.8 0.00015 43.0 9.5 87 61-149 18-106 (379)
320 PF03401 TctC: Tripartite tric 82.0 32 0.0007 35.8 14.0 121 590-711 88-241 (274)
321 cd06353 PBP1_BmpA_Med_like Per 81.2 12 0.00026 38.6 10.4 85 74-168 1-89 (258)
322 cd08453 PBP2_IlvR The C-termin 80.9 53 0.0012 31.4 17.1 73 402-483 13-85 (200)
323 KOG3857 Alcohol dehydrogenase, 80.6 13 0.00027 38.8 9.7 95 45-141 39-137 (465)
324 PRK11716 DNA-binding transcrip 80.5 55 0.0012 33.5 15.4 83 375-482 67-149 (269)
325 cd06276 PBP1_FucR_like Ligand- 80.4 16 0.00035 37.2 11.1 125 20-165 68-195 (247)
326 PF13407 Peripla_BP_4: Peripla 80.4 4.4 9.5E-05 41.6 6.9 78 75-156 1-81 (257)
327 PLN02245 ATP phosphoribosyl tr 80.4 20 0.00044 38.8 11.7 92 591-687 178-277 (403)
328 PF04392 ABC_sub_bind: ABC tra 80.1 24 0.00053 37.1 12.5 118 14-141 68-194 (294)
329 cd08188 Fe-ADH4 Iron-containin 79.4 10 0.00022 41.6 9.7 86 61-148 17-104 (377)
330 TIGR03414 ABC_choline_bnd chol 79.3 64 0.0014 33.9 15.2 40 405-453 24-63 (290)
331 cd08485 PBP2_ClcR The C-termin 78.9 63 0.0014 31.0 16.1 70 402-483 14-83 (198)
332 cd08185 Fe-ADH1 Iron-containin 78.7 11 0.00024 41.5 9.6 87 61-150 15-104 (380)
333 cd08416 PBP2_MdcR The C-termin 78.6 62 0.0013 30.8 16.7 72 402-483 13-84 (199)
334 PRK03635 chromosome replicatio 77.7 53 0.0012 34.4 14.4 82 375-483 90-171 (294)
335 cd08181 PPD-like 1,3-propanedi 77.5 13 0.00028 40.5 9.6 85 61-148 15-102 (357)
336 cd08191 HHD 6-hydroxyhexanoate 77.4 14 0.0003 40.8 9.9 87 61-150 12-100 (386)
337 cd08176 LPO Lactadehyde:propan 77.3 11 0.00023 41.4 9.1 86 61-148 17-104 (377)
338 PRK09906 DNA-binding transcrip 76.9 79 0.0017 33.1 15.4 70 402-483 103-172 (296)
339 PRK10537 voltage-gated potassi 76.6 5.5 0.00012 43.7 6.4 56 528-583 164-221 (393)
340 PF13685 Fe-ADH_2: Iron-contai 76.4 16 0.00035 37.3 9.2 100 62-167 9-108 (250)
341 TIGR00696 wecB_tagA_cpsF bacte 76.1 49 0.0011 31.8 12.0 86 58-153 35-122 (177)
342 PF14503 YhfZ_C: YhfZ C-termin 75.8 8.1 0.00018 38.5 6.7 104 601-713 113-224 (232)
343 COG2358 Imp TRAP-type uncharac 75.7 33 0.00072 36.1 11.4 79 590-671 127-215 (321)
344 cd06315 PBP1_ABC_sugar_binding 75.7 67 0.0014 33.3 14.3 135 22-160 75-217 (280)
345 cd08170 GlyDH Glycerol dehydro 75.5 10 0.00023 41.1 8.3 84 61-149 12-97 (351)
346 PRK09986 DNA-binding transcrip 75.0 1.1E+02 0.0024 31.8 16.8 85 375-483 97-181 (294)
347 PRK10677 modA molybdate transp 75.0 27 0.00058 36.0 10.7 71 404-483 41-117 (257)
348 PRK13583 hisG ATP phosphoribos 74.7 49 0.0011 33.1 11.8 92 591-687 110-212 (228)
349 cd08187 BDH Butanol dehydrogen 74.3 15 0.00033 40.3 9.3 85 61-148 18-105 (382)
350 PF00625 Guanylate_kin: Guanyl 74.3 25 0.00054 34.0 9.8 94 3-105 2-99 (183)
351 cd08431 PBP2_HupR The C-termin 74.3 81 0.0017 29.9 13.8 71 402-483 13-83 (195)
352 cd08182 HEPD Hydroxyethylphosp 74.1 17 0.00036 39.8 9.5 86 61-151 12-99 (367)
353 cd08428 PBP2_IciA_ArgP The C-t 73.8 83 0.0018 29.9 15.4 99 592-695 89-191 (195)
354 cd06305 PBP1_methylthioribose_ 73.6 15 0.00031 38.0 8.6 77 75-156 2-81 (273)
355 cd08450 PBP2_HcaR The C-termin 73.4 84 0.0018 29.7 16.3 70 402-483 13-82 (196)
356 PRK03692 putative UDP-N-acetyl 73.1 37 0.00079 34.5 10.8 86 59-153 93-179 (243)
357 cd08432 PBP2_GcdR_TrpI_HvrB_Am 72.5 41 0.00088 31.9 11.1 97 594-693 87-188 (194)
358 TIGR00035 asp_race aspartate r 72.2 21 0.00046 36.0 9.1 42 60-104 105-146 (229)
359 cd06301 PBP1_rhizopine_binding 71.9 14 0.0003 38.2 8.0 78 74-156 1-82 (272)
360 cd08186 Fe-ADH8 Iron-containin 71.7 19 0.00042 39.5 9.3 88 61-150 12-105 (383)
361 cd08446 PBP2_Chlorocatechol Th 71.4 94 0.002 29.5 16.8 70 402-483 14-83 (198)
362 cd08171 GlyDH-like2 Glycerol d 70.9 18 0.00038 39.2 8.7 85 61-149 12-98 (345)
363 cd07766 DHQ_Fe-ADH Dehydroquin 70.7 22 0.00047 38.3 9.3 99 62-167 13-113 (332)
364 cd08452 PBP2_AlsR The C-termin 70.3 1E+02 0.0022 29.4 16.8 69 403-483 14-82 (197)
365 cd06306 PBP1_TorT-like TorT-li 70.2 16 0.00035 37.7 8.0 80 74-156 1-82 (268)
366 PRK14498 putative molybdopteri 70.0 49 0.0011 39.3 12.7 67 70-141 184-262 (633)
367 cd06312 PBP1_ABC_sugar_binding 69.9 18 0.00038 37.4 8.2 78 74-156 1-83 (271)
368 PF02608 Bmp: Basic membrane p 69.7 18 0.00039 38.4 8.2 88 73-169 2-94 (306)
369 PRK03601 transcriptional regul 69.4 1.2E+02 0.0026 31.3 14.4 83 375-483 89-171 (275)
370 cd06267 PBP1_LacI_sugar_bindin 69.3 16 0.00035 37.2 7.7 76 75-156 2-79 (264)
371 PRK15408 autoinducer 2-binding 69.2 23 0.00049 38.2 9.0 82 71-156 22-106 (336)
372 PRK09423 gldA glycerol dehydro 68.0 21 0.00046 39.0 8.5 84 61-149 19-104 (366)
373 cd01537 PBP1_Repressors_Sugar_ 67.8 16 0.00036 37.1 7.4 78 74-156 1-80 (264)
374 COG4521 TauA ABC-type taurine 65.9 34 0.00073 34.0 8.2 106 590-697 120-237 (334)
375 cd08183 Fe-ADH2 Iron-containin 65.8 31 0.00068 37.8 9.4 82 62-150 13-96 (374)
376 PRK13348 chromosome replicatio 65.7 1.8E+02 0.0038 30.4 15.3 100 593-697 180-283 (294)
377 KOG1419 Voltage-gated K+ chann 65.3 12 0.00027 41.4 5.8 89 497-585 234-324 (654)
378 cd06310 PBP1_ABC_sugar_binding 65.2 24 0.00053 36.3 8.1 80 74-156 1-83 (273)
379 cd02071 MM_CoA_mut_B12_BD meth 64.8 57 0.0012 29.0 9.3 73 76-156 3-79 (122)
380 cd06289 PBP1_MalI_like Ligand- 64.7 26 0.00057 35.8 8.3 77 75-156 2-80 (268)
381 PLN03192 Voltage-dependent pot 64.3 9.5 0.00021 46.8 5.4 54 532-585 250-305 (823)
382 cd06316 PBP1_ABC_sugar_binding 63.9 24 0.00051 37.0 7.8 79 74-156 1-82 (294)
383 cd06282 PBP1_GntR_like_2 Ligan 63.8 29 0.00064 35.4 8.4 77 75-156 2-80 (266)
384 cd06277 PBP1_LacI_like_1 Ligan 63.4 38 0.00083 34.7 9.2 75 75-156 2-81 (268)
385 cd06353 PBP1_BmpA_Med_like Per 63.3 55 0.0012 33.7 10.2 144 2-155 55-200 (258)
386 cd06302 PBP1_LsrB_Quorum_Sensi 63.0 29 0.00064 36.5 8.4 78 75-156 2-82 (298)
387 cd01545 PBP1_SalR Ligand-bindi 63.0 30 0.00065 35.5 8.4 78 75-156 2-81 (270)
388 cd01540 PBP1_arabinose_binding 62.4 25 0.00054 36.7 7.7 77 74-156 1-80 (289)
389 cd08550 GlyDH-like Glycerol_de 62.2 33 0.00071 37.2 8.6 83 61-148 12-96 (349)
390 PRK11119 proX glycine betaine 62.1 46 0.001 35.7 9.5 62 371-455 25-87 (331)
391 smart00072 GuKc Guanylate kina 61.8 1.5E+02 0.0033 28.4 12.5 128 4-153 3-134 (184)
392 cd01536 PBP1_ABC_sugar_binding 61.4 32 0.0007 35.0 8.2 78 74-156 1-81 (267)
393 PRK11139 DNA-binding transcrip 61.3 1.4E+02 0.003 31.2 13.2 101 592-696 180-285 (297)
394 cd06300 PBP1_ABC_sugar_binding 61.3 36 0.00077 35.0 8.5 80 74-156 1-86 (272)
395 cd08422 PBP2_CrgA_like The C-t 61.3 49 0.0011 31.3 9.1 66 627-694 125-192 (197)
396 cd06322 PBP1_ABC_sugar_binding 61.2 34 0.00074 35.0 8.4 77 75-156 2-81 (267)
397 cd06299 PBP1_LacI_like_13 Liga 61.1 52 0.0011 33.6 9.7 76 75-156 2-79 (265)
398 cd06318 PBP1_ABC_sugar_binding 60.6 31 0.00066 35.8 7.9 78 74-156 1-81 (282)
399 cd06303 PBP1_LuxPQ_Quorum_Sens 60.3 27 0.00059 36.2 7.5 81 74-155 1-84 (280)
400 PRK13010 purU formyltetrahydro 60.0 2.3E+02 0.0049 29.7 14.3 90 4-99 10-117 (289)
401 cd01538 PBP1_ABC_xylose_bindin 59.9 42 0.00091 35.0 8.8 77 75-156 2-81 (288)
402 PF04273 DUF442: Putative phos 59.0 1.1E+02 0.0024 26.7 9.6 84 66-151 22-106 (110)
403 cd06270 PBP1_GalS_like Ligand 58.6 49 0.0011 33.9 9.0 76 75-156 2-79 (268)
404 PF12683 DUF3798: Protein of u 58.3 1.4E+02 0.0031 30.5 11.3 151 4-156 62-224 (275)
405 cd01391 Periplasmic_Binding_Pr 57.6 39 0.00084 34.0 8.0 78 74-156 1-83 (269)
406 PRK10355 xylF D-xylose transpo 57.2 54 0.0012 35.2 9.2 80 72-156 25-107 (330)
407 PRK01686 hisG ATP phosphoribos 56.8 2.1E+02 0.0046 28.4 12.5 92 601-699 114-207 (215)
408 PRK10936 TMAO reductase system 56.5 48 0.001 35.7 8.8 81 72-156 46-129 (343)
409 cd06320 PBP1_allose_binding Pe 56.4 44 0.00095 34.5 8.2 80 74-156 1-83 (275)
410 PF14851 FAM176: FAM176 family 56.4 10 0.00022 35.1 2.8 28 736-763 22-51 (153)
411 cd08178 AAD_C C-terminal alcoh 56.1 38 0.00082 37.5 7.9 78 70-149 19-98 (398)
412 PF07302 AroM: AroM protein; 55.5 1.1E+02 0.0024 30.5 10.0 73 73-151 126-200 (221)
413 PF02310 B12-binding: B12 bind 55.2 1.4E+02 0.0031 26.1 10.3 53 79-139 7-59 (121)
414 TIGR00070 hisG ATP phosphoribo 55.1 81 0.0018 30.4 8.8 74 591-672 100-173 (182)
415 PRK09701 D-allose transporter 55.1 58 0.0013 34.5 9.0 84 70-156 22-108 (311)
416 cd08175 G1PDH Glycerol-1-phosp 54.6 50 0.0011 35.7 8.4 87 61-149 12-100 (348)
417 cd06281 PBP1_LacI_like_5 Ligan 54.6 57 0.0012 33.4 8.7 77 75-156 2-80 (269)
418 cd06319 PBP1_ABC_sugar_binding 54.5 46 0.00099 34.3 8.0 77 75-156 2-81 (277)
419 COG0563 Adk Adenylate kinase a 54.3 28 0.0006 33.5 5.6 29 6-34 3-31 (178)
420 cd01574 PBP1_LacI Ligand-bindi 54.3 62 0.0013 33.0 8.9 77 75-156 2-80 (264)
421 PF13380 CoA_binding_2: CoA bi 53.9 20 0.00043 31.7 4.2 86 73-167 1-88 (116)
422 cd06315 PBP1_ABC_sugar_binding 53.8 71 0.0015 33.1 9.3 79 73-156 1-82 (280)
423 cd01539 PBP1_GGBP Periplasmic 53.3 55 0.0012 34.5 8.5 78 74-156 1-83 (303)
424 PRK00002 aroB 3-dehydroquinate 53.3 1.3E+02 0.0029 32.6 11.5 101 61-167 20-127 (358)
425 PRK14737 gmk guanylate kinase; 53.3 1.8E+02 0.004 28.1 11.3 94 3-105 4-100 (186)
426 PRK10014 DNA-binding transcrip 53.3 72 0.0016 34.2 9.6 79 73-156 65-145 (342)
427 cd06295 PBP1_CelR Ligand bindi 53.1 56 0.0012 33.6 8.4 77 72-156 3-88 (275)
428 cd06323 PBP1_ribose_binding Pe 53.1 54 0.0012 33.5 8.2 77 75-156 2-81 (268)
429 cd08179 NADPH_BDH NADPH-depend 53.1 37 0.00081 37.2 7.2 78 70-149 21-101 (375)
430 TIGR02667 moaB_proteo molybden 52.9 89 0.0019 29.5 8.8 65 72-140 4-72 (163)
431 PF00218 IGPS: Indole-3-glycer 52.9 97 0.0021 31.7 9.5 88 60-157 70-160 (254)
432 PRK11303 DNA-binding transcrip 52.5 77 0.0017 33.7 9.6 80 72-156 61-142 (328)
433 cd00886 MogA_MoaB MogA_MoaB fa 52.5 82 0.0018 29.3 8.4 63 74-140 2-70 (152)
434 TIGR02637 RhaS rhamnose ABC tr 52.4 53 0.0011 34.5 8.1 77 76-156 2-82 (302)
435 TIGR02634 xylF D-xylose ABC tr 52.3 53 0.0012 34.6 8.1 71 81-156 9-80 (302)
436 cd08177 MAR Maleylacetate redu 51.9 38 0.00082 36.5 6.9 84 61-149 12-97 (337)
437 TIGR03298 argP transcriptional 51.5 3E+02 0.0065 28.6 16.0 64 406-482 107-170 (292)
438 COG0134 TrpC Indole-3-glycerol 51.4 46 0.001 33.8 6.8 87 61-157 69-158 (254)
439 cd06309 PBP1_YtfQ_like Peripla 51.3 40 0.00086 34.8 6.9 71 81-156 10-81 (273)
440 PRK10200 putative racemase; Pr 51.2 80 0.0017 31.8 8.7 41 61-104 106-147 (230)
441 cd08180 PDD 1,3-propanediol de 50.8 46 0.00099 35.8 7.3 78 68-148 18-97 (332)
442 cd08197 DOIS 2-deoxy-scyllo-in 50.7 1.8E+02 0.004 31.5 11.9 101 62-167 13-119 (355)
443 cd06321 PBP1_ABC_sugar_binding 50.4 62 0.0013 33.2 8.2 77 75-156 2-83 (271)
444 cd06273 PBP1_GntR_like_1 This 50.2 73 0.0016 32.5 8.7 76 75-156 2-79 (268)
445 cd06296 PBP1_CatR_like Ligand- 50.1 68 0.0015 32.8 8.4 76 75-156 2-79 (270)
446 cd06278 PBP1_LacI_like_2 Ligan 50.1 69 0.0015 32.6 8.4 75 75-156 2-78 (266)
447 COG1794 RacX Aspartate racemas 49.9 66 0.0014 31.8 7.3 44 58-104 103-146 (230)
448 PF01634 HisG: ATP phosphoribo 49.8 25 0.00054 33.2 4.4 101 591-699 57-159 (163)
449 PRK06027 purU formyltetrahydro 49.7 2.8E+02 0.006 29.1 12.6 96 4-105 7-121 (286)
450 cd01575 PBP1_GntR Ligand-bindi 49.7 67 0.0015 32.7 8.3 76 75-156 2-79 (268)
451 cd06307 PBP1_uncharacterized_s 49.7 56 0.0012 33.7 7.7 80 74-156 1-84 (275)
452 cd06167 LabA_like LabA_like pr 49.1 2.1E+02 0.0046 26.2 11.6 68 87-156 52-124 (149)
453 PRK05452 anaerobic nitric oxid 48.8 3.7E+02 0.0079 30.6 14.4 137 8-169 198-348 (479)
454 PF00532 Peripla_BP_1: Peripla 48.7 43 0.00093 34.9 6.6 73 73-151 2-76 (279)
455 TIGR02370 pyl_corrinoid methyl 48.4 1.4E+02 0.0031 29.2 9.7 87 73-167 85-175 (197)
456 cd06314 PBP1_tmGBP Periplasmic 48.3 60 0.0013 33.4 7.7 77 75-156 2-80 (271)
457 PRK10653 D-ribose transporter 48.3 1E+02 0.0022 32.2 9.5 80 72-156 26-108 (295)
458 cd06317 PBP1_ABC_sugar_binding 48.2 70 0.0015 32.8 8.2 77 75-156 2-82 (275)
459 TIGR00249 sixA phosphohistidin 48.0 94 0.002 28.9 8.1 98 52-152 23-120 (152)
460 KOG3713 Voltage-gated K+ chann 47.3 23 0.00049 39.1 4.1 63 508-574 357-421 (477)
461 cd01542 PBP1_TreR_like Ligand- 47.2 82 0.0018 31.9 8.4 75 75-155 2-78 (259)
462 TIGR00640 acid_CoA_mut_C methy 47.1 1.3E+02 0.0027 27.4 8.4 73 76-156 6-82 (132)
463 PRK09189 uroporphyrinogen-III 46.9 1E+02 0.0022 31.3 8.8 88 58-153 102-191 (240)
464 cd06304 PBP1_BmpA_like Peripla 46.9 64 0.0014 33.0 7.6 61 74-140 1-65 (260)
465 cd06274 PBP1_FruR Ligand bindi 46.9 90 0.002 31.8 8.7 76 75-156 2-79 (264)
466 cd06283 PBP1_RegR_EndR_KdgR_li 46.5 87 0.0019 31.9 8.5 76 75-156 2-79 (267)
467 cd06285 PBP1_LacI_like_7 Ligan 46.5 87 0.0019 31.9 8.5 76 75-156 2-79 (265)
468 PRK13054 lipid kinase; Reviewe 46.1 1.9E+02 0.0042 30.4 11.1 75 73-153 4-78 (300)
469 TIGR02417 fruct_sucro_rep D-fr 45.9 1.3E+02 0.0027 32.1 9.9 80 72-156 60-141 (327)
470 PF14981 FAM165: FAM165 family 45.9 51 0.0011 23.1 4.1 33 732-764 3-35 (51)
471 cd01324 cbb3_Oxidase_CcoQ Cyto 45.9 22 0.00047 25.7 2.6 27 498-524 12-38 (48)
472 PF01745 IPT: Isopentenyl tran 45.8 13 0.00028 36.5 1.9 31 4-34 2-32 (233)
473 cd02067 B12-binding B12 bindin 45.4 1.3E+02 0.0029 26.3 8.4 71 77-155 4-78 (119)
474 cd06324 PBP1_ABC_sugar_binding 45.3 80 0.0017 33.2 8.2 77 75-156 2-83 (305)
475 cd08481 PBP2_GcdR_like The C-t 45.0 1.4E+02 0.003 28.0 9.3 97 593-694 86-189 (194)
476 cd08549 G1PDH_related Glycerol 45.0 84 0.0018 33.7 8.2 98 61-167 12-113 (332)
477 TIGR00177 molyb_syn molybdenum 45.0 1.1E+02 0.0024 28.1 8.0 48 88-140 28-75 (144)
478 cd06292 PBP1_LacI_like_10 Liga 44.9 94 0.002 31.8 8.5 77 75-156 2-84 (273)
479 cd00758 MoCF_BD MoCF_BD: molyb 44.4 1.1E+02 0.0025 27.6 7.9 49 87-140 19-67 (133)
480 COG0426 FpaA Uncharacterized f 44.3 4.4E+02 0.0095 28.8 13.1 141 8-171 195-343 (388)
481 cd08447 PBP2_LTTR_aromatics_li 43.7 2.8E+02 0.0061 26.0 16.7 70 402-483 13-82 (198)
482 TIGR00288 conserved hypothetic 43.7 2.5E+02 0.0053 26.4 9.8 85 60-156 43-130 (160)
483 cd08173 Gro1PDH Sn-glycerol-1- 43.5 1.1E+02 0.0023 33.1 8.8 82 62-149 14-98 (339)
484 cd08184 Fe-ADH3 Iron-containin 43.3 1.3E+02 0.0027 32.6 9.2 83 61-149 12-101 (347)
485 PRK15395 methyl-galactoside AB 43.2 1.4E+02 0.0029 32.0 9.6 82 70-156 22-107 (330)
486 cd06354 PBP1_BmpA_PnrA_like Pe 42.9 90 0.002 32.1 7.9 61 74-140 1-66 (265)
487 PRK14723 flhF flagellar biosyn 42.8 2.8E+02 0.006 33.4 12.4 24 4-27 186-209 (767)
488 cd06313 PBP1_ABC_sugar_binding 42.7 80 0.0017 32.5 7.5 71 81-156 10-81 (272)
489 KOG0025 Zn2+-binding dehydroge 42.7 1.8E+02 0.0038 30.2 9.2 96 47-155 162-257 (354)
490 PRK13957 indole-3-glycerol-pho 41.6 2.5E+02 0.0055 28.6 10.3 87 61-157 64-153 (247)
491 cd03522 MoeA_like MoeA_like. T 41.5 1.5E+02 0.0033 31.4 9.2 68 70-141 157-229 (312)
492 PF02310 B12-binding: B12 bind 41.4 1.3E+02 0.0027 26.5 7.6 70 61-140 18-88 (121)
493 PF07287 DUF1446: Protein of u 40.9 2.8E+02 0.0062 30.0 11.2 73 4-97 23-120 (362)
494 cd08475 PBP2_CrgA_like_6 The C 40.7 3E+02 0.0065 25.7 11.0 66 628-695 128-195 (199)
495 cd06286 PBP1_CcpB_like Ligand- 40.5 1.2E+02 0.0025 30.8 8.3 73 75-153 2-76 (260)
496 PRK14987 gluconate operon tran 40.4 1.8E+02 0.0038 31.0 10.0 78 73-156 64-143 (331)
497 cd06298 PBP1_CcpA_like Ligand- 40.3 1.1E+02 0.0025 31.0 8.3 76 75-156 2-79 (268)
498 cd08169 DHQ-like Dehydroquinat 40.2 2.4E+02 0.0052 30.4 10.8 100 62-167 13-118 (344)
499 PRK00843 egsA NAD(P)-dependent 40.1 1.7E+02 0.0038 31.6 9.8 96 61-167 22-120 (350)
500 PF06506 PrpR_N: Propionate ca 40.0 87 0.0019 30.0 6.7 109 31-158 38-146 (176)
No 1
>KOG1054 consensus Glutamate-gated AMPA-type ion channel receptor subunit GluR2 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=1.4e-88 Score=698.36 Aligned_cols=715 Identities=19% Similarity=0.325 Sum_probs=589.5
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
.++|.||+|-+.--....+..+|...++|+|+++. | ++...++..++.|+-. .++++++.|++|.+++++| |
T Consensus 88 s~Gv~Aifg~yd~ks~~~ltsfc~aLh~~~vtpsf--p--~~~~~~Fviq~RP~l~---~al~s~i~hy~W~~fv~ly-D 159 (897)
T KOG1054|consen 88 SRGVYAIFGFYDKKSVNTLTSFCGALHVSFVTPSF--P--TDGDNQFVIQMRPALK---GALLSLIDHYKWEKFVYLY-D 159 (897)
T ss_pred hhhHhhheecccccchhhhhhhccceeeeeecccC--C--cCCCceEEEEeCchHH---HHHHHHHHhcccceEEEEE-c
Confidence 46899999999999999999999999999998755 2 2344578888888754 7999999999999999999 7
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
.+-|...++++.+.+.+++.+|.....-.+. +...++.+++.+...+.+-|++.|..+....++.|+.+.|....+|
T Consensus 160 ~~rg~s~Lqai~~~a~~~nw~VtA~~v~~~~---d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il~q~i~~~k~~~~Y 236 (897)
T KOG1054|consen 160 TDRGLSILQAIMEAAAQNNWQVTAINVGNIN---DVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQVIELGKHVKGY 236 (897)
T ss_pred ccchHHHHHHHHHHHHhcCceEEEEEcCCcc---cHHHHHHHHHHHhccccceEEEEcccHHHHHHHHHHHHHhhhccce
Confidence 7789999999999999999999876544333 4566999999999999999999999998888999998988888999
Q ss_pred EEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcC------CCCCCCcchhhHhhHHHHHH
Q 003167 162 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSN------GSIGLNPYGLYAYDTVWMIA 235 (843)
Q Consensus 162 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~YDAv~~la 235 (843)
++|+.+......+. ........++.+++..+.++|..++|.++|++... +..++.+-++.+|||+.+++
T Consensus 237 HYvlaNl~f~d~dl-----~~f~~g~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~ 311 (897)
T KOG1054|consen 237 HYVLANLGFTDIDL-----ERFQHGGANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMA 311 (897)
T ss_pred EEEEeeCCCchhhH-----HHHhcCCcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHH
Confidence 99998755444333 23455667899999999999999999999986542 22456677899999999999
Q ss_pred HHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEeeec
Q 003167 236 RALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEH 315 (843)
Q Consensus 236 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~~~ 315 (843)
+|++.+..+..+... ++-.|+++. .+..+|.+|..+-++|+++.++|+||+|+||..|.|.+.+.+|+.+..+
T Consensus 312 eaf~~~~~q~~~~~r------RG~~GD~~a-n~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~ 384 (897)
T KOG1054|consen 312 EAFRSLRRQRIDISR------RGNAGDCLA-NPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSN 384 (897)
T ss_pred HHHHHHHHhhhchhc------cCCCccccC-CCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccC
Confidence 999999876544322 222343333 2467888999999999999999999999999999999999999999988
Q ss_pred CceeeeeeecCCCCCcccCCcccccCCCCCCCCCCccceeeeCCCcccCCccccccCCCCeeEEEecCcccccccEEe--
Q 003167 316 GYPQQIGYWSNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVWPGGVTSKPRGWVFPNNGRQLRIGVPNRVSYRDFVFK-- 393 (843)
Q Consensus 316 ~~~~~VG~w~~~~gl~~~~~~~~~~~~~~~~~~~~~l~~i~Wpg~~~~~p~~~~~~~~g~~lrv~v~~~~~~~p~~~~-- 393 (843)
+. +++|+|....|+....... ..+..+. ....++..|.+.-..||.-+...
T Consensus 385 ~~-rk~~~W~e~~~fv~~~t~a-~~~~d~~-------------------------~~~n~tvvvttiL~spyvm~kkn~~ 437 (897)
T KOG1054|consen 385 GS-RKVGYWNEGEGFVPGSTVA-QSRNDQA-------------------------SKENRTVVVTTILESPYVMLKKNHE 437 (897)
T ss_pred Cc-ceeeeecccCceeeccccc-ccccccc-------------------------ccccceEEEEEecCCchhHHHhhHH
Confidence 87 9999999988866432210 0000000 11233444444332233222211
Q ss_pred -ecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCC---CCCCCCC-hHHHHHHHHcCcccEEEeceeeecCcceeeeecc
Q 003167 394 -VNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYG---DGHKNPT-YSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQ 468 (843)
Q Consensus 394 -~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~---~~~~n~~-~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~ 468 (843)
-.|+.++.|||+||+.+||++.++++++..+..| .....++ |+||++.|..|++|+++++++||.+|++.+|||.
T Consensus 438 ~~egn~ryEGyCvdLa~~iAkhi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSK 517 (897)
T KOG1054|consen 438 QLEGNERYEGYCVDLAAEIAKHIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSK 517 (897)
T ss_pred HhcCCcccceeHHHHHHHHHHhcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhcccc
Confidence 1267899999999999999999987666666433 2335666 9999999999999999999999999999999999
Q ss_pred cccccceEEEEeccC-CCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCC-------------cccch
Q 003167 469 PYIESGLVVVAPVRK-LNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPP-------------RKQIV 534 (843)
Q Consensus 469 p~~~~~~~~~v~~~~-~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~-------------~~~~~ 534 (843)
||+..|+++|+++|+ ..++.++|+.|+..++|+|++..++.+++++++..|+++.+|+-.. -+++.
T Consensus 518 PfMslGISIMIKKPqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgif 597 (897)
T KOG1054|consen 518 PFMSLGISIMIKKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIF 597 (897)
T ss_pred chhhcCeEEEEeCcccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhh
Confidence 999999999999998 7889999999999999999999999999999999999987765321 24589
Q ss_pred hhHHHHHHHHhhcccc-cccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCC-eEEEEeCch
Q 003167 535 TVLWFSFSTMFFAHRE-NTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSND-RVGYQVGSF 612 (843)
Q Consensus 535 ~~~~~~~~~l~~~~~~-~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~-~i~~~~~~~ 612 (843)
|++||+++++++||.+ .|||.|+|++..+||||+|||+++|||||++|||++++.+||++.+||.+|.+ ..|+..+..
T Consensus 598 NsLWFsLgAFMQQG~DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLAkQteIaYGt~~~GS 677 (897)
T KOG1054|consen 598 NSLWFSLGAFMQQGCDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLAKQTEIAYGTLDSGS 677 (897)
T ss_pred HHHHHHHHHHHhcCCCCCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHhhcceeeeeecCCCc
Confidence 9999999999999988 89999999999999999999999999999999999999999999999998876 356667777
Q ss_pred HHHHHHHhhC---------C-CCcceEeCCCHHHHHHHHhc-CCcEEEEcChhhHHHHHhc-CCCeEEeCCccccCccee
Q 003167 613 AENYLIEELS---------I-PKSRLVALGSPEEYAIALEN-RTVAAVVDERPYIDLFLSD-HCQFSVRGQEFTKSGWGF 680 (843)
Q Consensus 613 ~~~~l~~~~~---------~-~~~~~~~~~~~~~~~~~l~~-g~~~a~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~ 680 (843)
..+|++...- + ....-+.+.+..|+++.+++ .+.+|++.+....+|..++ +|+.+.+|..+.+.+||+
T Consensus 678 TkeFFr~Skiavy~kMW~yM~SaepsVFv~t~aeGv~rVRksKGkyAfLLEsTmNey~eqRkPCDTMKVGgNLds~GYGi 757 (897)
T KOG1054|consen 678 TKEFFRRSKIAVYEKMWTYMKSAEPSVFVRTTAEGVARVRKSKGKYAFLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGI 757 (897)
T ss_pred hHHHHhhhhHHHHHHHHHHHhcCCcceeeehhhhHHHHHHhcCCceEeehHhhhhhhhhccCCccceecccccCCcceee
Confidence 7788753210 0 00111445688899999988 7778999999999998655 899999999999999999
Q ss_pred eecCCCCchHHHHHHHHhhhccccHHHHHHhhcc-cCCCCCCCCCC--CCCCcccccchHHHHHHHHHHHHHHHHHHHHH
Q 003167 681 AFPRDSPLAIDMSTAILTLSENGELQRIHDKWLR-KKACSSESSQS--DSEQLQIQSFRGLFLICGIACFLALLAYFCLM 757 (843)
Q Consensus 681 ~~~k~spl~~~in~~i~~l~e~G~~~~~~~kw~~-~~~c~~~~~~~--~~~~L~l~~~~g~f~il~~g~~lal~vf~~e~ 757 (843)
|.||||.|+..+|.++++|.|.|+++++++|||. +++|....... +.+.|+|.+++|+||||..|+++|.++.++|+
T Consensus 758 ATp~Gsslr~~vNLAvLkL~E~G~LdKLkNKWWYDkGeC~sg~~ds~~ktsaLsLSnVAGvFYIL~gGl~laMlvALiEF 837 (897)
T KOG1054|consen 758 ATPKGSSLRNAVNLAVLKLNEQGLLDKLKNKWWYDKGECGSGGGDSKDKTSALSLSNVAGVFYILVGGLGLAMLVALIEF 837 (897)
T ss_pred cCCCCcccccchhhhhhhhcccchHHHhhhhhcccccccCCCCCCCCcchhhcchhhccceeeeehhhHHHHHHHHHHHH
Confidence 9999999999999999999999999999999998 99999876543 44799999999999999999999999999999
Q ss_pred HHHhhhccc
Q 003167 758 LRQFKKYSA 766 (843)
Q Consensus 758 ~~~~~~~~~ 766 (843)
+|+.+...+
T Consensus 838 ~yksr~Eak 846 (897)
T KOG1054|consen 838 CYKSRAEAK 846 (897)
T ss_pred HHHhhHHHH
Confidence 998776544
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=2.7e-78 Score=625.06 Aligned_cols=688 Identities=23% Similarity=0.405 Sum_probs=571.9
Q ss_pred CCeEEEE-c-CCChHH---HHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEE
Q 003167 3 TDTLAIV-G-PQSAVM---AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVI 76 (843)
Q Consensus 3 ~~V~aii-G-p~~S~~---~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ 76 (843)
..|.||+ . |.+|+. -.+++-.+..+++|++....-+..+++ .-++.|+|++|+.++|+..-.+++..|.|++|.
T Consensus 94 ~~vyav~vSh~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~y~~vi 173 (993)
T KOG4440|consen 94 SQVYAVLVSHPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDAIFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYSYNHVI 173 (993)
T ss_pred hheeEEEecCCCCCCcccccccceeeccceeeeeeeeeehhhhhccCceeeeEeecCCCccchhHHHHHHHHHhhcceEE
Confidence 4566665 2 223322 245666788999999999888989998 668999999999999999999999999999999
Q ss_pred EEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 77 AIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 77 ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
++.+||.-|+....+++..+++...++.....+.++ ...++..|-+.|..++||+++....+++..+++.|..++|
T Consensus 174 ~l~s~d~~gra~~~r~qt~~e~~~~~~e~v~~f~p~----~~~~t~~l~~~k~~~~rv~~~~as~dDA~~ifr~Ag~lnm 249 (993)
T KOG4440|consen 174 LLVSDDHEGRAAQKRLQTLLEERESKAEKVLQFDPG----TKNVTALLMEAKELEARVIILSASEDDAATIFRAAGMLNM 249 (993)
T ss_pred EEEcccccchhHHhHHHHHHHHHhhhhhhheecCcc----cchHHHHHhhhhhhhheeEEeecccchHHHHHHhhhhhcc
Confidence 999999999999888888888776666666667777 7889999999999999999999999999999999999999
Q ss_pred cccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHH
Q 003167 157 MDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIAR 236 (843)
Q Consensus 157 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~ 236 (843)
.+.||+||++...... .....|++|.+.....+ -.+..-|++.++|.
T Consensus 250 TG~G~VWiV~E~a~~~-----------nn~PdG~LGlqL~~~~~----------------------~~~hirDsv~vlas 296 (993)
T KOG4440|consen 250 TGSGYVWIVGERAISG-----------NNLPDGILGLQLINGKN----------------------ESAHIRDSVGVLAS 296 (993)
T ss_pred cCceEEEEEecccccc-----------CCCCCceeeeEeecCcc----------------------ccceehhhHHHHHH
Confidence 9999999998743322 23367899988754321 12456799999999
Q ss_pred HHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcc-cCCcceeeEeccCCCccCCcEEEEEee-e
Q 003167 237 ALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTN-MTGLSGPIHFNQDRSLLHPSYDIINVI-E 314 (843)
Q Consensus 237 Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-f~G~tG~v~fd~~G~~~~~~~~I~~~~-~ 314 (843)
|++++.+...-.. ....||++...|..|..|.+.+...+ -.|.||++.||++|||....|+|+|+. +
T Consensus 297 Av~e~~~~e~I~~-----------~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~ 365 (993)
T KOG4440|consen 297 AVHELLEKENITD-----------PPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQN 365 (993)
T ss_pred HHHHHHhhccCCC-----------CCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhh
Confidence 9999986533211 12236677778888888988888755 579999999999999999999999995 4
Q ss_pred cCceeeeeeecCCCCCcccCCcccccCCCCCCCCCCccceeeeCCCcccCCccccccCCCCeeEEEecCcccccccEEee
Q 003167 315 HGYPQQIGYWSNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVWPGGVTSKPRGWVFPNNGRQLRIGVPNRVSYRDFVFKV 394 (843)
Q Consensus 315 ~~~~~~VG~w~~~~gl~~~~~~~~~~~~~~~~~~~~~l~~i~Wpg~~~~~p~~~~~~~~g~~lrv~v~~~~~~~p~~~~~ 394 (843)
... +.+|.|+... ...+...|+|||+-...|++..+| ++|||.+.+.+ ||++..
T Consensus 366 rk~-Vg~~~yd~~r-------------------~~~nd~~IiWpGg~~~KP~gi~~p---thLrivTi~~~---PFVYv~ 419 (993)
T KOG4440|consen 366 RKL-VGVGIYDGTR-------------------VIPNDRKIIWPGGETEKPRGIQMP---THLRIVTIHQE---PFVYVK 419 (993)
T ss_pred hhh-hhhcccccee-------------------eccCCceeecCCCCcCCCcccccc---ceeEEEEeccC---CeEEEe
Confidence 344 5555554321 112346899999999999999988 56888888754 444432
Q ss_pred c-------------------------------C------cceEEeEeHHHHHHHHHHCCCcccEEEEeCCC-CC------
Q 003167 395 N-------------------------------G------TDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGD-GH------ 430 (843)
Q Consensus 395 ~-------------------------------~------~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~-~~------ 430 (843)
. + .-|+.||||||+-.+++.+||+++..+++.|. |.
T Consensus 420 p~~sd~~c~eef~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnn 499 (993)
T KOG4440|consen 420 PTLSDGTCKEEFTVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNN 499 (993)
T ss_pred cCCCCcchhhhccccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeec
Confidence 0 0 12789999999999999999999888887542 11
Q ss_pred ----CCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHH
Q 003167 431 ----KNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVF 506 (843)
Q Consensus 431 ----~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~ 506 (843)
...+|+|++++|.+|++||++++++|+++|.++++||.||...|+.++.+++.+.+.+..||+||+..+|+++.++
T Consensus 500 sseT~~kew~G~iGEL~~~~ADMivaplTINpERa~yieFskPfkYqGitILeKk~~r~Stl~SFlQPfqstLW~lv~~S 579 (993)
T KOG4440|consen 500 SSETNKKEWNGMIGELLSGQADMIVAPLTINPERAQYIEFSKPFKYQGITILEKKEIRRSTLDSFLQPFQSTLWLLVGLS 579 (993)
T ss_pred ccccccceehhhhhhhhCCccceEeeceeeChhhhhheeccCcccccceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHH
Confidence 1236999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhhhhcccCC-CCCC-------CCcccchhhHHHHHHHHhhcccc--cccccchhHHHHHHHHHHHHHHhhhh
Q 003167 507 FLVVGTVVWILEHRLND-EFRG-------PPRKQIVTVLWFSFSTMFFAHRE--NTVSTLGRVVLIIWLFVVLIITSSYT 576 (843)
Q Consensus 507 ~~~~~~v~~~~~~~~~~-~~~~-------~~~~~~~~~~~~~~~~l~~~~~~--~~~s~~~R~~~~~w~~~~lil~~~Yt 576 (843)
..+++++++++.|+++. .|.- .....++..+||+|+.+++.|.. .|+|.+.|++-++|+-|++|+.++||
T Consensus 580 VhvVal~lYlLDrfSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLLNSGigEgtPRSfSARvLGmVWaGFaMIiVASYT 659 (993)
T KOG4440|consen 580 VHVVALMLYLLDRFSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYT 659 (993)
T ss_pred HHHHHHHHHHHHhcCcccceeeccCccchhhhcchhhhHHHHhHhhhccccCCCCCcchhHHHHHHHHhhhheeeehhhh
Confidence 99999999999998865 2322 22356899999999999999743 89999999999999999999999999
Q ss_pred cceeeeeeeccccCCCCChHHhhh----CCCeEEEEeCchHHHHHHHhhCCCC--cce--EeCCCHHHHHHHHhcCCcEE
Q 003167 577 ASLTSILTVQQLSSPIKGIDTLMT----SNDRVGYQVGSFAENYLIEELSIPK--SRL--VALGSPEEYAIALENRTVAA 648 (843)
Q Consensus 577 a~L~s~Lt~~~~~~~i~s~~dL~~----~~~~i~~~~~~~~~~~l~~~~~~~~--~~~--~~~~~~~~~~~~l~~g~~~a 648 (843)
|||++||...+.+..++++.|-.- .+...|.+.+|....||+++-.... .+| ..|.+.+|.++++++|..+|
T Consensus 660 ANLAAFLVLdrPe~~ltGinDpRLRNps~nf~~aTVk~SsVd~YFrRqVELS~MyR~ME~hNy~~A~eAiq~v~~gkL~A 739 (993)
T KOG4440|consen 660 ANLAAFLVLDRPEERLTGINDPRLRNPSDNFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQAVRDGKLHA 739 (993)
T ss_pred hhhhhheeecCccccccCCCCccccCcccceeEEEecCccHHHHHHHHhHHHHHHHhhhhcchhhHHHHHHHHHcCceeE
Confidence 999999999999999999998542 2345788899999999976433221 122 34678899999999999999
Q ss_pred EEcChhhHHHHHhcCCCeEEeCCccccCcceeeecCCCCchHHHHHHHHhhhccccHHHHHHhhcc---cCCCCCCCCCC
Q 003167 649 VVDERPYIDLFLSDHCQFSVRGQEFTKSGWGFAFPRDSPLAIDMSTAILTLSENGELQRIHDKWLR---KKACSSESSQS 725 (843)
Q Consensus 649 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~kw~~---~~~c~~~~~~~ 725 (843)
|+-|+..++|..+++|++...|+.|...+||+.++|+||+.+.+..+|+++.|+|+++++.++|.. ...|.... .
T Consensus 740 FIWDS~rLEfEAs~~CeLvT~GeLFgRSgyGIGlqK~SPWt~~vtlaIL~~hEsGfMEkLDk~Wi~~Ggpq~c~~~~--k 817 (993)
T KOG4440|consen 740 FIWDSARLEFEASQKCELVTTGELFGRSGYGIGLQKDSPWTQNVTLAILKSHESGFMEKLDKTWIRYGGPQECDSRS--K 817 (993)
T ss_pred EEeecceeeehhhcccceEeccccccccccccccccCCCCcchhhHHHHHhhhcchHHHHHHHHHhcCCcchhhhhc--c
Confidence 999999999999999999999999999999999999999999999999999999999999999998 24454433 3
Q ss_pred CCCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q 003167 726 DSEQLQIQSFRGLFLICGIACFLALLAYFCLMLRQFKKYSA 766 (843)
Q Consensus 726 ~~~~L~l~~~~g~f~il~~g~~lal~vf~~e~~~~~~~~~~ 766 (843)
.+..|++.++.|+|++.+.|+++++.+.++|+.|++++..+
T Consensus 818 ~PatLgl~NMagvFiLV~~Gia~GifLifiEv~Ykrh~~~k 858 (993)
T KOG4440|consen 818 APATLGLENMAGVFILVAGGIAAGIFLIFIEVAYKRHKDAK 858 (993)
T ss_pred CcccccccccccEEEEEecchhheeeEEEEeehhhhhhhhh
Confidence 67889999999999999999999988889999998877643
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=5.6e-73 Score=607.08 Aligned_cols=692 Identities=21% Similarity=0.375 Sum_probs=537.9
Q ss_pred CCeEEEE-cCCCh--HHHHHHHHhcccCCCcEEecccCCC-CCCCCC-CCceEEcCCChHHhHHHHHHHHHHcCCcEEEE
Q 003167 3 TDTLAIV-GPQSA--VMAHVLSHLANELQVPLLSFTALDP-TLSPLQ-YPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIA 77 (843)
Q Consensus 3 ~~V~aii-Gp~~S--~~~~av~~~~~~~~vP~Is~~at~~-~ls~~~-~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~i 77 (843)
.+|.+|| ++.+- +++..+--+....+||+|+..+.+. .+++.. -..|++..|+-.+|++++.++|+.|+|..+++
T Consensus 99 ~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sieqqa~Vml~iL~~ydW~~Fs~ 178 (1258)
T KOG1053|consen 99 ARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIEQQAQVMLKILEEYDWYNFSL 178 (1258)
T ss_pred cceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHHHHHHHHHHHHHHcCcceeEE
Confidence 4667766 44433 2223333356788999999877544 344432 24799999999999999999999999999999
Q ss_pred EEecCCCCcchHHHHHHHHHh--cCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcC
Q 003167 78 IFNDDDQGRNGVTALGDKLAE--IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 78 i~~d~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g 155 (843)
|...-+..+.....+++.... .|.++.......++ .+++......++|+-++.||+++|+.+++..|+..|.++|
T Consensus 179 vtt~~pg~~~f~~~ir~~~d~s~vgwe~i~v~~l~~s---~~d~~a~~q~qLkki~a~VillyC~~eea~~IF~~A~q~G 255 (1258)
T KOG1053|consen 179 VTTQFPGNRTFVSLIRQTNDNSHVGWEMINVLTLDPS---TDDLLAKLQAQLKKIQAPVILLYCSREEAERIFEEAEQAG 255 (1258)
T ss_pred EEeecCchHHHHHHHHHhhhhccccceeeeeeecCCC---CCchHHHHHHHHHhcCCcEEEEEecHHHHHHHHHHHHhcC
Confidence 999888777778877777765 36666655555554 2223344455677778999999999999999999999999
Q ss_pred CcccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHH
Q 003167 156 MMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIA 235 (843)
Q Consensus 156 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la 235 (843)
+++++|+||++...... + +...+...|.+.+... .|+ ..+....-|++-++|
T Consensus 256 l~g~~y~Wi~pqlv~g~-~------~~pa~~P~GLisv~~~------------~w~---------~~l~~rVrdgvaiva 307 (1258)
T KOG1053|consen 256 LTGPGYVWIVPQLVEGL-E------PRPAEFPLGLISVSYD------------TWR---------YSLEARVRDGVAIVA 307 (1258)
T ss_pred CcCCceEEEeehhccCC-C------CCCccCccceeeeecc------------chh---------hhHHHHHhhhHHHHH
Confidence 99999999997543321 0 1112334555554321 122 123456779999999
Q ss_pred HHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEeeec
Q 003167 236 RALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEH 315 (843)
Q Consensus 236 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~~~ 315 (843)
.|...+....+..+ ....+|-.-.... ...+..+...|.|++|+| ++++|+++|..++++..++...+.
T Consensus 308 ~aa~s~~~~~~~lp--------~~~~~C~~~~~~~-~~~~~~l~r~l~NvT~~g--~~lsf~~~g~~v~p~lvvI~l~~~ 376 (1258)
T KOG1053|consen 308 RAASSMLRIHGFLP--------EPKMDCREQEETR-LTSGETLHRFLANVTWDG--RDLSFNEDGYLVHPNLVVIDLNRD 376 (1258)
T ss_pred HHHHHHHhhcccCC--------CcccccccccCcc-ccchhhhhhhhheeeecc--cceeecCCceeeccceEEEecCCC
Confidence 99999876543321 1111111111111 224889999999999999 889999999989999999888888
Q ss_pred CceeeeeeecCCCCCcccCCcccccCCCCCCCCCCccceeeeCCCcccCCccccccCCCCeeEEEecCcccccccEEeec
Q 003167 316 GYPQQIGYWSNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVWPGGVTSKPRGWVFPNNGRQLRIGVPNRVSYRDFVFKVN 395 (843)
Q Consensus 316 ~~~~~VG~w~~~~gl~~~~~~~~~~~~~~~~~~~~~l~~i~Wpg~~~~~p~~~~~~~~g~~lrv~v~~~~~~~p~~~~~~ 395 (843)
..|.+||.|.... |.|. ..+||-... .+. +. ....+|+|.+-+.+||..-...|.
T Consensus 377 r~We~VG~We~~~-L~M~--------------------y~vWPr~~~-~~q--~~-~d~~HL~VvTLeE~PFVive~vDP 431 (1258)
T KOG1053|consen 377 RTWERVGSWENGT-LVMK--------------------YPVWPRYHK-FLQ--PV-PDKLHLTVVTLEERPFVIVEDVDP 431 (1258)
T ss_pred cchheeceecCCe-EEEe--------------------ccccccccC-ccC--CC-CCcceeEEEEeccCCeEEEecCCC
Confidence 8889999997643 4443 335663221 111 11 122356666665433321111100
Q ss_pred -----------------------------CcceEEeEeHHHHHHHHHHCCCcccEEEEeCCC-C-CCCCChHHHHHHHHc
Q 003167 396 -----------------------------GTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGD-G-HKNPTYSELINQITT 444 (843)
Q Consensus 396 -----------------------------~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~-~-~~n~~~~~~i~~l~~ 444 (843)
-+.|++||||||++.|++.+||+++...+..|. | +.||.|+|||++|..
T Consensus 432 ~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~FtYDLYlVtnGKhGkk~ng~WnGmIGev~~ 511 (1258)
T KOG1053|consen 432 LTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFTYDLYLVTNGKHGKKINGVWNGMIGEVVY 511 (1258)
T ss_pred CcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcceEEEEecCCcccceecCcchhhHHHHHh
Confidence 034899999999999999999997777776552 3 378999999999999
Q ss_pred CcccEEEeceeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHH-HHHhhhhhcccCC
Q 003167 445 GVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVV-GTVVWILEHRLND 523 (843)
Q Consensus 445 g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~-~~v~~~~~~~~~~ 523 (843)
+++|||+++++|+++|.+.+|||.||.++|+++||...+...+.-+||.||++.+|++++++++++ ++.++++|++++-
T Consensus 512 ~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvspsAFLePfs~svWVmmFVm~livaai~vFlFEy~SPv 591 (1258)
T KOG1053|consen 512 QRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSPSAFLEPFSPSVWVMMFVMCLIVAAITVFLFEYFSPV 591 (1258)
T ss_pred hhhheeeeeeEechhhhccccccccccccceEEEEEecCCccCchhhcCCcchHHHHHHHHHHHHHHHHHHHHHhhcCcc
Confidence 999999999999999999999999999999999999999889999999999999999999998876 4556789998743
Q ss_pred CC---------CCCCcccchhhHHHHHHHHhhcc--cccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCC
Q 003167 524 EF---------RGPPRKQIVTVLWFSFSTMFFAH--RENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPI 592 (843)
Q Consensus 524 ~~---------~~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i 592 (843)
.+ .+-+.++++.++|..|+.+++.. .+.|+...+|+++.+|.||++|+.++|||||++||...++..++
T Consensus 592 gyn~~l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~nPKgtTskiMv~VWAfFavifLAsYTANLAAfMIqE~~~d~v 671 (1258)
T KOG1053|consen 592 GYNRNLANGKKPGGPSFTIGKAIWLLWALVFNNSVPVENPKGTTSKIMVLVWAFFAVIFLASYTANLAAFMIQEEYYDTV 671 (1258)
T ss_pred cccccccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhc
Confidence 22 12346789999999999999885 56899999999999999999999999999999999999999999
Q ss_pred CChHHhhhC-------CCeEEEEeCchHHHHHHHhhCCCCcceEeC--CCHHHHHHHHhcCCcEEEEcChhhHHHHHhc-
Q 003167 593 KGIDTLMTS-------NDRVGYQVGSFAENYLIEELSIPKSRLVAL--GSPEEYAIALENRTVAAVVDERPYIDLFLSD- 662 (843)
Q Consensus 593 ~s~~dL~~~-------~~~i~~~~~~~~~~~l~~~~~~~~~~~~~~--~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~- 662 (843)
..+.|=+-+ ..++|.+.++..+++.++++...+..|+.| ...++.++.|++|+.|||+.|...++|...+
T Consensus 672 SGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR~Nyp~MHeYM~kyNq~~v~dal~sLK~gKLDAFIyDaAVLnY~agkD 751 (1258)
T KOG1053|consen 672 SGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIRSNYPEMHEYMVKYNQPGVEDALESLKNGKLDAFIYDAAVLNYMAGKD 751 (1258)
T ss_pred cccCcccccCccccCCCcccccCCCCchhhhHHhccHHHHHHHHHhccCchHHHHHHHhcccchhHHHHHHHHHHhhccC
Confidence 999985532 347898888888888876553333444445 4789999999999999999999999999887
Q ss_pred -CCCeEEeC--CccccCcceeeecCCCCchHHHHHHHHhhhccccHHHHHHhhcccCCCCCCCCCCCCCCcccccchHHH
Q 003167 663 -HCQFSVRG--QEFTKSGWGFAFPRDSPLAIDMSTAILTLSENGELQRIHDKWLRKKACSSESSQSDSEQLQIQSFRGLF 739 (843)
Q Consensus 663 -~~~l~~~~--~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~kw~~~~~c~~~~~~~~~~~L~l~~~~g~f 739 (843)
.|+|..+| +.|...+||+++|||||++..||.+|+++...|+++++++.|+. +.|.+...+..+.+|++++|.|+|
T Consensus 752 egCKLvTIGsgKvFAttGYGIal~k~Spwkr~IdlallQy~gdGeme~Le~~Wlt-gic~n~k~evmSsqLdIdnmaGvF 830 (1258)
T KOG1053|consen 752 EGCKLVTIGSGKVFATTGYGIALPKNSPWKRQIDLALLQYLGDGEMEMLETLWLT-GICHNSKNEVMSSQLDIDNMAGVF 830 (1258)
T ss_pred CCceEEEecCCceeeecceeeecCCCCcchhhHHHHHHHHhccchHHHHHHHHhh-cccccchhhhhhcccChhhhhhHH
Confidence 69999998 89999999999999999999999999999999999999999998 677766666789999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 003167 740 LICGIACFLALLAYFCLMLRQFK 762 (843)
Q Consensus 740 ~il~~g~~lal~vf~~e~~~~~~ 762 (843)
++|++|+++|+++|++|.+++.+
T Consensus 831 ymL~~amgLSllvfi~EHlvYw~ 853 (1258)
T KOG1053|consen 831 YMLAVAMGLSLLVFIWEHLVYWK 853 (1258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999765443
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=8.5e-67 Score=613.11 Aligned_cols=592 Identities=35% Similarity=0.617 Sum_probs=504.3
Q ss_pred HHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchh
Q 003167 123 ELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKR 202 (843)
Q Consensus 123 ~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 202 (843)
.+.+++....+++++++.+..+..++.+|.++||+..+|+|+.+.......+.... ....+..+|.++...+.+....
T Consensus 5 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~s~~ 82 (656)
T KOG1052|consen 5 LLLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDEL--YSLIDVMNGVLGLRGHIPRSEL 82 (656)
T ss_pred HHHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhccccc--ccchhheeeEEeeccCCCccHH
Confidence 45566668899999999988899999999999999999999999987766655432 3445778899999999999999
Q ss_pred hHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHH
Q 003167 203 RRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANI 282 (843)
Q Consensus 203 ~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l 282 (843)
.++|..+|+.. ....+.++.++||+++++|.|+++.... .. ....|.+.+.+.++..+.+.+
T Consensus 83 ~~~~~~~~~~~---~~~~~~~~~~~~D~~~~~a~~~~~~~~~-~~--------------~~~~~~~~~~~~~~~~~~~~~ 144 (656)
T KOG1052|consen 83 LQNFVTRWQTS---NVELLVYALWAYDAIQALARAVESLLNI-GN--------------LSLSCGRNNSWLDALGVFNFG 144 (656)
T ss_pred HHHHHHHHhhc---cccccchhhHHHHHHHHHHHHHHHhhcC-CC--------------CceecCCCCcccchhHHHHHH
Confidence 99999999865 2345678999999999999999997541 11 123344344455688888888
Q ss_pred HhcccC---CcceeeEeccCCCccCCcEEEEEeeecCceeeeeeecCCCCCcccCCcccccCCCCCCCCCCccceeeeCC
Q 003167 283 LQTNMT---GLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVWPG 359 (843)
Q Consensus 283 ~~~~f~---G~tG~v~fd~~G~~~~~~~~I~~~~~~~~~~~VG~w~~~~gl~~~~~~~~~~~~~~~~~~~~~l~~i~Wpg 359 (843)
+..... |.+|.++++.++.+....|+|+|..+.+. +.||.|++..| .+|.|||
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~n~~~~~~-~~ig~W~~~~~-----------------------~~i~~~~ 200 (656)
T KOG1052|consen 145 KKLLVVNLSGVTGQFQFFRGGLLEYFKYEILNLNGSGE-RRIGYWYPRGG-----------------------ENISWPG 200 (656)
T ss_pred HhhhhhccccceeEEEecCCCccccceEEEEEecCcCc-eeEEEecCCCC-----------------------ceeeccC
Confidence 876544 45678888888888999999999999988 88999988653 4678999
Q ss_pred CcccCCccccccCCCCeeEEEecCcccccccEEee---cCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCC--CCCC
Q 003167 360 GVTSKPRGWVFPNNGRQLRIGVPNRVSYRDFVFKV---NGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGH--KNPT 434 (843)
Q Consensus 360 ~~~~~p~~~~~~~~g~~lrv~v~~~~~~~p~~~~~---~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~--~n~~ 434 (843)
.....|++|.+|.+|++|+|+++..+||..+.... .++..+.|+|+||++++++.+||+++++.++++.|. ++|+
T Consensus 201 ~~~~~~~~~~~~~~~~~l~v~~~~~~P~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g~ 280 (656)
T KOG1052|consen 201 KDYFVPKGWFFPTNGKPLRVGVVTEPPFVDLVEDLAILNGNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNGN 280 (656)
T ss_pred CcccCcCCccccCCCceEEEEEeccCCceeeeecccccCCCCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCCC
Confidence 99999999999999999999999877766555441 145699999999999999999999999999876654 4579
Q ss_pred hHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHh
Q 003167 435 YSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVV 514 (843)
Q Consensus 435 ~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~ 514 (843)
|+|++++|.+|++|++ ++++++.+|++++|||.||++.++++++++++.....|.|++||++++|++++++++++++++
T Consensus 281 ~~g~v~~l~~~~advg-~~~tit~~R~~~vdfT~p~~~~~~~i~~~~~~~~~~~~~fl~Pf~~~vW~~i~~~~l~~~~~~ 359 (656)
T KOG1052|consen 281 WDGLVGQLVDGEADVG-ADITITPERSKYVDFTIPYLQFGIVIIVRKPDSRSKLWNFLAPFSPEVWLLILASLLLVGLLL 359 (656)
T ss_pred hhHHHHHHhcCccccc-cceEEeecccccEEeccceEeccEEEEEEecCCcccceEEecCCcHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999 899999999999999999999999999999986555999999999999999999999999999
Q ss_pred hhhhcccCCCCCCCCc------ccchhhHHHHHHHHhhccc-ccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeecc
Q 003167 515 WILEHRLNDEFRGPPR------KQIVTVLWFSFSTMFFAHR-ENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQ 587 (843)
Q Consensus 515 ~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~l~~~~~-~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~ 587 (843)
|+++|+.+.++ ++. ....+++|+++++++.|+. +.|++.++|+++++||++++|++++|||+|+|+||+++
T Consensus 360 ~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~p~~~~~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~ 437 (656)
T KOG1052|consen 360 WILERLSPYEL--PPRQIVTSLFSLLNCLWLTVGSLLQQGSDEIPRSLSTRLLLGAWWLFVLILISSYTANLTAFLTVPR 437 (656)
T ss_pred HHHhccccccC--CccccceeEeecccchhhhhHHHhccCCCccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 99999999888 222 1245688999999998874 58999999999999999999999999999999999999
Q ss_pred ccCCCCChHHhhh-CCCeEEEEeCchHHHHHHHh---hCCCCc-ceEeCCCHHHHHHHHhcCC--cEEEEcChhhHHHHH
Q 003167 588 LSSPIKGIDTLMT-SNDRVGYQVGSFAENYLIEE---LSIPKS-RLVALGSPEEYAIALENRT--VAAVVDERPYIDLFL 660 (843)
Q Consensus 588 ~~~~i~s~~dL~~-~~~~i~~~~~~~~~~~l~~~---~~~~~~-~~~~~~~~~~~~~~l~~g~--~~a~~~~~~~~~~~~ 660 (843)
+..+|++++||.+ .+.++|+..+++...++.+. .....+ +.+.+.+.+++.+++++|. ..+++.+..++.|..
T Consensus 438 ~~~~i~~~~dL~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~v~~~~~~~~~~~~~~~~~~~~~ 517 (656)
T KOG1052|consen 438 LRSPIDSLDDLADQSNIPYGTQRGSFTRIYLEESEDMWAFKVSQRSVPLASPEEGVERVRKGPSGGYAFASDELYLAYLF 517 (656)
T ss_pred cCCcccCHHHHHHhcCCeEEEEecchHHHHHHHHHHHHhhhccCCCccCCCHHHHHHHHHcCCCCceEEEeccHHHHHHH
Confidence 9999999999995 77889999999999999765 333334 6778899999999999984 355555555555544
Q ss_pred hcC--CCeEEeCCccccCcceeeecCCCCchHHHHHHHHhhhccccHHHHHHhhcccC----CCCCCCCCCCCCCccccc
Q 003167 661 SDH--CQFSVRGQEFTKSGWGFAFPRDSPLAIDMSTAILTLSENGELQRIHDKWLRKK----ACSSESSQSDSEQLQIQS 734 (843)
Q Consensus 661 ~~~--~~l~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~kw~~~~----~c~~~~~~~~~~~L~l~~ 734 (843)
.++ |+++++++.+...+++ ++||||||++.++++|+++.|.|.++++++||+... .|.... ....|++++
T Consensus 518 ~~~~~c~~~~v~~~~~~~~~~-~~~~~Spl~~~is~~Il~l~e~g~l~~~~~kw~~~~~~~~~~~~~~---~~~~l~~~~ 593 (656)
T KOG1052|consen 518 LRDEICDLTEVGEPFLYKGYG-AFPKGSPLRSLISRAILKLQETGILQKLKRKWFSKKPCLPKCSQTE---KTKALDLES 593 (656)
T ss_pred hhcCCCceEEeCCcccCCCcc-eecCCCccHHHHHHHHHhhccccHHHHHHHHhccCCCCCCCCCCcc---cccccchhh
Confidence 443 9999999999999999 999999999999999999999999999999999954 343332 467899999
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 003167 735 FRGLFLICGIACFLALLAYFCLMLRQFKKYS 765 (843)
Q Consensus 735 ~~g~f~il~~g~~lal~vf~~e~~~~~~~~~ 765 (843)
++|+|+++++|+++|+++|++|++|++++..
T Consensus 594 ~~g~F~i~~~g~~lal~vfi~E~~~~~~~~~ 624 (656)
T KOG1052|consen 594 FWGLFLILLVGYLLALLVFILELLYSRRRTL 624 (656)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 9999999999999999999999999988875
No 5
>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=2.3e-41 Score=365.82 Aligned_cols=303 Identities=19% Similarity=0.283 Sum_probs=256.3
Q ss_pred CCCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 1 METDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 1 ~~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
|++||+|||||.++..+..++.+|+..+||+|+++. |..+ ..+|++++.|+ +++|+++++++|||++|++||+
T Consensus 53 ~~~gV~AI~Gp~s~~~a~~v~sic~~~~vP~i~~~~--~~~~--~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd 125 (364)
T cd06390 53 FSKGVYAIFGFYDRKTVNMLTSFCGALHVCFITPSF--PVDT--SNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYD 125 (364)
T ss_pred hhcCceEEEccCChhHHHHHHHhhcCCCCCceecCC--CCCC--CCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEe
Confidence 468999999999999999999999999999999754 3332 33568999998 7899999999999999999995
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
+ +||...++.|.+++++.|++|.....++.. +.+++.+|++|+++++++||++|..+.+..+++++.+.+|+..+
T Consensus 126 ~-d~g~~~lq~l~~~~~~~~~~I~~~~~~~~~----~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~g 200 (364)
T cd06390 126 A-DRGLSVLQKVLDTAAEKNWQVTAVNILTTT----EEGYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIG 200 (364)
T ss_pred C-CccHHHHHHHHHhhhccCceeeEEEeecCC----hHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCc
Confidence 4 499999999999999999999988776644 67999999999999999999999999999999999999999999
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCC------CCCCcchhhHhhHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMI 234 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~YDAv~~l 234 (843)
|+||+++......+. ......+.|++++++++++.+.+++|.++|++.+... .+++.+++++|||||++
T Consensus 201 y~wI~t~l~~~~~~~-----~~~~~~~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~ 275 (364)
T cd06390 201 YHYILANLGFMDIDL-----TKFRESGANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVM 275 (364)
T ss_pred eEEEecCCCcccccH-----HHHhcCCcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHH
Confidence 999999833322221 3455688999999999999999999999998765311 24678999999999999
Q ss_pred HHHHHHHhhcCCcccccCCCccCCCCCCcccCC--CcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEe
Q 003167 235 ARALKLFLDQGNTISFSNDTKLNGLGGGTLNLG--ALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 312 (843)
Q Consensus 235 a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~ 312 (843)
|+|++++...+....+. +....|. +..+|..|..|+++|++++|+|+||+|+||++|+|.+..|+|+|+
T Consensus 276 A~A~~~l~~~~~~~~~~---------~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~ 346 (364)
T cd06390 276 AEAFQNLRKQRIDISRR---------GNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEM 346 (364)
T ss_pred HHHHHHHHHcCCCcccC---------CCCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEe
Confidence 99999986543322111 1122343 234688899999999999999999999999999999999999999
Q ss_pred eecCceeeeeeecCCCCC
Q 003167 313 IEHGYPQQIGYWSNYSGL 330 (843)
Q Consensus 313 ~~~~~~~~VG~w~~~~gl 330 (843)
.+.|. ++||+|++..|+
T Consensus 347 ~~~g~-~~vG~W~~~~g~ 363 (364)
T cd06390 347 KHDGI-RKIGYWNEDEKL 363 (364)
T ss_pred cCCcc-eEEEEECCCCCc
Confidence 99998 999999998875
No 6
>cd06393 PBP1_iGluR_Kainate_GluR5_7 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR5-7 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels activated
Probab=100.00 E-value=1.1e-39 Score=359.46 Aligned_cols=303 Identities=21% Similarity=0.322 Sum_probs=254.3
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
.++|.|||||.+|+++.++++++++++||+|++++++|.+++.. +|++|+.|++..++.++++++++++|++|++||++
T Consensus 70 ~~~V~AiiGp~~S~~~~av~~i~~~~~iP~Is~~~t~~~lt~~~-~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~ 148 (384)
T cd06393 70 ALGVVAIFGPSQGSCTNAVQSICNALEVPHIQLRWKHHPLDNKD-TFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDD 148 (384)
T ss_pred ccCcEEEECCCChHHHHHHHHHHhccCCCeEeccCCCcccCccc-eeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeC
Confidence 46899999999999999999999999999999999999998643 57788889998999999999999999999999976
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
++ |...++.+.+.+++.|++|+. +.++.+ +.|++++|++||+.++++||++++..++..+++||+++||+.+.|
T Consensus 149 ~~-g~~~l~~~~~~~~~~g~~v~~-~~~~~~----~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~ 222 (384)
T cd06393 149 ST-GLIRLQELIMAPSRYNIRLKI-RQLPTD----SDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYY 222 (384)
T ss_pred ch-hHHHHHHHHHhhhccCceEEE-EECCCC----chHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCce
Confidence 54 666667888888999999986 446655 789999999999999999999999999999999999999999999
Q ss_pred EEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhh-cCCCC---------CCCcchhhHhhHH
Q 003167 162 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL-SNGSI---------GLNPYGLYAYDTV 231 (843)
Q Consensus 162 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~---------~~~~~~~~~YDAv 231 (843)
+|+.++......+. .........+.++....++.+.+++|+++|+++ ++..+ .+..+++++||||
T Consensus 223 ~~~~~~~~~~~~~~-----~~~~~~~~~it~~~~~~~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav 297 (384)
T cd06393 223 HFIFTTLDLYALDL-----EPYRYSGVNLTGFRILNVDNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAV 297 (384)
T ss_pred EEEEccCccccccc-----hhhhcCcceEEEEEecCCCcHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhH
Confidence 99988754433322 111112233578888888899999999999854 54321 1256899999999
Q ss_pred HHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEecc-CCCccCCcEEEE
Q 003167 232 WMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQ-DRSLLHPSYDII 310 (843)
Q Consensus 232 ~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~-~G~~~~~~~~I~ 310 (843)
+++|+|++++... ....+.|++..+|+.|.+|+++|++++|+|+||+++||+ +|.|.+..++|+
T Consensus 298 ~~~a~A~~~~~~~---------------~~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~ 362 (384)
T cd06393 298 HMVSVCYQRAPQM---------------TVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDII 362 (384)
T ss_pred HHHHHHHhhhhhc---------------CCCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEE
Confidence 9999999976332 112346777788999999999999999999999999996 678899999999
Q ss_pred EeeecCceeeeeeecCCCCCcc
Q 003167 311 NVIEHGYPQQIGYWSNYSGLSV 332 (843)
Q Consensus 311 ~~~~~~~~~~VG~w~~~~gl~~ 332 (843)
|+.+++. ++||+|++..||++
T Consensus 363 ~~~~~g~-~~vg~W~~~~g~~~ 383 (384)
T cd06393 363 SLKEDGL-EKVGVWNPNTGLNI 383 (384)
T ss_pred EecCCcc-eeeEEEcCCCCcCC
Confidence 9999998 99999999998763
No 7
>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=1.9e-39 Score=350.33 Aligned_cols=305 Identities=21% Similarity=0.343 Sum_probs=239.7
Q ss_pred CCCCeEEEEcCCChHHHHHHHHhcccCCCcEEeccc-----------CCCCCCCCCCCceEEcCCChHHhHHHHHHHHHH
Q 003167 1 METDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTA-----------LDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY 69 (843)
Q Consensus 1 ~~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~a-----------t~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~ 69 (843)
|+++|+|||||.++.++..++.+|+..+||+|++++ ++|.++..+||++.|+. ..+.+|+++++.+
T Consensus 59 ~~~gV~AI~Gp~s~~~a~~v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~~~~lrp~---~~~~~Ai~dlV~~ 135 (400)
T cd06392 59 MTQGILALVTSTGCASANALQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEYTLAARPP---VRLNDVMLKLVTE 135 (400)
T ss_pred HhcCeEEEECCCchhHHHHHHHHhccCcCCcEeecccccccccccccCCCCcCcCceeEEecCc---hHHHHHHHHHHHh
Confidence 568999999999999999999999999999999866 34555556677777763 3567899999999
Q ss_pred cCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHH--------HHHHHhcCCCeEEEEEcCh
Q 003167 70 FGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRN--------ELVKVRMMEARVIVVHGYS 141 (843)
Q Consensus 70 ~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~--------~l~~i~~~~~~viv~~~~~ 141 (843)
|+|++|++|| |++||...++.+.+++.+.+.+|.+.. +... ...++.+ .|.+++... ++||+++++
T Consensus 136 ~~W~~v~~iY-D~d~gl~~lq~L~~~~~~~~~~I~~~~-v~~~---~~~~~~~~l~~~~~~~L~~~~~~~-r~iVv~~s~ 209 (400)
T cd06392 136 LRWQKFIVFY-DSEYDIRGLQSFLDQASRLGLDVSLQK-VDRN---ISRVFTNLFTTMKTEELNRYRDTL-RRAILLLSP 209 (400)
T ss_pred CCCcEEEEEE-ECcccHHHHHHHHHHHhhcCceEEEEE-cccC---cchhhhhHHHHHHHhhhhhccccc-eEEEEEcCc
Confidence 9999999999 899999999999999999999998665 2211 0113333 344444445 899999999
Q ss_pred hhHHHHHHHHHHcCCcccceEEEEeCcccccccCCCCCChhhhhhcc-ccEEEEEeCCCchhhHHHH----HHHhhhcCC
Q 003167 142 RTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSIL-GALTLRQHTPDSKRRRDFV----SRWNTLSNG 216 (843)
Q Consensus 142 ~~~~~i~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~~~~~~~f~----~~~~~~~~~ 216 (843)
+.+..+++||.++||+..+|+||++++.....+. .+...... ++.+++.+.+......+|. .+|++....
T Consensus 210 ~~~~~il~qA~~lgM~~~~y~wI~t~~~~~~~dl-----~~~~~g~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~~ 284 (400)
T cd06392 210 RGAQTFINEAVETNLASKDSHWVFVNEEISDTEI-----LELVHSALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLCD 284 (400)
T ss_pred HHHHHHHHHHHHhCcccCCeEEEEecCCcccccH-----HHHhcccccceeeEEEecCCcHHHHHHHHHHHHHHHhhhcc
Confidence 9999999999999999999999999987665433 12233332 4555998888776555553 677644422
Q ss_pred C-----CCCCcchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccC--CCcccccchHHHHHHHHhcccCC
Q 003167 217 S-----IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNL--GALSIFDGGKKFLANILQTNMTG 289 (843)
Q Consensus 217 ~-----~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~~~f~G 289 (843)
. ..++.+++++|||||++|+|++++....... ....++| .+..+|+.|..|+++|++++|+|
T Consensus 285 ~~~~~~~~l~~~aalayDaV~~~A~Al~~ll~~~~~~-----------~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~G 353 (400)
T cd06392 285 PQEGYLQMLQVSNLYLYDSVLMLANAFHRKLEDRKWH-----------SMASLNCIRKSTKPWNGGRSMLETIKKGHITG 353 (400)
T ss_pred cccccccccchhHHHHHHHHHHHHHHHHHHhhccccC-----------CCCCCccCCCCCCCCCChHHHHHHHHhCCCcc
Confidence 1 1467899999999999999999865322111 1122456 56789999999999999999999
Q ss_pred cceeeEeccCCCccCCcEEEEEe-----eecCceeeeeeecCCCCCc
Q 003167 290 LSGPIHFNQDRSLLHPSYDIINV-----IEHGYPQQIGYWSNYSGLS 331 (843)
Q Consensus 290 ~tG~v~fd~~G~~~~~~~~I~~~-----~~~~~~~~VG~w~~~~gl~ 331 (843)
+||+|+||++|+|.+..|+|+|+ .|.|. ++||+|++.+||.
T Consensus 354 LTG~I~F~~~G~r~~~~ldIi~l~~~~~~g~g~-~~iG~W~~~~gl~ 399 (400)
T cd06392 354 LTGVMEFKEDGANPHVQFEILGTSYSETFGKDV-RRLATWDSEKGLN 399 (400)
T ss_pred CccceeECCCCCCcCCceEEEeccccccCCCCc-eEeEEecCCCCCC
Confidence 99999999999999999999994 47778 9999999998864
No 8
>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=1.6e-39 Score=365.47 Aligned_cols=302 Identities=24% Similarity=0.343 Sum_probs=246.7
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
++|+|||||.+|.++.+++++++.++||+|+++++++.+++ ..||||||+.|+|..|+.|+++++++|+|++|++|+.|
T Consensus 102 ~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~sts~~lsd~~~yp~ffRt~psd~~q~~ai~~li~~f~W~~Vaiv~~d 181 (469)
T cd06365 102 RKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPFDPLLSDRVQFPSLYQMAPKDTSLPLGMVSLMLHFSWTWVGLVISD 181 (469)
T ss_pred CceEEEEcCCccHHHHHHHHHhhhhcccceeeccCCccccchhhCCcceEecCCchhHHHHHHHHHHhcCCeEEEEEEec
Confidence 58999999999999999999999999999999999999997 67899999999999999999999999999999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCC--hhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCccc
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVT--ETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDS 159 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~--~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~ 159 (843)
++||+..++.|.+++++.|+||++.+.++.. .. ..++..++++|+++++|+||+++..+++..++.++.+.+ ..
T Consensus 182 ~~yg~~~~~~~~~~~~~~gi~I~~~~~i~~~--~~~~~~~~~~~l~~i~~~~arvIvl~~~~~~~~~l~~~~~~~~--~~ 257 (469)
T cd06365 182 DDRGEQFLSDLREEMQRNGICLAFVEKIPVN--MQLYLTRAEKYYNQIMTSSAKVIIIYGDTDSLLEVSFRLWQYL--LI 257 (469)
T ss_pred ChhHHHHHHHHHHHHHHCCeEEEEEEEecCC--chhhHHHHHHHHHHhhcCCCeEEEEEcCcHHHHHHHHHHHHhc--cC
Confidence 9999999999999999999999999999876 32 348899999999999999999999888866655544433 35
Q ss_pred ceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHH---------------HhhhcCCC-------
Q 003167 160 GYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSR---------------WNTLSNGS------- 217 (843)
Q Consensus 160 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~---------------~~~~~~~~------- 217 (843)
+++||++++|....... ....+.++|++++.++.++.|.+++|.++ |+..|++.
T Consensus 258 ~~~wi~s~~w~~~~~~~----~~~~~~~~G~lg~~~~~~~~~~f~~fl~~l~~~~~~~npw~~efwe~~f~c~~~~~~~~ 333 (469)
T cd06365 258 GKVWITTSQWDVTTSPK----DFTLNSFHGTLIFSHHHSEIPGFKDFLQTVNPSKYPEDIFLEKLWWIYFNCSLSKSSCK 333 (469)
T ss_pred ceEEEeecccccccccc----ccccceeeEEEEEEeccCcCcchHHHhhccCcccCCCccHHHhhHhHhcCcccCcCCcc
Confidence 78999998886543221 23457799999999998888888887644 65555311
Q ss_pred ---C---------------C--CCcchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHH
Q 003167 218 ---I---------------G--LNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKK 277 (843)
Q Consensus 218 ---~---------------~--~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 277 (843)
. + ...++.+.|||||++|+||++++.|+.... ...+|.. ... ++++
T Consensus 334 ~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~~------------~~~~~~~-~~~-~~~~ 399 (469)
T cd06365 334 TLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVETQ------------SENNGKR-LIF-LPWQ 399 (469)
T ss_pred ccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccCC------------CcCCCCC-CCc-cHHH
Confidence 0 0 123567899999999999999988753210 1122322 234 3899
Q ss_pred HHHHHHhcccCCccee-eEeccCCCccCCcEEEEEeee--c--CceeeeeeecCC
Q 003167 278 FLANILQTNMTGLSGP-IHFNQDRSLLHPSYDIINVIE--H--GYPQQIGYWSNY 327 (843)
Q Consensus 278 l~~~l~~~~f~G~tG~-v~fd~~G~~~~~~~~I~~~~~--~--~~~~~VG~w~~~ 327 (843)
|+++|++++|.|.+|. |.||+||| ....|+|+|++. + ..+++||.|++.
T Consensus 400 l~~~l~~v~F~~~~g~~v~Fd~nGd-~~~~YdI~n~q~~~~~~~~~~~VG~~~~~ 453 (469)
T cd06365 400 LHSFLKNIQFKNPAGDEVNLNQKRK-LDTEYDILNYWNFPQGLGLKVKVGEFSPQ 453 (469)
T ss_pred HHHHHHhccccCCCCCEEEecCCCC-cCceeeEEEEEECCCCCEEEEEEEEEeCC
Confidence 9999999999999995 99999999 468999999983 2 235899999753
No 9
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=100.00 E-value=5.4e-39 Score=359.73 Aligned_cols=300 Identities=20% Similarity=0.333 Sum_probs=251.4
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
++|+|||||.+|+++.+++++++.++||+|+++++++.|++ .+||||||+.|+|..|+.|+++++++|||++|++||+|
T Consensus 104 ~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~sts~~Ls~~~~~~~ffRt~psd~~qa~ai~~ll~~~~W~~Vaii~~~ 183 (458)
T cd06375 104 LAIAGVIGGSYSSVSIQVANLLRLFQIPQISYASTSAKLSDKSRYDYFARTVPPDFYQAKAMAEILRFFNWTYVSTVASE 183 (458)
T ss_pred CCeEEEEcCCCchHHHHHHHHhhhccccceeeccCChhhcccccCCCeEEecCCcHHHHHHHHHHHHHCCCeEEEEEEeC
Confidence 48999999999999999999999999999999999999998 67999999999999999999999999999999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc-CCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~-~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
++||+..++.|.+++++.|+||+..+.++.. .++.|+.+++++|++ .++||||+++...++..++++|.++|+.
T Consensus 184 ~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~--~~~~d~~~~l~~l~~~~~a~vVvl~~~~~~~~~ll~~a~~~g~~--- 258 (458)
T cd06375 184 GDYGETGIEAFEQEARLRNICIATSEKVGRS--ADRKSYDSVIRKLLQKPNARVVVLFTRSEDARELLAAAKRLNAS--- 258 (458)
T ss_pred chHHHHHHHHHHHHHHHCCeeEEEEEEecCC--CCHHHHHHHHHHHhccCCCEEEEEecChHHHHHHHHHHHHcCCc---
Confidence 9999999999999999999999999888765 457899999999875 7999999999999999999999999974
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHH---------------HHhhhcCCCC-------
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVS---------------RWNTLSNGSI------- 218 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~---------------~~~~~~~~~~------- 218 (843)
++||++++|....... ....+.++|++++.+.....+.+++|++ .|+..|++..
T Consensus 259 ~~wigs~~~~~~~~~~----~~~~~~~~G~i~~~~~~~~i~~f~~yl~~l~p~~~~~n~w~~e~w~~~f~c~~~~~~~~~ 334 (458)
T cd06375 259 FTWVASDGWGAQESIV----KGSEDVAEGAITIELASHPIPDFDRYFQSLTPETNTRNPWFKDFWEQKFQCSLQNRDCAN 334 (458)
T ss_pred EEEEEeccccccchhh----hccchhhceEEEEEeccccchhHHHHHHhCCcCcCCCCcHHHHHHHHHcCCCCCCCCccC
Confidence 7999999886432211 1234568899999998888787777654 4766664210
Q ss_pred ---------------CCCcchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHH-HHH
Q 003167 219 ---------------GLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFL-ANI 282 (843)
Q Consensus 219 ---------------~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~l 282 (843)
....++.+.|||||++|+||++++.+..+ +....|.....++ +++|+ ++|
T Consensus 335 ~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~-------------~~~~~c~~~~~~~-~~~l~~~~L 400 (458)
T cd06375 335 TTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCP-------------NTTKLCDAMKPLD-GKKLYKEYL 400 (458)
T ss_pred CCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCC-------------CCCCCCCCCCCCC-HHHHHHHHH
Confidence 11346788999999999999999865322 1112455555565 89999 599
Q ss_pred HhcccC-----Ccce-eeEeccCCCccCCcEEEEEeee--cC---ceeeeeeecC
Q 003167 283 LQTNMT-----GLSG-PIHFNQDRSLLHPSYDIINVIE--HG---YPQQIGYWSN 326 (843)
Q Consensus 283 ~~~~f~-----G~tG-~v~fd~~G~~~~~~~~I~~~~~--~~---~~~~VG~w~~ 326 (843)
++++|. |.+| +|.||++|| ....|+|+|++. ++ .+++||.|+.
T Consensus 401 ~~v~F~~~~~~~~~g~~v~Fd~nGd-~~~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 401 LNVSFTAPFRPDLADSEVKFDSQGD-GLGRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred HhccccccccCCCCCCeeEECCCCC-CCcceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 999999 9998 599999999 578999999993 22 2589999964
No 10
>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=4.7e-39 Score=354.11 Aligned_cols=287 Identities=20% Similarity=0.275 Sum_probs=240.1
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
++|.|||||.+|+++.+++++++.++||+||++|++|.|++ .+||||||+.|+|..|+.+++++++++||++|++|++|
T Consensus 102 ~~V~aVIG~~~S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~ 181 (403)
T cd06361 102 PRIKAVIGAGYSEISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITD 181 (403)
T ss_pred CCeEEEECCCcchHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEec
Confidence 58999999999999999999999999999999999999997 68999999999999999999999999999999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCC---hhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVT---ETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~---~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
++||++..+.|++++++.|+||+..+.++.+.... ..++..+++.+++++|||||+.++..++..++++|+++|+
T Consensus 182 d~yG~~~~~~f~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~-- 259 (403)
T cd06361 182 DDYGRSALETFIIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVVFARQFHVFLLFNKAIERNI-- 259 (403)
T ss_pred CchHHHHHHHHHHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEEEeChHHHHHHHHHHHHhCC--
Confidence 99999999999999999999999999987751111 1566777777899999999999999999999999999997
Q ss_pred cceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHH
Q 003167 159 SGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARAL 238 (843)
Q Consensus 159 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al 238 (843)
+++||++++|........ ........|++++.+..+..+ +|.+.+++++ ..++||||+++|+||
T Consensus 260 -~~~wigs~~w~~~~~~~~---~~~~~~~~g~ig~~~~~~~~~---~F~~~~~~~~---------~~~v~~AVyaiA~Al 323 (403)
T cd06361 260 -NKVWIASDNWSTAKKILT---DPNVKKIGKVVGFTFKSGNIS---SFHQFLKNLL---------IHSIQLAVFALAHAI 323 (403)
T ss_pred -CeEEEEECcccCcccccc---CCcccccceEEEEEecCCccc---hHHHHHHHhh---------HHHHHHHHHHHHHHH
Confidence 589999998875433221 122356778999888665444 4555555553 346899999999999
Q ss_pred HHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEeeecC--
Q 003167 239 KLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHG-- 316 (843)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~~~~-- 316 (843)
+++..+. .|...... ++++|+++|++++|.|++|++.||++|| ....|+|+||+.++
T Consensus 324 ~~~~~~~-------------------~c~~~~~~-~~~~l~~~L~~~~f~g~~~~v~Fd~~gd-~~~~y~I~~~~~~~~~ 382 (403)
T cd06361 324 RDLCQER-------------------QCQNPNAF-QPWELLGQLKNVTFEDGGNMYHFDANGD-LNLGYDVVLWKEDNGH 382 (403)
T ss_pred HHhccCC-------------------CCCCCCCc-CHHHHHHHHheeEEecCCceEEECCCCC-CCcceEEEEeEecCCc
Confidence 9964331 23332233 4999999999999999988999999999 47899999998532
Q ss_pred -ceeeeeeecCCC
Q 003167 317 -YPQQIGYWSNYS 328 (843)
Q Consensus 317 -~~~~VG~w~~~~ 328 (843)
.+++||.|++.+
T Consensus 383 ~~~~~vg~~~~~~ 395 (403)
T cd06361 383 MTVTIMAEYDPQN 395 (403)
T ss_pred EEEEEEEEEeCCC
Confidence 369999998765
No 11
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=6.9e-39 Score=349.39 Aligned_cols=308 Identities=19% Similarity=0.290 Sum_probs=250.6
Q ss_pred CCCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 1 METDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 1 ~~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
|++||.||+||++|+.+.+++++|+.++||+|+++++. +..++|.+++.|+ ...++++++++++|++|++||+
T Consensus 54 ~~~GV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~~----~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailYd 126 (370)
T cd06389 54 FSRGVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFPT----DGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYLYD 126 (370)
T ss_pred hhcCcEEEEecCCHHHHHHHHHhhccCCCCeeeecCCC----CCCCceEEEecch---hhhHHHHHHHhcCCcEEEEEec
Confidence 57899999999999999999999999999999986542 3467888898888 5789999999999999999996
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
++||...++.+.+.+++.|++|+............+.|++++|++|+++++|+||+.++.+++..+++||+++||+.++
T Consensus 127 -sd~gl~~lq~l~~~~~~~g~~V~~~~~~~i~~~~~~~d~~~~L~~ik~~~~~~Iil~~~~~~~~~il~qa~~~gm~~~~ 205 (370)
T cd06389 127 -SDRGLSTLQAVLDSAAEKKWQVTAINVGNINNDRKDEAYRSLFQDLENKKERRVILDCERDKVNDIVDQVITIGKHVKG 205 (370)
T ss_pred -CchHHHHHHHHHHhhccCCceEEEEEeecCCCccchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHhCccccc
Confidence 6699999999999999999888754422111013367999999999999999999999999999999999999999999
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhh----hcCC--CCCCCcchhhHhhHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNT----LSNG--SIGLNPYGLYAYDTVWMI 234 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----~~~~--~~~~~~~~~~~YDAv~~l 234 (843)
|+||+++......+.. .......++.+++...++.+..++|.++|++ .|.. ...+..+++++||||+++
T Consensus 206 y~~il~~~~~~~~~l~-----~~~~~~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~ 280 (370)
T cd06389 206 YHYIIANLGFTDGDLS-----KIQFGGANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVM 280 (370)
T ss_pred eEEEEccCCccccchh-----hhccCCcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHH
Confidence 9999987533332221 1112234678888888889999999999986 4411 135678999999999999
Q ss_pred HHHHHHHhhcCCcccccCCCccCCCCCCcccCC--CcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEe
Q 003167 235 ARALKLFLDQGNTISFSNDTKLNGLGGGTLNLG--ALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 312 (843)
Q Consensus 235 a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~ 312 (843)
|.|++++.......... +...+|. +..+|.+|..|+++|++++|+|+||+++||++|+|.+..++|+++
T Consensus 281 a~A~~~l~~~~~~~~~~---------~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l 351 (370)
T cd06389 281 TEAFRNLRKQRIEISRR---------GNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMEL 351 (370)
T ss_pred HHHHHHHHHcCCCcccC---------CCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEe
Confidence 99999985443221110 1122343 356788899999999999999999999999999999889999999
Q ss_pred eecCceeeeeeecCCCCCc
Q 003167 313 IEHGYPQQIGYWSNYSGLS 331 (843)
Q Consensus 313 ~~~~~~~~VG~w~~~~gl~ 331 (843)
+++|. ++||+|++..|+.
T Consensus 352 ~~~g~-~kvG~W~~~~~~~ 369 (370)
T cd06389 352 KSNGP-RKIGYWSEVDKMV 369 (370)
T ss_pred cCCcc-eEEEEEcCCCCcc
Confidence 99898 9999999988864
No 12
>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=9.1e-39 Score=347.44 Aligned_cols=304 Identities=17% Similarity=0.270 Sum_probs=244.7
Q ss_pred CCCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 1 METDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 1 ~~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
|++||.|||||.+|+.+.+++++|++++||+|+++++ +...+.|.+++.|+ +..++++++++++|++|+++|+
T Consensus 60 ~~~gV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~----~~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiYd 132 (371)
T cd06388 60 YSRGVFAIFGLYDKRSVHTLTSFCSALHISLITPSFP----TEGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLYD 132 (371)
T ss_pred HhCCceEEEecCCHHHHHHHHHHhhCCCCCeeecCcc----ccCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEec
Confidence 5789999999999999999999999999999997653 22333444455555 4578888999999999999994
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
+++|...++.|.+.+++.|++|+.....+.+ +.|++++|++|+++++++||+.++++.+..+++||+++||+.++
T Consensus 133 -~~~~~~~lq~l~~~~~~~g~~v~~~~~~~~~----~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~ 207 (371)
T cd06388 133 -TDRGYSILQAIMEKAGQNGWQVSAICVENFN----DASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKG 207 (371)
T ss_pred -CCccHHHHHHHHHhhHhcCCeeeeEEeccCC----cHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccc
Confidence 4456678999999999999999886655443 56999999999999999999999999999999999999999999
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCC-----CCCCCcchhhHhhHHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG-----SIGLNPYGLYAYDTVWMIA 235 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~-----~~~~~~~~~~~YDAv~~la 235 (843)
|+||+++......+. .+......++.+++..++..+..++|.++|++.+.. ...+..+++++||||+++|
T Consensus 208 y~~il~~~~~~~~~l-----~~~~~g~~nitg~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~aAl~YDaV~l~a 282 (371)
T cd06388 208 YHYIIANLGFKDISL-----ERFMHGGANVTGFQLVDFNTPMVTKLMQRWKKLDQREYPGSESPPKYTSALTYDGVLVMA 282 (371)
T ss_pred eEEEEccCccccccH-----HHHhccCCceEEEEeecCCChhHHHHHHHHHhcCccccCCCCCCccchHHHHHHHHHHHH
Confidence 999998753322221 122233344888888888889999999999876531 1246778999999999999
Q ss_pred HHHHHHhhcCCcccccCCCccCCCCCCcccC--CCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEee
Q 003167 236 RALKLFLDQGNTISFSNDTKLNGLGGGTLNL--GALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI 313 (843)
Q Consensus 236 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~ 313 (843)
.|++++......... .+.++.| .+..+|..|..|+++|++++|+|+||+++||++|+|.+..++|+++.
T Consensus 283 ~A~~~l~~~~~~~~~---------~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~ 353 (371)
T cd06388 283 EAFRNLRRQKIDISR---------RGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELK 353 (371)
T ss_pred HHHHHHHhcCCCccc---------CCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEcc
Confidence 999997543221110 1122245 34567889999999999999999999999999999998899999999
Q ss_pred ecCceeeeeeecCCCCCc
Q 003167 314 EHGYPQQIGYWSNYSGLS 331 (843)
Q Consensus 314 ~~~~~~~VG~w~~~~gl~ 331 (843)
++|. ++||+|++..||.
T Consensus 354 ~~g~-~kvG~W~~~~g~~ 370 (371)
T cd06388 354 SNGP-RKIGYWNDMDKLV 370 (371)
T ss_pred CCCc-eEEEEEcCCCCcc
Confidence 9998 9999999998864
No 13
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=1.3e-38 Score=343.29 Aligned_cols=304 Identities=15% Similarity=0.256 Sum_probs=252.9
Q ss_pred CCCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 1 METDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 1 ~~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
|++||.||+||.++..+.++..+|+..+||+|.+.-. .+...+|.+++.|+ +..|+++++++|+|++|++||
T Consensus 60 ~~~GV~AIfGp~~~~s~~~v~s~c~~~~iP~i~~~~~----~~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY- 131 (372)
T cd06387 60 FSRGVYAIFGFYDQMSMNTLTSFCGALHTSFITPSFP----TDADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY- 131 (372)
T ss_pred hhcccEEEEecCCHhHHHHHHHhhccccCCeeeeCCC----CCCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-
Confidence 4689999999999999999999999999999986322 12344788899998 689999999999999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
|+++|...++.+.+.++..+..|......+.. ...+++.++++|+.++.++||++|.++.+..++++|.++||+..+
T Consensus 132 d~d~gl~~Lq~L~~~~~~~~~~V~~~~v~~~~---~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~ 208 (372)
T cd06387 132 DTERGFSILQAIMEAAVQNNWQVTARSVGNIK---DVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRG 208 (372)
T ss_pred cCchhHHHHHHHHHhhccCCceEEEEEeccCC---chHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccc
Confidence 77899999999999999999998877644433 356899999999999999999999999999999999999999999
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCC------CCCCcchhhHhhHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMI 234 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~YDAv~~l 234 (843)
|+||+++......+. .+......++++++++.++.+..++|.++|++.+... .+++.+++++|||||++
T Consensus 209 y~~ilt~ld~~~~dl-----~~~~~g~~NItg~rl~~~~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~ 283 (372)
T cd06387 209 YHYMLANLGFTDISL-----ERVMHGGANITGFQIVNNENPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVI 283 (372)
T ss_pred eEEEEecCCcccccH-----HHhccCCcceeEEEEecCCCchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHH
Confidence 999999854433332 1233334459999999999999999999998765311 23567899999999999
Q ss_pred HHHHHHHhhcCCcccccCCCccCCCCCCcccCC--CcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEe
Q 003167 235 ARALKLFLDQGNTISFSNDTKLNGLGGGTLNLG--ALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 312 (843)
Q Consensus 235 a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~ 312 (843)
|.|++++.......... +....|. ...+|..|..|+++|++++|+|+||+|+||++|+|.+..|+|+|+
T Consensus 284 A~A~~~l~~~~~~~~~~---------~~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl 354 (372)
T cd06387 284 AEAFRYLRRQRVDVSRR---------GSAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEM 354 (372)
T ss_pred HHHHHHHHhcCCCcccC---------CCCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEe
Confidence 99999985443222110 1122343 245788899999999999999999999999999999999999999
Q ss_pred eecCceeeeeeecCCCCC
Q 003167 313 IEHGYPQQIGYWSNYSGL 330 (843)
Q Consensus 313 ~~~~~~~~VG~w~~~~gl 330 (843)
.++|. ++||+|++..|+
T Consensus 355 ~~~g~-~kIG~W~~~~g~ 371 (372)
T cd06387 355 KPSGS-RKAGYWNEYERF 371 (372)
T ss_pred cCCCc-eeEEEECCCCCc
Confidence 99998 999999998885
No 14
>cd06376 PBP1_mGluR_groupIII Ligand-binding domain of the group III metabotropic glutamate receptor. Ligand-binding domain of the group III metabotropic glutamate receptor, a family which contains mGlu4R, mGluR6R, mGluR7, and mGluR8; all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=1.3e-38 Score=359.43 Aligned_cols=302 Identities=20% Similarity=0.353 Sum_probs=247.9
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
++|+|||||.+|+++.+++++++.++||+|+++++++.+++ ..||||||+.|+|..|+.+++++++++||++|++||.|
T Consensus 102 ~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~ats~~ls~~~~~~~ffR~~p~d~~~~~ai~~~i~~~~w~~Vaii~~~ 181 (463)
T cd06376 102 EKVVGVIGASASSVSIMVANILRLFQIPQISYASTAPELSDDRRYDFFSRVVPPDSFQAQAMVDIVKALGWNYVSTLASE 181 (463)
T ss_pred CCeEEEECCCCchHHHHHHHHhccccCcccccccCChhhcccccCCceEEccCCHHHHHHHHHHHHHHcCCeEEEEEEeC
Confidence 58999999999999999999999999999999999999987 67999999999999999999999999999999999999
Q ss_pred CCCCcchHHHHHHHHHhc-CcEEEEeeecCCCCCCChhHHHHHHHHHhc-CCCeEEEEEcChhhHHHHHHHHHHcCCccc
Q 003167 82 DDQGRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGYSRTGLMVFDVAQRLGMMDS 159 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~-~~~~viv~~~~~~~~~~i~~~a~~~g~~~~ 159 (843)
++||....+.|.+.+++. |+||...+.++.. .++.|+..+|++|++ .++|+||+.++..++..++++|+++|+.+
T Consensus 182 ~~yg~~~~~~~~~~~~~~g~~~v~~~~~i~~~--~~~~d~~~~l~~ik~~~~~~vIvl~~~~~~~~~ll~~a~~~~~~g- 258 (463)
T cd06376 182 GNYGESGVEAFTQISREAGGVCIAQSIKIPRE--PRPGEFDKIIKRLLETPNARAVIIFANEDDIRRVLEAAKRANQVG- 258 (463)
T ss_pred ChHHHHHHHHHHHHHHHcCCceEEEEEecCCC--CCHHHHHHHHHHHhccCCCeEEEEecChHHHHHHHHHHHhcCCcC-
Confidence 999999999999999997 5788776666554 557899999999987 79999999999999999999999999864
Q ss_pred ceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHH---------------HHhhhcCCCCC-----
Q 003167 160 GYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVS---------------RWNTLSNGSIG----- 219 (843)
Q Consensus 160 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~---------------~~~~~~~~~~~----- 219 (843)
.|+||++++|........ ...+.+.|++++.+.....+.+++|.. .|+..|++..+
T Consensus 259 ~~~wig~d~~~~~~~~~~----~~~~~~~G~~~~~~~~~~~~~F~~~~~~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~ 334 (463)
T cd06376 259 HFLWVGSDSWGAKISPIL----QQEDVAEGAITILPKRASIEGFDAYFTSRTLENNRRNVWFAEFWEENFNCKLTISGSK 334 (463)
T ss_pred ceEEEEeccccccccccc----cCcceeeeEEEEEeccccchhHHHHHHhCCcccCCCCcHHHHHHHHhCCCcccCCCCc
Confidence 599999998865433221 123568899999888777776666553 57766543210
Q ss_pred ---------------------CCcchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHH
Q 003167 220 ---------------------LNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKF 278 (843)
Q Consensus 220 ---------------------~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 278 (843)
....++++|||||++|+||+++..+... +....|.....+ ++++|
T Consensus 335 ~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~-------------~~~~~C~~~~~~-~~~~l 400 (463)
T cd06376 335 KEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCP-------------GYTGVCPEMEPA-DGKKL 400 (463)
T ss_pred cccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCC-------------CCCCCCccCCCC-CHHHH
Confidence 0125779999999999999999754321 111234443333 59999
Q ss_pred HHHHHhcccCCcce-eeEeccCCCccCCcEEEEEeee----cCceeeeeeecC
Q 003167 279 LANILQTNMTGLSG-PIHFNQDRSLLHPSYDIINVIE----HGYPQQIGYWSN 326 (843)
Q Consensus 279 ~~~l~~~~f~G~tG-~v~fd~~G~~~~~~~~I~~~~~----~~~~~~VG~w~~ 326 (843)
+++|++++|+|++| +|.||++|++ ...|+|+|++. ...+++||.|++
T Consensus 401 ~~~L~~v~F~g~tg~~v~Fd~~G~~-~~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 401 LKYIRAVNFNGSAGTPVMFNENGDA-PGRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred HHHHHhCCccCCCCCeEEeCCCCCC-CCceEEEEEEecCCCceeEEEEEEECC
Confidence 99999999999999 6999999995 46899999983 223499999975
No 15
>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=1.3e-38 Score=360.07 Aligned_cols=308 Identities=19% Similarity=0.313 Sum_probs=249.3
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
+++|+|||||.+|+++.+++++++.++||+|+++++++.+++ ..||||||+.|+|..|+.++++++++|+|++|++||+
T Consensus 115 ~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~~ls~~~~~p~~fRt~p~d~~~~~al~~l~~~~~W~~Vaii~~ 194 (472)
T cd06374 115 KKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYFLRVVPSDTLQARAMLDIVKRYNWTYVSAVHT 194 (472)
T ss_pred CCCeEEEECCCcchHHHHHHHHhhhhcccccccccCchhhcccccCCceEEcCCChHHHHHHHHHHHHHCCCcEEEEEEe
Confidence 358999999999999999999999999999999999999998 5799999999999999999999999999999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
|++||+...+.|.+.+++.|+||+..+.++.. .++.|+..+|.+|+++ +++||++.+...++..++++|+++|+.
T Consensus 195 ~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~--~~~~d~~~~l~~lk~~~~da~vvv~~~~~~~~~~~l~~a~~~g~~- 271 (472)
T cd06374 195 EGNYGESGMEAFKELAAHEGLCIAHSDKIYSN--AGEQSFDRLLRKLRSRLPKARVVVCFCEGMTVRGLLMAMRRLGVG- 271 (472)
T ss_pred cchHHHHHHHHHHHHHHHCCeeEEEEEEecCC--CchHHHHHHHHHHHhcCCCcEEEEEEechHHHHHHHHHHHHhcCC-
Confidence 99999999999999999999999998888654 4578999999999976 455666667777888999999999985
Q ss_pred cceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHH---------------HHHhhhcCCCC-----
Q 003167 159 SGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFV---------------SRWNTLSNGSI----- 218 (843)
Q Consensus 159 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~---------------~~~~~~~~~~~----- 218 (843)
.+++||++++|....... ....+..+|++++.++.+..+.+++|+ +.|++.|++..
T Consensus 272 ~~~~wi~s~~~~~~~~~~----~~~~~~~~G~l~~~~~~~~~~~F~~~l~~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~ 347 (472)
T cd06374 272 GEFQLIGSDGWADRDDVV----EGYEEEAEGGITIKLQSPEVPSFDDYYLKLRPETNTRNPWFREFWQHRFQCRLPGHPQ 347 (472)
T ss_pred CceEEEEecccccchHhh----hcchhhhheeEEEEecCCCCccHHHHHHhCCcccCCCChHHHHHHHHhcCCCcCCccC
Confidence 458999999886532221 134567899999998888777776643 45666654220
Q ss_pred -------------------CCCcchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHH
Q 003167 219 -------------------GLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFL 279 (843)
Q Consensus 219 -------------------~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 279 (843)
....++.++|||||++|+||+++..+.... ....|...... ++.+|+
T Consensus 348 ~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~-------------~~~~c~~~~~~-~~~~l~ 413 (472)
T cd06374 348 ENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPG-------------HVGLCDAMKPI-DGRKLL 413 (472)
T ss_pred cCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCC-------------CCCCCcCCCCC-CHHHHH
Confidence 001355689999999999999997543211 11134433333 499999
Q ss_pred HHHHhcccCCcce-eeEeccCCCccCCcEEEEEeeec----CceeeeeeecCCCCCcc
Q 003167 280 ANILQTNMTGLSG-PIHFNQDRSLLHPSYDIINVIEH----GYPQQIGYWSNYSGLSV 332 (843)
Q Consensus 280 ~~l~~~~f~G~tG-~v~fd~~G~~~~~~~~I~~~~~~----~~~~~VG~w~~~~gl~~ 332 (843)
++|++++|+|++| +|.||++|++. ..|+|+|+++. ..+++||.|++ .+|.+
T Consensus 414 ~~l~~v~F~g~tG~~v~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w~~-~~l~~ 469 (472)
T cd06374 414 EYLLKTSFSGVSGEEVYFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSWHE-GDLGI 469 (472)
T ss_pred HHHHhCcccCCCCCeEEEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEEeC-Ccccc
Confidence 9999999999999 69999999964 69999999952 23499999974 35544
No 16
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=100.00 E-value=1.7e-38 Score=349.90 Aligned_cols=276 Identities=21% Similarity=0.333 Sum_probs=235.0
Q ss_pred CCCeEEEEc-CC-ChH---HHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEE
Q 003167 2 ETDTLAIVG-PQ-SAV---MAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEV 75 (843)
Q Consensus 2 ~~~V~aiiG-p~-~S~---~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v 75 (843)
+++|+|||| +. +|. .+.+++.+++.++||+|+++++++.+++ ..|||+||+.|++..|+.++++++++++|++|
T Consensus 78 ~~~V~aii~~~~~ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~v 157 (377)
T cd06379 78 SNQVYAVIVSHPPTSNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKV 157 (377)
T ss_pred hcceEEEEEeCCCCCcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEE
Confidence 578999973 33 443 4677888999999999999999999987 46999999999999999999999999999999
Q ss_pred EEEEecCCCCcchHHHHHHHHHhcCc----EEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHH
Q 003167 76 IAIFNDDDQGRNGVTALGDKLAEIRC----KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVA 151 (843)
Q Consensus 76 ~ii~~d~~~g~~~~~~l~~~l~~~g~----~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a 151 (843)
++||++++||++..+.+++.+++.|+ +|+..+.++.+ +.|+++++++|++.++|+|+++++.+++..++++|
T Consensus 158 aii~~~~~~g~~~~~~~~~~~~~~g~~~~~~v~~~~~~~~~----~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa 233 (377)
T cd06379 158 ILLVSDDHEGRAAQKRFETLLEEREIEFKIKVEKVVEFEPG----EKNVTSLLQEAKELTSRVILLSASEDDAAVIYRNA 233 (377)
T ss_pred EEEEEcCcchhHHHHHHHHHHHhcCCccceeeeEEEecCCc----hhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHH
Confidence 99999999999999999999999999 88888888766 78999999999999999999999999999999999
Q ss_pred HHcCCcccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHH
Q 003167 152 QRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTV 231 (843)
Q Consensus 152 ~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv 231 (843)
+++||++.+|+||.++.+... .+...|++++++..+ ..+++++||||
T Consensus 234 ~~~g~~~~~~~wi~t~~~~~~-----------~~~~~g~~g~~~~~~----------------------~~~~~~~yDAV 280 (377)
T cd06379 234 GMLNMTGEGYVWIVSEQAGAA-----------RNAPDGVLGLQLING----------------------KNESSHIRDAV 280 (377)
T ss_pred HHcCCCCCCEEEEEecccccc-----------ccCCCceEEEEECCC----------------------CCHHHHHHHHH
Confidence 999999989999999876321 133578888887542 12467899999
Q ss_pred HHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCc-ccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEE
Q 003167 232 WMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGAL-SIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDII 310 (843)
Q Consensus 232 ~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~ 310 (843)
+++|+|++++..+... ......|.+. .+|.+|+.|+++|++++|+|++|+|+||++|++....|+|+
T Consensus 281 ~~~A~Al~~~~~~~~~------------~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~ 348 (377)
T cd06379 281 AVLASAIQELFEKENI------------TEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIM 348 (377)
T ss_pred HHHHHHHHHHHcCCCC------------CCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEE
Confidence 9999999998653211 0111234332 24777999999999999999999999999999888999999
Q ss_pred EeeecCceeeeeeecCC
Q 003167 311 NVIEHGYPQQIGYWSNY 327 (843)
Q Consensus 311 ~~~~~~~~~~VG~w~~~ 327 (843)
|+++.++ ++||+|++.
T Consensus 349 ~~~~~~~-~~VG~w~~~ 364 (377)
T cd06379 349 NIQNRKL-VQVGLYNGD 364 (377)
T ss_pred EecCCCc-eEeeEEcCc
Confidence 9998887 999999863
No 17
>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=8.6e-39 Score=350.69 Aligned_cols=281 Identities=19% Similarity=0.281 Sum_probs=240.0
Q ss_pred CCCeEEEEcCCChHH---HHHHHHhcccCCCcEEecccCCCCC-CC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEE
Q 003167 2 ETDTLAIVGPQSAVM---AHVLSHLANELQVPLLSFTALDPTL-SP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVI 76 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~---~~av~~~~~~~~vP~Is~~at~~~l-s~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ 76 (843)
+++|.+|+||.+|+. +.+++++++.++||+|+++++++.+ ++ ..||||||+.|++..|+++++++++++||++|+
T Consensus 61 ~~~v~~iig~~~s~~~~~~~~~~~v~~~~~iP~Is~~~~~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w~~va 140 (362)
T cd06367 61 VQVVAGVVFSDPTDEEAVAQILDFTSAQTRIPVVGISGRESIFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDWHQFS 140 (362)
T ss_pred ccceEEEEecCCCCccchhhhhhhhhhhhcCcEEEeeccccccccCCCcccceEeecCcHHHHHHHHHHHHHHcCCeEEE
Confidence 358999999999998 9999999999999999999999999 76 689999999999999999999999999999999
Q ss_pred EEEecCCCCcchHHHHHHHHHhcCcE--EEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHc
Q 003167 77 AIFNDDDQGRNGVTALGDKLAEIRCK--ISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRL 154 (843)
Q Consensus 77 ii~~d~~~g~~~~~~l~~~l~~~g~~--v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~ 154 (843)
+||++++||++..+.+++.+++.|+| ++....++.. ...++..++.++++.++|+|+++++.+++..++++|.++
T Consensus 141 ii~~~~~~g~~~~~~l~~~l~~~g~~~~i~~~~~~~~~---~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~ 217 (362)
T cd06367 141 VVTSRDPGYRDFLDRVETTLEESFVGWEFQLVLTLDLS---DDDGDARLLRQLKKLESRVILLYCSKEEAERIFEAAASL 217 (362)
T ss_pred EEEEcCcccHHHHHHHHHHHHhcccceeeeeeEEeccC---CCcchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHHc
Confidence 99999999999999999999999999 7776666655 123889999999999999999999999999999999999
Q ss_pred CCcccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHH
Q 003167 155 GMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMI 234 (843)
Q Consensus 155 g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~l 234 (843)
||+.++|+||+++.+..... ...+...|++++++... ..+.+++||||+++
T Consensus 218 g~~~~~~~wI~~~~~~~~~~-------~~~~~~~G~~g~~~~~~----------------------~~~~~~~~Dav~~~ 268 (362)
T cd06367 218 GLTGPGYVWIVGELALGSGL-------APEGLPVGLLGVGLDTW----------------------YSLEARVRDAVAIV 268 (362)
T ss_pred CCCCCCcEEEECcccccccC-------CccCCCCeeEEEEeccc----------------------ccHHHHHHHHHHHH
Confidence 99999999999998764211 12345678999887542 23578899999999
Q ss_pred HHHHHHHhhcCCcccccCCCccCCCCCCcccCCCccc--ccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEe
Q 003167 235 ARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSI--FDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 312 (843)
Q Consensus 235 a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~ 312 (843)
|+|++++..+..... .....|..... +.+|..|+++|++++|.|++|+|+||++|++..+.|+|+|+
T Consensus 269 a~Al~~~~~~~~~~~-----------~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l 337 (362)
T cd06367 269 ARAAESLLRDKGALP-----------EPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINL 337 (362)
T ss_pred HHHHHHHHHhcCCCC-----------CCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEe
Confidence 999999876532211 11224554332 56799999999999999999999999999988899999999
Q ss_pred e-ecCceeeeeeecC
Q 003167 313 I-EHGYPQQIGYWSN 326 (843)
Q Consensus 313 ~-~~~~~~~VG~w~~ 326 (843)
+ +.++ ++||.|++
T Consensus 338 ~~~~~~-~~VG~W~~ 351 (362)
T cd06367 338 RRNRKW-ERVGSWEN 351 (362)
T ss_pred cCCCcc-eEEEEEcC
Confidence 8 6666 99999975
No 18
>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=4e-38 Score=348.11 Aligned_cols=313 Identities=18% Similarity=0.293 Sum_probs=248.8
Q ss_pred CCCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 1 METDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 1 ~~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
|+++|+|||||.+|+++.+++++++.++||+|+++++++.++ ..+||+||+.|+. ..++++++++++|++|++||+
T Consensus 59 l~~~V~aiiGp~~s~~~~~~~~~~~~~~iP~i~~~~~~~~l~-~~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~~ 134 (382)
T cd06380 59 LSRGVFAIFGSYDKSSVNTLTSYSDALHVPFITPSFPTNDLD-DGNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLYD 134 (382)
T ss_pred HhcCcEEEEecCcHHHHHHHHHHHhcCCCCeEecCCCcccCC-CCCcEEEEeccch---hHHHHHHHHhcCCeEEEEEEC
Confidence 457899999999999999999999999999999999998885 4679999998863 458899999999999999997
Q ss_pred cCCCCcchHHHHHHHHHhcC--cEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 81 DDDQGRNGVTALGDKLAEIR--CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g--~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
+++ |...++.+.+.+++.| +.|... .+... .+..|++++|++||+.++|+||+.++.+++..+++||+++||+.
T Consensus 135 ~~~-~~~~~~~~~~~~~~~g~~i~v~~~-~~~~~--~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~~ 210 (382)
T cd06380 135 SDR-GLLRLQQLLDYLREKDNKWQVTAR-RVDNV--TDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKNR 210 (382)
T ss_pred CCc-chHHHHHHHHHHhccCCceEEEEE-EecCC--CcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhcc
Confidence 665 6777888889999988 666543 23322 23579999999999999999999999999999999999999999
Q ss_pred cceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCC------CCCCcchhhHhhHHH
Q 003167 159 SGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVW 232 (843)
Q Consensus 159 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~YDAv~ 232 (843)
++|+||++++.....+.. .......++.++....+..+..++|.++|+++++.. ..++.+++++||||+
T Consensus 211 ~~y~~i~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~ 285 (382)
T cd06380 211 KGYHYILANLGFDDIDLS-----KFLFGGVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVL 285 (382)
T ss_pred cceEEEEccCCcccccHH-----HhccCceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHH
Confidence 999999987654443321 112223456677766777889999999999987522 236678999999999
Q ss_pred HHHHHHHHHhhcCCcccccCCCccCCCCCCcccCC--CcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEE
Q 003167 233 MIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLG--ALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDII 310 (843)
Q Consensus 233 ~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~ 310 (843)
++|.|+++++..+.......... .......|. ...+|.+|.+|+++|++++|+|++|+++||++|++....++|+
T Consensus 286 ~~a~Al~~~~~~~~~~~~~~~~~---~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~ 362 (382)
T cd06380 286 VMAEAFRSLRRQRGSGRHRIDIS---RRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVV 362 (382)
T ss_pred HHHHHHHHHHHhccccccccccc---cCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEE
Confidence 99999999875432110000000 011122333 3456888999999999999999999999999999888999999
Q ss_pred EeeecCceeeeeeecCCCCC
Q 003167 311 NVIEHGYPQQIGYWSNYSGL 330 (843)
Q Consensus 311 ~~~~~~~~~~VG~w~~~~gl 330 (843)
++++++. ++||+|++..|+
T Consensus 363 ~~~~~~~-~~vg~w~~~~g~ 381 (382)
T cd06380 363 ELKTRGL-RKVGYWNEDDGL 381 (382)
T ss_pred EecCCCc-eEEEEECCCcCc
Confidence 9998888 999999998875
No 19
>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-38 Score=357.35 Aligned_cols=305 Identities=22% Similarity=0.322 Sum_probs=251.1
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
.+|+|||||.+|+++.+++++++.++||+|+++++++.+++ ..||||||+.|+|..|+.+++++++++||++|++|+.|
T Consensus 117 ~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls~~~~yp~ffRt~psd~~q~~Ai~~l~~~f~wk~VaiI~~d 196 (510)
T cd06364 117 PSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLSNKNQFKSFLRTIPNDEHQATAMADIIEYFRWNWVGTIAAD 196 (510)
T ss_pred CceEEEECCCchhHHHHHHHHhccccccccccccCCcccCCccccCCeeEcCCChHHHHHHHHHHHHHcCCeEEEEEEec
Confidence 36889999999999999999999999999999999999998 68999999999999999999999999999999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
++||+..++.|.+.+++.|+||+..+.++.. .+..|+.+++.+|+++++||||+.+...++..++++|+++|+. ++
T Consensus 197 d~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~--~~~~d~~~~l~klk~~~a~vVvl~~~~~~~~~ll~qa~~~g~~--~~ 272 (510)
T cd06364 197 DDYGRPGIEKFREEAEERDICIDFSELISQY--SDEEEIQRVVEVIQNSTAKVIVVFSSGPDLEPLIKEIVRRNIT--GK 272 (510)
T ss_pred CcchHHHHHHHHHHHHHCCcEEEEEEEeCCC--CCHHHHHHHHHHHHhcCCeEEEEEeCcHHHHHHHHHHHHhCCC--Cc
Confidence 9999999999999999999999999888764 3578999999999999999999999999999999999999974 57
Q ss_pred EEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHH---------------HHHhhhcCCCC-----C--
Q 003167 162 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFV---------------SRWNTLSNGSI-----G-- 219 (843)
Q Consensus 162 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~---------------~~~~~~~~~~~-----~-- 219 (843)
+||++++|........ ....+.+.|++++.+.....+.+++|+ +.|++.|++.. .
T Consensus 273 iwI~s~~w~~~~~~~~---~~~~~~~gg~lg~~~~~~~i~~f~~~l~~l~p~~~~~~~~~~~~we~~f~c~~~~~~~~~~ 349 (510)
T cd06364 273 IWLASEAWASSSLIAM---PEYFDVMGGTIGFALKAGQIPGFREFLQKVHPKKSSHNGFAKEFWEETFNCYLEDSPKNAL 349 (510)
T ss_pred EEEEEchhhccccccc---CCccceeeEEEEEEECCCcCccHHHHHHhCCcccCCCChHHHHHHHHhcCCCCCCCccccc
Confidence 9999988864332211 234577889999988876666655544 33565554210 0
Q ss_pred -------------------------------------------CCcchhhHhhHHHHHHHHHHHHhhcCCc-ccccCCCc
Q 003167 220 -------------------------------------------LNPYGLYAYDTVWMIARALKLFLDQGNT-ISFSNDTK 255 (843)
Q Consensus 220 -------------------------------------------~~~~~~~~YDAv~~la~Al~~~~~~~~~-~~~~~~~~ 255 (843)
...++.+.|||||++|+||+++..|... ..+
T Consensus 350 ~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v~~AVyAvAhaLh~~~~c~~~~~~~----- 424 (510)
T cd06364 350 PVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNVYLAVYSIAHALQDIYTCTPGKGLF----- 424 (510)
T ss_pred ccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHHHHHHHHHHHHHHHHhcCCCCCCCc-----
Confidence 1123567999999999999999876422 110
Q ss_pred cCCCCCCcccCCCcccccchHHHHHHHHhcccCCcce-eeEeccCCCccCCcEEEEEeee---cC--ceeeeeeecCC
Q 003167 256 LNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSLLHPSYDIINVIE---HG--YPQQIGYWSNY 327 (843)
Q Consensus 256 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG-~v~fd~~G~~~~~~~~I~~~~~---~~--~~~~VG~w~~~ 327 (843)
....|.....+. +++|+++|++++|.|.+| +|.||++|| ....|+|+||+. ++ .+++||.|++.
T Consensus 425 ------~~~~c~~~~~~~-~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd-~~~~YdI~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 425 ------TNGSCADIKKVE-AWQVLKHLRHLNFTDNMGEQVRFDEGGD-LVGNYSIINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred ------cCCCCCCCCCCC-HHHHHHHHHhcEEecCCCCEEEEecCCC-CccceeEEEeeecCCCCcEEEEEEEEEcCC
Confidence 012355544554 999999999999999998 599999999 568999999994 22 25899999764
No 20
>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-38 Score=354.38 Aligned_cols=306 Identities=21% Similarity=0.326 Sum_probs=250.0
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
++|.|||||.+|+++.+++++++.++||+|+++++++.+++ .+||||||+.|++..|+.++++++++++|++|++|++|
T Consensus 102 ~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~~ls~~~~~~~~fR~~p~d~~~~~a~~~~l~~~~w~~vaii~~~ 181 (452)
T cd06362 102 KPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSPELSDKTRYDYFSRTVPPDSFQAQAMVDIVKAFNWTYVSTVASE 181 (452)
T ss_pred CCeEEEECCCCCchHHHHHHHhccccCcccccccCchhhccccccCCEEEecCChHHHHHHHHHHHHHCCCcEEEEEEeC
Confidence 68999999999999999999999999999999999999997 68999999999999999999999999999999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc-CCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~-~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
++||+...+.|.+.+++.|+||+..+.++.. .++.|+.+++++|++ .++|+||+.+...++..++++|+++|+. .+
T Consensus 182 ~~~G~~~~~~~~~~~~~~gi~i~~~~~~~~~--~~~~d~~~~l~~l~~~~~a~viil~~~~~~~~~~~~~a~~~g~~-~~ 258 (452)
T cd06362 182 GNYGEKGIEAFEKLAAERGICIAGSEKIPSS--ATEEEFDNIIRKLLSKPNARVVVLFCREDDIRGLLAAAKRLNAE-GH 258 (452)
T ss_pred CHHHHHHHHHHHHHHHHCCeeEEEEEEcCCC--CCHHHHHHHHHHHhhcCCCeEEEEEcChHHHHHHHHHHHHcCCc-Cc
Confidence 9999999999999999999999998888764 457899999999987 5899999999999999999999999986 46
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHH---------------HHHhhhcCCC--------
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFV---------------SRWNTLSNGS-------- 217 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~---------------~~~~~~~~~~-------- 217 (843)
++||++++|....... ....+..+|++++.++....+.+++|+ +.|+..|++.
T Consensus 259 ~~~i~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~i~~f~~~l~~l~~~~~~~~~~~~~~w~~~~~c~~~~~~~~~ 334 (452)
T cd06362 259 FQWIASDGWGARNSVV----EGLEDVAEGAITIELQSAEVPGFDEYFLSLTPENNSRNPWFREFWEQKFNCKLTGNGSTK 334 (452)
T ss_pred eEEEEeccccccchhh----cccccccceEEEEEecccccccHHHHhhhCCcCcCCCChHHHHHHHHhcCCCcCCCCccc
Confidence 8999998876532211 123466788888887765554444432 3344444311
Q ss_pred --------------CCCCcchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHH
Q 003167 218 --------------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANIL 283 (843)
Q Consensus 218 --------------~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~ 283 (843)
.....+++++|||||++|+||+++..+.... ....|.... +.++.+|+++|+
T Consensus 335 ~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~-------------~~~~c~~~~-~~~~~~l~~~l~ 400 (452)
T cd06362 335 DNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPG-------------TTGLCDAMK-PIDGRKLLFYLR 400 (452)
T ss_pred cCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCC-------------CCCCCcCcc-CCCHHHHHHHHH
Confidence 0123478899999999999999997653211 011243333 335999999999
Q ss_pred hcccCCcce-eeEeccCCCccCCcEEEEEeee---cCceeeeeeecCCCCC
Q 003167 284 QTNMTGLSG-PIHFNQDRSLLHPSYDIINVIE---HGYPQQIGYWSNYSGL 330 (843)
Q Consensus 284 ~~~f~G~tG-~v~fd~~G~~~~~~~~I~~~~~---~~~~~~VG~w~~~~gl 330 (843)
+++|.|++| .|+||++|++ ...|+|+|++. ...+++||+|++..||
T Consensus 401 ~v~f~g~tg~~v~Fd~~G~~-~~~y~I~~~~~~~~~~~~~~VG~w~~~~~~ 450 (452)
T cd06362 401 NVSFSGLAGGPVRFDANGDG-PGRYDIFNYQRTNGKYDYVKVGSWKGELSL 450 (452)
T ss_pred hCCcCCCCCceEEECCCCCC-CCceEEEEEEEcCCceEEEEEEEEeccccc
Confidence 999999998 7999999996 56999999984 2234999999877664
No 21
>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=2.9e-37 Score=337.43 Aligned_cols=307 Identities=21% Similarity=0.320 Sum_probs=245.5
Q ss_pred CCCCeEEEEcCCChHHHHHHHHhcccCCCcEEec----ccCC-----CCCCC--CCCCceEEcCCChHHhHHHHHHHHHH
Q 003167 1 METDTLAIVGPQSAVMAHVLSHLANELQVPLLSF----TALD-----PTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSY 69 (843)
Q Consensus 1 ~~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~----~at~-----~~ls~--~~~p~~fR~~p~d~~~~~ai~~ll~~ 69 (843)
++++|.|||||.++..+..++.+|+.++||+|++ ++++ |.+++ .+||+++| |+ ..+++|+++++++
T Consensus 59 ~~~gv~ai~Gp~~~~~~~~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~li~~ 135 (400)
T cd06391 59 MNQGILALVSSIGCTSAGSLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRVVTE 135 (400)
T ss_pred HhCCeEEEECCCcchHHHHHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHHHHH
Confidence 3578999999988888899999999999999974 4433 34443 56788888 44 6788999999999
Q ss_pred cCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCC---hhHHHH-HHHHHhc--CCCeEEEEEcChhh
Q 003167 70 FGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVT---ETDVRN-ELVKVRM--MEARVIVVHGYSRT 143 (843)
Q Consensus 70 ~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~---~~d~~~-~l~~i~~--~~~~viv~~~~~~~ 143 (843)
|+|++++++| |++||...++.+.+.+++.|+||..... ... .. ...+.. .+++|++ .+.++||++++.+.
T Consensus 136 f~W~~v~i~~-d~~~~~~~l~~l~~~~~~~~i~I~~~~~-~~~--~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~~~ 211 (400)
T cd06391 136 YAWQKFIIFY-DTDYDIRGIQEFLDKVSQQGMDVALQKV-ENN--INKMITGLFRTMRIEELNRYRDTLRRAILVMNPAT 211 (400)
T ss_pred cCCcEEEEEE-eCCccHHHHHHHHHHHHHcCCeEEEEec-Ccc--hhhhhHHHHHHHHHHHHHhhcccccEEEEECCcHH
Confidence 9999999765 7778999999999999999999997442 221 11 012322 4556665 67799999999999
Q ss_pred HHHHHHHHHHcCCcccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCC------
Q 003167 144 GLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------ 217 (843)
Q Consensus 144 ~~~i~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------ 217 (843)
+..++++|+++||++.+|+||++++.....+.. +.....+.|+.+++++.|......+|..+|..++...
T Consensus 212 ~~~ll~~a~~~gm~~~~y~wi~t~~~~~~~dl~----~~~~~~~~~v~~~r~~~~~~~~~~~~~~r~~~~~~~~~~~~~~ 287 (400)
T cd06391 212 AKSFITEVVETNLVAFDCHWIIINEEISDMDVQ----ELVRRSIGRLTIIRQTFPLPQNISQRCFRGNHRISSSLCDPKD 287 (400)
T ss_pred HHHHHHHHHHcCCCCCCeEEEEeCccccccccc----hHHhcccceEEEeccCCchHHHHHHHHHHHhhhccccccCccc
Confidence 999999999999999999999999988877763 2334566788889998888888889999988766310
Q ss_pred ---CCCCcchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCC--CcccccchHHHHHHHHhcccCCcce
Q 003167 218 ---IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLG--ALSIFDGGKKFLANILQTNMTGLSG 292 (843)
Q Consensus 218 ---~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~l~~~~f~G~tG 292 (843)
..++.+++++|||||++|+|++++........ ....+|. +..+|..|..|+++|++++|+|+||
T Consensus 288 ~~~~~~~~~~alayDaV~~~A~A~~~l~~~~~~~~-----------~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG 356 (400)
T cd06391 288 PFAQMMEISNLYIYDTVLLLANAFHKKLEDRKWHS-----------MASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTG 356 (400)
T ss_pred cccccccchhhHHHHHHHHHHHHHHHHHhhccccC-----------CCCcccccCCCCCCCChHHHHHHHHhcCccccee
Confidence 13568999999999999999998753221111 1122343 3557889999999999999999999
Q ss_pred eeEeccCCCccCCcEEEEEee-----ecCceeeeeeecCCCCC
Q 003167 293 PIHFNQDRSLLHPSYDIINVI-----EHGYPQQIGYWSNYSGL 330 (843)
Q Consensus 293 ~v~fd~~G~~~~~~~~I~~~~-----~~~~~~~VG~w~~~~gl 330 (843)
+|+||++|+|.+..|+|+|+. ++|. ++||+|++..||
T Consensus 357 ~i~f~~~g~r~~~~~dIin~~~~~~~~~g~-rkiG~Ws~~~gl 398 (400)
T cd06391 357 ELEFNENGGNPNVHFEILGTNYGEDLGRGV-RKLGCWNPITGL 398 (400)
T ss_pred ceEECCCCCccCCceEEEEeeccccCCCcc-eEEEEEcCCcCC
Confidence 999999999999999999996 8888 999999999886
No 22
>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=5.6e-37 Score=337.79 Aligned_cols=293 Identities=17% Similarity=0.267 Sum_probs=240.8
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC--CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEE
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF 79 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~--~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~ 79 (843)
+++|.|||||.||.++.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++|+|++|++||
T Consensus 65 ~~~v~aiiGp~~s~~~~~va~ia~~~~iP~Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy 144 (387)
T cd06386 65 ARKPDLILGPVCEYAAAPVARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVY 144 (387)
T ss_pred hhCCCEEECCCCccHHHHHHHHHHhCCCcEEccccCchhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEE
Confidence 358999999999999999999999999999999999999986 468999999999999999999999999999999999
Q ss_pred ecCCCCcch---HHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 80 NDDDQGRNG---VTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 80 ~d~~~g~~~---~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
++++||++. ++.+.+.+++.|++|+..+.++.. +.|+..+|+++++.+ |+||++++.+++..++++|+++||
T Consensus 145 ~~~~~~~~~~~~~~~l~~~~~~~gi~v~~~~~~~~~----~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm 219 (387)
T cd06386 145 EDDKQERNCYFTLEGVHHVFQEEGYHMSIYPFDETK----DLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGL 219 (387)
T ss_pred EcCCCCccceehHHHHHHHHHhcCceEEEEecCCCC----cccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCC
Confidence 999999886 999999999999999987655444 679999999999887 999999999999999999999999
Q ss_pred cccceEEEEeCccccc-c-----cCCCCCC---hhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCC------CCCCC
Q 003167 157 MDSGYVWIATTWLSTF-I-----DSKSPLS---LKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG------SIGLN 221 (843)
Q Consensus 157 ~~~~~~~i~~~~~~~~-~-----~~~~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~ 221 (843)
+..+|+||.++...+. . ......+ ....+.+.|+.++.+ ..|.+++|.+++++++.. ...++
T Consensus 220 ~~~~yv~i~~d~~~~~~~~~~~w~~~~~~~~~~~~a~~~~~~v~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 296 (387)
T cd06386 220 TSGDYIFFNIELFNSSSYGDGSWKRGDKHDFEAKQAYSSLNTVTLLRT---VKPEFEKFSMEVKSSVEKAGDLNDCDYVN 296 (387)
T ss_pred CCCCEEEEEEecccccccCCCCCccCCCcCHHHHHHHHhheEEeccCC---CChHHHHHHHHHHHHHHhCCCCcccccch
Confidence 9999999999865311 1 0000011 122344555555444 457788888888743321 12345
Q ss_pred cchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCC
Q 003167 222 PYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRS 301 (843)
Q Consensus 222 ~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~ 301 (843)
.+++++|||++++|+|++++...+.. +.+|.+|+++|++++|+|++|+++||++|+
T Consensus 297 ~~aa~~yDav~l~A~Al~~~~~~g~~------------------------~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~ 352 (387)
T cd06386 297 MFVEGFHDAILLYALALHEVLKNGYS------------------------KKDGTKITQRMWNRTFEGIAGQVSIDANGD 352 (387)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCCCC------------------------CCCHHHHHHHHhCCceeeccccEEECCCCC
Confidence 88999999999999999998654321 225999999999999999999999999999
Q ss_pred ccCCcEEEEEee--ecCceeeeeeecCC
Q 003167 302 LLHPSYDIINVI--EHGYPQQIGYWSNY 327 (843)
Q Consensus 302 ~~~~~~~I~~~~--~~~~~~~VG~w~~~ 327 (843)
+ ...|.|+.++ +++.++.||.|...
T Consensus 353 r-~~~~~v~~~~~~~~~~~~~~~~~~~~ 379 (387)
T cd06386 353 R-YGDFSVIAMTDVEAGTYEVVGNYFGK 379 (387)
T ss_pred c-cccEEEEEccCCCCccEEEEeEEccc
Confidence 7 5699999996 44545999999753
No 23
>cd06363 PBP1_Taste_receptor Ligand-binding domain of the T1R taste receptor. Ligand-binding domain of the T1R taste receptor. The T1R is a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptors, GABAb receptors, the calcium-sensing receptor (CaSR), the V2R pheromone receptors, and a small group of uncharacterized orphan receptors.
Probab=100.00 E-value=1.3e-35 Score=330.20 Aligned_cols=288 Identities=25% Similarity=0.388 Sum_probs=239.9
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
+++|+|||||.+|+++.++++++++++||+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++|+++++
T Consensus 105 ~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~~~~lt~~~~~~~~fr~~~~~~~~~~al~~~l~~~~~k~vaii~~ 184 (410)
T cd06363 105 QPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGASSEVLSNKELYPSFLRTVPSDKDQIEAMVQLLQEFGWNWVAFLGS 184 (410)
T ss_pred CCCeEEEECCCccHHHHHHHHHhcccccccccccccCccccccccCCCeeEecCCcHHHHHHHHHHHHHCCCcEEEEEEe
Confidence 379999999999999999999999999999999999999987 6789999999999999999999999999999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
|++||....+.+.+.+++.|++|+..+.++.. ..++.|++++|.+|++++||+|++++..+++..++++|+++|+. +
T Consensus 185 ~~~~g~~~~~~~~~~l~~~gi~i~~~~~~~~~-~~~~~d~~~~l~~i~~~~~dvIil~~~~~~~~~il~qa~~~g~~--~ 261 (410)
T cd06363 185 DDEYGRDGLQLFSELIANTGICIAYQGLIPLD-TDPETDYQQILKQINQTKVNVIVVFASRQPAEAFFNSVIQQNLT--G 261 (410)
T ss_pred CChhHHHHHHHHHHHHHHCCeEEEEEEEecCC-CchHHHHHHHHHHHhcCCCeEEEEEcChHHHHHHHHHHHhcCCC--C
Confidence 99999999999999999999999998888653 02478999999999999999999999999999999999999985 3
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKL 240 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~ 240 (843)
.+||+++++........ ....+...+++++....+..+..++|.++ +++.+||||+++|+|+++
T Consensus 262 ~~~i~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~f~~~-------------~~~~~YDaV~~~a~Al~~ 325 (410)
T cd06363 262 KVWIASEAWSLNDELPS---LPGIRNIGTVLGVAQQTVTIPGFSDFIYS-------------FAFSVYAAVYAVAHALHN 325 (410)
T ss_pred CEEEEeCcccccccccC---CccceeeccEEEEEeCCCCCccHHHHHHH-------------HHHHHHHHHHHHHHHHHH
Confidence 58998876643221111 11123445677777777777888888777 456799999999999999
Q ss_pred HhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEeeecC---c
Q 003167 241 FLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHG---Y 317 (843)
Q Consensus 241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~~~~---~ 317 (843)
+..++.. .|...+.. ++++|+++|++++|+|++|++.||++|+ ....++|++++..+ .
T Consensus 326 a~~~~~~-----------------~~~~~~~~-~~~~l~~~L~~~~~~g~~g~i~fd~~G~-~~~~~~i~~~~~~~~~~~ 386 (410)
T cd06363 326 VLQCGSG-----------------GCPKRVPV-YPWQLLEELKKVNFTLLGQTVRFDENGD-PNFGYDIVVWWWDNSSGT 386 (410)
T ss_pred HhCCCCC-----------------CCCCCCCC-CHHHHHHHHhccEEecCCcEEEeCCCCC-CccceEEEEEEEcCCcee
Confidence 8655321 12211222 4889999999999999999999999999 45689999996432 3
Q ss_pred eeeeeeecCC
Q 003167 318 PQQIGYWSNY 327 (843)
Q Consensus 318 ~~~VG~w~~~ 327 (843)
+++||+|++.
T Consensus 387 ~~~vG~~~~~ 396 (410)
T cd06363 387 FEEVGSYSFY 396 (410)
T ss_pred EEEEEEEECC
Confidence 5999999874
No 24
>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=2.1e-35 Score=324.40 Aligned_cols=289 Identities=20% Similarity=0.286 Sum_probs=235.7
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
+++|.|||||.||.++.++++++++++||+|++++++|.+++ ..||+|+|+.|++ +.++++++++|+|++|++||+
T Consensus 64 ~~~V~aviGp~~S~~~~a~a~va~~~~iP~Is~~a~~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~ 140 (382)
T cd06371 64 EGYASAFVGPVNPGYCEAAALLAKEWDKALFSWGCVNYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSS 140 (382)
T ss_pred cCCceEEECCCCchHHHHHHHHHHhcCceEEecccCchhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEe
Confidence 468999999999999999999999999999999999999997 7899999999987 467889999999999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCC-CeEEEEEcCh-----hhHHHHHHHHHHc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME-ARVIVVHGYS-----RTGLMVFDVAQRL 154 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~-~~viv~~~~~-----~~~~~i~~~a~~~ 154 (843)
+++||....+.+.+.+++.|++|+..+.++.+ +.|++++|++||+.+ +|+||++++. .++..+++||+++
T Consensus 141 ~~~~~~~~~~~l~~~l~~~gi~v~~~~~~~~~----~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~ 216 (382)
T cd06371 141 PQDIWVETAQKLASALRAHGLPVGLVTSMGPD----EKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEM 216 (382)
T ss_pred cccchHHHHHHHHHHHHHCCCcEEEEEEecCC----HHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHc
Confidence 99999999999999999999999988888766 789999999999987 6999998876 6778999999999
Q ss_pred CCcccceEEEEeCccccccc----CCC--CCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhh-c--C-CCCCCCcch
Q 003167 155 GMMDSGYVWIATTWLSTFID----SKS--PLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL-S--N-GSIGLNPYG 224 (843)
Q Consensus 155 g~~~~~~~~i~~~~~~~~~~----~~~--~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~--~-~~~~~~~~~ 224 (843)
||+..+|+||.+++.....+ ... ..+....++.++++++....+..+..++|.+.|+.. + + ....++.|+
T Consensus 217 Gm~~~~y~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~ 296 (382)
T cd06371 217 GMTDGRYVFIPYDTLLYSLPYRNVSYPALRNNSKLRRAYDAVLTITMDSGEQSFYEAFRAAQERGEIPSDLEPEQVSPLF 296 (382)
T ss_pred CCcCCcEEEEEeccccccCCCCCccccCCCCCHHHHHHhHhhEEEEecCCCCcHHHHHHHHHhcCCCCCCCCccccchhH
Confidence 99989999999985431110 000 012334467888888877655555556666655321 1 1 111234566
Q ss_pred hhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccC
Q 003167 225 LYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLH 304 (843)
Q Consensus 225 ~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~ 304 (843)
+++|||++++|+|++++++.++. .++.+|+++|++++|+|++|+|+||++|++ .
T Consensus 297 ~~~YDav~~~a~Al~~a~~~g~~-------------------------~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~ 350 (382)
T cd06371 297 GTIYNSIYLLAHAVENARAAGGG-------------------------VSGANLAQHTRNLEFQGFNQRLRTDSGGGG-Q 350 (382)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCC-------------------------ccHHHHHHHHhCccccccceEEEecCCCCc-c
Confidence 78999999999999999754321 148999999999999999999999999995 7
Q ss_pred CcEEEEEeeecCceeeeeee
Q 003167 305 PSYDIINVIEHGYPQQIGYW 324 (843)
Q Consensus 305 ~~~~I~~~~~~~~~~~VG~w 324 (843)
+.|.|+++.++|. +-+-++
T Consensus 351 ~~~~v~~~~~~~~-~~~~~~ 369 (382)
T cd06371 351 APYVVLDTDGKGD-QLYPTY 369 (382)
T ss_pred cceEEEecCCCCC-eeeeeE
Confidence 9999999998776 555444
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=1.5e-35 Score=329.93 Aligned_cols=296 Identities=17% Similarity=0.228 Sum_probs=242.3
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEE-EEE
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVI-AIF 79 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~-ii~ 79 (843)
.++|.|||||.||.++.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++|+|++++ ++|
T Consensus 72 ~~~v~aiiGp~~S~~~~~va~~a~~~~iP~Is~~a~~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~ 151 (405)
T cd06385 72 THNPWAFIGPGCDYTASPVARFTTHWDVPLVTAGAPALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIY 151 (405)
T ss_pred hcCCcEEECCCccchHHHHHHHHhccCCcEEccccChhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEE
Confidence 358999999999999999999999999999999999999998 689999999999999999999999999999998 566
Q ss_pred ecCC-CCcc---hHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcC
Q 003167 80 NDDD-QGRN---GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 80 ~d~~-~g~~---~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g 155 (843)
.++. +|+. ..+.+.+.+++.|++|+..+..+.+ +.|++++|++|++.. |+|+++++..++..++++|.++|
T Consensus 152 ~~~~~~~~~~~~~~~~l~~~~~~~gi~v~~~~~~~~~----~~d~~~~l~~ik~~~-~iii~~~~~~~~~~i~~~a~~~g 226 (405)
T cd06385 152 SDNKVDDRPCYFAMEGLYMELKKNNITVVDLVFEEDD----LINYTTLLQDIKQKG-RVIYVCCSPDIFRRLMLQFWREG 226 (405)
T ss_pred ecCcccccchHHHHHHHHHHHHhCCeEEEEeeccCCc----hhhHHHHHHHHhhcc-eEEEEeCCHHHHHHHHHHHHHcC
Confidence 6544 3344 4688999999999999987633233 789999999998754 99999999999999999999999
Q ss_pred CcccceEEEEeCcccccccC---------CCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhh----cCCCCC---
Q 003167 156 MMDSGYVWIATTWLSTFIDS---------KSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL----SNGSIG--- 219 (843)
Q Consensus 156 ~~~~~~~~i~~~~~~~~~~~---------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~~~--- 219 (843)
|+.++|+||+++++...... ....+....+++++++....+.+.++.+++|.++|+++ |+...+
T Consensus 227 ~~~~~y~~i~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~ 306 (405)
T cd06385 227 LPSEDYVFFYIDLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTVEDSL 306 (405)
T ss_pred CCCCcEEEEEeecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCccchhh
Confidence 99999999998765432221 01111234566788888877777788899999999985 543211
Q ss_pred CCcchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccC
Q 003167 220 LNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQD 299 (843)
Q Consensus 220 ~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~ 299 (843)
++.+++++|||||++|.||+++....+. +.+|++|.++|++++|+|++|+|.||++
T Consensus 307 ~~~~aa~~YDav~l~a~Al~~~~~~~~~------------------------~~~g~~i~~~l~~~~f~G~tG~v~fd~~ 362 (405)
T cd06385 307 MNIIAGGFYDGVMLYAHALNETMAKGGT------------------------RPPGTAITQRMWNRTFYGVTGFVKIDDN 362 (405)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCC------------------------CCCHHHHHHHhhCceEeeceeEEEEcCC
Confidence 5688999999999999999998654221 2259999999999999999999999999
Q ss_pred CCccCCcEEEEEe---eecCceeeeeeecCCC
Q 003167 300 RSLLHPSYDIINV---IEHGYPQQIGYWSNYS 328 (843)
Q Consensus 300 G~~~~~~~~I~~~---~~~~~~~~VG~w~~~~ 328 (843)
|+| .+.|.|+++ +++.+ +.||+|+..+
T Consensus 363 G~r-~~~~~~~~~~~~~~g~~-~~v~~~~~~~ 392 (405)
T cd06385 363 GDR-ETDFALWDMTDTESGDF-QVVSVYNGTQ 392 (405)
T ss_pred CCE-eceeEEEEccCCCCCcE-EEEEEEcccC
Confidence 997 478888865 45444 9999997643
No 26
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=100.00 E-value=2.5e-35 Score=326.90 Aligned_cols=296 Identities=16% Similarity=0.208 Sum_probs=241.9
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC--CCCCceEEcCCChHHhHHHHHHHHHHcCCc-EEEEE
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWG-EVIAI 78 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~--~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~-~v~ii 78 (843)
.++|.|||||.||+++.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++..++++|+|+ ++++|
T Consensus 71 ~~~v~aviGp~~S~~~~av~~i~~~~~iP~Is~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaii 150 (399)
T cd06384 71 YSDPDVFFGPGCVYPTASVARFATHWRLPLITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALL 150 (399)
T ss_pred hcCCCEEECCCCchHHHHHHHHHhhcCCcEEeeccchhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEE
Confidence 357889999999999999999999999999999999999986 478999999999999999988899999999 68899
Q ss_pred EecCCCCc----chHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHc
Q 003167 79 FNDDDQGR----NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRL 154 (843)
Q Consensus 79 ~~d~~~g~----~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~ 154 (843)
|.++.++. ...+.+.+.+++.|++|+....+..+ +.|++++|.+|+. ++|+|+++++..++..+++||+++
T Consensus 151 y~~~~~~~~~~~~~~~~~~~~~~~~gi~v~~~~~~~~~----~~d~~~~l~~ik~-~~~vIi~~~~~~~~~~i~~qa~~~ 225 (399)
T cd06384 151 YLDLKTDDRPHYFISEGVFLALQEENANVSAHPYHIEK----NSDIIEIIQFIKQ-NGRIVYICGPLETFLEIMLQAQRE 225 (399)
T ss_pred EecCCccCCcceEehHHHHHHHHhcCceEEEEEEeccc----hhhHHHHHHHHhh-cccEEEEeCCchHHHHHHHHHHHc
Confidence 97543321 14677888899999999986655544 7899999999997 899999999999999999999999
Q ss_pred CCcccceEEEEeCcccccccC----------CCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhh----cCCCCCC
Q 003167 155 GMMDSGYVWIATTWLSTFIDS----------KSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL----SNGSIGL 220 (843)
Q Consensus 155 g~~~~~~~~i~~~~~~~~~~~----------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~~~~ 220 (843)
||+.++|+||..++....+.. .....+...+++++++++..+.+.++.+++|.++|+++ |+....+
T Consensus 226 g~~~~~y~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p 305 (399)
T cd06384 226 GLTPGDYVFFYLDVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEP 305 (399)
T ss_pred CCCCCcEEEEEehhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCc
Confidence 999999999998765422110 00012345568899999988888888899999999874 5432223
Q ss_pred ---CcchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEec
Q 003167 221 ---NPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFN 297 (843)
Q Consensus 221 ---~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd 297 (843)
+.+++++||||+++|.|++++...++ .+.+|.+|+++|++++|+|++|++.||
T Consensus 306 ~~~~~~aa~~YDav~l~a~Al~~~~~~~~------------------------~~~~g~~i~~~l~~~~f~GvtG~v~fd 361 (399)
T cd06384 306 SLMNFIAGCFYDGVMLYAMALNETLAEGG------------------------SQKDGLNITRKMQDRRFWGVTGLVSID 361 (399)
T ss_pred chHhhhhhhhHHHHHHHHHHHHHHHhcCC------------------------CCCCcHhHHHHHhCceeecceeEEEEC
Confidence 66799999999999999999865422 133589999999999999999999999
Q ss_pred cCCCccCCcEEEE---EeeecCceeeeeeecCCC
Q 003167 298 QDRSLLHPSYDII---NVIEHGYPQQIGYWSNYS 328 (843)
Q Consensus 298 ~~G~~~~~~~~I~---~~~~~~~~~~VG~w~~~~ 328 (843)
++|++ ...|.++ ++++++. +.||+|+..+
T Consensus 362 ~~G~r-~~~~~~~~~~~~~~g~~-~~v~~~~~~~ 393 (399)
T cd06384 362 KNNDR-DIDFDLWAMTDHETGKY-EVVAHYNGIT 393 (399)
T ss_pred CCCCc-ccceEEEEeecCCCCeE-EEEEEEcCCC
Confidence 99996 4667773 4556655 9999998754
No 27
>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=2.7e-35 Score=329.88 Aligned_cols=324 Identities=22% Similarity=0.403 Sum_probs=275.2
Q ss_pred CeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 4 DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 4 ~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
.|+|||||..|+++.+++.++.-++||||+|+||+|.|++ .+|+||.|+.|+|..|++||++++++|+|++|..+++++
T Consensus 125 ~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~Am~~il~~f~W~yVstv~s~~ 204 (878)
T KOG1056|consen 125 PVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQAMVDILKKFNWNYVSTVASEG 204 (878)
T ss_pred ceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchhhhceeeecCChHHHHHHHHHHHHHhCeeEeeehhcCc
Confidence 5899999999999999999999999999999999999999 899999999999999999999999999999999999999
Q ss_pred CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc-CCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 83 DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 83 ~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~-~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
+||+.++++|++..++.|+||...+.++.. ..+..++.+++++.. .+++++|+++..+++..++++|+++++.+ .+
T Consensus 205 dYGE~Gieaf~~~a~~~~iCIa~s~ki~~~--~~~~~~~~~l~kl~~~~~a~vvV~F~~~~~~r~~~~aa~~~n~~g-~~ 281 (878)
T KOG1056|consen 205 DYGESGIEAFKEEAAERGICIAFSEKIYQL--SIEQEFDCVLRKLLETPNARVVVVFCRGEDARRLLKAARRANLTG-EF 281 (878)
T ss_pred cchhhhHHHHHHhHHhcCceEEehhhcccc--cchhHHHHHHHHHhhcCCCeEEEEecCcchHHHHHHHHHHhCCCc-ce
Confidence 999999999999999999999999887776 778899999999988 89999999999999999999999988754 58
Q ss_pred EEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHH---------------HhhhcCCCC--------
Q 003167 162 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSR---------------WNTLSNGSI-------- 218 (843)
Q Consensus 162 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~---------------~~~~~~~~~-------- 218 (843)
+||++++|....+... ......+|++++.+..+..+.+++|.+. |+++|++..
T Consensus 282 ~wiaSd~W~~~~~~~~----~~e~~a~g~i~i~l~~~~v~~F~~y~~s~~p~nn~~n~w~~e~w~~~f~C~l~~~~~~~~ 357 (878)
T KOG1056|consen 282 LWIASDGWASQNSPTE----APEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFAEFWEDKFNCSLPNSAFKNE 357 (878)
T ss_pred EEEecchhhccCChhh----hhhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccchhhhhcccCCCCcccccch
Confidence 9999999986544322 2234788999999988887877776543 565554210
Q ss_pred -------------CC-----CcchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHH
Q 003167 219 -------------GL-----NPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLA 280 (843)
Q Consensus 219 -------------~~-----~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 280 (843)
.. ..-....+||||++|+||+.+..+... +....|..+...+ |.+|.+
T Consensus 358 ~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~-------------~~~~~C~~m~~~d-g~~L~~ 423 (878)
T KOG1056|consen 358 NLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCP-------------GTSGLCSAMKAID-GSLLLK 423 (878)
T ss_pred hhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcC-------------CccccCcCccccC-HHHHHh
Confidence 00 012456999999999999999765321 2344677777765 999999
Q ss_pred HHHhcccCCcceeeEeccCCCccCCcEEEEEeeecC---ceeeeeeecCCCCCcccCCcccccCCCCCCCCCCccceeee
Q 003167 281 NILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHG---YPQQIGYWSNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVW 357 (843)
Q Consensus 281 ~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~~~~---~~~~VG~w~~~~gl~~~~~~~~~~~~~~~~~~~~~l~~i~W 357 (843)
++++++|.|..|.+.||++|| ....|+|++++..+ .+..||+|+.... .+...+.|
T Consensus 424 ~l~~vnF~~~~~~v~Fd~~gD-~~~~y~I~~~~~~~~~~~y~~vg~w~~~~~--------------------l~i~~~~w 482 (878)
T KOG1056|consen 424 YLLNVNFTGPAGSVRFDENGD-GPGRYDILNYQLTNGSYTYKEVGYWSEGLS--------------------LNIEDLDW 482 (878)
T ss_pred hhheeEEecCCCceeecCCCC-CccceeEEEeeccCCCccceeeeeeccccc--------------------ccceeeee
Confidence 999999999999999999999 78999999998555 5689999987542 23356789
Q ss_pred CCCcccCCcccc
Q 003167 358 PGGVTSKPRGWV 369 (843)
Q Consensus 358 pg~~~~~p~~~~ 369 (843)
.++..++|++.|
T Consensus 483 ~~~~~~v~~S~C 494 (878)
T KOG1056|consen 483 TTKPSGVPKSVC 494 (878)
T ss_pred ccCCCCCccccc
Confidence 998888999988
No 28
>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=6.3e-35 Score=324.05 Aligned_cols=298 Identities=18% Similarity=0.271 Sum_probs=243.8
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
+++|.|||||.||+++.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++|++||+
T Consensus 71 ~~~v~aiiGp~~S~~~~av~~~~~~~~ip~Is~~as~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vaii~~ 150 (396)
T cd06373 71 QHKPDAFLGPGCEYAAAPVARFAAHWNVPVLTAGAPAAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAALLYH 150 (396)
T ss_pred ccCCeEEECCCccchhHHHHHHHhcCCCceECccCCccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEEEEEE
Confidence 568999999999999999999999999999999999999997 6899999999999999999999999999999999999
Q ss_pred cCCCC----cchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 81 DDDQG----RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 81 d~~~g----~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
+++++ ....+.+.+.+++.|++|+.. .+... ....|+.++|++|++.. |+|+++++..++..+++||+++||
T Consensus 151 ~~~~~~~~~~~~~~~~~~~~~~~g~~v~~~-~~~~~--~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~g~ 226 (396)
T cd06373 151 DDKNDDRPCYFTLEGVYTVLKEENITVSDF-PFDED--KELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRLGL 226 (396)
T ss_pred CCCCCcchHHHHHHHHHHHHhhcCceeeEE-eecCC--ccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCC
Confidence 88774 557889999999999998854 34433 11479999999999865 999999999999999999999999
Q ss_pred cccceEEEEeCcccccccC--------CCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhh----cCCC---CCCC
Q 003167 157 MDSGYVWIATTWLSTFIDS--------KSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL----SNGS---IGLN 221 (843)
Q Consensus 157 ~~~~~~~i~~~~~~~~~~~--------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~---~~~~ 221 (843)
...+|+||..+........ .........+..+|++++..+.++.+..++|.++|+++ |+.. ..++
T Consensus 227 ~~~~yv~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~ 306 (396)
T cd06373 227 TSGEYVFFNIDLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVN 306 (396)
T ss_pred CCCcEEEEEEccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHH
Confidence 9999999997654321100 01111234456778888888888888899999999875 4311 1345
Q ss_pred cchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCC
Q 003167 222 PYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRS 301 (843)
Q Consensus 222 ~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~ 301 (843)
.+++++|||++++|+||+++..+.+. +.++++|+++|++++|+|++|+++||++|+
T Consensus 307 ~~a~~~YDav~~~a~Al~~~~~~~~~------------------------~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~ 362 (396)
T cd06373 307 FFAGAFYDAVLLYALALNETLAEGGD------------------------PRDGTNITRRMWNRTFEGITGNVSIDENGD 362 (396)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCC------------------------CCChHHHHHHhcCCceecccCceEeecCCc
Confidence 78999999999999999998654221 124899999999999999999999999999
Q ss_pred ccCCcEEEEEee--ecCceeeeeeecCCC
Q 003167 302 LLHPSYDIINVI--EHGYPQQIGYWSNYS 328 (843)
Q Consensus 302 ~~~~~~~I~~~~--~~~~~~~VG~w~~~~ 328 (843)
+ ...|.|+++. ++|.++.||++++.+
T Consensus 363 ~-~~~~~v~~~~~~~~g~~~~~~~~~~~~ 390 (396)
T cd06373 363 R-ESDFSLWDMTDTETGTFEVVANYNGSN 390 (396)
T ss_pred c-cceeeeeeccCCCCceEEEEeeccccc
Confidence 5 5788887762 344559999998754
No 29
>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=1.7e-34 Score=319.95 Aligned_cols=297 Identities=17% Similarity=0.285 Sum_probs=234.2
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
+++|.|||||.||+++.+++++++.++||+|+++++++.+++ ..||+++|+.|++..++.+++++++++||++|++||.
T Consensus 66 ~~~v~aiiGp~~S~~~~av~~va~~~~iP~is~~s~s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~vaii~~ 145 (391)
T cd06372 66 KEHISALFGPACPEAAEVTGLLASQWNIPMFGFVGQTAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIGLFGG 145 (391)
T ss_pred hcCceEEECCCCCcHHHHHHHHHhccCccEEEeecCCccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEEEEEe
Confidence 358999999999999999999999999999999999999997 6789999999999999999999999999999999986
Q ss_pred cC---CCC--cchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcC
Q 003167 81 DD---DQG--RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 81 d~---~~g--~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g 155 (843)
++ .|| ....+.+.+.++ .+++++..+.++.+ +.|+...+.+.+++++|+||++++..++..++++|+++|
T Consensus 146 ~~~~~~~~~~~~~~~~~~~~~~-~~~~i~~~~~~~~~----~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~~g 220 (391)
T cd06372 146 SSRDSSWDEVDELWKAVENQLK-FHFNITATVRYSSS----NPDLLQEKLRYISSVARVIILICSSEDAKAILQAAEKLG 220 (391)
T ss_pred ccccchhhhHHHHHHHHHHHHh-hCEEEEEEEecCCC----ChHHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHHcC
Confidence 43 344 223445555554 67899988887766 577777777777799999999999999999999999999
Q ss_pred CcccceEEEEeCccccc-ccCC-CC-CChhhhhhccccEEEEEeCCC-chhhHHHHHHHhhhcCCCC---------CCCc
Q 003167 156 MMDSGYVWIATTWLSTF-IDSK-SP-LSLKTAKSILGALTLRQHTPD-SKRRRDFVSRWNTLSNGSI---------GLNP 222 (843)
Q Consensus 156 ~~~~~~~~i~~~~~~~~-~~~~-~~-~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~---------~~~~ 222 (843)
|+..+|+||.+.+.... +... .. ......+..+|++++.+..+. .+..++|.++|+++++..+ ..+.
T Consensus 221 ~~~~~y~~i~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~ 300 (391)
T cd06372 221 LMKGKFVFFLLQQFEDNFWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSP 300 (391)
T ss_pred CCCCCEEEEEehhhcCccccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchH
Confidence 98878999996432111 1100 00 012233567788888776542 3557788888887764221 3357
Q ss_pred chhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHH---hcccCCcceeeEeccC
Q 003167 223 YGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANIL---QTNMTGLSGPIHFNQD 299 (843)
Q Consensus 223 ~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~---~~~f~G~tG~v~fd~~ 299 (843)
+++++|||||++|+|++++..++.. +.+|.+|.++|+ +++|+|++|+|.||++
T Consensus 301 ~a~~~yDav~~~A~Al~~~~~~g~~------------------------~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~ 356 (391)
T cd06372 301 YSAYLHDAVLLYALAVKEMLKAGKD------------------------FRNGRQLVSTLRGANQVELQGITGLVLLDEQ 356 (391)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCC------------------------CCCHHHHHHHHhhccCceEeccceeEEECCC
Confidence 8999999999999999998654321 235889999999 6899999999999999
Q ss_pred CCccCCcEEEEEeeecC---ceeeeeeecCCC
Q 003167 300 RSLLHPSYDIINVIEHG---YPQQIGYWSNYS 328 (843)
Q Consensus 300 G~~~~~~~~I~~~~~~~---~~~~VG~w~~~~ 328 (843)
|++ .+.|.|+++++.+ ..+.||+|+..+
T Consensus 357 G~r-~~~y~i~~~~~~~~~~~~~~vg~~~~~~ 387 (391)
T cd06372 357 GKR-QMDYSVYALQKSGNSSLFLPFLHYDSHQ 387 (391)
T ss_pred CCc-ceeEEEEeccccCCccceeeEEEecchh
Confidence 996 6899999998522 258999998643
No 30
>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=2e-34 Score=315.14 Aligned_cols=277 Identities=42% Similarity=0.755 Sum_probs=243.8
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
++|.+||||.+|..+.+++++++.++||+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++|++|+.|
T Consensus 65 ~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~~~~~v~ii~~~ 144 (350)
T cd06366 65 KPVVAIIGPQCSSVAEFVAEVANEWNVPVLSFAATSPSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKFGWRRVATIYED 144 (350)
T ss_pred CCceEEECCCcHHHHHHHHHHhhcCCeeEEeccCCCccccccccCCceEEcccchHhHHHHHHHHHHHCCCcEEEEEEEc
Confidence 58999999999999999999999999999999999999965 67899999999999999999999999999999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
++||+...+.+.+.+++.|++|+..+.++.+ .+..|+.+++++|+++++|+|++++...++..++++++++|+...++
T Consensus 145 ~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~~~~~ 222 (350)
T cd06366 145 DDYGSGGLPDLVDALQEAGIEISYRAAFPPS--ANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMMGKGY 222 (350)
T ss_pred CcccchhHHHHHHHHHHcCCEEEEEeccCCC--CChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCcCCCE
Confidence 9999999999999999999999999888765 34689999999999999999999999999999999999999988889
Q ss_pred EEEEeCcccccccC-CCCCChhhhhhccccEEEEEeCCC-chhhHHHHHHHhhhcCCCC----CCCcchhhHhhHHHHHH
Q 003167 162 VWIATTWLSTFIDS-KSPLSLKTAKSILGALTLRQHTPD-SKRRRDFVSRWNTLSNGSI----GLNPYGLYAYDTVWMIA 235 (843)
Q Consensus 162 ~~i~~~~~~~~~~~-~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~----~~~~~~~~~YDAv~~la 235 (843)
+||.++++...++. .........+..+|++++.++.+. .+..++|.++|+++++... .++.+++.+|||+++
T Consensus 223 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~p~~~a~~~YDav~~-- 300 (350)
T cd06366 223 VWILTDWLSSNWWSSSDCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPELTEPSIYALYAYDAVWA-- 300 (350)
T ss_pred EEEECcchhhhhccCCCCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcCcCCCCcccchhhhheee--
Confidence 99999866543311 011123455778999999988887 7889999999999986321 477899999999987
Q ss_pred HHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEeeec
Q 003167 236 RALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEH 315 (843)
Q Consensus 236 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~~~ 315 (843)
+.+|+|++|+|+||++|++....|+++++.++
T Consensus 301 ------------------------------------------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~ 332 (350)
T cd06366 301 ------------------------------------------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGK 332 (350)
T ss_pred ------------------------------------------------eceEEeeeeeEEEcCCCccCCcceEEEEecCC
Confidence 22688999999999999988899999999877
Q ss_pred CceeeeeeecCCCCCcc
Q 003167 316 GYPQQIGYWSNYSGLSV 332 (843)
Q Consensus 316 ~~~~~VG~w~~~~gl~~ 332 (843)
++ ++||+|++..|++.
T Consensus 333 ~~-~~vg~~~~~~~~~~ 348 (350)
T cd06366 333 GY-RKIGFWSSESGLSV 348 (350)
T ss_pred ce-EEEEEEeCCCCccc
Confidence 77 99999999888764
No 31
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=1.4e-34 Score=312.28 Aligned_cols=287 Identities=16% Similarity=0.244 Sum_probs=224.5
Q ss_pred CeEEEE-cCCChH--HHHHHHHhcccCCCcEEecccCCC-CCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEE
Q 003167 4 DTLAIV-GPQSAV--MAHVLSHLANELQVPLLSFTALDP-TLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAI 78 (843)
Q Consensus 4 ~V~aii-Gp~~S~--~~~av~~~~~~~~vP~Is~~at~~-~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii 78 (843)
+|.|+| ||.++. .+..++.++++++||+|+++++++ .+++ ..+|||+|+.|++..|+.|+++++++|+|++|++|
T Consensus 62 ~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~~Psd~~q~~Ai~~Ii~~f~W~~v~iV 141 (362)
T cd06378 62 KVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQFGPSIEQQAAVMLKIMEEYDWHAFSVV 141 (362)
T ss_pred ceEEEEecCCCCccccchhhhhhhhceeccEEEecccccccccCCCCCceEEEeCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence 699766 999997 556788899999999999987665 5566 67999999999999999999999999999999999
Q ss_pred EecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 79 FNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 79 ~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
|++++.+....+.+++.+.+.++|+.....++... ..+.+...++.+++..++++||++|+.+++..++++|+++||++
T Consensus 142 ~~~~~g~~~~~~~l~~~~~~~~~~~~i~~~~~~~~-~~~~~~~~~l~~lk~~~arViVl~~s~~~a~~if~~A~~~gm~g 220 (362)
T cd06378 142 TSRFPGYDDFVSAVRTTVDNSFVGWELQSVLTLDM-SDDDGDARTQRQLKKLESQVILLYCSKEEAEYIFRAARSAGLTG 220 (362)
T ss_pred EEcCCCHHHHHHHHHHHHhhcccceeEEEEEeecc-CCCcchHHHHHHHHhcCCCEEEEECCHHHHHHHHHHHHHcCCcC
Confidence 99988777788888888777777765544443331 11234788899999999999999999999999999999999999
Q ss_pred cceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHH
Q 003167 159 SGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARAL 238 (843)
Q Consensus 159 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al 238 (843)
++|+||++++.....+.. ..+...|++++.. ++|+.. +.+..||||+++|+|+
T Consensus 221 ~~yvWI~t~~~~~~~~~~------~~~~~~G~i~v~~------------~~w~~~---------~~a~~~DaV~vva~Al 273 (362)
T cd06378 221 PGYVWIVPSLVLGNTDLG------PSEFPVGLISVSY------------DGWRYS---------LRARVRDGVAIIATGA 273 (362)
T ss_pred CCeEEEecccccCCCccc------cccCCcceEeecc------------cccccc---------HHHHHHHHHHHHHHHH
Confidence 999999999776553211 1123466666542 234321 3567899999999999
Q ss_pred HHHhhcCCcccccCCCccCCCCCCcccCCC-cc-cccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEeeec-
Q 003167 239 KLFLDQGNTISFSNDTKLNGLGGGTLNLGA-LS-IFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEH- 315 (843)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~~~- 315 (843)
+.+....+..+ ....+|.. .. .|..|..|+++|++++|+|+ +|+||++|++.++.|+|+|++++
T Consensus 274 ~~l~~~~~~~~-----------~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~~~G~r~~~~ldIinl~~~~ 340 (362)
T cd06378 274 SAMLRQHGFIP-----------EAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFTEDGYLVNPKLVVISLNKER 340 (362)
T ss_pred HHHHhccCCCC-----------CCCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeECCCCeEccceEEEEEecCCC
Confidence 98865333221 11223432 22 37779999999999999996 99999999999999999999964
Q ss_pred CceeeeeeecCCCCCccc
Q 003167 316 GYPQQIGYWSNYSGLSVV 333 (843)
Q Consensus 316 ~~~~~VG~w~~~~gl~~~ 333 (843)
++ ++||+|++ .+|.|.
T Consensus 341 g~-~kVG~W~~-~~L~~~ 356 (362)
T cd06378 341 VW-EEVGKWEN-GSLRLK 356 (362)
T ss_pred Cc-eEEEEEcC-CeEEEe
Confidence 77 99999984 445543
No 32
>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=8e-34 Score=315.05 Aligned_cols=300 Identities=21% Similarity=0.382 Sum_probs=256.3
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
+++|.|||||.+|+++.++++++++++||+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++++++++
T Consensus 66 ~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~Is~~~~~~~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~~v~ii~~ 145 (389)
T cd06352 66 EHNVDAFIGPGCPYACAPVARLAAHWNIPMISWGCVALSLSDKSEYPTLTRTLPPARKLGEAVLALLRWFNWHVAVVVYS 145 (389)
T ss_pred hcCCcEEECCCChhHHHHHHHHHhcCCCCEecccccccccCccccCCceeecCCcHHHHHHHHHHHHHHcCceEEEEEEe
Confidence 468999999999999999999999999999999999999987 5789999999999999999999999999999999999
Q ss_pred cCC-CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCccc
Q 003167 81 DDD-QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDS 159 (843)
Q Consensus 81 d~~-~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~ 159 (843)
++. ||....+.+.+++++.|++|+....++.+ ...+|+..+++++++.+ |+|++++...++..+++|++++|+...
T Consensus 146 ~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~ 222 (389)
T cd06352 146 DDSENCFFTLEALEAALREFNLTVSHVVFMEDN--SGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSG 222 (389)
T ss_pred cCCccHHHHHHHHHHHHHhcCCeEEEEEEecCC--ccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCC
Confidence 888 99999999999999999999998888765 22589999999999887 999999999999999999999999877
Q ss_pred ceEEEEeCcccccccC--------CCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCC--------CCCCcc
Q 003167 160 GYVWIATTWLSTFIDS--------KSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS--------IGLNPY 223 (843)
Q Consensus 160 ~~~~i~~~~~~~~~~~--------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~--------~~~~~~ 223 (843)
+++||.++.+...... .........+.++|++++.+..+..+..++|.++|+++++.. ..++.+
T Consensus 223 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~ 302 (389)
T cd06352 223 DYVFILIDLFNYSLPYQNSYPWERGDGDDEKAKEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPY 302 (389)
T ss_pred cEEEEEEehhccccccCCCCCcccCCcccHHHHHHHHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchh
Confidence 8999998766544211 011123445678899998888777889999999999988532 235678
Q ss_pred hhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCcc
Q 003167 224 GLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLL 303 (843)
Q Consensus 224 ~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~ 303 (843)
++.+|||++++|+|++++..++.. +.++.++.++|++++|.|++|++.||++|++
T Consensus 303 a~~~YDav~~~a~Al~~~~~~~~~------------------------~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~- 357 (389)
T cd06352 303 AGYLYDAVLLYAHALNETLAEGGD------------------------YNGGLIITRRMWNRTFSGITGPVTIDENGDR- 357 (389)
T ss_pred hhhHHHHHHHHHHHHHHHHHhCCC------------------------CCchHHHHHHhcCcEEEeeeeeEEEcCCCCe-
Confidence 999999999999999998765321 1248899999999999999999999999996
Q ss_pred CCcEEEEEeeec-CceeeeeeecCCCC
Q 003167 304 HPSYDIINVIEH-GYPQQIGYWSNYSG 329 (843)
Q Consensus 304 ~~~~~I~~~~~~-~~~~~VG~w~~~~g 329 (843)
...|.|+++++. +....++.++..++
T Consensus 358 ~~~~~v~~~~~~~~~~~~~~~~~~~~~ 384 (389)
T cd06352 358 EGDYSLLDLDSTGGQLEVVYLYDTSSG 384 (389)
T ss_pred eeeEEEEEecCCCceEEEEEeccccce
Confidence 478999999864 55588898876653
No 33
>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=3e-33 Score=310.62 Aligned_cols=287 Identities=15% Similarity=0.257 Sum_probs=232.8
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
+++|.|||||.+|.. +++.+++.++||+|+++++++.+++ ..||+|||+.|++..++.++++++++++|++|++|++
T Consensus 67 ~~~v~aiiGp~~S~~--~~a~i~~~~~iP~Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~ 144 (404)
T cd06370 67 KRGVVAFIGPECTCT--TEARLAAAWNLPMISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYE 144 (404)
T ss_pred hcCceEEECCCchhH--HHHHHHhhcCCcEEecccCCccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEe
Confidence 458999999999854 4567999999999999999999987 6789999999999999999999999999999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCC---CChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQS---VTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~---~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~ 157 (843)
+++||+...+.+++.+++.|++|+..+.++.... ....++..+|+++++. ++++|+++...++..+++||+++||+
T Consensus 145 ~~~~g~~~~~~~~~~~~~~g~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~~~~~~~~l~qa~~~g~~ 223 (404)
T cd06370 145 NDSKYSSVFETLKEEAELRNITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVFIGEANELRQFLMSMLDEGLL 223 (404)
T ss_pred cCcccHHHHHHHHHHHHHcCCEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEEEcCHHHHHHHHHHHHHcCCC
Confidence 9999999999999999999999999988876410 0147889999888764 78888888888899999999999998
Q ss_pred -ccceEEEEeCccccc---------------ccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCC-----
Q 003167 158 -DSGYVWIATTWLSTF---------------IDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG----- 216 (843)
Q Consensus 158 -~~~~~~i~~~~~~~~---------------~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~----- 216 (843)
..+|+||.++..... ............++++|++.+.+..+ .+..++|.++|++++..
T Consensus 224 ~~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~ 302 (404)
T cd06370 224 ESGDYMVLGVDIEYYDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV-SPDYDSFSIFVRKYNLEPPFNG 302 (404)
T ss_pred CCCcEEEEEEchhhccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC-CchHHHHHHHHHHhccCCCCcc
Confidence 578999986632110 01000011244567889888776554 77788999999886432
Q ss_pred -------CCCCCcchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCC
Q 003167 217 -------SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTG 289 (843)
Q Consensus 217 -------~~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G 289 (843)
...++.+++++|||++++|+|++++.+++.. ..++.+|.++|++++|+|
T Consensus 303 ~~~~~~~~~~~~~~aa~~yDAv~~~a~Al~~~~~~~~~------------------------~~~g~~i~~~l~~~~f~G 358 (404)
T cd06370 303 DLGESELVLEIDIEAAYLYDAVMLYAKALDETLLEGGD------------------------IYNGTAIVSHILNRTYRS 358 (404)
T ss_pred cccccccccccceeeehhHHHHHHHHHHHHHHHHhcCC------------------------CCCHHHHHHHHhCccccc
Confidence 1245678999999999999999998655321 114899999999999999
Q ss_pred cce-eeEeccCCCccCCcEEEEEeeecCc
Q 003167 290 LSG-PIHFNQDRSLLHPSYDIINVIEHGY 317 (843)
Q Consensus 290 ~tG-~v~fd~~G~~~~~~~~I~~~~~~~~ 317 (843)
++| +|.||++|++ ...|.|++++++.+
T Consensus 359 vtG~~v~fd~~G~~-~~~y~v~~~~~~~~ 386 (404)
T cd06370 359 ITGFDMYIDENGDA-EGNYSVLALQPIPP 386 (404)
T ss_pred ccCceEEEcCCCCc-ccceEEEEeccccc
Confidence 999 8999999996 58999999976544
No 34
>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=2.1e-33 Score=307.43 Aligned_cols=287 Identities=26% Similarity=0.493 Sum_probs=240.8
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC--CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~--~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
++|.|||||.|+..+.+++.+++.++||+|+++++++.+++ ..||+++|+.|++..+++++++++++++|++|++||+
T Consensus 50 ~~v~aviGp~~~~~~~~~~~~~~~~~ip~is~~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~ 129 (348)
T PF01094_consen 50 QGVVAVIGPSCSSSAEAVASLASEWNIPQISPGSTSPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYS 129 (348)
T ss_dssp HTECEEEETSSHHHHHHHHHHHHHTT-EEEESSGGSGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEE
T ss_pred CCcEEEECCCcccccchhheeecccccceeeccccccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeecc
Confidence 57999999999999999999999999999999999999988 4899999999999999999999999999999999999
Q ss_pred cCCCCcchHHHHHHHHHhcC-cEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHHHcCCc
Q 003167 81 DDDQGRNGVTALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~~~g~~ 157 (843)
++++|....+.+.+.+++.+ .++......+.. ..++...+..+++ .++++|++++...++..++++|.++||.
T Consensus 130 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a~~~~~~ 205 (348)
T PF01094_consen 130 DDDYGNSLADSFQDLLRERGGICVAFISVVISS----DSDAEELLKKLKEIKSGARVVILCSSPEDARQFLEAAYELGMT 205 (348)
T ss_dssp SSHHHHHHHHHHHHHHHHHTTCEEEEEEEEETT----TSHHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHHHHTTTS
T ss_pred ccccccccchhhhhhhcccccceeccccccccc----ccchhhhhhhhhhccccceeeeeecccccccccccchhhhhcc
Confidence 99999999999999999965 455441333333 4455566666665 9999999999999999999999999999
Q ss_pred ccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhc------CCCCCCCcchhhHhhHH
Q 003167 158 DSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLS------NGSIGLNPYGLYAYDTV 231 (843)
Q Consensus 158 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~------~~~~~~~~~~~~~YDAv 231 (843)
..+|+||.++.+...... ..........|++++.+..+..+.+++|.++|++.. .....+..+++++|||+
T Consensus 206 ~~~~~~i~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv 282 (348)
T PF01094_consen 206 SGDYVWILTDLDNSSFWQ---NNEDFREAFQGVLGFTPPPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAV 282 (348)
T ss_dssp STTSEEEEETTTTTTHTS---THCHHHCCHTTEEEEEESTTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHH
T ss_pred ccceeEEeeccccccccc---ccccccccccceeeeeeecccccchhhhhcccChhhccCcccccccccceeeeeehhhh
Confidence 999999999987655321 113566788999999999999999999999998752 12345678999999999
Q ss_pred HHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEecc-CCCccCCcEEEE
Q 003167 232 WMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQ-DRSLLHPSYDII 310 (843)
Q Consensus 232 ~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~-~G~~~~~~~~I~ 310 (843)
+++|+|++++..++..... ....+.+|..|.++|++++|+|++|++.||+ +|++....|+|+
T Consensus 283 ~~~a~al~~~~~~~~~~~~-----------------~~~~~~~g~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~ 345 (348)
T PF01094_consen 283 YLLAHALNRALQDGGPVTN-----------------GRNPWQNGSQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDIL 345 (348)
T ss_dssp HHHHHHHHHHHHHHSTTTS-----------------SSGTSTTHHHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEE
T ss_pred HHHHHHHHHHHHhccCCCC-----------------CccccccHHHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEE
Confidence 9999999999865332110 0034667999999999999999999999999 999889999999
Q ss_pred Eee
Q 003167 311 NVI 313 (843)
Q Consensus 311 ~~~ 313 (843)
|++
T Consensus 346 ~~~ 348 (348)
T PF01094_consen 346 NMQ 348 (348)
T ss_dssp EE-
T ss_pred ECC
Confidence 985
No 35
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=100.00 E-value=5.9e-33 Score=294.62 Aligned_cols=262 Identities=20% Similarity=0.306 Sum_probs=207.0
Q ss_pred CCCeEEEEcCCChHH-HHHHHHhcccCCCcEEecccCC-CCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEE
Q 003167 2 ETDTLAIVGPQSAVM-AHVLSHLANELQVPLLSFTALD-PTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF 79 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~-~~av~~~~~~~~vP~Is~~at~-~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~ 79 (843)
+++|.|||||.+|.. +.+++++|++.+||+|+++... |.+...++++ .++.|++..|++|+++++++|+|++|++||
T Consensus 63 ~~gV~AIiGp~ss~~~~~~v~~i~~~~~VP~Is~~~~~~~~~~~~~~~~-i~l~P~~~~~~~Ai~dli~~~~W~~v~~iY 141 (333)
T cd06394 63 PKGVVSVLGPSSSPASSSIVSHICGEKEIPHFKVGPEETPKLQYLRFAS-VNLHPSNEDISVAVAGILNSFNYPTASLIC 141 (333)
T ss_pred hcCeEEEECCCCchHHHHHHHHHhhccCCceEEeccccCcccccccceE-EEecCCHHHHHHHHHHHHHhcCCCEEEEEE
Confidence 579999999999975 6799999999999999986443 3333334444 899999999999999999999999999999
Q ss_pred ecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCccc
Q 003167 80 NDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDS 159 (843)
Q Consensus 80 ~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~ 159 (843)
+|+++ +..|++.++..+. +...++.....++.|++++|++|+++++|+||++++.+.+..+++||+++||+.+
T Consensus 142 e~d~~----l~~L~~~l~~~~~---~~~~i~~~~~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lGm~~~ 214 (333)
T cd06394 142 AKAEC----LLRLEELLRQFLI---SKETLSVRMLDDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKASELGMTSA 214 (333)
T ss_pred eCcHH----HHHHHHHHHhhcc---cCCceeeEEccCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcCCCCC
Confidence 99986 5666677665433 1222222211236789999999999999999999999999999999999999999
Q ss_pred ceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCC--C----CCCcchhhHhhHHHH
Q 003167 160 GYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS--I----GLNPYGLYAYDTVWM 233 (843)
Q Consensus 160 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~--~----~~~~~~~~~YDAv~~ 233 (843)
+|+||+++......+. .+.......+.+++..+++.+..++|.++|++++.+. . ....-++.+||||++
T Consensus 215 ~y~~i~T~l~~~~~~L-----~~~~~~~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~ 289 (333)
T cd06394 215 FYKYILTTMDFPLLRL-----DSIVDDRSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYA 289 (333)
T ss_pred ceEEEEecCCcccccH-----HHhhcCCcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEE
Confidence 9999999876654333 1222335568899999999999999999888765211 1 111234555555542
Q ss_pred HHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEee
Q 003167 234 IARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI 313 (843)
Q Consensus 234 la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~ 313 (843)
+ |+||+|+||++|.|.+...+|+++.
T Consensus 290 ~------------------------------------------------------glTg~i~f~~~g~R~~~~l~v~~l~ 315 (333)
T cd06394 290 V------------------------------------------------------GLTGRIEFNSKGQRSNYTLKILQKT 315 (333)
T ss_pred E------------------------------------------------------eeecceecCCCCcCcccEEEEEEec
Confidence 2 8999999999999999999999999
Q ss_pred ecCceeeeeeecCCCCCc
Q 003167 314 EHGYPQQIGYWSNYSGLS 331 (843)
Q Consensus 314 ~~~~~~~VG~w~~~~gl~ 331 (843)
.+|. ++||+|++..||+
T Consensus 316 ~~g~-~kig~W~~~~gl~ 332 (333)
T cd06394 316 RSGF-RQIGQWHSNETLS 332 (333)
T ss_pred CCcc-eEEEEEeCCCCcC
Confidence 9999 9999999998875
No 36
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=1.6e-32 Score=296.90 Aligned_cols=257 Identities=22% Similarity=0.351 Sum_probs=216.7
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
+++|.|||||.+|+.+.++++++++++||+|+++++++.++ .++|+||+.|++..++.++++++++++|++|+++|++
T Consensus 61 ~~~V~aiiG~~~S~~~~av~~~~~~~~vP~Is~~~~~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~ 138 (327)
T cd06382 61 QQGVAAIFGPSSSEASSIVQSICDAKEIPHIQTRWDPEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYES 138 (327)
T ss_pred hcCcEEEECCCChhHHHHHHHHHhccCCCceeccCCcCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecC
Confidence 45899999999999999999999999999999988888776 4689999999999999999999999999999999998
Q ss_pred CCCCcchHHHHHHHHHhcCc---EEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 82 DDQGRNGVTALGDKLAEIRC---KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~---~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
++++. .+.+.+++.|. .|.. +.++.+ . |++++|.+|+++++|+|++++...++..+++||+++||..
T Consensus 139 ~~~~~----~l~~~~~~~~~~g~~v~~-~~~~~~----~-d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~ 208 (327)
T cd06382 139 AEGLL----RLQELLQAFGISGITITV-RQLDDD----L-DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMS 208 (327)
T ss_pred hHHHH----HHHHHHHhhccCCCeEEE-EEccCC----c-cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccc
Confidence 87544 45555555554 4443 456655 4 9999999999999999999999999999999999999999
Q ss_pred cceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCC------CCCCcchhhHhhHHH
Q 003167 159 SGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVW 232 (843)
Q Consensus 159 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~YDAv~ 232 (843)
..|+|+.++......+.. .......++.++.++.++++..++|.++|+++|+.. ..++.+++.+|||++
T Consensus 209 ~~~~~i~~~~~~~~~~l~-----~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~ 283 (327)
T cd06382 209 EYYHYIITNLDLHTLDLE-----DYRYSGVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVY 283 (327)
T ss_pred cceEEEEecCCccccchh-----hhccCceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEE
Confidence 889999987655443321 122234477888888888899999999999998632 126678899999886
Q ss_pred HHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEe
Q 003167 233 MIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 312 (843)
Q Consensus 233 ~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~ 312 (843)
++ |+||.|+||++|+|.+..|+|+|+
T Consensus 284 ~~------------------------------------------------------g~tG~v~f~~~g~r~~~~~~~~~~ 309 (327)
T cd06382 284 LF------------------------------------------------------GLTGRIEFDSSGQRSNFTLDVIEL 309 (327)
T ss_pred Ee------------------------------------------------------ecccceeeCCCCCEeeeEEEEEec
Confidence 54 899999999999999999999999
Q ss_pred eecCceeeeeeecCCCCC
Q 003167 313 IEHGYPQQIGYWSNYSGL 330 (843)
Q Consensus 313 ~~~~~~~~VG~w~~~~gl 330 (843)
++++. ++||+|++..|+
T Consensus 310 ~~~~~-~~vg~w~~~~~~ 326 (327)
T cd06382 310 TESGL-RKVGTWNSSEGL 326 (327)
T ss_pred cccCc-eEEEEECCCCCc
Confidence 98888 999999987764
No 37
>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=6e-30 Score=276.81 Aligned_cols=274 Identities=15% Similarity=0.201 Sum_probs=207.4
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCC--C------CCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCC
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALD--P------TLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGW 72 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~--~------~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w 72 (843)
+++|+|||||.+|..+.+++++++..+||+|++.+.. + .+.+ ...+|.|+..|++ .++.+++++++++||
T Consensus 60 ~~gV~AI~G~~~s~~~~av~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~~~~w 138 (363)
T cd06381 60 NQGILALVTSTGCASAIALQSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVTEWRW 138 (363)
T ss_pred hcCcEEEEecCChhHHHHHHHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHHhCCC
Confidence 4699999999999999999999999999999975421 1 1111 1234555555764 688999999999999
Q ss_pred cEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHh-------cCCCeEEEEEcChhhHH
Q 003167 73 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVR-------MMEARVIVVHGYSRTGL 145 (843)
Q Consensus 73 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~-------~~~~~viv~~~~~~~~~ 145 (843)
++|+++|++++ |....+.+.+++++.|+.+.... ...+ ....+...++.++ ..+.++||++|.++.+.
T Consensus 139 kkvavly~~d~-g~~~l~~~~~~~~~~g~~v~~~~-~~~~---~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~~~ 213 (363)
T cd06381 139 QKFVYFYDNDY-DIRGLQEFLDQLSRQGIDVLLQK-VDLN---ISKMATALFTTMRCEELNRYRDTLRRALLLLSPNGAY 213 (363)
T ss_pred eEEEEEEECCc-hHHHHHHHHHHHHhcCceEEEEe-cccc---cchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHHHH
Confidence 99999998776 55666888889999998766432 2222 1223444444332 44556889999999999
Q ss_pred HHHHHHHHcCCcccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhH----HHHHHHhhhcCCC----
Q 003167 146 MVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRR----DFVSRWNTLSNGS---- 217 (843)
Q Consensus 146 ~i~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~----~f~~~~~~~~~~~---- 217 (843)
.++++|.++||+..+|+||+++.+....... ........|+++++..++..+..+ +|.+.|++.+...
T Consensus 214 ~~l~~a~~~gm~~~~~~wi~~~~l~~~~~~l----~~~~~~~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 289 (363)
T cd06381 214 TFIDASVETNLAIKDSHWFLINEEISDTEID----ELVRYAHGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPKDGYL 289 (363)
T ss_pred HHHHHHHHcCCCcCceEEEEeccccccchhh----HHHhhcCccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCCCCCC
Confidence 9999999999999999999887665432211 345677899999999988776666 5566675433211
Q ss_pred CCCCcchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEec
Q 003167 218 IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFN 297 (843)
Q Consensus 218 ~~~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd 297 (843)
..+...++++|||||++ +++|++++|+|+||+|+||
T Consensus 290 ~~~~~~~al~yDaV~~~--------------------------------------------~~~~~~~~~~GLTG~i~F~ 325 (363)
T cd06381 290 QMLEISNLYIYDSVLLL--------------------------------------------LETIKKGPITGLTGKLEFN 325 (363)
T ss_pred CChhHHHHHHHHHHHHH--------------------------------------------HHHHHhcCccCcceeEEeC
Confidence 23456799999999988 3467778999999999999
Q ss_pred cCCCccCCcEEEEEeeecC-----ceeeeeeecCCCCC
Q 003167 298 QDRSLLHPSYDIINVIEHG-----YPQQIGYWSNYSGL 330 (843)
Q Consensus 298 ~~G~~~~~~~~I~~~~~~~-----~~~~VG~w~~~~gl 330 (843)
++|.|.+..++|+++.-++ . +.+|+|++..||
T Consensus 326 ~~g~r~~~~l~i~~~~~~~~~~~~~-~~~~~w~~~~~~ 362 (363)
T cd06381 326 EGGDNSNVQFEILGTGYSETLGKDG-RWLATWNPSKGL 362 (363)
T ss_pred CCCCccccEEEEEEeccCCccccce-EEeeeccCCCCC
Confidence 9999999999999998444 5 789999988775
No 38
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=99.97 E-value=2.6e-30 Score=279.60 Aligned_cols=258 Identities=21% Similarity=0.355 Sum_probs=214.4
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
+++|.|||||.+|+++.++++++++++||+|+++++++.++ ..++| +..|++..++.++++++++++|++|+++|+|
T Consensus 60 ~~~V~aiiG~~~S~~~~av~~i~~~~~ip~is~~~~~~~~~-~~~~~--~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~ 136 (324)
T cd06368 60 SQGVAAIFGPSSSSSANTVQSICDALEIPHITTSWSPNPKP-RQFTI--NLYPSMRDLSDALLDLIKYFGWRKFVYIYDS 136 (324)
T ss_pred hcCcEEEECCCCHHHHHHHHHHHhccCCCcEEecCCcCCCC-CcceE--EecCCHHHHHHHHHHHHHhcCCCEEEEEECC
Confidence 46899999999999999999999999999999999998886 23444 4457777899999999999999999999977
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
+++ ....+.+.+.+++.|++|+.....+ . .+|++++|.+|++.++|+|++.++..++..+++||+++||...+|
T Consensus 137 ~~~-~~~l~~~~~~~~~~g~~v~~~~~~~-~----~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~~~ 210 (324)
T cd06368 137 DEG-LLRLQELLDALSPKGIQVTVRRLDD-D----TDMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSEYY 210 (324)
T ss_pred cHh-HHHHHHHHHhhccCCceEEEEEecC-C----chHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccCCc
Confidence 664 4455677777888899998765433 3 238999999999999999999999999999999999999998899
Q ss_pred EEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCC------CCCCcchhhHhhHHHHHH
Q 003167 162 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMIA 235 (843)
Q Consensus 162 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~YDAv~~la 235 (843)
+||+++......+. ........++.++....+++|..++|.++|+++++.. ..++.+++.+|||++++
T Consensus 211 ~~i~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~- 284 (324)
T cd06368 211 HYILTNLDFHTLDL-----ELFRYGGVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF- 284 (324)
T ss_pred EEEEccCCccccch-----hhhhcCCceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe-
Confidence 99998754433221 1222334457777777888899999999999998631 25778899999998754
Q ss_pred HHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEeeec
Q 003167 236 RALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEH 315 (843)
Q Consensus 236 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~~~ 315 (843)
||+++||++|+|.+..++|+++.++
T Consensus 285 -------------------------------------------------------tg~~~f~~~g~~~~~~~~i~~~~~~ 309 (324)
T cd06368 285 -------------------------------------------------------TGRIQFDENGQRSNFTLDILELKEG 309 (324)
T ss_pred -------------------------------------------------------eeeeEeCCCCcCcceEEEEEEEcCC
Confidence 7889999999999999999999988
Q ss_pred CceeeeeeecCCCCC
Q 003167 316 GYPQQIGYWSNYSGL 330 (843)
Q Consensus 316 ~~~~~VG~w~~~~gl 330 (843)
+. ++||+|++..|+
T Consensus 310 ~~-~~~g~W~~~~~~ 323 (324)
T cd06368 310 GL-RKVGTWNPEDGL 323 (324)
T ss_pred Cc-eEEEEECCCCCC
Confidence 88 999999987764
No 39
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=99.97 E-value=3.5e-29 Score=272.16 Aligned_cols=267 Identities=17% Similarity=0.203 Sum_probs=230.5
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHH-HHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll-~~~~w~~v~ii~~d 81 (843)
++|.+|+||.+|..+.+++++++..+||+|+++++++.+++..+|++||+.|++..++.++++++ ++++|++|++++.|
T Consensus 65 ~~v~aiiG~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~ 144 (334)
T cd06342 65 DGVVGVVGHLNSGVTIPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDK 144 (334)
T ss_pred CCceEEECCCccHhHHHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCC
Confidence 48999999999999999999999999999999888777776678999999999999999999976 57899999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
++||+...+.+++.+++.|++|+....++.+ ..|+++.+.++++.++|+|++.+...++..+++++++.|+. .
T Consensus 145 ~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~----~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~---~ 217 (334)
T cd06342 145 TAYGQGLADEFKKALKAAGGKVVAREGTTDG----ATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLK---A 217 (334)
T ss_pred cchhhHHHHHHHHHHHHcCCEEEEEecCCCC----CccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCC---C
Confidence 9999999999999999999999998888776 78999999999999999999999999999999999999984 3
Q ss_pred EEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC--CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHH
Q 003167 162 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALK 239 (843)
Q Consensus 162 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~ 239 (843)
.|+.++++... .. .....+..+|++...++.+ +.+..++|.++|+++++ ..++.++..+||+++++++|++
T Consensus 218 ~~~~~~~~~~~-~~----~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~yda~~~~~~al~ 290 (334)
T cd06342 218 PFMGGDGLCDP-EF----IKIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKFG--DPPGAYAPYAYDAANVLAEAIK 290 (334)
T ss_pred cEEecCccCCH-HH----HHHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHhC--CCCchhHHHHHHHHHHHHHHHH
Confidence 67766543311 11 0122356788888776655 46889999999999886 3357789999999999999999
Q ss_pred HHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEe
Q 003167 240 LFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 312 (843)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~ 312 (843)
++.. . ++..|.++|++.+|+|++|+++|+++|++.+..|+|+||
T Consensus 291 ~~~~----------------------------~-~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 291 KAGS----------------------------T-DPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred HhCC----------------------------C-CHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 8621 1 388999999999999999999999999999999999986
No 40
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=99.97 E-value=4.6e-29 Score=272.83 Aligned_cols=273 Identities=11% Similarity=0.161 Sum_probs=233.1
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHH-HHcCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll-~~~~w~~v~ii~~ 80 (843)
+++|.+||||.+|+++.++++++++.+||+|++++++|.+++..+||+||+.+.+..++.++++++ ++++|+++++|++
T Consensus 90 ~~~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~ 169 (369)
T PRK15404 90 NDGIKYVIGHLCSSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHD 169 (369)
T ss_pred hCCceEEEcCCCchhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeC
Confidence 468999999999999999999999999999999999999988778999999999999999999976 5579999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
|+.||+...+.+.+.+++.|++++..+.++.+ +.|+++++.++++.+||+|++.+...+...+++++++.|+..
T Consensus 170 d~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~g----~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~-- 243 (369)
T PRK15404 170 KQQYGEGLARSVKDGLKKAGANVVFFEGITAG----DKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKT-- 243 (369)
T ss_pred CCchhHHHHHHHHHHHHHcCCEEEEEEeeCCC----CCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCC--
Confidence 99999999999999999999999988888877 789999999999999999998888888889999999999753
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEe-CCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQH-TPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALK 239 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~ 239 (843)
.|+.+++.... ... ....+..+|+++..++ ....|..++|.++|+++++ .+++.++..+||++++++.|++
T Consensus 244 -~~i~~~~~~~~-~~~----~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~Y~~~~~l~~Al~ 315 (369)
T PRK15404 244 -QFMGPEGVGNK-SLS----NIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKKQ--DPSGPFVWTTYAAVQSLAAGIN 315 (369)
T ss_pred -eEEecCcCCCH-HHH----HhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhcC--CCCccchHHHHHHHHHHHHHHH
Confidence 56766543321 110 1223567888876543 3345788999999998874 3455678899999999999999
Q ss_pred HHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEeeecCc
Q 003167 240 LFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGY 317 (843)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~~~~~ 317 (843)
+++.. +++.|.++|++.+|+|++|++.|+++|++....|.|++|++++.
T Consensus 316 ~aG~~-----------------------------~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~~ 364 (369)
T PRK15404 316 RAGSD-----------------------------DPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADGT 364 (369)
T ss_pred hhCCC-----------------------------CHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCCe
Confidence 86321 37899999999999999999999999998789999999987775
No 41
>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=99.97 E-value=4.7e-30 Score=278.23 Aligned_cols=279 Identities=16% Similarity=0.159 Sum_probs=200.9
Q ss_pred CCCe--EEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEE
Q 003167 2 ETDT--LAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF 79 (843)
Q Consensus 2 ~~~V--~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~ 79 (843)
+++| .|||||.+|..+.+++.+++.++||+|+++.. ..++.++||++|+.|++..+++|+++++++|+|++|++||
T Consensus 63 ~~gv~~~AIiGp~ss~~a~~V~si~~~~~IP~Is~s~~--~~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIY 140 (368)
T cd06383 63 DSAIVPHLVLDTTTCGDASEIKSVTGALGIPTFSASYG--QEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILY 140 (368)
T ss_pred HccCCcEEEECCCcchhHHHHHHHHhccCCCEEEccCC--CcCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEE
Confidence 4677 89999999999999999999999999997543 3334588999999999999999999999999999999999
Q ss_pred ecCCCCcchHH-HHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC-hhhHHHHHHHHHHcCCc
Q 003167 80 NDDDQGRNGVT-ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 80 ~d~~~g~~~~~-~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~-~~~~~~i~~~a~~~g~~ 157 (843)
+|++.+..... .+++.....+.++. +.. ..++..+|++|++++.+.||+.+. ++.+..++++|.++||+
T Consensus 141 ddd~gl~~~l~~~l~~~~~~~~~~v~-----~~~----~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~ 211 (368)
T cd06383 141 DDDFVMDHKYKSLLQNWPTRHVITII-----NSI----IDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFM 211 (368)
T ss_pred EcCchhhHHHHHHHHhHHhcCCEEEE-----ecc----chhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCc
Confidence 77664332333 33333334455543 122 356889999999999845544444 58999999999999999
Q ss_pred ccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhc--C-CCCCCCcchhhHhhHHHHH
Q 003167 158 DSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLS--N-GSIGLNPYGLYAYDTVWMI 234 (843)
Q Consensus 158 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~--~-~~~~~~~~~~~~YDAv~~l 234 (843)
+.+|+||++++.....+. ........++.++++..+.....+.+.++|.+.. + ...+...-++.+||||+++
T Consensus 212 ~~~y~wilt~ld~~~~dl-----~~~~~~~~Nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~Dav~~~ 286 (368)
T cd06383 212 GRKYAWFLGNPDLGIYDD-----LSCQLRNASIFVTRPMMDYQSSVRGALLRTDEPTLRPVFYFEWAFRLFLAYDAVLAV 286 (368)
T ss_pred CCceEEEEcCCCchhhhh-----hhhccccCcEEEeeccccchhhhccceeeccCCccCchhHHHHHHHHHHHHHHHHHh
Confidence 999999999976655333 1233345678899986666655588887774321 0 0012234589999999999
Q ss_pred HHHHHHHhhcCCcccccCCCccCCCCCCcccCCCc---ccc-cchHHHHHHHHhcccCCcceeeEeccCCCccC
Q 003167 235 ARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGAL---SIF-DGGKKFLANILQTNMTGLSGPIHFNQDRSLLH 304 (843)
Q Consensus 235 a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~-~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~ 304 (843)
++|++++........ +.......|... -+| .+|..+.++|++++|+|+||+|+||++|.|.+
T Consensus 287 ~~a~~~l~~~~~~~~--------~~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~ 352 (368)
T cd06383 287 GEWPRRMRKKRVEDG--------STGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVST 352 (368)
T ss_pred ccccchhheeeccCC--------CcCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeee
Confidence 999998632111100 000011223221 134 45669999999999999999999999998743
No 42
>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=99.96 E-value=1.2e-28 Score=269.21 Aligned_cols=267 Identities=14% Similarity=0.182 Sum_probs=224.0
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcC--CcEEEEEEe
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG--WGEVIAIFN 80 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~--w~~v~ii~~ 80 (843)
++|.+||||.+|.++.++++++++++||+|+++++++.++...+||+||+.|++..++.++++++.+++ |+++++++.
T Consensus 70 ~~v~aviG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~ 149 (345)
T cd06338 70 DKVDFLLGPYSSGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYA 149 (345)
T ss_pred cCccEEecCCcchhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEec
Confidence 589999999999999999999999999999999988888766789999999999999999999999887 999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
|++||+...+.+.+.+++.|++|+....++.+ .+|+++++++|++.++|+|++++...+...+++++++.|+..+
T Consensus 150 ~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~- 224 (345)
T cd06338 150 DDPFSQDVAEGAREKAEAAGLEVVYDETYPPG----TADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPK- 224 (345)
T ss_pred CCcccHHHHHHHHHHHHHcCCEEEEEeccCCC----ccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCC-
Confidence 99999999999999999999999988888766 6899999999999999999999999999999999999998642
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCC-------chhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPD-------SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWM 233 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~ 233 (843)
....+.+.... ... .......+|+++...+.+. .|..++|.++|+++|+. .++.++..+||++++
T Consensus 225 -~~~~~~~~~~~-~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--~p~~~~~~~y~a~~~ 296 (345)
T cd06338 225 -ALYMTVGPAFP-AFV----KALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYGK--APDYHAAGAYAAGQV 296 (345)
T ss_pred -EEEEecCCCcH-HHH----HHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHhCC--CCCcccHHHHHHHHH
Confidence 22222222111 000 1233456788777666544 36789999999999963 356788999999999
Q ss_pred HHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEe
Q 003167 234 IARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 312 (843)
Q Consensus 234 la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~ 312 (843)
+++|+++++.. +++.+.++|++++|+|++|++.|+++|++. ..+.+++|
T Consensus 297 ~~~a~~~ag~~-----------------------------~~~~v~~al~~~~~~~~~G~~~f~~~~~~~-~~~~~~~~ 345 (345)
T cd06338 297 LQEAVERAGSL-----------------------------DPAAVRDALASNDFDTFYGPIKFDETGQNN-HPMTVVQW 345 (345)
T ss_pred HHHHHHHhCCC-----------------------------CHHHHHHHHHhCCCcccccCeeECCCCCcC-CCceeeeC
Confidence 99999986321 378999999999999999999999999964 46666654
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=99.96 E-value=1.8e-28 Score=268.10 Aligned_cols=247 Identities=32% Similarity=0.530 Sum_probs=211.5
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
++|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..+||+||+.|++..++.+++++++++||++|++++.|
T Consensus 90 ~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~~~~v~~l~~~ 169 (348)
T cd06350 90 PKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHFGWTWVGLVYSD 169 (348)
T ss_pred CceEEEECCCccHHHHHHHHHHhcCcCceecccCCChhhccccccCCeeEecCCcHHHHHHHHHHHHHCCCeEEEEEEec
Confidence 68999999999999999999999999999999999999976 67899999999999999999999999999999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
++||....+.+++.+++.|+||+..+.++.+ ....|+.+++++|+++++|+|++++...++..++++|+++|+ .. .
T Consensus 170 ~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~--~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~~~g~-~~-~ 245 (348)
T cd06350 170 DDYGRSGLSDLEEELEKNGICIAFVEAIPPS--STEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAYKLGM-TG-K 245 (348)
T ss_pred chhHHHHHHHHHHHHHHCCCcEEEEEEccCC--CcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHHHhCC-CC-e
Confidence 9999999999999999999999999988765 346899999999999999999999999999999999999998 33 4
Q ss_pred EEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHHHH
Q 003167 162 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLF 241 (843)
Q Consensus 162 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~~ 241 (843)
.|++++++....... ....+.++|++++..+.+.....++|.+.|++ +++++|||+|+
T Consensus 246 ~~i~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----------~~~~~YDav~~-------- 303 (348)
T cd06350 246 YWIISTDWDTSTCLL----LFTLDAFQGVLGFSGHAPRSGEIPGFKDFLRK----------YAYNVYDAVYA-------- 303 (348)
T ss_pred EEEEEccccCccccc----cCCcceeeeEEEEEEEeecCCcCCChHHHHHH----------HHHHHHhheeE--------
Confidence 555555444321111 23346688999988888766666677777765 67889999886
Q ss_pred hhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEeee---cCce
Q 003167 242 LDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIE---HGYP 318 (843)
Q Consensus 242 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~~---~~~~ 318 (843)
.+.||++||+ ...|.|++++. +..+
T Consensus 304 ---------------------------------------------------~v~f~~~gd~-~~~~~i~~~~~~~~~~~~ 331 (348)
T cd06350 304 ---------------------------------------------------EVKFDENGDR-LASYDIINWQIFPGGGGF 331 (348)
T ss_pred ---------------------------------------------------EEEecCCCCc-ccceeEEEEEEcCCcEEE
Confidence 5999999995 57899999976 3445
Q ss_pred eeeeeecCC
Q 003167 319 QQIGYWSNY 327 (843)
Q Consensus 319 ~~VG~w~~~ 327 (843)
++||.|.+.
T Consensus 332 ~~vg~~~~~ 340 (348)
T cd06350 332 VKVGFWDPQ 340 (348)
T ss_pred EEEEEEcCC
Confidence 999999873
No 44
>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=99.96 E-value=3.4e-28 Score=265.09 Aligned_cols=259 Identities=18% Similarity=0.231 Sum_probs=217.0
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC----CCCCceEEcCCChHHhHHHHHHHHHH-----cCCc
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP----LQYPFFVQTAPNDLYLMSAIAEMVSY-----FGWG 73 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~----~~~p~~fR~~p~d~~~~~ai~~ll~~-----~~w~ 73 (843)
++|.+||||.+|..+.++++++++++||+|+++++++.+++ ..+||+||+.|++..++.++++++.+ ++|+
T Consensus 66 ~~v~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~ 145 (344)
T cd06345 66 DKVDAVVGGYSSEVVLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFK 145 (344)
T ss_pred CCceEEECCcchHHHHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCc
Confidence 48999999999999999999999999999999999988873 46899999999999999999998876 8999
Q ss_pred EEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHH
Q 003167 74 EVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQR 153 (843)
Q Consensus 74 ~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~ 153 (843)
+|++++.+++||+...+.+++.+++.|++|+....++.+ ..|+++++.+|++.++|+|++.+...++..+++++.+
T Consensus 146 ~va~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~ 221 (344)
T cd06345 146 TAAIVAEDAAWGKGIDAGIKALLPEAGLEVVSVERFSPD----TTDFTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAE 221 (344)
T ss_pred eEEEEecCchhhhHHHHHHHHHHHHcCCeEEEEEecCCC----CCchHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHH
Confidence 999999999999999999999999999999998888766 7799999999999999999999999899999999999
Q ss_pred cCCcccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC----CchhhHHHHHHHhhhcCCCCCCCcchhhHhh
Q 003167 154 LGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP----DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYD 229 (843)
Q Consensus 154 ~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YD 229 (843)
.|+.. .++..+.+....... .......+|++....+.+ .++..++|.++|+++|+ ..++.+++.+||
T Consensus 222 ~g~~~---~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g--~~p~~~~~~~yd 292 (344)
T cd06345 222 QKVPI---PTIGISVEGNSPAFW----KATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKFG--GPPNYMGASTYD 292 (344)
T ss_pred cCCCC---ceEEecCCcCCHHHH----HhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHhC--CCCcccchHHHH
Confidence 99743 233332221111110 122344566665544433 56788999999999986 457788999999
Q ss_pred HHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCcc
Q 003167 230 TVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLL 303 (843)
Q Consensus 230 Av~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~ 303 (843)
+++++++|+++++.. +++.|.++|++++|+|++|+|+||++||+.
T Consensus 293 a~~~l~~A~~~ag~~-----------------------------~~~~i~~al~~~~~~g~~G~i~f~~~g~~~ 337 (344)
T cd06345 293 SIYILAEAIERAGST-----------------------------DGDALVEALEKTDFVGTAGRIQFYGDDSAF 337 (344)
T ss_pred HHHHHHHHHHHhcCC-----------------------------CHHHHHHHHHhCCCcCCceeEEECCCCCcC
Confidence 999999999996321 378999999999999999999999999954
No 45
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=99.96 E-value=6.9e-28 Score=258.62 Aligned_cols=243 Identities=19% Similarity=0.263 Sum_probs=208.0
Q ss_pred CCeEEEEcCCChHHHHHH-HHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 3 TDTLAIVGPQSAVMAHVL-SHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av-~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
++|.+||||.+|+.+.++ ++++++.++|+|+++++++.+++ ..++|+||+.|++..++.++++++.+++|+++++|+.
T Consensus 66 ~~v~~viG~~~s~~~~a~~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~vail~~ 145 (312)
T cd06346 66 DGVPGIVGAACSGVTIAALTSVAVPNGVVMISPSSTSPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSVATTYI 145 (312)
T ss_pred cCCCEEEccccchhhHhhhhhhhccCCcEEEecCCCCccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeEEEEEc
Confidence 589999999999999999 99999999999999999999987 4579999999999999999999999999999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
|++||+...+.+++.+++.|++|+....++.+ ++|+++++++|++.+||+|++.+...++..+++++++.|+..
T Consensus 146 ~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~-- 219 (312)
T cd06346 146 NNDYGVGLADAFTKAFEALGGTVTNVVAHEEG----KSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFD-- 219 (312)
T ss_pred cCchhhHHHHHHHHHHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCC--
Confidence 99999999999999999999999998888877 889999999999999999999999999999999999999843
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKL 240 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~ 240 (843)
.|+.+++.... .... ......++|+++..++.+ .+..++|.++|+++|+ ..++.+++.+||+++++++|
T Consensus 220 -~~~~~~~~~~~-~~~~---~~~~~~~~g~~~~~~~~~-~~~~~~f~~~~~~~~g--~~p~~~~~~~Yd~~~~l~~A--- 288 (312)
T cd06346 220 -KFLLTDGMKSD-SFLP---ADGGYILAGSYGTSPGAG-GPGLEAFTSAYKAAYG--ESPSAFADQSYDAAALLALA--- 288 (312)
T ss_pred -ceEeeccccCh-HHHH---hhhHHHhCCcEEccCCCC-chhHHHHHHHHHHHhC--CCCCccchhhHHHHHHHHHH---
Confidence 46666543321 1110 122345788887765544 3888999999999997 34778899999999998765
Q ss_pred HhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEE
Q 003167 241 FLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDI 309 (843)
Q Consensus 241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I 309 (843)
|.|++|+++||++|++. ..|+-
T Consensus 289 ----------------------------------------------~~g~~g~~~f~~~g~~~-~~~~~ 310 (312)
T cd06346 289 ----------------------------------------------YQGASGVVDFDENGDVA-GSYDE 310 (312)
T ss_pred ----------------------------------------------hCCCccceeeCCCCCcc-cceee
Confidence 67899999999999854 35553
No 46
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=99.95 E-value=8e-27 Score=254.39 Aligned_cols=273 Identities=18% Similarity=0.253 Sum_probs=218.8
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHH-HHHHHHHHc-CCcEEEEEEe
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMS-AIAEMVSYF-GWGEVIAIFN 80 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~-ai~~ll~~~-~w~~v~ii~~ 80 (843)
++|++|+||.+|+++.++.+++++.+||+|+++++++.+.. .+||+||+.+++..+.. ++..+++++ ||++++++|.
T Consensus 66 ~~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~-~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~ 144 (344)
T cd06348 66 DRVLAIIGPTLSQQAFAADPIAERAGVPVVGPSNTAKGIPE-IGPYVFRVSAPEAVVAPAAIAAALKLNPGIKRVAVFYA 144 (344)
T ss_pred cCceEEECCCCcHHHHhhhHHHHhCCCCEEeccCCCCCcCC-CCCeEEEccCcHHHHHHHHHHHHHHHhcCCeEEEEEEe
Confidence 48999999999999999999999999999999887776643 46899999877765544 455667787 9999999997
Q ss_pred cCC-CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCccc
Q 003167 81 DDD-QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDS 159 (843)
Q Consensus 81 d~~-~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~ 159 (843)
+++ ||+...+.+++.+++.|++|+....++.+ +.|+.+++.+|+++++|+|++.+...++..+++++++.|+..
T Consensus 145 ~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~- 219 (344)
T cd06348 145 QDDAFSVSETEIFQKALRDQGLNLVTVQTFQTG----DTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNG- 219 (344)
T ss_pred CCchHHHHHHHHHHHHHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCC-
Confidence 655 99999999999999999999998888876 789999999999999999999999999999999999999854
Q ss_pred ceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC--CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHH
Q 003167 160 GYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARA 237 (843)
Q Consensus 160 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~A 237 (843)
.++.+++.... ... ....+..+|++....+.+ +.+..++|.++|+++|+ ..++.++..+|||++++++|
T Consensus 220 --~~~~~~~~~~~-~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g--~~p~~~~~~~yda~~~~~~A 290 (344)
T cd06348 220 --LIVGGNGFNTP-NVF----PVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKYG--KAPPQFSAQAFDAVQVVAEA 290 (344)
T ss_pred --ceeccccccCH-HHH----HhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHHC--CCccHHHHHHHHHHHHHHHH
Confidence 35554433221 110 123456788887776654 44778999999999986 34567889999999999999
Q ss_pred HHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEE
Q 003167 238 LKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDI 309 (843)
Q Consensus 238 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I 309 (843)
+++++.++.... ...+ ..+++|.++|++++|+|++|+|.||++|++....|.|
T Consensus 291 ~~~a~~~~~~~~------------~~~~-------~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~~ 343 (344)
T cd06348 291 LKRLNQKQKLAE------------LPLP-------ELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFYV 343 (344)
T ss_pred HHHhcCCCcccc------------chhh-------hHHHHHHHHHhccCCccceeeeEECCCCCcccCceec
Confidence 999865421100 0001 1367899999999999999999999999977666543
No 47
>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=99.95 E-value=6.1e-27 Score=255.15 Aligned_cols=262 Identities=17% Similarity=0.225 Sum_probs=218.4
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc------CCcEEE
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF------GWGEVI 76 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~------~w~~v~ 76 (843)
++|.+|+||.+|..+.++++++++++||+|+++++++.+++..+||+||+.|++..++.++++++.++ +|++++
T Consensus 69 ~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~~~~~~~v~ 148 (347)
T cd06340 69 EGVVALVGAYQSAVTLAASQVAERYGVPFVVDGAVSDSITERGFKYTFRITPHDGMFTRDMFDFLKDLNEKTGKPLKTVA 148 (347)
T ss_pred CCceEEecccchHhHHHHHHHHHHhCCCEEeccccchHHhhcCCceEEecCCChHHHHHHHHHHHHHhhHhcCCCCceEE
Confidence 49999999999999999999999999999999988888887778999999999999999999999876 469999
Q ss_pred EEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 77 AIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 77 ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
+++.|++||+...+.+++.+++.|++|+..+.++.+ +.|+++++.+|++.++|+|++.+...++..+++++++.|+
T Consensus 149 ~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~ 224 (347)
T cd06340 149 LVHEDTEFGTSVAEAIKKFAKERGFEIVEDISYPAN----ARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKEQRV 224 (347)
T ss_pred EEecCchHhHHHHHHHHHHHHHcCCEEEEeeccCCC----CcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCC
Confidence 999999999999999999999999999998888876 7899999999999999999999999999999999999998
Q ss_pred cccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCC-chhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHH
Q 003167 157 MDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPD-SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIA 235 (843)
Q Consensus 157 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la 235 (843)
... .++...++.... ... ....+..+|++...++.+. .+..++|.++|+++|+ ..++.++..+||++++++
T Consensus 225 ~~~-~~~~~~~~~~~~-~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~--~~~~~~~~~~Y~a~~~l~ 296 (347)
T cd06340 225 EPK-AVYSVGGGAEDP-SFV----KALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARFG--VDLSGNSARAYTAVLVIA 296 (347)
T ss_pred CCc-EEEecCCCcCcH-HHH----HHhhHhhheEEeccccCCCCChHHHHHHHHHHHHhC--CCCChHHHHHHHHHHHHH
Confidence 542 222222211111 110 2234567888888766554 6888999999999986 347788999999999999
Q ss_pred HHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHH--HHHHhcccC---CcceeeEeccCCCccCC
Q 003167 236 RALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFL--ANILQTNMT---GLSGPIHFNQDRSLLHP 305 (843)
Q Consensus 236 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~l~~~~f~---G~tG~v~fd~~G~~~~~ 305 (843)
+|++++++. +++.+. .+|++..+. ++.|++.||++|+..++
T Consensus 297 ~A~~~ag~~-----------------------------~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 297 DALERAGSA-----------------------------DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred HHHHHhcCC-----------------------------CHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 999997432 377788 488887765 56889999999996544
No 48
>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=99.95 E-value=1.7e-26 Score=251.44 Aligned_cols=274 Identities=14% Similarity=0.102 Sum_probs=220.0
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHH-cCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~-~~w~~v~ii~~ 80 (843)
+++|.+|+|+.+|+.+.++.+++++.++|+|++.+... ....||+||+.+++..++..+++++.. .++++|++++.
T Consensus 65 ~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~ 141 (348)
T cd06355 65 QDKVAAVFGCWTSASRKAVLPVFERHNGLLFYPVQYEG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGS 141 (348)
T ss_pred hCCCcEEEeccchhhHHHHHHHHhccCCceecCCCccC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECC
Confidence 36899999999999999999999999999998654321 135699999999999999988888764 57999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
|++||++..+.+++.+++.|++|+....++.+ +.|+++++.+|++.+||+|++.....++..+++++++.|+....
T Consensus 142 d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~ 217 (348)
T cd06355 142 DYVYPRTANKILKAQLESLGGEVVGEEYLPLG----HTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITASK 217 (348)
T ss_pred cchHHHHHHHHHHHHHHHcCCeEEeeEEecCC----hhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCccC
Confidence 99999999999999999999999999888877 89999999999999999999999988999999999999986544
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEe--CCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQH--TPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARAL 238 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al 238 (843)
..++........+.. ...+...|++....+ ..+.|..++|.++|+++|+....++.+++.+||+++++++|+
T Consensus 218 ~~~~~~~~~~~~~~~------~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~~~~~~~a~~~Y~a~~~~~~Al 291 (348)
T cd06355 218 VPVLSFSVAEEELRG------IGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQDRVTNDPMEAAYIGVYLWKQAV 291 (348)
T ss_pred CeeEEccccHHHHhh------cChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHH
Confidence 445544321111111 112346777665443 335688999999999999744445667889999999999999
Q ss_pred HHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEeeecCc
Q 003167 239 KLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGY 317 (843)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~~~~~ 317 (843)
+++++. ++++|.++|++++|+++.|.++|++.++.....+.|.+++.+|.
T Consensus 292 ~~ag~~-----------------------------~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~ 341 (348)
T cd06355 292 EKAGSF-----------------------------DVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQ 341 (348)
T ss_pred HHhCCC-----------------------------CHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCc
Confidence 997321 38899999999999999999999984443456667777764443
No 49
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.95 E-value=8.3e-27 Score=252.71 Aligned_cols=259 Identities=17% Similarity=0.139 Sum_probs=213.3
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcC-CcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG-WGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~-w~~v~ii~~d 81 (843)
++|++|+|+.+|+.+.+++++++++++|+|+++++++.++ ..+||+||+.|++..++.++++++.+.+ |+++++|+.|
T Consensus 65 ~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~a~~~~lt-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~ 143 (332)
T cd06344 65 PEILGVVGHYSSDATLAALDIYQKAKLVLISPTSTSVKLS-NPGPYFFRTVPSNAVAARALAKYLKKKNKIKKVAIFYNS 143 (332)
T ss_pred cCceEEEcCCCcHHHHHHHHHHhhcCceEEccCcCchhhc-CCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEEEEeCC
Confidence 5899999999999999999999999999999988888887 4679999999999999999999998876 9999999998
Q ss_pred CC-CCcchHHHHHHHHHh-cCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCccc
Q 003167 82 DD-QGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDS 159 (843)
Q Consensus 82 ~~-~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~ 159 (843)
++ ||+...+.+.+.+++ .|++++....++.. +.|+...+.++++.+||+|++.+.......+++++++.|.
T Consensus 144 ~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~----~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~--- 216 (332)
T cd06344 144 TSPYSQSLKQEFTSALLERGGGIVVTPCDLSSP----DFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKG--- 216 (332)
T ss_pred CchHhHHHHHHHHHHHHHhcCCeeeeeccCCCC----CCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCC---
Confidence 76 999999999999999 59998865544433 6678899999999999999999988888889999888664
Q ss_pred ceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHH
Q 003167 160 GYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALK 239 (843)
Q Consensus 160 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~ 239 (843)
...++.++++... +.. .......+|+++..++.++.+..++|.++|+++++ .+++.++..+||+++++++|++
T Consensus 217 ~~~i~~~~~~~~~-~~~----~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~a~~~Yda~~~l~~A~~ 289 (332)
T cd06344 217 RLTLLGGDSLYTP-DTL----LDGGKDLEGLVLAVPWHPLASPNSPFAKLAQQLWG--GDVSWRTATAYDATKALIAALS 289 (332)
T ss_pred CceEEecccccCH-HHH----HhchhhhcCeEEEEecccccccchHHHHHHHHHhc--CCchHHHHhHHHHHHHHHHHHH
Confidence 2344554443221 111 12234678888888888877888999999999996 3577899999999999999999
Q ss_pred HHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHH-HHHHhcccCCcceeeEeccCCCccCC
Q 003167 240 LFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFL-ANILQTNMTGLSGPIHFNQDRSLLHP 305 (843)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~-~~l~~~~f~G~tG~v~fd~~G~~~~~ 305 (843)
++++. ++..+. .++++..|+|+.|+++||++||+...
T Consensus 290 ~ag~~-----------------------------~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~~ 327 (332)
T cd06344 290 QGPTR-----------------------------EGVQQVELSLRNFSVQGATGKIKFLPSGDRNGQ 327 (332)
T ss_pred hCCCh-----------------------------hhhhhhhhhcccccccCCCceeEeCCCCcccCc
Confidence 86322 244444 67778889999999999999996543
No 50
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=99.95 E-value=3.9e-26 Score=248.43 Aligned_cols=266 Identities=16% Similarity=0.197 Sum_probs=225.1
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
++|.+||||.+|..+.++++++++.++|+|+++++++.+++ ..+||+||+.+++..++..+++++...+|+++++++.|
T Consensus 64 ~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~ 143 (336)
T cd06360 64 DKVDVVVGPVHSGEALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWD 143 (336)
T ss_pred hCCcEEEccCccHhHHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEecc
Confidence 58999999999999999999999999999999988888886 44799999999999999999999998999999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
+.||+...+.+++.+++.|++++....++.+ .+||++++.++++.+||+|++.+...++..+++++++.|+.. ..
T Consensus 144 ~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~----~~d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~-~~ 218 (336)
T cd06360 144 YAFGYEVVEGFKEAFTEAGGKIVKELWVPFG----TSDFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKA-KI 218 (336)
T ss_pred chhhHHHHHHHHHHHHHcCCEEEEEEecCCC----CcchHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCcc-CC
Confidence 9999999999999999999999988777766 789999999999999999999988999999999999999843 23
Q ss_pred EEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC--CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHH
Q 003167 162 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALK 239 (843)
Q Consensus 162 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~ 239 (843)
.++.+++..... .. ....+..+|++...++.+ +.+..++|.++|+++++ ..++.++..+||+++++++|++
T Consensus 219 ~~~~~~~~~~~~-~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~~--~~~~~~~~~~yda~~~~~~A~~ 291 (336)
T cd06360 219 PLIGSGFLTDGT-TL----GAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAYP--DTPSVYAVQGYDAGQALILALE 291 (336)
T ss_pred eEEecccccCHH-HH----HhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHhC--CCccHHHHHHHHHHHHHHHHHH
Confidence 566555433221 10 233456788877766544 46889999999999986 3567899999999999999999
Q ss_pred HHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcE
Q 003167 240 LFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSY 307 (843)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~ 307 (843)
++.+.. .+++.+.++|++++|.|+.|+++|+++|++..+.|
T Consensus 292 ~a~~~~---------------------------~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~~~ 332 (336)
T cd06360 292 AVGGDL---------------------------SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQDNY 332 (336)
T ss_pred HhCCCC---------------------------CCHHHHHHHHhcCCccCCCcceEECCCCCcccceE
Confidence 974321 13788999999999999999999999998665543
No 51
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=99.95 E-value=2.3e-26 Score=251.04 Aligned_cols=275 Identities=21% Similarity=0.265 Sum_probs=222.9
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCC-CceEEcCCChHHhHHHHHHHHHH-cCCcEEEEEE
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQY-PFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIF 79 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~-p~~fR~~p~d~~~~~ai~~ll~~-~~w~~v~ii~ 79 (843)
+++|.+|||+.+|+++.++++++++.++|+|++++++|.++...+ +++||++|++..|+.++++++.. .+.++|++|+
T Consensus 76 ~~~V~~vvG~~~S~~~~a~~~v~~~~~i~~i~p~st~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v~ii~ 155 (366)
T COG0683 76 QDGVDAVVGPTTSGVALAASPVAEEAGVPLISPSATAPQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRVAIIG 155 (366)
T ss_pred hcCceEEEEeccCcccccchhhHhhcCceEEeecCCCCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcEEEEEe
Confidence 479999999999999999999999999999999999999887544 55999999999999999998864 5556999999
Q ss_pred ecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCccc
Q 003167 80 NDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDS 159 (843)
Q Consensus 80 ~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~ 159 (843)
.|+.||++..+.+++.+++.|++++..+.+.+. +.+|.+++.++++.++|+|++.+...++..+++++++.|+...
T Consensus 156 ~~~~yg~~~~~~~~~~l~~~G~~~~~~~~~~~~----~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~ 231 (366)
T COG0683 156 DDYAYGEGLADAFKAALKALGGEVVVEEVYAPG----DTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAK 231 (366)
T ss_pred CCCCcchhHHHHHHHHHHhCCCeEEEEEeeCCC----CCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCc
Confidence 999999999999999999999987666777776 5569999999999999999999999999999999999997542
Q ss_pred ceEEEEeCcccccccCCCCCChhhhhhccc-c-EEEEEeCC-CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHH
Q 003167 160 GYVWIATTWLSTFIDSKSPLSLKTAKSILG-A-LTLRQHTP-DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIAR 236 (843)
Q Consensus 160 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g-~-~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~ 236 (843)
..++.......... .......+ . +....+.+ +.|..+.|+++|+++++.+..++.++..+||+++++++
T Consensus 232 -~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~y~a~~~~~~ 303 (366)
T COG0683 232 -LIGGDGAGTAEFEE-------IAGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGDPAAPSYFAAAAYDAVKLLAK 303 (366)
T ss_pred -cccccccCchhhhh-------hcccCccccEEEEecccccccCcchHHHHHHHHHHhCCCCCcccchHHHHHHHHHHHH
Confidence 22222211111110 11112222 2 22222222 45678889999999998556667799999999999999
Q ss_pred HHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcc-cCCcceeeEeccCCCccCCcEEEEEeeec
Q 003167 237 ALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTN-MTGLSGPIHFNQDRSLLHPSYDIINVIEH 315 (843)
Q Consensus 237 Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-f~G~tG~v~fd~~G~~~~~~~~I~~~~~~ 315 (843)
|++++.. . . +++++.++|+... +.+.+|.+.||++|++....+.|.+|+..
T Consensus 304 ai~~a~~-~--------------------------~-d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~~ 355 (366)
T COG0683 304 AIEKAGK-S--------------------------S-DREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQKG 355 (366)
T ss_pred HHHHHhc-C--------------------------C-CHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEec
Confidence 9999853 1 1 3788999999987 78999999999999999999999999854
Q ss_pred C
Q 003167 316 G 316 (843)
Q Consensus 316 ~ 316 (843)
+
T Consensus 356 ~ 356 (366)
T COG0683 356 G 356 (366)
T ss_pred C
Confidence 3
No 52
>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=4.1e-26 Score=247.46 Aligned_cols=257 Identities=24% Similarity=0.372 Sum_probs=203.1
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
+++|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..+||+||+.|++..++.++++++.+++|++|++||+
T Consensus 61 ~~~v~ai~G~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~ 140 (328)
T cd06351 61 SQGVAAIFGPTSSESASAVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYD 140 (328)
T ss_pred ccCcEEEECCCCHHHHHHHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEe
Confidence 578999999999999999999999999999999998888876 6789999999999999999999999999999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCC-eEEEEEcChhhHHHHHHHHHHcCCccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEA-RVIVVHGYSRTGLMVFDVAQRLGMMDS 159 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~-~viv~~~~~~~~~~i~~~a~~~g~~~~ 159 (843)
+++++... +.+.+.....+..+... .+..+ ..+++..++++++.++ ++|++++..+++..++++|.++||+..
T Consensus 141 ~~~~~~~l-~~~~~~~~~~~~~v~~~-~~~~~----~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~~~ 214 (328)
T cd06351 141 SDEGLSRL-QELLDESGIKGIQVTVR-RLDLD----DDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMMGY 214 (328)
T ss_pred CchHHHHH-HHHHHhhcccCceEEEE-EecCC----chhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccccC
Confidence 88854333 33333333334455543 44444 3489999999999999 666666655899999999999999999
Q ss_pred ceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCC--CCCCCcchhhHhhHHHHHHHH
Q 003167 160 GYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG--SIGLNPYGLYAYDTVWMIARA 237 (843)
Q Consensus 160 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~--~~~~~~~~~~~YDAv~~la~A 237 (843)
+|+||.++......+. ........|++++....+..+...+|..+|...... ...+...++.+||+++++
T Consensus 215 ~~~~i~~~~~~~~~d~-----~~~~~~~~~i~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~--- 286 (328)
T cd06351 215 GYHWILTNLDLSDIDL-----EPFQYGPANITGFRLVDPDSPDVSQFLQRWLEESPGVNLRAPIYDAALLYDAVLLL--- 286 (328)
T ss_pred CcEEEEecCCccccch-----hhhccCCcceEEEEEeCCCchHHHHHHHhhhhccCCCCcCccchhhHhhhcEEEEE---
Confidence 9999999876654432 234566789999999999999999999999443321 111222334444443211
Q ss_pred HHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEee-ecC
Q 003167 238 LKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI-EHG 316 (843)
Q Consensus 238 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~-~~~ 316 (843)
||+++||++|+|.+..++|+++. +.+
T Consensus 287 -----------------------------------------------------tg~i~f~~~g~r~~~~l~i~~l~~~~~ 313 (328)
T cd06351 287 -----------------------------------------------------TGTVSFDEDGVRSNFTLDIIELNRSRG 313 (328)
T ss_pred -----------------------------------------------------EeeEEECCCCcccceEEEEEEecCCCC
Confidence 99999999999999999999998 777
Q ss_pred ceeeeeeecC
Q 003167 317 YPQQIGYWSN 326 (843)
Q Consensus 317 ~~~~VG~w~~ 326 (843)
+ ++||.|++
T Consensus 314 ~-~~vg~W~~ 322 (328)
T cd06351 314 W-RKVGTWNG 322 (328)
T ss_pred c-eEEEEecC
Confidence 7 99999984
No 53
>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=99.95 E-value=2.9e-26 Score=248.74 Aligned_cols=261 Identities=16% Similarity=0.107 Sum_probs=218.4
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
++|.+||||.+|+.+.++++++++.+||+|+++++++.+++ ..+||+||+.+++..++.++++++...+++++++++.|
T Consensus 65 ~~V~aviG~~~s~~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~ 144 (334)
T cd06327 65 DGVDMIVGGPNSAVALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTAD 144 (334)
T ss_pred cCceEEECCccHHHHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecc
Confidence 58999999999999999999999999999999999998887 45799999999999999999998887789999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
++||+...+.+++.+++.|++|+....++.+ .+|+++++.++++.++|+|++.+...++..+++++++.|+.. ..
T Consensus 145 ~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~-~~ 219 (334)
T cd06327 145 YAFGHSLERDARKVVKANGGKVVGSVRHPLG----TSDFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLTK-GQ 219 (334)
T ss_pred hHHhHHHHHHHHHHHHhcCCEEcCcccCCCC----CccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCcc-CC
Confidence 9999999999999999999999998888876 789999999999999999999999999999999999999752 22
Q ss_pred EEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC--CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHH
Q 003167 162 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALK 239 (843)
Q Consensus 162 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~ 239 (843)
.++.......... ....+..+|++...++.+ +.+..++|.++|+++++. .++.++..+||+++++++|++
T Consensus 220 ~~~~~~~~~~~~~------~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~--~p~~~~~~~Y~~~~~~~~A~~ 291 (334)
T cd06327 220 KLAGLLLFLTDVH------SLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKYGK--MPSMVQAGAYSAVLHYLKAVE 291 (334)
T ss_pred cEEEecccHHHHH------hhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHHCc--CCCcHHHHHHHHHHHHHHHHH
Confidence 3333221111100 112345788887776543 368899999999999863 467888999999999999999
Q ss_pred HHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcc-cCCcceeeEecc-CCCccCC
Q 003167 240 LFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTN-MTGLSGPIHFNQ-DRSLLHP 305 (843)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-f~G~tG~v~fd~-~G~~~~~ 305 (843)
++++. ++.+|.++|++++ ++++.|+++|++ +|+...+
T Consensus 292 ~ag~~-----------------------------~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~~~ 330 (334)
T cd06327 292 AAGTD-----------------------------DADKVVAKMKETPIYDLFAGNGYIRACDHQMVHD 330 (334)
T ss_pred HHCCC-----------------------------ChHHHHHhccccceeccCCCCceeeccccchhcc
Confidence 98432 3677999999976 688999999987 7764433
No 54
>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=99.94 E-value=9.2e-26 Score=246.10 Aligned_cols=280 Identities=8% Similarity=0.013 Sum_probs=220.4
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
+++|.+||||.+|++++++++++++.++|+|.... ++. ...||+||+.|++..++.++++++....-+++++|+.
T Consensus 66 ~d~v~~viG~~~S~~~~A~~~~~~~~~~~~i~~~~----~~~~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va~l~~ 141 (374)
T TIGR03669 66 RDKVDALWAGYSSATREAIRPIIDRNEQLYFYTNQ----YEGGVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIYTIAA 141 (374)
T ss_pred hCCCCEEEcCCchHHHHHHHHHHHhcCceEEcCcc----cccccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEEEEcC
Confidence 36899999999999999999999999999996432 222 3358999999999999999999886543378999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
|++||+...+.+++.+++.|++|+....++.+ +.||++++.+|++++||+|++.....+...+++|++++|+..+
T Consensus 142 d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~g----~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~- 216 (374)
T TIGR03669 142 DYNFGQLSADWVRVIAKENGAEVVGEEFIPLS----VSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLP- 216 (374)
T ss_pred CcHHHHHHHHHHHHHHHHcCCeEEeEEecCCC----cchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCc-
Confidence 99999999999999999999999998888877 8999999999999999999999888889999999999998532
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC--CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARAL 238 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al 238 (843)
++............ ........|+++...+.+ +.|..++|.++|+++|+..+.++.++..+||+++++++|+
T Consensus 217 --~~~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~~p~~~~~a~~~Yda~~~l~~Ai 290 (374)
T TIGR03669 217 --MGTSTAMAQGYEHK----RFEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPDAPYINQEAENNYFSVYMYKQAV 290 (374)
T ss_pred --ccchhhhhhhhhhh----hcCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHH
Confidence 22222111111100 011234567766655544 4688899999999999643344667889999999999999
Q ss_pred HHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHh-cccCCcceeeEeccCCCccCCcEEEEEeeecCc
Q 003167 239 KLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQ-TNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGY 317 (843)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~f~G~tG~v~fd~~G~~~~~~~~I~~~~~~~~ 317 (843)
+++++. ++++|.++|++ .+|.|+.|+++||++++.....+.|.++..++.
T Consensus 291 ~~AGs~-----------------------------d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~ 341 (374)
T TIGR03669 291 EEAGTT-----------------------------DQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHN 341 (374)
T ss_pred HHhCCC-----------------------------CHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCC
Confidence 997432 48999999997 679999999999987665556667777776655
Q ss_pred eeeeeeec
Q 003167 318 PQQIGYWS 325 (843)
Q Consensus 318 ~~~VG~w~ 325 (843)
...+..|.
T Consensus 342 ~~~~~~~~ 349 (374)
T TIGR03669 342 ITFVKEQE 349 (374)
T ss_pred EEEEEecC
Confidence 45666664
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=99.94 E-value=5.7e-26 Score=247.15 Aligned_cols=256 Identities=17% Similarity=0.162 Sum_probs=215.8
Q ss_pred CCCeEEEEcCCChHHHHHH-------HHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcC-C
Q 003167 2 ETDTLAIVGPQSAVMAHVL-------SHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFG-W 72 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av-------~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~-w 72 (843)
+++|++||||.+|..+.++ +++++.+++|+|+++++++.+++ ..+||+||+.|++..++.++++++.+.+ |
T Consensus 64 ~~~v~aiiG~~~s~~~~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~ 143 (342)
T cd06329 64 DDGVRLVVQGNSSSVALALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDG 143 (342)
T ss_pred HhCCeEEEcccchHHHHHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcceEEEecCChHHHHHHHHHHHHhcccC
Confidence 3589999999999999999 78889999999999988888887 5679999999999999999999998875 9
Q ss_pred cEEEEEEecCCCCcchHHHHHHHHHh--cCcEEEEeeecCCCCCCCh-hHHHHHHHHHhcCCCeEEEEEcChhhHHHHHH
Q 003167 73 GEVIAIFNDDDQGRNGVTALGDKLAE--IRCKISYKSALPPDQSVTE-TDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 149 (843)
Q Consensus 73 ~~v~ii~~d~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~-~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~ 149 (843)
+++++++.|+.||+...+.+.+.+++ .|++|+....++.+ . +|+.+++.++++.++|+|++.....++..+++
T Consensus 144 k~v~i~~~~~~~g~~~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~ 219 (342)
T cd06329 144 KKVYLINQDYSWGQDVAAAFKAMLAAKRPDIQIVGEDLHPLG----KVKDFSPYVAKIKASGADTVITGNWGNDLLLLVK 219 (342)
T ss_pred ceEEEEeCChHHHHHHHHHHHHHHHhhcCCcEEeceeccCCC----CCCchHHHHHHHHHcCCCEEEEcccCchHHHHHH
Confidence 99999999999999999999999999 99999988877766 6 89999999999999999999988888999999
Q ss_pred HHHHcCCcccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC--CchhhHHHHHHHhhhcCCCCCCCcchhhH
Q 003167 150 VAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYA 227 (843)
Q Consensus 150 ~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 227 (843)
++++.|+.. .++...+.... .. ....+..+|++....+.+ +++..++|.++|+++++ ..++.++..+
T Consensus 220 ~~~~~g~~~---~~~~~~~~~~~--~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~ 288 (342)
T cd06329 220 QAADAGLKL---PFYTPYLDQPG--NP----AALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKYG--RVPDYYEGQA 288 (342)
T ss_pred HHHHcCCCc---eEEeccccchh--HH----HhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHhC--CCCCchHHHH
Confidence 999999843 34544333221 10 223345678777666543 36888999999999986 3567789999
Q ss_pred hhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEecc-CCC
Q 003167 228 YDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQ-DRS 301 (843)
Q Consensus 228 YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~-~G~ 301 (843)
||+++++++|+++++.. +++.+.++|++++|+|+.|+++|+. +++
T Consensus 289 y~~~~~~~~a~~~ag~~-----------------------------~~~~v~~al~~~~~~~~~g~~~~~~~~~~ 334 (342)
T cd06329 289 YNGIQMLADAIEKAGST-----------------------------DPEAVAKALEGMEVDTPVGPVTMRASDHQ 334 (342)
T ss_pred HHHHHHHHHHHHHhCCC-----------------------------CHHHHHHHHhCCccccCCCCeEEcccCcc
Confidence 99999999999986321 3889999999999999999999985 444
No 56
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=99.94 E-value=1.1e-25 Score=244.03 Aligned_cols=265 Identities=14% Similarity=0.167 Sum_probs=215.5
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
++|.+||||.+|+.+.++++++++.+||+|+++++++.+.+ ..+||+||+.+++..++.++++++...||+++++++.|
T Consensus 64 ~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~ 143 (333)
T cd06359 64 DKVDFVTGVVFSNVLLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPN 143 (333)
T ss_pred cCCcEEEccCCcHHHHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecC
Confidence 58999999999999999999999999999998777776765 45799999999999999999999998999999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
++||+...+.+++.++ .+++....++.+ .+|+.+++.++++.+||+|++.....++..+++++++.|+.. ..
T Consensus 144 ~~~g~~~~~~~~~~~~---~~v~~~~~~~~~----~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~-~~ 215 (333)
T cd06359 144 YQAGKDALAGFKRTFK---GEVVGEVYTKLG----QLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKK-DI 215 (333)
T ss_pred chhhHHHHHHHHHHhC---ceeeeeecCCCC----CcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCccc-CC
Confidence 9999999999988774 456655555555 789999999999999999999888888889999999999753 33
Q ss_pred EEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC--CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHH
Q 003167 162 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALK 239 (843)
Q Consensus 162 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~ 239 (843)
.++.+.+.... +.. ....+..+|++....+.+ +++..++|.++|+++|+ ..++.++..+||+++++++|++
T Consensus 216 ~~~~~~~~~~~-~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~yda~~~~~~A~~ 288 (333)
T cd06359 216 PLYSPGFSDEE-DTL----PAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKYG--RLPTLYAAQAYDAAQLLDSAVR 288 (333)
T ss_pred eeeccCcccCH-HHH----HhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHHHHHHHHH
Confidence 45554433221 110 123356788887776665 46889999999999986 3577889999999999999999
Q ss_pred HHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEE
Q 003167 240 LFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDII 310 (843)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~ 310 (843)
+++.. ..+++.+.++|++++|+|++|+++|+++|+. ...+.|+
T Consensus 289 ~ag~~---------------------------~~~~~~v~~al~~~~~~~~~G~~~~~~~~~~-~~~~~~~ 331 (333)
T cd06359 289 KVGGN---------------------------LSDKDALRAALRAADFKSVRGAFRFGTNHFP-IQDFYLR 331 (333)
T ss_pred HhcCC---------------------------CCCHHHHHHHHhcCccccCccceEECCCCCc-ceeEEEE
Confidence 97321 0137899999999999999999999999874 3444444
No 57
>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=99.94 E-value=1.1e-25 Score=244.10 Aligned_cols=259 Identities=14% Similarity=0.088 Sum_probs=213.6
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
++|.+|+||.+|.++.++++++++.++|+|++++.... ...||+||+.|++..++.++++++...+|++|++|+.|+
T Consensus 66 ~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~ 142 (333)
T cd06331 66 DKVDAVFGCYTSASRKAVLPVVERGRGLLFYPTQYEGG---ECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFYLIGSDY 142 (333)
T ss_pred cCCcEEEecccHHHHHHHHHHHHhcCceEEeCCCCCCC---cCCCCeEEccCChHHhHHHHHHHHHHhcCCeEEEECCCc
Confidence 48999999999999999999999999999997553321 245899999999999999999988666699999999999
Q ss_pred CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccceE
Q 003167 83 DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 162 (843)
Q Consensus 83 ~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~ 162 (843)
.||+...+.+++.+++.|.+|+....++.+ .+|+++++.++++.++|+|++.+...++..+++++++.|+.....
T Consensus 143 ~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~- 217 (333)
T cd06331 143 VWPRESNRIARALLEELGGEVVGEEYLPLG----TSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDADRI- 217 (333)
T ss_pred hhHHHHHHHHHHHHHHcCCEEEEEEEecCC----cccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcCCC-
Confidence 999999999999999999999998888877 789999999999999999999999999999999999999863333
Q ss_pred EEEeCcccccccCCCCCChhhhhhccccEEEEEeCC--CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHHH
Q 003167 163 WIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKL 240 (843)
Q Consensus 163 ~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~~ 240 (843)
++.+...... ... .......+|++...++.+ +.+..++|.++|+++++....++.+++.+||+++++++|+++
T Consensus 218 ~~~~~~~~~~-~~~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~A~~~ 292 (333)
T cd06331 218 PILSLTLDEN-ELA----AIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDDAVINSPAEAAYEAVYLWAAAVEK 292 (333)
T ss_pred eeEEcccchh-hhh----ccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCCcCCCchhHHHHHHHHHHHHHHHH
Confidence 3333322211 111 112345678887766543 467889999999999864335778899999999999999998
Q ss_pred HhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCcc
Q 003167 241 FLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLL 303 (843)
Q Consensus 241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~ 303 (843)
+++. +++.|.++|++++|+|++|+++|++++++.
T Consensus 293 ag~~-----------------------------~~~~l~~al~~~~~~~~~G~i~f~~~~~~~ 326 (333)
T cd06331 293 AGST-----------------------------DPEAVRAALEGVSFDAPQGPVRIDPDNHHT 326 (333)
T ss_pred cCCC-----------------------------CHHHHHHHhhcCcccCCCCceEecCCCCcc
Confidence 6321 388999999999999999999999877643
No 58
>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=99.94 E-value=5e-25 Score=233.62 Aligned_cols=281 Identities=17% Similarity=0.187 Sum_probs=194.8
Q ss_pred CCCeEEEEc-CCChHHHHHHHHhcccCCCcEEecccCCCCC-CCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEE
Q 003167 2 ETDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTL-SPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF 79 (843)
Q Consensus 2 ~~~V~aiiG-p~~S~~~~av~~~~~~~~vP~Is~~at~~~l-s~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~ 79 (843)
.+||.||+| |.++..+..+..+|+.++||+|+++..++.. ++..+.+.+++.|+...++.|+++++++|+|++|++||
T Consensus 79 ~~GV~AIfg~p~s~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy 158 (382)
T cd06377 79 VQGVSALLAFPQTRPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVL 158 (382)
T ss_pred hCCeEEEEecCCCHHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEE
Confidence 689999999 4888888999999999999999986654333 22333334477999999999999999999999999999
Q ss_pred ecCCCCcchHHHHHHHHHhcCc----EEEEeeecCCCCCCChhHH-HHHHHHHhcCC-CeEEEEEcChhhHHHHHHHHHH
Q 003167 80 NDDDQGRNGVTALGDKLAEIRC----KISYKSALPPDQSVTETDV-RNELVKVRMME-ARVIVVHGYSRTGLMVFDVAQR 153 (843)
Q Consensus 80 ~d~~~g~~~~~~l~~~l~~~g~----~v~~~~~~~~~~~~~~~d~-~~~l~~i~~~~-~~viv~~~~~~~~~~i~~~a~~ 153 (843)
+.++... .|++.++..+. .+......+... .+..++ ++.|++|++.. +++|++.|+.+.+..+++++.+
T Consensus 159 ~~~~gl~----~lq~l~~~~~~~~~~~~i~v~~~~~~~-~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~ 233 (382)
T cd06377 159 CRERDPT----GLLLLWTNHARFHLGSVLNLSRNDPST-ADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPP 233 (382)
T ss_pred ecCcCHH----HHHHHHHHhcccccCceEEEEeccCcc-CChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhcc
Confidence 8776333 34444444332 122222233210 124455 99999999999 9999999999999999988754
Q ss_pred cCCcccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHH
Q 003167 154 LGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWM 233 (843)
Q Consensus 154 ~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~ 233 (843)
+|+||+++.. .++.. .....-.|+++ |.+. . .....++.||||++
T Consensus 234 ------~y~wIv~~~~--~le~~-----~~~g~nigLl~-----------------~~~~-~----~~~l~ali~DAV~l 278 (382)
T cd06377 234 ------GPHWILGDPL--PPEAL-----RTEGLPPGLLA-----------------HGET-T----QPPLEAYVQDALEL 278 (382)
T ss_pred ------ceEEEEcCCc--Chhhc-----cCCCCCceEEE-----------------Eeec-c----cccHHHHHHHHHHH
Confidence 4999998721 11110 00111122221 2111 0 11237899999999
Q ss_pred HHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCc--c-cccchHHHHHHHHhcccCCcceeeEeccCCCc--cCCcEE
Q 003167 234 IARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGAL--S-IFDGGKKFLANILQTNMTGLSGPIHFNQDRSL--LHPSYD 308 (843)
Q Consensus 234 la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~--~~~~~~ 308 (843)
+|+|++.+........ ......+|... + +|+.|..|.++|++++|+|.||+|.| +.|.| .+..++
T Consensus 279 vA~a~~~l~~~~~~~~---------l~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F-~~g~R~~~~~~l~ 348 (382)
T cd06377 279 VARAVGSATLVQPELA---------LIPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWV-TGSSQVHSSRHFK 348 (382)
T ss_pred HHHHHHHhhhcccccc---------cCCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEE-ccCeeecccceEE
Confidence 9999998632111100 11122456533 5 89899999999999999999999999 56777 789999
Q ss_pred EEEee--ecC--ceeeeeeecCCCCCcc
Q 003167 309 IINVI--EHG--YPQQIGYWSNYSGLSV 332 (843)
Q Consensus 309 I~~~~--~~~--~~~~VG~w~~~~gl~~ 332 (843)
|++++ ..| .|++||+|++...+.|
T Consensus 349 I~~L~~~~~G~~~W~kVG~W~~~~~~~~ 376 (382)
T cd06377 349 VWSLRRDPVGQPTWTTVGSWQGGRKIVM 376 (382)
T ss_pred EEEeccccCCCccceEEEEecCCCceec
Confidence 99998 333 4699999998654443
No 59
>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=99.94 E-value=3.7e-25 Score=243.14 Aligned_cols=276 Identities=14% Similarity=0.175 Sum_probs=225.2
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHH-HHcCCcEEEEEEe
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFN 80 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll-~~~~w~~v~ii~~ 80 (843)
++|.+||||.+|..+.++++++++.+||+|++.++++.+++ ..+||+||+.|++..++.++++++ ++++|++|++|+.
T Consensus 73 ~~v~avvG~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~ 152 (362)
T cd06343 73 DEVFAMVGGLGTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQ 152 (362)
T ss_pred cCeEEEEecCCcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEe
Confidence 68999999999999999999999999999999888888887 478999999999999999999965 5689999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
|++||+...+.+++.+++.|++++....++.+ ++|++++++++++.++|+|++.+...++..+++++++.|+..
T Consensus 153 ~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~-- 226 (362)
T cd06343 153 NDDFGKDYLKGLKDGLGDAGLEIVAETSYEVT----EPDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKP-- 226 (362)
T ss_pred ccHHHHHHHHHHHHHHHHcCCeEEEEeeecCC----CccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCc--
Confidence 99999999999999999999999998888877 789999999999999999999999999999999999999854
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeC-------CCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHT-------PDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWM 233 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~ 233 (843)
.++.+++......... ....+..+|++....+. ...+..++|.+.|+++++...+++.++..+||++.+
T Consensus 227 -~~~~~~~~~~~~~~~~---~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~ 302 (362)
T cd06343 227 -TFLLSSVSASVASVLK---PAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPEGDPPDTYAVYGYAAAET 302 (362)
T ss_pred -eEEEEecccccHHHHH---HhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHH
Confidence 3555554332211000 11234567877765442 245788999999999986433578889999999999
Q ss_pred HHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhccc---CC-cceeeEeccCCCccCCcEEE
Q 003167 234 IARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNM---TG-LSGPIHFNQDRSLLHPSYDI 309 (843)
Q Consensus 234 la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f---~G-~tG~v~fd~~G~~~~~~~~I 309 (843)
+++|++++... . +++.|.++|+++++ .+ ..|++.|+.++.+....+.|
T Consensus 303 ~~~a~~~ag~~---------------------------~-~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 354 (362)
T cd06343 303 LVKVLKQAGDD---------------------------L-TRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQL 354 (362)
T ss_pred HHHHHHHhCCC---------------------------C-CHHHHHHHHHhCCCCCccccCccceecCccccccceeEEE
Confidence 99999997321 1 38899999999987 33 34589998765556677788
Q ss_pred EEeeecC
Q 003167 310 INVIEHG 316 (843)
Q Consensus 310 ~~~~~~~ 316 (843)
.++++++
T Consensus 355 ~~~~~g~ 361 (362)
T cd06343 355 MRFEGGR 361 (362)
T ss_pred EEEecCc
Confidence 8876554
No 60
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=99.94 E-value=3.4e-25 Score=240.86 Aligned_cols=260 Identities=14% Similarity=0.274 Sum_probs=216.6
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHH-HHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll-~~~~w~~v~ii~~d 81 (843)
++|++||||.+|..+.++++++++.+||+|+++++.+.+++.. +|+||+.|++..++.++++++ ++++|++|++|+.+
T Consensus 66 ~~v~aiiG~~~s~~~~~v~~~~~~~~ip~i~~~~~~~~~~~~~-~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~ 144 (334)
T cd06347 66 DKVVAIIGPVTSGATLAAGPIAEDAKVPMITPSATNPKVTQGK-DYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDN 144 (334)
T ss_pred cCeEEEEcCCccHhHHHhHHHHHHCCCeEEcCCCCCCCcccCC-CeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeC
Confidence 4999999999999999999999999999999998888776532 589999999999999999986 66799999999987
Q ss_pred C-CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 82 D-DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 82 ~-~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
+ +|+....+.+++.+++.|++++....++.+ ..|+.+.++++++.++|+|++.+...+...+++++++.|+.
T Consensus 145 ~~~~~~~~~~~~~~~~~~~g~~v~~~~~~~~~----~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~--- 217 (334)
T cd06347 145 SSDYSKGLAKAFKEAFKKLGGEIVAEETFNAG----DTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIK--- 217 (334)
T ss_pred CCchhHHHHHHHHHHHHHcCCEEEEEEEecCC----CCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCC---
Confidence 6 899999999999999999999988888766 67899999999999999999999999999999999999873
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCC--chhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPD--SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARAL 238 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al 238 (843)
..|+.++.+...... .......+|++...++.+. .+..++|.++|+++++ ..++.++..+||+++++++|+
T Consensus 218 ~~i~~~~~~~~~~~~-----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~yda~~~~~~Al 290 (334)
T cd06347 218 VPILGGDGWDSPKLE-----EAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKYG--KEPDAFAALGYDAYYLLADAI 290 (334)
T ss_pred CcEEecccccCHHHH-----HHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC--CCcchhHHHHHHHHHHHHHHH
Confidence 356766655432110 1233567888777665543 5788999999999885 456788899999999999999
Q ss_pred HHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhc-ccCCcceeeEeccCCCccCCc
Q 003167 239 KLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQT-NMTGLSGPIHFNQDRSLLHPS 306 (843)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~-~f~G~tG~v~fd~~G~~~~~~ 306 (843)
++++.. +++.+.++|.+. +|+|++|+++||++|+.....
T Consensus 291 ~~ag~~-----------------------------~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~~~ 330 (334)
T cd06347 291 ERAGST-----------------------------DPEAIRDALAKTKDFDGVTGKITIDENGNPVKSA 330 (334)
T ss_pred HHhCCC-----------------------------CHHHHHHHHHhCCCcccceeeeEECCCCCcCCCc
Confidence 985321 378899998765 699999999999999865443
No 61
>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=99.94 E-value=5e-25 Score=240.85 Aligned_cols=269 Identities=12% Similarity=0.078 Sum_probs=210.8
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHH-cCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~-~~w~~v~ii~~ 80 (843)
+++|.+||||.+|+++.++.+++++.++|++++.... .....||+||+.+++..++.++++++.. .|.+++++++.
T Consensus 66 ~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~~---~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l~~ 142 (359)
T TIGR03407 66 QDKVAAVFGCWTSASRKAVLPVFEENNGLLFYPVQYE---GEECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLLGS 142 (359)
T ss_pred hCCCcEEEcCCcHHHHHHHHHHHhccCCceEeCCccc---CcccCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEecC
Confidence 3689999999999999999999999999999764321 1245689999999999999999988765 59999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
|++||+...+.+++.+++.|++|+....++.+ +.|+++++++|++++||+|++.....++..+++++++.|+....
T Consensus 143 d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~~~ 218 (359)
T TIGR03407 143 DYVFPRTANKIIKAYLKSLGGTVVGEDYTPLG----HTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITAKD 218 (359)
T ss_pred ccHHHHHHHHHHHHHHHHcCCEEEeeEEecCC----hHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCccC
Confidence 99999999999999999999999998888877 89999999999999999999888877888899999999986433
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEe--CCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQH--TPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARAL 238 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al 238 (843)
..++.+......+.. ...+.++|+++...+ ..+.|..++|.++|+++|+....++.+++.+||+++++++|+
T Consensus 219 ~~~~~~~~~~~~~~~------~g~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~A~ 292 (359)
T TIGR03407 219 VPVVSFSVAEEEIRG------IGPENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDDRVTNDPMEAAYLGVYLWKAAV 292 (359)
T ss_pred CcEEEeecCHHHHhh------cChHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHH
Confidence 334443321111110 112446776654332 345688899999999998643334556678999999999999
Q ss_pred HHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEe
Q 003167 239 KLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 312 (843)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~ 312 (843)
+++++. +++.+.++|++++|.++.|+++|+++++.....+.+.++
T Consensus 293 ~~ag~~-----------------------------~~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~~~~~~~~ 337 (359)
T TIGR03407 293 EKAGSF-----------------------------DVDAVRDAAIGIEFDAPEGKVKVDGKNHHLTKTVRIGEI 337 (359)
T ss_pred HHhCCC-----------------------------CHHHHHHHhcCCcccCCCccEEEeCCCCeeeeeeEEEEE
Confidence 997322 388999999999999999999999743323333344444
No 62
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.94 E-value=1.7e-25 Score=243.77 Aligned_cols=262 Identities=17% Similarity=0.156 Sum_probs=214.8
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
++|.+|||+.+|.++.+ ++++++.++|+|++.++++.++...+||+||+.|++..++.++++++.+.+|++|++++.|+
T Consensus 70 ~~v~~iiG~~~s~~~~~-~~~~~~~~ip~i~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~ 148 (347)
T cd06336 70 DGVKFILGPIGGGITAA-QQITERNKVLLLTAYSSDLSIDTAGNPLTFRVPPIYNVYGVPFLAYAKKPGGKKVALLGPND 148 (347)
T ss_pred cCceEEEeCCCCchhhh-hhhhhhcCceEEeccCCcccccccCCceEEEecCCchhHHHHHHHHHhhcCCceEEEEccCC
Confidence 48999999999999998 99999999999999999998876567999999999999999999998889999999999999
Q ss_pred CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChh-hHHHHHHHHHHcCCcccce
Q 003167 83 DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 83 ~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~-~~~~i~~~a~~~g~~~~~~ 161 (843)
+||+...+.+++.+++.|++|+....++.+ ..|+++++.+|+++++|+|++.+... ++..++++++++|+...
T Consensus 149 ~~g~~~~~~~~~~l~~~G~~vv~~~~~~~~----~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~-- 222 (347)
T cd06336 149 AYGQPWVAAYKAAWEAAGGKVVSEEPYDPG----TTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKGG-- 222 (347)
T ss_pred chhHHHHHHHHHHHHHcCCEEeeecccCCC----CcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCcc--
Confidence 999999999999999999999988888876 78999999999999999999999988 99999999999998542
Q ss_pred EEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC----CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHH
Q 003167 162 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP----DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARA 237 (843)
Q Consensus 162 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~A 237 (843)
++...+.... .... ....+.++|++...++.+ .+|..++|.++|+++|+. .++.++..+||+++++++|
T Consensus 223 -~~~~~~~~~~-~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--~p~~~~~~~y~~~~~~~~A 295 (347)
T cd06336 223 -FLSCTGDKYD-ELLV---ATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYGE--PPNSEAAVSYDAVYILKAA 295 (347)
T ss_pred -EEeccCCCch-HHHH---HhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHHCC--CCcHHHHHHHHHHHHHHHH
Confidence 2222211111 0000 122355788888776644 468889999999999863 3678899999999999999
Q ss_pred HHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHh--------cccCCcceeeEeccCCCccCCcE
Q 003167 238 LKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQ--------TNMTGLSGPIHFNQDRSLLHPSY 307 (843)
Q Consensus 238 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~--------~~f~G~tG~v~fd~~G~~~~~~~ 307 (843)
+++++.. ++..+.+++.. ..|.++.|.+.||++||...+.+
T Consensus 296 l~~ag~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~ 344 (347)
T cd06336 296 MEAAGSV-----------------------------DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGPWP 344 (347)
T ss_pred HHhcCCC-----------------------------CcHHHHHHHhhccCCCcCccccccccccccccCCCccccCcc
Confidence 9997432 13334444332 56889999999999999765543
No 63
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=99.94 E-value=3.8e-25 Score=239.46 Aligned_cols=257 Identities=16% Similarity=0.098 Sum_probs=207.9
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCC-CCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPL-QYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~-~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
++|.|||||.+|+++.++++++++.++|+|+++++++.++.. .++|+||+.+++..++.++++++... +++|++++.|
T Consensus 67 ~~V~avvG~~~S~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v~~i~~~ 145 (333)
T cd06328 67 DGVDILVGSTSSGVALAVLPVAEENKKILIVEPAAADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKIATLAQD 145 (333)
T ss_pred cCCeEEEccCCcHHHHHHHHHHHHhCCcEEecCCCCchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeEEEEecC
Confidence 589999999999999999999999999999999999998864 35999999998888888888887665 8999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChh-hHHHHHHHHHHcCCcccc
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~-~~~~i~~~a~~~g~~~~~ 160 (843)
++||++..+.+++.+++.|++|+....++.+ +.|+++++.+|++++||+|++..... +...+++++.+.|+..
T Consensus 146 ~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~-- 219 (333)
T cd06328 146 YAFGRDGVAAFKAALEKLGAAIVTEEYAPTD----TTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYGI-- 219 (333)
T ss_pred ccccHHHHHHHHHHHHhCCCEEeeeeeCCCC----CcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCCC--
Confidence 9999999999999999999999999888877 88999999999999999998875554 5667788887777542
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeC-CCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHT-PDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALK 239 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~ 239 (843)
.............. .......+|++....+. +.+|..++|.++|+++|+ ..++.+++.+||++.++++|++
T Consensus 220 -~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g--~~p~~~~~~~y~a~~~l~~Ai~ 291 (333)
T cd06328 220 -EITLAGDILANLTM-----YKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARFG--SPPDLFTAGGMSAAIAVVEALE 291 (333)
T ss_pred -eEEecccccCcccc-----ccccccccceeeeecCCCCCCHHHHHHHHHHHHHhC--CCcchhhHHHHHHHHHHHHHHH
Confidence 12222211111110 11223456666555544 667888999999999986 4567889999999999999999
Q ss_pred HHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEecc-CCCcc
Q 003167 240 LFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQ-DRSLL 303 (843)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~-~G~~~ 303 (843)
+++.. +++++.++|++.+|+++.|+++|++ +++..
T Consensus 292 ~ag~~-----------------------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~ 327 (333)
T cd06328 292 ETGDT-----------------------------DTEALIAAMEGMSFETPKGTMTFRKEDHQAL 327 (333)
T ss_pred HhCCC-----------------------------CHHHHHHHHhCCeeecCCCceEECcccchhh
Confidence 97311 3889999999999999999999985 55433
No 64
>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=99.94 E-value=9e-25 Score=237.85 Aligned_cols=269 Identities=16% Similarity=0.209 Sum_probs=217.5
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHH-HHcCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll-~~~~w~~v~ii~~ 80 (843)
+++|.+|+||.+|+.+.++++++++.+||+|+++++++.+++ ..+|+||+.|++..++.++++++ ++++|+++++++.
T Consensus 65 ~~~V~~i~G~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~ 143 (340)
T cd06349 65 DPRIVAVLGDFSSGVSMAASPIYQRAGLVQLSPTNSHPDFTK-GGDFIFRNSTSQAIEAPLLADYAVKDLGFKKVAILSV 143 (340)
T ss_pred cCCeEEEECCCccHhHHHhHHHHHhCCCeEEecCCCCCcccc-CCCeEEEccCCcHHHHHHHHHHHHHHcCCcEEEEEec
Confidence 458999999999999999999999999999999888887765 35899999999999999999986 6789999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
|++||+...+.+++.+++.|++|+....++++ ..|+++++.+|+++++|+|++.+...+...+++++++.|+..
T Consensus 144 ~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~-- 217 (340)
T cd06349 144 NTDWGRTSADIFVKAAEKLGGQVVAHEEYVPG----EKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDI-- 217 (340)
T ss_pred CChHhHHHHHHHHHHHHHcCCEEEEEEEeCCC----CCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCC--
Confidence 99999999999999999999999988888776 789999999999999999999999999999999999999753
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCC--chhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPD--SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARAL 238 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al 238 (843)
.++..+..... ... .......+|++....+.++ .|..++|.++|+++|+ ..++.++..+||+++++++|+
T Consensus 218 -~~~~~~~~~~~-~~~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~p~~~~~~~y~~~~~~~~a~ 289 (340)
T cd06349 218 -PVVASSSVYSP-KFI----ELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKYG--AQPDAFAAQAYDAVGILAAAV 289 (340)
T ss_pred -cEEccCCcCCH-HHH----HHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC--CCcchhhhhHHHHHHHHHHHH
Confidence 34444322211 110 1223457888887766553 5778999999998886 346788999999999999999
Q ss_pred HHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHH-HHhcccCCcceeeEeccC-CCccCCcEEEEEeeec
Q 003167 239 KLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLAN-ILQTNMTGLSGPIHFNQD-RSLLHPSYDIINVIEH 315 (843)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-l~~~~f~G~tG~v~fd~~-G~~~~~~~~I~~~~~~ 315 (843)
++++.. +...+... +.+..+.|++|.+.|+++ |+ ....|.++.++++
T Consensus 290 ~~ag~~-----------------------------~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~-~~~~~~~~~~~~g 338 (340)
T cd06349 290 RRAGTD-----------------------------RRAARDGFAKAEDVYSGVTGSTKFDPNTRR-VIKRFVPLVVRNG 338 (340)
T ss_pred HHhCCC-----------------------------CHHHHHHHHHhccCcccceEeEEECCCCCC-ccCceEEEEEeCC
Confidence 996321 12223233 245568899999999987 65 4458888776554
No 65
>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=99.93 E-value=9e-25 Score=238.56 Aligned_cols=259 Identities=15% Similarity=0.110 Sum_probs=211.9
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEE
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIF 79 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~ 79 (843)
++|.|||||.+|..+.++++++++.+||+|++.++++.+++ ..+||+||+.|++..++.++++++.++ +|++|++++
T Consensus 66 ~~v~aiig~~~s~~~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~ 145 (346)
T cd06330 66 EGVDMLIGLISSGVALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATIN 145 (346)
T ss_pred cCCcEEEcccchHHHHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEEC
Confidence 48999999999999999999999999999999888888876 578999999999999999999999877 499999999
Q ss_pred ecCCCCcchHHHHHHHHHhcC--cEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCc
Q 003167 80 NDDDQGRNGVTALGDKLAEIR--CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 80 ~d~~~g~~~~~~l~~~l~~~g--~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~ 157 (843)
.|++||....+.+++.+++.| ++++....++.. .+|+.+++.+|++.++|+|++.+...+...+++++++.|+.
T Consensus 146 ~~~~~g~~~~~~~~~~~~~~g~~~~~v~~~~~~~~----~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~ 221 (346)
T cd06330 146 PDYAYGQDAWADFKAALKRLRPDVEVVSEQWPKLG----APDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLF 221 (346)
T ss_pred CchHHHHHHHHHHHHHHHHhCCCCeecccccCCCC----CcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCcc
Confidence 999999999999999999984 556654444444 78999999999999999999999888999999999999985
Q ss_pred ccceEEEEeCcccccccCCCCCChhhhhhccccEEEEE--eCC--CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHH
Q 003167 158 DSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQ--HTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWM 233 (843)
Q Consensus 158 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~--~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~ 233 (843)
. +..|+.+.+....+. ....+..+|++.... +.. +.+..++|.++|+++|+ ..++.++..+||++++
T Consensus 222 ~-~~~~~~~~~~~~~~~------~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~g--~~p~~~~~~~y~a~~~ 292 (346)
T cd06330 222 D-GTTVVLTLTGAPELA------PLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKYG--DYPTYGAYGAYQAVMA 292 (346)
T ss_pred c-CceEEeeccchhhhh------hhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHHC--CCCChHHHHHHHHHHH
Confidence 4 567777665332211 122344567654432 221 46889999999999986 4566788999999999
Q ss_pred HHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccC
Q 003167 234 IARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQD 299 (843)
Q Consensus 234 la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~ 299 (843)
+++|+++++..... .. .+.+.++|++++|.|+.|++.|+++
T Consensus 293 l~~a~~~a~~~~~~------------------------~~-~~~v~~al~~~~~~~~~G~~~f~~~ 333 (346)
T cd06330 293 LAAAVEKAGATDGG------------------------AP-PEQIAAALEGLSFETPGGPITMRAA 333 (346)
T ss_pred HHHHHHHhcCCCCC------------------------Cc-HHHHHHHHcCCCccCCCCceeeecC
Confidence 99999997543110 11 2679999999999999999999874
No 66
>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=99.93 E-value=5.8e-24 Score=232.54 Aligned_cols=281 Identities=16% Similarity=0.113 Sum_probs=217.7
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
+++|.+|||+.+|..+.++++++++.++|++++++... . ...|++|++.++...++.++++++...+-+++++|+.|
T Consensus 65 ~~~V~aiiG~~~s~~~~a~~~~~~~~~~~~~~~~~~~~-~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~d 141 (360)
T cd06357 65 EDGVRVIFGCYTSSSRKAVLPVVERHDALLWYPTLYEG-F--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVFLVGSN 141 (360)
T ss_pred hCCCcEEEeCccHHHHHHHHHHHHhcCceEEeCCCccC-C--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEEEECCC
Confidence 46899999999999999999999999999998764321 1 22378888888877778889998876556899999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
++||++..+.+.+.+++.|++++....++.+ .++.||++++.++++++||+|++.+...++..++++++++|+....
T Consensus 142 ~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~--~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~~- 218 (360)
T cd06357 142 YIYPYESNRIMRDLLEQRGGEVLGERYLPLG--ASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPAR- 218 (360)
T ss_pred CcchHHHHHHHHHHHHHcCCEEEEEEEecCC--CchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCccC-
Confidence 9999999999999999999999876555544 4589999999999999999999999999999999999999986432
Q ss_pred EEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC--CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHH
Q 003167 162 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALK 239 (843)
Q Consensus 162 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~ 239 (843)
..+.+...... ... ....+..+|+++...+.+ +.|..++|.++|+++|+....++.+++.+||+++++++|++
T Consensus 219 ~~~~~~~~~~~-~~~----~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~yda~~~l~~Al~ 293 (360)
T cd06357 219 MPIASLTTSEA-EVA----AMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGEDAPVSACAEAAYFQVHLFARALQ 293 (360)
T ss_pred ceeEEeeccHH-HHh----hcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHH
Confidence 33333221111 110 112356788888766533 56889999999999997443467789999999999999999
Q ss_pred HHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEeeecCcee
Q 003167 240 LFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQ 319 (843)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~~~~~~~ 319 (843)
++++. +++.|.++|++++|+|+.|.+.||..++.......+.++..+|.+.
T Consensus 294 ~ag~~-----------------------------~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~ 344 (360)
T cd06357 294 RAGSD-----------------------------DPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFD 344 (360)
T ss_pred HcCCC-----------------------------CHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEE
Confidence 86321 3788999999999999999999988665344445555663333324
Q ss_pred eee
Q 003167 320 QIG 322 (843)
Q Consensus 320 ~VG 322 (843)
.+.
T Consensus 345 ~~~ 347 (360)
T cd06357 345 IVR 347 (360)
T ss_pred EEE
Confidence 444
No 67
>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=99.93 E-value=2.9e-24 Score=233.43 Aligned_cols=261 Identities=17% Similarity=0.224 Sum_probs=214.9
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCC-CCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPL-QYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~-~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
++|.+||||.+|..+.++.+.+++.++|+|+++++++.+++. .+||+||+.|++..++..+++++...||+++++++.+
T Consensus 64 ~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~ 143 (333)
T cd06332 64 DKVDVVVGPVFSNVALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPD 143 (333)
T ss_pred cCCcEEEcCCccHHHHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecC
Confidence 489999999999999999999999999999998888888764 4799999999999999999999999999999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
+.||+...+.+.+.++ ..++....++.+ ..|+.++++++++.++|+|++......+..+++++++.|+.. ..
T Consensus 144 ~~~~~~~~~~~~~~~~---~~~~~~~~~~~~----~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~-~~ 215 (333)
T cd06332 144 YAAGKDAVAGFKRTFK---GEVVEEVYTPLG----QLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKK-KI 215 (333)
T ss_pred cchhHHHHHHHHHhhc---EEEeeEEecCCC----CcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCccc-CC
Confidence 9999999999999987 456656666655 678999999999999999999888788999999999999743 34
Q ss_pred EEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC--CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHH
Q 003167 162 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALK 239 (843)
Q Consensus 162 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~ 239 (843)
.++.++.+.... .. .......+|++...++.+ +++..++|.++|+++++ ..++.++..+||++++++.|++
T Consensus 216 ~~~~~~~~~~~~-~~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~yda~~~~~~a~~ 288 (333)
T cd06332 216 PLYGPGFLTDQD-TL----PAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAYG--RVPSVYAAQGYDAAQLLDAALR 288 (333)
T ss_pred ceeccCCCCCHH-HH----HhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHHHHHHHHH
Confidence 566655443221 10 123456788887777655 35788999999999986 3467789999999999999999
Q ss_pred HHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCC
Q 003167 240 LFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHP 305 (843)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~ 305 (843)
+++.. ..+++.|.++|++++|+|++|++.||++|+....
T Consensus 289 ~ag~~---------------------------~~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~~~ 327 (333)
T cd06332 289 AVGGD---------------------------LSDKDALRAALRAADFDSPRGPFKFNPNHNPIQD 327 (333)
T ss_pred HhcCC---------------------------CCCHHHHHHHHhcCceecCccceeECCCCCcccc
Confidence 97321 0136789999999999999999999999985433
No 68
>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=99.92 E-value=6.8e-24 Score=231.60 Aligned_cols=273 Identities=21% Similarity=0.310 Sum_probs=223.5
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHH-HHcCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll-~~~~w~~v~ii~~ 80 (843)
+++|.+||||.+|..+.++++.++..++|+|++++.++ ....+|+||+.|++..++.++++++ ++++.+++++|+.
T Consensus 67 ~~~v~~vvg~~~s~~~~~~~~~~~~~~ip~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~ 143 (343)
T PF13458_consen 67 DDGVDAVVGPLSSAQAEAVAPIAEEAGIPYISPSASSP---SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYP 143 (343)
T ss_dssp TSTESEEEESSSHHHHHHHHHHHHHHT-EEEESSGGGG---TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEE
T ss_pred hcCcEEEEecCCcHHHHHHHHHHHhcCcEEEEeeccCC---CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEec
Confidence 37899999999999999999999999999999664442 2567999999999999999999985 5589999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
+++||+...+.+.+.+++.|++++....++.+ ..|+.++++++++.++|+|++.+...++..+++++.+.|+....
T Consensus 144 ~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (343)
T PF13458_consen 144 DDPYGRSLAEAFRKALEAAGGKVVGEIRYPPG----DTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKPPR 219 (343)
T ss_dssp SSHHHHHHHHHHHHHHHHTTCEEEEEEEE-TT----SSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCSCT
T ss_pred CchhhhHHHHHHHHHHhhcCceeccceecccc----cccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhcccccc
Confidence 99999999999999999999999888888877 78999999999999999999999999999999999999975432
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC--CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARAL 238 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al 238 (843)
+....+......+. .......+|++....+.+ +.|..++|.++|+++++....++.++..+||++.++++|+
T Consensus 220 ~~~~~~~~~~~~l~------~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~al 293 (343)
T PF13458_consen 220 IPLFGTSLDDASLQ------QLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEEPPPSLYAAQGYDAARLLAQAL 293 (343)
T ss_dssp EEEEEGGGSSHHHH------HHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSSTGGTCHHHHHHHHHHHHHHHHH
T ss_pred ceeeccccCcHHHH------HhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCCCCCchhHHHHHHHHHHHHHHH
Confidence 33333322221111 122346888888887665 4688999999999999754357889999999999999999
Q ss_pred HHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEeeecC
Q 003167 239 KLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHG 316 (843)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~~~~ 316 (843)
++++. . +++.+.++|++++|+|+.|++.|++.+......+.|++++.+|
T Consensus 294 ~~~g~----------------------------~-~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~~~G 342 (343)
T PF13458_consen 294 ERAGS----------------------------L-DREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVKSDG 342 (343)
T ss_dssp HHHTS----------------------------H-HHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEETTT
T ss_pred HHhCC----------------------------C-CHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEecCC
Confidence 99721 1 4899999999999999999999976555578888999987443
No 69
>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=99.92 E-value=9.6e-24 Score=228.84 Aligned_cols=254 Identities=14% Similarity=0.113 Sum_probs=206.4
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHH-HHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll-~~~~w~~v~ii~~d 81 (843)
++|.+||||.+|.++.++.++++ .+||+|++++.+.. ...||+||+.+++..++.++++++ +..+|++|++++.|
T Consensus 66 ~~v~aviG~~~s~~a~a~~~~~~-~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~ 141 (333)
T cd06358 66 GGVDAIIGWHTSAVRNAVAPVVA-GRVPYVYTSLYEGG---ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGND 141 (333)
T ss_pred CCCcEEEecCcHHHHHHHHHHHh-cCceEEeCCCcCCC---CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEecc
Confidence 58999999999999999999999 99999997554322 245899999999998888777765 55799999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
++||+...+.+++.+++.|++|+....++.+ ..|+++++.++++.+||+|++.+...+...+++++++.|+..+
T Consensus 142 ~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~-- 215 (333)
T cd06358 142 YVWPRGSLAAAKRYIAELGGEVVGEEYVPLG----TTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRDR-- 215 (333)
T ss_pred chhhHHHHHHHHHHHHHcCCEEeeeeeecCC----hHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCcc--
Confidence 9999999999999999999999998888877 8999999999999999999999988888899999999998652
Q ss_pred EEEEe-CcccccccCCCCCChhhhhhccccEEEEEeC--CCchhhHHHHHHHhhhcCCC-CCCCcchhhHhhHHHHHHHH
Q 003167 162 VWIAT-TWLSTFIDSKSPLSLKTAKSILGALTLRQHT--PDSKRRRDFVSRWNTLSNGS-IGLNPYGLYAYDTVWMIARA 237 (843)
Q Consensus 162 ~~i~~-~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~YDAv~~la~A 237 (843)
++.. ..+.... .. .......+|++....+. ...+..++|.++|+++|+.. ..++.++..+||+++++++|
T Consensus 216 -~~~~~~~~~~~~-~~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~~~~~~~~~~~yda~~~~~~A 289 (333)
T cd06358 216 -ILRLSPLMDENM-LL----ASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDDAPPLNSLSESCYEAVHALAAA 289 (333)
T ss_pred -CceeecccCHHH-HH----hcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHH
Confidence 2322 1111110 00 01123467877765543 35688999999999999743 24677888999999999999
Q ss_pred HHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCC
Q 003167 238 LKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRS 301 (843)
Q Consensus 238 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~ 301 (843)
+++++.. ++++|.++|++++|+|++|++.|++++.
T Consensus 290 ~~~ag~~-----------------------------~~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 290 AERAGSL-----------------------------DPEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred HHHhCCC-----------------------------CHHHHHHHhccCeeeCCCcceEEccccc
Confidence 9985321 3789999999999999999999998864
No 70
>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=99.92 E-value=1.2e-23 Score=227.69 Aligned_cols=258 Identities=10% Similarity=0.076 Sum_probs=205.8
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
+++|.+|||+.+|+++.++.+++++.++|+|+..+... ....||+||+.+++..++.++++++...+-+++++|+.|
T Consensus 65 ~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d 141 (334)
T cd06356 65 QDKVDVVWGGISSASREAIRPIMDRTKQLYFYTTQYEG---GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAAD 141 (334)
T ss_pred hCCCCEEEeCcchHHHHHHHHHHHhcCceEEeCCCccC---CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCC
Confidence 36899999999999999999999999999998543322 123489999999999999999998876545889999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
++||++..+.+.+.+++.|++++....++.+ ..||++++++|++.+||+|++.....+...+++++++.|+ .. .
T Consensus 142 ~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~-~~-~ 215 (334)
T cd06356 142 YNFGQISAEWVRKIVEENGGEVVGEEFIPLD----VSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGL-GN-I 215 (334)
T ss_pred chhhHHHHHHHHHHHHHcCCEEEeeeecCCC----chhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCC-cc-C
Confidence 9999999999999999999999999888877 8899999999999999999999888888899999999998 21 1
Q ss_pred EEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC--CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHH
Q 003167 162 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALK 239 (843)
Q Consensus 162 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~ 239 (843)
..+............ .......+|++....+.+ ..|..++|.++|+++|+..+.++.+++.+||+++++++|++
T Consensus 216 ~~~~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~y~a~~~~~~A~~ 291 (334)
T cd06356 216 PMASSTLGAQGYEHK----RLKPPALKDMYATANYIEELDTPANKAFVERFRAKFPDAPYINEEAENNYEAIYLYKEAVE 291 (334)
T ss_pred ceeeeecccchhHHh----ccCchhcCCeEEecchhhhcCCHHHHHHHHHHHHHcCCCCCCCchhHHHHHHHHHHHHHHH
Confidence 222221111111000 011245677777665543 35778999999999996433346788999999999999999
Q ss_pred HHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHh-cccCCcceeeEeccCCC
Q 003167 240 LFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQ-TNMTGLSGPIHFNQDRS 301 (843)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~f~G~tG~v~fd~~G~ 301 (843)
++++. +++.|.++|++ ..|+|+.|++.|+..++
T Consensus 292 ~ag~~-----------------------------~~~~v~~aL~~~~~~~~~~g~~~~~~~~h 325 (334)
T cd06356 292 KAGTT-----------------------------DRDAVIEALESGLVCDGPEGKVCIDGKTH 325 (334)
T ss_pred HHCCC-----------------------------CHHHHHHHHHhCCceeCCCceEEEecCCC
Confidence 97421 37899999997 57899999999997443
No 71
>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=99.92 E-value=1.6e-23 Score=228.29 Aligned_cols=255 Identities=16% Similarity=0.198 Sum_probs=204.9
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC--CCCCceEEcCCChHHhHHHHHHHH-HHcCCcEEEEEE
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIF 79 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~--~~~p~~fR~~p~d~~~~~ai~~ll-~~~~w~~v~ii~ 79 (843)
++|.+|+||.+|+.+.++++++++.+||+|++.++++.+++ ..++|+||+.+++..++.++++++ ++.+|++|+++|
T Consensus 66 ~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~v~ii~ 145 (347)
T cd06335 66 EKVVAVLGGLHTPVALANLEFIQQNKIPLIGPWAAGTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKKVALLL 145 (347)
T ss_pred CCeEEEEcCCCCHHHHhhhHHHHhcCCcEEecCCCCcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 48999999999999999999999999999998888877765 346899999999999999999986 456699999999
Q ss_pred ecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCccc
Q 003167 80 NDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDS 159 (843)
Q Consensus 80 ~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~ 159 (843)
.|++||+...+.+++.+++.|++++....++.+ ..|+++.+.+|++.+||+|++.+...+...+++++++.|+..
T Consensus 146 ~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~----~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~- 220 (347)
T cd06335 146 DNTGWGRSNRKDLTAALAARGLKPVAVEWFNWG----DKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKV- 220 (347)
T ss_pred ccCchhhhHHHHHHHHHHHcCCeeEEEeeecCC----CccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCC-
Confidence 999999999999999999999999998888877 789999999999999999999999999999999999999743
Q ss_pred ceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeC---CCchhhHHHHHHHhhhcCCCC----CCCcchhhHhhHHH
Q 003167 160 GYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHT---PDSKRRRDFVSRWNTLSNGSI----GLNPYGLYAYDTVW 232 (843)
Q Consensus 160 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~----~~~~~~~~~YDAv~ 232 (843)
.+...+.....+.. ....+...|++....+. +..+..++|.++|+++++... .++.+++.+||+++
T Consensus 221 ---~~~~~~~~~~~~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aYd~~~ 293 (347)
T cd06335 221 ---PIISHWGLSGGNFI----EGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPADIPAPVGAAHAYDAVH 293 (347)
T ss_pred ---cEecccCCcCchhh----hccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCcccccCcchhHHHHHHHHH
Confidence 22222111111111 11234467777665432 356889999999999996432 34556788999999
Q ss_pred HHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhc--ccCCcceee--Eecc
Q 003167 233 MIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQT--NMTGLSGPI--HFNQ 298 (843)
Q Consensus 233 ~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~--~f~G~tG~v--~fd~ 298 (843)
++++|+++++.. .++.+.++|+++ .+.|+.|.+ .|++
T Consensus 294 ~l~~A~~~ag~~-----------------------------~~~~v~~al~~~~~~~~G~~~~~~~~~~~ 334 (347)
T cd06335 294 LLAAAIKQAGST-----------------------------DGRAIKRALENLKKPVEGLVKTYDKPFSK 334 (347)
T ss_pred HHHHHHHHhcCC-----------------------------CHHHHHHHHHhccCCceeeecccCCCCCh
Confidence 999999997322 256889999876 467877754 5654
No 72
>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=99.92 E-value=9e-24 Score=230.90 Aligned_cols=268 Identities=11% Similarity=0.066 Sum_probs=206.4
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCC--C-----CCCCCceEEcCCChHHhHHHHHHHHHHcC-CcE
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTL--S-----PLQYPFFVQTAPNDLYLMSAIAEMVSYFG-WGE 74 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~l--s-----~~~~p~~fR~~p~d~~~~~ai~~ll~~~~-w~~ 74 (843)
++|.+|||+.+|+++.++++++++.+||+|++.+..+.. + ...+||+||+.+++..++.+++.+++..+ +++
T Consensus 68 d~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~ 147 (357)
T cd06337 68 DKVDLLLAGGTPDTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKK 147 (357)
T ss_pred cCccEEEecCCcchhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCce
Confidence 589999999999999999999999999999875533221 1 23478999999999888888888888877 999
Q ss_pred EEEEEecCCCCcchHHHHH---HHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHH
Q 003167 75 VIAIFNDDDQGRNGVTALG---DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVA 151 (843)
Q Consensus 75 v~ii~~d~~~g~~~~~~l~---~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a 151 (843)
|++++.|++||+...+.+. +.+++.|++|+..+.++++ ++||++++++|++++||+|++.+...++..+++++
T Consensus 148 v~ii~~~~~~g~~~~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~ 223 (357)
T cd06337 148 VGILYPNDPDGNAFADPVIGLPAALADAGYKLVDPGRFEPG----TDDFSSQINAFKREGVDIVTGFAIPPDFATFWRQA 223 (357)
T ss_pred EEEEeecCchhHHHHHhhhcccHHHHhCCcEEecccccCCC----CCcHHHHHHHHHhcCCCEEEeCCCccHHHHHHHHH
Confidence 9999999999998877655 5777899999999888887 88999999999999999999999999999999999
Q ss_pred HHcCCcccceEEEE-eCcccccccCCCCCChhhhhhccccEEEEEeCCC--------chhhHHHHHHHhhhcCCCCCCCc
Q 003167 152 QRLGMMDSGYVWIA-TTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPD--------SKRRRDFVSRWNTLSNGSIGLNP 222 (843)
Q Consensus 152 ~~~g~~~~~~~~i~-~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--------~~~~~~f~~~~~~~~~~~~~~~~ 222 (843)
+++|+..+ ++. ..+... .... ....+..+|++....+.+. ++..++|.++|+++|+. .+..
T Consensus 224 ~~~G~~~~---~~~~~~~~~~-~~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g~--~~~~ 293 (357)
T cd06337 224 AQAGFKPK---IVTIAKALLF-PEDV----EALGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATGR--QWTQ 293 (357)
T ss_pred HHCCCCCC---eEEEeccccC-HHHH----HHhhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHhCC--CccC
Confidence 99997542 233 222211 1111 1122334676655443332 24578999999999863 3455
Q ss_pred chhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCc
Q 003167 223 YGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSL 302 (843)
Q Consensus 223 ~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~ 302 (843)
...++||+++++++|++++++. .+++.|.++|++++++++.|++.||++ .
T Consensus 294 ~~~~~~~~~~~l~~Ai~~Ags~----------------------------~d~~~v~~aL~~~~~~~~~G~~~f~~~--~ 343 (357)
T cd06337 294 PLGYAHALFEVGVKALVRADDP----------------------------DDPAAVADAIATLKLDTVVGPVDFGNS--P 343 (357)
T ss_pred cchHHHHHHHHHHHHHHHcCCC----------------------------CCHHHHHHHHHcCCcccceeeeecCCC--C
Confidence 6678999999999999997432 137899999999999999999999865 2
Q ss_pred cCCcEEEEEeeec
Q 003167 303 LHPSYDIINVIEH 315 (843)
Q Consensus 303 ~~~~~~I~~~~~~ 315 (843)
..+..|+.+.|+
T Consensus 344 -~~~~~~~~~~~~ 355 (357)
T cd06337 344 -IKNVAKTPLVGG 355 (357)
T ss_pred -CccccccccccC
Confidence 234556555553
No 73
>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=99.91 E-value=4.1e-23 Score=224.31 Aligned_cols=267 Identities=14% Similarity=0.202 Sum_probs=210.3
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcC-----CcEEE
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFG-----WGEVI 76 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~-----w~~v~ 76 (843)
++|.+|+ +.+|+.+.++++++++++||+|+++++++.+++ ..+||+||+.|++..++.++++++...+ .++|+
T Consensus 66 ~~V~~i~-~~~S~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kva 144 (351)
T cd06334 66 DGAVAFQ-GWSTGITEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIA 144 (351)
T ss_pred CCcEEEe-cCcHHHHHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEE
Confidence 4788765 678999999999999999999999887777774 6789999999999999999999987654 79999
Q ss_pred EEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 77 AIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 77 ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
+|+.|++||+...+.+++.+++.|++|+..+.++.+ ++|+++++.+|++.+||+|++.+...++..++++++++|+
T Consensus 145 iv~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~ 220 (351)
T cd06334 145 LVYHDSPFGKEPIEALKALAEKLGFEVVLEPVPPPG----PNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGL 220 (351)
T ss_pred EEeCCCccchhhHHHHHHHHHHcCCeeeeeccCCCC----cccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCC
Confidence 999999999999999999999999999998888877 7899999999999999999999999999999999999998
Q ss_pred cccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC--CchhhHHHHHHHhhhcCCCC----CCCcchhhHhhH
Q 003167 157 MDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSI----GLNPYGLYAYDT 230 (843)
Q Consensus 157 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~----~~~~~~~~~YDA 230 (843)
.. .++.+++.... ... .......+|+++..++.+ ++|..++|.+.|+++++... .++.++..+||+
T Consensus 221 ~~---~~~~~~~~~~~-~~~----~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~~~~~~~~~~~~gy~a 292 (351)
T cd06334 221 DD---KFIGNWWSGDE-EDV----KPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGNDKEIGSVYYNRGVVN 292 (351)
T ss_pred Cc---eEEEeeccCcH-HHH----HHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCCcccccccHHHHHHHH
Confidence 42 35544332211 111 223356788887766544 56889999999999986322 346789999999
Q ss_pred HHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEecc
Q 003167 231 VWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQ 298 (843)
Q Consensus 231 v~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~ 298 (843)
++++++||+++++.......... ....+-+..++.+++....|+.|+++|..
T Consensus 293 ~~~l~~Al~~ag~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 344 (351)
T cd06334 293 AMIMVEAIRRAQEKGGETTIAGE----------------EQLENLKLDAARLEELGAEGLGPPVSVSC 344 (351)
T ss_pred HHHHHHHHHHHHHhcCCCCCcHH----------------HHHHhhhhhhhhhhhcCcccccCCceecc
Confidence 99999999999876432110000 00000123456677778889999999965
No 74
>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=99.90 E-value=4e-23 Score=223.53 Aligned_cols=248 Identities=14% Similarity=0.109 Sum_probs=195.3
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
+++|.+||||.+|+.+.++++++.+.+||+|+++++.+ +.. .|++||+.+++..++.++++++...|++++++++.+
T Consensus 57 ~~~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~-~~~--~~~~f~~~~~~~~~~~~~~~~~~~~g~k~vaii~~~ 133 (336)
T cd06339 57 AEGADIIVGPLLKENVAALAAAAAELGVPVLALNNDES-VAA--GPNLFYFGLSPEDEARRAAEYARSQGKRRPLVLAPD 133 (336)
T ss_pred HcCCCEEEccCCHHHHHHHHhhhccCCCCEEEccCCcc-ccC--CCCEEEecCChHHHHHHHHHHHHhcCccceEEEecC
Confidence 35899999999999999999999999999999765543 332 589999999999999999999988899999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC---------------------CCeEEEEEcC
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM---------------------EARVIVVHGY 140 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~---------------------~~~viv~~~~ 140 (843)
++||+...+.|.+.+++.|++|+..+.++.+ ..|+++++++|++. ++|+|++.+.
T Consensus 134 ~~~g~~~~~~f~~~~~~~G~~vv~~~~~~~~----~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~~~ 209 (336)
T cd06339 134 GAYGQRVADAFRQAWQQLGGTVVAIESYDPS----PTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDAVAL 209 (336)
T ss_pred ChHHHHHHHHHHHHHHHcCCceeeeEecCCC----HHHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEEEec
Confidence 9999999999999999999999999888877 89999999999998 9999999888
Q ss_pred hh-hHHHHHHHHHHcCCcccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCCCC
Q 003167 141 SR-TGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIG 219 (843)
Q Consensus 141 ~~-~~~~i~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~ 219 (843)
+. ++..+.++++..+....+-.+++++++.... .. ....+..+|++...+.. +...+|.++|+++|+ ..
T Consensus 210 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~----~~~g~~~~g~~~~~~~~---~~~~~f~~~y~~~~~--~~ 279 (336)
T cd06339 210 PDGEARLIKPQLLFYYGVPGDVPLYGTSRWYSGT-PA----PLRDPDLNGAWFADPPW---LLDANFELRYRAAYG--WP 279 (336)
T ss_pred ChhhhhhhcchhhhhccCcCCCCEEEeccccCCC-CC----cccCcccCCcEEeCCCc---ccCcchhhhHHHHhc--CC
Confidence 86 6666777776654311233567776655331 11 12234567776554421 223489999999986 34
Q ss_pred C-CcchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHh-cccCCcceeeEec
Q 003167 220 L-NPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQ-TNMTGLSGPIHFN 297 (843)
Q Consensus 220 ~-~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~f~G~tG~v~fd 297 (843)
| +.+++.+|||+.+++.++++...+ . +|.+ ..|+|++|+++||
T Consensus 280 p~~~~~a~~YDa~~l~~~~~~~~~~~------------------------------~-----al~~~~~~~g~~G~~~f~ 324 (336)
T cd06339 280 PLSRLAALGYDAYALAAALAQLGQGD------------------------------A-----ALTPGAGFSGVTGVLRLD 324 (336)
T ss_pred CCchHHHHHHhHHHHHHHHHHccccc------------------------------c-----ccCCCCccccCcceEEEC
Confidence 5 789999999999999887764111 1 3333 3699999999999
Q ss_pred cCCC
Q 003167 298 QDRS 301 (843)
Q Consensus 298 ~~G~ 301 (843)
++|+
T Consensus 325 ~~g~ 328 (336)
T cd06339 325 PDGV 328 (336)
T ss_pred CCCe
Confidence 9997
No 75
>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=99.90 E-value=7.7e-23 Score=219.80 Aligned_cols=252 Identities=15% Similarity=0.110 Sum_probs=190.3
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
+++|.+|+|+.+|++++|+++++++.++|+|+++++++.++. ..+||+||+.|++..++.++++++...+.+++++|+.
T Consensus 57 ~~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i~~~a~~~~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkvaii~~ 136 (347)
T TIGR03863 57 AQGVRFFVLDLPAAALLALADAAKAKGALLFNAGAPDDALRGADCRANLLHTLPSRAMLADALAQYLAAKRWRRILLIQG 136 (347)
T ss_pred HCCCCEEEecCChHHHHHHHHHHHhCCcEEEeCCCCChHHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEEEEEeC
Confidence 468999999999999999999999999999999999999987 4679999999999999999999987779999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
|++||+...+.+++.+++.|++|+..+.++.+.+...+|++.....++.++||+|++.....+....+.... +. .
T Consensus 137 ~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~~--~~---~ 211 (347)
T TIGR03863 137 PLPADALYADAFRRSAKRFGAKIVAERPFTFSGDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYAT--WL---P 211 (347)
T ss_pred CCcccHHHHHHHHHHHHHCCCEEEEeEEeccCCchhhhhcccCceeecCCCCCEEEEecchhhHhhhccccc--cc---c
Confidence 999999999999999999999999998887652122345553333344589999999766544322111100 00 0
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEE-eCCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQ-HTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALK 239 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al~ 239 (843)
...+ ...|+..... +..+.+..++|.++|+++|+ ..|+.+++.+||++++++.|++
T Consensus 212 ~~~~---------------------g~~G~~~~~~~~~~~~~~~~~f~~~f~~~~g--~~p~~~~a~aY~av~~~a~Ai~ 268 (347)
T TIGR03863 212 RPVA---------------------GSAGLVPTAWHRAWERWGATQLQSRFEKLAG--RPMTELDYAAWLAVRAVGEAVT 268 (347)
T ss_pred cccc---------------------cccCccccccCCcccchhHHHHHHHHHHHhC--CCCChHHHHHHHHHHHHHHHHH
Confidence 0001 1112221111 12234678999999999996 3456778899999999999999
Q ss_pred HHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhccc--CCcce-eeEecc-CCCccCCcEEEEE
Q 003167 240 LFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNM--TGLSG-PIHFNQ-DRSLLHPSYDIIN 311 (843)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f--~G~tG-~v~fd~-~G~~~~~~~~I~~ 311 (843)
++++. ++++|.++|++.++ .+..| +++|++ +|+.. -...+.+
T Consensus 269 ~AGs~-----------------------------d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq~~-~~~~~~~ 314 (347)
T TIGR03863 269 RTRSA-----------------------------DPATLRDYLLSDEFELAGFKGRPLSFRPWDGQLR-QPVLLVH 314 (347)
T ss_pred HhcCC-----------------------------CHHHHHHHHcCCCceecccCCCcceeeCCCcccc-cceEecc
Confidence 98543 48999999999877 47887 699986 77754 3334443
No 76
>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=99.90 E-value=2.4e-22 Score=214.50 Aligned_cols=165 Identities=33% Similarity=0.569 Sum_probs=155.7
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
++|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..+|++||+.|++..++.++++++++++|++|+++|+|
T Consensus 70 ~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~ 149 (298)
T cd06269 70 RGVVAVIGPSSSSSAEAVASLLGALHIPQISYSATSPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSD 149 (298)
T ss_pred CceEEEECCCCchHHHHHHHHhccCCCcEEecccCchhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEec
Confidence 68999999999999999999999999999999999999887 67899999999999999999999999999999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
+++|....+.+++.+++.|+|+.....++.. ..++...++++++.++++|++++...++..++++|.+.||+ .++
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~----~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~ 224 (298)
T cd06269 150 DDYGRRLLELLEEELEKNGICVAFVESIPDG----SEDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMM-TGY 224 (298)
T ss_pred chhhHHHHHHHHHHHHHCCeeEEEEEEcCCC----HHHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCC-CCe
Confidence 9999999999999999999999999888776 68999999999999999999999999999999999999998 889
Q ss_pred EEEEeCccccc
Q 003167 162 VWIATTWLSTF 172 (843)
Q Consensus 162 ~~i~~~~~~~~ 172 (843)
+||.++.+...
T Consensus 225 ~~i~~~~~~~~ 235 (298)
T cd06269 225 HWIITDLWLTS 235 (298)
T ss_pred EEEEEChhhcc
Confidence 99999877543
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=99.89 E-value=2.8e-23 Score=225.52 Aligned_cols=301 Identities=19% Similarity=0.314 Sum_probs=235.3
Q ss_pred eEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecCC
Q 003167 5 TLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD 83 (843)
Q Consensus 5 V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~~ 83 (843)
-+.++|+ ||+++..++.-+..++.-+++|++++|.|++ ..||+|||+.||+..+......++++++|++|+.++++..
T Consensus 114 k~mll~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~ 192 (865)
T KOG1055|consen 114 KLMLLGG-CSSVTTLIAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEE 192 (865)
T ss_pred hheeccC-CCCcchHHHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehh
Confidence 3567788 9999999999999999999999999999998 7899999999999999999999999999999999999998
Q ss_pred CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccceEE
Q 003167 84 QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVW 163 (843)
Q Consensus 84 ~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~ 163 (843)
-.....+.+...+.+.|++++....+.. |....+.+++..++|+|+-.-+...++.++++++..+|.+..|+|
T Consensus 193 ~f~~~~~dl~~~~~~~~ieiv~~qsf~~-------dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w 265 (865)
T KOG1055|consen 193 VFSSTLNDLEARLKEAGIEIVFRQSFSS-------DPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVW 265 (865)
T ss_pred hhcchHHHHHHhhhccccEEEEeecccc-------CHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEE
Confidence 8888999999999999999998876543 456678999999999999999999999999999999999999999
Q ss_pred EEeCccccccc-----CCCCCChhhhhhccccEEEEEe--CCCc------hhhHHHHHHHhhhcC---CCCCCCcchhhH
Q 003167 164 IATTWLSTFID-----SKSPLSLKTAKSILGALTLRQH--TPDS------KRRRDFVSRWNTLSN---GSIGLNPYGLYA 227 (843)
Q Consensus 164 i~~~~~~~~~~-----~~~~~~~~~~~~~~g~~~~~~~--~~~~------~~~~~f~~~~~~~~~---~~~~~~~~~~~~ 227 (843)
+...+....+- ...+.-.++..+++|.+++... ++.. -....|...+.++.. ..........++
T Consensus 266 ~~~g~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~~~~~~~~~~~~a 345 (865)
T KOG1055|consen 266 FLIGWYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHPEETGGFQEAPLA 345 (865)
T ss_pred EEEEeeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhccccccccCcccCchH
Confidence 99876554432 1122334667788888777542 2221 123445544433322 123445678899
Q ss_pred hhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcE
Q 003167 228 YDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSY 307 (843)
Q Consensus 228 YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~ 307 (843)
|||+|++|+|++++......... ...++..... .-.++|++++.+++|.|++|.|.|.+ |+|. +.-
T Consensus 346 yd~Iwa~ala~n~t~e~l~~~~~-----------~l~~f~y~~k-~i~d~i~eamn~tsF~GvsG~V~F~~-geR~-a~t 411 (865)
T KOG1055|consen 346 YDAIWALALALNKTMEGLGRSHV-----------RLEDFNYNNK-TIADQIYEAMNSTSFEGVSGHVVFSN-GERM-ALT 411 (865)
T ss_pred HHHHHHHHHHHHHHHhcCCccce-----------eccccchhhh-HHHHHHHHHhhcccccccccceEecc-hhhH-HHH
Confidence 99999999999998765321100 0001111111 12678999999999999999999976 9864 666
Q ss_pred EEEEeeecCceeeeeeecCCC
Q 003167 308 DIINVIEHGYPQQIGYWSNYS 328 (843)
Q Consensus 308 ~I~~~~~~~~~~~VG~w~~~~ 328 (843)
.|-|++++.. +++|+|+...
T Consensus 412 ~ieQ~qdg~y-~k~g~Yds~~ 431 (865)
T KOG1055|consen 412 LIEQFQDGKY-KKIGYYDSTK 431 (865)
T ss_pred HHHHHhCCce-Eeeccccccc
Confidence 8888888887 9999998765
No 78
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=99.89 E-value=9e-22 Score=203.59 Aligned_cols=219 Identities=28% Similarity=0.455 Sum_probs=188.9
Q ss_pred CCCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEe
Q 003167 373 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 452 (843)
Q Consensus 373 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~ 452 (843)
+.++|+||+.. +|+||.+.+ ++.+.|+++|+++++++++|.+++++ + .+|.+++.++.+|++|++++
T Consensus 23 ~~~~l~v~~~~--~~~P~~~~~--~g~~~G~~vdl~~~ia~~lg~~~~~~--~-------~~~~~~~~~l~~G~vDi~~~ 89 (247)
T PRK09495 23 ADKKLVVATDT--AFVPFEFKQ--GDKYVGFDIDLWAAIAKELKLDYTLK--P-------MDFSGIIPALQTKNVDLALA 89 (247)
T ss_pred cCCeEEEEeCC--CCCCeeecC--CCceEEEeHHHHHHHHHHhCCceEEE--e-------CCHHHHHHHHhCCCcCEEEe
Confidence 35689999875 789998864 57899999999999999999765554 3 34999999999999999988
Q ss_pred ceeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCccc
Q 003167 453 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 532 (843)
Q Consensus 453 ~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~ 532 (843)
+++.+++|.+.++||.||+.+++.+++++..
T Consensus 90 ~~~~t~~R~~~~~fs~p~~~~~~~~~~~~~~------------------------------------------------- 120 (247)
T PRK09495 90 GITITDERKKAIDFSDGYYKSGLLVMVKANN------------------------------------------------- 120 (247)
T ss_pred cCccCHHHHhhccccchheecceEEEEECCC-------------------------------------------------
Confidence 7899999999999999999999999987655
Q ss_pred chhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCch
Q 003167 533 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSF 612 (843)
Q Consensus 533 ~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~ 612 (843)
.++++++||. |++||+..|+.
T Consensus 121 ---------------------------------------------------------~~~~~~~dL~--g~~I~v~~g~~ 141 (247)
T PRK09495 121 ---------------------------------------------------------NDIKSVKDLD--GKVVAVKSGTG 141 (247)
T ss_pred ---------------------------------------------------------CCCCChHHhC--CCEEEEecCch
Confidence 4689999995 88999999998
Q ss_pred HHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCC--CeEEeCCccccCcceeeecCCCCchH
Q 003167 613 AENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHC--QFSVRGQEFTKSGWGFAFPRDSPLAI 690 (843)
Q Consensus 613 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~~~~~~k~spl~~ 690 (843)
...++... .+..+++.+++.++++++|.+|++|+++.+...+.+++++.. ++..++.......++++++|++.+++
T Consensus 142 ~~~~l~~~--~~~~~i~~~~~~~~~~~~L~~grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~~ 219 (247)
T PRK09495 142 SVDYAKAN--IKTKDLRQFPNIDNAYLELGTGRADAVLHDTPNILYFIKTAGNGQFKAVGDSLEAQQYGIAFPKGSELRE 219 (247)
T ss_pred HHHHHHhc--CCCCceEEcCCHHHHHHHHHcCceeEEEeChHHHHHHHHhCCCCceEEecCcccccceEEEEcCcHHHHH
Confidence 88888543 244578889999999999999999999999988888877642 57777766667789999999999999
Q ss_pred HHHHHHHhhhccccHHHHHHhhcc
Q 003167 691 DMSTAILTLSENGELQRIHDKWLR 714 (843)
Q Consensus 691 ~in~~i~~l~e~G~~~~~~~kw~~ 714 (843)
.||++|.++.++|.++++.+||+.
T Consensus 220 ~~n~al~~~~~~g~~~~i~~k~~~ 243 (247)
T PRK09495 220 KVNGALKTLKENGTYAEIYKKWFG 243 (247)
T ss_pred HHHHHHHHHHHCCcHHHHHHHHcC
Confidence 999999999999999999999997
No 79
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=99.88 E-value=1.6e-21 Score=206.22 Aligned_cols=222 Identities=21% Similarity=0.272 Sum_probs=187.1
Q ss_pred CCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHH----HCCC-cccEEEEeCCCCCCCCChHHHHHHHHcCccc
Q 003167 374 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVR----LLPY-AVPYKFIPYGDGHKNPTYSELINQITTGVFD 448 (843)
Q Consensus 374 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~----~l~f-~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~D 448 (843)
.+.|+||+.. +|+||.+.++ ++.+.||++|++++|++ ++|. .+++++++ .+|..++..|..|++|
T Consensus 39 ~g~L~Vg~~~--~~pP~~f~~~-~g~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~-------~~~~~~i~~L~~G~~D 108 (302)
T PRK10797 39 NGVIVVGHRE--SSVPFSYYDN-QQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIP-------ITSQNRIPLLQNGTFD 108 (302)
T ss_pred CCeEEEEEcC--CCCCcceECC-CCCEeeecHHHHHHHHHHHHHhhCCCCceEEEEE-------cChHhHHHHHHCCCcc
Confidence 4679999986 7899998764 67899999997777665 6653 35677776 4588899999999999
Q ss_pred EEEeceeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCC
Q 003167 449 AAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGP 528 (843)
Q Consensus 449 i~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~ 528 (843)
++++++++|++|.+.++||.||+.++..+++++..
T Consensus 109 i~~~~~~~t~eR~~~~~fS~Py~~~~~~lv~r~~~--------------------------------------------- 143 (302)
T PRK10797 109 FECGSTTNNLERQKQAAFSDTIFVVGTRLLTKKGG--------------------------------------------- 143 (302)
T ss_pred EEecCCccCcchhhcceecccEeeccEEEEEECCC---------------------------------------------
Confidence 99989999999999999999999999999998754
Q ss_pred CcccchhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEE
Q 003167 529 PRKQIVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQ 608 (843)
Q Consensus 529 ~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~ 608 (843)
++++++||. |++||+.
T Consensus 144 --------------------------------------------------------------~i~sl~dL~--Gk~V~v~ 159 (302)
T PRK10797 144 --------------------------------------------------------------DIKDFADLK--GKAVVVT 159 (302)
T ss_pred --------------------------------------------------------------CCCChHHcC--CCEEEEe
Confidence 578999994 8999999
Q ss_pred eCchHHHHHHHhhC--CCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhc--C-CCeEEeCCccccCcceeeec
Q 003167 609 VGSFAENYLIEELS--IPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSD--H-CQFSVRGQEFTKSGWGFAFP 683 (843)
Q Consensus 609 ~~~~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~--~-~~l~~~~~~~~~~~~~~~~~ 683 (843)
.|+....++.+... ....+++.+++.++.+++|.+|++|+++.+...+.+.+.+ . ..+.++++++...+++++++
T Consensus 160 ~gs~~~~~l~~~~~~~~~~~~i~~~~~~~~~l~~L~~GrvDa~i~d~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~~a~~ 239 (302)
T PRK10797 160 SGTTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLESGRAVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQEAYGCMLR 239 (302)
T ss_pred CCCcHHHHHHHHhhhcCCceEEEEeCCHHHHHHHHHcCCceEEEccHHHHHHHHHcCCCCcceEECCccCCcCceeEEEe
Confidence 99998888753221 1235678899999999999999999999998777654433 2 25788888877888999999
Q ss_pred CCCC-chHHHHHHHHhhhccccHHHHHHhhcc
Q 003167 684 RDSP-LAIDMSTAILTLSENGELQRIHDKWLR 714 (843)
Q Consensus 684 k~sp-l~~~in~~i~~l~e~G~~~~~~~kw~~ 714 (843)
|+++ ++..+|++|.++.++|.+++|.+||+.
T Consensus 240 k~~~~L~~~in~~L~~l~~~G~l~~i~~kw~~ 271 (302)
T PRK10797 240 KDDPQFKKLMDDTIAQAQTSGEAEKWFDKWFK 271 (302)
T ss_pred CCCHHHHHHHHHHHHHHHhCchHHHHHHHHcC
Confidence 9988 999999999999999999999999998
No 80
>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=99.87 E-value=1.3e-20 Score=194.27 Aligned_cols=275 Identities=15% Similarity=0.200 Sum_probs=211.0
Q ss_pred CeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHH------HHcCCcEEEE
Q 003167 4 DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV------SYFGWGEVIA 77 (843)
Q Consensus 4 ~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll------~~~~w~~v~i 77 (843)
.-.+++||.|..++.+|+.+...+++|+||-||-. ++-...+++-|+.|+....+..+.++. ++++|++..
T Consensus 81 ~gcv~lGP~CtYat~~~~~~~~~~~~P~ISaGsfg--lscd~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay- 157 (380)
T cd06369 81 LGCVLLGPSCTYATFQMVDDEFNLSLPIISAGSFG--LSCDYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY- 157 (380)
T ss_pred cCcEEEcCccceehhhhhhhhhcCCCceEeccccc--cCCCchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-
Confidence 45689999999999999999999999999976643 333444689999999999999999999 489998655
Q ss_pred EEecCCCCcc---hHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHc
Q 003167 78 IFNDDDQGRN---GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRL 154 (843)
Q Consensus 78 i~~d~~~g~~---~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~ 154 (843)
||.+++-.++ .+.++....+..+..+.+.+... +..++..+|++++ .++||||+|+.+.+.+.++.+
T Consensus 158 vyk~~~~~edCf~~i~al~a~~~~f~~~~~~~~~l~-----~~~~~~~il~~~~-~~sRIiImCG~p~~ir~lm~~---- 227 (380)
T cd06369 158 VYKKQENTEDCFWYINALEAGVAYFSSALKFKELLR-----TEEELQKLLTDKN-RKSNVIIMCGTPEDIVNLKGD---- 227 (380)
T ss_pred EEcCCCCccceeeEhHhhhhhhhhhhhcccceeeec-----CchhHHHHHHHhc-cCccEEEEeCCHHHHHHHHhc----
Confidence 9987654433 36666666666666666554432 2578888888876 678999999999999998876
Q ss_pred CCcccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCchhhHHHHHHHhhhcCCCCCCC-cchhhHhhHHHH
Q 003167 155 GMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLN-PYGLYAYDTVWM 233 (843)
Q Consensus 155 g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~YDAv~~ 233 (843)
++...+|++|..+....... .+....++++.++.++...|+.+..+++ ..++ .... .+++..||||.+
T Consensus 228 ~~~~gDYVf~~IDlF~~sy~----~d~~a~~amqsVLvIT~~~p~~~~~~~~-----~~fn--~~l~~~~aa~fyDaVLL 296 (380)
T cd06369 228 RAVAEDIVIILIDLFNDVYY----ENTTSPPYMRNVLVLTLPPRNSTNNSSF-----TTDN--SLLKDDYVAAYHDGVLL 296 (380)
T ss_pred CccCCCEEEEEEecccchhc----cCcchHHHHhceEEEecCCCCCcccccC-----CCCC--cchHHHHHHHHHHHHHH
Confidence 44456899999986644332 1134567789999999888766655441 2222 2222 789999999999
Q ss_pred HHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEEee
Q 003167 234 IARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI 313 (843)
Q Consensus 234 la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~~~ 313 (843)
+|+||++....+++. .+.++.+.++|.+|+|++|.|++|+|||| ..+|.++-+.
T Consensus 297 Ya~AL~EtL~~G~~~-------------------------~~~~I~~~m~NrTF~GitG~V~IDeNGDR-d~dfsLl~ms 350 (380)
T cd06369 297 FGHVLKKFLESQEGV-------------------------QTFSFINEFRNISFEGAGGPYTLDEYGDR-DVNFTLLYTS 350 (380)
T ss_pred HHHHHHHHHHhCCCC-------------------------CcHHHHHHHhCcceecCCCceEeCCCCCc-cCceEEEEee
Confidence 999999998765431 14789999999999999999999999995 7999999875
Q ss_pred -ecCceeeeeeecCCC
Q 003167 314 -EHGYPQQIGYWSNYS 328 (843)
Q Consensus 314 -~~~~~~~VG~w~~~~ 328 (843)
+++.++.||.|+...
T Consensus 351 ~~tg~y~vV~~y~t~~ 366 (380)
T cd06369 351 TDTSKYKVLFEFDTST 366 (380)
T ss_pred CCCCCeEEEEEEECCC
Confidence 345559999998744
No 81
>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=99.86 E-value=2.7e-21 Score=197.23 Aligned_cols=221 Identities=28% Similarity=0.425 Sum_probs=185.5
Q ss_pred eEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceee
Q 003167 377 LRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAI 456 (843)
Q Consensus 377 lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i 456 (843)
||||+.. .++||.+.+. ++...|+++|+++++++++|+++++...+ |.+++.+|.+|++|+++++++.
T Consensus 1 l~V~~~~--~~~P~~~~~~-~~~~~G~~~dl~~~i~~~~g~~~~~~~~~---------~~~~~~~l~~g~~D~~~~~~~~ 68 (225)
T PF00497_consen 1 LRVGVDE--DYPPFSYIDE-DGEPSGIDVDLLRAIAKRLGIKIEFVPMP---------WSRLLEMLENGKADIIIGGLSI 68 (225)
T ss_dssp EEEEEES--EBTTTBEEET-TSEEESHHHHHHHHHHHHHTCEEEEEEEE---------GGGHHHHHHTTSSSEEESSEB-
T ss_pred CEEEEcC--CCCCeEEECC-CCCEEEEhHHHHHHHHhhcccccceeecc---------cccccccccccccccccccccc
Confidence 6899965 7899999885 88999999999999999999886666544 9999999999999999988999
Q ss_pred ecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccchhh
Q 003167 457 VTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIVTV 536 (843)
Q Consensus 457 ~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~ 536 (843)
+.+|.+.++||.||+....++++++.+..
T Consensus 69 ~~~r~~~~~~s~p~~~~~~~~~~~~~~~~--------------------------------------------------- 97 (225)
T PF00497_consen 69 TPERAKKFDFSDPYYSSPYVLVVRKGDAP--------------------------------------------------- 97 (225)
T ss_dssp BHHHHTTEEEESESEEEEEEEEEETTSTC---------------------------------------------------
T ss_pred cccccccccccccccchhheeeecccccc---------------------------------------------------
Confidence 99999999999999999999999975310
Q ss_pred HHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCchHHHH
Q 003167 537 LWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFAENY 616 (843)
Q Consensus 537 ~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~~~~~ 616 (843)
....+++++|| .+.+||+..|+...++
T Consensus 98 ---------------------------------------------------~~~~~~~~~dl--~~~~i~~~~g~~~~~~ 124 (225)
T PF00497_consen 98 ---------------------------------------------------PIKTIKSLDDL--KGKRIGVVRGSSYADY 124 (225)
T ss_dssp ---------------------------------------------------STSSHSSGGGG--TTSEEEEETTSHHHHH
T ss_pred ---------------------------------------------------ccccccchhhh--cCcccccccchhHHHH
Confidence 01467788899 4789999999988888
Q ss_pred HHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCC--eEEeCCccccCcceeeecCCCC-chHHHH
Q 003167 617 LIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQ--FSVRGQEFTKSGWGFAFPRDSP-LAIDMS 693 (843)
Q Consensus 617 l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~--l~~~~~~~~~~~~~~~~~k~sp-l~~~in 693 (843)
+.+... ...+++.+.+.++++++|.+|++|+++.+...+.+++++... ...........+++++++++.+ +.+.||
T Consensus 125 l~~~~~-~~~~~~~~~~~~~~~~~l~~g~~d~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n 203 (225)
T PF00497_consen 125 LKQQYP-SNINIVEVDSPEEALEALLSGRIDAFIVDESTAEYLLKRHPLENIVVIPPPISPSPVYFAVRKKNPELLEIFN 203 (225)
T ss_dssp HHHHTH-HTSEEEEESSHHHHHHHHHTTSSSEEEEEHHHHHHHHHHTTTCEEEEEEEEEEEEEEEEEEETTTHHHHHHHH
T ss_pred hhhhcc-chhhhcccccHHHHHHHHhcCCeeeeeccchhhhhhhhhcccccccccccccccceeEEeecccccHHHHHHH
Confidence 865331 145678899999999999999999999999999999888542 2222455566677888877655 999999
Q ss_pred HHHHhhhccccHHHHHHhhcc
Q 003167 694 TAILTLSENGELQRIHDKWLR 714 (843)
Q Consensus 694 ~~i~~l~e~G~~~~~~~kw~~ 714 (843)
++|.++.++|.++++.+||++
T Consensus 204 ~~i~~l~~~G~~~~i~~ky~g 224 (225)
T PF00497_consen 204 KAIRELKQSGEIQKILKKYLG 224 (225)
T ss_dssp HHHHHHHHTTHHHHHHHHHHS
T ss_pred HHHHHHHhCcHHHHHHHHHcC
Confidence 999999999999999999986
No 82
>PRK11260 cystine transporter subunit; Provisional
Probab=99.86 E-value=1.3e-20 Score=196.97 Aligned_cols=221 Identities=19% Similarity=0.366 Sum_probs=189.8
Q ss_pred CCCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEe
Q 003167 373 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 452 (843)
Q Consensus 373 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~ 452 (843)
..++|+||+.. .++||.+.+. ++.+.|+.+|+++.+++++|.++++.. .+|.+++.+|.+|++|++++
T Consensus 39 ~~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~e~~~---------~~~~~~~~~l~~G~~D~~~~ 106 (266)
T PRK11260 39 ERGTLLVGLEG--TYPPFSFQGE-DGKLTGFEVEFAEALAKHLGVKASLKP---------TKWDGMLASLDSKRIDVVIN 106 (266)
T ss_pred cCCeEEEEeCC--CcCCceEECC-CCCEEEehHHHHHHHHHHHCCeEEEEe---------CCHHHHHHHHhcCCCCEEEe
Confidence 45789999875 7889987764 788999999999999999997755544 34999999999999999998
Q ss_pred ceeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCccc
Q 003167 453 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 532 (843)
Q Consensus 453 ~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~ 532 (843)
+++.+.+|.+.+.||.||+..++.+++++...
T Consensus 107 ~~~~~~~r~~~~~fs~p~~~~~~~~~~~~~~~------------------------------------------------ 138 (266)
T PRK11260 107 QVTISDERKKKYDFSTPYTVSGIQALVKKGNE------------------------------------------------ 138 (266)
T ss_pred ccccCHHHHhccccCCceeecceEEEEEcCCc------------------------------------------------
Confidence 88999999999999999999999998876551
Q ss_pred chhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCch
Q 003167 533 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSF 612 (843)
Q Consensus 533 ~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~ 612 (843)
..+++++|| ++++||+..|+.
T Consensus 139 ---------------------------------------------------------~~~~~~~dL--~g~~Igv~~G~~ 159 (266)
T PRK11260 139 ---------------------------------------------------------GTIKTAADL--KGKKVGVGLGTN 159 (266)
T ss_pred ---------------------------------------------------------CCCCCHHHc--CCCEEEEecCCc
Confidence 367889999 488999999998
Q ss_pred HHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCC-eEEeCCccccCcceeeecCCCC-chH
Q 003167 613 AENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQ-FSVRGQEFTKSGWGFAFPRDSP-LAI 690 (843)
Q Consensus 613 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~~~~~~k~sp-l~~ 690 (843)
...++.+ +.+..++..+++..+++++|.+|++|+++.+...+.+++++... +.+....+...++++++++++| ++.
T Consensus 160 ~~~~l~~--~~~~~~i~~~~~~~~~l~~L~~GrvD~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~l~~ 237 (266)
T PRK11260 160 YEQWLRQ--NVQGVDVRTYDDDPTKYQDLRVGRIDAILVDRLAALDLVKKTNDTLAVAGEAFSRQESGVALRKGNPDLLK 237 (266)
T ss_pred HHHHHHH--hCCCCceEecCCHHHHHHHHHcCCCCEEEechHHHHHHHHhCCCcceecCCccccCceEEEEeCCCHHHHH
Confidence 8888854 33446778899999999999999999999999888888777553 5555666777889999999988 999
Q ss_pred HHHHHHHhhhccccHHHHHHhhcc
Q 003167 691 DMSTAILTLSENGELQRIHDKWLR 714 (843)
Q Consensus 691 ~in~~i~~l~e~G~~~~~~~kw~~ 714 (843)
.||++|.++.++|.++++.+||+.
T Consensus 238 ~ln~~l~~~~~~g~~~~i~~k~~~ 261 (266)
T PRK11260 238 AVNQAIAEMQKDGTLKALSEKWFG 261 (266)
T ss_pred HHHHHHHHHHhCCcHHHHHHHhcC
Confidence 999999999999999999999987
No 83
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=99.86 E-value=2.2e-20 Score=193.63 Aligned_cols=219 Identities=16% Similarity=0.276 Sum_probs=181.8
Q ss_pred CCCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHC-CCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEE
Q 003167 373 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLL-PYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAV 451 (843)
Q Consensus 373 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l-~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~ 451 (843)
..++|+||+.. +++||.+.+..++.+.||++|+++++++++ |..+++++.+ .+|.....+|.+|++|+++
T Consensus 36 ~~g~l~vg~~~--~~pP~~~~~~~~g~~~G~~vdl~~~ia~~llg~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~ 106 (259)
T PRK11917 36 SKGQLIVGVKN--DVPHYALLDQATGEIKGFEIDVAKLLAKSILGDDKKIKLVA-------VNAKTRGPLLDNGSVDAVI 106 (259)
T ss_pred hCCEEEEEECC--CCCCceeeeCCCCceeEeeHHHHHHHHHHhcCCCccEEEEE-------cChhhHHHHHHCCCccEEE
Confidence 45789999986 799998865446899999999999999994 7655666665 3477778999999999999
Q ss_pred eceeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcc
Q 003167 452 GDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRK 531 (843)
Q Consensus 452 ~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~ 531 (843)
+.+++|++|.+.++||.||+.++..+++++..
T Consensus 107 ~~~~~t~eR~~~~~fs~py~~~~~~lvv~~~~------------------------------------------------ 138 (259)
T PRK11917 107 ATFTITPERKRIYNFSEPYYQDAIGLLVLKEK------------------------------------------------ 138 (259)
T ss_pred ecccCChhhhheeeeccCceeeceEEEEECCC------------------------------------------------
Confidence 99999999999999999999999999998765
Q ss_pred cchhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCc
Q 003167 532 QIVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGS 611 (843)
Q Consensus 532 ~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~ 611 (843)
++++++||. |++||+..|+
T Consensus 139 -----------------------------------------------------------~~~s~~dL~--g~~V~v~~gs 157 (259)
T PRK11917 139 -----------------------------------------------------------NYKSLADMK--GANIGVAQAA 157 (259)
T ss_pred -----------------------------------------------------------CCCCHHHhC--CCeEEEecCC
Confidence 578999995 8999999999
Q ss_pred hHHHHHHHhhCC--CCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEeCCccccCcceeeecCCCC-c
Q 003167 612 FAENYLIEELSI--PKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQEFTKSGWGFAFPRDSP-L 688 (843)
Q Consensus 612 ~~~~~l~~~~~~--~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~sp-l 688 (843)
.....+.+.... ...+++.+++..+.+++|.+|++|+++.+...+.++..+ +..++++.+...+++++++|+++ +
T Consensus 158 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~GrvDa~~~d~~~~~~~~~~--~~~~~~~~~~~~~~~~a~~k~~~~l 235 (259)
T PRK11917 158 TTKKAIGEAAKKIGIDVKFSEFPDYPSIKAALDAKRVDAFSVDKSILLGYVDD--KSEILPDSFEPQSYGIVTKKDDPAF 235 (259)
T ss_pred cHHHHHHHhhHhcCCceeEEecCCHHHHHHHHHcCCCcEEEecHHHHHHhhhc--CCeecCCcCCCCceEEEEeCCCHHH
Confidence 877766432211 123567788999999999999999999998877665554 34566777777889999999988 9
Q ss_pred hHHHHHHHHhhhccccHHHHHHhhc
Q 003167 689 AIDMSTAILTLSENGELQRIHDKWL 713 (843)
Q Consensus 689 ~~~in~~i~~l~e~G~~~~~~~kw~ 713 (843)
+..+|+.|.++.. .+++|.+||-
T Consensus 236 ~~~ln~~l~~~~~--~~~~i~~kw~ 258 (259)
T PRK11917 236 AKYVDDFVKEHKN--EIDALAKKWG 258 (259)
T ss_pred HHHHHHHHHHHHH--HHHHHHHHhC
Confidence 9999999999864 7999999993
No 84
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=99.86 E-value=2.1e-20 Score=194.85 Aligned_cols=222 Identities=19% Similarity=0.293 Sum_probs=180.1
Q ss_pred CCCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEe
Q 003167 373 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 452 (843)
Q Consensus 373 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~ 452 (843)
..++|+|++.. +|+||.+.++ ++.+.|+++||++++++.+|.+++++. .+|+.++.++..|++|++++
T Consensus 24 ~~~~l~v~~~~--~~pPf~~~~~-~g~~~G~~vdl~~~ia~~lg~~~~~~~---------~~~~~~~~~l~~g~~Di~~~ 91 (260)
T PRK15010 24 LPETVRIGTDT--TYAPFSSKDA-KGDFVGFDIDLGNEMCKRMQVKCTWVA---------SDFDALIPSLKAKKIDAIIS 91 (260)
T ss_pred cCCeEEEEecC--CcCCceeECC-CCCEEeeeHHHHHHHHHHhCCceEEEe---------CCHHHHHHHHHCCCCCEEEe
Confidence 45789999874 6899999764 689999999999999999997755543 34999999999999999998
Q ss_pred ceeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCccc
Q 003167 453 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 532 (843)
Q Consensus 453 ~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~ 532 (843)
.+..+++|.+.++||.||+.++.++++++..
T Consensus 92 ~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~------------------------------------------------- 122 (260)
T PRK15010 92 SLSITDKRQQEIAFSDKLYAADSRLIAAKGS------------------------------------------------- 122 (260)
T ss_pred cCcCCHHHHhhcccccceEeccEEEEEECCC-------------------------------------------------
Confidence 8999999999999999999999999988765
Q ss_pred chhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCch
Q 003167 533 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSF 612 (843)
Q Consensus 533 ~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~ 612 (843)
+...+++|| .|++||+..|+.
T Consensus 123 ---------------------------------------------------------~~~~~~~dl--~g~~Igv~~gs~ 143 (260)
T PRK15010 123 ---------------------------------------------------------PIQPTLDSL--KGKHVGVLQGST 143 (260)
T ss_pred ---------------------------------------------------------CCCCChhHc--CCCEEEEecCch
Confidence 122368899 488999999998
Q ss_pred HHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHH-HHhcC--CCeEEeCCcc-----ccCcceeeecC
Q 003167 613 AENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDL-FLSDH--CQFSVRGQEF-----TKSGWGFAFPR 684 (843)
Q Consensus 613 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~-~~~~~--~~l~~~~~~~-----~~~~~~~~~~k 684 (843)
...++.........+++.+++.++++++|.+|++|+++.+...+.+ +..+. .++...+..+ ...++++++++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~griDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~ 223 (260)
T PRK15010 144 QEAYANETWRSKGVDVVAYANQDLVYSDLAAGRLDAALQDEVAASEGFLKQPAGKDFAFAGPSVKDKKYFGDGTGVGLRK 223 (260)
T ss_pred HHHHHHHhcccCCceEEecCCHHHHHHHHHcCCccEEEeCcHHHHHHHHhCCCCCceEEecCccccccccCCceEEEEeC
Confidence 8777754333233457778899999999999999999999877654 33432 2355544322 22346789999
Q ss_pred CCC-chHHHHHHHHhhhccccHHHHHHhhcc
Q 003167 685 DSP-LAIDMSTAILTLSENGELQRIHDKWLR 714 (843)
Q Consensus 685 ~sp-l~~~in~~i~~l~e~G~~~~~~~kw~~ 714 (843)
+.+ |+..||++|.++.++|.+++|.+||++
T Consensus 224 ~~~~L~~~ln~~l~~l~~~G~~~~i~~ky~~ 254 (260)
T PRK15010 224 DDAELTAAFNKALGELRQDGTYDKMAKKYFD 254 (260)
T ss_pred CCHHHHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 876 999999999999999999999999987
No 85
>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=99.86 E-value=3.3e-20 Score=201.85 Aligned_cols=255 Identities=13% Similarity=0.126 Sum_probs=202.5
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
++|.+|||+.+|..+.++.+++.+.++|+|+++++++.++....|++||+.+++..++..+++++.+.||+++++++.++
T Consensus 67 ~~v~avig~~~s~~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~ 146 (336)
T cd06326 67 DKVFALFGYVGTPTTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDD 146 (336)
T ss_pred cCcEEEEeCCCchhHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecC
Confidence 48999999999988888899999999999998777666654456899999999999999999999999999999999999
Q ss_pred CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccceE
Q 003167 83 DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 162 (843)
Q Consensus 83 ~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~ 162 (843)
.+|+...+.+++.+++.|++++....++.+ ..|+.+++.++++.++|+|++......+..+++++++.|+.. .
T Consensus 147 ~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~----~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~-~-- 219 (336)
T cd06326 147 AFGKDGLAGVEKALAARGLKPVATASYERN----TADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGA-Q-- 219 (336)
T ss_pred cchHHHHHHHHHHHHHcCCCeEEEEeecCC----cccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCC-c--
Confidence 999999999999999999998877777765 678999999999999999999998888999999999999843 1
Q ss_pred EEEeCcccccccCCCCCChhhhhhccccEEEEE----eCCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHHHH
Q 003167 163 WIATTWLSTFIDSKSPLSLKTAKSILGALTLRQ----HTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARAL 238 (843)
Q Consensus 163 ~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~----~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~Al 238 (843)
++......... .. .......+|++.... .....|..++|.+.|+++++. .+++.++..+||+++++++|+
T Consensus 220 ~~~~~~~~~~~-~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~y~~~~~~~~a~ 293 (336)
T cd06326 220 FYNLSFVGADA-LA----RLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPG-APPSYVSLEGYIAAKVLVEAL 293 (336)
T ss_pred EEEEeccCHHH-HH----HHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCCC-CCCCeeeehhHHHHHHHHHHH
Confidence 22222221110 10 122345677764322 223467889999999988752 356778899999999999999
Q ss_pred HHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccC-CcceeeEecc
Q 003167 239 KLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMT-GLSGPIHFNQ 298 (843)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~-G~tG~v~fd~ 298 (843)
+++... .+++.|.++|++++.. +..|.+.|++
T Consensus 294 ~~~g~~----------------------------~~~~~v~~al~~~~~~~~~g~~~~~~~ 326 (336)
T cd06326 294 RRAGPD----------------------------PTRESLLAALEAMGKFDLGGFRLDFSP 326 (336)
T ss_pred HHcCCC----------------------------CCHHHHHHHHHhcCCCCCCCeEEecCc
Confidence 986321 1388999999998864 4444899965
No 86
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.86 E-value=4.1e-20 Score=191.52 Aligned_cols=255 Identities=14% Similarity=0.101 Sum_probs=185.4
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC--CCCCceEEcCCChHHhHHHHHHHH-HHcCCcEEEEE
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAI 78 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~--~~~p~~fR~~p~d~~~~~ai~~ll-~~~~w~~v~ii 78 (843)
+++|.+|+|.++|++-.++.++.++++-++..+ ...+ ...|++|-+.....+|...+++++ +++|-+++.+|
T Consensus 66 ~d~V~~ifGc~TSasRKaVlPvvE~~~~LL~Yp-----~~YEG~E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lv 140 (363)
T PF13433_consen 66 EDGVRAIFGCYTSASRKAVLPVVERHNALLFYP-----TQYEGFECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLV 140 (363)
T ss_dssp HS---EEEE--SHHHHHHHHHHHHHCT-EEEE------S--------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEE
T ss_pred hCCccEEEecchhhhHHHHHHHHHhcCceEEec-----cccccccCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEe
Confidence 479999999999999999999999999999864 2333 456899999999999999888875 77899999999
Q ss_pred EecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 79 FNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 79 ~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
.+|..|++..-..+++.+++.|++|+....+|.+ .+|+..++.+|++.+||+|+-...++....|++++++.|+..
T Consensus 141 GSdYv~pre~Nri~r~~l~~~GgevvgE~Y~plg----~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~ 216 (363)
T PF13433_consen 141 GSDYVYPRESNRIIRDLLEARGGEVVGERYLPLG----ATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDP 216 (363)
T ss_dssp EESSHHHHHHHHHHHHHHHHTT-EEEEEEEE-S-----HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SS
T ss_pred cCCccchHHHHHHHHHHHHHcCCEEEEEEEecCC----chhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCc
Confidence 9999999999999999999999999999999988 899999999999999999999999999999999999999864
Q ss_pred cceEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC--CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHH
Q 003167 159 SGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIAR 236 (843)
Q Consensus 159 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~ 236 (843)
. ..-|.+...... +.. ....+...|.++...+.. ++|..++|+++|+++|+++..++.....+|-+|+++|+
T Consensus 217 ~-~~Pi~S~~~~E~-E~~----~~g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~~v~s~~~eaaY~~v~l~a~ 290 (363)
T PF13433_consen 217 E-RIPIASLSTSEA-ELA----AMGAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGDDRVTSDPMEAAYFQVHLWAQ 290 (363)
T ss_dssp S----EEESS--HH-HHT----TS-HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT----HHHHHHHHHHHHHHH
T ss_pred c-cCeEEEEecCHH-HHh----hcChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHHHH
Confidence 3 345554433221 110 122457889999888765 57999999999999998766667777889999999999
Q ss_pred HHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCC
Q 003167 237 ALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDR 300 (843)
Q Consensus 237 Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G 300 (843)
|++++++. +.++++++|...+|+++.|.+++|+..
T Consensus 291 Av~~ags~-----------------------------d~~~vr~al~g~~~~aP~G~v~id~~n 325 (363)
T PF13433_consen 291 AVEKAGSD-----------------------------DPEAVREALAGQSFDAPQGRVRIDPDN 325 (363)
T ss_dssp HHHHHTS-------------------------------HHHHHHHHTT--EEETTEEEEE-TTT
T ss_pred HHHHhCCC-----------------------------CHHHHHHHhcCCeecCCCcceEEcCCC
Confidence 99998432 489999999999999999999999844
No 87
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=99.85 E-value=4.2e-20 Score=190.87 Aligned_cols=217 Identities=21% Similarity=0.406 Sum_probs=180.9
Q ss_pred CCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEec
Q 003167 374 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 453 (843)
Q Consensus 374 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~ 453 (843)
..+|+|++.. .++||.+.+. ++.+.|+++|+++++++++|.+++|+. .+|..++..+.+|++|+++++
T Consensus 20 ~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~~~---------~~~~~~~~~l~~g~~D~~~~~ 87 (243)
T PRK15007 20 AETIRFATEA--SYPPFESIDA-NNQIVGFDVDLAQALCKEIDATCTFSN---------QAFDSLIPSLKFRRVEAVMAG 87 (243)
T ss_pred CCcEEEEeCC--CCCCceeeCC-CCCEEeeeHHHHHHHHHHhCCcEEEEe---------CCHHHHhHHHhCCCcCEEEEc
Confidence 4689999974 7899988764 689999999999999999997755543 359999999999999999888
Q ss_pred eeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccc
Q 003167 454 IAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQI 533 (843)
Q Consensus 454 ~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~ 533 (843)
++.+++|.+.++||.||+..+..++.+..
T Consensus 88 ~~~~~~r~~~~~fs~p~~~~~~~~v~~~~--------------------------------------------------- 116 (243)
T PRK15007 88 MDITPEREKQVLFTTPYYDNSALFVGQQG--------------------------------------------------- 116 (243)
T ss_pred CccCHHHhcccceecCccccceEEEEeCC---------------------------------------------------
Confidence 88999999999999999988877665422
Q ss_pred hhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCchH
Q 003167 534 VTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFA 613 (843)
Q Consensus 534 ~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~~ 613 (843)
.+++++|| .+.+||+..|+..
T Consensus 117 ---------------------------------------------------------~~~~~~dL--~g~~Igv~~g~~~ 137 (243)
T PRK15007 117 ---------------------------------------------------------KYTSVDQL--KGKKVGVQNGTTH 137 (243)
T ss_pred ---------------------------------------------------------CCCCHHHh--CCCeEEEecCcHH
Confidence 35788999 4889999999988
Q ss_pred HHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEeCCc-----cccCcceeeecCCCC-
Q 003167 614 ENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQE-----FTKSGWGFAFPRDSP- 687 (843)
Q Consensus 614 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~~~~~~k~sp- 687 (843)
.+++.+. .+..+++.+++.++.+++|.+|++|+++.+...+.+++++.+.+..++.. +...+++++++++.+
T Consensus 138 ~~~l~~~--~~~~~~~~~~~~~~~~~~L~~grvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 215 (243)
T PRK15007 138 QKFIMDK--HPEITTVPYDSYQNAKLDLQNGRIDAVFGDTAVVTEWLKDNPKLAAVGDKVTDKDYFGTGLGIAVRQGNTE 215 (243)
T ss_pred HHHHHHh--CCCCeEEEcCCHHHHHHHHHcCCCCEEEeCHHHHHHHHhcCCCceeecCcccccccCCcceEEEEeCCCHH
Confidence 8888543 24456778899999999999999999999998888888776655554432 223457899998876
Q ss_pred chHHHHHHHHhhhccccHHHHHHhhcc
Q 003167 688 LAIDMSTAILTLSENGELQRIHDKWLR 714 (843)
Q Consensus 688 l~~~in~~i~~l~e~G~~~~~~~kw~~ 714 (843)
++..||++|.++.++|.++++.+||+.
T Consensus 216 l~~~ln~~l~~l~~~g~~~~i~~~w~~ 242 (243)
T PRK15007 216 LQQKLNTALEKVKKDGTYETIYNKWFQ 242 (243)
T ss_pred HHHHHHHHHHHHHhCCcHHHHHHHhcC
Confidence 999999999999999999999999985
No 88
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=99.85 E-value=3.5e-20 Score=192.39 Aligned_cols=218 Identities=22% Similarity=0.392 Sum_probs=184.0
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
++|+|++.. .++||.+.++ ++++.|+++|+++.+++.+|.+++| ++ .+|.+++.++.+|++|++++++
T Consensus 24 ~~l~v~~~~--~~~P~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~--~~-------~~~~~~~~~l~~G~~D~~~~~~ 91 (250)
T TIGR01096 24 GSVRIGTET--GYPPFESKDA-NGKLVGFDVDLAKALCKRMKAKCKF--VE-------QNFDGLIPSLKAKKVDAIMATM 91 (250)
T ss_pred CeEEEEECC--CCCCceEECC-CCCEEeehHHHHHHHHHHhCCeEEE--Ee-------CCHHHHHHHHhCCCcCEEEecC
Confidence 689999964 7889988764 6899999999999999999966554 44 4599999999999999998888
Q ss_pred eeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccch
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIV 534 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~ 534 (843)
+.+.+|.+.+.||.|++..+..++++...
T Consensus 92 ~~~~~r~~~~~~s~p~~~~~~~~~~~~~~--------------------------------------------------- 120 (250)
T TIGR01096 92 SITPKRQKQIDFSDPYYATGQGFVVKKGS--------------------------------------------------- 120 (250)
T ss_pred ccCHHHhhccccccchhcCCeEEEEECCC---------------------------------------------------
Confidence 89999999999999999999999988765
Q ss_pred hhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCchHH
Q 003167 535 TVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFAE 614 (843)
Q Consensus 535 ~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~~~ 614 (843)
..+.+++||. |++||+..|+...
T Consensus 121 -------------------------------------------------------~~~~~~~dl~--g~~i~~~~g~~~~ 143 (250)
T TIGR01096 121 -------------------------------------------------------DLAKTLEDLD--GKTVGVQSGTTHE 143 (250)
T ss_pred -------------------------------------------------------CcCCChHHcC--CCEEEEecCchHH
Confidence 2346788994 8899999999888
Q ss_pred HHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCC---CeEEeCCcccc-----CcceeeecCCC
Q 003167 615 NYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHC---QFSVRGQEFTK-----SGWGFAFPRDS 686 (843)
Q Consensus 615 ~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~---~l~~~~~~~~~-----~~~~~~~~k~s 686 (843)
.++.+.+.. ..+++.+.+.++++++|.+|++|+++.+...+.+++++.. ++.++...+.. ..+++++++++
T Consensus 144 ~~l~~~~~~-~~~~~~~~s~~~~~~~L~~g~vD~~v~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 222 (250)
T TIGR01096 144 QYLKDYFKP-GVDIVEYDSYDNANMDLKAGRIDAVFTDASVLAEGFLKPPNGKDFKFVGPSVTDEKYFGDGYGIGLRKGD 222 (250)
T ss_pred HHHHHhccC-CcEEEEcCCHHHHHHHHHcCCCCEEEeCHHHHHHHHHhCCCCCceEEeccccccccccCCceEEEEeCCC
Confidence 888654321 4567788999999999999999999999999998877743 36666554332 24789999998
Q ss_pred C-chHHHHHHHHhhhccccHHHHHHhhc
Q 003167 687 P-LAIDMSTAILTLSENGELQRIHDKWL 713 (843)
Q Consensus 687 p-l~~~in~~i~~l~e~G~~~~~~~kw~ 713 (843)
+ ++..||++|.++.++|.+++|.+||+
T Consensus 223 ~~l~~~ln~~l~~l~~~g~~~~i~~kw~ 250 (250)
T TIGR01096 223 TELKAAFNKALAAIRADGTYQKISKKWF 250 (250)
T ss_pred HHHHHHHHHHHHHHHHCCcHHHHHHhhC
Confidence 7 99999999999999999999999995
No 89
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=99.84 E-value=8.6e-20 Score=190.03 Aligned_cols=222 Identities=17% Similarity=0.281 Sum_probs=178.8
Q ss_pred CCCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEe
Q 003167 373 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 452 (843)
Q Consensus 373 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~ 452 (843)
...+|+|++.. .++||.+.+. ++.+.|+++|+++++++++|.+++++.. +|++++.++.+|++|++++
T Consensus 24 ~~~~l~v~~~~--~~~P~~~~~~-~g~~~G~~vdi~~~ia~~lg~~i~~~~~---------pw~~~~~~l~~g~~D~~~~ 91 (259)
T PRK15437 24 IPQNIRIGTDP--TYAPFESKNS-QGELVGFDIDLAKELCKRINTQCTFVEN---------PLDALIPSLKAKKIDAIMS 91 (259)
T ss_pred cCCeEEEEeCC--CCCCcceeCC-CCCEEeeeHHHHHHHHHHcCCceEEEeC---------CHHHHHHHHHCCCCCEEEe
Confidence 35789999864 6889988764 6889999999999999999977666543 4999999999999999999
Q ss_pred ceeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCccc
Q 003167 453 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 532 (843)
Q Consensus 453 ~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~ 532 (843)
+++.+++|...++||.||...+..+++++..
T Consensus 92 ~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~------------------------------------------------- 122 (259)
T PRK15437 92 SLSITEKRQQEIAFTDKLYAADSRLVVAKNS------------------------------------------------- 122 (259)
T ss_pred cCCCCHHHhhhccccchhhcCceEEEEECCC-------------------------------------------------
Confidence 8999999999999999999999999988765
Q ss_pred chhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCch
Q 003167 533 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSF 612 (843)
Q Consensus 533 ~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~ 612 (843)
+...+++|| .|.+||+..|+.
T Consensus 123 ---------------------------------------------------------~~~~~~~dl--~g~~Igv~~g~~ 143 (259)
T PRK15437 123 ---------------------------------------------------------DIQPTVESL--KGKRVGVLQGTT 143 (259)
T ss_pred ---------------------------------------------------------CCCCChHHh--CCCEEEEecCcH
Confidence 222478898 488999999998
Q ss_pred HHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHH-HHhcC--CCeEEeC-----CccccCcceeeecC
Q 003167 613 AENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDL-FLSDH--CQFSVRG-----QEFTKSGWGFAFPR 684 (843)
Q Consensus 613 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~-~~~~~--~~l~~~~-----~~~~~~~~~~~~~k 684 (843)
...++.........+++.+++.++.+++|.+|++|+++.+.....+ +.++. .++.+.+ +.+...++++++++
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~L~~grvD~~v~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ia~~~ 223 (259)
T PRK15437 144 QETFGNEHWAPKGIEIVSYQGQDNIYSDLTAGRIDAAFQDEVAASEGFLKQPVGKDYKFGGPSVKDEKLFGVGTGMGLRK 223 (259)
T ss_pred HHHHHHhhccccCceEEecCCHHHHHHHHHcCCccEEEechHHHHHHHHhCCCCCceEEecCccccccccCcceEEEEeC
Confidence 8777754332223567888999999999999999999988876653 33332 2343332 22223346788888
Q ss_pred CCC-chHHHHHHHHhhhccccHHHHHHhhcc
Q 003167 685 DSP-LAIDMSTAILTLSENGELQRIHDKWLR 714 (843)
Q Consensus 685 ~sp-l~~~in~~i~~l~e~G~~~~~~~kw~~ 714 (843)
+.+ +++.+|++|.++.++|.+++|.+||++
T Consensus 224 ~~~~l~~~~n~~l~~~~~~G~~~~i~~k~~~ 254 (259)
T PRK15437 224 EDNELREALNKAFAEMRADGTYEKLAKKYFD 254 (259)
T ss_pred CCHHHHHHHHHHHHHHHHCCcHHHHHHHhcC
Confidence 766 999999999999999999999999997
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=99.84 E-value=1.1e-19 Score=190.81 Aligned_cols=222 Identities=19% Similarity=0.217 Sum_probs=181.7
Q ss_pred CCCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCc-ccEEEEeCCCCCCCCChHHHHHHHHcCcccEEE
Q 003167 373 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYA-VPYKFIPYGDGHKNPTYSELINQITTGVFDAAV 451 (843)
Q Consensus 373 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~-~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~ 451 (843)
..++|+|++. +++||.+.+. ++.+.|+++||++++++++|.+ ++++. .+|++++..+.+|++|+++
T Consensus 31 ~~~~l~v~~~---~~pP~~~~~~-~g~~~G~~~dl~~~i~~~lg~~~~~~~~---------~~w~~~~~~l~~G~~Di~~ 97 (275)
T TIGR02995 31 EQGFARIAIA---NEPPFTYVGA-DGKVSGAAPDVARAIFKRLGIADVNASI---------TEYGALIPGLQAGRFDAIA 97 (275)
T ss_pred hCCcEEEEcc---CCCCceeECC-CCceecchHHHHHHHHHHhCCCceeecc---------CCHHHHHHHHHCCCcCEEe
Confidence 4567999986 5789988764 6789999999999999999975 34443 4599999999999999998
Q ss_pred eceeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcc
Q 003167 452 GDIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRK 531 (843)
Q Consensus 452 ~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~ 531 (843)
++++++++|.+.++||.||+.+..++++++...
T Consensus 98 ~~~~~t~eR~~~~~fs~py~~~~~~~~~~~~~~----------------------------------------------- 130 (275)
T TIGR02995 98 AGLFIKPERCKQVAFTQPILCDAEALLVKKGNP----------------------------------------------- 130 (275)
T ss_pred ecccCCHHHHhccccccceeecceeEEEECCCC-----------------------------------------------
Confidence 889999999999999999999999999887651
Q ss_pred cchhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhh-CCCeEEEEeC
Q 003167 532 QIVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMT-SNDRVGYQVG 610 (843)
Q Consensus 532 ~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~-~~~~i~~~~~ 610 (843)
..+++++||.. .+.+||+..|
T Consensus 131 ----------------------------------------------------------~~i~~~~dl~~~~g~~Igv~~g 152 (275)
T TIGR02995 131 ----------------------------------------------------------KGLKSYKDIAKNPDAKIAAPGG 152 (275)
T ss_pred ----------------------------------------------------------CCCCCHHHhccCCCceEEEeCC
Confidence 25788889853 3689999999
Q ss_pred chHHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCC--CeEEeCCc---cccCcceeeecCC
Q 003167 611 SFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHC--QFSVRGQE---FTKSGWGFAFPRD 685 (843)
Q Consensus 611 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~--~l~~~~~~---~~~~~~~~~~~k~ 685 (843)
+...+++.+ .+.+..+++.+++.++++++|.+|++|+++.+...+.+++++.. ++..+... .....++++++++
T Consensus 153 ~~~~~~l~~-~~~~~~~i~~~~~~~~~i~~L~~grvDa~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 231 (275)
T TIGR02995 153 GTEEKLARE-AGVKREQIIVVPDGQSGLKMVQDGRADAYSLTVLTINDLASKAGDPNVEVLAPFKDAPVRYYGGAAFRPE 231 (275)
T ss_pred cHHHHHHHH-cCCChhhEEEeCCHHHHHHHHHcCCCCEEecChHHHHHHHHhCCCCCceeecCccCCccccceeEEECCC
Confidence 998888843 44455578889999999999999999999999999988877632 44443321 1112337888887
Q ss_pred CC-chHHHHHHHHhhhccccHHHHHHhhc
Q 003167 686 SP-LAIDMSTAILTLSENGELQRIHDKWL 713 (843)
Q Consensus 686 sp-l~~~in~~i~~l~e~G~~~~~~~kw~ 713 (843)
++ |++.||++|.++.++|.+++|.+||-
T Consensus 232 ~~~l~~~~n~~l~~~~~sG~~~~i~~ky~ 260 (275)
T TIGR02995 232 DKELRDAFNVELAKLKESGEFAKIIAPYG 260 (275)
T ss_pred CHHHHHHHHHHHHHHHhChHHHHHHHHhC
Confidence 76 99999999999999999999999993
No 91
>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=99.81 E-value=9.7e-19 Score=190.56 Aligned_cols=247 Identities=11% Similarity=0.056 Sum_probs=193.6
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
++|.+|||+.+|....++ +++.+.++|+|+++++++.++. .|++||+.+++..++.++++++...+.+++++++.++
T Consensus 66 ~~V~~iig~~~s~~~~~~-~~~~~~~ip~v~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~ 142 (341)
T cd06341 66 DKVVAVVGGSSGAGGSAL-PYLAGAGIPVIGGAGTSAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTAL 142 (341)
T ss_pred cCceEEEecccccchhHH-HHHhhcCCceecCCCCCchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCC
Confidence 489999999999887766 8999999999998877766654 5788999999999999999999888999999998776
Q ss_pred C-CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccce
Q 003167 83 D-QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 161 (843)
Q Consensus 83 ~-~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~ 161 (843)
. ||+...+.+++.+++.|++++....++.+ ..|+.+.+.++++.+||+|++......+..++++++++|+..+.
T Consensus 143 ~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~----~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~~- 217 (341)
T cd06341 143 SAAVSAAAALLARSLAAAGVSVAGIVVITAT----APDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPKV- 217 (341)
T ss_pred cHHHHHHHHHHHHHHHHcCCccccccccCCC----CCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCCE-
Confidence 5 99999999999999999999877666655 67899999999999999999999888999999999999986532
Q ss_pred EEEEeCcccccccCCCCCChhhhhhccccEEEEEeCC---CchhhHHHHHHHhhhcCC-CCCCCcchhhHhhHHHHHHHH
Q 003167 162 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP---DSKRRRDFVSRWNTLSNG-SIGLNPYGLYAYDTVWMIARA 237 (843)
Q Consensus 162 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~YDAv~~la~A 237 (843)
.+........ .. ....+..+|++....+.| +.|..++|.+.+++.... ..+++.++..+||+++++++|
T Consensus 218 -~~~~~~~~~~--~~----~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~yda~~~~~~a 290 (341)
T cd06341 218 -VLSGTCYDPA--LL----AAPGPALAGVYIAVFYRPFESGTPAVALYLAAMARYAPQLDPPEQGFALIGYIAADLFLRG 290 (341)
T ss_pred -EEecCCCCHH--HH----HhcCcccCceEEEeeeccccCCCHHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHH
Confidence 2222111111 10 223456789888776654 457788887765543211 135788999999999999999
Q ss_pred HHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHH-HHHHHHhcccCCcce
Q 003167 238 LKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKK-FLANILQTNMTGLSG 292 (843)
Q Consensus 238 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-l~~~l~~~~f~G~tG 292 (843)
++++... .+++. ++++|++++.....|
T Consensus 291 ~~~ag~~----------------------------~~~~~~v~~al~~~~~~~~~g 318 (341)
T cd06341 291 LSGAGGC----------------------------PTRASQFLRALRAVTDYDAGG 318 (341)
T ss_pred HHhcCCC----------------------------CChHHHHHHHhhcCCCCCCCC
Confidence 9997332 02666 999999998655545
No 92
>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=99.81 E-value=8.6e-19 Score=187.04 Aligned_cols=218 Identities=24% Similarity=0.347 Sum_probs=181.3
Q ss_pred CeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 4 DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 4 ~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
+|.+||||.++..+.+++++++..+||+|++.+.++.+++ ..+|++||+.|++..++..+++++.+++|+++++++.++
T Consensus 67 ~v~~iig~~~~~~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~ 146 (299)
T cd04509 67 GVDALVGPVSSGVALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDD 146 (299)
T ss_pred CceEEEcCCCcHHHHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCc
Confidence 8999999999999999999999999999999888877765 568999999999999999999999999999999999999
Q ss_pred CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccceE
Q 003167 83 DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 162 (843)
Q Consensus 83 ~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~ 162 (843)
.+|....+.+++.+++.|++++....++.+ ..++...++++++.++|+|++++....+..+++++++.|+. .++.
T Consensus 147 ~~~~~~~~~~~~~~~~~g~~i~~~~~~~~~----~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~-~~~~ 221 (299)
T cd04509 147 SYGRGLLEAFKAAFKKKGGTVVGEEYYPLG----TTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT-GGYP 221 (299)
T ss_pred hHHHHHHHHHHHHHHHcCCEEEEEecCCCC----CccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-CCCc
Confidence 999999999999999999999877666655 47889999999988899999999888999999999999987 7789
Q ss_pred EEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCc--hhhHHHH---HHHhhhcCCCCCCCcchhhHhhHHHH
Q 003167 163 WIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDS--KRRRDFV---SRWNTLSNGSIGLNPYGLYAYDTVWM 233 (843)
Q Consensus 163 ~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~--~~~~~f~---~~~~~~~~~~~~~~~~~~~~YDAv~~ 233 (843)
|+..+.+...... ....+.++|+++..++.+.. +..+.|. ..+++.++ ..++.+++++|||+++
T Consensus 222 ~i~~~~~~~~~~~-----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~yda~~~ 290 (299)
T cd04509 222 ILGITLGLSDVLL-----EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKYE--DQPDYFAALAYDAVLL 290 (299)
T ss_pred EEecccccCHHHH-----HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHhC--CCCChhhhhhcceeee
Confidence 9998766543221 13346678888887765543 3333343 34444443 5678899999999987
No 93
>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=99.80 E-value=3.9e-18 Score=183.33 Aligned_cols=219 Identities=19% Similarity=0.252 Sum_probs=175.4
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
++|.+|||+.+|..+.++.+++.+.++|+|+++++++.+. ...+|+||+.+++..++..+++++...||++|++++.++
T Consensus 65 ~~v~~vig~~~s~~~~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~ 143 (312)
T cd06333 65 DKVDAIIGPSTTPATMAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSD 143 (312)
T ss_pred CCeEEEECCCCCHHHHHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCc
Confidence 4899999999998888899999999999999877665443 456899999999999999999999999999999999999
Q ss_pred CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccceE
Q 003167 83 DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 162 (843)
Q Consensus 83 ~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~ 162 (843)
.+|+...+.+.+.+++.|++++....++.+ +.|+...+.++++.++|+|++.+....+..+++++++.|+..+
T Consensus 144 ~~~~~~~~~~~~~~~~~G~~v~~~~~~~~~----~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p--- 216 (312)
T cd06333 144 AYGESGLKELKALAPKYGIEVVADERYGRT----DTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGP--- 216 (312)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEEEeeCCC----CcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCC---
Confidence 999999999999999999999887777655 5688999999998899999999887778889999999997542
Q ss_pred EEEeCcccccccCCCCCChhhhhhccccEEEEEe------CC----CchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHH
Q 003167 163 WIATTWLSTFIDSKSPLSLKTAKSILGALTLRQH------TP----DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVW 232 (843)
Q Consensus 163 ~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~------~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~ 232 (843)
++.+++.... ... ....+..+|++....+ .| ..+..++|.++|+++|+. ..+..+++.+|||++
T Consensus 217 ~~~~~~~~~~-~~~----~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~g~-~~~~~~~~~~Yda~~ 290 (312)
T cd06333 217 IYQTHGVASP-DFL----RLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKYGA-GSVSTFGGHAYDALL 290 (312)
T ss_pred EEeecCcCcH-HHH----HHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHhCC-CCCCchhHHHHHHHH
Confidence 3333332211 111 2233556787654321 22 246789999999999862 236789999999999
Q ss_pred HHH
Q 003167 233 MIA 235 (843)
Q Consensus 233 ~la 235 (843)
+++
T Consensus 291 ~~~ 293 (312)
T cd06333 291 LLA 293 (312)
T ss_pred HHH
Confidence 998
No 94
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=99.79 E-value=2.4e-18 Score=193.80 Aligned_cols=221 Identities=18% Similarity=0.225 Sum_probs=178.3
Q ss_pred CCCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEe
Q 003167 373 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 452 (843)
Q Consensus 373 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~ 452 (843)
..++||||+.. .|+.+.++ ++...||++||++++++++|.+++++.. .+|++++.+|.+|++|++++
T Consensus 41 ~~g~LrVg~~~----~P~~~~~~-~~~~~G~~~DLl~~ia~~LGv~~e~v~~--------~~~~~ll~aL~~G~iDi~~~ 107 (482)
T PRK10859 41 ERGELRVGTIN----SPLTYYIG-NDGPTGFEYELAKRFADYLGVKLEIKVR--------DNISQLFDALDKGKADLAAA 107 (482)
T ss_pred hCCEEEEEEec----CCCeeEec-CCCcccHHHHHHHHHHHHhCCcEEEEec--------CCHHHHHHHHhCCCCCEEec
Confidence 45789999974 23333333 2345999999999999999977655522 56999999999999999988
Q ss_pred ceeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCccc
Q 003167 453 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 532 (843)
Q Consensus 453 ~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~ 532 (843)
++++|++|.+.++||.||+....++++++..
T Consensus 108 ~lt~T~eR~~~~~FS~Py~~~~~~lv~r~~~------------------------------------------------- 138 (482)
T PRK10859 108 GLTYTPERLKQFRFGPPYYSVSQQLVYRKGQ------------------------------------------------- 138 (482)
T ss_pred cCcCChhhhccCcccCCceeeeEEEEEeCCC-------------------------------------------------
Confidence 8999999999999999999999999987765
Q ss_pred chhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCch
Q 003167 533 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSF 612 (843)
Q Consensus 533 ~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~ 612 (843)
..+++++||. |++||+..|+.
T Consensus 139 ---------------------------------------------------------~~i~~l~dL~--Gk~I~V~~gS~ 159 (482)
T PRK10859 139 ---------------------------------------------------------PRPRSLGDLK--GGTLTVAAGSS 159 (482)
T ss_pred ---------------------------------------------------------CCCCCHHHhC--CCeEEEECCCc
Confidence 4688999995 89999999998
Q ss_pred HHHHHHHhh-CCCCcce--EeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEeCCccccCcceeeecCC-CC-
Q 003167 613 AENYLIEEL-SIPKSRL--VALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQEFTKSGWGFAFPRD-SP- 687 (843)
Q Consensus 613 ~~~~l~~~~-~~~~~~~--~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~-sp- 687 (843)
....+.+.. ..+..++ ..+.+.++++++|.+|++|+++.+...+.+......++.+........+++++++|+ ++
T Consensus 160 ~~~~L~~l~~~~p~i~~~~~~~~s~~e~l~aL~~G~iDa~v~d~~~~~~~~~~~p~l~v~~~l~~~~~~~~av~k~~~~~ 239 (482)
T PRK10859 160 HVETLQELKKKYPELSWEESDDKDSEELLEQVAEGKIDYTIADSVEISLNQRYHPELAVAFDLTDEQPVAWALPPSGDDS 239 (482)
T ss_pred HHHHHHHHHHhCCCceEEecCCCCHHHHHHHHHCCCCCEEEECcHHHHHHHHhCCCceeeeecCCCceeEEEEeCCCCHH
Confidence 888774321 1122233 345789999999999999999999887766555556666655544566789999994 55
Q ss_pred chHHHHHHHHhhhccccHHHHHHhhcc
Q 003167 688 LAIDMSTAILTLSENGELQRIHDKWLR 714 (843)
Q Consensus 688 l~~~in~~i~~l~e~G~~~~~~~kw~~ 714 (843)
|...+|++|.++.++|.++++.+||+.
T Consensus 240 L~~~ln~~L~~i~~~G~l~~L~~kyfg 266 (482)
T PRK10859 240 LYAALLDFFNQIKEDGTLARLEEKYFG 266 (482)
T ss_pred HHHHHHHHHHHhhcCCHHHHHHHHHhh
Confidence 999999999999999999999999998
No 95
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.76 E-value=2.5e-17 Score=208.97 Aligned_cols=216 Identities=16% Similarity=0.214 Sum_probs=179.1
Q ss_pred CCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEec
Q 003167 374 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 453 (843)
Q Consensus 374 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~ 453 (843)
.++|+|++.. +|+||.+.+. ++.+.||.+|+++.|++++|.+ +++++. .+|..+...|.+|++|++.+
T Consensus 301 ~~~l~v~~~~--~~pP~~~~d~-~g~~~G~~~Dll~~i~~~~g~~--~~~v~~------~~~~~~~~~l~~g~~D~i~~- 368 (1197)
T PRK09959 301 HPDLKVLENP--YSPPYSMTDE-NGSVRGVMGDILNIITLQTGLN--FSPITV------SHNIHAGTQLNPGGWDIIPG- 368 (1197)
T ss_pred CCceEEEcCC--CCCCeeEECC-CCcEeeehHHHHHHHHHHHCCe--EEEEec------CCHHHHHHHHHCCCceEeec-
Confidence 4579998875 8999999874 7999999999999999999955 555553 45888999999999998766
Q ss_pred eeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccc
Q 003167 454 IAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQI 533 (843)
Q Consensus 454 ~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~ 533 (843)
+..+++|.+.++||.||+.+++++++++..
T Consensus 369 ~~~t~~r~~~~~fs~py~~~~~~~v~~~~~-------------------------------------------------- 398 (1197)
T PRK09959 369 AIYSEDRENNVLFAEAFITTPYVFVMQKAP-------------------------------------------------- 398 (1197)
T ss_pred ccCCccccccceeccccccCCEEEEEecCC--------------------------------------------------
Confidence 668999999999999999999999987544
Q ss_pred hhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCchH
Q 003167 534 VTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFA 613 (843)
Q Consensus 534 ~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~~ 613 (843)
..+. ++. .|++||+..|+..
T Consensus 399 --------------------------------------------------------~~~~---~~~-~g~~vav~~g~~~ 418 (1197)
T PRK09959 399 --------------------------------------------------------DSEQ---TLK-KGMKVAIPYYYEL 418 (1197)
T ss_pred --------------------------------------------------------CCcc---ccc-cCCEEEEeCCcch
Confidence 1122 222 5889999999988
Q ss_pred HHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCC--C-eEEeCCccccCcceeeecCCCC-ch
Q 003167 614 ENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHC--Q-FSVRGQEFTKSGWGFAFPRDSP-LA 689 (843)
Q Consensus 614 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~--~-l~~~~~~~~~~~~~~~~~k~sp-l~ 689 (843)
.+++.+.+ +..+++.+++.++++++|.+|++||++.+...+.|++++.. . +......+....++|+++|+.| |.
T Consensus 419 ~~~~~~~~--p~~~~~~~~~~~~~l~av~~G~~Da~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~av~k~~~~L~ 496 (1197)
T PRK09959 419 HSQLKEMY--PEVEWIKVDNASAAFHKVKEGELDALVATQLNSRYMIDHYYPNELYHFLIPGVPNASLSFAFPRGEPELK 496 (1197)
T ss_pred HHHHHHHC--CCcEEEEcCCHHHHHHHHHcCCCCEEehhhHHHHHHHHhcccccceeeecCCCCchheEEeeCCCCHHHH
Confidence 88886543 45688999999999999999999999999999999988742 2 3334444556678999999988 99
Q ss_pred HHHHHHHHhhhccccHHHHHHhhcc
Q 003167 690 IDMSTAILTLSENGELQRIHDKWLR 714 (843)
Q Consensus 690 ~~in~~i~~l~e~G~~~~~~~kw~~ 714 (843)
..+|++|..+.++ .++++.+||+.
T Consensus 497 ~~lnk~l~~i~~~-~~~~i~~kW~~ 520 (1197)
T PRK09959 497 DIINKALNAIPPS-EVLRLTEKWIK 520 (1197)
T ss_pred HHHHHHHHhCCHH-HHHHHHhhccc
Confidence 9999999999998 78999999987
No 96
>cd06268 PBP1_ABC_transporter_LIVBP_like Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC
Probab=99.76 E-value=3.3e-17 Score=174.70 Aligned_cols=220 Identities=22% Similarity=0.326 Sum_probs=181.4
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcC-CcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG-WGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~-w~~v~ii~~ 80 (843)
+++|.+||||.++..+.++.+.+.+.+||+|++.++++.+.+..+|++|++.|++..++.++++++...+ |+++++++.
T Consensus 64 ~~~v~~iig~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~ 143 (298)
T cd06268 64 DDGVDAVIGPLSSGVALAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYD 143 (298)
T ss_pred hCCceEEEcCCcchhHHhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEc
Confidence 4589999999999888899999999999999998887766544579999999999999999999998887 999999999
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
+++++....+.+.+++++.|++++....++.+ ..++...++++++.++++|++.+....+..+++++++.|+ +
T Consensus 144 ~~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~~----~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~---~ 216 (298)
T cd06268 144 DYAYGRGLAAAFREALKKLGGEVVAEETYPPG----ATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGL---K 216 (298)
T ss_pred CCchhHHHHHHHHHHHHHcCCEEEEEeccCCC----CccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCC---C
Confidence 99999999999999999999999887766655 5688999999999999999999888888999999999887 3
Q ss_pred eEEEEeCcccccccCCCCCChhhhhhccccEEEEEeCCCc--hhhHHHH-HHHhhhcCCCCCCCcchhhHhhHHHHHH
Q 003167 161 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDS--KRRRDFV-SRWNTLSNGSIGLNPYGLYAYDTVWMIA 235 (843)
Q Consensus 161 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~--~~~~~f~-~~~~~~~~~~~~~~~~~~~~YDAv~~la 235 (843)
..|+..+.+...... ....+..+|++...++.+.. +....|. ++|++.++ ..++.++..+||++++++
T Consensus 217 ~~~~~~~~~~~~~~~-----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 217 VPIVGGDGAAAPALL-----ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKYG--RPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred CcEEecCccCCHHHH-----HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHhC--CCcccchHHHHHHHHHHc
Confidence 467776655432111 12345678888887765543 4445565 77888775 567889999999999998
No 97
>PF00060 Lig_chan: Ligand-gated ion channel; InterPro: IPR001320 The ability of synapses to modify their synaptic strength in response to activity is a fundamental property of the nervous system and may be an essential component of learning and memory. There are three classes of ionotropic glutamate receptor, namely NMDA (N-methyl-D-aspartate), AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazole-4-propionic acid) and kainate receptors. They are believed to play critical roles in synaptic plasticity. At many synapses in the brain, transient activation of NMDA receptors leads to a persistent modification in the strength of synaptic transmission mediated by AMPA receptors and kainate receptors can act as the induction trigger for long-term changes in synaptic transmission [].; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 3FAT_A 3KFM_A 3KEI_A 3EN3_A 3EPE_B 3FAS_A 2F34_A 3C34_B 3S2V_A 3GBB_B ....
Probab=99.75 E-value=1.6e-19 Score=170.74 Aligned_cols=107 Identities=31% Similarity=0.545 Sum_probs=82.9
Q ss_pred chhHHHHHHHHHHHHHHHhhhhhcccCCCCCC-------CCcccchhhHHHHHHHHhhccc-ccccccchhHHHHHHHHH
Q 003167 496 TPLMWAVTGVFFLVVGTVVWILEHRLNDEFRG-------PPRKQIVTVLWFSFSTMFFAHR-ENTVSTLGRVVLIIWLFV 567 (843)
Q Consensus 496 ~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~l~~~~~-~~~~s~~~R~~~~~w~~~ 567 (843)
++++|++++++++++++++|++++..+.+++. +....+.+++|++++++++|+. ..|++.++|++.++|+++
T Consensus 1 s~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~~s~s~Ril~~~w~l~ 80 (148)
T PF00060_consen 1 SWSVWLLILLSILLVSLVLWLFERFSPYEWRKNQSSPPRRWRFSLSNSFWYTFGTLLQQGSSIRPRSWSGRILLAFWWLF 80 (148)
T ss_dssp -HHHHHHHHHHHHHHHTTGGGT------------------HHHHHHHHHHHCCCCCHHHHH------HHHHHHHHHHHHH
T ss_pred CHhHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccccccCcccHHHHHHHHHHhhccccccccccchHHHHHHHHHHHH
Confidence 57899999999999999999999987766654 2234688999999999997764 489999999999999999
Q ss_pred HHHHHhhhhcceeeeeeeccccCCCCChHHhhhCC
Q 003167 568 VLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSN 602 (843)
Q Consensus 568 ~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~ 602 (843)
+++++++|||+|+|+||.++++++|+|++||.+++
T Consensus 81 ~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~~~~ 115 (148)
T PF00060_consen 81 SLILIASYTANLTSFLTVPKYEPPIDSLEDLANSG 115 (148)
T ss_dssp HHHHHHHHHHHHHHHHHCHHHTSS-SSHHHHHTHS
T ss_pred HHHHHHHHHHHHHHHhcccCcCCCCCCHHHHHHCC
Confidence 99999999999999999999999999999999776
No 98
>TIGR03870 ABC_MoxJ methanol oxidation system protein MoxJ. This predicted periplasmic protein, called MoxJ or MxaJ, is required for methanol oxidation in Methylobacterium extorquens. Two differing lines of evidence suggest two different roles. Forming one view, homology suggests it is the substrate-binding protein of an ABC transporter associated with methanol oxidation. The gene, furthermore, is found regular in genomes with, and only two or three genes away from, a corresponding permease and ATP-binding cassette gene pair. The other view is that this protein is an accessory factor or additional subunit of methanol dehydrogenase itself. Mutational studies show a dependence on this protein for expression of the PQQ-dependent, two-subunit methanol dehydrogenase (MxaF and MxaI) in Methylobacterium extorquens, as if it is a chaperone for enzyme assembly or a third subunit. A homologous N-terminal sequence was found in Paracoccus denitrificans as a 32Kd third subunit. This protein may, in
Probab=99.74 E-value=2.8e-17 Score=169.33 Aligned_cols=210 Identities=16% Similarity=0.192 Sum_probs=157.5
Q ss_pred eeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHH---HHHHcCcccEEEe
Q 003167 376 QLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELI---NQITTGVFDAAVG 452 (843)
Q Consensus 376 ~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i---~~l~~g~~Di~~~ 452 (843)
+||||+.. .|+||.+.+ + .||++||+++|++++|++++++.. +|++++ ..|.+|++|++++
T Consensus 1 ~l~vg~~~--~~pPf~~~~---~--~Gfdvdl~~~ia~~lg~~~~~~~~---------~~~~~~~~~~~L~~g~~Dii~~ 64 (246)
T TIGR03870 1 TLRVCAAT--KEAPYSTKD---G--SGFENKIAAALAAAMGRKVVFVWL---------AKPAIYLVRDGLDKKLCDVVLG 64 (246)
T ss_pred CeEEEeCC--CCCCCccCC---C--CcchHHHHHHHHHHhCCCeEEEEe---------ccchhhHHHHHHhcCCccEEEe
Confidence 47899986 899999964 1 699999999999999977555543 477766 6999999999985
Q ss_pred ceeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCccc
Q 003167 453 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 532 (843)
Q Consensus 453 ~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~ 532 (843)
++++++| ++||.||+.++.++++++.+.
T Consensus 65 -~~~t~~r---~~fS~PY~~~~~~~v~~k~~~------------------------------------------------ 92 (246)
T TIGR03870 65 -LDTGDPR---VLTTKPYYRSSYVFLTRKDRN------------------------------------------------ 92 (246)
T ss_pred -CCCChHH---HhcccCcEEeeeEEEEeCCCC------------------------------------------------
Confidence 8888777 689999999999999988761
Q ss_pred chhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCC-eEEEEeCc
Q 003167 533 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSND-RVGYQVGS 611 (843)
Q Consensus 533 ~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~-~i~~~~~~ 611 (843)
..+++++|+.-.|+ +||+..|+
T Consensus 93 ---------------------------------------------------------~~~~~~~d~~L~g~~~vgv~~gs 115 (246)
T TIGR03870 93 ---------------------------------------------------------LDIKSWNDPRLKKVSKIGVIFGS 115 (246)
T ss_pred ---------------------------------------------------------CCCCCccchhhccCceEEEecCC
Confidence 25777765211487 99999999
Q ss_pred hHHHHHHHhhCCC-----CcceEeCC---------CHHHHHHHHhcCCcEEEEcChhhHHHHHhcC-CCeE--EeCCcc-
Q 003167 612 FAENYLIEELSIP-----KSRLVALG---------SPEEYAIALENRTVAAVVDERPYIDLFLSDH-CQFS--VRGQEF- 673 (843)
Q Consensus 612 ~~~~~l~~~~~~~-----~~~~~~~~---------~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~-~~l~--~~~~~~- 673 (843)
..+.++.+..... ...++.++ +.++++++|.+|++||++.+.+.+.+++.+. .++. .+++..
T Consensus 116 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~GrvDa~i~~~~~~~~~~~~~~~~~~~~~~~~~~~ 195 (246)
T TIGR03870 116 PAETMLKQIGRYEDNFAYLYSLVNFKSPRNQYTQIDPRKLVSEVATGKADLAVAFAPEVARYVKASPEPLRMTVIPDDAT 195 (246)
T ss_pred hHHHHHHhcCccccccccccccccccCcccccccCCHHHHHHHHHcCCCCEEEeeHHhHHHHHHhCCCCceEEecccccc
Confidence 9999885421110 01122221 3578999999999999999877777776653 2333 233221
Q ss_pred ------ccC--cceeeecCCCC-chHHHHHHHHhhhccccHHHHHHhh
Q 003167 674 ------TKS--GWGFAFPRDSP-LAIDMSTAILTLSENGELQRIHDKW 712 (843)
Q Consensus 674 ------~~~--~~~~~~~k~sp-l~~~in~~i~~l~e~G~~~~~~~kw 712 (843)
... +++++++|+.+ |++.||++|.++. |.+++|..+|
T Consensus 196 ~~~~~~~~~~~~~~iav~k~~~~L~~~in~aL~~l~--~~~~~i~~~y 241 (246)
T TIGR03870 196 RSDGAKIPMQYDQSMGVRKDDTALLAEIDAALAKAK--PRIDAILKEE 241 (246)
T ss_pred ccCCCCcceeeEEEEEEccCCHHHHHHHHHHHHHhH--HHHHHHHHHc
Confidence 111 35899999998 9999999999999 4899999998
No 99
>TIGR02285 conserved hypothetical protein. Members of this family are found in several Proteobacteria, including Pseudomonas putida KT2440, Bdellovibrio bacteriovorus HD100 (three members), Aeromonas hydrophila, and Chromobacterium violaceum ATCC 12472. The function is unknown.
Probab=99.73 E-value=5.5e-17 Score=169.80 Aligned_cols=229 Identities=13% Similarity=0.156 Sum_probs=165.6
Q ss_pred CCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHC-CCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEe
Q 003167 374 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLL-PYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 452 (843)
Q Consensus 374 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l-~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~ 452 (843)
.++|++++. +|+||.+.+ +++...|+..++++++++++ ++++++...+ |++++.++ .|+.|+++.
T Consensus 17 ~~~l~~~~~---~~pPf~~~~-~~~~~~G~~~~i~~~i~~~~~~~~~~~~~~p---------w~r~l~~l-~~~~d~~~~ 82 (268)
T TIGR02285 17 KEAITWIVN---DFPPFFIFS-GPSKGRGVFDVILQEIRRALPQYEHRFVRVS---------FARSLKEL-QGKGGVCTV 82 (268)
T ss_pred cceeEEEec---ccCCeeEeC-CCCCCCChHHHHHHHHHHHcCCCceeEEECC---------HHHHHHHH-hcCCCeEEe
Confidence 578998876 688998875 36788999999999999998 8776666544 99999999 788887777
Q ss_pred ceeeecCcceeeeecccccc-cceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcc
Q 003167 453 DIAIVTNRTKAVDFTQPYIE-SGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRK 531 (843)
Q Consensus 453 ~~~i~~~r~~~vdfs~p~~~-~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~ 531 (843)
++++|++|.+.++||.||+. ...++++++..... .
T Consensus 83 ~~~~t~eR~~~~~Fs~P~~~~~~~~~~~~~~~~~~-~------------------------------------------- 118 (268)
T TIGR02285 83 NLLRTPEREKFLIFSDPTLRALPVGLVLRKELTAG-V------------------------------------------- 118 (268)
T ss_pred eccCCcchhhceeecCCccccCCceEEEccchhhh-c-------------------------------------------
Confidence 79999999999999999875 57888887754100 0
Q ss_pred cchhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhh-CCCeEEEEeC
Q 003167 532 QIVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMT-SNDRVGYQVG 610 (843)
Q Consensus 532 ~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~-~~~~i~~~~~ 610 (843)
..+.....++.+|.+ .|+++|+..|
T Consensus 119 ------------------------------------------------------~~~~d~~~~~~~l~~l~g~~vgv~~g 144 (268)
T TIGR02285 119 ------------------------------------------------------RDEQDGDVDLKKLLASKKKRLGVIAS 144 (268)
T ss_pred ------------------------------------------------------cccCCCCccHHHHhcCCCeEEEEecc
Confidence 000000012333321 4778999987
Q ss_pred chHHHHHH---HhhCCC-CcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcC----CCeEEeCCcc--ccCccee
Q 003167 611 SFAENYLI---EELSIP-KSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDH----CQFSVRGQEF--TKSGWGF 680 (843)
Q Consensus 611 ~~~~~~l~---~~~~~~-~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~----~~l~~~~~~~--~~~~~~~ 680 (843)
+.....+. +..+.. ..++..+++.++++++|.+|++|+++.+...+.+++++. ..+....... ...++++
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~GrvD~~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 224 (268)
T TIGR02285 145 RSYGQQIDDILSDSGYQHNTRIIGNAAMGNLFKMLEKGRVNYTLAYPPEKTYYEELNNGALPPLKFLPVAGMPAHISVWV 224 (268)
T ss_pred eeccHHHHHHHHhCCcccceeeeccchHHHHHHHHHcCCccEEEeCcHHHHHHHHhccCCcCCeeEeecCCCccceEEEE
Confidence 75533322 222211 123555677888999999999999999999999887642 2344443211 2235789
Q ss_pred eecCCC---CchHHHHHHHHhhhccccHHHHHHhhcc
Q 003167 681 AFPRDS---PLAIDMSTAILTLSENGELQRIHDKWLR 714 (843)
Q Consensus 681 ~~~k~s---pl~~~in~~i~~l~e~G~~~~~~~kw~~ 714 (843)
+++|+. .+++.||++|.+|.++|.++++.+||++
T Consensus 225 ~~~k~~~~~~l~~~in~~L~~l~~dG~~~~i~~k~~~ 261 (268)
T TIGR02285 225 ACPKTEWGRKVIADIDQALSELNVDPKYYKYFDRWLS 261 (268)
T ss_pred EeCCCHHHHHHHHHHHHHHHHHhhCHHHHHHHHHhCC
Confidence 999974 3999999999999999999999999997
No 100
>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=99.72 E-value=4.5e-16 Score=157.08 Aligned_cols=214 Identities=29% Similarity=0.518 Sum_probs=178.6
Q ss_pred eEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceee
Q 003167 377 LRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAI 456 (843)
Q Consensus 377 lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i 456 (843)
|+|++.. .++||.+.+ +++.+.|++.++++.+.+++|.+ +++.+ ..|.+++.+|.+|++|+++.....
T Consensus 1 l~i~~~~--~~~p~~~~~-~~g~~~G~~~~~~~~~~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~~ 68 (218)
T cd00134 1 LTVGTAG--TYPPFSFRD-ANGELTGFDVDLAKAIAKELGVK--VKFVE-------VDWDGLITALKSGKVDLIAAGMTI 68 (218)
T ss_pred CEEecCC--CCCCeeEEC-CCCCEEeeeHHHHHHHHHHhCCe--EEEEe-------CCHHHHHHHHhcCCcCEEeecCcC
Confidence 5788876 788998876 48999999999999999999966 44444 339999999999999999987778
Q ss_pred ecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccchhh
Q 003167 457 VTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIVTV 536 (843)
Q Consensus 457 ~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~ 536 (843)
+.+|...+.|+.|+.....++++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------------------------------- 95 (218)
T cd00134 69 TPERAKQVDFSDPYYKSGQVILVKKGS----------------------------------------------------- 95 (218)
T ss_pred CHHHHhhccCcccceeccEEEEEECCC-----------------------------------------------------
Confidence 889998999999999999999998776
Q ss_pred HHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCchHHHH
Q 003167 537 LWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFAENY 616 (843)
Q Consensus 537 ~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~~~~~ 616 (843)
++.+++||. |+++++..|+....+
T Consensus 96 ------------------------------------------------------~~~~~~dl~--g~~i~~~~~~~~~~~ 119 (218)
T cd00134 96 ------------------------------------------------------PIKSVKDLK--GKKVAVQKGSTAEKY 119 (218)
T ss_pred ------------------------------------------------------CCCChHHhC--CCEEEEEcCchHHHH
Confidence 455889994 889999988887777
Q ss_pred HHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcC-CCeEEeCCc--cccCcceeeecCCCC-chHHH
Q 003167 617 LIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDH-CQFSVRGQE--FTKSGWGFAFPRDSP-LAIDM 692 (843)
Q Consensus 617 l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~-~~l~~~~~~--~~~~~~~~~~~k~sp-l~~~i 692 (843)
+.+... ...+..+.+.++.++.|.+|++|+++.+.....+...+. +++.++... .....++++..++++ +...|
T Consensus 120 ~~~~~~--~~~~~~~~~~~~~~~~l~~g~~d~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 197 (218)
T cd00134 120 LKKALP--EAKVVSYDDNAEALAALENGRADAVIVDEIALAALLKKHPPELKIVGPSIDLEPLGFGVAVGKDNKELLDAV 197 (218)
T ss_pred HHHhCC--cccEEEeCCHHHHHHHHHcCCccEEEeccHHHHHHHHhcCCCcEEeccccCCCccceEEEEcCCCHHHHHHH
Confidence 755432 356778889999999999999999999999888877664 677777653 344456677777774 99999
Q ss_pred HHHHHhhhccccHHHHHHhhc
Q 003167 693 STAILTLSENGELQRIHDKWL 713 (843)
Q Consensus 693 n~~i~~l~e~G~~~~~~~kw~ 713 (843)
+++|..+.++|.++.+.+||+
T Consensus 198 ~~~l~~~~~~g~~~~i~~~~~ 218 (218)
T cd00134 198 NKALKELRADGELKKISKKWF 218 (218)
T ss_pred HHHHHHHHhCccHHHHHHhhC
Confidence 999999999999999999996
No 101
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=99.72 E-value=3.9e-16 Score=164.60 Aligned_cols=225 Identities=26% Similarity=0.383 Sum_probs=183.1
Q ss_pred CCCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEe
Q 003167 373 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 452 (843)
Q Consensus 373 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~ 452 (843)
....++|++... ..+||.+.+...+.+.||++|+++.+++.++.....+++. ..|++++..+..|++|+++.
T Consensus 32 ~~~~~~v~~~~~-~~~p~~~~~~~~~~~~G~dvdl~~~ia~~l~~~~~~~~~~-------~~~~~~~~~l~~g~~D~~~~ 103 (275)
T COG0834 32 ARGKLRVGTEAT-YAPPFEFLDAKGGKLVGFDVDLAKAIAKRLGGDKKVEFVP-------VAWDGLIPALKAGKVDIIIA 103 (275)
T ss_pred hcCeEEEEecCC-CCCCcccccCCCCeEEeeeHHHHHHHHHHhCCcceeEEec-------cchhhhhHHHhcCCcCEEEe
Confidence 456788998852 4568988875336999999999999999998653334443 46999999999999999999
Q ss_pred ceeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCccc
Q 003167 453 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 532 (843)
Q Consensus 453 ~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~ 532 (843)
++++|.+|.+.++||.||+..+..+++++...
T Consensus 104 ~~~~t~er~~~~~fs~py~~~~~~~~~~~~~~------------------------------------------------ 135 (275)
T COG0834 104 GMTITPERKKKVDFSDPYYYSGQVLLVKKDSD------------------------------------------------ 135 (275)
T ss_pred ccccCHHHhccccccccccccCeEEEEECCCC------------------------------------------------
Confidence 99999999999999999999999999988771
Q ss_pred chhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCch
Q 003167 533 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSF 612 (843)
Q Consensus 533 ~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~ 612 (843)
..+.+++||. |+++|++.|+.
T Consensus 136 ---------------------------------------------------------~~~~~~~DL~--gk~v~v~~gt~ 156 (275)
T COG0834 136 ---------------------------------------------------------IGIKSLEDLK--GKKVGVQLGTT 156 (275)
T ss_pred ---------------------------------------------------------cCcCCHHHhC--CCEEEEEcCcc
Confidence 2378999995 89999999998
Q ss_pred --HHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHH--HhcCCC-eEEeCCcccc-CcceeeecCC-
Q 003167 613 --AENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLF--LSDHCQ-FSVRGQEFTK-SGWGFAFPRD- 685 (843)
Q Consensus 613 --~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~--~~~~~~-l~~~~~~~~~-~~~~~~~~k~- 685 (843)
...+... ......++.+++..+.+.++.+|++|+++.+.+.+.++ ..+... .......... .+++++++|+
T Consensus 157 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~al~~Gr~Da~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 234 (275)
T COG0834 157 DEAEEKAKK--PGPNAKIVAYDSNAEALLALKNGRADAVVSDSAVLAGLKLLKKNPGLYVLLVFPGLSVEYLGIALRKGD 234 (275)
T ss_pred hhHHHHHhh--ccCCceEEeeCCHHHHHHHHHcCCccEEEcchHhhhhhhhhhcCCCCceeeeccCCCcceeEEEeccCC
Confidence 4444322 22346788899999999999999999999999998883 333332 3333333333 6899999999
Q ss_pred -CCchHHHHHHHHhhhccccHHHHHHhhcc
Q 003167 686 -SPLAIDMSTAILTLSENGELQRIHDKWLR 714 (843)
Q Consensus 686 -spl~~~in~~i~~l~e~G~~~~~~~kw~~ 714 (843)
..+++.+|+.|.++.++|.++++.++|+.
T Consensus 235 ~~~l~~~in~~l~~l~~~G~~~~i~~kw~~ 264 (275)
T COG0834 235 DPELLEAVNKALKELKADGTLQKISDKWFG 264 (275)
T ss_pred cHHHHHHHHHHHHHHHhCccHHHHHHHhcC
Confidence 46999999999999999999999999997
No 102
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=99.70 E-value=8.5e-16 Score=155.00 Aligned_cols=215 Identities=26% Similarity=0.523 Sum_probs=181.3
Q ss_pred eeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEecee
Q 003167 376 QLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIA 455 (843)
Q Consensus 376 ~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~ 455 (843)
+|+||+.. .++||...+. ++.+.|+++|+++.+.+.+|.+ +++.+ .+|..++.++.+|++|++++...
T Consensus 1 ~l~v~~~~--~~~p~~~~~~-~g~~~G~~~~~~~~~~~~~g~~--~~~~~-------~~~~~~~~~l~~g~~D~~~~~~~ 68 (219)
T smart00062 1 TLRVGTNG--DYPPFSFADE-DGELTGFDVDLAKAIAKELGLK--VEFVE-------VSFDNLLTALKSGKIDVVAAGMT 68 (219)
T ss_pred CEEEEecC--CCCCcEEECC-CCCcccchHHHHHHHHHHhCCe--EEEEe-------ccHHHHHHHHHCCcccEEecccc
Confidence 47899973 7889988764 6789999999999999999965 44444 35999999999999999998777
Q ss_pred eecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccchh
Q 003167 456 IVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIVT 535 (843)
Q Consensus 456 i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~ 535 (843)
.+.+|...+.++.|+...+.++++++..
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------------------------------------------- 96 (219)
T smart00062 69 ITPERAKQVDFSDPYYKSGQVILVRKDS---------------------------------------------------- 96 (219)
T ss_pred CCHHHHhheeeccceeeceeEEEEecCC----------------------------------------------------
Confidence 7788888899999999999998887655
Q ss_pred hHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCchHHH
Q 003167 536 VLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFAEN 615 (843)
Q Consensus 536 ~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~~~~ 615 (843)
++.+++||. |++|++..|+....
T Consensus 97 -------------------------------------------------------~~~~~~dL~--g~~i~~~~g~~~~~ 119 (219)
T smart00062 97 -------------------------------------------------------PIKSLEDLK--GKKVAVVAGTTGEE 119 (219)
T ss_pred -------------------------------------------------------CCCChHHhC--CCEEEEecCccHHH
Confidence 588999994 88999999988888
Q ss_pred HHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcC--CCeEEeCCcccc-CcceeeecCCCC-chHH
Q 003167 616 YLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDH--CQFSVRGQEFTK-SGWGFAFPRDSP-LAID 691 (843)
Q Consensus 616 ~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~--~~l~~~~~~~~~-~~~~~~~~k~sp-l~~~ 691 (843)
++... ....++..+++..+.+.+|.+|++|+++...+...+...+. +++.++...... ..++++++++++ +.+.
T Consensus 120 ~~~~~--~~~~~~~~~~~~~~~~~~l~~g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 197 (219)
T smart00062 120 LLKKL--YPEAKIVSYDSQAEALAALKAGRADAAVADAPALAALVKQHGLPELKIVGDPLDTPEGYAFAVRKGDPELLDK 197 (219)
T ss_pred HHHHh--CCCceEEEcCCHHHHHHHhhcCcccEEEeccHHHHHHHHhcCCCceeeccCCCCCCcceEEEEECCCHHHHHH
Confidence 77543 23356777888999999999999999999999888887664 567777665555 788999999987 9999
Q ss_pred HHHHHHhhhccccHHHHHHhhc
Q 003167 692 MSTAILTLSENGELQRIHDKWL 713 (843)
Q Consensus 692 in~~i~~l~e~G~~~~~~~kw~ 713 (843)
+++.|.++.++|.++++.++|+
T Consensus 198 ~~~~l~~~~~~~~~~~i~~~~~ 219 (219)
T smart00062 198 INKALKELKADGTLKKIYEKWF 219 (219)
T ss_pred HHHHHHHHHhCchHHHHHhccC
Confidence 9999999999999999999985
No 103
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.69 E-value=4.8e-16 Score=197.36 Aligned_cols=221 Identities=12% Similarity=0.160 Sum_probs=183.5
Q ss_pred CCCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEe
Q 003167 373 NGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVG 452 (843)
Q Consensus 373 ~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~ 452 (843)
+.++|+||+.. +++|+.+..+.++++.||.+|+++.|++.+|.+ +++++. .+|++++.++.+|++|++.+
T Consensus 54 ~~~~l~vgv~~--~~~p~~~~~~~~g~~~G~~~D~l~~ia~~lG~~--~e~v~~------~~~~~~l~~l~~g~iDl~~~ 123 (1197)
T PRK09959 54 SKKNLVIAVHK--SQTATLLHTDSQQRVRGINADYLNLLKRALNIK--LTLREY------ADHQKAMDALEEGEVDIVLS 123 (1197)
T ss_pred hCCeEEEEecC--CCCCCceeecCCCccceecHHHHHHHHHhcCCc--eEEEeC------CCHHHHHHHHHcCCCcEecC
Confidence 45789999985 555554443247899999999999999999955 666652 47999999999999999988
Q ss_pred ceeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCccc
Q 003167 453 DIAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQ 532 (843)
Q Consensus 453 ~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~ 532 (843)
.++.+++|.+.++||.||+.+..++++++..
T Consensus 124 ~~~~~~~r~~~~~fs~py~~~~~~~v~~~~~------------------------------------------------- 154 (1197)
T PRK09959 124 HLVASPPLNDDIAATKPLIITFPALVTTLHD------------------------------------------------- 154 (1197)
T ss_pred ccccccccccchhcCCCccCCCceEEEeCCC-------------------------------------------------
Confidence 8999999999999999999999999998755
Q ss_pred chhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCch
Q 003167 533 IVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSF 612 (843)
Q Consensus 533 ~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~ 612 (843)
.+++++|+ .++++++..|+.
T Consensus 155 ----------------------------------------------------------~~~~~~~l--~~~~i~~~~g~~ 174 (1197)
T PRK09959 155 ----------------------------------------------------------SMRPLTSS--KPVNIARVANYP 174 (1197)
T ss_pred ----------------------------------------------------------CCCCcccc--cCeEEEEeCCCC
Confidence 45667777 478899999999
Q ss_pred HHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCC--CeEEeCCc-cccCcceeeecCCCC-c
Q 003167 613 AENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHC--QFSVRGQE-FTKSGWGFAFPRDSP-L 688 (843)
Q Consensus 613 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~--~l~~~~~~-~~~~~~~~~~~k~sp-l 688 (843)
..+++.+.+ +..+++.|++.++++++|.+|++||++.+...+.|+++++. ++.+++.. ......+++++|+.| |
T Consensus 175 ~~~~~~~~~--p~~~i~~~~s~~~al~av~~G~~Da~i~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~L 252 (1197)
T PRK09959 175 PDEVIHQSF--PKATIISFTNLYQALASVSAGQNDYFIGSNIITSSMISRYFTHSLNVVKYYNSPRQYNFFLTRKESVIL 252 (1197)
T ss_pred CHHHHHHhC--CCCEEEeCCCHHHHHHHHHcCCCCEEEccHHHHHHHHhcccccceEEEeeccCCCCceeEEEcCCcHHH
Confidence 888886643 56789999999999999999999999999999999988743 45554322 223446688899988 8
Q ss_pred hHHHHHHHHhhhccccHHHHHHhhccc
Q 003167 689 AIDMSTAILTLSENGELQRIHDKWLRK 715 (843)
Q Consensus 689 ~~~in~~i~~l~e~G~~~~~~~kw~~~ 715 (843)
...+|++|..+.++|.. ++.+||+..
T Consensus 253 ~~~lnkal~~i~~~~~~-~i~~kW~~~ 278 (1197)
T PRK09959 253 NEVLNRFVDALTNEVRY-EVSQNWLDT 278 (1197)
T ss_pred HHHHHHHHHhCCHHHHH-HHHHhccCC
Confidence 89999999999999977 999999973
No 104
>TIGR03871 ABC_peri_MoxJ_2 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein. This protein family, a sister family to TIGR03870, is found more broadly. It occurs a range of PQQ-biosynthesizing species, not just in known methanotrophs. Interpretation of evidence by homology and by direct experimental work suggest two different roles. By homology, this family appears to be the periplasmic substrate-binding protein of an ABC transport family. However, mutational studies and direct characterization for some sequences related to this family suggests this family may act as a maturation chaperone or additional subunit of a methanol dehydrogenase-like enzyme.
Probab=99.65 E-value=5.1e-15 Score=151.69 Aligned_cols=210 Identities=16% Similarity=0.189 Sum_probs=159.5
Q ss_pred eEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceee
Q 003167 377 LRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAI 456 (843)
Q Consensus 377 lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i 456 (843)
|||++.. .|+||.+.+ ..|+++||++++++++|.+++++..+ ..+..++..+.+|++|++++
T Consensus 2 l~v~~~~--~~~P~~~~~-----~~G~~~el~~~i~~~~g~~i~~~~~~-------~~~~~~~~~l~~g~~Di~~~---- 63 (232)
T TIGR03871 2 LRVCADP--NNLPFSNEK-----GEGFENKIAQLLADDLGLPLEYTWFP-------QRRGFVRNTLNAGRCDVVIG---- 63 (232)
T ss_pred eEEEeCC--CCCCccCCC-----CCchHHHHHHHHHHHcCCceEEEecC-------cchhhHHHHHhcCCccEEEe----
Confidence 7888875 788987642 36999999999999999887776554 12344567899999999876
Q ss_pred ecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccchhh
Q 003167 457 VTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIVTV 536 (843)
Q Consensus 457 ~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~ 536 (843)
+.+|.+.++||.||+..++++++++...
T Consensus 64 ~~~r~~~~~fs~py~~~~~~lv~~~~~~---------------------------------------------------- 91 (232)
T TIGR03871 64 VPAGYEMVLTTRPYYRSTYVFVTRKDSL---------------------------------------------------- 91 (232)
T ss_pred ccCccccccccCCcEeeeEEEEEeCCCc----------------------------------------------------
Confidence 4678889999999999999999987751
Q ss_pred HHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCchHHHH
Q 003167 537 LWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFAENY 616 (843)
Q Consensus 537 ~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~~~~~ 616 (843)
.++++++|+...+.+||+..|+...++
T Consensus 92 -----------------------------------------------------~~~~~~~d~~l~g~~V~v~~g~~~~~~ 118 (232)
T TIGR03871 92 -----------------------------------------------------LDVKSLDDPRLKKLRIGVFAGTPPAHW 118 (232)
T ss_pred -----------------------------------------------------ccccchhhhhhcCCeEEEEcCChHHHH
Confidence 367888883225789999999998888
Q ss_pred HHHhhCCCCcceE---------eCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcC-CCeEEeCCcc------ccCccee
Q 003167 617 LIEELSIPKSRLV---------ALGSPEEYAIALENRTVAAVVDERPYIDLFLSDH-CQFSVRGQEF------TKSGWGF 680 (843)
Q Consensus 617 l~~~~~~~~~~~~---------~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~-~~l~~~~~~~------~~~~~~~ 680 (843)
+.+ .+.. .++. ...+.++++++|.+|++|+++.+...+.+++++. ..+.+..... ...++++
T Consensus 119 l~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~G~~Da~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 196 (232)
T TIGR03871 119 LAR-HGLV-ENVVGYSLFGDYRPESPPGRMVEDLAAGEIDVAIVWGPIAGYFAKQAGPPLVVVPLLPEDGGIPFDYRIAM 196 (232)
T ss_pred HHh-cCcc-cccccccccccccccCCHHHHHHHHHcCCcCEEEeccHHHHHHHHhCCCCceeeccccCCCCCCccceEEE
Confidence 854 2221 1221 1347899999999999999999988888877653 2344433211 2235688
Q ss_pred eecCCCC-chHHHHHHHHhhhccccHHHHHHhhc
Q 003167 681 AFPRDSP-LAIDMSTAILTLSENGELQRIHDKWL 713 (843)
Q Consensus 681 ~~~k~sp-l~~~in~~i~~l~e~G~~~~~~~kw~ 713 (843)
+++++++ ++..||++|.++. |.+++|.+||.
T Consensus 197 ~~~~~~~~l~~~~n~~l~~~~--~~~~~i~~kyg 228 (232)
T TIGR03871 197 GVRKGDKAWKDELNAVLDRRQ--AEIDAILREYG 228 (232)
T ss_pred EEecCCHHHHHHHHHHHHHHH--HHHHHHHHHcC
Confidence 8998877 9999999999985 47999999994
No 105
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=99.45 E-value=4.7e-13 Score=124.04 Aligned_cols=123 Identities=33% Similarity=0.521 Sum_probs=107.5
Q ss_pred CCCChHHhhhC-CCeEEEEeCchHHHHHHHhhCCC---------CcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHH
Q 003167 591 PIKGIDTLMTS-NDRVGYQVGSFAENYLIEELSIP---------KSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFL 660 (843)
Q Consensus 591 ~i~s~~dL~~~-~~~i~~~~~~~~~~~l~~~~~~~---------~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~ 660 (843)
||++++||..+ +.+||++.|++.+.++.+..... ..+++.+++..+++.+|.+|+ ||++.+.+.+.++.
T Consensus 1 ~i~~~~dl~~~~~~~vgv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~-da~v~d~~~~~~~~ 79 (134)
T smart00079 1 PITSVEDLAKQTKIEYGTIRGSSTLAFFKRSGNPEYSRMWNYMSASPSVFVKSYAEGVQRVRVSN-YAFLMESTYLDYEL 79 (134)
T ss_pred CCCChHHHhhCCCccceEecCchHHHHHHhCCChHHHHHHHHHHhCCCCCCCCHHHHHHHHHcCC-CEEEeehHhHHHHH
Confidence 58899999743 36899999999999996532210 025677899999999999999 99999999999998
Q ss_pred hcCCCeEEeCCccccCcceeeecCCCCchHHHHHHHHhhhccccHHHHHHhhcc
Q 003167 661 SDHCQFSVRGQEFTKSGWGFAFPRDSPLAIDMSTAILTLSENGELQRIHDKWLR 714 (843)
Q Consensus 661 ~~~~~l~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~kw~~ 714 (843)
++.|++.+++..+...+++++++||++|++.+|.+|.++.++|.++++.++|+.
T Consensus 80 ~~~~~~~~~~~~~~~~~~~ia~~k~~~l~~~vn~~l~~l~~~G~~~~l~~kw~~ 133 (134)
T smart00079 80 SQNCDLMTVGENFGRKGYGIAFPKGSPLRDDLSRAILKLSESGELQKLENKWWK 133 (134)
T ss_pred hCCCCeEEcCcccCCCceEEEecCCCHHHHHHHHHHHHHHhcCcHHHHHHhhcc
Confidence 888999999988888899999999999999999999999999999999999986
No 106
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=99.34 E-value=1.4e-11 Score=124.15 Aligned_cols=219 Identities=18% Similarity=0.193 Sum_probs=177.6
Q ss_pred CCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEec
Q 003167 374 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 453 (843)
Q Consensus 374 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~ 453 (843)
...|||++.++ |..+... ++...|+++++.+.+++.|| ++.+..+. .+-+.++.+|.+|++|+++++
T Consensus 22 rGvLrV~tins----p~sy~~~-~~~p~G~eYelak~Fa~yLg--V~Lki~~~------~n~dqLf~aL~ng~~DL~Aag 88 (473)
T COG4623 22 RGVLRVSTINS----PLSYFED-KGGPTGLEYELAKAFADYLG--VKLKIIPA------DNIDQLFDALDNGNADLAAAG 88 (473)
T ss_pred cCeEEEEeecC----ccceecc-CCCccchhHHHHHHHHHHhC--CeEEEEec------CCHHHHHHHHhCCCcceeccc
Confidence 46799999873 4444432 56777999999999999999 55666653 457999999999999999999
Q ss_pred eeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccc
Q 003167 454 IAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQI 533 (843)
Q Consensus 454 ~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~ 533 (843)
....++|.+.+....-|+..++.++.++..
T Consensus 89 l~~~~~~l~~~~~gP~y~svs~qlVyRkG~-------------------------------------------------- 118 (473)
T COG4623 89 LLYNSERLKNFQPGPTYYSVSQQLVYRKGQ-------------------------------------------------- 118 (473)
T ss_pred ccCChhHhcccCCCCceecccHHHHhhcCC--------------------------------------------------
Confidence 999999999888888899999999888877
Q ss_pred hhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCchH
Q 003167 534 VTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFA 613 (843)
Q Consensus 534 ~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~~ 613 (843)
...+++++|. |..+-+..|+..
T Consensus 119 --------------------------------------------------------~Rp~~l~~L~--g~~i~v~~gs~~ 140 (473)
T COG4623 119 --------------------------------------------------------YRPRSLGQLK--GRQITVAKGSAH 140 (473)
T ss_pred --------------------------------------------------------CCCCCHHHcc--CceeeccCCcHH
Confidence 4567889995 777888899876
Q ss_pred HHHHHHhh--CCCCcceEeC---CCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEeCCccccCcceeeecCCC--
Q 003167 614 ENYLIEEL--SIPKSRLVAL---GSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQEFTKSGWGFAFPRDS-- 686 (843)
Q Consensus 614 ~~~l~~~~--~~~~~~~~~~---~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~k~s-- 686 (843)
.+.++... ..+ ..+... .+.+|.++.+..|..+..+.++..+..+.+-++++.+.-+.....+.++.+|.+.
T Consensus 141 ~~~l~~lk~~kyP-~l~~k~d~~~~~~dLle~v~~Gkldytiads~~is~~q~i~P~laVafd~tde~~v~Wy~~~~dd~ 219 (473)
T COG4623 141 VEDLKLLKETKYP-ELIWKVDDKLGVEDLLEMVAEGKLDYTIADSVEISLFQRVHPELAVAFDLTDEQPVAWYLPRDDDS 219 (473)
T ss_pred HHHHHHHHHhhcc-hhhhhhcccccHHHHHHHHhcCCcceeeeccHHHHHHHHhCccceeeeecccccCceeeccCCchH
Confidence 65553211 112 222222 3678999999999999999999999888777888888777666789999999964
Q ss_pred CchHHHHHHHHhhhccccHHHHHHhhcc
Q 003167 687 PLAIDMSTAILTLSENGELQRIHDKWLR 714 (843)
Q Consensus 687 pl~~~in~~i~~l~e~G~~~~~~~kw~~ 714 (843)
.|...++..+..+.|.|.++++++||++
T Consensus 220 tL~a~ll~F~~~~~e~g~larleeky~g 247 (473)
T COG4623 220 TLSAALLDFLNEAKEDGLLARLEEKYLG 247 (473)
T ss_pred HHHHHHHHHHHHhhcchHHHHHHHHHhc
Confidence 4999999999999999999999999997
No 107
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=99.22 E-value=2.8e-10 Score=118.67 Aligned_cols=162 Identities=22% Similarity=0.304 Sum_probs=132.8
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
+++++|||+.++.....+...+...++|+|++.+..+... .+++++++.+++..++..+++++.+.+|+++++++.+.
T Consensus 57 ~~~d~ii~~~~~~~~~~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~ 134 (269)
T cd01391 57 QGVDGIIGPPSSSSALAVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDD 134 (269)
T ss_pred cCCCEEEecCCCHHHHHHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCC
Confidence 5789999999988777688889999999999887765544 56899999999999999999999999999999999877
Q ss_pred -CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC-CCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 83 -DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM-EARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 83 -~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~-~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
.++....+.+++.+++.|.++......+.. .+.++......+++. ++++|++++. ..+..+++++.+.|+...+
T Consensus 135 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~ 210 (269)
T cd01391 135 GAYGRERLEGFKAALKKAGIEVVAIEYGDLD---TEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGD 210 (269)
T ss_pred cchhhHHHHHHHHHHHhcCcEEEeccccCCC---ccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCC
Confidence 678888999999999999877654444333 235677777888776 7899998877 7888899999999987456
Q ss_pred eEEEEeCccc
Q 003167 161 YVWIATTWLS 170 (843)
Q Consensus 161 ~~~i~~~~~~ 170 (843)
+.|+..+.+.
T Consensus 211 ~~ii~~~~~~ 220 (269)
T cd01391 211 ISIIGFDGSP 220 (269)
T ss_pred CEEEeccccc
Confidence 6777666543
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=99.01 E-value=4.6e-09 Score=109.13 Aligned_cols=199 Identities=20% Similarity=0.169 Sum_probs=142.2
Q ss_pred CCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEec
Q 003167 374 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 453 (843)
Q Consensus 374 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~ 453 (843)
..+|+||+.. .++|+.. .+...++.+.+++++|.++++... .+|+.++..+.+|++|+++.+
T Consensus 31 ~~~l~vg~~~--~~~~~~~--------~~~~~~l~~~l~~~~g~~v~~~~~--------~~~~~~~~~l~~g~~Di~~~~ 92 (254)
T TIGR01098 31 PKELNFGILP--GENASNL--------TRRWEPLADYLEKKLGIKVQLFVA--------TDYSAVIEAMRFGRVDIAWFG 92 (254)
T ss_pred CCceEEEECC--CCCHHHH--------HHHHHHHHHHHHHHhCCcEEEEeC--------CCHHHHHHHHHcCCccEEEEC
Confidence 3579999974 4444322 234578999999999976555432 469999999999999999865
Q ss_pred eeeec---Ccceeeeeccccccc------ceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCC
Q 003167 454 IAIVT---NRTKAVDFTQPYIES------GLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDE 524 (843)
Q Consensus 454 ~~i~~---~r~~~vdfs~p~~~~------~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~ 524 (843)
..... +|....+|+.|+... ...+++++..
T Consensus 93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~d~----------------------------------------- 131 (254)
T TIGR01098 93 PSSYVLAHYRANAEVFALTAVSTDGSPGYYSVIIVKADS----------------------------------------- 131 (254)
T ss_pred cHHHHHHHHhcCCceEEeeccccCCCCceEEEEEEECCC-----------------------------------------
Confidence 54332 566667888876543 2355665433
Q ss_pred CCCCCcccchhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCe
Q 003167 525 FRGPPRKQIVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDR 604 (843)
Q Consensus 525 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~ 604 (843)
+|++++||. |++
T Consensus 132 ------------------------------------------------------------------~i~~~~dL~--gk~ 143 (254)
T TIGR01098 132 ------------------------------------------------------------------PIKSLKDLK--GKT 143 (254)
T ss_pred ------------------------------------------------------------------CCCChHHhc--CCE
Confidence 689999994 889
Q ss_pred EEEEe-CchH-----HHHHHHhhCCCC----cceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCC----CeEEeC
Q 003167 605 VGYQV-GSFA-----ENYLIEELSIPK----SRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHC----QFSVRG 670 (843)
Q Consensus 605 i~~~~-~~~~-----~~~l~~~~~~~~----~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~----~l~~~~ 670 (843)
|++.. ++.. ..++.+..+... .++....+..+.++++.+|++|+.+.+.+.+..+..+.. ++.++.
T Consensus 144 I~~~~~~s~~~~~~~~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~al~~G~~Da~~~~~~~~~~~~~~~~~~~~~~~~~~ 223 (254)
T TIGR01098 144 FAFGDPASTSGYLVPRYQLKKEGGLDADGFFSEVVFSGSHDASALAVANGKVDAATNNSSAIGRLKKRGPSDMKKVRVIW 223 (254)
T ss_pred EEeeCCCCccchHhHHHHHHHhcCCChHHhhhheeecCchHHHHHHHHcCCCCeEEecHHHHHHHHHhCccchhheEEEE
Confidence 99874 3321 234444444321 345556678899999999999999999988877766532 578887
Q ss_pred CccccCcceeeecCC-CC-chHHHHHHHHhh
Q 003167 671 QEFTKSGWGFAFPRD-SP-LAIDMSTAILTL 699 (843)
Q Consensus 671 ~~~~~~~~~~~~~k~-sp-l~~~in~~i~~l 699 (843)
+.....+++++++|+ .+ +++.+|++|..+
T Consensus 224 ~~~~~~~~~~~~~~~~~~~l~~~i~~~l~~~ 254 (254)
T TIGR01098 224 KSPLIPNDPIAVRKDLPPELKEKIRDAFLTL 254 (254)
T ss_pred ecCCCCCCCEEEECCCCHHHHHHHHHHHhhC
Confidence 666666789999999 54 999999999764
No 109
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=98.92 E-value=7.2e-09 Score=108.62 Aligned_cols=164 Identities=17% Similarity=0.223 Sum_probs=133.9
Q ss_pred CChHHHHHHHHcCcccEEEeceeeecCcceeeeeccc--ccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHH
Q 003167 433 PTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQP--YIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVV 510 (843)
Q Consensus 433 ~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p--~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~ 510 (843)
.+|.+++..|.+|++|+++.+..++.+|.+.++|+.| |....+++++|...
T Consensus 51 ~~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v~~~~~l~~~~~~lvvvvp~~~--------------------------- 103 (287)
T PRK00489 51 LRPDDIPGYVADGVVDLGITGEDLLEESGADVEELLDLGFGKCRLVLAVPEDS--------------------------- 103 (287)
T ss_pred ECcHHHHHHHHcCCCCEEEcchHHHHHCCCCceEeeeccCCceEEEEEEECCC---------------------------
Confidence 4589999999999999999999999999999999987 77777888887665
Q ss_pred HHHhhhhhcccCCCCCCCCcccchhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccC
Q 003167 511 GTVVWILEHRLNDEFRGPPRKQIVTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSS 590 (843)
Q Consensus 511 ~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~ 590 (843)
T Consensus 104 -------------------------------------------------------------------------------- 103 (287)
T PRK00489 104 -------------------------------------------------------------------------------- 103 (287)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCChHHhhhCCCeEEEEeCchHHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEeC
Q 003167 591 PIKGIDTLMTSNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRG 670 (843)
Q Consensus 591 ~i~s~~dL~~~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~ 670 (843)
+|++++||. |+++++..+.....++.+ .+.. .+++.+.+..|. ++..|..|++++.......+.++ ++.++
T Consensus 104 ~i~sl~DL~--Gk~ia~~~~~~~~~~l~~-~gi~-~~iv~~~gs~ea--a~~~G~aDaivd~~~~~~~l~~~--~L~~v- 174 (287)
T PRK00489 104 DWQGVEDLA--GKRIATSYPNLTRRYLAE-KGID-AEVVELSGAVEV--APRLGLADAIVDVVSTGTTLRAN--GLKIV- 174 (287)
T ss_pred CCCChHHhC--CCEEEEcCcHHHHHHHHH-cCCc-eEEEECCCchhh--hhcCCcccEEEeeHHHHHHHHHC--CCEEE-
Confidence 688899995 889999888888888843 4543 466677766664 56669999999888877776553 57777
Q ss_pred CccccCcceeeecC--CCC-chHHHHHHHHhhhccccHHHHHHhhcc
Q 003167 671 QEFTKSGWGFAFPR--DSP-LAIDMSTAILTLSENGELQRIHDKWLR 714 (843)
Q Consensus 671 ~~~~~~~~~~~~~k--~sp-l~~~in~~i~~l~e~G~~~~~~~kw~~ 714 (843)
+.......+++.+| .+| ....+|..+.++ .|.+..+.+||+.
T Consensus 175 ~~~~~~~~~li~~k~~~~~~~~~~i~~~l~~l--~g~l~a~~~k~~~ 219 (287)
T PRK00489 175 EVILRSEAVLIARKGWLDPEKQEKIDQLLTRL--QGVLRARESKYLM 219 (287)
T ss_pred EeeeeeeEEEEEcccccChhHHHHHHHHHHHH--HHHHHhhceEEEE
Confidence 56666778999999 666 888899999999 5999999999997
No 110
>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=98.74 E-value=2.8e-09 Score=81.70 Aligned_cols=49 Identities=24% Similarity=0.548 Sum_probs=39.4
Q ss_pred CcceEEeEeHHHHHHHHHHCCCcccEEEEeCC---CCCCCCChHHHHHHHHc
Q 003167 396 GTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYG---DGHKNPTYSELINQITT 444 (843)
Q Consensus 396 ~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~---~~~~n~~~~~~i~~l~~ 444 (843)
++.++.|||+||+++|++.|||++++..++.+ ...+|++|+|++++|.+
T Consensus 14 g~~~~eGyciDll~~la~~l~F~y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 14 GNDRYEGYCIDLLEELAEELNFTYEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp GGGGEESHHHHHHHHHHHHHT-EEEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CCccEEEEHHHHHHHHHHHcCCeEEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 57799999999999999999999777777643 23368999999999974
No 111
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=98.72 E-value=2.6e-07 Score=104.70 Aligned_cols=252 Identities=14% Similarity=0.165 Sum_probs=133.9
Q ss_pred CCCeEEEEcCCChHHHHHHHHhccc--CCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEE
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANE--LQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF 79 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~--~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~ 79 (843)
++|+..||||..=....+++..-.. -.||++.....+.. .. -+.++...-+....+..+|+.+..-|+++..|++
T Consensus 276 ~~ga~~ViGPL~k~~V~~l~~~~~~~~~~vp~LaLN~~~~~-~~--~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~ 352 (536)
T PF04348_consen 276 ADGADFVIGPLLKSNVEALAQLPQLQAQPVPVLALNQPDNS-QA--PPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLA 352 (536)
T ss_dssp HTT--EEE---SHHHHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEE
T ss_pred HcCCCEEEcCCCHHHHHHHHhcCcccccCCceeeccCCCcc-cC--ccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEc
Confidence 4689999999988877777765443 58999998665543 11 2344555555566789999999999999999999
Q ss_pred ecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCccc
Q 003167 80 NDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDS 159 (843)
Q Consensus 80 ~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~ 159 (843)
.+++||+...++|.+..++.|+.++....+. . ..|+...++.-...+.|.|++.+.+.+++.+--...-. ...
T Consensus 353 p~~~~g~R~~~aF~~~W~~~gg~~~~~~~~~-~----~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~--~a~ 425 (536)
T PF04348_consen 353 PQNAWGQRMAEAFNQQWQALGGQVAEVSYYG-S----PADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFH--FAG 425 (536)
T ss_dssp ESSHHHHHHHHHHHHHHHHHHSS--EEEEES-S----TTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT---T-T
T ss_pred CCChHHHHHHHHHHHHHHHcCCCceeeEecC-C----HHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhcccc--cCC
Confidence 9999999999999999999999887666664 3 46888888866667899999999998888765554321 112
Q ss_pred ceEEEEeCcccccccCCCCCChhhhhhccccEEEEEe---CCCchhhHHHHHHHhhhcCCCCCCCcchhhHhhHHHHHHH
Q 003167 160 GYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQH---TPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIAR 236 (843)
Q Consensus 160 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~---~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~YDAv~~la~ 236 (843)
+-..+.++-..... .++.....++|+.....+ .+..+..+.+...|.+..+ .....-+.+|||..++.+
T Consensus 426 ~lPvyatS~~~~g~-----~~~~~~~dL~gv~f~d~Pwll~~~~~~~~~~~~~~~~~~~---~~~RL~AlG~DA~~L~~~ 497 (536)
T PF04348_consen 426 DLPVYATSRSYSGS-----PNPSQDRDLNGVRFSDMPWLLDPNSPLRQQLAALWPNASN---SLQRLYALGIDAYRLAPR 497 (536)
T ss_dssp T-EEEE-GGG--HH-----T-HHHHHHTTT-EEEE-GGGG---SHHHHHHH-HHTTT-H---HHHHHHHHHHHHHHHHHT
T ss_pred CCCEEEeccccCCC-----CCcchhhhhcCCEEeccccccCCCchHHHHHHhhccCCcc---HHHHHHHHHHHHHHHHHH
Confidence 22333333221110 113445678998887653 2333444445444432210 111223456666543311
Q ss_pred HHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHHHHHhcccCCcceeeEeccCCCccCCcEEEEE
Q 003167 237 ALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIIN 311 (843)
Q Consensus 237 Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~f~G~tG~v~fd~~G~~~~~~~~I~~ 311 (843)
+ .-++.+....+.|.||.+++|++|. +.....-.+
T Consensus 498 -l--------------------------------------~~l~~~~~~~~~G~TG~L~~~~~g~-i~R~l~wa~ 532 (536)
T PF04348_consen 498 -L--------------------------------------PQLRQFPGYRLDGLTGQLSLDEDGR-IERQLSWAQ 532 (536)
T ss_dssp -H--------------------------------------HHHHHSTT--EEETTEEEEE-TT-B-EEEE-EEEE
T ss_pred -H--------------------------------------HHHhhCCCCcccCCceeEEECCCCe-EEEeeccee
Confidence 1 1133334456899999999999985 544444433
No 112
>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=98.36 E-value=7.7e-06 Score=86.57 Aligned_cols=117 Identities=20% Similarity=0.257 Sum_probs=77.6
Q ss_pred CCCCChHHhhhCCCeEEEE-eCchHHH-----HHHHhhCCCCc---ceEeCC-CHHHHHHHHhcCCcEEEEcChhhHHHH
Q 003167 590 SPIKGIDTLMTSNDRVGYQ-VGSFAEN-----YLIEELSIPKS---RLVALG-SPEEYAIALENRTVAAVVDERPYIDLF 659 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~-~~~~~~~-----~l~~~~~~~~~---~~~~~~-~~~~~~~~l~~g~~~a~~~~~~~~~~~ 659 (843)
.+|++++|| .|++||+. .++.... .+.+..+.... +.+.+. +..+.+.+|..|++|+.+.+...+..+
T Consensus 125 s~i~sl~DL--~Gk~v~~~~~~s~~~~~~~~~~l~~~~g~~~~~~~~~v~~~~~~~~~~~al~~G~vDa~~~~~~~~~~~ 202 (288)
T TIGR03431 125 SPIKSLEDL--KGKTFGFVDPNSTSGFLVPSYYLFKKNGIKPKEYFKKVTFSGSHEAAILAVANGTVDAATTNDENLDRM 202 (288)
T ss_pred CCCCcHHHh--CCCEEEeeCCCcchhhHHHHHHHHHhcCCChHHhHHhheecCchHHHHHHHHcCCCCeEeccHHHHHHH
Confidence 378999999 48899986 3443221 22233343321 223444 688899999999999999988877776
Q ss_pred Hhc-C----CCeEEeCCccccCcceeeecCCC-C-chHHHHHHHHhhhccccHHHH
Q 003167 660 LSD-H----CQFSVRGQEFTKSGWGFAFPRDS-P-LAIDMSTAILTLSENGELQRI 708 (843)
Q Consensus 660 ~~~-~----~~l~~~~~~~~~~~~~~~~~k~s-p-l~~~in~~i~~l~e~G~~~~~ 708 (843)
..+ . .++.+....-.....+++++++. + +.+.+++++.++.+++..+++
T Consensus 203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~~~~~ 258 (288)
T TIGR03431 203 IRKGQPDAMEDLRIIWKSPLIPNGPIVYRKDLPADLKAKIRKAFLNYHKTDKACFE 258 (288)
T ss_pred HHcCCCCchhheEEEEEcCCCCCCcEEEeCCCCHHHHHHHHHHHHhcCCCcHHHHH
Confidence 653 2 12444432111234678899994 3 999999999999999765544
No 113
>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=98.07 E-value=4e-05 Score=79.65 Aligned_cols=154 Identities=12% Similarity=0.048 Sum_probs=110.0
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
.++.+||+...+.......+.+...++|+|.+.+..+. .++++++.+++...+..+++++...|-++++++..++
T Consensus 54 ~~~d~ii~~~~~~~~~~~~~~l~~~~ip~v~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~ 128 (264)
T cd01537 54 RGVDGIIIAPSDLTAPTIVKLARKAGIPVVLVDRDIPD-----GDRVPSVGSDNEQAGYLAGEHLAEKGHRRIALLAGPL 128 (264)
T ss_pred cCCCEEEEecCCCcchhHHHHhhhcCCCEEEeccCCCC-----CcccceEecCcHHHHHHHHHHHHHhcCCcEEEEECCC
Confidence 47888887766655554678888999999998776543 2567788888888899999999888999999998765
Q ss_pred C--CCcchHHHHHHHHHhcC-cEEEEeeecCCCCCCChhHHHHHHHHHhcCC--CeEEEEEcChhhHHHHHHHHHHcCCc
Q 003167 83 D--QGRNGVTALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 83 ~--~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~--~~viv~~~~~~~~~~i~~~a~~~g~~ 157 (843)
. ++....+.|.+.+++.| ..+....... .+..+....+.++.+.+ ++++++... ..+..+++++.+.|+.
T Consensus 129 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~ 203 (264)
T cd01537 129 GSSTARERVAGFKDALKEAGPIEIVLVQEGD----WDAEKGYQAAEELLTAHPDPTAIFAAND-DMALGALRALREAGLR 203 (264)
T ss_pred CCCcHHHHHHHHHHHHHHcCCcChhhhccCC----CCHHHHHHHHHHHHhcCCCCCEEEEcCc-HHHHHHHHHHHHhCCC
Confidence 4 66677899999999887 4433222222 23566677777777766 566665544 4566688899998876
Q ss_pred ccceEEEEe
Q 003167 158 DSGYVWIAT 166 (843)
Q Consensus 158 ~~~~~~i~~ 166 (843)
.++.+-|.+
T Consensus 204 i~~~i~i~~ 212 (264)
T cd01537 204 VPDDISVIG 212 (264)
T ss_pred CCCCeEEEe
Confidence 444454443
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=97.87 E-value=0.00015 Score=75.30 Aligned_cols=154 Identities=11% Similarity=0.029 Sum_probs=105.0
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
+++.+||....+..+.. .+.+...++|+|...+..+. +.+..+.+++...+..+++.+...|.+++++++.+.
T Consensus 54 ~~~d~iii~~~~~~~~~-~~~~~~~~ipvv~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~ 126 (264)
T cd06267 54 RRVDGIILAPSRLDDEL-LEELAALGIPVVLVDRPLDG------LGVDSVGIDNRAGAYLAVEHLIELGHRRIAFIGGPP 126 (264)
T ss_pred cCcCEEEEecCCcchHH-HHHHHHcCCCEEEecccccC------CCCCEEeeccHHHHHHHHHHHHHCCCceEEEecCCC
Confidence 57888887666555555 67788999999998665432 345566777777888888888878999999998754
Q ss_pred C--CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCC--CeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 83 D--QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 83 ~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~--~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
. ++....+.+.+.+++.|..+.....+... .+..+....+.++.+.. +++|+.. ....+..+++++++.|+..
T Consensus 127 ~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~al~~~g~~~ 203 (264)
T cd06267 127 DLSTARERLEGYREALEEAGIPLDEELIVEGD--FSEESGYEAARELLASGERPTAIFAA-NDLMAIGALRALRELGLRV 203 (264)
T ss_pred ccchHHHHHHHHHHHHHHcCCCCCcceEEecc--cchhhHHHHHHHHHhcCCCCcEEEEc-CcHHHHHHHHHHHHhCCCC
Confidence 4 67777889999999888543222222222 22456666777776655 6666654 4455667888888888754
Q ss_pred cceEEEEe
Q 003167 159 SGYVWIAT 166 (843)
Q Consensus 159 ~~~~~i~~ 166 (843)
++.+.|.+
T Consensus 204 ~~~i~i~~ 211 (264)
T cd06267 204 PEDVSVVG 211 (264)
T ss_pred CCceEEEe
Confidence 44444443
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=97.86 E-value=0.00037 Score=72.57 Aligned_cols=145 Identities=12% Similarity=0.057 Sum_probs=98.7
Q ss_pred CCeEEEEcCCC-hHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEE
Q 003167 3 TDTLAIVGPQS-AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIF 79 (843)
Q Consensus 3 ~~V~aiiGp~~-S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~ 79 (843)
.+|++||+... +.......+.+...++|+|...+..+. .+.+..+.+++...+..+++++... |-+++++++
T Consensus 54 ~~vdgvi~~~~~~~~~~~~~~~l~~~~ip~V~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~ 128 (267)
T cd01536 54 QGVDGIIISPVDSAALTPALKKANAAGIPVVTVDSDIDG-----GNRLAYVGTDNYEAGRLAGEYLAKLLGGKGKVAIIE 128 (267)
T ss_pred cCCCEEEEeCCCchhHHHHHHHHHHCCCcEEEecCCCCc-----cceeEEEecCHHHHHHHHHHHHHHHhCCCceEEEEE
Confidence 47888875433 333334556677889999997664432 1345567777777788888888776 889999998
Q ss_pred ecC--CCCcchHHHHHHHHHhc-CcEEEEeeecCCCCCCChhHHHHHHHHHhcCCC--eEEEEEcChhhHHHHHHHHHHc
Q 003167 80 NDD--DQGRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMMEA--RVIVVHGYSRTGLMVFDVAQRL 154 (843)
Q Consensus 80 ~d~--~~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~--~viv~~~~~~~~~~i~~~a~~~ 154 (843)
.++ .++....+.|.+.+++. |.++....... .+..+....+.++.+..+ ++|++ ++...+..+++++++.
T Consensus 129 ~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~i~~-~~d~~a~~~~~~l~~~ 203 (267)
T cd01536 129 GPPGSSNAQERVKGFRDALKEYPDIEIVAVQDGN----WDREKALQAMEDLLQANPDIDAIFA-ANDSMALGAVAALKAA 203 (267)
T ss_pred cccccchHHHHHHHHHHHHHhCCCcEEEEEecCC----CcHHHHHHHHHHHHHhCCCccEEEE-ecCCchHHHHHHHHhc
Confidence 754 47778899999999998 46655432222 224566677777765554 44444 4445667789999998
Q ss_pred CCc
Q 003167 155 GMM 157 (843)
Q Consensus 155 g~~ 157 (843)
|+.
T Consensus 204 g~~ 206 (267)
T cd01536 204 GRK 206 (267)
T ss_pred CCC
Confidence 875
No 116
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=97.58 E-value=0.00052 Score=70.57 Aligned_cols=121 Identities=24% Similarity=0.289 Sum_probs=77.8
Q ss_pred CCCCChHHhhhCCCeEEEEeCchH-----HHHHH-HhhCCCC---cceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHH
Q 003167 590 SPIKGIDTLMTSNDRVGYQVGSFA-----ENYLI-EELSIPK---SRLVALGSPEEYAIALENRTVAAVVDERPYIDLFL 660 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~~~~~~-----~~~l~-~~~~~~~---~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~ 660 (843)
.+|++++||. |++|++...+.. ..... +..++.. .+.+...+.+..+.+|.+|++|+.+......+.+.
T Consensus 95 s~i~~l~dL~--Gk~v~~~~~~s~sg~l~~~~~L~~~~Gl~~~~~~~~~~~~~~~~~~~~l~~G~~Da~~~~~~~~~~~~ 172 (243)
T PF12974_consen 95 SPITSLADLK--GKRVAFPDPSSTSGYLIPRYELLREAGLDPGDDFKQVFVGSHDAVLEALLNGKADAAAIPSDAFERLE 172 (243)
T ss_dssp SS--SHHHHG--GSEEEEE-TT-TTTTHHHHHHTCCCCT--HHHHSSEEEEE-HHHHHHHHHTTSSSEEEEEHHHHHHHH
T ss_pred CCCCChhhcC--CCEEEEecCCccHHHHHHHHHHHHHcCCChhHceeEEEeCCHHHHHHHHHcCCccEEEEechhHHHHH
Confidence 4799999995 999999754422 22222 2334442 13445678899999999999999998888777776
Q ss_pred hcC----CCeEEeCCccccCcceeeecCCCC--chHHHHHHHHhhhccccHHHHHHhh
Q 003167 661 SDH----CQFSVRGQEFTKSGWGFAFPRDSP--LAIDMSTAILTLSENGELQRIHDKW 712 (843)
Q Consensus 661 ~~~----~~l~~~~~~~~~~~~~~~~~k~sp--l~~~in~~i~~l~e~G~~~~~~~kw 712 (843)
... .+++++...-......++.+++-| .++.|-.+++.+..+..-.++.+.+
T Consensus 173 ~~~~~~~~~~rvl~~s~~~p~~~~~~~~~~~~~~~~~l~~al~~~~~~~~~~~~l~~~ 230 (243)
T PF12974_consen 173 AEGPDIPSQLRVLWTSPPYPNWPLVASPDLPPELRQRLRDALLSLSKDPEGKAILDAF 230 (243)
T ss_dssp HH-HHHHTTEEEEEEEEEEE--EEEEETTS-HHHHHHHHHHHHHTTSSHHHHHHHHHT
T ss_pred HccCcccccEEEEEEeCCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCChhhHHHHHhc
Confidence 542 357776554333455777888766 8999999999999865555555554
No 117
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=97.56 E-value=0.00099 Score=69.42 Aligned_cols=151 Identities=11% Similarity=0.105 Sum_probs=96.2
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec-
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND- 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d- 81 (843)
++|++||....+.......+.+.+.++|+|......+ ...+++ ..++...+..+++++...|.++++++..+
T Consensus 54 ~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~~~----~~~~~v---~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~ 126 (266)
T cd06282 54 QRVDGLILTVADAATSPALDLLDAERVPYVLAYNDPQ----PGRPSV---SVDNRAAARDVAQALAALGHRRIAMLAGRL 126 (266)
T ss_pred cCCCEEEEecCCCCchHHHHHHhhCCCCEEEEeccCC----CCCCEE---eeCcHHHHHHHHHHHHHcCcccEEEecccc
Confidence 4688888533332233455677888999988754322 223433 35667778888888888899999999743
Q ss_pred --CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHH-hcC-CCeEEEEEcChhhHHHHHHHHHHcCCc
Q 003167 82 --DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKV-RMM-EARVIVVHGYSRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 82 --~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i-~~~-~~~viv~~~~~~~~~~i~~~a~~~g~~ 157 (843)
++++....+.|.+.+++.|+.+......+.. ..+....+.++ ++. .+++|+. ++...+..+++++++.|+.
T Consensus 127 ~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~ 201 (266)
T cd06282 127 AASDRARQRYAGYRAAMRAAGLAPLPPVEIPFN----TAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLR 201 (266)
T ss_pred ccCchHHHHHHHHHHHHHHcCCCCCccccCCCc----HHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCC
Confidence 3456677899999999998764432222212 33333444444 332 4676666 4566677799999999986
Q ss_pred ccceEEEE
Q 003167 158 DSGYVWIA 165 (843)
Q Consensus 158 ~~~~~~i~ 165 (843)
.++.+-+.
T Consensus 202 ~p~di~v~ 209 (266)
T cd06282 202 VPDDLSVV 209 (266)
T ss_pred CCCceEEE
Confidence 54444443
No 118
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=97.47 E-value=0.0024 Score=66.90 Aligned_cols=144 Identities=15% Similarity=0.076 Sum_probs=98.2
Q ss_pred CCeEEEEcCCChHH-HHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEE
Q 003167 3 TDTLAIVGPQSAVM-AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIF 79 (843)
Q Consensus 3 ~~V~aiiGp~~S~~-~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~ 79 (843)
++|+|||....+.. .......+.+.++|+|...+..+ . +.+.++.+++...+..+++++... |-++++++.
T Consensus 59 ~~vdgiIi~~~~~~~~~~~l~~~~~~~iPvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~ 132 (272)
T cd06300 59 QGVDAIIINPASPTALNPVIEEACEAGIPVVSFDGTVT---T---PCAYNVNEDQAEFGKQGAEWLVKELGGKGNVLVVR 132 (272)
T ss_pred cCCCEEEEeCCChhhhHHHHHHHHHCCCeEEEEecCCC---C---CceeEecCCHHHHHHHHHHHHHHHcCCCceEEEEE
Confidence 57888887544432 23345567778999998754321 1 456778888888889999888765 889999997
Q ss_pred ec--CCCCcchHHHHHHHHHhcC-cEEEEeeecCCCCCCChhHHHHHHHHHhcCCC--eEEEEEcChhhHHHHHHHHHHc
Q 003167 80 ND--DDQGRNGVTALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMMEA--RVIVVHGYSRTGLMVFDVAQRL 154 (843)
Q Consensus 80 ~d--~~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~--~viv~~~~~~~~~~i~~~a~~~ 154 (843)
.+ ...+....+.+++++++.| +.+..... .. .+..+....+.++.+.++ ++|++..+. +..+++.+++.
T Consensus 133 ~~~~~~~~~~R~~g~~~a~~~~~~~~~~~~~~--~~--~~~~~~~~~~~~~l~~~~~~~~i~~~~d~--A~g~~~al~~~ 206 (272)
T cd06300 133 GLAGHPVDEDRYAGAKEVLKEYPGIKIVGEVY--GD--WDQAVAQKAVADFLASNPDVDGIWTQGGD--AVGAVQAFEQA 206 (272)
T ss_pred CCCCCcchHHHHHHHHHHHHHCCCcEEEeecC--CC--CCHHHHHHHHHHHHHhCCCcCEEEecCCC--cHHHHHHHHHc
Confidence 43 3455677889999999887 77653222 12 224556667777766544 555544443 88899999999
Q ss_pred CCcc
Q 003167 155 GMMD 158 (843)
Q Consensus 155 g~~~ 158 (843)
|+..
T Consensus 207 g~~~ 210 (272)
T cd06300 207 GRDI 210 (272)
T ss_pred CCCC
Confidence 9743
No 119
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=97.40 E-value=0.0013 Score=70.49 Aligned_cols=70 Identities=24% Similarity=0.346 Sum_probs=50.1
Q ss_pred CCCChHHhhhCCCeEEEEeCchHHHHHHH---hhCCCCcce-EeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhc
Q 003167 591 PIKGIDTLMTSNDRVGYQVGSFAENYLIE---ELSIPKSRL-VALGSPEEYAIALENRTVAAVVDERPYIDLFLSD 662 (843)
Q Consensus 591 ~i~s~~dL~~~~~~i~~~~~~~~~~~l~~---~~~~~~~~~-~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~ 662 (843)
+|++++||. |++|++..|+....++.+ ..+.....+ ..+.+..+...++.+|++|+++...++......+
T Consensus 120 ~i~s~~dL~--Gk~I~~~~gs~~~~~l~~~l~~~g~~~~dv~~v~~~~~~~~~al~~G~vDa~~~~ep~~~~~~~~ 193 (314)
T PRK11553 120 PIKTVADLK--GHKVAFQKGSSSHNLLLRALRKAGLKFTDIQPTYLTPADARAAFQQGNVDAWAIWDPYYSAALLQ 193 (314)
T ss_pred CCCCHHHhC--CCEEeecCCCcHHHHHHHHHHHcCCCHHHeEEEecChHHHHHHHHcCCCCEEEEcCcHHHHHHhc
Confidence 688999995 889999888766665543 234433232 2344677888999999999999887877666554
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=97.37 E-value=0.0054 Score=64.25 Aligned_cols=145 Identities=10% Similarity=0.030 Sum_probs=91.5
Q ss_pred CCeEE-EEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEE
Q 003167 3 TDTLA-IVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIF 79 (843)
Q Consensus 3 ~~V~a-iiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~ 79 (843)
++|.| |+.|..+....+....+.+.++|+|......+ ....+ .+.+++...+..+++++... |.++++++.
T Consensus 56 ~~vdgiIi~~~~~~~~~~~~~~~~~~~iPvV~~~~~~~---~~~~~---~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~ 129 (275)
T cd06320 56 KGYKGLLFSPISDVNLVPAVERAKKKGIPVVNVNDKLI---PNATA---FVGTDNKANGVRGAEWIIDKLAEGGKVAIIE 129 (275)
T ss_pred hCCCEEEECCCChHHhHHHHHHHHHCCCeEEEECCCCC---Cccce---EEecCcHHHHHHHHHHHHHHhCCCceEEEEe
Confidence 46777 45776555444555667789999998754321 11112 24667777788888888665 899999997
Q ss_pred ecC--CCCcchHHHHHHHHHhc-CcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEE-EEcChhhHHHHHHHHHHcC
Q 003167 80 NDD--DQGRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV-VHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 80 ~d~--~~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv-~~~~~~~~~~i~~~a~~~g 155 (843)
... .......+.+.+++++. |+.+..... .. ....+....+.++.+..+++-. ++.+...+..+++.+++.|
T Consensus 130 ~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~--~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g 205 (275)
T cd06320 130 GKAGAFAAEQRTEGFTEAIKKASGIEVVASQP--AD--WDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAG 205 (275)
T ss_pred CCCCCccHHHHHHHHHHHHhhCCCcEEEEecC--CC--ccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcC
Confidence 533 23455578899999998 888764321 11 2234455566666554444322 3334555667888888888
Q ss_pred Cc
Q 003167 156 MM 157 (843)
Q Consensus 156 ~~ 157 (843)
..
T Consensus 206 ~~ 207 (275)
T cd06320 206 KQ 207 (275)
T ss_pred CC
Confidence 74
No 121
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=97.26 E-value=0.0057 Score=66.05 Aligned_cols=252 Identities=12% Similarity=0.128 Sum_probs=145.0
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
++|+..||||.--....++..--. ..+|++....++..-...+ -..|-..|.| .++..|+.+-.-|.+...++...
T Consensus 317 q~G~~~VVGPLlK~nVe~L~~~~q-~~i~vLALN~~~n~r~~~~-~cyfaLSPED--Ea~~AA~~l~~qG~R~plvlvPr 392 (604)
T COG3107 317 QDGADFVVGPLLKPNVEALLASNQ-QPIPVLALNQPENSRNPAQ-LCYFALSPED--EARDAANHLWDQGKRNPLVLVPR 392 (604)
T ss_pred hcCCcEEeccccchhHHHHHhCcC-CCCceeeecCCccccCccc-ceeeecChhH--HHHHHHHHHHHccccCceEEecc
Confidence 468999999999887777654433 6788887654432221111 2345566665 57888888888899999999999
Q ss_pred CCCCcchHHHHHHHHHhcCcEEEEeeecCCCC--------------CCChhHHHHHH----HHHhcCC-CeEEEEEcChh
Q 003167 82 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQ--------------SVTETDVRNEL----VKVRMME-ARVIVVHGYSR 142 (843)
Q Consensus 82 ~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~--------------~~~~~d~~~~l----~~i~~~~-~~viv~~~~~~ 142 (843)
+++|+..+++|.++.++.|+..+....|.... .....|..... ..+.+.. .|.|++...+.
T Consensus 393 ~~lG~Rv~~AF~~~Wq~~gg~~v~~~~fg~~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyivAtp~ 472 (604)
T COG3107 393 NDLGDRVANAFNQEWQKLGGGTVLQQKFGSTSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYIVATPS 472 (604)
T ss_pred hHHHHHHHHHHHHHHHHhcCCchhHhhcCcHHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEEEecch
Confidence 99999999999999999988544443332110 00011111000 1122333 78888888888
Q ss_pred hHHHHHHHHHHcCCcccceEEEEeCcccccccCCCCCChhhhhhccccEEEEEe---CCCchhhHHHHHHHhhhcCCCCC
Q 003167 143 TGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQH---TPDSKRRRDFVSRWNTLSNGSIG 219 (843)
Q Consensus 143 ~~~~i~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~---~~~~~~~~~f~~~~~~~~~~~~~ 219 (843)
++..|--...-.+.... -....++-.. .... .++....++|+..-..+ .+..|..++....|...
T Consensus 473 el~~IKP~ia~~~~~~~-~p~yaSSr~~--~gT~---~P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p~~------ 540 (604)
T COG3107 473 ELALIKPMIAMANGSDS-PPLYASSRSS--QGTN---GPDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWPND------ 540 (604)
T ss_pred hHhHHhhHHHhhcCCCC-cceeeecccc--ccCC---CccHHHhccCccccCCchhcCCCchHHHHHHHhcCCc------
Confidence 77655433332222111 1223332211 1111 13455667786544322 34456677777666542
Q ss_pred CCcchhhHhhHHHHHHHHHHHHhhcCCcccccCCCccCCCCCCcccCCCcccccchHHHHH---H---HHhcccCCccee
Q 003167 220 LNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLA---N---ILQTNMTGLSGP 293 (843)
Q Consensus 220 ~~~~~~~~YDAv~~la~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~---~---l~~~~f~G~tG~ 293 (843)
|..+.++|.++.. +.|.. . ...-..+|+||.
T Consensus 541 --------~sl~RLyAmGvDA-----------------------------------wrLan~f~elrqV~G~~i~G~TG~ 577 (604)
T COG3107 541 --------YSLARLYAMGVDA-----------------------------------WRLANHFSELRQVPGYQIDGLTGT 577 (604)
T ss_pred --------hHHHHHHHhcchH-----------------------------------HHHHHHhHHhhcCCCcccccccce
Confidence 3445555555543 12221 2 223357899999
Q ss_pred eEeccCCCccCCcEEEEEee
Q 003167 294 IHFNQDRSLLHPSYDIINVI 313 (843)
Q Consensus 294 v~fd~~G~~~~~~~~I~~~~ 313 (843)
++.|+++. +.....-.+++
T Consensus 578 Lsad~~c~-I~R~l~Waqy~ 596 (604)
T COG3107 578 LSADPDCV-IERKLSWAQYQ 596 (604)
T ss_pred eecCCCce-EeecchHHHhc
Confidence 99999885 44444333333
No 122
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=97.25 E-value=0.0076 Score=62.74 Aligned_cols=144 Identities=13% Similarity=0.126 Sum_probs=89.4
Q ss_pred CCeEE-EEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEE
Q 003167 3 TDTLA-IVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIF 79 (843)
Q Consensus 3 ~~V~a-iiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~ 79 (843)
++++| |++|..+.........+...++|+|......+ ..+.+-.+..++...+..+++++... |-+++++++
T Consensus 54 ~~~dgii~~~~~~~~~~~~l~~l~~~~ipvv~~~~~~~-----~~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~ 128 (268)
T cd06323 54 RGVDAIIINPTDSDAVVPAVKAANEAGIPVFTIDREAN-----GGEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQ 128 (268)
T ss_pred cCCCEEEEcCCChHHHHHHHHHHHHCCCcEEEEccCCC-----CCceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEe
Confidence 46777 55666655444555556778999999865432 11223345556666677788888776 789999998
Q ss_pred ec--CCCCcchHHHHHHHHHhc-CcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHc
Q 003167 80 ND--DDQGRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRL 154 (843)
Q Consensus 80 ~d--~~~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~ 154 (843)
.+ ..++....+.|.++++++ |+++....... .+..+....+.++.+. ++++| ++.+...+..+++++++.
T Consensus 129 ~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~ 203 (268)
T cd06323 129 GIPGASAARERGKGFHEVVDKYPGLKVVASQPAD----FDRAKGLNVMENILQAHPDIKGV-FAQNDEMALGAIEALKAA 203 (268)
T ss_pred CCCCCccHHHHHHHHHHHHHhCCCcEEEecccCC----CCHHHHHHHHHHHHHHCCCcCEE-EEcCCchHHHHHHHHHHc
Confidence 63 345667789999999984 77765322111 1123333445555433 34554 344455566688888998
Q ss_pred CC
Q 003167 155 GM 156 (843)
Q Consensus 155 g~ 156 (843)
|.
T Consensus 204 g~ 205 (268)
T cd06323 204 GK 205 (268)
T ss_pred CC
Confidence 87
No 123
>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=97.12 E-value=0.004 Score=66.23 Aligned_cols=70 Identities=17% Similarity=0.182 Sum_probs=49.4
Q ss_pred CCCCChHHhhhCCCeEEEEeCchHHHHHH---HhhCCCCcce--EeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhc
Q 003167 590 SPIKGIDTLMTSNDRVGYQVGSFAENYLI---EELSIPKSRL--VALGSPEEYAIALENRTVAAVVDERPYIDLFLSD 662 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~~~~~~~~~l~---~~~~~~~~~~--~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~ 662 (843)
.+|++++||. |++||+..++....++. +..+++...+ +.+ ...+...++.+|++||++...++......+
T Consensus 90 s~I~s~~DLk--GK~Igv~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~-~~~~~~~al~~G~vDa~~~~~p~~~~~~~~ 164 (300)
T TIGR01729 90 SGIEKPEDLK--GKNVAVPFVSTTHYSLLAALKHWKTDPREVNILNL-KPPQIVAAWQRGDIDAAYVWPPALSELLKS 164 (300)
T ss_pred CCCCChhHcC--CCEEEeCCCCcHHHHHHHHHHHcCCChhheEEEec-CcHHHHHHHHcCCcCEEEEecHHHHHHHhc
Confidence 4799999995 99999987765444332 3345543333 333 567899999999999999988877655544
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=97.09 E-value=0.0064 Score=63.92 Aligned_cols=144 Identities=15% Similarity=0.135 Sum_probs=94.3
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC----CCCCceEEcCCChHHhHHHHHHHHHHc--CCcEE
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP----LQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEV 75 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~----~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v 75 (843)
.++|.+||+..++. ..++ .+...++|+|.++..++.... ...+....+..++...+..+++++... |.+++
T Consensus 58 ~~~vd~iI~~~~~~-~~~~--~~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i 134 (281)
T cd06325 58 ADKPDLIVAIATPA-AQAA--ANATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTV 134 (281)
T ss_pred hcCCCEEEEcCcHH-HHHH--HHcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEE
Confidence 35788999865543 3332 256789999988754432111 111222224445666677788888765 99999
Q ss_pred EEEEecC-CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHc
Q 003167 76 IAIFNDD-DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRL 154 (843)
Q Consensus 76 ~ii~~d~-~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~ 154 (843)
++++.+. .++....+.+++.+++.|+++.... . .. ..++...++++.+ ++|+|++..+ ..+..+++++++.
T Consensus 135 ~~l~~~~~~~~~~r~~g~~~~~~~~g~~~~~~~-~-~~----~~~~~~~~~~~~~-~~dai~~~~d-~~a~~~~~~~~~~ 206 (281)
T cd06325 135 GVLYNPSEANSVVQVKELKKAAAKLGIEVVEAT-V-SS----SNDVQQAAQSLAG-KVDAIYVPTD-NTVASAMEAVVKV 206 (281)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhCCCEEEEEe-c-CC----HHHHHHHHHHhcc-cCCEEEEcCc-hhHHhHHHHHHHH
Confidence 9998654 3677778999999999998876532 1 22 5667777777764 3687776544 4566778888777
Q ss_pred CC
Q 003167 155 GM 156 (843)
Q Consensus 155 g~ 156 (843)
|+
T Consensus 207 ~~ 208 (281)
T cd06325 207 AN 208 (281)
T ss_pred HH
Confidence 64
No 125
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.08 E-value=0.013 Score=61.44 Aligned_cols=146 Identities=12% Similarity=0.105 Sum_probs=90.3
Q ss_pred CCeEEE-EcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc------CCcEE
Q 003167 3 TDTLAI-VGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF------GWGEV 75 (843)
Q Consensus 3 ~~V~ai-iGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~------~w~~v 75 (843)
+++++| ++|..+.....+.+.+.+.++|+|......+ + ..++..+.+++..-+..+++++... |-+++
T Consensus 54 ~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~---~--~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i 128 (277)
T cd06319 54 KGVSGIIISPTNSSAAVTLLKLAAQAKIPVVIADIGAE---G--GDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKV 128 (277)
T ss_pred cCCCEEEEcCCchhhhHHHHHHHHHCCCCEEEEecCCC---C--CceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcE
Confidence 466766 5776665555666778889999998643221 1 1233445566665566677766443 67899
Q ss_pred EEEEec--CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCe--EEEEEcChhhHHHHHHHH
Q 003167 76 IAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEAR--VIVVHGYSRTGLMVFDVA 151 (843)
Q Consensus 76 ~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~--viv~~~~~~~~~~i~~~a 151 (843)
+++..+ ...+....+.|++.+++.|+.+.... ...+ .+..+....+.++.+..++ +|+. .+...+..+++++
T Consensus 129 ~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al 204 (277)
T cd06319 129 GMVAIPQKRKNGQKRTKGFKEAMKEAGCDLAGIR-QQKD--FSYQETFDYTNDLLTANPDIRAIWL-QGSDRYQGALDAI 204 (277)
T ss_pred EEEeccCCCccHHHHHHHHHHHHHhcCCceEeec-cCCC--CCHHHHHHHHHHHHHhCCCCCEEEE-CCCccchHHHHHH
Confidence 999753 34567778999999999998754221 1111 1233434455565544444 4433 4445566788999
Q ss_pred HHcCCc
Q 003167 152 QRLGMM 157 (843)
Q Consensus 152 ~~~g~~ 157 (843)
++.|+.
T Consensus 205 ~~~g~~ 210 (277)
T cd06319 205 ATAGKT 210 (277)
T ss_pred HHcCCC
Confidence 999975
No 126
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=96.99 E-value=0.0071 Score=63.04 Aligned_cols=151 Identities=18% Similarity=0.189 Sum_probs=94.0
Q ss_pred CCeEEEE--cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 3 TDTLAIV--GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 3 ~~V~aii--Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
.+|.||| |+..+. .+...+.+.++|+|......+. ...+| +..++...+..+++.+...|.++++++..
T Consensus 54 ~~vdgiii~~~~~~~---~~~~~l~~~~iPvv~~~~~~~~---~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~ 124 (268)
T cd06273 54 RGVDGLALIGLDHSP---ALLDLLARRGVPYVATWNYSPD---SPYPC---VGFDNREAGRLAARHLIALGHRRIAMIFG 124 (268)
T ss_pred cCCCEEEEeCCCCCH---HHHHHHHhCCCCEEEEcCCCCC---CCCCE---EEeChHHHHHHHHHHHHHCCCCeEEEEec
Confidence 3565544 544332 3344667789999987653321 22333 44567777888888887779999999974
Q ss_pred c---CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHHHcC
Q 003167 81 D---DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 81 d---~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~~~g 155 (843)
. +.++......|.+++++.|+.+.....+... .+..+....+.++.+ ..+++|+. ++...+..+++++++.|
T Consensus 125 ~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g 201 (268)
T cd06273 125 PTQGNDRARARRAGVRAALAEAGLELPELWQVEAP--YSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLG 201 (268)
T ss_pred cccCCccHHHHHHHHHHHHHHcCCCCCHHHeeeCC--CcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcC
Confidence 3 2346677899999999988654322222211 123334455556544 34777765 55666777889999988
Q ss_pred CcccceEEEE
Q 003167 156 MMDSGYVWIA 165 (843)
Q Consensus 156 ~~~~~~~~i~ 165 (843)
+..++.+-+.
T Consensus 202 ~~~p~~i~vi 211 (268)
T cd06273 202 LSVPEDLSIV 211 (268)
T ss_pred CCCCCceEEE
Confidence 7655444333
No 127
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=96.91 E-value=0.0042 Score=64.21 Aligned_cols=74 Identities=20% Similarity=0.230 Sum_probs=51.0
Q ss_pred CCCCChHHhhh-----CCCeEEE-EeCchHHHHHH---HhhCCCC---cceEeCCCHHHHHHHHhcCCcEEEEcChhhHH
Q 003167 590 SPIKGIDTLMT-----SNDRVGY-QVGSFAENYLI---EELSIPK---SRLVALGSPEEYAIALENRTVAAVVDERPYID 657 (843)
Q Consensus 590 ~~i~s~~dL~~-----~~~~i~~-~~~~~~~~~l~---~~~~~~~---~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~ 657 (843)
+.+++++||.+ .|++|++ ..|+.....+. ++.+++. .+++.++. .+...++++|++|+++...|+..
T Consensus 104 ~~~~~~~dl~~~~~~~kGk~i~~~~~gs~~~~~l~~~l~~~Gl~~~~dv~~~~~~~-~~~~~al~~g~iDa~~~~eP~~~ 182 (252)
T PF13379_consen 104 SDIKSLADLIKKRKAQKGKKIAVPFPGSTHDMLLRYLLKKAGLDPKDDVTLVNVPP-PEMVAALRAGEIDAAVLWEPFAS 182 (252)
T ss_dssp STTCCGHHHHHTCCSCSTEEEEESSTTSHHHHHHHHHHHHTT--TTTSSEEEE--G-HHHHHHHHTTS-SEEEEETTHHH
T ss_pred CCccCHHHHHhhhcccCCcEEEEcCCCCHHHHHHHHHHHhCCCCcccceEEEecCH-HHHHHHHhCCCcCEEEecCCHHH
Confidence 47899999944 4788999 45664433332 4456554 45666666 99999999999999999999988
Q ss_pred HHHhcCC
Q 003167 658 LFLSDHC 664 (843)
Q Consensus 658 ~~~~~~~ 664 (843)
....+..
T Consensus 183 ~~~~~g~ 189 (252)
T PF13379_consen 183 QAEAKGI 189 (252)
T ss_dssp HHHHTTS
T ss_pred HHHhccC
Confidence 8776643
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=96.84 E-value=0.014 Score=60.79 Aligned_cols=152 Identities=15% Similarity=0.107 Sum_probs=93.2
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
+++|.|||....+.......+.+...++|+|......+. ...++ +..+....+..+++.+...|.++++++..+
T Consensus 54 ~~~vdgiii~~~~~~~~~~~~~~~~~~ipvv~i~~~~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~~~ 127 (270)
T cd01545 54 RSRVDGVILTPPLSDNPELLDLLDEAGVPYVRIAPGTPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIAGP 127 (270)
T ss_pred HCCCCEEEEeCCCCCccHHHHHHHhcCCCEEEEecCCCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEeCC
Confidence 357888887544433345556677899999987654332 22232 334556666778888877899999999865
Q ss_pred CCCC--cchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHHHcCCc
Q 003167 82 DDQG--RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 82 ~~~g--~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~~~g~~ 157 (843)
..+. ......|.+++++.|+.+......... ....+-...+.++.+ .++++|++ ++...+..+++.+++.|..
T Consensus 128 ~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~-~~d~~a~~~~~~~~~~g~~ 204 (270)
T cd01545 128 PDHRASAERLEGYRDALAEAGLPLDPELVAQGD--FTFESGLEAAEALLALPDRPTAIFA-SNDDMAAGVLAVAHRRGLR 204 (270)
T ss_pred CCchhHHHHHHHHHHHHHHcCCCCChhhEEeCC--CChhhHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHcCCC
Confidence 5443 344788999999888765210111111 111222234445443 35677664 5557777899999999975
Q ss_pred ccceE
Q 003167 158 DSGYV 162 (843)
Q Consensus 158 ~~~~~ 162 (843)
.++.+
T Consensus 205 ~p~~i 209 (270)
T cd01545 205 VPDDL 209 (270)
T ss_pred CCCce
Confidence 44433
No 129
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=96.77 E-value=0.042 Score=57.38 Aligned_cols=154 Identities=13% Similarity=0.085 Sum_probs=92.4
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEE
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIF 79 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~ 79 (843)
.+|+++| .|..+.....+...+...++|+|......+.. .+.+..+..++...+..+++++... +-++++++.
T Consensus 55 ~~vdgiii~~~~~~~~~~~~~~l~~~~iPvv~~~~~~~~~----~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~ 130 (272)
T cd06301 55 QGVDAIIVVPVDTAATAPIVKAANAAGIPLVYVNRRPENA----PKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVAILM 130 (272)
T ss_pred cCCCEEEEecCchhhhHHHHHHHHHCCCeEEEecCCCCCC----CCeeEEEecChHHHHHHHHHHHHHHhCCCccEEEEE
Confidence 4677775 66555444555566788999999875432211 1234456777777788888877654 557999997
Q ss_pred ecC--CCCcchHHHHHHHHHhcC-cEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHc
Q 003167 80 NDD--DQGRNGVTALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRL 154 (843)
Q Consensus 80 ~d~--~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~ 154 (843)
... .......+.|.+++++.| +.+... .... .+.......+.++.+. .+++|+ +.+...+..+++.+++.
T Consensus 131 ~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~ 205 (272)
T cd06301 131 GPLGQSAQIDRTKGVEEVLAKYPDIKVVEE--QTAN--WSRAEAMDLMENWLSSGGKIDAVV-ANNDEMALGAIMALKAA 205 (272)
T ss_pred CCCCCccHHHHHHHHHHHHHHCCCcEEEec--CCCC--ccHHHHHHHHHHHHHhCCCCCEEE-ECCCchHHHHHHHHHHc
Confidence 543 334556788999999888 443321 1111 1122223444454332 456654 44555666788999999
Q ss_pred CCcccceEEEE
Q 003167 155 GMMDSGYVWIA 165 (843)
Q Consensus 155 g~~~~~~~~i~ 165 (843)
|....+...++
T Consensus 206 g~~~~di~ivg 216 (272)
T cd06301 206 GKSDKDVPVAG 216 (272)
T ss_pred CCCCCCcEEEe
Confidence 98632433443
No 130
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=96.74 E-value=0.029 Score=58.60 Aligned_cols=149 Identities=14% Similarity=0.157 Sum_probs=86.8
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEc-CCChHHhHHHHHHHHHHc--CCcEEEEE
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQT-APNDLYLMSAIAEMVSYF--GWGEVIAI 78 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~-~p~d~~~~~ai~~ll~~~--~w~~v~ii 78 (843)
++|++|| .|..+.........+.+.++|+|......+ ....++++.. .+++...+..+++.+... |-++|+++
T Consensus 55 ~~vdgiii~~~~~~~~~~~l~~~~~~~iPvV~~~~~~~---~~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l 131 (275)
T cd06317 55 QKVDGIILWPTDGQAYIPGLRKAKQAGIPVVITNSNIS---EKGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVVI 131 (275)
T ss_pred cCCCEEEEecCCccccHHHHHHHHHCCCcEEEeCCCCC---CCccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEEE
Confidence 4677774 454444344455667789999998754321 2233544333 344555666677766554 77899999
Q ss_pred EecCCC--CcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHh-c--CCCeEEEEEcChhhHHHHHHHHHH
Q 003167 79 FNDDDQ--GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVR-M--MEARVIVVHGYSRTGLMVFDVAQR 153 (843)
Q Consensus 79 ~~d~~~--g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~-~--~~~~viv~~~~~~~~~~i~~~a~~ 153 (843)
..+.++ +....+.|++.++++|..+......... ....+....+.++- + .++++|++ ++...+..+++++++
T Consensus 132 ~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~~-~~d~~a~g~~~~l~~ 208 (275)
T cd06317 132 AGQPGNGTAIERQKGFEDELAEVCPGVEVLDTQPAD--WDREKAQVAMEALITKFGDDIDGVYA-GDDNMARGALNAAKE 208 (275)
T ss_pred ecCCCCchHHHHHHHHHHHHHhhCCCCEEEeccCCC--CCHHHHHHHHHHHHHhCCCCccEEEE-CCCcHHHHHHHHHHh
Confidence 864433 3455688999999986433322222111 11223233344432 2 34677775 444557778999999
Q ss_pred cCCc
Q 003167 154 LGMM 157 (843)
Q Consensus 154 ~g~~ 157 (843)
.|+.
T Consensus 209 ~g~~ 212 (275)
T cd06317 209 AGLA 212 (275)
T ss_pred cCCc
Confidence 9975
No 131
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=96.68 E-value=0.047 Score=57.02 Aligned_cols=157 Identities=9% Similarity=0.052 Sum_probs=96.0
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEE
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIF 79 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~ 79 (843)
++|+||| .|..+.........+...++|+|......+. ....+++.++.+++...+..+++++... |-++++++.
T Consensus 54 ~~vdgiIi~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~--~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~ 131 (273)
T cd06309 54 QGVDVIILAPVVETGWDPVLKEAKAAGIPVILVDRGVDV--KDDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQ 131 (273)
T ss_pred cCCCEEEEcCCccccchHHHHHHHHCCCCEEEEecCcCC--ccCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEe
Confidence 3566664 4544433334445677889999998653221 1112467778888888888888888776 889999997
Q ss_pred ecCC--CCcchHHHHHHHHHhc-CcEEEEeeecCCCCCCChhHHHHHHHHHhcC---CCeEEEEEcChhhHHHHHHHHHH
Q 003167 80 NDDD--QGRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQR 153 (843)
Q Consensus 80 ~d~~--~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~viv~~~~~~~~~~i~~~a~~ 153 (843)
.+.+ ......+.|.+++++. +.++.... ... .+..+....+.++.+. .+++|+. .+...+..+++.+++
T Consensus 132 ~~~~~~~~~~R~~Gf~~~l~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~~aI~~-~~d~~a~g~~~a~~~ 206 (273)
T cd06309 132 GTVGSSVAIDRKKGFAEVIKKYPNMKIVASQ--TGD--FTRAKGKEVMEALLKAHGDDIDAVYA-HNDEMALGAIQAIKA 206 (273)
T ss_pred CCCCCchHHHHHHHHHHHHHHCCCCEEeecc--CCc--ccHHHHHHHHHHHHHhCCCCccEEEE-CCcHHHHHHHHHHHH
Confidence 6432 2345578899999987 45544211 111 1223333445555433 3565543 445556678888999
Q ss_pred cCCcccceEEEEe
Q 003167 154 LGMMDSGYVWIAT 166 (843)
Q Consensus 154 ~g~~~~~~~~i~~ 166 (843)
.|+..++.+-|.+
T Consensus 207 ~g~~ip~di~iig 219 (273)
T cd06309 207 AGKKPGKDIKIVS 219 (273)
T ss_pred cCCCCCCCeEEEe
Confidence 9987555555544
No 132
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=96.58 E-value=0.066 Score=55.89 Aligned_cols=147 Identities=13% Similarity=0.148 Sum_probs=92.9
Q ss_pred CCeEEEEcCCCh-HHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHH-cCCcEEEEEEe
Q 003167 3 TDTLAIVGPQSA-VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFN 80 (843)
Q Consensus 3 ~~V~aiiGp~~S-~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~-~~w~~v~ii~~ 80 (843)
.++.++|....+ .........+.+.++|+|......+... ..+.+..+..++...+..+++++.+ .|-++++++..
T Consensus 56 ~~vdgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~~~~--~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~g 133 (271)
T cd06312 56 AKPDGIVVTIPDPDALDPAIKRAVAAGIPVISFNAGDPKYK--ELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCVIH 133 (271)
T ss_pred hCCCEEEEeCCChHHhHHHHHHHHHCCCeEEEeCCCCCccc--cccceEEeccChHHHHHHHHHHHHHhcCCCeEEEEec
Confidence 467777753332 2233444556778999998765332211 1245566788888889999999888 89999999975
Q ss_pred c--CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 81 D--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 81 d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
+ +..+....+.|.++++++|+.+.. +... .+..+....++++.+. ++++|+... ...+..+++.+++.|+
T Consensus 134 ~~~~~~~~~r~~g~~~~~~~~~~~~~~---~~~~--~~~~~~~~~~~~~l~~~~~~~aI~~~~-d~~a~g~~~al~~~g~ 207 (271)
T cd06312 134 EPGNVTLEDRCAGFADGLGGAGITEEV---IETG--ADPTEVASRIAAYLRANPDVDAVLTLG-APSAAPAAKALKQAGL 207 (271)
T ss_pred CCCCccHHHHHHHHHHHHHhcCceeeE---eecC--CCHHHHHHHHHHHHHhCCCccEEEEeC-CccchHHHHHHHhcCC
Confidence 3 334566788999999988875432 1111 1233344445555333 456655544 4456668888888887
Q ss_pred c
Q 003167 157 M 157 (843)
Q Consensus 157 ~ 157 (843)
.
T Consensus 208 ~ 208 (271)
T cd06312 208 K 208 (271)
T ss_pred C
Confidence 5
No 133
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=96.55 E-value=0.047 Score=56.97 Aligned_cols=146 Identities=14% Similarity=0.016 Sum_probs=87.7
Q ss_pred CCeEEEEcC-CChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHH--cCCcEEEEEE
Q 003167 3 TDTLAIVGP-QSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY--FGWGEVIAIF 79 (843)
Q Consensus 3 ~~V~aiiGp-~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~--~~w~~v~ii~ 79 (843)
.+|.+||.. ..+.....+...+.+.++|+|......+. +.+..+.+++...++.+++++.. .|.++++++.
T Consensus 54 ~~vdgii~~~~~~~~~~~~i~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~ 127 (273)
T cd06305 54 QKVDAIIIQHGRAEVLKPWVKRALDAGIPVVAFDVDSDN------PKVNNTTQDDYSLARLSLDQLVKDLGGKGNVGYVN 127 (273)
T ss_pred cCCCEEEEecCChhhhHHHHHHHHHcCCCEEEecCCCCC------CccceeeechHHHHHHHHHHHHHHhCCCCCEEEEE
Confidence 467888764 33333344455677889999987553221 22334666777778888887765 5899999997
Q ss_pred ec-CCCCcchHHHHHHHHHhcC-cEEEEeeecCCCCCCChhHHHHHHHHHhcCCC----eEEEEEcChhhHHHHHHHHHH
Q 003167 80 ND-DDQGRNGVTALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMMEA----RVIVVHGYSRTGLMVFDVAQR 153 (843)
Q Consensus 80 ~d-~~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~----~viv~~~~~~~~~~i~~~a~~ 153 (843)
.. ..........+.+.+++.+ +.+......... .+..+....++++....+ ++|+. .+...+..+++.+++
T Consensus 128 ~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~ai~~-~~d~~a~g~~~~l~~ 204 (273)
T cd06305 128 VAGFPPLDRRYDVWQAVLKAYPGIKEVAELGDVSN--NTAQDAAAQVEAVLKKYPKGGIDAIWA-AWDEFAKGAKQALDE 204 (273)
T ss_pred ccCCchHHHHHHHHHHHHHHCCCcEEecccccccc--cchhHHHHHHHHHHHHCCCcccCeEEE-cChhhhHHHHHHHHH
Confidence 53 2233445668888888877 554432211111 122334455555544444 44443 455566778888899
Q ss_pred cCCc
Q 003167 154 LGMM 157 (843)
Q Consensus 154 ~g~~ 157 (843)
.|..
T Consensus 205 ~g~~ 208 (273)
T cd06305 205 AGRT 208 (273)
T ss_pred cCCC
Confidence 8875
No 134
>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region. Members of this family are ABC transporter periplasmic binding proteins associated with the urea carboxylase/allophanate hydrolase pathway, an alternative to urease for urea degradation. The protein is restricted to bacteria with the pathway, with its gene close to the urea carboxylase and allophanate hydrolase genes. The substrate for this transporter therefore is likely to be urea or a compound from which urea is easily derived.
Probab=96.55 E-value=0.017 Score=61.69 Aligned_cols=68 Identities=19% Similarity=0.235 Sum_probs=50.6
Q ss_pred CCChHHhhhCCCeEEEEeCchHHHHHHH---hhCCCCc--ceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhc
Q 003167 592 IKGIDTLMTSNDRVGYQVGSFAENYLIE---ELSIPKS--RLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSD 662 (843)
Q Consensus 592 i~s~~dL~~~~~~i~~~~~~~~~~~l~~---~~~~~~~--~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~ 662 (843)
|+|++||+ |++||+..|+....++.+ ..+++.. +++.. .+.+...++.+|++||.+...|+......+
T Consensus 98 i~svaDLK--GKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~-~~~d~~aAl~~G~VDAa~~~eP~~s~~~~~ 170 (328)
T TIGR03427 98 GKSLADLK--GQKVNLVELSVSHYLLARALESVGLSEKDVKVVNT-SDADIVAAFITKDVTAVVTWNPQLSEIKAQ 170 (328)
T ss_pred CCCHHHcC--CCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeC-ChHHHHHHHhcCCCcEEEEcCchHHHHHhC
Confidence 89999995 999999999876555543 3355433 34444 457889999999999999988887655444
No 135
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=96.49 E-value=0.093 Score=55.61 Aligned_cols=144 Identities=13% Similarity=0.176 Sum_probs=85.8
Q ss_pred CCeE-EEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHH-cCCc-EEEEEE
Q 003167 3 TDTL-AIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWG-EVIAIF 79 (843)
Q Consensus 3 ~~V~-aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~-~~w~-~v~ii~ 79 (843)
.+++ .|++|..+.........+.+.++|+|......+ ..+.+..+.+++..-+..+++++.. .+.+ +++++.
T Consensus 81 ~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~-----~~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~ 155 (295)
T PRK10653 81 RGTKILLINPTDSDAVGNAVKMANQANIPVITLDRGAT-----KGEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLE 155 (295)
T ss_pred cCCCEEEEcCCChHHHHHHHHHHHHCCCCEEEEccCCC-----CCceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEE
Confidence 3555 455776655544556777788999998854321 1123445556665556777877655 3543 566655
Q ss_pred ecC--CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCC--eEEEEEcChhhHHHHHHHHHHcC
Q 003167 80 NDD--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEA--RVIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 80 ~d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~--~viv~~~~~~~~~~i~~~a~~~g 155 (843)
.+. ...+...+.|.+++++.|+.+... .... .+..+....+.++.+..+ ++|+ +.+...+..+++++++.|
T Consensus 156 ~~~~~~~~~~R~~gf~~al~~~g~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~l~al~~~G 230 (295)
T PRK10653 156 GIAGTSAARERGEGFKQAVAAHKFNVLAS--QPAD--FDRTKGLNVMQNLLTAHPDVQAVF-AQNDEMALGALRALQTAG 230 (295)
T ss_pred ccCCCccHHHHHHHHHHHHhhCCCEEEEe--cCCC--CCHHHHHHHHHHHHHhCCCcCEEE-ECCChhHHHHHHHHHHcC
Confidence 322 234567889999999999876432 1111 123334445556655444 4433 344555666889999988
Q ss_pred C
Q 003167 156 M 156 (843)
Q Consensus 156 ~ 156 (843)
+
T Consensus 231 ~ 231 (295)
T PRK10653 231 K 231 (295)
T ss_pred C
Confidence 7
No 136
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=96.48 E-value=0.031 Score=58.18 Aligned_cols=151 Identities=12% Similarity=0.043 Sum_probs=93.4
Q ss_pred CCeEEEE--cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 3 TDTLAIV--GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 3 ~~V~aii--Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
.+++||| ++..+ ..+...+...++|+|......+ ....++ +.+++...+..+++++...|-++++++..
T Consensus 54 ~~vdgiii~~~~~~---~~~~~~l~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~l~~ 124 (268)
T cd06298 54 KQVDGIIFMGGKIS---EEHREEFKRSPTPVVLAGSVDE---DNELPS---VNIDYKKAAFEATELLIKNGHKKIAFISG 124 (268)
T ss_pred hcCCEEEEeCCCCc---HHHHHHHhcCCCCEEEEccccC---CCCCCE---EEECcHHHHHHHHHHHHHcCCceEEEEeC
Confidence 4677776 43222 2344556678999998865322 112232 45566667777888887789999999985
Q ss_pred cC---CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCC-CeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 81 DD---DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME-ARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 81 d~---~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~-~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
+. .++....+.|.+.+++.|+.+......... .+.......+.++.+.. +++|++ ++...+..+++.+++.|+
T Consensus 125 ~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~ 201 (268)
T cd06298 125 PLEDSINGDERLAGYKEALSEANIEFDESLIFEGD--YTYESGYELAEELLEDGKPTAAFV-TDDELAIGILNAAQDAGL 201 (268)
T ss_pred CcccccchhHHHHHHHHHHHHcCCCCCHHHeEeCC--CChhHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCC
Confidence 33 367788899999999988764321111111 11222334455655544 677776 444557778999999998
Q ss_pred cccceEEEE
Q 003167 157 MDSGYVWIA 165 (843)
Q Consensus 157 ~~~~~~~i~ 165 (843)
..++.+-++
T Consensus 202 ~vp~di~vv 210 (268)
T cd06298 202 KVPEDFEII 210 (268)
T ss_pred CCccceEEE
Confidence 655444333
No 137
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.33 E-value=0.039 Score=57.39 Aligned_cols=154 Identities=11% Similarity=0.062 Sum_probs=91.2
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
.+|.|||...+......+...+...++|+|......+. ...+ .+.++....+..+++.+...|-++|+++..+.
T Consensus 54 ~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~~~~---~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~ 127 (268)
T cd06289 54 HGVAGIILCPAAGTSPDLLKRLAESGIPVVLVAREVAG---APFD---YVGPDNAAGARLATEHLISLGHRRIAFIGGLE 127 (268)
T ss_pred cCCCEEEEeCCCCccHHHHHHHHhcCCCEEEEeccCCC---CCCC---EEeecchHHHHHHHHHHHHCCCCCEEEecCCc
Confidence 56788876544333333556677889999987543221 1222 24455666677788887777999999987533
Q ss_pred --CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 83 --DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 83 --~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
.......+.|.+.+++.|..+.....+... .+.......+.++.+. ++++|+. .+...+..+++.+++.|+..
T Consensus 128 ~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~-~~~~~a~~~~~al~~~g~~~ 204 (268)
T cd06289 128 DSSTRRERLAGYRAALAEAGLPFDSELVVEGP--PSRQGGAEAVAQLLDLPPRPTAIVC-FNDLVAFGAMSGLRRAGLTP 204 (268)
T ss_pred cccchHHHHHHHHHHHHHcCCCCCchhEEecC--cchhhHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCC
Confidence 345667899999999888542211111111 1122233444444333 4566554 34455667889999988765
Q ss_pred cceEEEE
Q 003167 159 SGYVWIA 165 (843)
Q Consensus 159 ~~~~~i~ 165 (843)
++.+-|.
T Consensus 205 p~di~ii 211 (268)
T cd06289 205 GRDIAVV 211 (268)
T ss_pred CcceEEE
Confidence 4444333
No 138
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=96.33 E-value=0.1 Score=54.54 Aligned_cols=110 Identities=21% Similarity=0.214 Sum_probs=77.5
Q ss_pred CCCCChHHhhhCCCeEEEEeCchHHH------HHHHhhCCCC---cceEeCC-CHHHHHHHHhcCCcEEEEcChhhHHHH
Q 003167 590 SPIKGIDTLMTSNDRVGYQVGSFAEN------YLIEELSIPK---SRLVALG-SPEEYAIALENRTVAAVVDERPYIDLF 659 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~~~~~~~~------~l~~~~~~~~---~~~~~~~-~~~~~~~~l~~g~~~a~~~~~~~~~~~ 659 (843)
++|++++||. |+++++..-...-. +|.++.+.+. ..-+.+. +.+.++.+|.+|++|+..........+
T Consensus 134 s~i~sl~dlk--gk~~af~d~~StSG~l~P~~~L~~~g~~d~~~~f~~v~~~G~H~~a~~aV~nG~vDva~~~~~~~~~~ 211 (299)
T COG3221 134 SPIKSLEDLK--GKRFAFGDPDSTSGYLFPLYYLAKEGGIDPDKFFGEVIFSGGHDAAVLAVANGQVDVAAVNSSARGLL 211 (299)
T ss_pred CCcchHHHhc--CCeEeccCCCcchhhHhHHHHHHHhcCCChhhhhceeeccChHHHHHHHHHcCCceEEeccHHHHhhh
Confidence 6899999995 99999975332222 2222222331 1223344 488999999999999998887777666
Q ss_pred Hhc--C---CCeEEeCCccccCcceeeecCCCC--chHHHHHHHHhhhc
Q 003167 660 LSD--H---CQFSVRGQEFTKSGWGFAFPRDSP--LAIDMSTAILTLSE 701 (843)
Q Consensus 660 ~~~--~---~~l~~~~~~~~~~~~~~~~~k~sp--l~~~in~~i~~l~e 701 (843)
... . .++.++...-......++++++-| +++++-.+++.+.+
T Consensus 212 ~~~~~~~~~~~l~vi~~S~~iP~~pi~vr~~L~~~~k~kl~~af~~l~~ 260 (299)
T COG3221 212 KKAAPEGVAEKLRVIWKSPLIPNDPIAVRSDLPADLKEKLRDAFLDLAK 260 (299)
T ss_pred hhcccccchhhceEEEecCCCCCCCEEEeCCCCHHHHHHHHHHHHhcCc
Confidence 544 2 357777665555567788898877 99999999999987
No 139
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=96.27 E-value=0.058 Score=56.04 Aligned_cols=153 Identities=11% Similarity=0.049 Sum_probs=92.2
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
.+|++||...+..... ....+.+.++|+|.+....+ +..+++ +.+++...+..+++.+...|-++++++....
T Consensus 58 ~~vdgiii~~~~~~~~-~~~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~ 130 (268)
T cd06271 58 GLVDGVIISRTRPDDP-RVALLLERGFPFVTHGRTEL---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALLNPPE 130 (268)
T ss_pred CCCCEEEEecCCCCCh-HHHHHHhcCCCEEEECCcCC---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEecCcc
Confidence 3678887543322222 23455678999998754322 123344 3456666677788888778999999997533
Q ss_pred --CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 83 --DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 83 --~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
..+....+.|.+.+++.|..+.....+... .+.......+.++.+. .+++|++.. ...+..+++.+++.|+..
T Consensus 131 ~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~-d~~a~g~~~al~~~g~~v 207 (268)
T cd06271 131 DLTFAQHRRAGYRRALAEAGLPLDPALIVSGD--MTEEGGYAAAAELLALPDRPTAIVCSS-ELMALGVLAALAEAGLRP 207 (268)
T ss_pred ccchHHHHHHHHHHHHHHhCCCCCCceEEeCC--CChHHHHHHHHHHHhCCCCCCEEEEcC-cHHHHHHHHHHHHhCCCC
Confidence 234566789999999988764221122111 1223333445554332 367766654 556667889999999866
Q ss_pred cceEEEE
Q 003167 159 SGYVWIA 165 (843)
Q Consensus 159 ~~~~~i~ 165 (843)
++.+-|.
T Consensus 208 p~~i~ii 214 (268)
T cd06271 208 GRDVSVV 214 (268)
T ss_pred CcceeEE
Confidence 5544444
No 140
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=96.24 E-value=0.053 Score=58.52 Aligned_cols=150 Identities=9% Similarity=0.051 Sum_probs=92.2
Q ss_pred CCeEEEE--cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 3 TDTLAIV--GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 3 ~~V~aii--Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
.+|.+|| |+..+ ..+...+.+.++|+|......+ ...++ .+.+++..-+..+++.|...|.++++++..
T Consensus 114 ~~vdGiIi~~~~~~---~~~~~~l~~~~iPvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g 184 (329)
T TIGR01481 114 KQVDGIIFMGGTIT---EKLREEFSRSPVPVVLAGTVDK---ENELP---SVNIDYKQATKEAVGELIAKGHKSIAFVGG 184 (329)
T ss_pred CCCCEEEEeCCCCC---hHHHHHHHhcCCCEEEEecCCC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEec
Confidence 3566655 43322 2344556677999998754321 12223 245566666677788887789999999964
Q ss_pred cC--C-CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCc
Q 003167 81 DD--D-QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 81 d~--~-~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~ 157 (843)
+. . .+....+.|.+++++.|+.+......... .+..+-...+.++.+.++++|++ .+...+..+++.+++.|+.
T Consensus 185 ~~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~~~~~--~~~~~~~~~~~~ll~~~p~ai~~-~~d~~A~g~~~al~~~g~~ 261 (329)
T TIGR01481 185 PLSDSINGEDRLEGYKEALNKAGIQFGEDLVCEGK--YSYDAGYKAFAELKGSLPTAVFV-ASDEMAAGILNAAMDAGIK 261 (329)
T ss_pred CcccccchHHHHHHHHHHHHHcCCCCCcceEEecC--CChHHHHHHHHHHhCCCCCEEEE-cCcHHHHHHHHHHHHcCCC
Confidence 32 2 34677899999999998764322111111 11223344556666567887766 4455777899999999986
Q ss_pred ccceEEE
Q 003167 158 DSGYVWI 164 (843)
Q Consensus 158 ~~~~~~i 164 (843)
.++-+-+
T Consensus 262 vP~dvsv 268 (329)
T TIGR01481 262 VPEDLEV 268 (329)
T ss_pred CCCceEE
Confidence 5544433
No 141
>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=96.16 E-value=0.22 Score=51.98 Aligned_cols=146 Identities=12% Similarity=0.136 Sum_probs=88.3
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEE
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIF 79 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~ 79 (843)
++|.+|| -|..+.........+.+.++|+|...+..+ ....+.+..+.+++...+..+++++... |.++++++.
T Consensus 54 ~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~---~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~ 130 (272)
T cd06313 54 QGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTLIA---PLQINVHSFLAPDNYFMGASVAQALCNAMGGKGKIAMLQ 130 (272)
T ss_pred cCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCCCC---CCCCceEEEECCCcHHHHHHHHHHHHHHcCCCceEEEEE
Confidence 4555544 344444334444555667999999865332 1111223446677777788888888766 889999997
Q ss_pred ecCC--CCcchHHHHHHHHHhcC-cEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHc
Q 003167 80 NDDD--QGRNGVTALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRL 154 (843)
Q Consensus 80 ~d~~--~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~ 154 (843)
.+.. ......+.|.+.+++.+ .++... .... .+.......+.++.+. ++++|++ .+...+..+++.+++.
T Consensus 131 g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~a~g~~~al~~~ 205 (272)
T cd06313 131 GALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPAN--WDVSKAARIWETWLTKYPQLDGAFC-HNDSMALAAYQIMKAA 205 (272)
T ss_pred CCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCCC--CCHHHHHHHHHHHHHhCCCCCEEEE-CCCcHHHHHHHHHHHc
Confidence 5432 34456889999999875 555431 1112 1223334455555433 3566444 5556677788999998
Q ss_pred CC
Q 003167 155 GM 156 (843)
Q Consensus 155 g~ 156 (843)
|+
T Consensus 206 g~ 207 (272)
T cd06313 206 GR 207 (272)
T ss_pred CC
Confidence 87
No 142
>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=96.03 E-value=0.083 Score=55.61 Aligned_cols=71 Identities=17% Similarity=0.280 Sum_probs=49.4
Q ss_pred CCCCChHHhhhCCCeEEEEeCchHHHHHH---HhhCCCCcce-EeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhc
Q 003167 590 SPIKGIDTLMTSNDRVGYQVGSFAENYLI---EELSIPKSRL-VALGSPEEYAIALENRTVAAVVDERPYIDLFLSD 662 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~~~~~~~~~l~---~~~~~~~~~~-~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~ 662 (843)
.+|++++||. |++|++..++.....+. +..+++...+ ..+.+..+...++.+|++|+++...++...+..+
T Consensus 91 ~~i~s~~dL~--Gk~i~~~~~~~~~~~~~~~l~~~G~~~~~v~~~~~~~~~~~~al~~g~vda~~~~~p~~~~~~~~ 165 (288)
T TIGR01728 91 SPIRTVADLK--GKRIAVPKGGSGHDLLLRALLKAGLSGDDVTILYLGPSDARAAFAAGQVDAWAIWEPWGSALVEE 165 (288)
T ss_pred CCCCCHHHcC--CCEEEecCCccHHHHHHHHHHHcCCCccceeEEecCcHHHHHHHHCCCCCEEEeccchHhHHhhc
Confidence 4789999995 88999987764444332 2335543333 2234567889999999999999988887666554
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=96.00 E-value=0.39 Score=49.98 Aligned_cols=152 Identities=11% Similarity=0.013 Sum_probs=88.1
Q ss_pred CCeEEEEc-CCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEE
Q 003167 3 TDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIF 79 (843)
Q Consensus 3 ~~V~aiiG-p~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~ 79 (843)
.++.+||- +........+...+...++|+|......+ + ..+ +--+.+++...+..+++++... |.++++++.
T Consensus 56 ~~vdgvii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~---~-~~~-~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~ 130 (273)
T cd06310 56 RGPDAILLAPTDAKALVPPLKEAKDAGIPVVLIDSGLN---S-DIA-VSFVATDNVAAGKLAAEALAELLGKKGKVAVIS 130 (273)
T ss_pred hCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEecCCCC---C-Ccc-eEEEeeChHHHHHHHHHHHHHHcCCCceEEEEe
Confidence 35777764 32222223444555678999998754221 1 011 1224455555667788877666 899999997
Q ss_pred ecCCC--CcchHHHHHHHHHhc-CcEEEEeeecCCCCCCChhHHHHHHHHHhcCC--CeEEEEEcChhhHHHHHHHHHHc
Q 003167 80 NDDDQ--GRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRL 154 (843)
Q Consensus 80 ~d~~~--g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~--~~viv~~~~~~~~~~i~~~a~~~ 154 (843)
...++ .....+.|++++++. |+.+... .... .+..+-...+.++.+.. +++ +++.+...+..+++.+++.
T Consensus 131 ~~~~~~~~~~r~~gf~~a~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~-i~~~~d~~a~g~~~~l~~~ 205 (273)
T cd06310 131 FVPGSSTTDQREEGFLEGLKEYPGIEIVAT--QYSD--SDYAKALDITEDLLTANPDLKG-IFGANEGSAVGAARAVRQA 205 (273)
T ss_pred CCCCCccHHHHHHHHHHHHHhCCCcEEEec--ccCC--cCHHHHHHHHHHHHHhCCCceE-EEecCchhHHHHHHHHHhc
Confidence 54333 344678899999988 8776431 1111 11233334555554433 443 4445556677789999999
Q ss_pred CCcccceEEEE
Q 003167 155 GMMDSGYVWIA 165 (843)
Q Consensus 155 g~~~~~~~~i~ 165 (843)
|+. .+...++
T Consensus 206 g~~-~di~vig 215 (273)
T cd06310 206 GKA-GKVKVVG 215 (273)
T ss_pred CCC-CCeEEEE
Confidence 975 3434444
No 144
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=95.95 E-value=0.028 Score=60.41 Aligned_cols=60 Identities=25% Similarity=0.162 Sum_probs=41.4
Q ss_pred CCCCChHHhhhCCCeEEEEeC-chHH----HHHHHhhCCCCcc--eEeCCCHHHHHHHHhcCCcEEEEcC
Q 003167 590 SPIKGIDTLMTSNDRVGYQVG-SFAE----NYLIEELSIPKSR--LVALGSPEEYAIALENRTVAAVVDE 652 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~~~-~~~~----~~l~~~~~~~~~~--~~~~~~~~~~~~~l~~g~~~a~~~~ 652 (843)
.++++++||. ++++++... +... .++ +..+..... .+.+.+..+...+|.+|++|+++..
T Consensus 131 ~~i~sl~dL~--gk~v~~~~~~s~~~~~~~~~l-~~~G~~~~~~~~v~~~~~~~~~~al~~G~vDa~~~~ 197 (320)
T TIGR02122 131 SGIKTVADLK--GKRVAVGAPGSGTELNARAVL-KAAGLTYDDVKKVEYLGYAEAADALKDGKIDAAFYT 197 (320)
T ss_pred CCCCcHHHcC--CCEEecCCCCcchHHHHHHHH-HHcCCCHHHccchhcCCHHHHHHHHHCCCccEEEEe
Confidence 4688999996 778877643 3222 223 344554332 3566788899999999999999977
No 145
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=95.93 E-value=0.091 Score=54.51 Aligned_cols=149 Identities=9% Similarity=0.051 Sum_probs=87.8
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec-
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND- 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d- 81 (843)
.+|+|+|......... ..... ..++|+|......+ . +.+..+..++...+..+++.+...|.++++++..+
T Consensus 54 ~~vdgiii~~~~~~~~-~~~~~-~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~ 125 (267)
T cd06284 54 KQADGIILLDGSLPPT-ALTAL-AKLPPIVQACEYIP---G---LAVPSVSIDNVAAARLAVDHLISLGHRRIALITGPR 125 (267)
T ss_pred cCCCEEEEecCCCCHH-HHHHH-hcCCCEEEEecccC---C---CCcceEEecccHHHHHHHHHHHHcCCceEEEEcCCc
Confidence 4788877632221111 22233 45999997643211 1 22233566667777888888878899999999764
Q ss_pred -CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 82 -DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 82 -~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
+..+....+.|.+.+++.|+.+......... .+..+....+.++.+. .+++|+.. +...+..+++++++.|...
T Consensus 126 ~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~al~~~g~~~ 202 (267)
T cd06284 126 DNPLARDRLEGYRQALAEAGLPADEELIQEGD--FSLESGYAAARRLLALPDRPTAIFCF-SDEMAIGAISALKELGLRV 202 (267)
T ss_pred cchhHHHHHHHHHHHHHHcCCCCCcceEEeCC--CChHHHHHHHHHHHhCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCC
Confidence 3456677899999999988543221111111 1123333445555333 46676664 4455667889999988754
Q ss_pred cceE
Q 003167 159 SGYV 162 (843)
Q Consensus 159 ~~~~ 162 (843)
++.+
T Consensus 203 p~~v 206 (267)
T cd06284 203 PEDI 206 (267)
T ss_pred ccce
Confidence 3333
No 146
>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=95.86 E-value=0.05 Score=54.63 Aligned_cols=61 Identities=28% Similarity=0.297 Sum_probs=40.8
Q ss_pred CCCCChHHhhhCCCeEEEEeCchHHHHHH---HhhCCCCcceEeCC-CHHHHHHHHhcCCcEEEEcC
Q 003167 590 SPIKGIDTLMTSNDRVGYQVGSFAENYLI---EELSIPKSRLVALG-SPEEYAIALENRTVAAVVDE 652 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~~~~~~~~~l~---~~~~~~~~~~~~~~-~~~~~~~~l~~g~~~a~~~~ 652 (843)
..|++++||. |++||+..++....++. +..+++.+.+...+ +..+...+|.+|++||.+..
T Consensus 83 s~i~~~~DLk--GK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~~~~~~~~al~~g~vDa~~~~ 147 (216)
T PF09084_consen 83 SGIKSPADLK--GKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNLGPPELAQALLSGQVDAAILW 147 (216)
T ss_dssp TS-SSGGGGT--TSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-HHHHHHHHHTTSSSEEEEE
T ss_pred CCCCCHHHhC--CCEEEEecCcchhHHHHHHHHHhccccccceeeeeehhhhhhhhhcCCCCEEEEc
Confidence 3699999995 99999998765444332 44566555443332 35667779999999999833
No 147
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=95.85 E-value=0.11 Score=53.80 Aligned_cols=140 Identities=11% Similarity=0.063 Sum_probs=85.2
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
.+|++||--.+.... .+...+...++|+|......+ + +.+..+.+++...+..+++.+...|-++++++..+.
T Consensus 53 ~~vdgiii~~~~~~~-~~~~~~~~~~ipvV~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~ 125 (266)
T cd06278 53 YRVDGVIVTSGTLSS-ELAEECRRNGIPVVLINRYVD---G---PGVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGPA 125 (266)
T ss_pred cCCCEEEEecCCCCH-HHHHHHhhcCCCEEEECCccC---C---CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCCC
Confidence 467776643222222 235556778999999855322 1 123446677888888888888888999999998643
Q ss_pred C--CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHc
Q 003167 83 D--QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRL 154 (843)
Q Consensus 83 ~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~ 154 (843)
. +.....+.|.+.+++.|..+... ..... +..+....+.++.+. ++++|+... ...+..+++.+++.
T Consensus 126 ~~~~~~~R~~gf~~~~~~~~~~~~~~-~~~~~---~~~~~~~~~~~~l~~~~~~~~i~~~~-~~~a~~~~~~l~~~ 196 (266)
T cd06278 126 DTSTSRERERGFRDALAAAGVPVVVE-EAGDY---SYEGGYEAARRLLASRPRPDAIFCAN-DLLAIGVMDAARQE 196 (266)
T ss_pred cccchHHHHHHHHHHHHHcCCChhhh-ccCCC---CHHHHHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHh
Confidence 3 45566788999999988764321 11111 123333445554433 466666543 44455677777765
No 148
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=95.75 E-value=0.37 Score=50.30 Aligned_cols=146 Identities=12% Similarity=0.041 Sum_probs=84.5
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEE
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIF 79 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~ 79 (843)
.+|.||| .|............+.+.+||+|......+ ... .....+.+++...+..+++++... |.++++++.
T Consensus 59 ~~vDgiii~~~~~~~~~~~i~~~~~~gIpvV~~d~~~~---~~~-~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~ 134 (274)
T cd06311 59 RKIDALVILPFESAPLTQPVAKAKKAGIFVVVVDRGLS---SPG-AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVLR 134 (274)
T ss_pred cCCCEEEEeCCCchhhHHHHHHHHHCCCeEEEEcCCCC---CCc-ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence 3566555 344333222333445678999998754321 111 112235666677777788877665 889999997
Q ss_pred ecC-CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 80 NDD-DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 80 ~d~-~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
.+. .......+.|.+.+++.|+++... .... .+.......+.++.+ .++++|+.. +...+..+++.+++.|.
T Consensus 135 g~~~~~~~~R~~gf~~~l~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~ 209 (274)
T cd06311 135 GIPTPIDNERVDAFDAAIAKYPIKILDR--QYAN--WNRDDAFSVMQDLLTKFPKIDAVWAH-DDDMAVGVLAAIKQAGR 209 (274)
T ss_pred CCCCcchhHHHHHHHHHHhhCCcEEEec--cCCC--CcHHHHHHHHHHHHHhCCCcCEEEEC-CCcHHHHHHHHHHHcCC
Confidence 533 333455788999999989766532 2111 122223344444433 345665543 44456678888888886
Q ss_pred c
Q 003167 157 M 157 (843)
Q Consensus 157 ~ 157 (843)
.
T Consensus 210 ~ 210 (274)
T cd06311 210 T 210 (274)
T ss_pred C
Confidence 4
No 149
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=95.71 E-value=0.3 Score=50.78 Aligned_cols=153 Identities=11% Similarity=0.157 Sum_probs=89.4
Q ss_pred CeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEEe
Q 003167 4 DTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFN 80 (843)
Q Consensus 4 ~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~~ 80 (843)
+|.+|| .|............+.+.++|+|.+....+ +. .+...+..++...+..+++++... |-++++++..
T Consensus 56 ~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~ 130 (270)
T cd06308 56 GVDLLIISPNEAAPLTPVVEEAYRAGIPVILLDRKIL---SD--KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWG 130 (270)
T ss_pred CCCEEEEecCchhhchHHHHHHHHCCCCEEEeCCCCC---Cc--cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEEC
Confidence 455543 333322222333445678999998764221 11 223346667777777888887764 8899999975
Q ss_pred cCCC--CcchHHHHHHHHHhc-CcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHHHcC
Q 003167 81 DDDQ--GRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 81 d~~~--g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~~~g 155 (843)
+... .....+.+.+.++++ |+++.... ... ....+....+.++.+ .++++|+ +.+...+..+++.+++.|
T Consensus 131 ~~~~~~~~~R~~g~~~~l~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~aI~-~~~d~~a~g~~~al~~~g 205 (270)
T cd06308 131 LEGSSPAIERHDGFKEALSKYPKIKIVAQQ--DGD--WLKEKAEEKMEELLQANPDIDLVY-AHNDPMALGAYLAAKRAG 205 (270)
T ss_pred CCCCchHHHHHHHHHHHHHHCCCCEEEEec--CCC--ccHHHHHHHHHHHHHhCCCCcEEE-eCCcHHHHHHHHHHHHcC
Confidence 3332 345578899999998 87765321 111 112222333444432 3467654 445666777899999999
Q ss_pred CcccceEEEEeC
Q 003167 156 MMDSGYVWIATT 167 (843)
Q Consensus 156 ~~~~~~~~i~~~ 167 (843)
+. .+...++-+
T Consensus 206 ~~-~dv~vvg~d 216 (270)
T cd06308 206 RE-KEIKFIGID 216 (270)
T ss_pred CC-CCcEEEEec
Confidence 86 444444443
No 150
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=95.71 E-value=0.14 Score=52.97 Aligned_cols=149 Identities=13% Similarity=0.066 Sum_probs=92.4
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec-
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND- 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d- 81 (843)
++++++|...... ...+...+.+.++|+|......+ . ...+..+....+..+++.+...|-++++++...
T Consensus 54 ~~~dgii~~~~~~-~~~~~~~~~~~~ipvv~~~~~~~-----~---~~~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~~~ 124 (259)
T cd01542 54 QKVDGIILLATTI-TDEHREAIKKLNVPVVVVGQDYP-----G---ISSVVYDDYGAGYELGEYLAQQGHKNIAYLGVSE 124 (259)
T ss_pred cCCCEEEEeCCCC-CHHHHHHHhcCCCCEEEEeccCC-----C---CCEEEECcHHHHHHHHHHHHHcCCCcEEEEcCCc
Confidence 4677777543322 23444566777999998754221 1 223556677778888888888899999999642
Q ss_pred C--CCCcchHHHHHHHHHhcCc-EEEEeeecCCCCCCChhHHHHHHHHHhcCC-CeEEEEEcChhhHHHHHHHHHHcCCc
Q 003167 82 D--DQGRNGVTALGDKLAEIRC-KISYKSALPPDQSVTETDVRNELVKVRMME-ARVIVVHGYSRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 82 ~--~~g~~~~~~l~~~l~~~g~-~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~-~~viv~~~~~~~~~~i~~~a~~~g~~ 157 (843)
+ ..+....+.|++.+++.|. .+.. .... .+.......+.++.+.. +++|++.. ...+..+++.+++.|+.
T Consensus 125 ~~~~~~~~r~~gf~~~~~~~~~~~~~~---~~~~--~~~~~~~~~~~~~l~~~~~~~i~~~~-d~~a~g~~~~l~~~g~~ 198 (259)
T cd01542 125 SDIAVGILRKQGYLDALKEHGICPPNI---VETD--FSYESAYEAAQELLEPQPPDAIVCAT-DTIALGAMKYLQELGRR 198 (259)
T ss_pred ccchhHHHHHHHHHHHHHHcCCChHHe---eecc--CchhhHHHHHHHHhcCCCCCEEEEcC-cHHHHHHHHHHHHcCCC
Confidence 2 2335667889999999887 2111 1111 11223334555554444 67766655 45667788999999987
Q ss_pred ccceEEEEe
Q 003167 158 DSGYVWIAT 166 (843)
Q Consensus 158 ~~~~~~i~~ 166 (843)
.++.+.+.+
T Consensus 199 vp~di~v~g 207 (259)
T cd01542 199 IPEDISVAG 207 (259)
T ss_pred CCCceEEEe
Confidence 656666654
No 151
>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=95.68 E-value=0.087 Score=54.43 Aligned_cols=149 Identities=13% Similarity=0.110 Sum_probs=96.1
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc-CC-cEEEEEE
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-GW-GEVIAIF 79 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~-~w-~~v~ii~ 79 (843)
+++.||| .|..+........-+...+||+|...+. .....+....+.++....+..+++++... +- .+++++.
T Consensus 54 ~~~d~Iiv~~~~~~~~~~~l~~~~~~gIpvv~~d~~----~~~~~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~~ 129 (257)
T PF13407_consen 54 QGVDGIIVSPVDPDSLAPFLEKAKAAGIPVVTVDSD----EAPDSPRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLILS 129 (257)
T ss_dssp TTESEEEEESSSTTTTHHHHHHHHHTTSEEEEESST----HHTTSTSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEEE
T ss_pred hcCCEEEecCCCHHHHHHHHHHHhhcCceEEEEecc----ccccccceeeeeccHHHHHHHHHHHHHHHhccCceEEecc
Confidence 4566666 7777766667777788999999997554 11223455667778888889999887543 32 6888776
Q ss_pred ecCCC--CcchHHHHHHHHHh-cCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 80 NDDDQ--GRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 80 ~d~~~--g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
...++ .....+.+.+.+++ .++++.... +... .+..+....+.++.+.++-..|++++...+..+++.+++.|+
T Consensus 130 ~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~-~~~~--~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~ 206 (257)
T PF13407_consen 130 GSPGNPNTQERLEGFRDALKEYPGVEIVDEY-EYTD--WDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGR 206 (257)
T ss_dssp SSTTSHHHHHHHHHHHHHHHHCTTEEEEEEE-EECT--TSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTC
T ss_pred CCCCchHHHHHHHHHHHHHhhcceeeeeeee-eccC--CCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCC
Confidence 54333 34578889999998 466666522 2222 335566666666555554223355666677778899999887
Q ss_pred cc
Q 003167 157 MD 158 (843)
Q Consensus 157 ~~ 158 (843)
..
T Consensus 207 ~~ 208 (257)
T PF13407_consen 207 AG 208 (257)
T ss_dssp TT
T ss_pred cc
Confidence 43
No 152
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=95.68 E-value=0.15 Score=52.83 Aligned_cols=154 Identities=12% Similarity=0.063 Sum_probs=90.7
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
.+|.|||--..... ......+...++|+|......+ . +....+..+....+..+++.+...|-++++++..+.
T Consensus 54 ~~vdgiii~~~~~~-~~~~~~~~~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~ 126 (268)
T cd01575 54 RRPAGLILTGLEHT-ERTRQLLRAAGIPVVEIMDLPP---D---PIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARM 126 (268)
T ss_pred cCCCEEEEeCCCCC-HHHHHHHHhcCCCEEEEecCCC---C---CCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCC
Confidence 46777663221111 2233445677999998643221 1 112235556677777888888888999999998654
Q ss_pred --CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 83 --DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 83 --~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
.......+.|.+.+++.|............ .+.......+.++.+. ++++|+. ++...+..+++.+++.|...
T Consensus 127 ~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~ 203 (268)
T cd01575 127 DDTRAQQRLEGFRAALRAAGLDPPLVVTTPEP--SSFALGRELLAELLARWPDLDAVFC-SNDDLALGALFECQRRGISV 203 (268)
T ss_pred CcccHHHHHHHHHHHHHHcCCCCCceeEeccC--CCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHhCCCC
Confidence 344566788999999988643222111111 1123334455555433 4677664 44555667899999988765
Q ss_pred cceEEEEe
Q 003167 159 SGYVWIAT 166 (843)
Q Consensus 159 ~~~~~i~~ 166 (843)
++.+-+++
T Consensus 204 p~di~vig 211 (268)
T cd01575 204 PEDIAIAG 211 (268)
T ss_pred CcceEEEe
Confidence 55444443
No 153
>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=95.66 E-value=0.52 Score=45.19 Aligned_cols=70 Identities=21% Similarity=0.345 Sum_probs=45.8
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+..+++..+.++.+ .+++++.. .....++..+.+|++|+++..... ....++ ..++....+++++++
T Consensus 13 ~~l~~~i~~~~~~~p-~i~i~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 80 (197)
T cd05466 13 YLLPPLLAAFRQRYP-GVELSLVE-------GGSSELLEALLEGELDLAIVALPV---DDPGLE-SEPLFEEPLVLVVPP 80 (197)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEE-------CChHHHHHHHHcCCceEEEEcCCC---CCCcce-EeeeeccceEEEecC
Confidence 345677777777654 25566554 446789999999999999874433 222233 445666777877776
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (197)
T cd05466 81 DH 82 (197)
T ss_pred CC
Confidence 55
No 154
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=95.56 E-value=0.17 Score=52.75 Aligned_cols=151 Identities=13% Similarity=0.116 Sum_probs=90.9
Q ss_pred CCeEEEE--cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 3 TDTLAIV--GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 3 ~~V~aii--Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
.++.||| ++.... .....+...++|+|.++...+. .. +..+.+++...+..+++++...|.++++++..
T Consensus 63 ~~~dgiii~~~~~~~---~~~~~~~~~~ipvV~~~~~~~~---~~---~~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~ 133 (275)
T cd06295 63 GRADGVILIGQHDQD---PLPERLAETGLPFVVWGRPLPG---QP---YCYVGSDNVGGGRLATEHLLARGRRRIAFLGG 133 (275)
T ss_pred CCCCEEEEeCCCCCh---HHHHHHHhCCCCEEEECCccCC---CC---CCEEEECcHHHHHHHHHHHHHCCCCeEEEEcC
Confidence 4566665 433222 2244567789999987653322 22 23355667777888888888889999999986
Q ss_pred cC--CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 81 DD--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 81 d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
+. ..+....+.|.+.+++.|..+.....+... .+.......+.++.+. ++++|+... ...+..+++.+++.|.
T Consensus 134 ~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~-~~~a~g~~~~l~~~g~ 210 (275)
T cd06295 134 PQDMPEGEERLEGYREALAEAGLPLDPRLVAPGD--FTEESGRAAMRALLERGPDFDAVFAAS-DLMALGALRALREAGR 210 (275)
T ss_pred CCCcchhHHHHHHHHHHHHHcCCCCChhhEEecc--CCHHHHHHHHHHHHhCCCCCCEEEECC-cHHHHHHHHHHHHhCC
Confidence 43 234566788999999888543321111111 1222333445554433 457666554 4556678888888887
Q ss_pred cccceEEEE
Q 003167 157 MDSGYVWIA 165 (843)
Q Consensus 157 ~~~~~~~i~ 165 (843)
..++.+.|.
T Consensus 211 ~ip~~i~ii 219 (275)
T cd06295 211 RVPEDVAVV 219 (275)
T ss_pred CCccceEEE
Confidence 544444444
No 155
>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=95.51 E-value=0.5 Score=48.96 Aligned_cols=143 Identities=15% Similarity=0.114 Sum_probs=84.8
Q ss_pred CCeEEEEc-CCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEE
Q 003167 3 TDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIF 79 (843)
Q Consensus 3 ~~V~aiiG-p~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~ 79 (843)
.++.+||- |..+.........+.+.++|+|.+....+ ..+.+..+.+++..-+..+++++... |-+++++++
T Consensus 54 ~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~~~~~~-----~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~ 128 (267)
T cd06322 54 KKVDAIVLSPVDSKGIRAAIAKAKKAGIPVITVDIAAE-----GVAVVSHVATDNYAGGVLAGELAAKVLNGKGQVAIID 128 (267)
T ss_pred cCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEEcccCC-----CCceEEEEecChHHHHHHHHHHHHHHhCCCceEEEEe
Confidence 46777764 44333223334556778999998754211 11223346666666677778877665 888999997
Q ss_pred ecC-CCCcchHHHHHHHHHhc-CcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHHHcC
Q 003167 80 NDD-DQGRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 80 ~d~-~~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~~~g 155 (843)
..+ .......+.|++++++. |+.+... ... .........+.++.. .++++|+. .+...+..+++.+++.|
T Consensus 129 ~~~~~~~~~R~~gf~~~~~~~~~~~~~~~---~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~al~~~g 202 (267)
T cd06322 129 YPTVQSVVDRVRGFKEALADYPNIKIVAV---QPG--ITRAEALTAAQNILQANPDLDGIFA-FGDDAALGAVSAIKAAG 202 (267)
T ss_pred cCCCccHHHHHHHHHHHHHhCCCcEEEEe---cCC--CChHHHHHHHHHHHHhCCCCCEEEE-cCCcHHHHHHHHHHHCC
Confidence 532 23345678899999998 8876432 111 112222333444433 34666544 44455667888888988
Q ss_pred C
Q 003167 156 M 156 (843)
Q Consensus 156 ~ 156 (843)
.
T Consensus 203 ~ 203 (267)
T cd06322 203 R 203 (267)
T ss_pred C
Confidence 7
No 156
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=95.49 E-value=0.13 Score=53.41 Aligned_cols=153 Identities=12% Similarity=0.058 Sum_probs=90.9
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
.+++|||-........ .......++|+|......+. ..+ ..+.+++...+..+++.+...|-++++++..+.
T Consensus 55 ~~~dgiii~~~~~~~~--~~~~~~~~ipvv~~~~~~~~---~~~---~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~ 126 (269)
T cd06288 55 HRVDGIIYATMYHREV--TLPPELLSVPTVLLNCYDAD---GAL---PSVVPDEEQGGYDATRHLLAAGHRRIAFINGEP 126 (269)
T ss_pred cCCCEEEEecCCCChh--HHHHHhcCCCEEEEecccCC---CCC---CeEEEccHHHHHHHHHHHHHcCCceEEEEeCCc
Confidence 3566666543322111 12234578999987543321 122 335567777788888888777999999998643
Q ss_pred C--CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 83 D--QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 83 ~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
. ......+.|.+.+++.|+.+......... .+..+....++++.+. ++++|+. .+...+..+++.+++.|+..
T Consensus 127 ~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~v 203 (269)
T cd06288 127 WMLAAKDRLKGYRQALAEAGIPFDPDLVVHGD--WSADDGYEAAAALLDLDDRPTAIFC-GNDRMAMGAYQALLERGLRI 203 (269)
T ss_pred cchhHHHHHHHHHHHHHHcCCCCCHHHeEeCC--CChHHHHHHHHHHHhCCCCCCEEEE-eCcHHHHHHHHHHHHcCCCC
Confidence 2 33556888999999988653211111111 1123333445555443 4677755 55566767889999999865
Q ss_pred cceEEEEe
Q 003167 159 SGYVWIAT 166 (843)
Q Consensus 159 ~~~~~i~~ 166 (843)
++-+.+.+
T Consensus 204 p~di~v~g 211 (269)
T cd06288 204 PQDVSVVG 211 (269)
T ss_pred cccceEEe
Confidence 55555554
No 157
>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=95.45 E-value=0.59 Score=48.97 Aligned_cols=149 Identities=8% Similarity=-0.017 Sum_probs=83.3
Q ss_pred CCeEEEEc-CCChHHHHHHHHhcccCCCcEEeccc-CCCCCCCCCCCceEEcCCChHHhHHHHHHHHHH--cCCcEEEEE
Q 003167 3 TDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTA-LDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY--FGWGEVIAI 78 (843)
Q Consensus 3 ~~V~aiiG-p~~S~~~~av~~~~~~~~vP~Is~~a-t~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~--~~w~~v~ii 78 (843)
.+|+|||= |........+.. +.+.++|.|.... ..+.-.....+..-.+.+++..-+..+++.|.. .|.++++++
T Consensus 59 ~~vDgiIv~~~~~~~~~~~~~-l~~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l 137 (280)
T cd06303 59 SKPDYLIFTLDSLRHRKLIER-VLASGKTKIILQNITTPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAML 137 (280)
T ss_pred cCCCEEEEcCCchhhHHHHHH-HHhCCCCeEEEeCCCCCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEE
Confidence 46666663 222212223333 3445667665422 222100000122334566777777778887766 799999999
Q ss_pred EecC-CCCcchHHHHHHHHHhc-CcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHc
Q 003167 79 FNDD-DQGRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRL 154 (843)
Q Consensus 79 ~~d~-~~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~ 154 (843)
.... .......+.|++++++. |+.+... +... .+..+....+.++.+. ++++|+ +.+...+..+++.+++.
T Consensus 138 ~~~~~~~~~~R~~gf~~al~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~l~al~~~ 212 (280)
T cd06303 138 YFSPGYISTARGDTFIDCVHARNNWTLTSE--FYTD--ATRQKAYQATSDILSNNPDVDFIY-ACSTDIALGASDALKEL 212 (280)
T ss_pred ECCCCcchhHHHHHHHHHHHhCCCceEEEe--ecCC--CCHHHHHHHHHHHHHhCCCCcEEE-ECCcHHHHHHHHHHHHc
Confidence 7532 33445678899999988 7664322 2222 1223334455555443 356554 45556677889999999
Q ss_pred CCc
Q 003167 155 GMM 157 (843)
Q Consensus 155 g~~ 157 (843)
|+.
T Consensus 213 G~~ 215 (280)
T cd06303 213 GRE 215 (280)
T ss_pred CCC
Confidence 974
No 158
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=95.37 E-value=0.3 Score=50.53 Aligned_cols=149 Identities=10% Similarity=0.055 Sum_probs=89.7
Q ss_pred CCeEEEE--cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 3 TDTLAIV--GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 3 ~~V~aii--Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
.+|.||| ++..+.. .+.. ....++|+|......+ .. +-.+..++..-+..+++.+...|-++|+++..
T Consensus 55 ~~vdgiii~~~~~~~~--~~~~-~~~~~ipvv~~~~~~~----~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~ 124 (264)
T cd01574 55 QRVDGVIVNAPLDDAD--AALA-AAPADVPVVFVDGSPS----PR---VSTVSVDQEGGARLATEHLLELGHRTIAHVAG 124 (264)
T ss_pred cCCCEEEEeCCCCChH--HHHH-HHhcCCCEEEEeccCC----CC---CCEEEeCcHHHHHHHHHHHHHCCCCEEEEEec
Confidence 4677776 3333332 3333 3567899999865321 12 22355666777788888888889999999976
Q ss_pred cCCC--CcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC-CCeEEEEEcChhhHHHHHHHHHHcCCc
Q 003167 81 DDDQ--GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM-EARVIVVHGYSRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 81 d~~~--g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~-~~~viv~~~~~~~~~~i~~~a~~~g~~ 157 (843)
+... .....+.|.+.+++.|+.+... +... .+.......+.++.+. .+++|+. ++...+..+++.+++.|..
T Consensus 125 ~~~~~~~~~r~~gf~~~l~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~g~~~~~~~~g~~ 199 (264)
T cd01574 125 PEEWLSARARLAGWRAALEAAGIAPPPV--LEGD--WSAESGYRAGRELLREGDPTAVFA-ANDQMALGVLRALHELGLR 199 (264)
T ss_pred CCccchHHHHHHHHHHHHHHCCCCccee--eecC--CCHHHHHHHHHHHHhCCCCcEEEE-cCcHHHHHHHHHHHHcCCC
Confidence 4332 2355678999998888765432 1111 1123333445555443 3666554 4556677788899888865
Q ss_pred ccceEEEEe
Q 003167 158 DSGYVWIAT 166 (843)
Q Consensus 158 ~~~~~~i~~ 166 (843)
.++.+-|++
T Consensus 200 ip~~i~ii~ 208 (264)
T cd01574 200 VPDDVSVVG 208 (264)
T ss_pred CccceEEec
Confidence 444444443
No 159
>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=95.35 E-value=0.15 Score=53.15 Aligned_cols=152 Identities=9% Similarity=-0.002 Sum_probs=88.2
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
.+|.|||--.+......+...+.+.++|+|......+ . ..++ +..++..-+..+++.+...|-++++++....
T Consensus 54 ~~vdgii~~~~~~~~~~~~~~~~~~~ipvV~i~~~~~--~--~~~~---V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~~ 126 (269)
T cd06281 54 RRMDGIIIAPGDERDPELVDALASLDLPIVLLDRDMG--G--GADA---VLFDHAAGMRQAVEYLISLGHRRIALVGGGS 126 (269)
T ss_pred cCCCEEEEecCCCCcHHHHHHHHhCCCCEEEEecccC--C--CCCE---EEECcHHHHHHHHHHHHHCCCcEEEEecCcc
Confidence 4677776422222223455566778999998865432 1 2232 4445555556677777677999999997532
Q ss_pred --CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 83 --DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 83 --~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
..+....+.|.+++++.|+.+.....+..+ . ...-...+.++.+ ..+++|+. .+...+..+++.+++.|+..
T Consensus 127 ~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~i 202 (269)
T cd06281 127 NTRPGRERLEGYKAAFAAAGLPPDPALVRLST--P-AASGFDATRALLALPDRPTAIIA-GGTQVLVGVLRALREAGLRI 202 (269)
T ss_pred ccccHHHHHHHHHHHHHHcCCCCCHHHeecCc--H-HHHHHHHHHHHHcCCCCCcEEEE-cCcHHHHHHHHHHHHcCCCC
Confidence 233455788999999988754211111111 1 1222334444432 35788764 45556667889999999865
Q ss_pred cceEEEE
Q 003167 159 SGYVWIA 165 (843)
Q Consensus 159 ~~~~~i~ 165 (843)
++.+-|+
T Consensus 203 p~dv~ii 209 (269)
T cd06281 203 PRDLSVI 209 (269)
T ss_pred CcceeEE
Confidence 5544443
No 160
>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=95.35 E-value=1.2 Score=45.77 Aligned_cols=121 Identities=12% Similarity=0.068 Sum_probs=69.6
Q ss_pred CCCCChHHhhhCCCeEEEEeCchHHHH---HHHhhCCC------------------C--cceEeCCCHHHHHHHHhcCCc
Q 003167 590 SPIKGIDTLMTSNDRVGYQVGSFAENY---LIEELSIP------------------K--SRLVALGSPEEYAIALENRTV 646 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~~~~~~~~~---l~~~~~~~------------------~--~~~~~~~~~~~~~~~l~~g~~ 646 (843)
..+++++||. .|.+|++..+...... +.+..|+. + -+++.. ...+...++.+|++
T Consensus 106 ~~~~sl~dlk-~G~~IAip~d~~n~~raL~~L~~aGLi~l~~~~~~~~t~~DI~~n~~~v~~vel-~~~~~~~al~~g~v 183 (258)
T TIGR00363 106 KKIKNVNELQ-DGAKVAVPNDPTNLGRALLLLQKQGLIKLKDGNGLLPTVLDIVENPKKLNITEL-ETSQLPRALDDPKV 183 (258)
T ss_pred cCCCCHHHcC-CCCEEEEeCCcchHHHHHHHHHHcCCceecCCCCCcCChhhhhcCCCCCEEEEc-CHHHHHHHhhcccc
Confidence 5899999995 4889999876543332 11343432 2 233444 44567788999999
Q ss_pred EEEEcChhhHHHHHhcCC-CeEEeCCccccCcceeeecCCCCchHHHHHHHHhhhccccHHHHHHhh
Q 003167 647 AAVVDERPYIDLFLSDHC-QFSVRGQEFTKSGWGFAFPRDSPLAIDMSTAILTLSENGELQRIHDKW 712 (843)
Q Consensus 647 ~a~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~kw 712 (843)
|+.+...+++.-...+.. +-......-.+.-..++++++..=.+.+.+.+..++....-+.|.++|
T Consensus 184 Daa~v~~~~~~~agl~~~~~~i~~e~~~~~~~n~l~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 250 (258)
T TIGR00363 184 DLAVINTTYAGQVGLNPQDDGVFVEDKDSPYVNIIVSREDNKDAENVKDFIQSYQSEEVYQAAQKHF 250 (258)
T ss_pred cEEEEChHHHHHcCCCcCcCceeecCCCCCeeEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 999988887655422211 111221111122234556655334566666666666666666666664
No 161
>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=95.33 E-value=0.32 Score=50.42 Aligned_cols=153 Identities=10% Similarity=0.039 Sum_probs=89.0
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
.+|.||| -|..... ..+ ..+...++|+|......+ +...++ +..++..-+..+++.+...|-++++++..+
T Consensus 54 ~~vdgiii~~~~~~~-~~~-~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~ 125 (264)
T cd06274 54 RQVDALIVAGSLPPD-DPY-YLCQKAGLPVVALDRPGD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGL 125 (264)
T ss_pred cCCCEEEEcCCCCch-HHH-HHHHhcCCCEEEecCccC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCC
Confidence 3566655 3332222 223 345678899998755432 122333 444555556777888777899999999764
Q ss_pred C--CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC---CCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 82 D--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 82 ~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
. .......+.|.+.+++.|+.+......... .+...-...+.++.+. .+++|++. +...+..+++.+++.|+
T Consensus 126 ~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~~~-~d~~A~g~~~al~~~g~ 202 (264)
T cd06274 126 PELSPSRERLAGFRQALADAGLPVQPDWIYAEG--YSPESGYQLMAELLARLGRLPRALFTT-SYTLLEGVLRFLRERPG 202 (264)
T ss_pred CcccchHHHHHHHHHHHHHcCCCCCcceeecCC--CChHHHHHHHHHHHccCCCCCcEEEEc-ChHHHHHHHHHHHHcCC
Confidence 3 234566889999999988643221111111 1122233344454332 36776654 55667778899999998
Q ss_pred cccceEEEEe
Q 003167 157 MDSGYVWIAT 166 (843)
Q Consensus 157 ~~~~~~~i~~ 166 (843)
..++.+-|++
T Consensus 203 ~ip~dv~v~g 212 (264)
T cd06274 203 LAPSDLRIAT 212 (264)
T ss_pred CCCcceEEEE
Confidence 6555555543
No 162
>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=95.30 E-value=0.6 Score=49.10 Aligned_cols=155 Identities=10% Similarity=0.031 Sum_probs=85.6
Q ss_pred CCeEEEEc-CCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHH----HcCC--cEE
Q 003167 3 TDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVS----YFGW--GEV 75 (843)
Q Consensus 3 ~~V~aiiG-p~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~----~~~w--~~v 75 (843)
.+|.+||= |..+.........+.+.++|+|......+.......+.+-.+..+....+..+++++. ..|+ +++
T Consensus 53 ~~~dgiii~~~~~~~~~~~~~~~~~~~iPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~~~~g~~~~~i 132 (289)
T cd01540 53 QGAKGFVICVPDVKLGPAIVAKAKAYNMKVVAVDDRLVDADGKPMEDVPHVGMSATKIGEQVGEAIADEMKKRGWDPKEV 132 (289)
T ss_pred cCCCEEEEccCchhhhHHHHHHHHhCCCeEEEecCCCcccCCCccccceEecCCHHHHHHHHHHHHHHHHHhhcCCCcce
Confidence 35655552 2223334455566778999999875433211100112223355566666666666543 3577 788
Q ss_pred EEEEe---cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeE-EEEEcChhhHHHHHH
Q 003167 76 IAIFN---DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARV-IVVHGYSRTGLMVFD 149 (843)
Q Consensus 76 ~ii~~---d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~v-iv~~~~~~~~~~i~~ 149 (843)
+++.. +........+.+.+.+++.|+............ .+.......++++... +++. +|++.+...+..+++
T Consensus 133 ~~i~~~~~~~~~~~~R~~G~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~ 211 (289)
T cd01540 133 GALRITYDELDTAKPRTDGALEALKAPGFPEANIFQAPQKT-TDTEGAFDAAASTLTKNPNVKNWIIYGLNDETVLGAVR 211 (289)
T ss_pred EEEEecCCCCcchhhHHHHHHHHHhcCCCCcceEecccccC-cchhhHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHH
Confidence 88752 223566778999999998886532111111110 0111222344555433 3453 466666677888889
Q ss_pred HHHHcCCcc
Q 003167 150 VAQRLGMMD 158 (843)
Q Consensus 150 ~a~~~g~~~ 158 (843)
.+++.|...
T Consensus 212 al~~~g~~~ 220 (289)
T cd01540 212 ATEQSGIAA 220 (289)
T ss_pred HHHHcCCCC
Confidence 999999864
No 163
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=95.11 E-value=0.35 Score=50.09 Aligned_cols=153 Identities=11% Similarity=0.066 Sum_probs=89.3
Q ss_pred CCeEEEEc-CCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiG-p~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
.+|++||= |... .... ...+...++|+|......+ ....+ .+..++...+..+++.+...|-++++++...
T Consensus 54 ~~~dgiii~~~~~-~~~~-l~~~~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~ 125 (267)
T cd06283 54 YQVDGLIVNPTGN-NKEL-YQRLAKNGKPVVLVDRKIP---ELGVD---TVTLDNYEAAKEAVDHLIEKGYERILFVTEP 125 (267)
T ss_pred cCcCEEEEeCCCC-ChHH-HHHHhcCCCCEEEEcCCCC---CCCCC---EEEeccHHHHHHHHHHHHHcCCCcEEEEecC
Confidence 35666652 2221 1223 3445678999999765322 11222 3445666677788888888899999999754
Q ss_pred CC-C--CcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 82 DD-Q--GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 82 ~~-~--g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
.. . .....+.+.+.+++.|............ .+..+....++++.+. .+++|++. +...+..+++.+++.|+
T Consensus 126 ~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~ 202 (267)
T cd06283 126 LDEISPRMERYEGFKEALAEHGIGVNEELIEIDD--EDADELDERLRQLLNKPKKKTAIFAA-NGLILLEVLKALKELGI 202 (267)
T ss_pred ccccccHHHHHHHHHHHHHHcCCCCCcceeEecc--cchHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCC
Confidence 32 1 2356788999999887532221111111 1133445566666544 35666654 44556678888999998
Q ss_pred cccceEEEEe
Q 003167 157 MDSGYVWIAT 166 (843)
Q Consensus 157 ~~~~~~~i~~ 166 (843)
..++.+-|.+
T Consensus 203 ~vp~di~v~g 212 (267)
T cd06283 203 RIPEDVGLIG 212 (267)
T ss_pred CCccceEEEE
Confidence 6554444443
No 164
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=95.10 E-value=0.3 Score=50.60 Aligned_cols=154 Identities=12% Similarity=0.071 Sum_probs=87.8
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
.+|++||=-........ ...+.+.++|+|......+ ....+++ ..++..-+..+++.+...|-++|+++....
T Consensus 54 ~~vdgiIi~~~~~~~~~-~~~l~~~~ipvV~~~~~~~---~~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~~~~ 126 (265)
T cd06299 54 QRVDGIIVVPHEQSAEQ-LEDLLKRGIPVVFVDREIT---GSPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYISGPQ 126 (265)
T ss_pred cCCCEEEEcCCCCChHH-HHHHHhCCCCEEEEecccC---CCCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEeCCC
Confidence 46666663222222223 4555678999998765332 2233443 234444445566777777999999996533
Q ss_pred --CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 83 --DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 83 --~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
.......+.|.+++++.|+.+......... ....+....+.++.+..+++|+. ++...+..+++.+++.|+..++
T Consensus 127 ~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~av~~-~~d~~a~gv~~al~~~g~~vp~ 203 (265)
T cd06299 127 DTSTGRERLEAFRQACASLGLEVNEDLVVLGG--YSQESGYAGATKLLDQGATAIIA-GDSMMTIGAIRAIHDAGLVIGE 203 (265)
T ss_pred CcccHHHHHHHHHHHHHHCCCCCChHhEEecC--cchHHHHHHHHHHHcCCCCEEEE-cCcHHHHHHHHHHHHhCCCCCc
Confidence 334455788999999988543211111111 11223334455554445887555 4455677788899999986555
Q ss_pred eEEEEe
Q 003167 161 YVWIAT 166 (843)
Q Consensus 161 ~~~i~~ 166 (843)
-+.|.+
T Consensus 204 dv~v~g 209 (265)
T cd06299 204 DISLIG 209 (265)
T ss_pred ceeEEE
Confidence 454443
No 165
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=95.03 E-value=0.28 Score=53.14 Aligned_cols=137 Identities=9% Similarity=0.082 Sum_probs=82.7
Q ss_pred Hhccc-CCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe--cCCCCcchHHHHHHHHHh
Q 003167 22 HLANE-LQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN--DDDQGRNGVTALGDKLAE 98 (843)
Q Consensus 22 ~~~~~-~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~--d~~~g~~~~~~l~~~l~~ 98 (843)
..+.. .++|+|......+ +..++.+ +.+++...+..+++.+...|-+++++|.. ++..+....+.|.+.+++
T Consensus 132 ~~l~~~~~iPvV~~d~~~~---~~~~~~~--v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~ 206 (341)
T PRK10703 132 AMLEEYRHIPMVVMDWGEA---KADFTDA--IIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTGAGRLAGFMKAMEE 206 (341)
T ss_pred HHHHhcCCCCEEEEecccC---CcCCCCe--EEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccchHHHHHHHHHHHHH
Confidence 34445 6999998754322 1111222 34444555677778877779999999964 333455668899999999
Q ss_pred cCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCcccceEEEEe
Q 003167 99 IRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 166 (843)
Q Consensus 99 ~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~i~~ 166 (843)
.|+.+........+ ....+....+.++.+. .+++|++ ++...+..+++.+++.|...++.+.|++
T Consensus 207 ~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~a~g~~~al~~~g~~ip~dv~vvg 273 (341)
T PRK10703 207 ANIKVPEEWIVQGD--FEPESGYEAMQQILSQKHRPTAVFC-GGDIMAMGAICAADEMGLRVPQDISVIG 273 (341)
T ss_pred cCCCCChHHeEeCC--CCHHHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 99765432111111 1123334455555433 4677665 4555666788999999976555555543
No 166
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=95.03 E-value=0.34 Score=52.53 Aligned_cols=147 Identities=10% Similarity=0.036 Sum_probs=87.1
Q ss_pred CCeEEEEc-CCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiG-p~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
.++.|||= |.. .........+...++|+|...... ....+++ +..++...+..++++|...|.++++++..+
T Consensus 119 ~~vdgiIi~~~~-~~~~~~~~~l~~~~iPvV~~~~~~---~~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~ 191 (342)
T PRK10014 119 QGVDGVVIAGAA-GSSDDLREMAEEKGIPVVFASRAS---YLDDVDT---VRPDNMQAAQLLTEHLIRNGHQRIAWLGGQ 191 (342)
T ss_pred CCCCEEEEeCCC-CCcHHHHHHHhhcCCCEEEEecCC---CCCCCCE---EEeCCHHHHHHHHHHHHHCCCCEEEEEcCC
Confidence 45666662 222 122344556677899999875321 1122232 455666677778888888899999999754
Q ss_pred CC--CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCc
Q 003167 82 DD--QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 82 ~~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~ 157 (843)
.. ......+.|.+++++.|+.+.....+... .........+.++.+. .+++|+ +.+...+..+++.+.+.|+.
T Consensus 192 ~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~ 268 (342)
T PRK10014 192 SSSLTRAERVGGYCATLLKFGLPFHSEWVLECT--SSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQ 268 (342)
T ss_pred cccccHHHHHHHHHHHHHHcCCCCCcceEecCC--CChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCC
Confidence 32 23446788999999998764322111111 1122233444554433 456665 45566677788888898876
Q ss_pred cc
Q 003167 158 DS 159 (843)
Q Consensus 158 ~~ 159 (843)
.+
T Consensus 269 vp 270 (342)
T PRK10014 269 SG 270 (342)
T ss_pred CC
Confidence 54
No 167
>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=95.00 E-value=0.53 Score=50.05 Aligned_cols=156 Identities=17% Similarity=0.140 Sum_probs=91.2
Q ss_pred CeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCC-----C--CCC-CceEEcCCChHHhHHHHHHHHHHcCCcE
Q 003167 4 DTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLS-----P--LQY-PFFVQTAPNDLYLMSAIAEMVSYFGWGE 74 (843)
Q Consensus 4 ~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls-----~--~~~-p~~fR~~p~d~~~~~ai~~ll~~~~w~~ 74 (843)
+|.||| -|... ....+...+.+.++|+|......+... . ..+ +++-.+.+++...+..+++.+...|-++
T Consensus 58 ~vdgiIi~~~~~-~~~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~ 136 (305)
T cd06324 58 KPDALIFTNEKS-VAPELLRLAEGAGVKLFLVNSGLTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSV 136 (305)
T ss_pred CCCEEEEcCCcc-chHHHHHHHHhCCCeEEEEecCCCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcc
Confidence 677655 33322 233334566779999998865433211 0 111 2344567777778888888887766653
Q ss_pred --------EEEEEecC--CCCcchHHHHHHHHHhcC-cEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcCh
Q 003167 75 --------VIAIFNDD--DQGRNGVTALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYS 141 (843)
Q Consensus 75 --------v~ii~~d~--~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~ 141 (843)
++++..+. .......+.|+++++++| ..+.. .+... ....+-...+.++.+. ++++|+ +.+.
T Consensus 137 ~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~g~~~~~~--~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d 211 (305)
T cd06324 137 QAPGGRIDLLAISGDPTTPAAILREAGLRRALAEHPDVRLRQ--VVYAG--WSEDEAYEQAENLLKRYPDVRLIW-AAND 211 (305)
T ss_pred cCCCCceeEEEEeCCCCChHHHHHHHHHHHHHHHCCCceEee--eecCC--CCHHHHHHHHHHHHHHCCCccEEE-ECCc
Confidence 77666432 234556888999999887 33322 12212 1233334455555433 466655 4556
Q ss_pred hhHHHHHHHHHHcCCcccceEEEE
Q 003167 142 RTGLMVFDVAQRLGMMDSGYVWIA 165 (843)
Q Consensus 142 ~~~~~i~~~a~~~g~~~~~~~~i~ 165 (843)
..+..+++.+++.|+..++.+-|+
T Consensus 212 ~~A~g~~~al~~~g~~vp~di~vi 235 (305)
T cd06324 212 QMAFGALRAAKEAGRKPGRDVLFG 235 (305)
T ss_pred hHHHHHHHHHHHcCCCcCCCEEEE
Confidence 667788999999998654444444
No 168
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a
Probab=94.97 E-value=0.33 Score=50.35 Aligned_cols=135 Identities=10% Similarity=0.004 Sum_probs=81.1
Q ss_pred hcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec--CCCCcchHHHHHHHHHhcC
Q 003167 23 LANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND--DDQGRNGVTALGDKLAEIR 100 (843)
Q Consensus 23 ~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g 100 (843)
+....++|+|......+ +..+++ +..++...+..+++++...|-++++++... +.......+.|.+.+++.|
T Consensus 74 l~~~~~ipvV~i~~~~~---~~~~~~---V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~ 147 (269)
T cd06275 74 LERYRHIPMVVMDWGPE---DDFADK---IQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMAEAG 147 (269)
T ss_pred HHhcCCCCEEEEecccC---CCCCCe---EeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHHHcC
Confidence 33456899998754322 122232 445566666777888888899999999753 2334556788999999888
Q ss_pred cEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCcccceEEEEe
Q 003167 101 CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 166 (843)
Q Consensus 101 ~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~i~~ 166 (843)
+.+......... .+.......++++.+. .+++|++ .+...+..+++.+++.|...++.+-+++
T Consensus 148 ~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~vp~di~vvg 212 (269)
T cd06275 148 LPVNPGWIVEGD--FECEGGYEAMQRLLAQPKRPTAVFC-GNDLMAMGALCAAQEAGLRVPQDLSIIG 212 (269)
T ss_pred CCCCHHHhccCC--CChHHHHHHHHHHHcCCCCCcEEEE-CChHHHHHHHHHHHHcCCCCCcceEEEE
Confidence 765321111111 1123334455565444 4565544 4456666788888888876554454443
No 169
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=94.95 E-value=0.54 Score=48.84 Aligned_cols=154 Identities=11% Similarity=0.025 Sum_probs=90.5
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
.++.+||--.+......+..+. ..++|+|......+. ...+ .+.+++...+..+++.|...|-++++++..+.
T Consensus 54 ~~~dgiii~~~~~~~~~~~~~~-~~~~pvV~i~~~~~~---~~~~---~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~ 126 (269)
T cd06293 54 NHVDGLIFVTNRPDDGALAKLI-NSYGNIVLVDEDVPG---AKVP---KVFCDNEQGGRLATRHLARAGHRRIAFVGGPD 126 (269)
T ss_pred CCCCEEEEeCCCCCHHHHHHHH-hcCCCEEEECCCCCC---CCCC---EEEECCHHHHHHHHHHHHHCCCceEEEEecCc
Confidence 4677777432211112233333 357999987653321 1122 35567777888888888888999999997543
Q ss_pred C--CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 83 D--QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 83 ~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
. ......+.|.+++++.|..+......... .+..+....+.++.+ ..+++|+.. +...+..+++.+++.|...
T Consensus 127 ~~~~~~~R~~Gf~~a~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~v 203 (269)
T cd06293 127 ALISARERYAGYREALAEAHIPEVPEYVCFGD--YTREFGRAAAAQLLARGDPPTAIFAA-SDEIAIGLLEVLRERGLSI 203 (269)
T ss_pred ccccHHHHHHHHHHHHHHcCCCCChheEEecC--CCHHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCC
Confidence 3 23456789999999988653211111111 112233344555433 346766554 5566667889999999765
Q ss_pred cceEEEEe
Q 003167 159 SGYVWIAT 166 (843)
Q Consensus 159 ~~~~~i~~ 166 (843)
++.+-|.+
T Consensus 204 p~di~i~g 211 (269)
T cd06293 204 PGDMSLVG 211 (269)
T ss_pred ccceEEEe
Confidence 55555543
No 170
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=94.92 E-value=0.36 Score=50.10 Aligned_cols=153 Identities=13% Similarity=0.074 Sum_probs=87.1
Q ss_pred CeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecCC
Q 003167 4 DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD 83 (843)
Q Consensus 4 ~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~~ 83 (843)
++.|||-..... .......+.+.++|+|......+. ....+ .+..++...+..+++.+...|-++++++.....
T Consensus 60 ~~dgiii~~~~~-~~~~~~~~~~~~ipvV~~~~~~~~--~~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~ 133 (270)
T cd06294 60 RVDGFILLYSRE-DDPIIDYLKEEKFPFVVIGKPEDD--KENIT---YVDNDNIQAGYDATEYLIKLGHKKIAFVGGDLD 133 (270)
T ss_pred CcCEEEEecCcC-CcHHHHHHHhcCCCEEEECCCCCC--CCCCC---eEEECcHHHHHHHHHHHHHcCCccEEEecCCcc
Confidence 466655322111 123344557789999987543221 01222 244566666677788877779999999975433
Q ss_pred C--CcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCccc
Q 003167 84 Q--GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDS 159 (843)
Q Consensus 84 ~--g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~~ 159 (843)
+ .....+.|.+.+++.|+.+......... .+..+....+.++.+. ++++|+. .+...+..+++.+++.|+..+
T Consensus 134 ~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~iP 210 (270)
T cd06294 134 LEVTQDRLQGYKQALEDHGIPDRNEVIISLD--FSEEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELGLKVP 210 (270)
T ss_pred cHHHHHHHHHHHHHHHHcCCCCCcceEEecC--CchHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCC
Confidence 2 3445788999999988532111111111 1123334455555433 4666665 455567778899999998654
Q ss_pred ceEEEE
Q 003167 160 GYVWIA 165 (843)
Q Consensus 160 ~~~~i~ 165 (843)
+.+-+.
T Consensus 211 ~dv~vi 216 (270)
T cd06294 211 EDLSII 216 (270)
T ss_pred cceEEE
Confidence 444333
No 171
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=94.90 E-value=0.41 Score=49.67 Aligned_cols=152 Identities=13% Similarity=0.009 Sum_probs=88.8
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
.+|++||--.+.... .....+...++|+|......+ +..+++ +..++...+..+++++...|-++++++..+.
T Consensus 54 ~~vdgii~~~~~~~~-~~~~~~~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~ 126 (268)
T cd06270 54 RRCDALILHSKALSD-DELIELAAQVPPLVLINRHIP---GLADRC---IWLDNEQGGYLATEHLIELGHRKIACITGPL 126 (268)
T ss_pred cCCCEEEEecCCCCH-HHHHHHhhCCCCEEEEeccCC---CCCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeCCc
Confidence 456666632221111 113445678999998765332 112232 4566777788888888888999999997643
Q ss_pred C--CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 83 D--QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 83 ~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
. ......+.|.+.+++.|+.+.....+... .+..+....+.++.+. .+++|+. ++...+..+++.+++.|+..
T Consensus 127 ~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~i 203 (268)
T cd06270 127 TKEDARLRLQGYRDALAEAGIALDESLIIEGD--FTEEGGYAAMQELLARGAPFTAVFC-ANDEMAAGAISALREHGISV 203 (268)
T ss_pred ccccHHHHHHHHHHHHHHcCCCCCcceEEECC--CCHHHHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCC
Confidence 2 23455788899999988654211111111 1233444556665544 3566554 44456667888999988765
Q ss_pred cceEEE
Q 003167 159 SGYVWI 164 (843)
Q Consensus 159 ~~~~~i 164 (843)
++.+-|
T Consensus 204 p~di~v 209 (268)
T cd06270 204 PQDVSI 209 (268)
T ss_pred CCceeE
Confidence 443433
No 172
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=94.89 E-value=0.45 Score=51.25 Aligned_cols=148 Identities=11% Similarity=0.054 Sum_probs=97.6
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec-
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND- 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d- 81 (843)
.+|++||=-. ..........+.+.++|+|......+ +.. +-.+..++..-+..+++.|...|-++++++...
T Consensus 113 ~~vdGiIi~~-~~~~~~~~~~l~~~~~P~V~i~~~~~---~~~---~~~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~ 185 (333)
T COG1609 113 KRVDGLILLG-ERPNDSLLELLAAAGIPVVVIDRSPP---GLG---VPSVGIDNFAGAYLATEHLIELGHRRIAFIGGPL 185 (333)
T ss_pred cCCCEEEEec-CCCCHHHHHHHHhcCCCEEEEeCCCc---cCC---CCEEEEChHHHHHHHHHHHHHCCCceEEEEeCCC
Confidence 4566666222 22234445667777999998765544 222 333556777778889999999999999999985
Q ss_pred -CCCCcchHHHHHHHHHhcCcEE--EEeeecCCCCCCChhHHHHHHHHHhcCC---CeEEEEEcChhhHHHHHHHHHHcC
Q 003167 82 -DDQGRNGVTALGDKLAEIRCKI--SYKSALPPDQSVTETDVRNELVKVRMME---ARVIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 82 -~~~g~~~~~~l~~~l~~~g~~v--~~~~~~~~~~~~~~~d~~~~l~~i~~~~---~~viv~~~~~~~~~~i~~~a~~~g 155 (843)
...+....+.|.+++++.|+.. .....-.. +..+-...+.++.... +++|+ +++...+..+++.+++.|
T Consensus 186 ~~~~~~~R~~Gf~~al~~~~~~~~~~~i~~~~~----~~~~g~~~~~~ll~~~~~~ptAif-~~nD~~Alg~l~~~~~~g 260 (333)
T COG1609 186 DSSASRERLEGYRAALREAGLPINPEWIVEGDF----SEESGYEAAERLLARGEPRPTAIF-CANDLMALGALRALRELG 260 (333)
T ss_pred ccccHhHHHHHHHHHHHHCCCCCCcceEEecCC----ChHHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcC
Confidence 4556788999999999999875 22221111 2334444455555432 66765 455667888999999999
Q ss_pred CcccceE
Q 003167 156 MMDSGYV 162 (843)
Q Consensus 156 ~~~~~~~ 162 (843)
...++-+
T Consensus 261 ~~vP~di 267 (333)
T COG1609 261 LRVPEDL 267 (333)
T ss_pred CCCCCee
Confidence 8765533
No 173
>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=94.86 E-value=0.34 Score=50.19 Aligned_cols=147 Identities=12% Similarity=0.095 Sum_probs=88.0
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
.++++|| .|.... ... ...+...++|+|......+ ..++ +..++..-+..+++.|...|-++++++..+
T Consensus 54 ~~~dgiii~~~~~~-~~~-~~~~~~~~iPvv~~~~~~~-----~~~~---V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~ 123 (265)
T cd06285 54 RRVDGLILGDARSD-DHF-LDELTRRGVPFVLVLRHAG-----TSPA---VTGDDVLGGRLATRHLLDLGHRRIAVLAGP 123 (265)
T ss_pred cCCCEEEEecCCCC-hHH-HHHHHHcCCCEEEEccCCC-----CCCE---EEeCcHHHHHHHHHHHHHCCCccEEEEeCC
Confidence 3556555 443322 223 3445668999998765321 2232 345566666778888888899999999864
Q ss_pred C--CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCc
Q 003167 82 D--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 82 ~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~ 157 (843)
. ..+....+.|.+.+++.|+.+.....+... .........+.++.+. .+++|+. .+...+..+++.+++.|+.
T Consensus 124 ~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ 200 (265)
T cd06285 124 DYASTARDRLAGFRAALAEAGIEVPPERIVYSG--FDIEGGEAAAEKLLRSDSPPTAIFA-VNDFAAIGVMGAARDRGLR 200 (265)
T ss_pred cccccHHHHHHHHHHHHHHcCCCCChhhEEeCC--CCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCC
Confidence 3 345566888999999988764321111111 1122333445555433 4566554 4556677789999999976
Q ss_pred ccceE
Q 003167 158 DSGYV 162 (843)
Q Consensus 158 ~~~~~ 162 (843)
.++-+
T Consensus 201 ~p~di 205 (265)
T cd06285 201 VPDDV 205 (265)
T ss_pred CCcce
Confidence 54433
No 174
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=94.84 E-value=0.57 Score=50.40 Aligned_cols=151 Identities=9% Similarity=-0.043 Sum_probs=89.1
Q ss_pred CCeEEEEc-CCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aiiG-p~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
.+|++||= |........ ...+.+.++|+|......+ ...+++ +..++...+..+++.|...|-++|+++...
T Consensus 116 ~~vdgiIi~~~~~~~~~~-~~~l~~~~iPvV~v~~~~~---~~~~~~---V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~ 188 (328)
T PRK11303 116 RQVDALIVSTSLPPEHPF-YQRLQNDGLPIIALDRALD---REHFTS---VVSDDQDDAEMLAESLLKFPAESILLLGAL 188 (328)
T ss_pred cCCCEEEEcCCCCCChHH-HHHHHhcCCCEEEECCCCC---CCCCCE---EEeCCHHHHHHHHHHHHHCCCCeEEEEeCc
Confidence 45677652 221111222 2334567999998754321 122333 345666667777888877899999999754
Q ss_pred C--CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCc
Q 003167 82 D--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 82 ~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~ 157 (843)
. ..+....+.|.+++++.|+.+.... ... .+..+-...+.++.+. .+++|++. +...+..+++++.+.|+.
T Consensus 189 ~~~~~~~~R~~Gf~~al~~~g~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~ 263 (328)
T PRK11303 189 PELSVSFEREQGFRQALKDDPREVHYLY--ANS--FEREAGAQLFEKWLETHPMPDALFTT-SYTLLQGVLDVLLERPGE 263 (328)
T ss_pred cccccHHHHHHHHHHHHHHcCCCceEEE--eCC--CChHHHHHHHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCC
Confidence 3 3345668899999999987643221 111 1122233345555433 46776665 445666788888999986
Q ss_pred ccceEEEE
Q 003167 158 DSGYVWIA 165 (843)
Q Consensus 158 ~~~~~~i~ 165 (843)
.++-+-|+
T Consensus 264 vP~disv~ 271 (328)
T PRK11303 264 LPSDLAIA 271 (328)
T ss_pred CCCceEEE
Confidence 55554444
No 175
>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=94.82 E-value=0.31 Score=50.35 Aligned_cols=134 Identities=16% Similarity=0.113 Sum_probs=81.9
Q ss_pred HhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHHHhc
Q 003167 22 HLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLAEI 99 (843)
Q Consensus 22 ~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~~~ 99 (843)
..+...++|+|......+ ..+++ +..++...+..+++.+...|-++++++..... ........|.+.+++.
T Consensus 68 ~~~~~~~ipvV~~~~~~~----~~~~~---V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~ 140 (261)
T cd06272 68 LYKIKLAIPVVSYGVDYD----LKYPI---VNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCDEN 140 (261)
T ss_pred HHHHHcCCCEEEEcccCC----CCCCE---EEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHHHc
Confidence 445678899998754322 12232 55667777778888887789999999975433 3345578899999998
Q ss_pred CcEEEEeeecCCCCCCChhHHHHHHHHHhcCC--CeEEEEEcChhhHHHHHHHHHHcCCcccceEEEE
Q 003167 100 RCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 165 (843)
Q Consensus 100 g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~--~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~i~ 165 (843)
|+.+......... .+.......+.++.+.. +++|+ +++...+..+++.+++.|+..++.+-+.
T Consensus 141 ~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~vp~dv~vv 205 (261)
T cd06272 141 GISISDSHIDVDG--LSAEGGDNAAKKLLKESDLPTAII-CGSYDIALGVLSALNKQGISIPEDIEII 205 (261)
T ss_pred CCCCCHHHeeeCC--CCHHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHhCCCCCCceEEE
Confidence 8643221111111 11223334455554433 56644 4555667778899999998655544444
No 176
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=94.80 E-value=0.53 Score=47.61 Aligned_cols=134 Identities=5% Similarity=0.016 Sum_probs=94.1
Q ss_pred HHHHHHhcccCCCcEEecccCCCCCCC-C-C-CCce--EEcCCChHHhHHHHHHHHHHcCCcEEEEEEecCCCCcchHHH
Q 003167 17 AHVLSHLANELQVPLLSFTALDPTLSP-L-Q-YPFF--VQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTA 91 (843)
Q Consensus 17 ~~av~~~~~~~~vP~Is~~at~~~ls~-~-~-~p~~--fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~ 91 (843)
..+++.+....++=.|.|++|+.++-. . . ..-. -++..+-..-+.|+.+.++++|-+|++++. +|-....+.
T Consensus 60 ~~aa~~ll~~a~~dvi~~~cTsgs~~~G~~~~~~~i~~~~~g~p~tt~~~A~~~AL~alg~~RIalvT---PY~~~v~~~ 136 (239)
T TIGR02990 60 TEAAALILPDEELDVVAYSCTSASVVIGDDEVTRAINAAKPGTPVVTPSSAAVDGLAALGVRRISLLT---PYTPETSRP 136 (239)
T ss_pred HHHHHHhcCCCCCCEEEEccchhheecCHHHHHHHHHhcCCCCCeeCHHHHHHHHHHHcCCCEEEEEC---CCcHHHHHH
Confidence 345556666678889999998876531 0 0 0000 122233444567888999999999999997 488889999
Q ss_pred HHHHHHhcCcEEEEeeecCCCC-----CCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHH
Q 003167 92 LGDKLAEIRCKISYKSALPPDQ-----SVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQR 153 (843)
Q Consensus 92 l~~~l~~~g~~v~~~~~~~~~~-----~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~ 153 (843)
+.+.+++.|++|+....+.... .-+...+...+.++...++|+|++.|..-.+..++.++.+
T Consensus 137 ~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aDAifisCTnLrt~~vi~~lE~ 203 (239)
T TIGR02990 137 MAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDADALFLSCTALRAATCAQRIEQ 203 (239)
T ss_pred HHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCCEEEEeCCCchhHHHHHHHHH
Confidence 9999999999998775554320 0124555666666667899999999988777778877754
No 177
>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=94.79 E-value=1.8 Score=41.67 Aligned_cols=70 Identities=20% Similarity=0.185 Sum_probs=45.9
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+..+++..+.+..+ .++++... ++...+...+.+|++|+++... ......+ -..+.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~---~~~~~~~-~~~~l~~~~~~~v~~~ 80 (193)
T cd08442 13 VRLPPLLAAYHARYP-KVDLSLST-------GTTGALIQAVLEGRLDGAFVAG---PVEHPRL-EQEPVFQEELVLVSPK 80 (193)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEEeC---CCCCCCc-EEEEeecCcEEEEecC
Confidence 455788888888765 24555554 4577899999999999998532 1222222 2455667777777766
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (193)
T cd08442 81 GH 82 (193)
T ss_pred CC
Confidence 54
No 178
>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=94.64 E-value=1.8 Score=42.32 Aligned_cols=73 Identities=15% Similarity=0.202 Sum_probs=48.0
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.++.+ .+++.... ++.+.++..|.+|++|++++...........+. +.+.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~ 83 (202)
T cd08468 13 AVMPRLMARLEELAP-SVRLNLVH-------AEQKLPLDALLAGEIDFALGYSHDDGAEPRLIE-ERDWWEDTYVVIASR 83 (202)
T ss_pred HHhHHHHHHHHhhCC-CCEEEEEE-------CChHhHHHHHHCCCccEEEecccccccCCCCEE-EEEEecCcEEEEEeC
Confidence 455788888888774 25566654 557899999999999999874322100012233 346777778888776
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 84 ~h 85 (202)
T cd08468 84 DH 85 (202)
T ss_pred CC
Confidence 55
No 179
>cd08440 PBP2_LTTR_like_4 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse funct
Probab=94.64 E-value=2.3 Score=40.85 Aligned_cols=70 Identities=17% Similarity=0.258 Sum_probs=46.7
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+..+++..+.+..+ .++++... ++..++.+.+.+|++|+++..... ....+ -+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~~-~~~~l~~~~~~~~~~~ 80 (197)
T cd08440 13 TLLPPVLAAFRRRHP-GIRVRLRD-------VSAEQVIEAVRSGEVDFGIGSEPE---ADPDL-EFEPLLRDPFVLVCPK 80 (197)
T ss_pred hHHHHHHHHHHHhCC-CcEEEEEe-------CChHHHHHHHHcCCccEEEEeCCC---CCCCe-eEEEeecccEEEEecC
Confidence 455788888887764 35565554 457889999999999999863222 12222 2356777788888766
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (197)
T cd08440 81 DH 82 (197)
T ss_pred CC
Confidence 54
No 180
>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=94.60 E-value=1.2 Score=43.70 Aligned_cols=195 Identities=18% Similarity=0.166 Sum_probs=120.1
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
++||||+.. .+. ..+-.+++..+.+..+- ++++... ++...++..|.+|++|+++...
T Consensus 6 ~~l~Ig~~~--~~~------------~~~l~~~l~~~~~~~P~-i~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 63 (209)
T PF03466_consen 6 GTLRIGASP--SFA------------SSLLPPLLAEFRERHPN-IRIEIRE-------GDSDELIEALRSGELDLAITFG 63 (209)
T ss_dssp EEEEEEEEH--HHH------------HHTHHHHHHHHHHHSTT-EEEEEEE-------ESHHHHHHHHHTTSSSEEEESS
T ss_pred eEEEEEEEh--HHH------------HHHHHHHHHHHHHHCCC-cEEEEEe-------ccchhhhHHHhcccccEEEEEe
Confidence 568888874 111 23446788888887753 5566655 5578999999999999998754
Q ss_pred eeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccch
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIV 534 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~ 534 (843)
.. ....+. ..|+....+++++++..+...
T Consensus 64 ~~---~~~~~~-~~~l~~~~~~~~~~~~~pl~~----------------------------------------------- 92 (209)
T PF03466_consen 64 PP---PPPGLE-SEPLGEEPLVLVVSPDHPLAQ----------------------------------------------- 92 (209)
T ss_dssp SS---SSTTEE-EEEEEEEEEEEEEETTSGGGT-----------------------------------------------
T ss_pred ec---cccccc-cccccceeeeeeeeccccccc-----------------------------------------------
Confidence 43 222222 567778888888887652110
Q ss_pred hhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEE-eCchH
Q 003167 535 TVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQ-VGSFA 613 (843)
Q Consensus 535 ~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~-~~~~~ 613 (843)
..++ +++||. +.++... .+...
T Consensus 93 ------------------------------------------------------~~~i-~~~dL~--~~~~i~~~~~~~~ 115 (209)
T PF03466_consen 93 ------------------------------------------------------KKPI-TLEDLA--DYPLILLSPGSPY 115 (209)
T ss_dssp ------------------------------------------------------TSSS-SGGGGT--TSEEEEESTTTSH
T ss_pred ------------------------------------------------------cccc-hhhhhh--hcccccccccccc
Confidence 0244 889996 5555443 34444
Q ss_pred HHHHHH---hhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEeCC-ccccCcceeeecCCCCch
Q 003167 614 ENYLIE---ELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQ-EFTKSGWGFAFPRDSPLA 689 (843)
Q Consensus 614 ~~~l~~---~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~~~~~k~spl~ 689 (843)
...+.+ ..+........+++.+.....+..|..-+++.+.....+.....-....+.+ .+. ..++++.+++.+..
T Consensus 116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~gi~~~p~~~~~~~~~~~~l~~~~~~~~~~~-~~~~l~~~~~~~~~ 194 (209)
T PF03466_consen 116 RDQLDRWLREHGFSPNIVIEVDSFESILSLVASGDGIAILPDSLAQDELESGELVFLPLPDPPLP-RPIYLVWRKDRPLS 194 (209)
T ss_dssp HHHHHHHHHHTTEEEEEEEEESSHHHHHHHHHTTSEBEEEEHHHHHHHHHCTTEEEEEESSSTEE-EEEEEEEETTGTTH
T ss_pred ccccccccccccccccccccccchhhhccccccccceeecCcccccccccCCCEEEEECCCCCCc-eEEEEEEECCCCCC
Confidence 444432 2344434446678999999999998876776554433443222223234444 443 77888888887766
Q ss_pred HHHHHHHHhhh
Q 003167 690 IDMSTAILTLS 700 (843)
Q Consensus 690 ~~in~~i~~l~ 700 (843)
..+...+..+.
T Consensus 195 ~~~~~~~~~l~ 205 (209)
T PF03466_consen 195 PAIQWFIDLLR 205 (209)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 66655554443
No 181
>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=94.55 E-value=0.61 Score=48.52 Aligned_cols=137 Identities=15% Similarity=0.114 Sum_probs=83.5
Q ss_pred HhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC--CCCcchHHHHHHHHHhc
Q 003167 22 HLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLAEI 99 (843)
Q Consensus 22 ~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~~~ 99 (843)
..+...++|+|......+. ....+ .+..++...+..+++.+...|-++++++.... .......+.|.++++++
T Consensus 77 ~~~~~~~ipvV~i~~~~~~--~~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~ 151 (273)
T cd06292 77 ERLAERGLPVVLVNGRAPP--PLKVP---HVSTDDALAMRLAVRHLVALGHRRIGFASGPGRTVPRRRKIAGFRAALEEA 151 (273)
T ss_pred HHHHhCCCCEEEEcCCCCC--CCCCC---EEEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHHHc
Confidence 3456789999988654322 01223 25556777777888888788999999997543 33456688999999998
Q ss_pred CcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccceEEEEe
Q 003167 100 RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 166 (843)
Q Consensus 100 g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~i~~ 166 (843)
|+.......+... .+.......+.++...++++|++. +...+..+++.+++.|+..++.+-|.+
T Consensus 152 ~~~~~~~~i~~~~--~~~~~~~~~~~~~l~~~~~ai~~~-~d~~a~g~~~~l~~~g~~ip~di~ii~ 215 (273)
T cd06292 152 GLEPPEALVARGM--FSVEGGQAAAVELLGSGPTAIVAA-SDLMALGAIRAARRRGLRVPEDVSVVG 215 (273)
T ss_pred CCCCChhheEeCC--CCHHHHHHHHHHHhcCCCCEEEEc-CcHHHHHHHHHHHHcCCCCCcceEEEe
Confidence 8642211111111 112223344455544448876644 555666788888998876555454443
No 182
>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=94.49 E-value=0.43 Score=49.54 Aligned_cols=153 Identities=12% Similarity=0.060 Sum_probs=89.3
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
.++.||| .|.... . .....+...++|+|........ ...+++ +.+++...+..+++.+...|.++++++..+
T Consensus 54 ~~~dgiii~~~~~~-~-~~~~~~~~~~ipvV~i~~~~~~--~~~~~~---v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~ 126 (270)
T cd06296 54 RRTDGVILVTPELT-S-AQRAALRRTGIPFVVVDPAGDP--DADVPS---VGATNWAGGLAATEHLLELGHRRIGFITGP 126 (270)
T ss_pred cCCCEEEEecCCCC-h-HHHHHHhcCCCCEEEEecccCC--CCCCCE---EEeCcHHHHHHHHHHHHHcCCCcEEEEcCC
Confidence 4567665 333222 1 2345567789999988654211 122332 556666677778888777799999999753
Q ss_pred C--CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHHHcCCc
Q 003167 82 D--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 82 ~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~~~g~~ 157 (843)
. .......+.|.+++++.|+.+......... .+.......+.++.+ ..+++|+. .+...+..+++.+++.|..
T Consensus 127 ~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~ 203 (270)
T cd06296 127 PDLLCSRARLDGYRAALAEAGIPVDPALVREGD--FSTESGFRAAAELLALPERPTAIFA-GNDLMALGVYEAARERGLR 203 (270)
T ss_pred CcchhHHHHHHHHHHHHHHcCCCCChHHheeCC--CCHHHHHHHHHHHHhCCCCCcEEEE-cCcHHHHHHHHHHHHhCCC
Confidence 2 234566788999999887654321111111 112233344444433 34565554 4555677788999999976
Q ss_pred ccceEEEE
Q 003167 158 DSGYVWIA 165 (843)
Q Consensus 158 ~~~~~~i~ 165 (843)
.++.+-|.
T Consensus 204 ~p~~i~v~ 211 (270)
T cd06296 204 IPEDLSVV 211 (270)
T ss_pred CCCceEEE
Confidence 54444333
No 183
>cd08420 PBP2_CysL_like C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold. CysL, also known as YwfK, is a regular of sulfur metabolism in Bacillus subtilis. Sulfur is required for the synthesis of proteins and essential cofactors in all living organism. Sulfur can be assimilated either from inorganic sources (sulfate and thiosulfate), or from organic sources (sulfate esters, sulfamates, and sulfonates). CysL activates the transcription of the cysJI operon encoding sulfite reductase, which reduces sulfite to sulfide. Both cysL mutant and cysJI mutant are unable to grow using sulfate or sulfite as the sulfur source. Like other LysR-type regulators, CysL also negatively regulates its own transcription. In Escherichia coli, three LysR-type activators are involved in the regulation of sulfur metabolism: CysB, Cbl and MetR. The topology
Probab=94.38 E-value=2.5 Score=40.78 Aligned_cols=70 Identities=16% Similarity=0.212 Sum_probs=45.9
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.+..+ .+++.... ++-..++.+|.+|++|+++...... ...+. +.+.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~~~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 80 (201)
T cd08420 13 YLLPRLLARFRKRYP-EVRVSLTI-------GNTEEIAERVLDGEIDLGLVEGPVD---HPDLI-VEPFAEDELVLVVPP 80 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCccEEEecCCCC---CcceE-EEeecCccEEEEecC
Confidence 455678888888764 24455543 4467889999999999998643222 22222 356777788887765
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (201)
T cd08420 81 DH 82 (201)
T ss_pred CC
Confidence 54
No 184
>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=94.30 E-value=3.1 Score=40.03 Aligned_cols=70 Identities=16% Similarity=0.249 Sum_probs=47.3
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+..+++..+.+..+ .++++... ++..+++..|.+|++|+++..... ....+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~v~i~i~~-------~~~~~~~~~L~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (197)
T cd08438 13 LLFAPLLAAFRQRYP-NIELELVE-------YGGKKVEQAVLNGELDVGITVLPV---DEEEFD-SQPLCNEPLVAVLPR 80 (197)
T ss_pred hhcHHHHHHHHHHCc-CeEEEEEE-------cCcHHHHHHHHcCCCCEEEEeccc---ccCCce-eEEeccccEEEEecC
Confidence 456788888888765 35566554 456889999999999999864322 112222 346677788888776
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (197)
T cd08438 81 GH 82 (197)
T ss_pred CC
Confidence 54
No 185
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=94.29 E-value=1.1 Score=46.41 Aligned_cols=142 Identities=12% Similarity=-0.024 Sum_probs=85.8
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCC-----cEEE
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGW-----GEVI 76 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w-----~~v~ 76 (843)
.++.+|| -|........ ...+...++|+|......+ +. .....+..++...+..+++++...+- ++++
T Consensus 56 ~~vdgiI~~~~~~~~~~~-~~~~~~~giPvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~ 129 (268)
T cd06306 56 WGADAILLGAVSPDGLNE-ILQQVAASIPVIALVNDIN---SP--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVA 129 (268)
T ss_pred cCCCEEEEcCCChhhHHH-HHHHHHCCCCEEEeccCCC---Cc--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEE
Confidence 4566665 3333222122 3445678999998743221 11 12224566777777888888877665 8999
Q ss_pred EEEecC--CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHH
Q 003167 77 AIFNDD--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 77 ii~~d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
++.... .......+.|.+++++.|+++... .... .+...-...++++.+ .++++|+. . ...+..+++.++
T Consensus 130 ~l~g~~~~~~~~~R~~g~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~-~-d~~a~~~~~~l~ 203 (268)
T cd06306 130 WFPGPKGAGWVKAVEKGFRDALAGSAIEISAI--KYGD--TGKEVQRKLVEEALEAHPDIDYIVG-S-AVAAEAAVGILR 203 (268)
T ss_pred EEeCCCCCchHHHHHHHHHHHHhhcCcEEeee--ccCC--ccHHHHHHHHHHHHHhCCCcCEEee-c-chhhhHHHHHHH
Confidence 997633 345566888999999999877542 1111 123333445555443 35677764 3 566777888888
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|+
T Consensus 204 ~~g~ 207 (268)
T cd06306 204 QRGL 207 (268)
T ss_pred hcCC
Confidence 9886
No 186
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=94.25 E-value=2.4 Score=45.07 Aligned_cols=194 Identities=11% Similarity=0.071 Sum_probs=113.4
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
..++|++.... ..++-..++..+.+..+ .+++.... .+-++++++|.+|++|+++...
T Consensus 91 g~l~i~~~~~~--------------~~~~~~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 148 (305)
T PRK11151 91 GPLHIGLIPTV--------------GPYLLPHIIPMLHQTFP-KLEMYLHE-------AQTHQLLAQLDSGKLDCAILAL 148 (305)
T ss_pred ceEEEEecchh--------------HHHHHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEec
Confidence 46888887411 12344567777777654 25566654 4568999999999999998643
Q ss_pred eeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccch
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIV 534 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~ 534 (843)
... ...+ .+.|+....+++++++..+..
T Consensus 149 ~~~---~~~l-~~~~l~~~~~~~~~~~~hpl~------------------------------------------------ 176 (305)
T PRK11151 149 VKE---SEAF-IEVPLFDEPMLLAVYEDHPWA------------------------------------------------ 176 (305)
T ss_pred CCC---CCCe-EEEEeccCcEEEEecCCCCcc------------------------------------------------
Confidence 222 1122 457888889999887655210
Q ss_pred hhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCchHH
Q 003167 535 TVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFAE 614 (843)
Q Consensus 535 ~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~~~ 614 (843)
....-+++||.... -|....+....
T Consensus 177 ------------------------------------------------------~~~~i~~~~L~~~~-~i~~~~~~~~~ 201 (305)
T PRK11151 177 ------------------------------------------------------NRDRVPMSDLAGEK-LLMLEDGHCLR 201 (305)
T ss_pred ------------------------------------------------------cCCccCHHHhcCCC-eEeecCCccHH
Confidence 02345778886333 24444443222
Q ss_pred HHHH---HhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEeCC--ccccCcceeeecCCCCch
Q 003167 615 NYLI---EELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQ--EFTKSGWGFAFPRDSPLA 689 (843)
Q Consensus 615 ~~l~---~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~~~~~~k~spl~ 689 (843)
..+. ...+.........++.....+.+..|...+++......... ...++..+.. ......+.++.+++.++.
T Consensus 202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~gi~ilp~~~~~~~~--~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~ 279 (305)
T PRK11151 202 DQAMGFCFEAGADEDTHFRATSLETLRNMVAAGSGITLLPALAVPNER--KRDGVCYLPCIKPEPRRTIGLVYRPGSPLR 279 (305)
T ss_pred HHHHHHHHHCCCCCCceEEeccHHHHHHHHHcCCCEEEeeHHhhhhhc--ccCCEEEEECcCCccceEEEEEEcCCCcch
Confidence 2111 12333333345678888888999888876666554332222 1233444432 223456888889987777
Q ss_pred HHHHHHHHhh
Q 003167 690 IDMSTAILTL 699 (843)
Q Consensus 690 ~~in~~i~~l 699 (843)
..+...+..+
T Consensus 280 ~~~~~~~~~~ 289 (305)
T PRK11151 280 SRYEQLAEAI 289 (305)
T ss_pred HHHHHHHHHH
Confidence 6666655544
No 187
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=94.23 E-value=1.9 Score=45.72 Aligned_cols=154 Identities=7% Similarity=0.066 Sum_probs=82.0
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc--CC-------
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GW------- 72 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w------- 72 (843)
.+|.+|| .|..+.....+...+...++|+|......+...-...+-+..+.+++...+..++++|... +-
T Consensus 56 ~~vdgiii~~~~~~~~~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~a~~l~~~~~~~~~~~~~~ 135 (303)
T cd01539 56 KGVDLLAVNLVDPTAAQTVINKAKQKNIPVIFFNREPEEEDIKSYDKAYYVGTDAEQSGILQGKLIADYWNANKDALDKN 135 (303)
T ss_pred cCCCEEEEecCchhhHHHHHHHHHHCCCCEEEeCCCCcccccccccccceeeecHHHHHHHHHHHHHHHhhccccccccC
Confidence 4566544 5554443344445567789999987653221110111223446667666667777776543 22
Q ss_pred --cE--EEEEEecC--CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC---CCeEEEEEcChhh
Q 003167 73 --GE--VIAIFNDD--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRT 143 (843)
Q Consensus 73 --~~--v~ii~~d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~viv~~~~~~~ 143 (843)
.+ ++++..+. .......+.|.+.+++.|..+......... .+.......++++... ++++|+. .+...
T Consensus 136 ~~g~~~i~~~~g~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~L~~~~~~~~ai~~-~~d~~ 212 (303)
T cd01539 136 GDGIIQYVMLKGEPGHPDAIARTKYSIETLNDAGIKTEELASDTAN--WDRAQAKDKMDALLLKYGDKIEAVIA-NNDAM 212 (303)
T ss_pred CCCceEEEEEEcCCCCchhhhhhhhHHHHHHhcCCCeEEEEeecCC--CCHHHHHHHHHHHHHhcCCCccEEEE-CCchH
Confidence 12 34444332 223445778999999888765332222222 1222333345554432 2566554 44455
Q ss_pred HHHHHHHHHHcCCccc
Q 003167 144 GLMVFDVAQRLGMMDS 159 (843)
Q Consensus 144 ~~~i~~~a~~~g~~~~ 159 (843)
+..+++.+++.|...+
T Consensus 213 a~g~~~al~~~g~~~p 228 (303)
T cd01539 213 ALGAIEALQKYGYNKG 228 (303)
T ss_pred HHHHHHHHHHcCCCcC
Confidence 5668888888887553
No 188
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=94.19 E-value=0.73 Score=47.79 Aligned_cols=152 Identities=9% Similarity=0.027 Sum_probs=86.2
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
.+|+|||-...... .+...+...++|+|......+ +...++ +..++...+..+++.+...|.++++++..+.
T Consensus 57 ~~vdgiii~~~~~~--~~~~~l~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~ 128 (268)
T cd06277 57 GKVDGIILLGGIST--EYIKEIKELGIPFVLVDHYIP---NEKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDPL 128 (268)
T ss_pred CCCCEEEEeCCCCh--HHHHHHhhcCCCEEEEccCCC---CCCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCCC
Confidence 46777774222221 224556778999998754332 122233 3445555566677777777999999997654
Q ss_pred CC--CcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 83 DQ--GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 83 ~~--g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
.. .....+.|.+.+++.|+.+.....+... .....++...++.+. ..+++|++. +...+..+++.+++.|+..++
T Consensus 129 ~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~-~~~~ai~~~-~d~~a~g~~~a~~~~g~~~p~ 205 (268)
T cd06277 129 YSPSFEERYEGYKKALLDHGIPFNEDYDITEK-EEDEEDIGKFIDELK-PLPTAFFCS-NDGVAFLLIKVLKEMGIRVPE 205 (268)
T ss_pred CCcchHHHHHHHHHHHHHcCCCCCcceEEEcc-hhHHHHHHHHHhcCC-CCCCEEEEC-CcHHHHHHHHHHHHcCCCCCC
Confidence 32 3456778999999988764321111110 011233333333322 236765554 445566778888888875444
Q ss_pred eEEEE
Q 003167 161 YVWIA 165 (843)
Q Consensus 161 ~~~i~ 165 (843)
-+-|+
T Consensus 206 di~vi 210 (268)
T cd06277 206 DVSVI 210 (268)
T ss_pred cceEE
Confidence 34333
No 189
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=94.19 E-value=1.4 Score=47.83 Aligned_cols=150 Identities=10% Similarity=0.013 Sum_probs=86.3
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc-----CCcEEE
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-----GWGEVI 76 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~-----~w~~v~ 76 (843)
.+|.||| .|.......... .+.+.++|+|.+..... .+. ....+..++...+..+++++... |-++++
T Consensus 103 ~~vdgIIl~~~~~~~~~~~l-~~~~~giPvV~~~~~~~--~~~---~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~ 176 (343)
T PRK10936 103 WGADAILLGAVTPDGLNPDL-ELQAANIPVIALVNGID--SPQ---VTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVA 176 (343)
T ss_pred hCCCEEEEeCCChHHhHHHH-HHHHCCCCEEEecCCCC--Ccc---ceEEEecChHHHHHHHHHHHHHHHHhcCCCceEE
Confidence 4566655 454433322223 45678999997643221 111 12335667777777777776554 578999
Q ss_pred EEEecC--CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHH
Q 003167 77 AIFNDD--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 77 ii~~d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
++..+. .......+.|.+.+++.|+++.... .. . .+...-...++++.+ .++++|+ +....+..+++.++
T Consensus 177 ~i~g~~~~~~~~~R~~Gf~~~l~~~~i~~~~~~-~~-~--~~~~~~~~~~~~~l~~~~~~~ai~--~~d~~A~ga~~al~ 250 (343)
T PRK10936 177 LLPGPEGAGGSKAVEQGFRAAIAGSDVRIVDIA-YG-D--NDKELQRNLLQELLERHPDIDYIA--GSAVAAEAAIGELR 250 (343)
T ss_pred EEECCCCCchHHHHHHHHHHHHhcCCCEEEEee-cC-C--CcHHHHHHHHHHHHHhCCCccEEE--eCCHHHHHHHHHHH
Confidence 997532 2334557889999998898876421 11 1 112223344455433 3467776 34456667888888
Q ss_pred HcCCcccceEEEEe
Q 003167 153 RLGMMDSGYVWIAT 166 (843)
Q Consensus 153 ~~g~~~~~~~~i~~ 166 (843)
+.|+. +.+.|.+
T Consensus 251 ~~g~~--~di~Vvg 262 (343)
T PRK10936 251 GRNLT--DKIKLVS 262 (343)
T ss_pred hcCCC--CCeEEEE
Confidence 88873 3455543
No 190
>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=94.17 E-value=2.7 Score=40.57 Aligned_cols=69 Identities=17% Similarity=0.275 Sum_probs=46.1
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEecc
Q 003167 403 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 482 (843)
Q Consensus 403 ~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~ 482 (843)
+-.+++..+.+..+ .++++... ++..+++.++.+|++|+++.... .....+. ..+.....+++++++.
T Consensus 14 ~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~~---~~~~~~~-~~~l~~~~~~~v~~~~ 81 (198)
T cd08421 14 FLPEDLASFLAAHP-DVRIDLEE-------RLSADIVRAVAEGRADLGIVAGN---VDAAGLE-TRPYRTDRLVVVVPRD 81 (198)
T ss_pred hhHHHHHHHHHHCC-CceEEEEe-------cCcHHHHHHHhcCCceEEEEecC---CCCCCcE-EEEeecCcEEEEeCCC
Confidence 34577888887764 35555554 45788999999999999986322 2222333 4567778888887765
Q ss_pred C
Q 003167 483 K 483 (843)
Q Consensus 483 ~ 483 (843)
.
T Consensus 82 ~ 82 (198)
T cd08421 82 H 82 (198)
T ss_pred C
Confidence 4
No 191
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=94.16 E-value=2.7 Score=44.65 Aligned_cols=86 Identities=16% Similarity=0.181 Sum_probs=54.0
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
+++|||+... . ...+-.+++..+.+..+- +.+.+.. ++...++..|.+|++|+++..-
T Consensus 95 g~l~ig~~~~--~------------~~~~~~~~l~~~~~~~P~-v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 152 (305)
T CHL00180 95 GTLIIGASQT--T------------GTYLMPRLIGLFRQRYPQ-INVQLQV-------HSTRRIAWNVANGQIDIAIVGG 152 (305)
T ss_pred ceEEEEEcCc--c------------hHhHHHHHHHHHHHHCCC-ceEEEEe-------CCHHHHHHHHHcCCccEEEEcC
Confidence 5689988741 1 113346777777776542 4455543 4578999999999999998632
Q ss_pred eeecCcceeeeecccccccceEEEEeccC
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 483 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~~ 483 (843)
....+....+ ...++....++++++...
T Consensus 153 ~~~~~~~~~~-~~~~l~~~~~~~v~~~~~ 180 (305)
T CHL00180 153 EVPTELKKIL-EITPYVEDELALIIPKSH 180 (305)
T ss_pred ccCcccccce-eEEEeccCcEEEEECCCC
Confidence 2111111112 356777888888887765
No 192
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=94.15 E-value=0.7 Score=49.67 Aligned_cols=150 Identities=7% Similarity=0.009 Sum_probs=87.5
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
.+|.+|| -|........ ...+...++|+|......+ +..+++ +.+++..-+..+++.|...|.++++++...
T Consensus 115 ~~vdgiIi~~~~~~~~~~-~~~l~~~~iPvV~~~~~~~---~~~~~~---V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~ 187 (327)
T TIGR02417 115 RQVDALIVASCMPPEDAY-YQKLQNEGLPVVALDRSLD---DEHFCS---VISDDVDAAAELIERLLSQHADEFWYLGAQ 187 (327)
T ss_pred cCCCEEEEeCCCCCChHH-HHHHHhcCCCEEEEccccC---CCCCCE---EEeCcHHHHHHHHHHHHHCCCCeEEEEeCc
Confidence 4566655 3332211222 3344567899998754322 122232 445555556667777877899999999754
Q ss_pred CC--CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC---CCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 82 DD--QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 82 ~~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
.+ .+....+.|.+++++.|+.+... +... ....+-...+.++.+. .+++|++. +...+..+++.+++.|
T Consensus 188 ~~~~~~~~R~~Gf~~al~~~~~~~~~~--~~~~--~~~~~~~~~~~~ll~~~~~~~~Ai~~~-~D~~A~g~~~al~~~g- 261 (327)
T TIGR02417 188 PELSVSRDRLAGFRQALKQATLEVEWV--YGGN--YSRESGYQMFAKLCARLGRLPQALFTT-SYTLLEGVLDYMLERP- 261 (327)
T ss_pred ccchhHHHHHHHHHHHHHHcCCChHhE--EeCC--CChHHHHHHHHHHHhcCCCCCcEEEEc-CcHHHHHHHHHHHHcC-
Confidence 33 34566888999999998753221 1111 1122233445555443 36776654 4556777899999999
Q ss_pred cccceEEEE
Q 003167 157 MDSGYVWIA 165 (843)
Q Consensus 157 ~~~~~~~i~ 165 (843)
..++.+-|+
T Consensus 262 ~vP~dvsvi 270 (327)
T TIGR02417 262 LLDSQLHLA 270 (327)
T ss_pred CCCCcceEE
Confidence 665444444
No 193
>cd06307 PBP1_uncharacterized_sugar_binding Periplasmic sugar-binding domain of uncharacterized transport systems. Periplasmic sugar-binding domain of uncharacterized transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. The members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes.
Probab=94.15 E-value=2.1 Score=44.55 Aligned_cols=145 Identities=11% Similarity=-0.003 Sum_probs=82.5
Q ss_pred CeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc-C--CcEEEEEE
Q 003167 4 DTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-G--WGEVIAIF 79 (843)
Q Consensus 4 ~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~-~--w~~v~ii~ 79 (843)
+|+|+| .|..+.........+.+.++|+|......+. ... +..+..++...+..+++++... | -++++++.
T Consensus 58 ~vdgiii~~~~~~~~~~~i~~~~~~~ipvV~~~~~~~~--~~~---~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~ 132 (275)
T cd06307 58 RSDGVALVAPDHPQVRAAVARLAAAGVPVVTLVSDLPG--SPR---AGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLA 132 (275)
T ss_pred cCCEEEEeCCCcHHHHHHHHHHHHCCCcEEEEeCCCCC--Cce---eeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEe
Confidence 555554 4444333223345556689999987543221 111 1224555556666667766554 5 46999997
Q ss_pred ecCC--CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHHHcC
Q 003167 80 NDDD--QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 80 ~d~~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~~~g 155 (843)
.+.. ......+.|.+++++.+..+.....+... .+..+....++++.+ .++++|+..... +..+++.+++.|
T Consensus 133 ~~~~~~~~~~R~~gf~~a~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~--~~g~~~al~~~g 208 (275)
T cd06307 133 GSHRFRGHEEREMGFRSVLREEFPGLRVLETLEGL--DDPARAYEATRKLLARHPDLVGIYNAGGG--NRGVIRALREAG 208 (275)
T ss_pred cCCCCcchHHHHHHHHHHHHhhCCCcEEEeeccCC--CChHHHHHHHHHHHHhCCCceEEEECCCC--hHHHHHHHHHcC
Confidence 6432 33456788999999887654332222211 122333345555433 357787777653 357889999999
Q ss_pred Cc
Q 003167 156 MM 157 (843)
Q Consensus 156 ~~ 157 (843)
+.
T Consensus 209 ~~ 210 (275)
T cd06307 209 RA 210 (275)
T ss_pred CC
Confidence 74
No 194
>cd06316 PBP1_ABC_sugar_binding_like_7 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=94.13 E-value=2 Score=45.26 Aligned_cols=149 Identities=11% Similarity=0.016 Sum_probs=83.9
Q ss_pred CCeEEE-EcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEE
Q 003167 3 TDTLAI-VGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIF 79 (843)
Q Consensus 3 ~~V~ai-iGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~ 79 (843)
.++++| +.|........+...+...++|+|.+....+..... -+++.-+..++..-+..+++++... |-++++++.
T Consensus 55 ~~~dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~~~~~-~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~ 133 (294)
T cd06316 55 QKPDIIISIPVDPVSTAAAYKKVAEAGIKLVFMDNVPSGLEHG-KDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIY 133 (294)
T ss_pred hCCCEEEEcCCCchhhhHHHHHHHHcCCcEEEecCCCcccccC-cceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEe
Confidence 345554 344433222344455667899999876543322211 1233345566666677788888665 889999997
Q ss_pred ecCCC--CcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHHHcC
Q 003167 80 NDDDQ--GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 80 ~d~~~--g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~~~g 155 (843)
.+.+. .....+.|.+.+++.+..+....... . .........++++.. .++++|+. .+...+..+++.+++.|
T Consensus 134 ~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~-~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g 209 (294)
T cd06316 134 HGADYFVTNQRDQGFKETIKKNYPDITIVAEKG-I--DGPSKAEDIANAMLTQNPDLKGIYA-VWDVPAEGVIAALRAAG 209 (294)
T ss_pred CCCCcccHHHHHHHHHHHHHHhCCCcEEEeecC-C--cchhHHHHHHHHHHHhCCCeeEEEe-CCCchhHHHHHHHHHcC
Confidence 64333 34557888888887653322111111 1 101122334444433 34566554 44556778999999988
Q ss_pred C
Q 003167 156 M 156 (843)
Q Consensus 156 ~ 156 (843)
+
T Consensus 210 ~ 210 (294)
T cd06316 210 R 210 (294)
T ss_pred C
Confidence 6
No 195
>cd08459 PBP2_DntR_NahR_LinR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold. This CD includes LysR-like bacterial transcriptional regulators, DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. DntR from Burkholderia species controls genes encoding enzymes for oxidative degradation of the nitro-aromatic compound 2,4-dinitrotoluene. The active form of DntR is homotetrameric, consisting of a dimer of dimers. NahR is a salicylate-dependent transcription activator of the nah and sal operons for naphthalene degradation. Salicylic acid is an intermediate o
Probab=94.04 E-value=1.7 Score=42.18 Aligned_cols=70 Identities=17% Similarity=0.215 Sum_probs=46.6
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.++.+ .++++... ++.+.+..+|.+|++|+++..... ....+ .+.|.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~v~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~---~~~~l-~~~~l~~~~~~~v~~~ 80 (201)
T cd08459 13 YFLPRLLAALREVAP-GVRIETVR-------LPVDELEEALESGEIDLAIGYLPD---LGAGF-FQQRLFRERYVCLVRK 80 (201)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------cCccCHHHHhhCCCceEEEEcCCC---Ccccc-eEEEeecCceEEEEcC
Confidence 344677888887764 24555554 446688999999999999863321 12223 2467778888888776
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (201)
T cd08459 81 DH 82 (201)
T ss_pred CC
Confidence 54
No 196
>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=94.03 E-value=0.71 Score=48.42 Aligned_cols=152 Identities=12% Similarity=-0.008 Sum_probs=90.1
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
.++.|||--..... ......+...++|+|......+ +.+-.+..++...+..++++|...|-++++++..+.
T Consensus 55 ~~~dgiii~~~~~~-~~~~~~~~~~~ipvV~~~~~~~-------~~~~~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~~ 126 (283)
T cd06279 55 ALVDGFIVYGVPRD-DPLVAALLRRGLPVVVVDQPLP-------PGVPSVGIDDRAAAREAARHLLDLGHRRIGILGLRL 126 (283)
T ss_pred cCCCEEEEeCCCCC-hHHHHHHHHcCCCEEEEecCCC-------CCCCEEeeCcHHHHHHHHHHHHHcCCCcEEEecCcc
Confidence 46777775332222 2334456778999998754321 112235667777778888888888999999997532
Q ss_pred -------------------CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcCh
Q 003167 83 -------------------DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYS 141 (843)
Q Consensus 83 -------------------~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~ 141 (843)
.......+.|.+++++.|++......+... ..+.......+.++.+. .+++|+ +++.
T Consensus 127 ~~~~~~~~~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d 204 (283)
T cd06279 127 GRDRNTGRVTDERLASATFSVARERLEGYLEALEEAGIDISDVPIWEIP-ENDRASGEEAARELLDASPRPTAIL-CMSD 204 (283)
T ss_pred cccccccccccccccccccccHHHHHHHHHHHHHHcCCCCChheEEecC-CCchHHHHHHHHHHHcCCCCCcEEE-ECCc
Confidence 223455788999999888543211111111 01223344555565443 356654 4455
Q ss_pred hhHHHHHHHHHHcCCcccceEEE
Q 003167 142 RTGLMVFDVAQRLGMMDSGYVWI 164 (843)
Q Consensus 142 ~~~~~i~~~a~~~g~~~~~~~~i 164 (843)
..+..+++.+++.|+..++.+-+
T Consensus 205 ~~a~gv~~al~~~g~~ip~di~v 227 (283)
T cd06279 205 VLALGALQVARELGLRVPEDLSV 227 (283)
T ss_pred HHHHHHHHHHHHcCCCCCCceEE
Confidence 66677889999999865443433
No 197
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=94.02 E-value=1.6 Score=45.83 Aligned_cols=147 Identities=9% Similarity=0.057 Sum_probs=83.6
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc------CCcEE
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF------GWGEV 75 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~------~w~~v 75 (843)
.+|.+|| .|..+.........+...++|+|......+. ...++. +..++...+..+++.+... |-+++
T Consensus 54 ~~vdgiii~~~~~~~~~~~l~~l~~~~ipvV~~~~~~~~---~~~~~~--v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i 128 (288)
T cd01538 54 KGVDVLVIAPVDGEALASAVEKAADAGIPVIAYDRLILN---SNVDYY--VSFDNEKVGELQGQALVDGLGAKGKPPGNI 128 (288)
T ss_pred cCCCEEEEecCChhhHHHHHHHHHHCCCCEEEECCCCCC---CCcceE--EEeChHHHHHHHHHHHHHHHhhcCCCCceE
Confidence 4566655 4443333344445566789999987654322 122222 3445555566667766554 88999
Q ss_pred EEEEecCC--CCcchHHHHHHHHHhcC----cEEEEeeecCCCCCCChhHHHHHHHHHhcC---CCeEEEEEcChhhHHH
Q 003167 76 IAIFNDDD--QGRNGVTALGDKLAEIR----CKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLM 146 (843)
Q Consensus 76 ~ii~~d~~--~g~~~~~~l~~~l~~~g----~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~viv~~~~~~~~~~ 146 (843)
+++..+.. ......+.|.+++++.+ +.+... ..... .+..+-...+.++.+. ++++|+.. +...+..
T Consensus 129 ~~l~g~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~~~I~~~-~d~~a~g 204 (288)
T cd01538 129 ELIAGSPTDNNAKLFFNGAMSVLKPLIDSGKITIVGE-VATPD--WDPETAQKRMENALTANYNKVDGVLAA-NDGTAGG 204 (288)
T ss_pred EEEECCCCCchHHHHHHHHHHHHHhccccCCeeEEec-cccCC--CCHHHHHHHHHHHHHhCCCCccEEEeC-CcHHHHH
Confidence 99975433 33445788899999887 444322 11111 1122223444454333 35665544 4556667
Q ss_pred HHHHHHHcCCcc
Q 003167 147 VFDVAQRLGMMD 158 (843)
Q Consensus 147 i~~~a~~~g~~~ 158 (843)
+++.+++.|+..
T Consensus 205 ~~~al~~~g~~~ 216 (288)
T cd01538 205 AIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHcCCCC
Confidence 888888988754
No 198
>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=94.02 E-value=2.4 Score=44.06 Aligned_cols=143 Identities=11% Similarity=0.173 Sum_probs=79.2
Q ss_pred CCeEEEE-cCCChHH-HHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc--CCcEEEEE
Q 003167 3 TDTLAIV-GPQSAVM-AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAI 78 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~-~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii 78 (843)
.+|.++| .|..... ...+..+ .+ ++|+|......+. ... +--+..++..-+..+++++... +-.+++++
T Consensus 54 ~~vDgiIi~~~~~~~~~~~l~~~-~~-~ipvV~~~~~~~~--~~~---~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~ 126 (271)
T cd06314 54 EGVDGIAISPIDPKAVIPALNKA-AA-GIKLITTDSDAPD--SGR---YVYIGTDNYAAGRTAGEIMKKALPGGGKVAIF 126 (271)
T ss_pred cCCCEEEEecCChhHhHHHHHHH-hc-CCCEEEecCCCCc--cce---eEEEccChHHHHHHHHHHHHHHcCCCCEEEEE
Confidence 3566665 4443322 2333444 45 9999987543221 111 1224456666667777777553 33456666
Q ss_pred EecC--CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHc
Q 003167 79 FNDD--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRL 154 (843)
Q Consensus 79 ~~d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~ 154 (843)
.... .......+.|.+++++.|+++.... . .. ....+....+.++.+. .+++|+.. +...+..+++.+++.
T Consensus 127 ~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~-~-~~--~~~~~~~~~~~~~l~~~~~~~~i~~~-~d~~a~~~~~al~~~ 201 (271)
T cd06314 127 VGSLGADNAKERIQGIKDAIKDSKIEIVDTR-G-DE--EDFAKAKSNAEDALNAHPDLKCMFGL-YAYNGPAIAEAVKAA 201 (271)
T ss_pred ecCCCCCCHHHHHHHHHHHHhcCCcEEEEEe-c-Cc--cCHHHHHHHHHHHHHhCCCccEEEec-CCccHHHHHHHHHHc
Confidence 6432 2345667889999999998765421 1 11 1223334455555433 45666543 334445577888888
Q ss_pred CCc
Q 003167 155 GMM 157 (843)
Q Consensus 155 g~~ 157 (843)
|..
T Consensus 202 g~~ 204 (271)
T cd06314 202 GKL 204 (271)
T ss_pred CCC
Confidence 875
No 199
>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=93.98 E-value=0.71 Score=48.00 Aligned_cols=136 Identities=14% Similarity=0.075 Sum_probs=83.8
Q ss_pred HHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC--C------CCcchHH
Q 003167 19 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--D------QGRNGVT 90 (843)
Q Consensus 19 av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~--~------~g~~~~~ 90 (843)
.....+.+.++|+|......+ ..++ +.+++..-+..+++.|... .++++++..+. . .+....+
T Consensus 69 ~~~~~l~~~~iPvv~~~~~~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~~~R~~ 139 (269)
T cd06297 69 RLAERRLPTERPVVLVDAENP-----RFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVFAERRA 139 (269)
T ss_pred HHHHHHhhcCCCEEEEccCCC-----CCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccHHHHHH
Confidence 344556778999998765321 2233 3456666677777777666 79999986432 2 4456689
Q ss_pred HHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCcccceEEEEe
Q 003167 91 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 166 (843)
Q Consensus 91 ~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~i~~ 166 (843)
.|++++++.|+.+.....+... .+..+....+.++.+. ++++|++. +...+..+++.+++.|...++.+-|++
T Consensus 140 gf~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vP~di~vvg 214 (269)
T cd06297 140 GFQQALKDAGRPFSPDLLAITD--HSEEGGRLAMRHLLEKASPPLAVFAS-ADQQALGALQEAVELGLTVGEDVRVVG 214 (269)
T ss_pred HHHHHHHHcCCCCChhhEEeCC--CChhhHHHHHHHHHcCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 9999999998764321111111 1123334556665443 35665554 455677789999999986665555553
No 200
>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=93.93 E-value=0.81 Score=47.31 Aligned_cols=128 Identities=13% Similarity=0.054 Sum_probs=77.7
Q ss_pred CCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec--CCCCcchHHHHHHHHHhcCcEEE
Q 003167 27 LQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND--DDQGRNGVTALGDKLAEIRCKIS 104 (843)
Q Consensus 27 ~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~ 104 (843)
.++|+|......+ +...++ +..++..-+..+++.+...|-++++++..+ +.......+.|.+.+++.|+.+.
T Consensus 76 ~~iPvV~i~~~~~---~~~~~~---V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~ 149 (265)
T cd06290 76 EEIPVLAVGRRVP---GPGAAS---IAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALEEAGLEVQ 149 (265)
T ss_pred cCCCEEEECCCcC---CCCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHHHcCCCCC
Confidence 4899998865432 122233 445666667778887777799999999754 33445667889999988886543
Q ss_pred EeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCcccceEE
Q 003167 105 YKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVW 163 (843)
Q Consensus 105 ~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~ 163 (843)
....+... .+.......+.++.+. .+++|++ ++...+..+++.+++.|+..++.+-
T Consensus 150 ~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~aii~-~~~~~a~~~~~~l~~~g~~ip~di~ 207 (265)
T cd06290 150 PDLIVQGD--FEEESGLEAVEELLQRGPDFTAIFA-ANDQTAYGARLALYRRGLRVPEDVS 207 (265)
T ss_pred HHHEEecC--CCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceE
Confidence 21111111 1122223445555443 4576554 5666677788999998876544433
No 201
>PRK12679 cbl transcriptional regulator Cbl; Reviewed
Probab=93.88 E-value=4 Score=43.61 Aligned_cols=207 Identities=11% Similarity=0.092 Sum_probs=128.3
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
..||||+.. .+ ...+-.+++..+.+..+ .+.+.... ++.+.++.+|.+|++|+++...
T Consensus 93 g~lrIg~~~--~~------------~~~~l~~~l~~f~~~~P-~i~l~l~~-------~~~~~~~~~L~~g~~Dl~i~~~ 150 (316)
T PRK12679 93 GVLTIATTH--TQ------------ARYSLPEVIKAFRELFP-EVRLELIQ-------GTPQEIATLLQNGEADIGIASE 150 (316)
T ss_pred ceEEEEech--Hh------------hhcchHHHHHHHHHHCC-CeEEEEec-------CCHHHHHHHHHcCCCCEEEecc
Confidence 579999974 11 12455678888887754 24455543 4577899999999999998632
Q ss_pred eeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccch
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIV 534 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~ 534 (843)
... . ...+. +.|+.....++++++..+...
T Consensus 151 ~~~-~-~~~l~-~~~l~~~~~~~v~~~~hpl~~----------------------------------------------- 180 (316)
T PRK12679 151 RLS-N-DPQLV-AFPWFRWHHSLLVPHDHPLTQ----------------------------------------------- 180 (316)
T ss_pred cCC-C-CCCce-EEEccCCcEEEEecCCCcccc-----------------------------------------------
Confidence 211 1 12233 357778888888876652110
Q ss_pred hhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCe-EEEEeCchH
Q 003167 535 TVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDR-VGYQVGSFA 613 (843)
Q Consensus 535 ~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~-i~~~~~~~~ 613 (843)
...-+++||. +.+ |....+...
T Consensus 181 -------------------------------------------------------~~~i~~~~L~--~~~~i~~~~~~~~ 203 (316)
T PRK12679 181 -------------------------------------------------------ITPLTLESIA--KWPLITYRQGITG 203 (316)
T ss_pred -------------------------------------------------------CCCCCHHHHh--CCCeEEecCCCcH
Confidence 1234778886 333 444444332
Q ss_pred ----HHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEeC--CccccCcceeeecCCCC
Q 003167 614 ----ENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRG--QEFTKSGWGFAFPRDSP 687 (843)
Q Consensus 614 ----~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~sp 687 (843)
..++ ...+.........++.+...+.+..|..-+++-... ... . +...+..+. .......++++.+++.+
T Consensus 204 ~~~~~~~~-~~~~~~~~~~~~~~s~~~~~~~v~~g~Gi~~lp~~~-~~~-~-~~~~L~~~~~~~~~~~~~~~l~~~~~~~ 279 (316)
T PRK12679 204 RSRIDDAF-ARKGLLADIVLSAQDSDVIKTYVALGLGIGLVAEQS-SGE-Q-EESNLIRLDTRHLFDANTVWLGLKRGQL 279 (316)
T ss_pred HHHHHHHH-HHcCCCceEEEEeccHHHHHHHHHcCCcEEEecccc-ccc-c-cCCcEEEEECcccCCCceEEEEEeCCch
Confidence 3333 334554444566788888999999987766665533 232 1 233455442 23344578889999988
Q ss_pred chHHHHHHHHhhhccccHHHHHHhhcc
Q 003167 688 LAIDMSTAILTLSENGELQRIHDKWLR 714 (843)
Q Consensus 688 l~~~in~~i~~l~e~G~~~~~~~kw~~ 714 (843)
....+...+..+.+.--.+.++++-+.
T Consensus 280 ~~~~~~~f~~~~~~~~~~~~~~~~~~~ 306 (316)
T PRK12679 280 QRNYVWRFLELCNAGLSVEDIKRQVME 306 (316)
T ss_pred hhHHHHHHHHHHhcccCHHHHHHHHhh
Confidence 888888888777776667777777654
No 202
>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=93.82 E-value=0.91 Score=47.13 Aligned_cols=145 Identities=15% Similarity=0.009 Sum_probs=79.4
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccC-CCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHH-cCCcEEEEEEe
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFN 80 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~-~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~-~~w~~v~ii~~ 80 (843)
.+|.+||--.. ...........++ ++|++..+...+.. +.+-++..++..-+..++.++.. .|-++++++..
T Consensus 56 ~~vdgiI~~~~-~~~~~~~~~~~~~~~~PiV~i~~~~~~~-----~~~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~ 129 (265)
T cd06354 56 AGYDLIVGVGF-LLADALKEVAKQYPDQKFAIIDAVVDDP-----PNVASIVFKEEEGSFLAGYLAALMTKTGKVGFIGG 129 (265)
T ss_pred CCCCEEEEcCc-chHHHHHHHHHHCCCCEEEEEecccCCC-----CcEEEEEecchhHHHHHHHHHHhhcCCCeEEEEec
Confidence 46777774221 1223445565655 89999875432110 11223333444444444566654 39999999975
Q ss_pred cCCCCc-chHHHHHHHHHhcC---cEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcC
Q 003167 81 DDDQGR-NGVTALGDKLAEIR---CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 81 d~~~g~-~~~~~l~~~l~~~g---~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g 155 (843)
+..... ...+.|.+.+++.| ..+.......... ....+-...+.++.+.++++|+.. +...+..+++.+++.|
T Consensus 130 ~~~~~~~~r~~gf~~~~~~~g~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ll~~~pdaI~~~-nd~~A~gv~~al~~~g 206 (265)
T cd06354 130 MDIPLIRRFEAGFEAGVKYVNPGVPDIEVLVQYAGSF-NDPAKGKEIAQAMYDQGADVIFAA-AGGTGNGVFQAAKEAG 206 (265)
T ss_pred ccChHHHHHHHHHHHHHHHHhccCCCceEEEEEcCcc-cCHHHHHHHHHHHHHCCCcEEEEC-CCCCchHHHHHHHhcC
Confidence 432222 22368889998888 6543222121110 111233445566655568875554 5566777889999877
No 203
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=93.82 E-value=0.93 Score=48.69 Aligned_cols=131 Identities=9% Similarity=0.055 Sum_probs=78.7
Q ss_pred CCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec--CCCCcchHHHHHHHHHhcCcEEE
Q 003167 27 LQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND--DDQGRNGVTALGDKLAEIRCKIS 104 (843)
Q Consensus 27 ~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~ 104 (843)
.++|+|....... ...++ .+..++..-+..+++.+...|-+++++|..+ ........+.|.+++++.|+.+.
T Consensus 135 ~~iPvV~i~~~~~---~~~~~---~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~ 208 (327)
T PRK10423 135 PSVPTVMMDWAPF---DGDSD---LIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPARLRLEGYRAAMKRAGLNIP 208 (327)
T ss_pred CCCCEEEECCccC---CCCCC---EEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccchHHHHHHHHHHHHHcCCCCC
Confidence 4899998753211 11111 2334444556777888888899999999643 23445678899999999997643
Q ss_pred EeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCcccceEEEEe
Q 003167 105 YKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 166 (843)
Q Consensus 105 ~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~i~~ 166 (843)
....+..+ .....-...+.++.+. .+++|++ ++...+..+++.+++.|+..++-+-|++
T Consensus 209 ~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~g~~~~l~~~g~~vP~dvsvig 269 (327)
T PRK10423 209 DGYEVTGD--FEFNGGFDAMQQLLALPLRPQAVFT-GNDAMAVGVYQALYQAGLSVPQDIAVIG 269 (327)
T ss_pred cceEEeCC--CChHHHHHHHHHHhcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEEE
Confidence 21111111 1122223344555433 4666555 4556677799999999987655555543
No 204
>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=93.81 E-value=4.4 Score=39.09 Aligned_cols=70 Identities=19% Similarity=0.280 Sum_probs=45.7
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.+..+ .+++.... .+-..+...|.+|++|+++.... .....+ -+.|+....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~~~~~ 80 (198)
T cd08433 13 VLAVPLLRAVRRRYP-GIRLRIVE-------GLSGHLLEWLLNGRLDLALLYGP---PPIPGL-STEPLLEEDLFLVGPA 80 (198)
T ss_pred hcchHHHHHHHHHCC-CcEEEEEe-------cCcHHHHHHHhCCCCcEEEEeCC---CCCCCe-eEEEeccccEEEEecC
Confidence 445677888888764 35555554 34578899999999999986321 111222 3456777788887766
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (198)
T cd08433 81 DA 82 (198)
T ss_pred CC
Confidence 54
No 205
>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=93.80 E-value=1.1 Score=46.49 Aligned_cols=150 Identities=11% Similarity=0.027 Sum_probs=88.1
Q ss_pred CCeEEEE--cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 3 TDTLAIV--GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 3 ~~V~aii--Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
.+|.++| ++. +. .....+.+.++|+|...... .+..+++ +..++...+..+++.+...|-++++++..
T Consensus 51 ~~vdgii~~~~~-~~---~~~~~~~~~~~pvV~~~~~~---~~~~~~~---v~~D~~~a~~~~~~~l~~~g~~~i~~i~~ 120 (270)
T cd01544 51 EDVDGIIAIGKF-SQ---EQLAKLAKLNPNLVFVDSNP---APDGFDS---VVPDFEQAVEKALDYLLELGHTRIGFIGG 120 (270)
T ss_pred cCcCEEEEecCC-CH---HHHHHHHhhCCCEEEECCCC---CCCCCCE---EEECHHHHHHHHHHHHHHcCCCcEEEECC
Confidence 3456554 433 22 33344566789999875432 2223332 55567777777888888889999999986
Q ss_pred cCC-------CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC----CCeEEEEEcChhhHHHHHH
Q 003167 81 DDD-------QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM----EARVIVVHGYSRTGLMVFD 149 (843)
Q Consensus 81 d~~-------~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~----~~~viv~~~~~~~~~~i~~ 149 (843)
... ..+...+.|.+++.+.|.. .....+... .+..+....++++.+. .+++|+. ++...+..+++
T Consensus 121 ~~~~~~~~~~~~~~R~~gf~~~~~~~~~~-~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~ai~~-~~d~~a~g~~~ 196 (270)
T cd01544 121 EEKTTDGHEYIEDPRETAFREYMKEKGLY-DPELIYIGD--FTVESGYQLMKEALKSLGDNLPTAFFI-ASDPMAIGALR 196 (270)
T ss_pred CcccccccchhhhHHHHHHHHHHHHcCCC-ChheEeeCC--CCHHHHHHHHHHHHhccCCCCCCEEEE-cCcHHHHHHHH
Confidence 442 3455688899999998841 100111111 1122223344444332 3565554 56667888899
Q ss_pred HHHHcCCcccceEEEEe
Q 003167 150 VAQRLGMMDSGYVWIAT 166 (843)
Q Consensus 150 ~a~~~g~~~~~~~~i~~ 166 (843)
.+++.|+..++-+-|.+
T Consensus 197 ~l~~~g~~vp~di~v~g 213 (270)
T cd01544 197 ALQEAGIKVPEDVSVIS 213 (270)
T ss_pred HHHHcCCCCCCceEEEE
Confidence 99999986555444443
No 206
>cd08412 PBP2_PAO1_like The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily. This family includes the C-terminal substrate domain of a putative LysR-type transcriptional regulator from the plant pathogen Pseudomonas aeruginosa PAO1and its closely related homologs. The LysR-type transcriptional regulators (LTTRs) are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controll
Probab=93.78 E-value=3.7 Score=39.51 Aligned_cols=71 Identities=15% Similarity=0.146 Sum_probs=47.8
Q ss_pred EeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEe
Q 003167 401 HGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAP 480 (843)
Q Consensus 401 ~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~ 480 (843)
..+-.+++..+.+..+ +++++... ++..+++.+|.+|++|+++.... .....+ ...|+....++++++
T Consensus 12 ~~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~~~~ 79 (198)
T cd08412 12 PYYLPGLLRRFREAYP-GVEVRVVE-------GNQEELEEGLRSGELDLALTYDL---DLPEDI-AFEPLARLPPYVWLP 79 (198)
T ss_pred hhhhHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEcCC---CCCccc-ceeeeeccceEEEec
Confidence 3556788888888765 24555554 55788999999999999986321 112222 246777778888776
Q ss_pred ccC
Q 003167 481 VRK 483 (843)
Q Consensus 481 ~~~ 483 (843)
...
T Consensus 80 ~~~ 82 (198)
T cd08412 80 ADH 82 (198)
T ss_pred CCC
Confidence 654
No 207
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=93.71 E-value=3.2 Score=43.78 Aligned_cols=83 Identities=11% Similarity=0.127 Sum_probs=55.1
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
.+++||++. .. ...+..+++..+.++.+ .+.+.... +....++..|.+|++|+++...
T Consensus 91 ~~i~I~~~~--~~------------~~~~l~~~l~~~~~~~p-~~~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 148 (296)
T PRK11242 91 GSLRLAMTP--TF------------TAYLIGPLIDAFHARYP-GITLTIRE-------MSQERIEALLADDELDVGIAFA 148 (296)
T ss_pred eEEEEEecc--ch------------hhhhhHHHHHHHHHHCC-CCEEEEEe-------CCHHHHHHHHHCCCCcEEEEec
Confidence 468888864 11 12445678888888754 45555554 4578899999999999998632
Q ss_pred eeecCcceeeeecccccccceEEEEeccC
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 483 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~~ 483 (843)
. .+...+ .+.++....+++++++..
T Consensus 149 ~---~~~~~l-~~~~l~~~~~~~~~~~~~ 173 (296)
T PRK11242 149 P---VHSPEI-EAQPLFTETLALVVGRHH 173 (296)
T ss_pred C---CCCcce-eEEEeeeccEEEEEcCCC
Confidence 2 222222 356777888888887765
No 208
>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=93.70 E-value=1.4 Score=45.56 Aligned_cols=152 Identities=11% Similarity=0.053 Sum_probs=88.4
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
.+|+|||=...+. .....+...++|+|......+. +.+-++..++...+..+++.+...|-++++++....
T Consensus 49 ~~vdGiI~~~~~~---~~~~~l~~~~~PvV~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~ 119 (265)
T cd01543 49 WQGDGIIARIDDP---EMAEALQKLGIPVVDVSGSREK------PGIPRVTTDNAAIGRMAAEHFLERGFRHFAFYGLPG 119 (265)
T ss_pred cccceEEEECCCH---HHHHHHhhCCCCEEEEeCccCC------CCCCEEeeCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Confidence 4677777432222 2234456679999987653321 123346677777778888888888999999987543
Q ss_pred C-CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCccc
Q 003167 83 D-QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDS 159 (843)
Q Consensus 83 ~-~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~~ 159 (843)
. ......+.|.+++++.|..+............+..+-...+.++-+. .+++|+. ++...+..+++.+++.|+..+
T Consensus 120 ~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~vp 198 (265)
T cd01543 120 ARWSDEREEAFRQLVAEAGYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVGIFA-CTDARARQLLEACRRAGIAVP 198 (265)
T ss_pred CHHHHHHHHHHHHHHHHcCCccccccCccccccccHHHHHHHHHHHHhcCCCCcEEEe-cChHHHHHHHHHHHHhCCCCC
Confidence 3 22345688999999999765211111000001112223344444332 4565544 455667778889999887544
Q ss_pred ceEEE
Q 003167 160 GYVWI 164 (843)
Q Consensus 160 ~~~~i 164 (843)
+-+-+
T Consensus 199 ~di~v 203 (265)
T cd01543 199 EEVAV 203 (265)
T ss_pred CceEE
Confidence 43333
No 209
>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=93.69 E-value=2.3 Score=44.07 Aligned_cols=150 Identities=8% Similarity=-0.051 Sum_probs=85.7
Q ss_pred CeEEE-EcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEEe
Q 003167 4 DTLAI-VGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFN 80 (843)
Q Consensus 4 ~V~ai-iGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~~ 80 (843)
++.|| +.|............+.+.++|+|......+ + . ...+..++...+..+++++... |.++++++..
T Consensus 57 ~~dgiIi~~~~~~~~~~~i~~~~~~~ipvv~~~~~~~---~-~---~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~g 129 (271)
T cd06321 57 KVDLILLNAVDSKGIAPAVKRAQAAGIVVVAVDVAAE---G-A---DATVTTDNVQAGEISCQYLADRLGGKGNVAILNG 129 (271)
T ss_pred CCCEEEEeCCChhHhHHHHHHHHHCCCeEEEecCCCC---C-c---cceeeechHHHHHHHHHHHHHHhCCCceEEEEeC
Confidence 45444 3444333223333445667999999865332 1 1 1235667777777788888776 9999999975
Q ss_pred cCC-CCcchHHHHHHHHHhc-CcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 81 DDD-QGRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 81 d~~-~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
+.. ......+.+.+.+++. +++.... ..... .+...-...+.++.+ .++++|++ .+...+..+++.+++.|+
T Consensus 130 ~~~~~~~~R~~g~~~~~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~ 205 (271)
T cd06321 130 PPVSAVLDRVAGCKAALAKYPGIKLLSD-DQNGK--GSRDGGLRVMQGLLTRFPKLDGVFA-INDPTAIGADLAAKQAGR 205 (271)
T ss_pred CCCchHHHHHHHHHHHHHhCCCcEEEee-ecCCC--CChhhHHHHHHHHHHhCCCCCEEEE-CCchhHHHHHHHHHHcCC
Confidence 432 3345578888899887 6653321 11111 111121234444433 34677555 445566678888999887
Q ss_pred cccceEEEEe
Q 003167 157 MDSGYVWIAT 166 (843)
Q Consensus 157 ~~~~~~~i~~ 166 (843)
.+..+++.
T Consensus 206 --~di~v~g~ 213 (271)
T cd06321 206 --NDIKITSV 213 (271)
T ss_pred --CCcEEEEe
Confidence 34444443
No 210
>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=93.69 E-value=0.48 Score=49.65 Aligned_cols=149 Identities=11% Similarity=0.062 Sum_probs=95.2
Q ss_pred CCeEEEE--cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcE-EEEEE
Q 003167 3 TDTLAIV--GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGE-VIAIF 79 (843)
Q Consensus 3 ~~V~aii--Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~-v~ii~ 79 (843)
.+|+++| +...+ ...+..+.+. ++|+|......... ...|++ ..++..-+..+++.|...|-++ |+++.
T Consensus 55 ~~vDGiI~~s~~~~--~~~l~~~~~~-~iPvV~~~~~~~~~--~~~~~V---~~D~~~a~~~a~~~Li~~Gh~~~I~~i~ 126 (279)
T PF00532_consen 55 RRVDGIILASSEND--DEELRRLIKS-GIPVVLIDRYIDNP--EGVPSV---YIDNYEAGYEATEYLIKKGHRRPIAFIG 126 (279)
T ss_dssp TTSSEEEEESSSCT--CHHHHHHHHT-TSEEEEESS-SCTT--CTSCEE---EEEHHHHHHHHHHHHHHTTCCSTEEEEE
T ss_pred cCCCEEEEecccCC--hHHHHHHHHc-CCCEEEEEeccCCc--ccCCEE---EEcchHHHHHHHHHHHhcccCCeEEEEe
Confidence 3455555 33333 2445555555 99999865532111 133433 2345555667788888899999 99999
Q ss_pred ecCCC--CcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCe--EEEEEcChhhHHHHHHHHHHcC
Q 003167 80 NDDDQ--GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEAR--VIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 80 ~d~~~--g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~--viv~~~~~~~~~~i~~~a~~~g 155 (843)
.+.+. +....+.+.+++++.|+++......... .+..+-...++++.+.+|+ +| ++++...+..+++.+++.|
T Consensus 127 ~~~~~~~~~~R~~Gy~~Al~~~Gl~~~~~~i~~~~--~~~~~g~~~~~~ll~~~p~idai-~~~nd~~A~ga~~~l~~~g 203 (279)
T PF00532_consen 127 GPEDSSTSRERLQGYRDALKEAGLPIDEEWIFEGD--FDYESGYEAARELLESHPDIDAI-FCANDMMAIGAIRALRERG 203 (279)
T ss_dssp ESTTTHHHHHHHHHHHHHHHHTTSCEEEEEEEESS--SSHHHHHHHHHHHHHTSTT-SEE-EESSHHHHHHHHHHHHHTT
T ss_pred cCcchHHHHHHHHHHHHHHHHcCCCCCcccccccC--CCHHHHHHHHHHHHhhCCCCEEE-EEeCHHHHHHHHHHHHHcC
Confidence 86544 4566788999999999965544443322 2344445666777777676 54 4566677778899999999
Q ss_pred -CcccceE
Q 003167 156 -MMDSGYV 162 (843)
Q Consensus 156 -~~~~~~~ 162 (843)
...++.+
T Consensus 204 r~~ip~di 211 (279)
T PF00532_consen 204 RLKIPEDI 211 (279)
T ss_dssp -TCTTTEE
T ss_pred CcccChhh
Confidence 7665544
No 211
>PRK12684 transcriptional regulator CysB-like protein; Reviewed
Probab=93.66 E-value=2.7 Score=44.88 Aligned_cols=206 Identities=13% Similarity=0.078 Sum_probs=117.9
Q ss_pred CCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEec
Q 003167 374 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 453 (843)
Q Consensus 374 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~ 453 (843)
.++|+||+.. ... ..+-.+++..+.++.+ .+.+.... ++.+.++..|.+|++|+++..
T Consensus 92 ~g~l~Ig~~~--~~~------------~~~l~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~L~~g~~D~~i~~ 149 (313)
T PRK12684 92 QGNLTIATTH--TQA------------RYALPAAIKEFKKRYP-KVRLSILQ-------GSPTQIAEMVLHGQADLAIAT 149 (313)
T ss_pred CCeEEEEech--HHH------------HHHhHHHHHHHHHHCC-CceEEEEe-------CChHHHHHHHHCCCcCEEEee
Confidence 3578999864 111 2334677777777654 24555544 457899999999999999863
Q ss_pred eeeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccc
Q 003167 454 IAIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQI 533 (843)
Q Consensus 454 ~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~ 533 (843)
-.... . ..+ -..|+....++++++...+..
T Consensus 150 ~~~~~-~-~~l-~~~~l~~~~~~~v~~~~~pl~----------------------------------------------- 179 (313)
T PRK12684 150 EAIAD-Y-KEL-VSLPCYQWNHCVVVPPDHPLL----------------------------------------------- 179 (313)
T ss_pred cCCCC-C-CCc-eEEEeccceEEEEeCCCCccc-----------------------------------------------
Confidence 21111 1 122 246677777888777654210
Q ss_pred hhhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCchH
Q 003167 534 VTVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGSFA 613 (843)
Q Consensus 534 ~~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~~~ 613 (843)
....-+++||.+.. -|.+..++..
T Consensus 180 -------------------------------------------------------~~~~i~~~dL~~~~-~i~~~~~~~~ 203 (313)
T PRK12684 180 -------------------------------------------------------ERKPLTLEDLAQYP-LITYDFAFAG 203 (313)
T ss_pred -------------------------------------------------------cCCCcCHHHHhcCC-cEecCCCCcH
Confidence 01234778886332 2555555533
Q ss_pred HHHHH---HhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEe--CCccccCcceeeecCCCCc
Q 003167 614 ENYLI---EELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVR--GQEFTKSGWGFAFPRDSPL 688 (843)
Q Consensus 614 ~~~l~---~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~k~spl 688 (843)
...+. +..+.........++.+...+++..|.-.+++... ..+.. ...++..+ ........++++.+|+.++
T Consensus 204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~Gv~~lp~~-~~~~~--~~~~l~~~~i~~~~~~~~~~l~~~~~~~~ 280 (313)
T PRK12684 204 RSKINKAFALRGLKPDIVLEAIDADVIKTYVELGLGVGIVADM-AFDPE--RDRNLRAIDAGHLFGSSTTRLGLRRGAYL 280 (313)
T ss_pred HHHHHHHHHHcCCCCCeEEEeCCHHHHHHHHHhCCceEEeehh-hcccc--ccCCeEEEECCCCCcceeEEEEEECCCcC
Confidence 33322 23454444456678899999999998666666543 22222 12244443 2333345688899999876
Q ss_pred hHHHHHHHHhhhccccHHHHHHh
Q 003167 689 AIDMSTAILTLSENGELQRIHDK 711 (843)
Q Consensus 689 ~~~in~~i~~l~e~G~~~~~~~k 711 (843)
...+...+..+.+ -+..++.++
T Consensus 281 ~~~~~~f~~~l~~-~~~~~~~~~ 302 (313)
T PRK12684 281 RGYVYTFIELFAP-TLNRKLVEQ 302 (313)
T ss_pred CHHHHHHHHHHHH-HhCHHHHHH
Confidence 6666555544332 333344333
No 212
>PRK09526 lacI lac repressor; Reviewed
Probab=93.57 E-value=1.4 Score=47.69 Aligned_cols=148 Identities=11% Similarity=0.068 Sum_probs=87.5
Q ss_pred CCeEEEE--cCCChHHHHHHHHhc-ccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEE
Q 003167 3 TDTLAIV--GPQSAVMAHVLSHLA-NELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF 79 (843)
Q Consensus 3 ~~V~aii--Gp~~S~~~~av~~~~-~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~ 79 (843)
.+|++|| +|..+... ..+. ...++|+|..... + +...+ .+..++..-+..++++|...|-++++++.
T Consensus 119 ~~vdGiii~~~~~~~~~---~~~~~~~~~iPvV~~d~~-~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~~~I~~l~ 188 (342)
T PRK09526 119 QRVSGVIINVPLEDADA---EKIVADCADVPCLFLDVS-P---QSPVN---SVSFDPEDGTRLGVEHLVELGHQRIALLA 188 (342)
T ss_pred cCCCEEEEecCCCcchH---HHHHhhcCCCCEEEEecc-C---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEe
Confidence 4667666 34433222 2222 2358999887532 1 11222 35556666667788888888999999997
Q ss_pred ecC--CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcC
Q 003167 80 NDD--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 80 ~d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g 155 (843)
.+. .......+.|.+++++.|+.+.... ... .+..+-...+.++... .+++|+ +.+...+..+++.+++.|
T Consensus 189 g~~~~~~~~~R~~Gf~~al~~~gi~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g 263 (342)
T PRK09526 189 GPESSVSARLRLAGWLEYLTDYQLQPIAVR--EGD--WSAMSGYQQTLQMLREGPVPSAIL-VANDQMALGVLRALHESG 263 (342)
T ss_pred CCCccccHHHHHHHHHHHHHHcCCCcceEE--eCC--CchHHHHHHHHHHhcCCCCCcEEE-EcCcHHHHHHHHHHHHcC
Confidence 532 2334567889999999998643221 111 1122222344454433 466655 455566778899999999
Q ss_pred CcccceEEEE
Q 003167 156 MMDSGYVWIA 165 (843)
Q Consensus 156 ~~~~~~~~i~ 165 (843)
+..++-+-|+
T Consensus 264 ~~vP~disvi 273 (342)
T PRK09526 264 LRVPGQISVI 273 (342)
T ss_pred CCCCCceEEE
Confidence 8765555444
No 213
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=93.56 E-value=0.94 Score=49.09 Aligned_cols=111 Identities=11% Similarity=0.038 Sum_probs=69.2
Q ss_pred cCCChHHhHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc
Q 003167 52 TAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM 129 (843)
Q Consensus 52 ~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~ 129 (843)
+.+++..-+..+++.|...|.+++++|..+.. ......+.|.+++++.|+.+......... .....-...+.++.+
T Consensus 156 V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~ 233 (343)
T PRK10727 156 IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGYYDALAESGIPANDRLVTFGE--PDESGGEQAMTELLG 233 (343)
T ss_pred EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHHHHHHHHCCCCCChhhEEeCC--CChhHHHHHHHHHHh
Confidence 44566666666778887789999999975432 34566889999999999764321111111 112222234455443
Q ss_pred C--CCeEEEEEcChhhHHHHHHHHHHcCCcccceEEEE
Q 003167 130 M--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 165 (843)
Q Consensus 130 ~--~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~i~ 165 (843)
. .+++|++ .+...+..+++.+++.|+..++-+-|+
T Consensus 234 ~~~~~~ai~~-~nD~~A~g~~~al~~~G~~vP~disVi 270 (343)
T PRK10727 234 RGRNFTAVAC-YNDSMAAGAMGVLNDNGIDVPGEISLI 270 (343)
T ss_pred CCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceeEE
Confidence 3 3566654 556677789999999998765555444
No 214
>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=93.55 E-value=1 Score=46.60 Aligned_cols=132 Identities=14% Similarity=0.143 Sum_probs=79.8
Q ss_pred hcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC---CCCcchHHHHHHHHHhc
Q 003167 23 LANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD---DQGRNGVTALGDKLAEI 99 (843)
Q Consensus 23 ~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~---~~g~~~~~~l~~~l~~~ 99 (843)
.+...++|+|......+ ...+| +.+++...+..+++++...|.++++++.... ..+....+.|.+.+++.
T Consensus 70 ~~~~~gipvv~~~~~~~----~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~ 142 (265)
T cd06291 70 EYENIDLPIVSFDRYLS----ENIPI---VSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDVLKEN 142 (265)
T ss_pred HHhcCCCCEEEEeCCCC----CCCCe---EeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHHHHHc
Confidence 34567999998765432 12232 4555566677788888778999999997533 34556678999999998
Q ss_pred CcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCcccceEEEE
Q 003167 100 RCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 165 (843)
Q Consensus 100 g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~i~ 165 (843)
|+.+.... .... ....+....+.++.+. .+++|+.. +...+..+++.+++.|...++.+-++
T Consensus 143 ~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~a~~~~~al~~~g~~vp~di~v~ 206 (265)
T cd06291 143 GLEVRIIE-IQEN--FDDAEKKEEIKELLEEYPDIDGIFAS-NDLTAILVLKEAQQRGIRVPEDLQII 206 (265)
T ss_pred CCCCChhe-eecc--ccchHHHHHHHHHHhCCCCCCEEEEC-ChHHHHHHHHHHHHcCCCCCcceEEe
Confidence 87643211 1111 1112223344554433 34655543 44466778889999887644434443
No 215
>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=93.53 E-value=5.3 Score=38.51 Aligned_cols=72 Identities=24% Similarity=0.269 Sum_probs=46.3
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.+..+ .+.++... ++...+..+|.+|++|+++...... .....+. +.|.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~~-~~~l~~~~~~~v~~~ 82 (201)
T cd08418 13 TLMPAVINRFKEQFP-DVQISIYE-------GQLSSLLPELRDGRLDFAIGTLPDE-MYLKELI-SEPLFESDFVVVARK 82 (201)
T ss_pred hhhHHHHHHHHHHCC-CceEEEEe-------CcHHHHHHHHHcCCCcEEEEecCCC-CCCccee-EEeecCCceEEEeCC
Confidence 445677778877764 35566654 4578999999999999998632111 1112232 356667778887765
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 83 ~~ 84 (201)
T cd08418 83 DH 84 (201)
T ss_pred CC
Confidence 54
No 216
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=93.41 E-value=0.61 Score=50.03 Aligned_cols=68 Identities=13% Similarity=0.169 Sum_probs=47.2
Q ss_pred CCCCChHHhhhCCCeEEEEeCchHHHHH---HHhhCCCCcceEeC-CCHHHHHHHHhcCCcEEEEcChhhHHHH
Q 003167 590 SPIKGIDTLMTSNDRVGYQVGSFAENYL---IEELSIPKSRLVAL-GSPEEYAIALENRTVAAVVDERPYIDLF 659 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~~~~~~~~~l---~~~~~~~~~~~~~~-~~~~~~~~~l~~g~~~a~~~~~~~~~~~ 659 (843)
++|++++||. |++||+..++.....+ .+..|++...+... -...+...++.+|.+||++...++....
T Consensus 112 ~~I~s~~DLk--GK~Iav~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~Al~~G~VDAa~~~~p~~~~~ 183 (320)
T PRK11480 112 KTISKPEDLI--GKRIAVPFISTTHYSLLAALKHWGIKPGQVEIVNLQPPAIIAAWQRGDIDGAYVWAPAVNAL 183 (320)
T ss_pred CCCCChHHcC--CCEEecCCCCchHHHHHHHHHHcCCCHhheEEEECCcHHHHHHHHcCCcCEEEEcchHHHHH
Confidence 3699999995 9999998766443332 24456654444322 2467889999999999998877776444
No 217
>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=93.38 E-value=3.3 Score=40.23 Aligned_cols=68 Identities=18% Similarity=0.289 Sum_probs=43.5
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEecc
Q 003167 403 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 482 (843)
Q Consensus 403 ~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~ 482 (843)
+-..++..+.+..+ .++++... ++. ++++.|.+|++|+++..-... ...+. ..|+....++++++..
T Consensus 14 ~l~~~i~~~~~~~P-~i~l~i~~-------~~~-~~~~~l~~g~~D~~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~~ 80 (200)
T cd08462 14 LLPPVIERVAREAP-GVRFELLP-------PDD-QPHELLERGEVDLLIAPERFM---SDGHP-SEPLFEEEFVCVVWAD 80 (200)
T ss_pred HHHHHHHHHHHHCC-CCEEEEec-------CCh-hHHHHHhcCCeeEEEecCCCC---CCCce-eeeeeccceEEEEcCC
Confidence 34567777777664 24555543 334 899999999999998632211 12232 3467777888887665
Q ss_pred C
Q 003167 483 K 483 (843)
Q Consensus 483 ~ 483 (843)
.
T Consensus 81 h 81 (200)
T cd08462 81 N 81 (200)
T ss_pred C
Confidence 5
No 218
>PRK09701 D-allose transporter subunit; Provisional
Probab=93.37 E-value=4.2 Score=43.35 Aligned_cols=150 Identities=14% Similarity=0.074 Sum_probs=85.6
Q ss_pred CCeEEEEc-CCChHHHHHHHHhcccCCCcEEecccCCCC--CCCCCCCceEEcCCChHHhHHHHHHHHHH-cCC--cEEE
Q 003167 3 TDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPT--LSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGW--GEVI 76 (843)
Q Consensus 3 ~~V~aiiG-p~~S~~~~av~~~~~~~~vP~Is~~at~~~--ls~~~~p~~fR~~p~d~~~~~ai~~ll~~-~~w--~~v~ 76 (843)
++|.+||= |..+.........+.+.++|++.+....+. +....-....-+..++...+..+++++.. .|- ++++
T Consensus 81 ~~vDgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~ 160 (311)
T PRK09701 81 KNYKGIAFAPLSSVNLVMPVARAWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVA 160 (311)
T ss_pred cCCCEEEEeCCChHHHHHHHHHHHHCCCcEEEeCCCCCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEE
Confidence 45666653 333222222223345789999998654321 11111112234667777778888887744 464 7999
Q ss_pred EEEecC--CCCcchHHHHHHHHHhcC-cEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHH
Q 003167 77 AIFNDD--DQGRNGVTALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVA 151 (843)
Q Consensus 77 ii~~d~--~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a 151 (843)
++..+. .......+.|.+.+++.| +++.... ... ....+-...+.++.+. ++++|+ +.+...+..+++.+
T Consensus 161 ~l~g~~~~~~~~~R~~Gf~~al~~~~~~~~~~~~--~~~--~~~~~~~~~~~~ll~~~~~~~~I~-~~~d~~A~g~~~al 235 (311)
T PRK09701 161 IIEGKAGNASGEARRNGATEAFKKASQIKLVASQ--PAD--WDRIKALDVATNVLQRNPNIKAIY-CANDTMAMGVAQAV 235 (311)
T ss_pred EEECCCCCccHHHHHHHHHHHHHhCCCcEEEEec--CCC--CCHHHHHHHHHHHHHhCCCCCEEE-ECCcchHHHHHHHH
Confidence 886533 334566788999998887 7654321 111 1122233455555433 456544 55566777788999
Q ss_pred HHcCCc
Q 003167 152 QRLGMM 157 (843)
Q Consensus 152 ~~~g~~ 157 (843)
++.|..
T Consensus 236 ~~~G~~ 241 (311)
T PRK09701 236 ANAGKT 241 (311)
T ss_pred HHcCCC
Confidence 998874
No 219
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=93.35 E-value=3.1 Score=43.12 Aligned_cols=144 Identities=15% Similarity=0.130 Sum_probs=93.4
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCC----CCCCceEEcCCChHHhHHHHHHHHHH--cCCcEEE
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP----LQYPFFVQTAPNDLYLMSAIAEMVSY--FGWGEVI 76 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~----~~~p~~fR~~p~d~~~~~ai~~ll~~--~~w~~v~ 76 (843)
++.+.|++-. +..+.++..-.. ++|+|-.+.++|.=.. ..-|----|+-||..-....++++++ -+-++++
T Consensus 87 ~~~dviv~i~-tp~Aq~~~s~~~--~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Ig 163 (322)
T COG2984 87 DKPDVIVAIA-TPAAQALVSATK--TIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIG 163 (322)
T ss_pred CCCcEEEecC-CHHHHHHHHhcC--CCCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEE
Confidence 3444555433 334444433322 3999987777654221 11233344677887766777777776 4889999
Q ss_pred EEEecCC-CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh---HHHHHHHHH
Q 003167 77 AIFNDDD-QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT---GLMVFDVAQ 152 (843)
Q Consensus 77 ii~~d~~-~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~---~~~i~~~a~ 152 (843)
++|..++ ......+.+++.+++.|++|+-.. ++ . ..|....++.+. .++|+|+.-++... ...+++.|.
T Consensus 164 v~Y~p~E~ns~~l~eelk~~A~~~Gl~vve~~-v~-~----~ndi~~a~~~l~-g~~d~i~~p~dn~i~s~~~~l~~~a~ 236 (322)
T COG2984 164 VLYNPGEANSVSLVEELKKEARKAGLEVVEAA-VT-S----VNDIPRAVQALL-GKVDVIYIPTDNLIVSAIESLLQVAN 236 (322)
T ss_pred EEeCCCCcccHHHHHHHHHHHHHCCCEEEEEe-cC-c----ccccHHHHHHhc-CCCcEEEEecchHHHHHHHHHHHHHH
Confidence 9998554 788999999999999999988432 22 2 456666665554 78999999887543 334667776
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.+.
T Consensus 237 ~~ki 240 (322)
T COG2984 237 KAKI 240 (322)
T ss_pred HhCC
Confidence 6553
No 220
>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=93.32 E-value=6 Score=38.69 Aligned_cols=71 Identities=11% Similarity=0.202 Sum_probs=47.0
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.+..+ .++++.... ++.++++++|.+|++|+++..... ....++ ..|+.+..+++++++
T Consensus 13 ~~~~~~l~~~~~~~P-~~~v~~~~~------~~~~~l~~~L~~g~lDl~i~~~~~---~~~~l~-~~~l~~~~~~lv~~~ 81 (203)
T cd08463 13 LFLPELVARFRREAP-GARLEIHPL------GPDFDYERALASGELDLVIGNWPE---PPEHLH-LSPLFSDEIVCLMRA 81 (203)
T ss_pred HHhHHHHHHHHHHCC-CCEEEEEeC------CcchhHHHHHhcCCeeEEEecccc---CCCCcE-EeEeecCceEEEEeC
Confidence 456788888888765 244555431 245789999999999999873221 112233 356777888888876
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 82 ~h 83 (203)
T cd08463 82 DH 83 (203)
T ss_pred CC
Confidence 65
No 221
>PF07885 Ion_trans_2: Ion channel; InterPro: IPR013099 This entry includes the two membrane helix type ion channels found in bacteria []. ; PDB: 1KKD_A 2A0L_A 1ORQ_C 3UKM_C 1LNQ_E 3OUS_A 3LDC_A 3LDD_A 3RBZ_A 3LDE_A ....
Probab=93.29 E-value=0.23 Score=40.65 Aligned_cols=55 Identities=24% Similarity=0.438 Sum_probs=45.7
Q ss_pred cccchhhHHHHHHHHhhccc--ccccccchhHHHHHHHHHHHHHHhhhhcceeeeee
Q 003167 530 RKQIVTVLWFSFSTMFFAHR--ENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILT 584 (843)
Q Consensus 530 ~~~~~~~~~~~~~~l~~~~~--~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt 584 (843)
..++.+++|+++.++.-.|. -.|.+..+|++.+.+.++++.+.+...+.+++.++
T Consensus 22 ~~~~~da~yfs~~t~tTvGyGDi~p~t~~gr~~~~~~~~~G~~~~~~~~~~~~~~l~ 78 (79)
T PF07885_consen 22 KWSFIDALYFSFVTITTVGYGDIVPQTPAGRIFTIIYMLIGIFLFALFLSVLASVLT 78 (79)
T ss_dssp TTSHHHHHHHHHHHHTT---SSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHhcccCCCccCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 55789999999999997763 37888889999999999999999999988877654
No 222
>cd08415 PBP2_LysR_opines_like The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold. This CD includes the C-terminal substrate-domain of LysR-type transcriptional regulators, OccR and NocR, involved in the catabolism of opines and that of LysR for lysine biosynthesis which clustered together in phylogenetic trees. Opines, such as octopine and nopaline, are low molecular weight compounds found in plant crown gall tumors that are produced by the parasitic bacterium Agrobacterium. There are at least 30 different opines identified so far. Opines are utilized by tumor-colonizing bacteria as a source of carbon, nitrogen, and energy. NocR and OccR belong to the family of LysR-type transcriptional regulators that positively regulates the catabolism of nopaline and octopine, respectively. Both nopaline and octopalin are arginine derivatives. In Agrobacterium tumefa
Probab=93.28 E-value=4.9 Score=38.57 Aligned_cols=70 Identities=13% Similarity=0.160 Sum_probs=47.6
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+..+++..+.+..+ .+++.... +...++..++.+|++|+++...... ...+ .+.|+....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~v~~~ 80 (196)
T cd08415 13 SLLPRAIARFRARHP-DVRISLHT-------LSSSTVVEAVLSGQADLGLASLPLD---HPGL-ESEPLASGRAVCVLPP 80 (196)
T ss_pred cccHHHHHHHHHHCC-CcEEEEEe-------cchHHHHHHHHcCCccEEEEeCCCC---CCcc-eeeeecccceEEEEcC
Confidence 556788888888764 34555554 4578899999999999998632221 1222 3567777888888866
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (196)
T cd08415 81 GH 82 (196)
T ss_pred CC
Confidence 54
No 223
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=93.25 E-value=2.2 Score=44.26 Aligned_cols=121 Identities=12% Similarity=0.094 Sum_probs=64.9
Q ss_pred CCCCChHHhhhCCCeEEEEeCc-hHHHHH--HHhhCC------------------C--CcceEeCCCHHHHHHHHhcCCc
Q 003167 590 SPIKGIDTLMTSNDRVGYQVGS-FAENYL--IEELSI------------------P--KSRLVALGSPEEYAIALENRTV 646 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~~~~-~~~~~l--~~~~~~------------------~--~~~~~~~~~~~~~~~~l~~g~~ 646 (843)
..|+|++||. .|.+|++.... .....| .+..|+ . .-++++. ...+...++..|++
T Consensus 119 ~~i~si~DL~-~Gk~IAip~d~~n~~r~L~lL~~~Gli~l~~~~~~~~t~~di~~n~~~v~~v~~-~~~~~~~al~~g~v 196 (271)
T PRK11063 119 KKIKSLDELQ-DGSQVAVPNDPTNLGRSLLLLQKVGLIKLKDGVGLLPTVLDIVENPKNLKIVEL-EAPQLPRSLDDAQI 196 (271)
T ss_pred cCCCCHHHhc-CCCEEEecCCCccHHHHHHHHHHCCCEEecCCCCCCCCHHHHhcCCCCCEEEEC-cHHHHHHhcccccc
Confidence 5799999995 58899998633 112211 133222 1 1233444 55677888889999
Q ss_pred EEEEcChhhHHHHHhcC-CCeEEeCCccccCcceeeecCCCCchHHHHHHHHhhhccccHHHHHHhh
Q 003167 647 AAVVDERPYIDLFLSDH-CQFSVRGQEFTKSGWGFAFPRDSPLAIDMSTAILTLSENGELQRIHDKW 712 (843)
Q Consensus 647 ~a~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~kw 712 (843)
|+++...+++.....+. .+-....+.-.+.-..+++++...=.+.+.+.+.-++....-+.+.++|
T Consensus 197 Daa~i~~~~a~~a~~~~~~~~l~~e~~~~~~~~~~~v~~~~~~~~~~~~l~~a~~s~~v~~~i~~~~ 263 (271)
T PRK11063 197 ALAVINTTYASQIGLTPAKDGIFVEDKDSPYVNLIVAREDNKDAENVKKFVQAYQSDEVYEAANKVF 263 (271)
T ss_pred cEEEEChHHHHHcCCCCCCCeeEECCCCCCeEEEEEECCcccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 99999888876542222 1222222211112234556655333344444444444444455555554
No 224
>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=93.22 E-value=0.77 Score=47.77 Aligned_cols=155 Identities=15% Similarity=0.151 Sum_probs=90.2
Q ss_pred CCeEEEE-cCCChH---HHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEE
Q 003167 3 TDTLAIV-GPQSAV---MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAI 78 (843)
Q Consensus 3 ~~V~aii-Gp~~S~---~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii 78 (843)
.+|.++| -|..+. ........+...++|+|......+. .. +..+..++..-+..+++.+...|.++++++
T Consensus 54 ~~vdgii~~~~~~~~~~~~~~~~~~~~~~~ipvV~~~~~~~~---~~---~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l 127 (273)
T cd01541 54 QGIDGLIIEPTKSALPNPNIDLYLKLEKLGIPYVFINASYEE---LN---FPSLVLDDEKGGYKATEYLIELGHRKIAGI 127 (273)
T ss_pred cCCCEEEEeccccccccccHHHHHHHHHCCCCEEEEecCCCC---CC---CCEEEECcHHHHHHHHHHHHHcCCcCEEEe
Confidence 4666665 333221 1112233456779999987654221 11 223566677777788888888899999988
Q ss_pred EecC-CCCcchHHHHHHHHHhcCcEEEEee--ecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHHH
Q 003167 79 FNDD-DQGRNGVTALGDKLAEIRCKISYKS--ALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQR 153 (843)
Q Consensus 79 ~~d~-~~g~~~~~~l~~~l~~~g~~v~~~~--~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~~ 153 (843)
...+ ..+....+.+.+.+++.|..+.... ..... .........++++.+ ..+++|+. .+...+..+++.+++
T Consensus 128 ~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~av~~-~~d~~a~g~~~al~~ 204 (273)
T cd01541 128 FKADDLQGVKRMKGFIKAYREHGIPFNPSNVITYTTE--EKEEKLFEKIKEILKRPERPTAIVC-YNDEIALRVIDLLKE 204 (273)
T ss_pred cCCCcccHHHHHHHHHHHHHHcCCCCChHHEEecccc--chhhHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHH
Confidence 7532 2344557888999988886432111 11111 111233444555543 34676644 555667778899999
Q ss_pred cCCcccceEEEEe
Q 003167 154 LGMMDSGYVWIAT 166 (843)
Q Consensus 154 ~g~~~~~~~~i~~ 166 (843)
.|+..++.+-|.+
T Consensus 205 ~g~~~p~dv~vvg 217 (273)
T cd01541 205 LGLKIPEDISVVG 217 (273)
T ss_pred cCCCCCCcEEEEE
Confidence 9986555555543
No 225
>cd08411 PBP2_OxyR The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily. OxyR senses hydrogen peroxide and is activated through the formation of an intramolecular disulfide bond. The OxyR activation induces the transcription of genes necessary for the bacterial defense against oxidative stress. The OxyR of LysR-type transcriptional regulator family is composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repre
Probab=93.21 E-value=3.9 Score=39.55 Aligned_cols=69 Identities=13% Similarity=0.260 Sum_probs=44.6
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEecc
Q 003167 403 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 482 (843)
Q Consensus 403 ~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~ 482 (843)
+-.+++..+.+..+ .++++... ++...++..|.+|++|+++..... ....+ -..++.+..++++++..
T Consensus 15 ~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~~ 82 (200)
T cd08411 15 LLPRLLPALRQAYP-KLRLYLRE-------DQTERLLEKLRSGELDAALLALPV---DEPGL-EEEPLFDEPFLLAVPKD 82 (200)
T ss_pred hhHHHHHHHHHHCC-CcEEEEEe-------CcHHHHHHHHHcCCccEEEEeccC---CCCCc-eEEEeeccceEEEecCC
Confidence 45677888877764 24555553 457889999999999999863211 11222 23456677777777655
Q ss_pred C
Q 003167 483 K 483 (843)
Q Consensus 483 ~ 483 (843)
.
T Consensus 83 ~ 83 (200)
T cd08411 83 H 83 (200)
T ss_pred C
Confidence 4
No 226
>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=93.06 E-value=0.32 Score=50.27 Aligned_cols=102 Identities=12% Similarity=0.067 Sum_probs=63.5
Q ss_pred CCCCChHHhhhCCCeEEEEeCchHHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHH-HhcCCCeEE
Q 003167 590 SPIKGIDTLMTSNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLF-LSDHCQFSV 668 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~-~~~~~~l~~ 668 (843)
.+|++++||. |+++.+..++.....+ +.++.. .+ ..+..|...+|++|.+|+.+.....+..+ +.+-.++..
T Consensus 126 ~~i~s~~Dl~--G~kir~~~~~~~~~~~-~~~Ga~---~v-~~~~~e~~~aL~~G~vDg~~~~~~~~~~~~~~ev~~y~~ 198 (257)
T TIGR00787 126 KPITKPEDLK--GLKIRIPNSPMNEAQF-KALGAN---PE-PMAFSEVYTALQTGVVDGQENPLSNVYSSKFYEVQKYLS 198 (257)
T ss_pred CccCChHHhC--CCEEecCCCHHHHHHH-HHcCCc---cc-ccCHHHHHHHHHcCCcccccCCHHHHhhcchhhhcchhe
Confidence 5799999994 9999998877777777 445432 23 45778999999999999998765443221 111223332
Q ss_pred eCCccccCcceeeecCCC--CchHHHHHHHHhh
Q 003167 669 RGQEFTKSGWGFAFPRDS--PLAIDMSTAILTL 699 (843)
Q Consensus 669 ~~~~~~~~~~~~~~~k~s--pl~~~in~~i~~l 699 (843)
... .......+.+.++. .|-+....+|...
T Consensus 199 ~~~-~~~~~~~~~~n~~~~~~L~~e~q~~i~~a 230 (257)
T TIGR00787 199 MTN-HGYLGYLVVVNKAFWKSLPPDLQAVVKEA 230 (257)
T ss_pred ecC-CcccceEEEEeHHHHhcCCHHHHHHHHHH
Confidence 222 22345567777762 2555555555443
No 227
>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=93.02 E-value=4.8 Score=39.04 Aligned_cols=71 Identities=20% Similarity=0.149 Sum_probs=47.2
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.+..+ .++++... +....+...|.+|++|+++...... ....+. +.+.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~~--~~~~~~-~~~l~~~~~~~v~~~ 81 (198)
T cd08413 13 YVLPPVIAAFRKRYP-KVKLSLHQ-------GTPSQIAEMVLKGEADIAIATEALD--DHPDLV-TLPCYRWNHCVIVPP 81 (198)
T ss_pred hhccHHHHHHHHhCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEEccCCC--CCCCcE-EEEeeeeeEEEEecC
Confidence 445678888888765 24555554 5578899999999999998632211 112232 466777788888876
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 82 ~h 83 (198)
T cd08413 82 GH 83 (198)
T ss_pred CC
Confidence 55
No 228
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=93.00 E-value=4.6 Score=42.05 Aligned_cols=148 Identities=12% Similarity=0.056 Sum_probs=84.2
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHH-cCCc--EEEEE
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWG--EVIAI 78 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~-~~w~--~v~ii 78 (843)
.++++|| .+..+.........+.+.++|+|......+. ..+.+-.+..++...+..+++++.. .|-+ +++++
T Consensus 54 ~~~Dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~----~~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i 129 (282)
T cd06318 54 RGVNVLIINPVDPEGLVPAVAAAKAAGVPVVVVDSSINL----EAGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIILL 129 (282)
T ss_pred cCCCEEEEecCCccchHHHHHHHHHCCCCEEEecCCCCC----CcCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEEE
Confidence 3555555 3433332233345556789999987653211 0123345667777778888887755 6755 88888
Q ss_pred Eec--CCCCcchHHHHHHHHHhcCcE------EEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHH
Q 003167 79 FND--DDQGRNGVTALGDKLAEIRCK------ISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVF 148 (843)
Q Consensus 79 ~~d--~~~g~~~~~~l~~~l~~~g~~------v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~ 148 (843)
..+ ...+....+.|++.++++|+. +......... .+..+-...+.++.. .++++|+. .+...+..++
T Consensus 130 ~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~ 206 (282)
T cd06318 130 SGDAGNLVGQARRDGFLLGVSEAQLRKYGKTNFTIVAQGYGD--WTREGGLKAMEDLLVAHPDINVVYS-ENDDMALGAM 206 (282)
T ss_pred ECCCCCchHhHHHHhHHHHHhhCcccccccCCeEEEecCCCC--CCHHHHHHHHHHHHHhCCCcCEEEE-CCcchHHHHH
Confidence 753 344667788999999988642 1111101111 112232334444433 34566555 4445566788
Q ss_pred HHHHHcCCc
Q 003167 149 DVAQRLGMM 157 (843)
Q Consensus 149 ~~a~~~g~~ 157 (843)
+.+++.|+.
T Consensus 207 ~al~~~g~~ 215 (282)
T cd06318 207 RVLAEAGKT 215 (282)
T ss_pred HHHHHcCCC
Confidence 999998874
No 229
>cd08460 PBP2_DntR_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold. This CD includes an uncharacterized LysR-type transcriptional regulator similar to DntR, NahR, and LinR, which are involved in the degradation of aromatic compounds. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytra
Probab=92.95 E-value=2.9 Score=40.58 Aligned_cols=69 Identities=16% Similarity=0.296 Sum_probs=45.9
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.++.+ .++++... ++. .++++|.+|++|++++.... ....+. ..|+.+..++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~v~l~~-------~~~-~~~~~l~~g~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 79 (200)
T cd08460 13 AFGPALLAAVAAEAP-GVRLRFVP-------ESD-KDVDALREGRIDLEIGVLGP---TGPEIR-VQTLFRDRFVGVVRA 79 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------Cch-hHHHHHHCCCccEEEecCCC---CCcchh-eeeeeccceEEEEeC
Confidence 455678888888764 35565543 335 78899999999999863221 112233 467777788888876
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 80 ~h 81 (200)
T cd08460 80 GH 81 (200)
T ss_pred CC
Confidence 55
No 230
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=92.92 E-value=2.2 Score=44.43 Aligned_cols=135 Identities=11% Similarity=0.032 Sum_probs=83.1
Q ss_pred hcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC--CCCcchHHHHHHHHHhcC
Q 003167 23 LANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLAEIR 100 (843)
Q Consensus 23 ~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~~~g 100 (843)
.+.+.++|+|......+. ...+++ +..++...+..+++.+...|-+++++|.... ..+....+.|.+++++.|
T Consensus 74 ~l~~~~iPvV~i~~~~~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~gf~~a~~~~g 148 (269)
T cd06287 74 RLRQRGIPVVSIGRPPGD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIALIVGSARRNSYLEAEAAYRAFAAEHG 148 (269)
T ss_pred HHHHcCCCEEEeCCCCCC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEEeCCcccccHHHHHHHHHHHHHHcC
Confidence 345679999987553210 122333 3455666667778888888999999996432 334556788999999988
Q ss_pred cEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCcccceEEEEe
Q 003167 101 CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 166 (843)
Q Consensus 101 ~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~i~~ 166 (843)
+..... .+... .+..+-...++++.+. ++++|++ .+...+..+++.+++.|+..++-+=|++
T Consensus 149 ~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~gvl~al~~~gl~vP~dvsvig 212 (269)
T cd06287 149 MPPVVL-RVDEA--GGEEAGYAACAQLLAQHPDLDALCV-PVDAFAVGAVRAATELGRAVPDQLRVVT 212 (269)
T ss_pred CCccee-EecCC--CChHHHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 754321 11111 1122333445555433 4676664 4566777899999999987666554443
No 231
>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=92.86 E-value=1.5 Score=45.15 Aligned_cols=150 Identities=10% Similarity=0.038 Sum_probs=86.9
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
.+|.||| -|.... ..++..+.+ .+ |++......+ ...+ .+.+++...+..+++.+...|-++++++..+
T Consensus 54 ~~vdgiii~~~~~~-~~~~~~~~~-~~-pvv~~~~~~~----~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 123 (260)
T cd06286 54 KQVDGLILCSREND-WEVIEPYTK-YG-PIVLCEEYDS----KNIS---SVYIDHYEAFYEALKYLIQKGYRKIAYCIGR 123 (260)
T ss_pred cCCCEEEEeCCCCC-HHHHHHHhc-CC-CEEEEecccC----CCCC---EEEECChHHHHHHHHHHHHCCCceEEEEcCC
Confidence 3566555 232211 233333333 34 8876543221 1223 3556667777788888888899999999764
Q ss_pred --CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHHHcCCc
Q 003167 82 --DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 82 --~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~~~g~~ 157 (843)
+.......+.|.+.+++.|+.+.....+... .+..+-...+.++.+ ..+++|+ +++...+..+++.+++.|+.
T Consensus 124 ~~~~~~~~R~~Gf~~~l~~~~~~~~~~~i~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~ 200 (260)
T cd06286 124 KKSLNSQSRKKAYKDALEEYGLTPDEEWIFEGC--FTIEDGERIGHQLLKMKDRPDAIF-TGSDEVAAGIITEAKKQGIR 200 (260)
T ss_pred cccchhHHHHHHHHHHHHHcCCCCChHheEeCC--CCHHHHHHHHHHHHcCCCCCCEEE-EcchHHHHHHHHHHHHcCCC
Confidence 2345566889999999998654321111111 112233344555543 3567654 55566677899999999976
Q ss_pred ccceEEEE
Q 003167 158 DSGYVWIA 165 (843)
Q Consensus 158 ~~~~~~i~ 165 (843)
.++.+-|.
T Consensus 201 ip~di~v~ 208 (260)
T cd06286 201 VPEDLAII 208 (260)
T ss_pred CCcceEEE
Confidence 54444443
No 232
>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=92.84 E-value=6.4 Score=37.61 Aligned_cols=70 Identities=20% Similarity=0.328 Sum_probs=45.3
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+...++..+.+..+ .++++... +....++.++.+|++|+++.... .....+. ..++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~ 80 (195)
T cd08434 13 SLVPDLIRAFRKEYP-NVTFELHQ-------GSTDELLDDLKNGELDLALCSPV---PDEPDIE-WIPLFTEELVLVVPK 80 (195)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEec-------CcHHHHHHHHHcCCccEEEEccC---CCCCCee-EEEeecceEEEEecC
Confidence 345677777777763 24455543 44678899999999999986322 2222333 356777788888766
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (195)
T cd08434 81 DH 82 (195)
T ss_pred CC
Confidence 54
No 233
>cd08426 PBP2_LTTR_like_5 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=92.61 E-value=8.4 Score=37.06 Aligned_cols=70 Identities=9% Similarity=0.092 Sum_probs=45.6
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.+..+ .++++... ++...++.++.+|++|+++..... ....+. +.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~~~---~~~~~~-~~~l~~~~~~~v~~~ 80 (199)
T cd08426 13 ELLPSLIARFRQRYP-GVFFTVDV-------ASTADVLEAVLSGEADIGLAFSPP---PEPGIR-VHSRQPAPIGAVVPP 80 (199)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEe-------CCcHHHHHHHHCCCccEEEecCCC---CCCCeE-EEeeccCcEEEEecC
Confidence 344677777777754 24455543 456789999999999999863221 112222 466777888888866
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~h 82 (199)
T cd08426 81 GH 82 (199)
T ss_pred CC
Confidence 54
No 234
>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=92.61 E-value=4.5 Score=39.03 Aligned_cols=70 Identities=21% Similarity=0.312 Sum_probs=45.9
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+..+++..+.+..+ .+++.... ++...+...+.+|++|+++.... .....+ -..|+....++++++.
T Consensus 13 ~~~~~~i~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 80 (200)
T cd08417 13 LLLPPLLARLRQEAP-GVRLRFVP-------LDRDDLEEALESGEIDLAIGVFP---ELPPGL-RSQPLFEDRFVCVARK 80 (200)
T ss_pred HHHHHHHHHHHhhCC-CeEEEecc-------CCHHHHHHHHHcCCCCEEEeecc---cCCCcc-chhhhhcCceEEEecC
Confidence 344567777777653 24444443 45788999999999999986322 222222 2467778888888876
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (200)
T cd08417 81 DH 82 (200)
T ss_pred CC
Confidence 54
No 235
>PRK12681 cysB transcriptional regulator CysB; Reviewed
Probab=92.57 E-value=4.2 Score=43.60 Aligned_cols=85 Identities=15% Similarity=0.119 Sum_probs=53.7
Q ss_pred CCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEec
Q 003167 374 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 453 (843)
Q Consensus 374 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~ 453 (843)
.++|+||++. .+. ..+-.+++..+.+..+ .+++.... ++.+.++.++.+|++|+++..
T Consensus 92 ~g~l~Ig~~~--~~~------------~~~l~~~l~~f~~~~P-~i~i~i~~-------~~~~~~~~~L~~g~iDl~i~~ 149 (324)
T PRK12681 92 KGSLYIATTH--TQA------------RYALPPVIKGFIERYP-RVSLHMHQ-------GSPTQIAEAAAKGNADFAIAT 149 (324)
T ss_pred CCeEEEEech--hHH------------HHhhHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCCCEEEec
Confidence 3579999974 111 2344667777777664 35566654 568899999999999999863
Q ss_pred eeeecCcceeeeecccccccceEEEEeccC
Q 003167 454 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 483 (843)
Q Consensus 454 ~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~ 483 (843)
... .....+. ..|+.....+++++...
T Consensus 150 ~~~--~~~~~l~-~~~l~~~~~~~v~~~~h 176 (324)
T PRK12681 150 EAL--HLYDDLI-MLPCYHWNRSVVVPPDH 176 (324)
T ss_pred Ccc--cCCCCeE-EEEeccceeEEEeCCCC
Confidence 211 1112232 34666677777776544
No 236
>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=92.50 E-value=5.7 Score=41.95 Aligned_cols=146 Identities=10% Similarity=-0.022 Sum_probs=81.9
Q ss_pred CCeEEEEc-CCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc-CC-cEEEEEE
Q 003167 3 TDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-GW-GEVIAIF 79 (843)
Q Consensus 3 ~~V~aiiG-p~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~-~w-~~v~ii~ 79 (843)
.++.|||= +..+.........+...++|+|......+. + . .-+....+++...+..+++++... +- ++++++.
T Consensus 55 ~~~DgiIi~~~~~~~~~~~~~~~~~~~iPvV~v~~~~~~--~-~-~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~ 130 (298)
T cd06302 55 QGVDAIAVVPNDPDALEPVLKKAREAGIKVVTHDSDVQP--D-N-RDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFV 130 (298)
T ss_pred cCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEEcCCCCC--C-c-ceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEe
Confidence 35666652 333332233334456789999987543211 0 1 112334567777777788877665 43 6999997
Q ss_pred ecCC--CCcchHHHHHHHHHhcC---cEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHH
Q 003167 80 NDDD--QGRNGVTALGDKLAEIR---CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 80 ~d~~--~g~~~~~~l~~~l~~~g---~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~ 152 (843)
.+.. ......+.|.++++++| .++.. .+... .+...-...++++.+. ++++|+. .+...+..+++.++
T Consensus 131 g~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~--~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~D~~A~g~~~al~ 205 (298)
T cd06302 131 GSLTATNQNAWIDAAKAYQKEKYYPMLELVD--RQYGD--DDADKSYQTAQELLKAYPDLKGIIG-PTSVGIPGAARAVE 205 (298)
T ss_pred CCCCCcchHHHHHHHHHHHhhcCCCCeEEeC--cccCC--CCHHHHHHHHHHHHHhCCCceEEEE-CCCcchhHHHHHHH
Confidence 5332 33455788999999987 23221 11111 1222222344444333 4555544 34566777889999
Q ss_pred HcCCc
Q 003167 153 RLGMM 157 (843)
Q Consensus 153 ~~g~~ 157 (843)
+.|+.
T Consensus 206 ~~g~~ 210 (298)
T cd06302 206 EAGLK 210 (298)
T ss_pred hcCCC
Confidence 98875
No 237
>cd08419 PBP2_CbbR_RubisCO_like The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold. CbbR, a LysR-type transcriptional regulator, is required to activate expression of RubisCO, one of two unique enzymes in the Calvin-Benson-Bassham (CBB) cycle pathway. All plants, cyanobacteria, and many autotrophic bacteria use the CBB cycle to fix carbon dioxide. Thus, this cycle plays an essential role in assimilating CO2 into organic carbon on earth. The key CBB cycle enzyme is ribulose 1,5-bisphosphate carboxylase/oxygenase (RubisCO), which catalyzes the actual CO2 fixation reaction. The CO2 concentration affects the expression of RubisCO genes. It has also shown that NADPH enhances the DNA-binding ability of the CbbR. RubisCO is composed of eight large (CbbL) and eight small subunits (CbbS). The topology of this substrate-binding domain is most similar to t
Probab=92.44 E-value=10 Score=36.20 Aligned_cols=70 Identities=17% Similarity=0.243 Sum_probs=45.3
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+..+++..+.++.+ .++++... +....++.++.+|++|+++...... ...+ ...++....++++++.
T Consensus 12 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~~~~~ 79 (197)
T cd08419 12 YFAPRLLGAFCRRHP-GVEVSLRV-------GNREQVLERLADNEDDLAIMGRPPE---DLDL-VAEPFLDNPLVVIAPP 79 (197)
T ss_pred hHhhHHHHHHHHHCC-CceEEEEE-------CCHHHHHHHHhcCCccEEEecCCCC---CCCe-EEEEeccCCEEEEecC
Confidence 345677788877753 24455554 4577899999999999998532211 1112 3456777788888765
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 80 ~~ 81 (197)
T cd08419 80 DH 81 (197)
T ss_pred CC
Confidence 54
No 238
>PRK12683 transcriptional regulator CysB-like protein; Reviewed
Probab=92.29 E-value=8 Score=41.13 Aligned_cols=195 Identities=13% Similarity=0.084 Sum_probs=113.8
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
.+|+||+.. ... ..+-..++..+.++.+ .+++.... +++++++..|.+|++|+++...
T Consensus 93 g~l~Ig~~~--~~~------------~~~l~~~i~~f~~~~P-~i~l~~~~-------~~~~~~~~~L~~~~~D~~i~~~ 150 (309)
T PRK12683 93 GHLTVATTH--TQA------------RYALPKVVRQFKEVFP-KVHLALRQ-------GSPQEIAEMLLNGEADIGIATE 150 (309)
T ss_pred ceEEEEecc--chH------------HHHHHHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHcCCccEEEecC
Confidence 568998864 111 1334567777777654 24555554 5689999999999999988522
Q ss_pred eeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccch
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIV 534 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~ 534 (843)
.. .....+.+ .|+....++++++...+..
T Consensus 151 ~~--~~~~~l~~-~~l~~~~~~~v~~~~hpl~------------------------------------------------ 179 (309)
T PRK12683 151 AL--DREPDLVS-FPYYSWHHVVVVPKGHPLT------------------------------------------------ 179 (309)
T ss_pred CC--CCCCCceE-EEcccCeEEEEecCCCCcc------------------------------------------------
Confidence 11 11222333 3677778888877655211
Q ss_pred hhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCe-EEEEeCchH
Q 003167 535 TVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDR-VGYQVGSFA 613 (843)
Q Consensus 535 ~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~-i~~~~~~~~ 613 (843)
..+--+++||. +.+ |....++..
T Consensus 180 ------------------------------------------------------~~~~~~~~~L~--~~~~i~~~~~~~~ 203 (309)
T PRK12683 180 ------------------------------------------------------GRENLTLEAIA--EYPIITYDQGFTG 203 (309)
T ss_pred ------------------------------------------------------cCCccCHHHHh--cCCeEeccCCCcH
Confidence 02336778886 333 444444433
Q ss_pred HHHHH---HhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEeC--CccccCcceeeecCCCCc
Q 003167 614 ENYLI---EELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRG--QEFTKSGWGFAFPRDSPL 688 (843)
Q Consensus 614 ~~~l~---~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~spl 688 (843)
...+. ...+.........++.+...+.+..|..-+++... ..... ...++..+. +......++++.+|+.++
T Consensus 204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~Gi~~lp~~-~~~~~--~~~~l~~~~~~~~~~~~~~~l~~~~~~~~ 280 (309)
T PRK12683 204 RSRIDQAFAEAGLVPDIVLTALDADVIKTYVELGMGVGIVAAM-AYDPQ--RDTGLVALDTDHLFEANTTRVGLRRGAYL 280 (309)
T ss_pred HHHHHHHHHHCCCCceeEEEeccHHHHHHHHHhCCCeEEeehh-hcccc--CCCceEEEeCCCCcccceEEEEEECCCcC
Confidence 33222 33444444455678888888889888766666542 22211 123455443 233345788999999887
Q ss_pred hHHHHHHHHhhhc
Q 003167 689 AIDMSTAILTLSE 701 (843)
Q Consensus 689 ~~~in~~i~~l~e 701 (843)
.......+..+.+
T Consensus 281 ~~~~~~fi~~l~~ 293 (309)
T PRK12683 281 RGYAYRFIELFAP 293 (309)
T ss_pred CHHHHHHHHHHHh
Confidence 6666555554444
No 239
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=92.21 E-value=2.3 Score=46.09 Aligned_cols=111 Identities=6% Similarity=-0.076 Sum_probs=69.5
Q ss_pred cCCChHHhHHHHHHHHHHcCCcEEEEEEecC--CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc
Q 003167 52 TAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM 129 (843)
Q Consensus 52 ~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~ 129 (843)
+..++..-+..++++|...|-+++++|.... ..+....+.|.+++++.|+.+......... .....-...+.++.+
T Consensus 156 V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~ 233 (346)
T PRK10401 156 VCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDDAMRRAGWMSALKEQGIIPPESWIGTGT--PDMQGGEAAMVELLG 233 (346)
T ss_pred EEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcchHHHHHHHHHHHHHcCCCCChhheecCC--CChHHHHHHHHHHHc
Confidence 4445555556677888888999999997533 345667899999999999754321111111 111222234445443
Q ss_pred --CCCeEEEEEcChhhHHHHHHHHHHcCCcccceEEEE
Q 003167 130 --MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 165 (843)
Q Consensus 130 --~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~i~ 165 (843)
..+++|++ .+...+..+++.+++.|+..++-+-|+
T Consensus 234 ~~~~~~ai~~-~nd~~A~g~~~al~~~G~~vP~disvi 270 (346)
T PRK10401 234 RNLQLTAVFA-YNDNMAAGALTALKDNGIAIPLHLSII 270 (346)
T ss_pred CCCCCcEEEE-CCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 34677665 556677789999999998766555444
No 240
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=92.15 E-value=4.7 Score=43.20 Aligned_cols=155 Identities=13% Similarity=0.106 Sum_probs=93.2
Q ss_pred CCeEEE-EcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHH-cC-CcEEEEEE
Q 003167 3 TDTLAI-VGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FG-WGEVIAIF 79 (843)
Q Consensus 3 ~~V~ai-iGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~-~~-w~~v~ii~ 79 (843)
+++.+| |.|.++.....+..-+...+||+|.+.+..+.- .....-+..+....+...++++.+ ++ .-+++++.
T Consensus 90 ~~~daIiv~~~d~~~~~~~v~~a~~aGIpVv~~d~~~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~ 165 (322)
T COG1879 90 QGVDAIIINPVDPDALTPAVKKAKAAGIPVVTVDSDIPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLV 165 (322)
T ss_pred cCCCEEEEcCCChhhhHHHHHHHHHCCCcEEEEecCCCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEe
Confidence 456555 488899888999999999999999986644332 122333444555555666666543 33 24466666
Q ss_pred ec--CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh-hhHHHHHHHHHHcCC
Q 003167 80 ND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVAQRLGM 156 (843)
Q Consensus 80 ~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~-~~~~~i~~~a~~~g~ 156 (843)
.. ........+.+.+.+++.+..+........+ .+...-......+....|++-.+++.. ..+....+.+++.|.
T Consensus 166 g~~~~~~~~~R~~G~~~~l~~~~~~~~v~~~~~~~--~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~ 243 (322)
T COG1879 166 GSPGNSSAEERVKGFRDALKEHPPDIEVVDVQTGD--WDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGR 243 (322)
T ss_pred cCCCCchHHHHHhhHHHHHHhCCCcEEEeeccCCc--ccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCC
Confidence 43 3445567889999999987532222222222 223344456666777777866665554 444455566667776
Q ss_pred cccceEEEE
Q 003167 157 MDSGYVWIA 165 (843)
Q Consensus 157 ~~~~~~~i~ 165 (843)
.. .+.+.
T Consensus 244 ~~--~v~v~ 250 (322)
T COG1879 244 KG--DVVVV 250 (322)
T ss_pred CC--ceEEE
Confidence 43 45554
No 241
>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=92.14 E-value=0.65 Score=43.75 Aligned_cols=99 Identities=15% Similarity=0.197 Sum_probs=66.1
Q ss_pred HHHHHHcCCcEEEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHH-HHHhcCCCeEEEEEcC
Q 003167 64 AEMVSYFGWGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNEL-VKVRMMEARVIVVHGY 140 (843)
Q Consensus 64 ~~ll~~~~w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l-~~i~~~~~~viv~~~~ 140 (843)
++.+...|-++++++.. ++.+.....+.|.+++++.|+........... ...+..... ..+++..+++|++ ++
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~pdaii~-~~ 76 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSDD---DSEDAREAQLLWLRRLRPDAIIC-SN 76 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESS---SHHHHHHHHHHHHHTCSSSEEEE-SS
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCC---cchhHHHHHHHHHhcCCCcEEEE-cC
Confidence 45677789999999994 33445677889999999999986654444333 233333222 2344447787666 77
Q ss_pred hhhHHHHHHHHHHcCCcccceEEEEe
Q 003167 141 SRTGLMVFDVAQRLGMMDSGYVWIAT 166 (843)
Q Consensus 141 ~~~~~~i~~~a~~~g~~~~~~~~i~~ 166 (843)
...+..+++.+.+.|+..+.-+-|++
T Consensus 77 ~~~a~~~~~~l~~~g~~vP~di~vv~ 102 (160)
T PF13377_consen 77 DRLALGVLRALRELGIRVPQDISVVS 102 (160)
T ss_dssp HHHHHHHHHHHHHTTSCTTTTSEEEE
T ss_pred HHHHHHHHHHHHHcCCcccccccEEE
Confidence 77888899999999986554444443
No 242
>PRK09492 treR trehalose repressor; Provisional
Probab=92.11 E-value=2.3 Score=45.33 Aligned_cols=137 Identities=12% Similarity=-0.021 Sum_probs=82.3
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec-
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND- 81 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d- 81 (843)
.+|.++|-...+... .......++|++...... .. +-.+.+++..-+..+++.|...|-++++++...
T Consensus 117 ~~vdgiIi~~~~~~~---~~~l~~~~~pvv~i~~~~-----~~---~~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~ 185 (315)
T PRK09492 117 RNVDGVILFGFTGIT---EEMLAPWQDKLVLLARDA-----KG---FSSVCYDDEGAIKLLMQRLYDQGHRHISYLGVDH 185 (315)
T ss_pred cCCCEEEEeCCCccc---HHHHHhcCCCEEEEeccC-----CC---CcEEEECcHHHHHHHHHHHHHcCCCeEEEEcCCc
Confidence 467777743222111 122334566777654311 11 223455666666777788878899999999632
Q ss_pred --CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 82 --DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 82 --~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
...+....+.|.+++++.|+.+... .... +...-...+.++.+.++++|++.. ...+..+++.+++.|+
T Consensus 186 ~~~~~~~~R~~Gf~~al~~~g~~~~~~--~~~~---~~~~~~~~~~~~l~~~~~ai~~~~-D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 186 SDVTTGKRRHQAYLAFCKQHKLTPVAA--LGGL---SMQSGYELVAKVLTPETTALVCAT-DTLALGASKYLQEQGR 256 (315)
T ss_pred ccchhHHHHHHHHHHHHHHcCCCceee--cCCC---CchHHHHHHHHHhhcCCCEEEEcC-cHHHHHHHHHHHHcCC
Confidence 2345677899999999999875431 1111 112222344555445788876544 5667778999999886
No 243
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=92.05 E-value=9.6 Score=39.91 Aligned_cols=83 Identities=18% Similarity=0.201 Sum_probs=51.9
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
..++||+.. .. ...+-.+++..+.+..+ .+.++... +...+++..+.+|++|+++...
T Consensus 89 g~l~i~~~~--~~------------~~~~~~~~l~~~~~~~P-~i~i~v~~-------~~~~~~~~~l~~g~~Di~i~~~ 146 (290)
T PRK10837 89 GALRIYASS--TI------------GNYILPAMIARYRRDYP-QLPLELSV-------GNSQDVINAVLDFRVDIGLIEG 146 (290)
T ss_pred CeEEEEecc--hh------------HhhhhHHHHHHHHHHCC-CceEEEEE-------CCHHHHHHHHHhCCceEEEecC
Confidence 468998874 11 12344677777777763 24455543 4577899999999999998632
Q ss_pred eeecCcceeeeecccccccceEEEEeccC
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 483 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~~ 483 (843)
... ...+ ...|+....+++++++..
T Consensus 147 ~~~---~~~~-~~~~l~~~~~~lv~~~~h 171 (290)
T PRK10837 147 PCH---SPEL-ISEPWLEDELVVFAAPDS 171 (290)
T ss_pred CCC---CCce-eEEEeecceEEEEEcCCC
Confidence 211 1122 235666777788776554
No 244
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=91.96 E-value=4.7 Score=42.78 Aligned_cols=83 Identities=17% Similarity=0.211 Sum_probs=50.7
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
..|+||+.. ... ...+...++..+.+..+ .+++.+.. +....+...|.+|++|+++...
T Consensus 91 g~l~I~~~~--~~~-----------~~~~~~~~l~~~~~~~p-~i~l~~~~-------~~~~~~~~~l~~g~~Di~i~~~ 149 (305)
T PRK11233 91 GQVSIGLAP--GTA-----------ASSLTMPLLQAVRAEFP-GIVLYLHE-------NSGATLNEKLMNGQLDMAVIYE 149 (305)
T ss_pred ceEEEEccc--chh-----------hHHHHHHHHHHHHHHCC-CcEEEEEE-------CCcHHHHHHHHCCCCCEEEEcC
Confidence 568998863 111 11334567788877763 34455543 4467889999999999998532
Q ss_pred eeecCcceeeeecccccccceEEEEecc
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVR 482 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~ 482 (843)
... ...+ ...|+.+..++++++..
T Consensus 150 ~~~---~~~~-~~~~l~~~~~~lv~~~~ 173 (305)
T PRK11233 150 HSP---VAGL-SSQPLLKEDLFLVGTQD 173 (305)
T ss_pred CcC---CCCc-EEEEEeeeeEEEEEcCc
Confidence 111 1122 24577777787777654
No 245
>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=91.88 E-value=12 Score=36.16 Aligned_cols=72 Identities=15% Similarity=0.161 Sum_probs=47.3
Q ss_pred EeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEe
Q 003167 401 HGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAP 480 (843)
Q Consensus 401 ~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~ 480 (843)
..+-.+++..+.+..+ .++++... ++.+.+...+.+|++|+++..... .....+. +.++....++++++
T Consensus 12 ~~~l~~~l~~f~~~~P-~~~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~~-~~~l~~~~~~~v~~ 80 (198)
T cd08443 12 RYVLPPVIKGFIERYP-RVSLQMHQ-------GSPTQIAEMVSKGLVDFAIATEAL--HDYDDLI-TLPCYHWNRCVVVK 80 (198)
T ss_pred eeECcHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEEeccc--cccCCce-EeeeeeceEEEEEc
Confidence 3556788888888764 24455543 557789999999999999863211 1112232 45677778888876
Q ss_pred ccC
Q 003167 481 VRK 483 (843)
Q Consensus 481 ~~~ 483 (843)
...
T Consensus 81 ~~h 83 (198)
T cd08443 81 RDH 83 (198)
T ss_pred CCC
Confidence 655
No 246
>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=91.82 E-value=11 Score=35.83 Aligned_cols=71 Identities=15% Similarity=0.177 Sum_probs=45.8
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.+..+ ++.++... ++...+..++.+|++|+++..... .....+ ...+.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~~~~~~-~~~~l~~~~~~~~~~~ 81 (194)
T cd08436 13 VDLPELLARFHRRHP-GVDIRLRQ-------AGSDDLLAAVREGRLDLAFVGLPE--RRPPGL-ASRELAREPLVAVVAP 81 (194)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCHHHHHHHHHcCCccEEEEecCC--CCCCCc-EEEEeecceEEEEecC
Confidence 455677788877764 35555554 456789999999999999864322 122222 2355666777777765
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 82 ~~ 83 (194)
T cd08436 82 DH 83 (194)
T ss_pred CC
Confidence 54
No 247
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=91.79 E-value=5.6 Score=42.11 Aligned_cols=86 Identities=14% Similarity=0.177 Sum_probs=56.0
Q ss_pred CCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEec
Q 003167 374 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 453 (843)
Q Consensus 374 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~ 453 (843)
..+|+||++.. . ...+-.+++..+.+..+ .+++.... ++..++..+|.+|++|+++..
T Consensus 94 ~g~l~I~~~~~--~------------~~~~l~~~l~~~~~~~p-~i~~~~~~-------~~~~~~~~~l~~g~~Di~i~~ 151 (302)
T PRK09791 94 AGQINIGMGAS--I------------ARSLMPAVISRFHQQHP-QVKVRIME-------GQLVSMINELRQGELDFTINT 151 (302)
T ss_pred ceEEEEEechH--H------------HHhhhHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHCCCccEEEEe
Confidence 36789999741 1 12445677778777765 35555543 457899999999999998862
Q ss_pred eeeecCcceeeeecccccccceEEEEeccC
Q 003167 454 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 483 (843)
Q Consensus 454 ~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~ 483 (843)
.... .....+. ..|+....+++++++..
T Consensus 152 ~~~~-~~~~~~~-~~~l~~~~~~l~~~~~~ 179 (302)
T PRK09791 152 YYQG-PYDHEFT-FEKLLEKQFAVFCRPGH 179 (302)
T ss_pred cCCc-cccccee-EEEeccceEEEEEcCCC
Confidence 2111 1112243 36788888888887665
No 248
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=91.74 E-value=4.9 Score=42.38 Aligned_cols=149 Identities=13% Similarity=0.050 Sum_probs=82.5
Q ss_pred CCeEEEE-cCCChHH-HHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHH-cC----CcEE
Q 003167 3 TDTLAIV-GPQSAVM-AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FG----WGEV 75 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~-~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~-~~----w~~v 75 (843)
.+|.||| .|..... ...+..+ . .++|+|......+ +. ..+-.+..++..-+..++++|.. +. -+++
T Consensus 56 ~~vDgiIi~~~~~~~~~~~l~~~-~-~~iPvV~~~~~~~---~~--~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~I 128 (295)
T TIGR02955 56 WGADAILLGTVSPEALNHDLAQL-T-KSIPVFALVNQID---SN--QVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTTL 128 (295)
T ss_pred cCCCEEEEecCChhhhhHHHHHH-h-cCCCEEEEecCCC---cc--ceeEEEeecHHHHHHHHHHHHHHhcccCCCCeeE
Confidence 4677665 3432222 2333333 3 4899987532211 11 12234555666666667777655 11 3469
Q ss_pred EEEEecC--CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHH
Q 003167 76 IAIFNDD--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVA 151 (843)
Q Consensus 76 ~ii~~d~--~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a 151 (843)
+++.... .......+.|.+++++.|+++... .... .+..+-...++++.+ .++++| +++...+..+++.+
T Consensus 129 ~~i~g~~~~~~~~~R~~Gf~~al~~~g~~~~~~--~~~~--~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al 202 (295)
T TIGR02955 129 AWLPGPKNRGGTKPVTQGFRAALEGSDVEISAI--LWAD--NDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISEL 202 (295)
T ss_pred EEEeCCCcCCchhHHHHHHHHHHhcCCcEEEEE--ecCC--CcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHH
Confidence 9997543 345667889999999999877542 2211 122333344555543 345764 45555677788888
Q ss_pred HHcCCcccceEEEEe
Q 003167 152 QRLGMMDSGYVWIAT 166 (843)
Q Consensus 152 ~~~g~~~~~~~~i~~ 166 (843)
++.|. ++-+.+.+
T Consensus 203 ~~~g~--~~dv~vvg 215 (295)
T TIGR02955 203 RSLHM--TQQIKLVS 215 (295)
T ss_pred HhhCc--cCCeEEEE
Confidence 88775 23454443
No 249
>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=91.64 E-value=2.6 Score=43.46 Aligned_cols=130 Identities=11% Similarity=0.109 Sum_probs=80.8
Q ss_pred ccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC-CCCcchHHHHHHHHHhcCcEE
Q 003167 25 NELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD-DQGRNGVTALGDKLAEIRCKI 103 (843)
Q Consensus 25 ~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~-~~g~~~~~~l~~~l~~~g~~v 103 (843)
...++|+|......+ ...+++ +..++..-+..+++.+...|-++++++..+. .......+.|.+++++.|+..
T Consensus 74 ~~~~iPvV~~~~~~~---~~~~~~---v~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~~~~~~~ 147 (263)
T cd06280 74 LRLSFPVVLIDRAGP---AGRVDA---VVLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMRRHGLAP 147 (263)
T ss_pred HhcCCCEEEECCCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHHHcCCCC
Confidence 466899998765432 223343 3346666677788888888999999987532 233456788999999888764
Q ss_pred EEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCcccceEEEEe
Q 003167 104 SYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 166 (843)
Q Consensus 104 ~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~i~~ 166 (843)
.... +... ..+....+.++... .+++|+ +.+...+..+++.+++.|+..++-+.|.+
T Consensus 148 ~~~~-~~~~----~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~~p~di~iig 206 (263)
T cd06280 148 DARF-VAPT----AEAAEAALAAWLAAPERPEALV-ASNGLLLLGALRAVRAAGLRIPQDLALAG 206 (263)
T ss_pred Chhh-cccC----HHHHHHHHHHHhcCCCCCcEEE-ECCcHHHHHHHHHHHHcCCCCCCcEEEEE
Confidence 3211 1112 22323344444333 466654 45566677899999999986555554443
No 250
>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=91.58 E-value=8.3 Score=37.17 Aligned_cols=70 Identities=16% Similarity=0.191 Sum_probs=47.1
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.++.+ .++++... ++...+..+|.+|++|+++.... .....+ -+.|+....++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~-~~~~l~~~~~~lv~~~ 80 (200)
T cd08466 13 LLLPRLLARLKQLAP-NISLRESP-------SSEEDLFEDLRLQEVDLVIDYVP---FRDPSF-KSELLFEDELVCVARK 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CCEEEEec-------CchHhHHHHHHcCCccEEEeccc---CCCCCc-eeeeecccceEEEEeC
Confidence 344677778877764 35566554 55778999999999999986321 112222 2457778888888876
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (200)
T cd08466 81 DH 82 (200)
T ss_pred CC
Confidence 65
No 251
>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=91.56 E-value=9.1 Score=36.79 Aligned_cols=70 Identities=17% Similarity=0.143 Sum_probs=45.1
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.+..+ .++++... ++.+.+...+.+|++|+++.... .....+ -+.++....++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~~---~~~~~~-~~~~l~~~~~~lv~~~ 80 (198)
T cd08461 13 AILPPLLAALRQEAP-GVRVAIRD-------LESDNLEAQLERGEVDLALTTPE---YAPDGL-RSRPLFEERYVCVTRR 80 (198)
T ss_pred HHhHHHHHHHHHHCC-CcEEEEee-------CCcccHHHHHhcCCCcEEEecCc---cCCccc-eeeeeecCcEEEEEcC
Confidence 445677888887764 24455543 33567899999999999986321 112222 2567777888888776
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (198)
T cd08461 81 GH 82 (198)
T ss_pred CC
Confidence 54
No 252
>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=91.49 E-value=14 Score=35.52 Aligned_cols=71 Identities=20% Similarity=0.287 Sum_probs=46.3
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEecc
Q 003167 403 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 482 (843)
Q Consensus 403 ~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~ 482 (843)
+-.+++..+.+..+ .++++... ++..++..++.+|++|+++.... ...+...+. ..|+....+++++++.
T Consensus 14 ~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~-~~~~~~~~~-~~~l~~~~~~~~~~~~ 83 (201)
T cd08435 14 LLPPAIARLLARHP-RLTVRVVE-------GTSDELLEGLRAGELDLAIGRLA-DDEQPPDLA-SEELADEPLVVVARPG 83 (201)
T ss_pred HHHHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHcCCccEEEEecC-cccCCCCcE-EEEcccCcEEEEEeCC
Confidence 34677777777765 35565553 45788999999999999986321 111122232 4577778888888765
Q ss_pred C
Q 003167 483 K 483 (843)
Q Consensus 483 ~ 483 (843)
.
T Consensus 84 ~ 84 (201)
T cd08435 84 H 84 (201)
T ss_pred C
Confidence 5
No 253
>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=91.46 E-value=4.5 Score=39.38 Aligned_cols=70 Identities=13% Similarity=0.164 Sum_probs=46.3
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
++-.+++..+.++.+ .++++... ++..+++++|.+|++|++++..... ...++. .+.....+++++++
T Consensus 13 ~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~L~~g~~Dl~i~~~~~~---~~~~~~-~~l~~~~~~lv~~~ 80 (200)
T cd08465 13 LVLPALMRQLRAEAP-GIDLAVSQ-------ASREAMLAQVADGEIDLALGVFPEL---PEELHA-ETLFEERFVCLADR 80 (200)
T ss_pred HhhhHHHHHHHHHCC-CcEEEEec-------CChHhHHHHHHCCCccEEEeccccC---CcCeeE-EEeeeccEEEEEeC
Confidence 455677778877654 35565554 5688999999999999998633221 122332 45667778888776
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~h 82 (200)
T cd08465 81 AT 82 (200)
T ss_pred CC
Confidence 54
No 254
>PRK12682 transcriptional regulator CysB-like protein; Reviewed
Probab=91.19 E-value=11 Score=39.91 Aligned_cols=192 Identities=13% Similarity=0.077 Sum_probs=111.6
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
..|+||+.. .+ ...+-.+++..+.+..+ .++++... ++-+.++..|.+|++|++++..
T Consensus 93 g~l~Ig~~~--~~------------~~~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~ 150 (309)
T PRK12682 93 GTLTIATTH--TQ------------ARYVLPRVVAAFRKRYP-KVNLSLHQ-------GSPDEIARMVISGEADIGIATE 150 (309)
T ss_pred CeEEEeeCc--hH------------HHHHHHHHHHHHHHhCC-CeEEEEec-------CCHHHHHHHHHcCCccEEEecC
Confidence 468888874 11 12344677778877764 24455543 4567899999999999998632
Q ss_pred eeecCcceeeeecccccccceEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccch
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIV 534 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~ 534 (843)
.. .....++ +.|+.....+++++...+..
T Consensus 151 ~~--~~~~~l~-~~~l~~~~~~~~~~~~~pl~------------------------------------------------ 179 (309)
T PRK12682 151 SL--ADDPDLA-TLPCYDWQHAVIVPPDHPLA------------------------------------------------ 179 (309)
T ss_pred cc--cCCCcce-EEEeeeeeEEEEecCCCccc------------------------------------------------
Confidence 21 1112233 45777888888887665210
Q ss_pred hhHHHHHHHHhhcccccccccchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCe-EEEEeCchH
Q 003167 535 TVLWFSFSTMFFAHRENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDR-VGYQVGSFA 613 (843)
Q Consensus 535 ~~~~~~~~~l~~~~~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~-i~~~~~~~~ 613 (843)
....-+++||. +.+ +.+..+...
T Consensus 180 ------------------------------------------------------~~~~~~~~~L~--~~~~i~~~~~~~~ 203 (309)
T PRK12682 180 ------------------------------------------------------QEERITLEDLA--EYPLITYHPGFTG 203 (309)
T ss_pred ------------------------------------------------------cCCCcCHHHHh--cCCceeeCCCccH
Confidence 01234678886 333 444443322
Q ss_pred ----HHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEe--CCccccCcceeeecCCCC
Q 003167 614 ----ENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVR--GQEFTKSGWGFAFPRDSP 687 (843)
Q Consensus 614 ----~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~k~sp 687 (843)
..++ ...+........+++....++.+..|...+++... .... . +..++..+ .+......++++.+++.+
T Consensus 204 ~~~~~~~~-~~~g~~~~~~~~~~~~~~~~~~v~~g~Gi~~lp~~-~~~~-~-~~~~l~~~~~~~~~~~~~~~l~~~~~~~ 279 (309)
T PRK12682 204 RSRIDRAF-AAAGLQPDIVLEAIDSDVIKTYVRLGLGVGIVAEM-AYRP-D-RDGDLVALPAGHLFGPNTAWVALKRGAY 279 (309)
T ss_pred HHHHHHHH-HHcCCCCcEEEEeCCHHHHHHHHHhCCceEEehhh-hhhh-c-cCCcEEEeeCCCCCcceeEEEeeecCCc
Confidence 2333 23455444456678899999999998776777543 2333 2 23344443 233334467888888876
Q ss_pred chHHHHHHHHhh
Q 003167 688 LAIDMSTAILTL 699 (843)
Q Consensus 688 l~~~in~~i~~l 699 (843)
....+...+..+
T Consensus 280 ~~~~~~~f~~~l 291 (309)
T PRK12682 280 LRNYVYKFIELC 291 (309)
T ss_pred CCHHHHHHHHHH
Confidence 555554444433
No 255
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=91.16 E-value=2.7 Score=45.26 Aligned_cols=153 Identities=7% Similarity=-0.012 Sum_probs=87.7
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 82 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~ 82 (843)
.+|.+||=..... .......+...++|+|....... + .... .+.+++..-+..+++.|...|-++++++....
T Consensus 118 ~~vdgiI~~~~~~-~~~~~~~l~~~~iPvV~~~~~~~---~-~~~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~ 190 (331)
T PRK14987 118 WNIDGLILTERTH-TPRTLKMIEVAGIPVVELMDSQS---P-CLDI--AVGFDNFEAARQMTTAIIARGHRHIAYLGARL 190 (331)
T ss_pred cCCCEEEEcCCCC-CHHHHHHHHhCCCCEEEEecCCC---C-CCCc--eEEeCcHHHHHHHHHHHHHCCCceEEEEcCCC
Confidence 4566666211111 12233445678999997532110 1 1112 25566666677788888888999999996432
Q ss_pred -CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHHHHcCCccc
Q 003167 83 -DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDS 159 (843)
Q Consensus 83 -~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a~~~g~~~~ 159 (843)
.......+.|.+++++.|+.... ..+... .....-...++++.+. ++++|++ ++...+..+++.+++.|+..+
T Consensus 191 ~~~~~~R~~Gf~~al~~~g~~~~~-~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~nD~~A~g~~~al~~~g~~vP 266 (331)
T PRK14987 191 DERTIIKQKGYEQAMLDAGLVPYS-VMVEQS--SSYSSGIELIRQARREYPQLDGVFC-TNDDLAVGAAFECQRLGLKVP 266 (331)
T ss_pred cccHHHHHHHHHHHHHHcCCCccc-eeecCC--CChhhHHHHHHHHHhcCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCC
Confidence 22334578899999999863211 111111 1112222345555443 4676654 555677778999999998776
Q ss_pred ceEEEEe
Q 003167 160 GYVWIAT 166 (843)
Q Consensus 160 ~~~~i~~ 166 (843)
+-+-|.+
T Consensus 267 ~disvig 273 (331)
T PRK14987 267 DDMAIAG 273 (331)
T ss_pred CccEEEe
Confidence 6555543
No 256
>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=91.15 E-value=9.7 Score=36.57 Aligned_cols=70 Identities=10% Similarity=0.086 Sum_probs=46.3
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+...++..+.++.+ .+.++... ....++...|.+|++|+++.... .....+ ...++....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 81 (197)
T cd08425 14 YLIGPLIDRFHARYP-GIALSLRE-------MPQERIEAALADDRLDLGIAFAP---VRSPDI-DAQPLFDERLALVVGA 81 (197)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEEE-------CcHHHHHHHHHcCCccEEEEecC---CCCCCc-EEEEeccccEEEEecC
Confidence 344678888887765 35566654 44678999999999999986322 122222 2456777788888776
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 82 ~~ 83 (197)
T cd08425 82 TH 83 (197)
T ss_pred CC
Confidence 55
No 257
>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=90.88 E-value=9.8 Score=40.12 Aligned_cols=86 Identities=16% Similarity=0.255 Sum_probs=54.8
Q ss_pred CCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEec
Q 003167 374 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 453 (843)
Q Consensus 374 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~ 453 (843)
.+.|+||++. .. ...+-.+++..+.++.+ .+.+.... ++...++.++.+|++|++++.
T Consensus 92 ~~~l~I~~~~--~~------------~~~~~~~~l~~~~~~~P-~~~i~~~~-------~~~~~~~~~l~~g~~D~~i~~ 149 (300)
T TIGR02424 92 GPTVRIGALP--TV------------AARLMPEVVKRFLARAP-RLRVRIMT-------GPNAYLLDQLRVGALDLVVGR 149 (300)
T ss_pred CceEEEeccc--HH------------HHhhhHHHHHHHHHhCC-CcEEEEEe-------CchHHHHHHHHCCCCCEEEEe
Confidence 4579998874 11 11334677777777765 35566654 457889999999999999863
Q ss_pred eeeecCcceeeeecccccccceEEEEeccC
Q 003167 454 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 483 (843)
Q Consensus 454 ~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~ 483 (843)
.... .....+ -..|......++++++..
T Consensus 150 ~~~~-~~~~~~-~~~~l~~~~~~~~~~~~h 177 (300)
T TIGR02424 150 LGAP-ETMQGL-SFEHLYNEPVVFVVRAGH 177 (300)
T ss_pred cCCc-ccccce-eeeeecCCceEEEEcCCC
Confidence 3221 111222 245777788888887654
No 258
>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=90.84 E-value=14 Score=35.59 Aligned_cols=71 Identities=17% Similarity=0.188 Sum_probs=47.4
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
++..+++..+.+..+ .+.++... ++.+.+++.+.+|++|+++..-.. .....+ .+.|+....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~--~~~~~~-~~~~l~~~~~~~~~~~ 81 (198)
T cd08444 13 YALPWVVQAFKEQFP-NVHLVLHQ-------GSPEEIASMLANGQADIGIATEAL--ENHPEL-VSFPYYDWHHHIIVPV 81 (198)
T ss_pred hhhhHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHCCCccEEEecccc--CCCcCc-EEeeccccceeEEecC
Confidence 556788888888764 24555554 557789999999999999863211 111222 2467777788888876
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 82 ~h 83 (198)
T cd08444 82 GH 83 (198)
T ss_pred CC
Confidence 55
No 259
>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=90.28 E-value=3.5 Score=42.56 Aligned_cols=145 Identities=12% Similarity=0.044 Sum_probs=79.1
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccC-CCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc-CCcEEEEEEe
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-GWGEVIAIFN 80 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~-~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~-~w~~v~ii~~ 80 (843)
.+|++||=...+ ....+...+++. ++|++......+. ....+ .+..++..-+..++.++... |-++++++..
T Consensus 55 ~~vdgiii~~~~-~~~~~~~~~~~~~~ipvv~~~~~~~~--~~~~~---~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~ 128 (260)
T cd06304 55 QGYDLIFGVGFG-FMDAVEKVAKEYPDVKFAIIDGVVDA--PPNVA---SYVFREYEGSYLAGVLAALMTKTGKVGFVGG 128 (260)
T ss_pred cCCCEEEECCcc-hhHHHHHHHHHCCCCEEEEecCccCC--CCCee---eeecchHHHHHHHHHHHHHhccCCceEEEec
Confidence 356666532222 223444555544 7898876543211 01112 23334433344445556555 8999999975
Q ss_pred cC-CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcC
Q 003167 81 DD-DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 81 d~-~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g 155 (843)
+. .......+.|.+.+++.|..+......... ..+..+-...++++.+.++++| ++.+...+..+++++++.|
T Consensus 129 ~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 129 MPIPEVNRFINGFAAGAKSVNPDITVLVIYTGS-FFDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred cccHHHHHHHHHHHHHHHHhCCCcEEEEEEecC-ccCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 32 223445778999999988653322121111 0111233445666655667876 5566667777889998877
No 260
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=90.25 E-value=8.3 Score=41.57 Aligned_cols=146 Identities=13% Similarity=0.050 Sum_probs=76.5
Q ss_pred CCCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHH-c--CCcEEEE
Q 003167 2 ETDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-F--GWGEVIA 77 (843)
Q Consensus 2 ~~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~-~--~w~~v~i 77 (843)
+++|.||+ -|..+.....+..-+...+||+|.+.+..+. +.. -++.- ..++...+..+++++.+ . +-.++++
T Consensus 78 ~~~vdgIiv~~~d~~al~~~l~~a~~~gIpVV~~d~~~~~--~~~-~~~V~-~~~~~~~G~~~~~~l~~~l~~g~gki~i 153 (336)
T PRK15408 78 NQGYNAIIVSAVSPDGLCPALKRAMQRGVKVLTWDSDTKP--ECR-SYYIN-QGTPEQLGSMLVEMAAKQVGKDKAKVAF 153 (336)
T ss_pred HcCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEeCCCCCC--ccc-eEEEe-cCCHHHHHHHHHHHHHHhcCCCCCEEEE
Confidence 34666655 3555444455566677889999997654321 111 11221 12334556666666654 3 4568998
Q ss_pred EEecCC--CCcchHHHHHHHHHhc--CcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCe--EEEEEcChhhHHHHHHHH
Q 003167 78 IFNDDD--QGRNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEAR--VIVVHGYSRTGLMVFDVA 151 (843)
Q Consensus 78 i~~d~~--~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~--viv~~~~~~~~~~i~~~a 151 (843)
+..... ......+.+.+.+++. +++++... . .. .+...-...++++.++.|| +|+.. +...+...++++
T Consensus 154 l~g~~~~~~~~~r~~g~~~~l~~~~p~~~vv~~~-~-~~--~d~~~a~~~~~~lL~~~pdi~aI~~~-~~~~~~Ga~~Al 228 (336)
T PRK15408 154 FYSSPTVTDQNQWVKEAKAKIAKEHPGWEIVTTQ-F-GY--NDATKSLQTAEGILKAYPDLDAIIAP-DANALPAAAQAA 228 (336)
T ss_pred EECCCCCccHHHHHHHHHHHHHhhCCCCEEEeec-C-CC--CcHHHHHHHHHHHHHHCCCCcEEEEC-CCccHHHHHHHH
Confidence 875322 2233456677777543 56665332 1 11 1222333455565555554 55443 333333577777
Q ss_pred HHcCC
Q 003167 152 QRLGM 156 (843)
Q Consensus 152 ~~~g~ 156 (843)
++.|.
T Consensus 229 ~~~g~ 233 (336)
T PRK15408 229 ENLKR 233 (336)
T ss_pred HhCCC
Confidence 78775
No 261
>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=90.17 E-value=16 Score=34.87 Aligned_cols=72 Identities=14% Similarity=0.084 Sum_probs=46.4
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+...++..+.++.+ .++++... +...+++..+.+|++|++++...... +...+. ..++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~~-~~~~~~-~~~l~~~~~~~v~~~ 82 (197)
T cd08449 13 GGLGPALRRFKRQYP-NVTVRFHE-------LSPEAQKAALLSKRIDLGFVRFADTL-NDPPLA-SELLWREPMVVALPE 82 (197)
T ss_pred hhHHHHHHHHHHHCC-CeEEEEEE-------CCHHHHHHHHhCCCccEEEecccccC-CCCCce-EEEEEEeeEEEEecC
Confidence 455778888888764 35565554 45788999999999999986332210 112222 356677777777765
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 83 ~~ 84 (197)
T cd08449 83 EH 84 (197)
T ss_pred CC
Confidence 54
No 262
>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=90.16 E-value=15 Score=35.26 Aligned_cols=69 Identities=12% Similarity=0.159 Sum_probs=44.2
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEecc
Q 003167 403 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 482 (843)
Q Consensus 403 ~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~ 482 (843)
+-..++..+.+..+- +.++... ++...+..+|.+|++|+++..... ....+. ..++....++++++..
T Consensus 14 ~~~~~l~~~~~~~P~-i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~~ 81 (198)
T cd08441 14 WLMPVLDQFRERWPD-VELDLSS-------GFHFDPLPALLRGELDLVITSDPL---PLPGIA-YEPLFDYEVVLVVAPD 81 (198)
T ss_pred hhHHHHHHHHHhCCC-eEEEEEe-------CCchhHHHHHHcCCceEEEecCCc---CCCCcE-EEEccCCcEEEEEcCC
Confidence 446777888877652 4455543 456789999999999999863221 112222 3466677777777655
Q ss_pred C
Q 003167 483 K 483 (843)
Q Consensus 483 ~ 483 (843)
.
T Consensus 82 ~ 82 (198)
T cd08441 82 H 82 (198)
T ss_pred C
Confidence 4
No 263
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=90.13 E-value=4.3 Score=43.04 Aligned_cols=112 Identities=11% Similarity=0.063 Sum_probs=71.1
Q ss_pred cCCChHHhHHHHHHHHHHcCCcEEEEEEecCC--CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc
Q 003167 52 TAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM 129 (843)
Q Consensus 52 ~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~~--~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~ 129 (843)
+..++...+..+++.+...|-++++++..... ......+.|++.+++.|+++.....+..+ .........+.++.+
T Consensus 132 V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~ 209 (309)
T PRK11041 132 VHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYVQALRRCGITVDPQYIARGD--FTFEAGAKALKQLLD 209 (309)
T ss_pred EEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHHHHHHHcCCCCCHHHeEeCC--CCHHHHHHHHHHHHc
Confidence 44566666777788887789999999975433 34456889999999988765321111111 112333445566654
Q ss_pred C--CCeEEEEEcChhhHHHHHHHHHHcCCcccceEEEEe
Q 003167 130 M--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 166 (843)
Q Consensus 130 ~--~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~i~~ 166 (843)
. .+++|++ ++...+..+++.+++.|+..++-+.|++
T Consensus 210 ~~~~~~ai~~-~~d~~a~gv~~al~~~g~~ip~di~vvg 247 (309)
T PRK11041 210 LPQPPTAVFC-HSDVMALGALSQAKRMGLRVPQDLSIIG 247 (309)
T ss_pred CCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEEE
Confidence 3 4677765 4555666788889998876554455554
No 264
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=90.08 E-value=13 Score=39.91 Aligned_cols=151 Identities=9% Similarity=0.032 Sum_probs=79.0
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHc-----------
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF----------- 70 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~----------- 70 (843)
.+|.+|| -|..+.........+...++|+|.+....+.-.-...+-...+..++..-+..+++++..+
T Consensus 80 ~~vdgiIi~~~~~~~~~~~l~~l~~~giPvV~vd~~~~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~ 159 (330)
T PRK15395 80 KGVKALAINLVDPAAAPTVIEKARGQDVPVVFFNKEPSRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNK 159 (330)
T ss_pred cCCCEEEEeccCHHHHHHHHHHHHHCCCcEEEEcCCccccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCC
Confidence 3566665 2323332333345567789999998663211000111212235556665666555554332
Q ss_pred -CCcEEEEEEec--CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC----CCeEEEEEcChhh
Q 003167 71 -GWGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM----EARVIVVHGYSRT 143 (843)
Q Consensus 71 -~w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~----~~~viv~~~~~~~ 143 (843)
|-.++++|... ........+.+.+++++.|+.+.... ...+ ..+..+-...+.++.+. ++++|+ +++...
T Consensus 160 ~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g~~~~~~~-~~~~-~~~~~~a~~~~~~~l~~~~~~~~~ai~-~~~d~~ 236 (330)
T PRK15395 160 DGKIQYVLLKGEPGHPDAEARTTYVIKELNDKGIKTEQLQ-LDTA-MWDTAQAKDKMDAWLSGPNANKIEVVI-ANNDAM 236 (330)
T ss_pred CCceEEEEEecCCCCchHHHHHHHHHHHHHhcCCCeeeee-cccC-CcCHHHHHHHHHHHHhhCcCCCeeEEE-ECCchH
Confidence 33344545432 22344567889999999987654321 2111 01122333445555432 356555 445566
Q ss_pred HHHHHHHHHHcCC
Q 003167 144 GLMVFDVAQRLGM 156 (843)
Q Consensus 144 ~~~i~~~a~~~g~ 156 (843)
+..+++.+++.|+
T Consensus 237 A~gvl~al~~~Gl 249 (330)
T PRK15395 237 AMGAVEALKAHNK 249 (330)
T ss_pred HHHHHHHHHhcCC
Confidence 7778999999887
No 265
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=90.06 E-value=4.4 Score=43.50 Aligned_cols=135 Identities=9% Similarity=0.000 Sum_probs=79.5
Q ss_pred HHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecC--CCCcchHHHHHHHHHh
Q 003167 21 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLAE 98 (843)
Q Consensus 21 ~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~--~~g~~~~~~l~~~l~~ 98 (843)
...+...++|+|......+ ...++ .+..++..-+..+++.+...|.++++++..+. .........|.++++.
T Consensus 129 ~~~l~~~~~pvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~~~~~~~~~~~R~~gf~~~~~~ 202 (327)
T PRK10339 129 RAAASALTDNICFIDFHEP---GSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIGGEDEPGKADIREVAFAEYGRL 202 (327)
T ss_pred HHHHHhcCCCEEEEeCCCC---CCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeCCccccchhhHHHHHHHHHHHH
Confidence 3455677899987643221 12233 25556666667788888888999999996433 2344557788888888
Q ss_pred cCcEEEEeeecCCCCCCChhHHHHHHHHHhc--CCCeEEEEEcChhhHHHHHHHHHHcCCcccceEEEE
Q 003167 99 IRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 165 (843)
Q Consensus 99 ~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~--~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~i~ 165 (843)
.|+. .....+... ....+....++++.+ ..+++|++ ++...+..+++.+++.|...++-+-|+
T Consensus 203 ~g~~-~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~D~~A~g~~~al~~~g~~vP~di~vi 267 (327)
T PRK10339 203 KQVV-REEDIWRGG--FSSSSGYELAKQMLAREDYPKALFV-ASDSIAIGVLRAIHERGLNIPQDISLI 267 (327)
T ss_pred cCCC-ChhheeecC--cChhHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 8761 110111111 112222334455443 24666554 455667789999999998655544444
No 266
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=90.01 E-value=10 Score=36.63 Aligned_cols=134 Identities=10% Similarity=-0.026 Sum_probs=88.8
Q ss_pred HHHHHHHhcccCCCcEEecccCCCCCCC-CCCCc--eEEc----CCChHHhHHHHHHHHHHcCCcEEEEEEecCCCCcch
Q 003167 16 MAHVLSHLANELQVPLLSFTALDPTLSP-LQYPF--FVQT----APNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNG 88 (843)
Q Consensus 16 ~~~av~~~~~~~~vP~Is~~at~~~ls~-~~~p~--~fR~----~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~~~g~~~ 88 (843)
-+...+..+...++=+|.|++++.++.. .+|.- --|+ ......-+.|.++-|+.++.+++.++. +|-...
T Consensus 55 ~t~~aAl~Lada~vdvI~Y~CtsgS~i~G~~~d~ei~~~ie~~~~v~vvTts~Avv~aL~al~a~ri~vlT---PY~~ev 131 (238)
T COG3473 55 YTERAALELADAGVDVIVYGCTSGSLIGGPGYDKEIAQRIEEAKGVPVVTTSTAVVEALNALGAQRISVLT---PYIDEV 131 (238)
T ss_pred HHHHHHHhcCccccCEEEEeccceeeecCCchhHHHHHHHHhccCCceeechHHHHHHHHhhCcceEEEec---cchhhh
Confidence 3455677888899999999999988774 33310 0000 000011235677788999999999997 577778
Q ss_pred HHHHHHHHHhcCcEEEEeeecCCCC--C---CChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 89 VTALGDKLAEIRCKISYKSALPPDQ--S---VTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 89 ~~~l~~~l~~~g~~v~~~~~~~~~~--~---~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
-+.-.+.++++|.+|+......... . ......-.+.+++...++|.|++.|..-.+..++....
T Consensus 132 n~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~DaiFiSCTnlRt~eii~~lE 200 (238)
T COG3473 132 NQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADAIFISCTNLRTFEIIEKLE 200 (238)
T ss_pred hhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCeEEEEeeccccHHHHHHHH
Confidence 8888999999999999776544320 0 01223344556677789999999887665555655543
No 267
>PRK12680 transcriptional regulator CysB-like protein; Reviewed
Probab=89.93 E-value=16 Score=39.30 Aligned_cols=84 Identities=17% Similarity=0.079 Sum_probs=55.8
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
+.||||+... . ...+-.+++..+.+..+ .+.+.... +..++++.+|.+|++|+++...
T Consensus 93 g~lrIg~~~~--~------------~~~~l~~~l~~f~~~~P-~v~i~l~~-------~~~~~~~~~l~~g~~Dl~i~~~ 150 (327)
T PRK12680 93 GQLTLTTTHT--Q------------ARFVLPPAVAQIKQAYP-QVSVHLQQ-------AAESAALDLLGQGDADIAIVST 150 (327)
T ss_pred eEEEEEecch--h------------HHHhhHHHHHHHHHHCC-CcEEEEEe-------CChHHHHHHHHCCCCcEEEEec
Confidence 5789999751 1 12345678888888776 34566554 5578999999999999998632
Q ss_pred eeecCcceeeeecccccccceEEEEeccC
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 483 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~~ 483 (843)
... ...... ..|+....++++++...
T Consensus 151 ~~~--~~~~~~-~~~l~~~~~~l~~~~~h 176 (327)
T PRK12680 151 AGG--EPSAGI-AVPLYRWRRLVVVPRGH 176 (327)
T ss_pred CCC--CCCcce-EEEeeccceEEEEeCCC
Confidence 111 111222 46778888888887655
No 268
>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=89.88 E-value=18 Score=34.44 Aligned_cols=72 Identities=22% Similarity=0.317 Sum_probs=46.3
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.+..+ .++++... ++.+.+++.+.+|++|+++...... .....+ .+.+.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~~-~~~~l~~~~~~~v~~~ 82 (195)
T cd08427 13 GLLPRALARLRRRHP-DLEVHIVP-------GLSAELLARVDAGELDAAIVVEPPF-PLPKDL-VWTPLVREPLVLIAPA 82 (195)
T ss_pred HHhHHHHHHHHHHCC-CceEEEEe-------CCcHHHHHHHHCCCCCEEEEcCCCC-ccccCc-eEEEcccCcEEEEECC
Confidence 445677888877764 24555554 5578999999999999998632111 101222 2456677788888776
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 83 ~~ 84 (195)
T cd08427 83 EL 84 (195)
T ss_pred CC
Confidence 54
No 269
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=89.87 E-value=5.4 Score=38.23 Aligned_cols=99 Identities=9% Similarity=-0.016 Sum_probs=66.4
Q ss_pred hHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhc--CcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEE
Q 003167 59 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 136 (843)
Q Consensus 59 ~~~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv 136 (843)
....+.+.+...++ +++++..+.+ ..+.+.+.+++. |+.|+....-+. +..+...+++.|++++||+|+
T Consensus 36 l~~~l~~~~~~~~~-~ifllG~~~~----~~~~~~~~l~~~yP~l~ivg~~~g~f----~~~~~~~i~~~I~~~~pdiv~ 106 (172)
T PF03808_consen 36 LFPDLLRRAEQRGK-RIFLLGGSEE----VLEKAAANLRRRYPGLRIVGYHHGYF----DEEEEEAIINRINASGPDIVF 106 (172)
T ss_pred HHHHHHHHHHHcCC-eEEEEeCCHH----HHHHHHHHHHHHCCCeEEEEecCCCC----ChhhHHHHHHHHHHcCCCEEE
Confidence 34555555555554 7888876543 566677777776 777775443222 367788999999999999999
Q ss_pred EEcChhhHHHHHHHHHHcCCcccceEEEEeCcc
Q 003167 137 VHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWL 169 (843)
Q Consensus 137 ~~~~~~~~~~i~~~a~~~g~~~~~~~~i~~~~~ 169 (843)
+.+..+.-..++...++.. ... +|+..++.
T Consensus 107 vglG~PkQE~~~~~~~~~l--~~~-v~i~vG~~ 136 (172)
T PF03808_consen 107 VGLGAPKQERWIARHRQRL--PAG-VIIGVGGA 136 (172)
T ss_pred EECCCCHHHHHHHHHHHHC--CCC-EEEEECch
Confidence 9988776666776665532 223 77776543
No 270
>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=89.79 E-value=17 Score=34.88 Aligned_cols=70 Identities=13% Similarity=0.062 Sum_probs=44.6
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
++-..++..+.++.+ .++++... ++...++..|.+|++|+++..... . ...+ -..+.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~-~~~~-~~~~l~~~~~~~v~~~ 80 (200)
T cd08464 13 WLAPPLLAALRAEAP-GVRLVFRQ-------VDPFNVGDMLDRGEIDLAIGVFGE--L-PAWL-KREVLYTEGYACLFDP 80 (200)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CCcccHHHHHhcCcccEEEecCCC--C-cccc-eeeeecccceEEEEeC
Confidence 445677777877764 35565553 446678899999999999863211 1 1222 2456777777777765
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (200)
T cd08464 81 QQ 82 (200)
T ss_pred CC
Confidence 44
No 271
>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=89.65 E-value=0.33 Score=51.16 Aligned_cols=88 Identities=16% Similarity=0.210 Sum_probs=58.0
Q ss_pred CCCCChHHhhhCCCeEEEEeCchHHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHH-HhcCCCeEE
Q 003167 590 SPIKGIDTLMTSNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLF-LSDHCQFSV 668 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~-~~~~~~l~~ 668 (843)
.+|++++||. |.++.+..+.....++ +.+|.. -+.. ...|...+|++|.+|+........... +.+.+++..
T Consensus 126 ~pi~s~~Dlk--G~kiR~~~~~~~~~~~-~~lGa~---pv~i-p~~evy~aLq~G~vDg~~~~~~~~~~~~~~ev~~y~~ 198 (286)
T PF03480_consen 126 KPIRSPEDLK--GLKIRVPGSPVMSDFF-EALGAS---PVPI-PWSEVYQALQQGVVDGAENSASSIYSLGLYEVAKYFT 198 (286)
T ss_dssp S--SSGGGGT--TEEEEETSSHHHHHHH-HHCTSE---EEE--TGGGHHHHHHTTSSSEEEEEHHHHHHTTGGGTSSEEE
T ss_pred cCCccHhhHh--hCeEEecCCHHHHHHH-HHcCCe---eecC-cHHHHHHHHhcCCcCeEecCHHHHHhcChhhhCCeeE
Confidence 6899999995 8889887666666666 566543 3333 456899999999999999876655332 223456555
Q ss_pred eCCccccCcceeeecCC
Q 003167 669 RGQEFTKSGWGFAFPRD 685 (843)
Q Consensus 669 ~~~~~~~~~~~~~~~k~ 685 (843)
... +...++.+++.+.
T Consensus 199 ~~~-~~~~~~~~~~n~~ 214 (286)
T PF03480_consen 199 DTN-HGWSPYAVIMNKD 214 (286)
T ss_dssp EEE-EEEEEEEEEEEHH
T ss_pred eec-ccCcceEEEEcHH
Confidence 444 4455667777665
No 272
>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=89.52 E-value=14 Score=35.78 Aligned_cols=70 Identities=13% Similarity=0.171 Sum_probs=46.1
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.++.+ .++++... +....++..|.+|++|+++..... . ...+. ..+.....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~~~--~-~~~~~-~~~l~~~~~~~v~~~ 80 (200)
T cd08467 13 ALLPRLAPRLRERAP-GLDLRLCP-------IGDDLAERGLEQGTIDLAVGRFAV--P-PDGLV-VRRLYDDGFACLVRH 80 (200)
T ss_pred HHHHHHHHHHHhhCC-CCEEEEec-------CCcccHHHHhhCCCcCEEEecCCC--C-Cccce-eEEeeeccEEEEEcC
Confidence 445677888877765 35566654 446689999999999999863211 1 12233 356777888888866
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~h 82 (200)
T cd08467 81 GH 82 (200)
T ss_pred CC
Confidence 54
No 273
>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=89.50 E-value=16 Score=35.35 Aligned_cols=70 Identities=10% Similarity=0.100 Sum_probs=46.4
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.++.+ .++++... ++.+.++..|.+|++|+++.... . ....++ +.++....++++++.
T Consensus 14 ~~l~~~l~~f~~~~P-~v~i~i~~-------~~~~~l~~~l~~g~~D~~~~~~~--~-~~~~~~-~~~l~~~~~~lv~~~ 81 (198)
T cd08486 14 RSLPLLLRAFLTSTP-TATVSLTH-------MTKDEQVEGLLAGTIHVGFSRFF--P-RHPGIE-IVNIAQEDLYLAVHR 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEEE-------CCHHHHHHHHHcCCceEEEecCC--C-CCCceE-EEEEeeccEEEEecC
Confidence 445677788877764 35566554 56889999999999999986321 1 112222 455666788888875
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 82 ~h 83 (198)
T cd08486 82 SQ 83 (198)
T ss_pred CC
Confidence 54
No 274
>cd08423 PBP2_LTTR_like_6 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse functi
Probab=89.44 E-value=15 Score=35.13 Aligned_cols=73 Identities=16% Similarity=0.153 Sum_probs=46.8
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeee--cCcceeeeecccccccceEEEE
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIV--TNRTKAVDFTQPYIESGLVVVA 479 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~--~~r~~~vdfs~p~~~~~~~~~v 479 (843)
.+..+++..+.+..+ .+++.... ++...+..++.+|++|+++...... ......+ .+.+.....+++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~ 83 (200)
T cd08423 13 ALLPPALAALRARHP-GLEVRLRE-------AEPPESLDALRAGELDLAVVFDYPVTPPPDDPGL-TRVPLLDDPLDLVL 83 (200)
T ss_pred HhhhHHHHHHHHhCC-CCeEEEEe-------CCHHHHHHHHhcCCccEEEEeccccccCCCCCCc-EEEEeccCcEEEEe
Confidence 345677788888764 35565554 4467899999999999998632110 0112222 35667778888887
Q ss_pred eccC
Q 003167 480 PVRK 483 (843)
Q Consensus 480 ~~~~ 483 (843)
+...
T Consensus 84 ~~~~ 87 (200)
T cd08423 84 PADH 87 (200)
T ss_pred cCCC
Confidence 7654
No 275
>PRK11482 putative DNA-binding transcriptional regulator; Provisional
Probab=89.40 E-value=15 Score=39.24 Aligned_cols=82 Identities=15% Similarity=0.144 Sum_probs=53.6
Q ss_pred CCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEec
Q 003167 374 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 453 (843)
Q Consensus 374 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~ 453 (843)
.++++||+.. ... ..+-..++..+.+..+ +++++.. ..++++..|.+|++|++++.
T Consensus 116 ~~~l~Ig~~~--~~~------------~~~l~~~l~~f~~~~P-~i~i~~~---------~~~~~~~~l~~g~~Dl~i~~ 171 (317)
T PRK11482 116 QRTITIATTP--SVG------------ALVMPVIYQAIKTHYP-QLLLRNI---------PISDAENQLSQFQTDLIIDT 171 (317)
T ss_pred CceEEEEecH--HHH------------HHHHHHHHHHHHHHCC-CCEEEEe---------cchhHHHHHHCCCcCEEEec
Confidence 3579999874 111 1345677777777765 3444432 25688999999999999864
Q ss_pred eeeecCcceeeeecccccccceEEEEeccC
Q 003167 454 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 483 (843)
Q Consensus 454 ~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~ 483 (843)
... ....+. +.|+....++++++...
T Consensus 172 ~~~---~~~~~~-~~~l~~~~~~lv~~~~h 197 (317)
T PRK11482 172 HSC---SNRTIQ-HHVLFTDNVVLVCRQGH 197 (317)
T ss_pred cCC---CCCceE-EEEEecCcEEEEEeCCC
Confidence 332 223343 35777888888887665
No 276
>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=89.25 E-value=23 Score=34.58 Aligned_cols=71 Identities=11% Similarity=0.145 Sum_probs=44.7
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.+..+ .++++... ++...++..|.+|++|+++........-...+ ...|+....++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~l~i~~-------~~~~~~~~~L~~~~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~ 83 (204)
T cd08429 13 SIAYRLLEPAMDLHE-PIRLVCRE-------GKLEQLLADLALHRLDMVLADRPMPSSLDVKG-YSHRLGECGVSFFAAP 83 (204)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEecCCCccccchhe-eeccccccceEEEecC
Confidence 445677777777764 35566654 66899999999999999885322111100111 2447777777776554
No 277
>cd08414 PBP2_LTTR_aromatics_like The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold. This CD includes the C-terminal substrate binding domain of LTTRs involved in degradation of aromatic compounds, such as CbnR, BenM, CatM, ClcR and TfdR, as well as that of other transcriptional regulators clustered together in phylogenetic trees, including XapR, HcaR, MprR, IlvR, BudR, AlsR, LysR, and OccR. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they ca
Probab=89.22 E-value=19 Score=34.26 Aligned_cols=70 Identities=17% Similarity=0.225 Sum_probs=45.5
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+..+++..+.+..+ .+.+.... ++...+...+.+|++|+++...... ...+. ..|+....+++++++
T Consensus 13 ~~l~~~l~~~~~~~p-~i~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 80 (197)
T cd08414 13 GLLPRLLRRFRARYP-DVELELRE-------MTTAEQLEALRAGRLDVGFVRPPPD---PPGLA-SRPLLREPLVVALPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHcCCccEEEEcCCCC---CCCee-EEEEeeccEEEEecC
Confidence 344677777777764 34555543 4568899999999999998632221 22222 456777788888776
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (197)
T cd08414 81 DH 82 (197)
T ss_pred CC
Confidence 54
No 278
>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=89.03 E-value=5.5 Score=39.70 Aligned_cols=69 Identities=7% Similarity=-0.048 Sum_probs=38.9
Q ss_pred ceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEeCCc-cccCcceeeecCCCCchHHHHHHH
Q 003167 627 RLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQE-FTKSGWGFAFPRDSPLAIDMSTAI 696 (843)
Q Consensus 627 ~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~~k~spl~~~in~~i 696 (843)
++....+..+..+.+.+|++++.+......... ........+.+. .....+++++.|+++-.+.-.+.|
T Consensus 131 n~~~~~~~~~~~~~~~~Ge~~~~~~~~~~~~~~-~~~~~~~~~P~~~~~~~~~~~ai~k~a~~~~~A~~fi 200 (216)
T TIGR01256 131 KLVYGEDVRQALQFVETGNAPAGIVALSDVIPS-KKVGSVATFPEDLYKPIRYPAVIVKGGKNNAAAKAFI 200 (216)
T ss_pred heeecCcHHHHHHHHHcCCCCEEeeehhhhccc-CCccEEEEeCccccCCccccEEEEECCCChHHHHHHH
Confidence 334445667888999999999987654332211 122233333332 223456889999887544333333
No 279
>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=88.80 E-value=21 Score=37.70 Aligned_cols=152 Identities=8% Similarity=-0.004 Sum_probs=75.3
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChH-HhHHHHHHHH-HHc-CCcEEEEE
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDL-YLMSAIAEMV-SYF-GWGEVIAI 78 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~-~~~~ai~~ll-~~~-~w~~v~ii 78 (843)
+++.||| -|..+.........+.+.+||+|......+. + +....+...|. ..+...++.+ +++ +-++|+++
T Consensus 55 ~~vdgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~~~~--~---~~~~~v~~~Dn~~~g~~aa~~l~~~l~~~~~I~~i 129 (302)
T TIGR02637 55 QKVDAIAISANDPDALVPALKKAMKRGIKVVTWDSGVAP--E---GRNLFLNQASADLIGRTQVQLAAEQIGNGGEIAIL 129 (302)
T ss_pred cCCCEEEEeCCChHHHHHHHHHHHHCCCEEEEeCCCCCC--C---ceeEEEecCCHHHHHHHHHHHHHHHcCCCcEEEEE
Confidence 3555544 3444333333445567789999987543221 1 12333433333 3344445544 332 23799999
Q ss_pred EecCCC--CcchHHHHHHHHHhcC---cEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHHHH
Q 003167 79 FNDDDQ--GRNGVTALGDKLAEIR---CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVA 151 (843)
Q Consensus 79 ~~d~~~--g~~~~~~l~~~l~~~g---~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~~a 151 (843)
..+... .....+.+.+.++++| .++.... ... ....+-...++++.+. ++++|+.. ....+..+++.+
T Consensus 130 ~g~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~L~~~~~~~ai~~~-~d~~a~ga~~al 204 (302)
T TIGR02637 130 SAASTATNQNAWIEIMKKELKDPKYPKVKLVATV--YGD--DDAQKSYQEAQGLLKSYPNLKGIIAP-TTVGIKAAAQAV 204 (302)
T ss_pred ECCCCCccHHHHHHHHHHHHhhccCCCCEEEeee--cCC--chHHHHHHHHHHHHHhCCCccEEEeC-CCchHHHHHHHH
Confidence 754322 2234577777777653 3443221 111 1123333445554433 45566553 345566677888
Q ss_pred HHcCCcccceEEEEe
Q 003167 152 QRLGMMDSGYVWIAT 166 (843)
Q Consensus 152 ~~~g~~~~~~~~i~~ 166 (843)
++.|.. +.+.|.+
T Consensus 205 ~~~g~~--~~i~vvg 217 (302)
T TIGR02637 205 SDAKLI--GKVKLTG 217 (302)
T ss_pred HhcCCC--CCEEEEE
Confidence 888863 3344443
No 280
>cd08469 PBP2_PnbR The C-terminal substrate binding domain of LysR-type transcriptional regulator PnbR, which is involved in regulating the pnb genes encoding enzymes for 4-nitrobenzoate catabolism, contains the type 2 periplasmic binding fold. PnbR is the regulator of one or both of the two pnb genes that encoding enzymes for 4-nitrobenzoate catabolism. In Pseudomonas putida strain, pnbA encodes a 4-nitrobenzoate reductase, which is responsible for catalyzing the direct reduction of 4-nitrobenzoate to 4-hydroxylaminobenzoate, and pnbB encodes a 4-hydroxylaminobenzoate lyase, which catalyzes the conversion of 4-hydroxylaminobenzoate to 3, 4-dihydroxybenzoic acid and ammonium. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft bet
Probab=88.69 E-value=16 Score=35.95 Aligned_cols=69 Identities=14% Similarity=0.154 Sum_probs=45.9
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEecc
Q 003167 403 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 482 (843)
Q Consensus 403 ~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~ 482 (843)
+..+++..+.+..+ .++++... .+...+.+.+.+|++|++++... .....+. ..|.....++++++..
T Consensus 14 ~l~~~l~~f~~~~P-~v~l~i~~-------~~~~~~~~~l~~g~~Di~i~~~~---~~~~~l~-~~~l~~~~~~~v~~~~ 81 (221)
T cd08469 14 LLPALVRRLETEAP-GIDLRIRP-------VTRLDLAEQLDLGRIDLVIGIFE---QIPPRFR-RRTLFDEDEVWVMRKD 81 (221)
T ss_pred HHHHHHHHHHHHCC-CcEEEEee-------CChhhHHHHHHCCCccEEEecCC---CCCccce-eeeeeccceEEEEeCC
Confidence 44677777777664 34555554 45678999999999999987322 1122333 4577778888888765
Q ss_pred C
Q 003167 483 K 483 (843)
Q Consensus 483 ~ 483 (843)
.
T Consensus 82 ~ 82 (221)
T cd08469 82 H 82 (221)
T ss_pred C
Confidence 5
No 281
>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=88.69 E-value=22 Score=34.37 Aligned_cols=70 Identities=23% Similarity=0.288 Sum_probs=46.3
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
++..+++..+.+..+ .++++... ++..+++.++.+|++|++++..... ...+. +.|+....+++++++
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~~---~~~~~-~~~l~~~~~~~v~~~ 81 (203)
T cd08445 14 GLLPELIRRFRQAAP-DVEIELIE-------MTTVQQIEALKEGRIDVGFGRLRIE---DPAIR-RIVLREEPLVVALPA 81 (203)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEe-------CChHHHHHHHHcCCCcEEEecCCCC---CCCce-eEEEEeccEEEEeeC
Confidence 456778888887764 34555554 4578999999999999998632211 12222 446677788888776
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 82 ~h 83 (203)
T cd08445 82 GH 83 (203)
T ss_pred CC
Confidence 54
No 282
>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=88.68 E-value=7.6 Score=41.29 Aligned_cols=118 Identities=11% Similarity=-0.025 Sum_probs=74.5
Q ss_pred ccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec---CCCCcchHHHHHHHHHhcCc
Q 003167 25 NELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND---DDQGRNGVTALGDKLAEIRC 101 (843)
Q Consensus 25 ~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d---~~~g~~~~~~l~~~l~~~g~ 101 (843)
...++|++...... ..++ .+.+++..-+..+++.|...|-+++++|..+ ...+....+.|.+++++.|+
T Consensus 133 ~~~~~p~V~i~~~~-----~~~~---~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~~R~~gf~~a~~~~gi 204 (311)
T TIGR02405 133 ESWNHKAVVIARDT-----GGFS---SVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTGLMRHNAYLAYCESANL 204 (311)
T ss_pred HhcCCCEEEEecCC-----CCcc---EEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhHHHHHHHHHHHHHHcCC
Confidence 34577888765321 1122 3555666666677888888899999999732 23456678899999999998
Q ss_pred EEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 102 KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 102 ~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
.... .... .+..+....+.++.+.++++|+ +++...+..+++.+.+.|.
T Consensus 205 ~~~~---~~~~--~~~~~~~~~~~~~l~~~~tAi~-~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 205 EPIY---QTGQ--LSHESGYVLTDKVLKPETTALV-CATDTLALGAAKYLQELDR 253 (311)
T ss_pred Ccee---eeCC--CCHHHHHHHHHHHHhcCCCEEE-ECCcHHHHHHHHHHHHcCC
Confidence 6321 1111 1122223344454345678765 5566677788999999885
No 283
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=88.48 E-value=4 Score=44.82 Aligned_cols=88 Identities=10% Similarity=0.094 Sum_probs=65.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.+.++.+|.+++.+++...-...+..+.+.+.|++.|+.+.....+.++ .+.+++...+..+++.++|+||-.+.
T Consensus 20 ~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~n--p~~~~v~~~~~~~~~~~~D~IiaiGG 97 (383)
T PRK09860 20 TDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPN--PTTENVAAGLKLLKENNCDSVISLGG 97 (383)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 4467788889999999988543334567889999999999876544445445 55788889999999999999997665
Q ss_pred h--hhHHHHHHH
Q 003167 141 S--RTGLMVFDV 150 (843)
Q Consensus 141 ~--~~~~~i~~~ 150 (843)
+ -|+.+.+..
T Consensus 98 GS~iD~AK~ia~ 109 (383)
T PRK09860 98 GSPHDCAKGIAL 109 (383)
T ss_pred chHHHHHHHHHH
Confidence 3 355555543
No 284
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=88.44 E-value=3 Score=44.92 Aligned_cols=73 Identities=21% Similarity=0.204 Sum_probs=51.7
Q ss_pred CCCCChHHhhhCCCeEEEEeCch-HHHHHH---HhhCCCCcceE-eCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCC
Q 003167 590 SPIKGIDTLMTSNDRVGYQVGSF-AENYLI---EELSIPKSRLV-ALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHC 664 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~~~~~-~~~~l~---~~~~~~~~~~~-~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~ 664 (843)
.+|++++||. |++||+..++. ...++. ...|+..+... ..-.+.+...++..|.+||++...++......+..
T Consensus 126 ~~i~~~adlk--Gk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~~~~~~~~al~~g~vda~~~~ep~~~~~~~~~~ 203 (335)
T COG0715 126 SGIKSVADLK--GKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNLPPADAVAALAAGQVDAFVVWEPWNAAAEGEGG 203 (335)
T ss_pred CCcccccCCC--CceEEEeCCCchHHHHHHHHHHHcCCCcccceEEeeCcHHHHHHHhcCCcceEEecCCchhhhhccCC
Confidence 5889999994 99999998774 333332 34455554443 22345588899999999999988888877766543
No 285
>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=88.32 E-value=24 Score=33.65 Aligned_cols=70 Identities=10% Similarity=0.059 Sum_probs=46.0
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+..+++..+.+..+ .++++... +....+++++.+|++|+++..... ....+ -+.+.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~~~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~~~~~ 80 (196)
T cd08456 13 SFLPRAIKAFLQRHP-DVTISIHT-------RDSPTVEQWLSAQQCDLGLVSTLH---EPPGI-ERERLLRIDGVCVLPP 80 (196)
T ss_pred hhHHHHHHHHHHHCC-CcEEEEEe-------CCHHHHHHHHHcCCccEEEEecCC---CCCCe-eEEEeeccCeEEEecC
Confidence 455678888888874 35566654 456788999999999999863211 11222 2456667777777765
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (196)
T cd08456 81 GH 82 (196)
T ss_pred CC
Confidence 54
No 286
>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=88.28 E-value=12 Score=39.47 Aligned_cols=146 Identities=9% Similarity=-0.050 Sum_probs=81.0
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCc-EEEEEEe
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWG-EVIAIFN 80 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~-~v~ii~~ 80 (843)
.+|.+|| -|..+.........+.+.++|+|......+ . .+....+..++..-+..+++++...+-+ +++++..
T Consensus 53 ~~vDgIIi~~~~~~~~~~~l~~~~~~~iPvV~~d~~~~---~--~~~~~~V~~d~~~~g~~~~~~L~~~g~~~~i~~i~g 127 (302)
T TIGR02634 53 RGVDVLVIIPQNGQVLSNAVQEAKDEGIKVVAYDRLIN---D--ADIDFYLSFDNEKVGEMQARAVLEAAPKGNYFLMGG 127 (302)
T ss_pred cCCCEEEEeCCChhHHHHHHHHHHHCCCeEEEecCcCC---C--CCccEEEecCHHHHHHHHHHHHHhhCCCCCEEEEeC
Confidence 3455544 333333333444556778999998754321 1 1122345566677777788888666655 7888764
Q ss_pred cC--CCCcchHHHHHHHHHhc----CcEEEEeeecCCCCCCChhHHHHHHHHHhc---CCCeEEEEEcChhhHHHHHHHH
Q 003167 81 DD--DQGRNGVTALGDKLAEI----RCKISYKSALPPDQSVTETDVRNELVKVRM---MEARVIVVHGYSRTGLMVFDVA 151 (843)
Q Consensus 81 d~--~~g~~~~~~l~~~l~~~----g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~---~~~~viv~~~~~~~~~~i~~~a 151 (843)
+. .......+.+++.+++. ++.+.... +... ....+....+.++.. ..+++|++. +...+..+++.+
T Consensus 128 ~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~~-~~~~--~~~~~~~~~~~~ll~~~~~~~~aI~~~-~D~~A~g~~~al 203 (302)
T TIGR02634 128 SPTDNNAKLLRGGQMKVLQPAIDSGDIKIVGDQ-WVDG--WLPENALRIMENALTANDNKVDAVVAS-NDATAGGAIQAL 203 (302)
T ss_pred CCCCcchHHHHHHHHHHHhhhccCCCeEEecCc-CCCC--CCHHHHHHHHHHHHHhCCCCccEEEEC-CCchHHHHHHHH
Confidence 32 22334467788888764 35543211 1111 123334455655543 246766554 445566788889
Q ss_pred HHcCCc
Q 003167 152 QRLGMM 157 (843)
Q Consensus 152 ~~~g~~ 157 (843)
++.|+.
T Consensus 204 ~~~g~~ 209 (302)
T TIGR02634 204 TAQGLA 209 (302)
T ss_pred HHCCCC
Confidence 898873
No 287
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=88.22 E-value=9 Score=40.80 Aligned_cols=84 Identities=11% Similarity=0.149 Sum_probs=54.7
Q ss_pred CCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEec
Q 003167 374 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 453 (843)
Q Consensus 374 g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~ 453 (843)
++.++||+.. +. ..++-.+++..+.++.+ .+.++... ++...++.+|.+|++|+++..
T Consensus 111 ~~~i~i~~~~--~~------------~~~~l~~~l~~f~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Di~i~~ 168 (314)
T PRK09508 111 ERVFNLCICS--PL------------DIRLTSQIYNRIEQIAP-NIHVVFKS-------SLNQNIEHQLRYQETEFVISY 168 (314)
T ss_pred ccEEEEEech--hH------------HHHHHHHHHHHHHHhCC-CcEEEEEe-------CcchhHHHHHhcCCccEEEec
Confidence 4678888753 10 12456788888888864 24565554 456789999999999999874
Q ss_pred eeeecCcceeeeecccccccceEEEEeccC
Q 003167 454 IAIVTNRTKAVDFTQPYIESGLVVVAPVRK 483 (843)
Q Consensus 454 ~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~ 483 (843)
... ....+. ..++....++++++...
T Consensus 169 ~~~---~~~~l~-~~~l~~~~~~lv~~~~h 194 (314)
T PRK09508 169 EEF---DRPEFT-SVPLFKDELVLVASKNH 194 (314)
T ss_pred CCC---Cccccc-eeeeecCceEEEEcCCC
Confidence 321 112232 34667778888887655
No 288
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=88.21 E-value=18 Score=38.42 Aligned_cols=71 Identities=20% Similarity=0.354 Sum_probs=47.1
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEecc
Q 003167 403 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 482 (843)
Q Consensus 403 ~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~ 482 (843)
+-.+++..+.+..+ .+++.... ++..+++.+|.+|++|+++...... .....+ -..|+....+++++++.
T Consensus 111 ~l~~~l~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~-~~~~~l-~~~~l~~~~~~lv~~~~ 180 (312)
T PRK10341 111 FMSDMINKFKEVFP-KAQVSMYE-------AQLSSFLPAIRDGRLDFAIGTLSNE-MKLQDL-HVEPLFESEFVLVASKS 180 (312)
T ss_pred hHHHHHHHHHHhCC-CCEEEEEe-------CCHHHHHHHHHcCCCcEEEecCCcc-cccCCe-eEEEEecccEEEEEcCC
Confidence 34577778877654 35566655 5578999999999999998632211 111222 35677778888888765
Q ss_pred C
Q 003167 483 K 483 (843)
Q Consensus 483 ~ 483 (843)
.
T Consensus 181 ~ 181 (312)
T PRK10341 181 R 181 (312)
T ss_pred C
Confidence 4
No 289
>PF12727 PBP_like: PBP superfamily domain; InterPro: IPR024370 This entry represents members of the periplasmic binding domain superfamily []. It is often associated with a helix-turn-helix domain.
Probab=87.90 E-value=9.8 Score=37.20 Aligned_cols=102 Identities=15% Similarity=0.102 Sum_probs=65.2
Q ss_pred CCCCChHHhhhCCCeEEE-EeCchHHHHHHHhh---CCCCcceE----eCCCHHHHHHHHhcCCcEEEEcChhhHHHHHh
Q 003167 590 SPIKGIDTLMTSNDRVGY-QVGSFAENYLIEEL---SIPKSRLV----ALGSPEEYAIALENRTVAAVVDERPYIDLFLS 661 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~-~~~~~~~~~l~~~~---~~~~~~~~----~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~ 661 (843)
..|++++||.+.+.++.- +.||-.+.+|.+.+ ++....+. ...+..+...++..|..|+-+......+.+
T Consensus 81 ~~i~~~~dL~~~~~r~vnR~~GSGtR~l~d~~l~~~gi~~~~i~gy~~~~~th~~vA~aVa~G~AD~G~g~~~~A~~~-- 158 (193)
T PF12727_consen 81 KGITSLEDLADPGLRFVNRQPGSGTRILFDQLLAEEGIDPEDIPGYAQEANTHLAVAAAVASGKADAGIGIRAAAEEF-- 158 (193)
T ss_pred ccCCCHHHhccCCcEEEECCCCCHHHHHHHHHHHHcCCChhhCCCccccccChHHHHHHHHcCCCCEEeehHHHHHhh--
Confidence 479999999876766433 46776777665433 34443333 346788899999999999999765555321
Q ss_pred cCCCeEEeCCccccCcceeeecCCCCchHHHHHHHH
Q 003167 662 DHCQFSVRGQEFTKSGWGFAFPRDSPLAIDMSTAIL 697 (843)
Q Consensus 662 ~~~~l~~~~~~~~~~~~~~~~~k~spl~~~in~~i~ 697 (843)
..-++..+ ....|-++++|..-..+.+.+.|.
T Consensus 159 ~gL~Fvpl----~~E~~dlv~~~~~~~~~~vq~ll~ 190 (193)
T PF12727_consen 159 YGLDFVPL----AEERYDLVIRREDLEDPAVQALLD 190 (193)
T ss_pred cCCCcEEc----cccceEEEEEhhHcCCHHHHHHHH
Confidence 11233333 335778888887665555555443
No 290
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=87.88 E-value=13 Score=38.50 Aligned_cols=121 Identities=10% Similarity=0.088 Sum_probs=65.4
Q ss_pred cCCCCChHHhhhCCCeEEEEe--CchHHHHH-HHhhC---------C-----------CCcceEeCCCHHHHHHHHhcCC
Q 003167 589 SSPIKGIDTLMTSNDRVGYQV--GSFAENYL-IEELS---------I-----------PKSRLVALGSPEEYAIALENRT 645 (843)
Q Consensus 589 ~~~i~s~~dL~~~~~~i~~~~--~~~~~~~l-~~~~~---------~-----------~~~~~~~~~~~~~~~~~l~~g~ 645 (843)
..++++++||. .|.+|++.. +...+.++ .+..+ . .+-++++. ...+...++..|+
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-EGATVAIPNDPTNLGRALLLLQKEKLITLKEGKGLLPTALDITDNPRHLQIMEL-EGAQLPRVLDDPK 196 (272)
T ss_pred ccCCCCHHHcC-CCCEEEEeCCCccHHHHHHHHHHCCCEEEcCCCCCCCCHhHHhcCCCCCEEEEc-CHHHhHhhccCcc
Confidence 36899999995 588999986 32222222 22211 1 11223333 4566888888899
Q ss_pred cEEEEcChhhHHHHHhcC-CCeEEeCCccccCcc-eeeecCCCCchHHHHHHHHhhhccccHHHHHHhh
Q 003167 646 VAAVVDERPYIDLFLSDH-CQFSVRGQEFTKSGW-GFAFPRDSPLAIDMSTAILTLSENGELQRIHDKW 712 (843)
Q Consensus 646 ~~a~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~-~~~~~k~spl~~~in~~i~~l~e~G~~~~~~~kw 712 (843)
+|+++...+++.-.-.+. .+-...... ...+. .++++.+..=.+.+.+.+..++....-+.|.++|
T Consensus 197 vD~a~i~~~~~~~ag~~~~~~~l~~e~~-~~~~~n~~~~r~~~~~~~~~~~lv~~~~s~~v~~~i~~~~ 264 (272)
T PRK09861 197 VDVAIISTTYIQQTGLSPVHDSVFIEDK-NSPYVNILVAREDNKNAENVKEFLQSYQSPEVAKAAETIF 264 (272)
T ss_pred cCEEEEchhHHHHcCCCcccceeEEcCC-CCCeEEEEEEcCCccCCHHHHHHHHHHcCHHHHHHHHHHc
Confidence 999998877764311111 121122211 11222 3455554334555666666666556555666654
No 291
>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=87.84 E-value=26 Score=33.52 Aligned_cols=70 Identities=17% Similarity=0.243 Sum_probs=45.0
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+..+++..+.+..+ .++++... +.-.++...+.+|++|+++..... ....+. ..++.+..++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~~-~~~l~~~~~~~~~~~ 80 (196)
T cd08457 13 GFLPRFLAAFLRLRP-NLHLSLMG-------LSSSQVLEAVASGRADLGIADGPL---EERQGF-LIETRSLPAVVAVPM 80 (196)
T ss_pred cccHHHHHHHHHHCC-CeEEEEEe-------cCcHHHHHHHHcCCccEEEeccCC---CCCCcE-EEEeccCCeEEEeeC
Confidence 455788888888775 34555554 335688899999999999863321 122222 345667777777765
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (196)
T cd08457 81 GH 82 (196)
T ss_pred CC
Confidence 43
No 292
>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=87.69 E-value=27 Score=33.47 Aligned_cols=71 Identities=11% Similarity=0.113 Sum_probs=46.9
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEecc
Q 003167 403 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 482 (843)
Q Consensus 403 ~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~ 482 (843)
+-.+++..+.+..+ .++++... ++.+.++..|.+|++|+++.... .......++ ..+..+..++++++..
T Consensus 14 ~l~~~l~~~~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~-~~~~~~~l~-~~~l~~~~~~~~~~~~ 83 (198)
T cd08437 14 YFPKLAKDLIKTGL-MIQIDTYE-------GGSAELLEQLLQGDLDIALLGSL-TPLENSALH-SKIIKTQHFMIIVSKD 83 (198)
T ss_pred HhHHHHHHHHHhCC-ceEEEEEE-------cCHHHHHHHHHcCCCCEEEecCC-CCCCcccce-EEEeecceEEEEecCC
Confidence 44677888888765 35566654 45788999999999999986321 111222333 4567777888887765
Q ss_pred C
Q 003167 483 K 483 (843)
Q Consensus 483 ~ 483 (843)
.
T Consensus 84 h 84 (198)
T cd08437 84 H 84 (198)
T ss_pred C
Confidence 4
No 293
>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=87.30 E-value=27 Score=33.17 Aligned_cols=70 Identities=11% Similarity=0.068 Sum_probs=46.5
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.+..+ .++++... ++..++...+.+|++|+++.... .....+ .+.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~i~i~~-------~~~~~~~~~l~~~~~Di~i~~~~---~~~~~~-~~~~l~~~~~~~~~~~ 80 (197)
T cd08448 13 RGLPRILRAFRAEYP-GIEVALHE-------MSSAEQIEALLRGELDLGFVHSR---RLPAGL-SARLLHREPFVCCLPA 80 (197)
T ss_pred HHHHHHHHHHHHHCC-CCeEEEEe-------CCHHHHHHHHHcCCcceEEEeCC---CCCcCc-eEEEEecCcEEEEeeC
Confidence 455678888888764 35566554 55789999999999999885221 222222 2456777778877765
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~h 82 (197)
T cd08448 81 GH 82 (197)
T ss_pred CC
Confidence 54
No 294
>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=86.87 E-value=29 Score=33.07 Aligned_cols=71 Identities=18% Similarity=0.173 Sum_probs=46.7
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.++.+ .++++... ++...++.++.+|++|+++...... ....+. ..++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~l~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~l~-~~~l~~~~~~~~~~~ 81 (199)
T cd08430 13 SFLPPILERFRAQHP-QVEIKLHT-------GDPADAIDKVLNGEADIAIAARPDK--LPARLA-FLPLATSPLVFIAPN 81 (199)
T ss_pred eeccHHHHHHHHHCC-CceEEEEe-------CCHHHHHHHHHCCCCCEEEEecCCC--CCcccE-EEeeccceEEEEEeC
Confidence 455778888888874 25566554 5578899999999999998632111 112222 355667777777765
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 82 ~~ 83 (199)
T cd08430 82 IA 83 (199)
T ss_pred Cc
Confidence 54
No 295
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=86.77 E-value=4.2 Score=43.45 Aligned_cols=103 Identities=13% Similarity=0.129 Sum_probs=66.5
Q ss_pred CCCCChHHhhhCCCeEEEEeCchHHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHH---H-HhcCCC
Q 003167 590 SPIKGIDTLMTSNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDL---F-LSDHCQ 665 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~---~-~~~~~~ 665 (843)
.||.+.+||. |.++-+.........+ +.+|-.+..+ ...|...+|+.|-+|+.-.....+.- + .+++
T Consensus 157 ~PI~~peDlk--GlkiRv~~s~~~~~~~-~a~GA~P~pm----~f~Evy~aLqtGvVDGqEnp~~~i~~~k~~EVqky-- 227 (332)
T COG1638 157 RPIKTPEDLK--GLKIRVPQSPLLLAMF-KALGANPTPM----PFAEVYTALQTGVVDGQENPLSNIYSAKLYEVQKY-- 227 (332)
T ss_pred CCCCChHHhC--CCeeecCCCHHHHHHH-HHcCCCCCCC----CHHHHHHHHHcCCcccccCCHHHHhhccHHHHhHH--
Confidence 4999999995 9999999988888888 6777665555 67899999999999988765443311 1 1111
Q ss_pred eEEeCCccccCcceeeecCCC--CchHHHHHHHHhhhccc
Q 003167 666 FSVRGQEFTKSGWGFAFPRDS--PLAIDMSTAILTLSENG 703 (843)
Q Consensus 666 l~~~~~~~~~~~~~~~~~k~s--pl~~~in~~i~~l~e~G 703 (843)
+.+.+ ....++.+.+.+.. .|-+...++|.+..+..
T Consensus 228 ~t~tn--H~~~~~~~~~s~~~w~~L~~e~q~il~~aa~e~ 265 (332)
T COG1638 228 LTLTN--HIYLPLAVLVSKAFWDSLPEEDQTILLEAAKEA 265 (332)
T ss_pred hhhcc--ccccceeeEEcHHHHhcCCHHHHHHHHHHHHHH
Confidence 11111 11234455565552 26666666666655443
No 296
>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=86.73 E-value=30 Score=33.02 Aligned_cols=70 Identities=17% Similarity=0.264 Sum_probs=46.5
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEecc
Q 003167 403 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 482 (843)
Q Consensus 403 ~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~ 482 (843)
+..+++..+.+..+ .++++... ++.+++...+.+|++|+++...... ....+ .+.+.....++++++..
T Consensus 15 ~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~~ 83 (199)
T cd08451 15 LVPGLIRRFREAYP-DVELTLEE-------ANTAELLEALREGRLDAAFVRPPVA--RSDGL-VLELLLEEPMLVALPAG 83 (199)
T ss_pred ccHHHHHHHHHHCC-CcEEEEec-------CChHHHHHHHHCCCccEEEEecCCC--CCCce-eEEEeecccEEEEecCC
Confidence 55678888888765 24555553 4578899999999999998632211 11122 34677778888887665
Q ss_pred C
Q 003167 483 K 483 (843)
Q Consensus 483 ~ 483 (843)
.
T Consensus 84 ~ 84 (199)
T cd08451 84 H 84 (199)
T ss_pred C
Confidence 4
No 297
>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=86.72 E-value=6.4 Score=39.67 Aligned_cols=185 Identities=16% Similarity=0.080 Sum_probs=110.7
Q ss_pred EeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcC-cccEEEeceeeecCcc---eeee--ecccccccc
Q 003167 401 HGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTG-VFDAAVGDIAIVTNRT---KAVD--FTQPYIESG 474 (843)
Q Consensus 401 ~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g-~~Di~~~~~~i~~~r~---~~vd--fs~p~~~~~ 474 (843)
.+..-++.+...++.++++++... .-..+..+|..| ++|+.+.+-....++. ..++ -..|+..+.
T Consensus 10 ~~~~~~l~~~f~~~~g~~v~v~~~---------~s~~~~~~l~~g~~~Dv~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~ 80 (230)
T PF13531_consen 10 APALEELAEAFEKQPGIKVEVSFG---------GSGELVRRLQAGKKPDVFIPASSEWLERLAAAGLVDPGSPAPLARSP 80 (230)
T ss_dssp HHHHHHHHHHHHHHHCEEEEEEEE---------CHHHHHHHHHTT-S-SEEEESSHHHHHHHHHTTTCSGGGEEEEEEEE
T ss_pred HHHHHHHHHHHHhccCCeEEEEEC---------ChHHHHHHHhcCCCceEEEECCHHHHHHHHhcccccCCcccccccCc
Confidence 345567888888888866655554 357788888877 6898877532211111 2333 567888889
Q ss_pred eEEEEeccCCCcCcceecccCchhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccchhhHHHHHHHHhhcccccccc
Q 003167 475 LVVVAPVRKLNSSAWAFLRPFTPLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIVTVLWFSFSTMFFAHRENTVS 554 (843)
Q Consensus 475 ~~~~v~~~~~~~~~~~~l~PF~~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~s 554 (843)
+++++++..+
T Consensus 81 ~vl~~~~~~~---------------------------------------------------------------------- 90 (230)
T PF13531_consen 81 LVLAVPKGNP---------------------------------------------------------------------- 90 (230)
T ss_dssp EEEEEETTST----------------------------------------------------------------------
T ss_pred eEEEeccCcc----------------------------------------------------------------------
Confidence 9999988772
Q ss_pred cchhHHHHHHHHHHHHHHhhhhcceeeeeeeccccCCCCChHHhhhCCCeEEEEeCc------hHHHHHHHhhC---CC-
Q 003167 555 TLGRVVLIIWLFVVLIITSSYTASLTSILTVQQLSSPIKGIDTLMTSNDRVGYQVGS------FAENYLIEELS---IP- 624 (843)
Q Consensus 555 ~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~~~~~~~i~s~~dL~~~~~~i~~~~~~------~~~~~l~~~~~---~~- 624 (843)
..+.+++||.+.+.+|++.... .....+. ..+ .-
T Consensus 91 -----------------------------------~~~~~~~dL~~~~~~i~~~dP~~s~~g~~~~~~l~-~~g~~~~~~ 134 (230)
T PF13531_consen 91 -----------------------------------KGIRSWADLAQPGLRIAIPDPSTSPSGLAALQVLA-AAGGQELLD 134 (230)
T ss_dssp -----------------------------------TSTTCHHHHCSTT--EEEE-TTTTHHHHHHHHHHH-HHTHCHHHH
T ss_pred -----------------------------------cccCCHHHHhhccCEEEecCcccChhhHHHHHHHH-HcccHHHHH
Confidence 3678888888776678887521 2222222 222 00
Q ss_pred --CcceE-eCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCC--eEEeCCccc--cCcceeeecCCCCchHHHHHHHH
Q 003167 625 --KSRLV-ALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQ--FSVRGQEFT--KSGWGFAFPRDSPLAIDMSTAIL 697 (843)
Q Consensus 625 --~~~~~-~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~--l~~~~~~~~--~~~~~~~~~k~spl~~~in~~i~ 697 (843)
..++. ..++..+....+.+|+.|+.+.....+.+. .+..+ +..+.+.+. ...+.+++.++++-.+.-...+.
T Consensus 135 ~l~~~~~~~~~~~~~~~~~v~~g~~d~~~~~~s~~~~~-~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~a~~f~~ 213 (230)
T PF13531_consen 135 ALQKNIVQYVPSTSQVLSAVASGEADAGIVYESQAIFA-RQGDPLSYVYPPDGVNSPPIDYPIAILKNAPHPEAARAFID 213 (230)
T ss_dssp HHHHTEEEEESSHHHHHHHHHTTSSSEEEEEHHHHHHC-TSHTTEEEEE-STTTSSSEEEEEEEEBTTCTTHHHHHHHHH
T ss_pred HHHHhCcccccchHHHHHHHHcCCCcceeeHHHHHHHh-hcCCCeEEEECCchhcCCCEEEEEEEecCCCCHHHHHHHHH
Confidence 12343 457788899999999999998766555332 22223 334444444 24577888888765555555554
Q ss_pred hhhc
Q 003167 698 TLSE 701 (843)
Q Consensus 698 ~l~e 701 (843)
.|..
T Consensus 214 ~L~s 217 (230)
T PF13531_consen 214 FLLS 217 (230)
T ss_dssp HHTS
T ss_pred HHCC
Confidence 4443
No 298
>COG1910 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]
Probab=86.43 E-value=14 Score=36.10 Aligned_cols=107 Identities=18% Similarity=0.172 Sum_probs=63.7
Q ss_pred CCCCChHHhhhCCCeE-EEEeCchHHHHHHHh---hCCCCcceEeC----CCHHHHHHHHhcCCcEEEEcChhhHHHHHh
Q 003167 590 SPIKGIDTLMTSNDRV-GYQVGSFAENYLIEE---LSIPKSRLVAL----GSPEEYAIALENRTVAAVVDERPYIDLFLS 661 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i-~~~~~~~~~~~l~~~---~~~~~~~~~~~----~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~ 661 (843)
..|++++||.+.+.++ -=.+||-.+..|.+. .+.....+.=| .+......++..|+.|+=+.-+..++.+
T Consensus 87 k~i~~~edl~~~d~~fVNR~rGSGTR~LlD~~L~~~~~~~~~I~GY~~e~~th~avA~aVa~G~AD~GvGlr~~A~~~-- 164 (223)
T COG1910 87 KNISSLEDLLRKDLRFVNRNRGSGTRILLDELLGELNILPDSIKGYSDEATTHDAVASAVASGRADAGVGLRHAAEKY-- 164 (223)
T ss_pred CccccHHHHhhcCcEEEecCCCccHHHHHHHHHHHcCcCchhcCCccccccccHHHHHHHHcCCCCccccHHHHHHHc--
Confidence 4589999998665443 223677666665443 34444444433 4566778899999999999854444322
Q ss_pred cCCCeEEeCCccccCcceeeecCCCCchHHHHHHHHhhhccc
Q 003167 662 DHCQFSVRGQEFTKSGWGFAFPRDSPLAIDMSTAILTLSENG 703 (843)
Q Consensus 662 ~~~~l~~~~~~~~~~~~~~~~~k~spl~~~in~~i~~l~e~G 703 (843)
.-++..+ ....|-|+++|+.-=.+.+...+..|...+
T Consensus 165 -gL~Fipl----~~E~YD~virke~~~~~~vr~fi~~L~s~~ 201 (223)
T COG1910 165 -GLDFIPL----GDEEYDFVIRKERLDKPVVRAFIKALKSEG 201 (223)
T ss_pred -CCceEEc----ccceEEEEEehhHccCHHHHHHHHHhcccc
Confidence 1244443 355788999988544444444444444333
No 299
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=86.26 E-value=16 Score=39.16 Aligned_cols=153 Identities=9% Similarity=-0.029 Sum_probs=85.5
Q ss_pred CCeEEEE-cCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEec
Q 003167 3 TDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 81 (843)
Q Consensus 3 ~~V~aii-Gp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d 81 (843)
.+|++|| -|............+...++|+|......+ +.. ....+.+++...+..++++|...|-++++++...
T Consensus 80 ~~vDGiIi~~~~~~~~~~~l~~~~~~~iPvV~id~~~~---~~~--~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~g 154 (330)
T PRK10355 80 RGVDVLVIIPYNGQVLSNVIKEAKQEGIKVLAYDRMIN---NAD--IDFYISFDNEKVGELQAKALVDKVPQGNYFLMGG 154 (330)
T ss_pred cCCCEEEEeCCChhhHHHHHHHHHHCCCeEEEECCCCC---CCC--ccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEeC
Confidence 3566664 333322223344556788999998754321 111 2224677888888888998877788887765432
Q ss_pred ---CCCCcchHHHHHHHHHhc---C-cEEEEeeecCCCCCCChhHHHHHHHHHh-c--CCCeEEEEEcChhhHHHHHHHH
Q 003167 82 ---DDQGRNGVTALGDKLAEI---R-CKISYKSALPPDQSVTETDVRNELVKVR-M--MEARVIVVHGYSRTGLMVFDVA 151 (843)
Q Consensus 82 ---~~~g~~~~~~l~~~l~~~---g-~~v~~~~~~~~~~~~~~~d~~~~l~~i~-~--~~~~viv~~~~~~~~~~i~~~a 151 (843)
+..+....+.+++.+++. | +.+....... . .+..+-...++++. + ..+++|+ +.+...+..+++.+
T Consensus 155 ~~~~~~~~~R~~gf~~~l~~~~~~~~i~~~~~~~~~-~--~~~~~~~~~~~~lL~~~~~~~~aI~-~~nD~~A~g~l~al 230 (330)
T PRK10355 155 SPVDNNAKLFRAGQMKVLKPYIDSGKIKVVGDQWVD-G--WLPENALKIMENALTANNNKIDAVV-ASNDATAGGAIQAL 230 (330)
T ss_pred CCCCccHHHHHHHHHHHHhhhccCCCeEEecccCCC-C--CCHHHHHHHHHHHHHhCCCCccEEE-ECCCchHHHHHHHH
Confidence 223345677888888764 4 4432211111 1 11223334444443 2 3467654 45556666788999
Q ss_pred HHcCCcccceEEEEe
Q 003167 152 QRLGMMDSGYVWIAT 166 (843)
Q Consensus 152 ~~~g~~~~~~~~i~~ 166 (843)
++.|+. +.+.|.+
T Consensus 231 ~~~g~~--~di~IiG 243 (330)
T PRK10355 231 SAQGLS--GKVAISG 243 (330)
T ss_pred HHCCCC--CCceEEc
Confidence 998875 3344543
No 300
>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=86.16 E-value=6.7 Score=42.98 Aligned_cols=89 Identities=12% Similarity=0.092 Sum_probs=65.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.++++.+|.+++.+++.......+..+.+.+.|++.|+++.....+..+ .+...+...+...+..++|+||-.+.
T Consensus 13 ~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 90 (370)
T cd08192 13 KELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAALFDEVPPN--PTEAAVEAGLAAYRAGGCDGVIAFGG 90 (370)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4466778888999999988655444456888999999999887544344444 55778888899999999999997654
Q ss_pred h--hhHHHHHHHH
Q 003167 141 S--RTGLMVFDVA 151 (843)
Q Consensus 141 ~--~~~~~i~~~a 151 (843)
+ -|+.+++...
T Consensus 91 GSviD~aK~ia~~ 103 (370)
T cd08192 91 GSALDLAKAVALM 103 (370)
T ss_pred chHHHHHHHHHHH
Confidence 3 4566555443
No 301
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=85.44 E-value=4 Score=45.01 Aligned_cols=87 Identities=11% Similarity=0.049 Sum_probs=63.5
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.++++.+|.+++.++....-...+..+.+.+.|++.|+.+.....+.++ .+.......+...++.++|+||-.+.
T Consensus 38 ~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~--P~~~~v~~~~~~~r~~~~D~IiavGG 115 (395)
T PRK15454 38 SSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGE--PCITDVCAAVAQLRESGCDGVIAFGG 115 (395)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 4466778889998888877544444567888999999999887644344444 45677888899999999999998776
Q ss_pred hh--hHHHHHH
Q 003167 141 SR--TGLMVFD 149 (843)
Q Consensus 141 ~~--~~~~i~~ 149 (843)
+. |+.+.+.
T Consensus 116 GS~iD~AKaia 126 (395)
T PRK15454 116 GSVLDAAKAVA 126 (395)
T ss_pred hHHHHHHHHHH
Confidence 53 4554443
No 302
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=85.29 E-value=5.2 Score=43.29 Aligned_cols=91 Identities=12% Similarity=0.083 Sum_probs=71.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
+.+.+.++.+|++++-||.+..-...+..+.+.+.|++.|+.+.....+.++ ...+.....+..+++.++|.||-.+.
T Consensus 18 ~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~v~p~--P~~~~v~~~~~~~~~~~~D~iIalGG 95 (377)
T COG1454 18 KELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDEVEPE--PTIETVEAGAEVAREFGPDTIIALGG 95 (377)
T ss_pred HHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeEEEecCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4566777889999999999777777788999999999999887666666666 66778888899999999999998765
Q ss_pred h--hhHHHHHHHHHH
Q 003167 141 S--RTGLMVFDVAQR 153 (843)
Q Consensus 141 ~--~~~~~i~~~a~~ 153 (843)
+ -|+.+.+.-...
T Consensus 96 GS~~D~AK~i~~~~~ 110 (377)
T COG1454 96 GSVIDAAKAIALLAE 110 (377)
T ss_pred ccHHHHHHHHHHHhh
Confidence 4 456655544444
No 303
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=85.23 E-value=7.7 Score=42.55 Aligned_cols=89 Identities=15% Similarity=0.136 Sum_probs=65.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
+.+.+.++.+|-+++.+++....+..+..+.+.+.|++.|+.+.....+..+ .+...+...+..+++.++|+||-.+.
T Consensus 15 ~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 92 (374)
T cd08189 15 AQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPD--PTIENVEAGLALYRENGCDAILAVGG 92 (374)
T ss_pred HHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4466778888889999998655444456788999999999876644445444 55778888999999999999997654
Q ss_pred h--hhHHHHHHHH
Q 003167 141 S--RTGLMVFDVA 151 (843)
Q Consensus 141 ~--~~~~~i~~~a 151 (843)
+ -|+.+++...
T Consensus 93 GS~~D~aK~ia~~ 105 (374)
T cd08189 93 GSVIDCAKAIAAR 105 (374)
T ss_pred ccHHHHHHHHHHH
Confidence 3 4566555443
No 304
>cd08190 HOT Hydroxyacid-oxoacid transhydrogenase (HOT) involved in gamma-hydroxybutyrate metabolism. Hydroxyacid-oxoacid transhydrogenase (HOT), also known as D-2-hydroxyglutarate transhydrogenase. It catalyzes the conversion of gamma-hydroxybutyrate (GHB) to succinic semialdehyde (SSA), coupled to the stoichiometric conversion of alpha-ketoglutarate to D-2-hydroxyglutarate in gamma-Hydroxybutyrate catabolism. Unlike many other alcohols, which are oxidized by NAD-linked dehydrogenases, gamma-hydroxybutyrate is metabolized to succinate semialdehyde by hydroxyacid-oxoacid transhydrogenase which does not require free NAD or NADP, but instead using alpha -ketoglutarate as an acceptor, converting it to d-2-hydroxyglutarate. Alpha-ketoglutarate serves as an intermediate acceptor to regenerate NAD(P) required for the oxidation of GHB. HOT also catalyzes the reversible oxidation of a hydroxyacid obligatorily coupled to the reduction of an oxoacid, and requires no cofactor. In mammals, the HOT
Probab=85.00 E-value=4.5 Score=44.98 Aligned_cols=87 Identities=9% Similarity=0.052 Sum_probs=64.9
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
+.+.++++.+|.+++.+|+....+..+..+.+.+.|++.|+++.....+.++ .+.+.+...++.+++.++|+||-.+.
T Consensus 12 ~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 89 (414)
T cd08190 12 AEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVE--PTDESFKDAIAFAKKGQFDAFVAVGG 89 (414)
T ss_pred HHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4566778889999999998766555566789999999999887644444444 45677888888999999999998765
Q ss_pred h--hhHHHHHH
Q 003167 141 S--RTGLMVFD 149 (843)
Q Consensus 141 ~--~~~~~i~~ 149 (843)
+ -|+.+.+.
T Consensus 90 GSviD~AKaia 100 (414)
T cd08190 90 GSVIDTAKAAN 100 (414)
T ss_pred ccHHHHHHHHH
Confidence 4 35554443
No 305
>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=84.74 E-value=49 Score=34.19 Aligned_cols=69 Identities=14% Similarity=0.130 Sum_probs=45.0
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEecc
Q 003167 403 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 482 (843)
Q Consensus 403 ~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~ 482 (843)
+-.+++..+.+..+ .++++... ++..+++..|.+|++|+++...... ...+ -..|+....+++++++.
T Consensus 98 ~~~~~l~~~~~~~p-~v~l~i~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~lv~s~~ 165 (279)
T TIGR03339 98 YVLDLVARFRQRYP-GIEVSVRI-------GNSQEVLQALQSYRVDVAVSSEVVD---DPRL-DRVVLGNDPLVAVVHRQ 165 (279)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEE-------CCHHHHHHHHHcCCCcEEEEecccC---CCce-EEEEcCCceEEEEECCC
Confidence 44577777777654 24455544 4577899999999999998632222 1122 23566777888888765
Q ss_pred C
Q 003167 483 K 483 (843)
Q Consensus 483 ~ 483 (843)
.
T Consensus 166 ~ 166 (279)
T TIGR03339 166 H 166 (279)
T ss_pred C
Confidence 4
No 306
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=84.65 E-value=5 Score=44.15 Aligned_cols=87 Identities=13% Similarity=0.123 Sum_probs=63.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.+.++.+|.+++.+++...-+-.+..+.+.+.+++.|+.+.....+.++ .+.++....+..+++.++|+||-.+.
T Consensus 19 ~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 96 (382)
T PRK10624 19 GALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPN--PTIEVVKEGVEVFKASGADYLIAIGG 96 (382)
T ss_pred HHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4567788888999999988654444457888999999999876544344444 45677888888999999999997665
Q ss_pred h--hhHHHHHH
Q 003167 141 S--RTGLMVFD 149 (843)
Q Consensus 141 ~--~~~~~i~~ 149 (843)
+ -|+.+.+.
T Consensus 97 GS~iD~aK~ia 107 (382)
T PRK10624 97 GSPQDTCKAIG 107 (382)
T ss_pred hHHHHHHHHHH
Confidence 4 35554443
No 307
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=84.39 E-value=33 Score=36.61 Aligned_cols=69 Identities=10% Similarity=0.096 Sum_probs=44.7
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEecc
Q 003167 403 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 482 (843)
Q Consensus 403 ~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~ 482 (843)
+-.+++..+.+..+ .+.++... +.-.++...|.+|++|+++..-. .....+. ..++....++++++..
T Consensus 103 ~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~L~~g~~Dl~i~~~~---~~~~~~~-~~~l~~~~~~lv~~~~ 170 (317)
T PRK15421 103 WLTPALENFHKNWP-QVEMDFKS-------GVTFDPQPALQQGELDLVMTSDI---LPRSGLH-YSPMFDYEVRLVLAPD 170 (317)
T ss_pred HHHHHHHHHHHHCC-CceEEEEe-------CccHHHHHHHHCCCcCEEEecCc---ccCCCce-EEEeccceEEEEEcCC
Confidence 33567777777654 34555543 33567899999999999986322 1122333 3677778888888766
Q ss_pred C
Q 003167 483 K 483 (843)
Q Consensus 483 ~ 483 (843)
.
T Consensus 171 h 171 (317)
T PRK15421 171 H 171 (317)
T ss_pred C
Confidence 5
No 308
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=84.14 E-value=40 Score=35.39 Aligned_cols=86 Identities=16% Similarity=0.253 Sum_probs=51.0
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
..|+||+.. .+ ..++-.+++..+.+..+ .+++.... ++.+.+..+|.+|++|+++...
T Consensus 93 g~l~i~~~~--~~------------~~~~l~~~l~~f~~~~P-~i~l~~~~-------~~~~~~~~~l~~g~~D~~i~~~ 150 (296)
T PRK11062 93 LLFDVGVAD--AL------------SKRLVSRVLLTAVPEDE-SIHLRCFE-------STHEMLLEQLSQHKLDMILSDC 150 (296)
T ss_pred eEEEEEecc--hh------------hHhhHHHHHHHHHhcCC-ceEEEEEe-------CCHHHHHHHHHcCCCCEEEecC
Confidence 468998874 11 12555677777766553 34455443 4578999999999999988532
Q ss_pred eeecCcceeeeecccccccceEEEEeccC
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 483 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~~ 483 (843)
.........+ ...|+....++++++.+.
T Consensus 151 ~~~~~~~~~l-~~~~l~~~~~~~~~~~~~ 178 (296)
T PRK11062 151 PVDSTQQEGL-FSKKLGECGVSFFCTNPL 178 (296)
T ss_pred CCccccccch-hhhhhhccCcceEecCCC
Confidence 2111111122 235666666666655443
No 309
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=83.98 E-value=43 Score=35.43 Aligned_cols=104 Identities=11% Similarity=0.049 Sum_probs=55.0
Q ss_pred CCChHHhhhCCCe-EEEEeCchHHHHHH---HhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeE
Q 003167 592 IKGIDTLMTSNDR-VGYQVGSFAENYLI---EELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFS 667 (843)
Q Consensus 592 i~s~~dL~~~~~~-i~~~~~~~~~~~l~---~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~ 667 (843)
.-+++||. +.+ |....++.....+. +..+.........++.....+.+..|...+++.... ....... ++.
T Consensus 183 ~i~~~dL~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~Gv~~~p~~~-~~~~~~~--~l~ 257 (309)
T PRK11013 183 VLTPDDFA--GENFISLSRTDSYRQLLDQLFAEHGVKRRMVVETHSAASVCAMVRAGVGVSIVNPLT-ALDYAGS--GLV 257 (309)
T ss_pred ccCHHHHC--CCcEEeecCCCcHHHHHHHHHHHcCCCcceEEEeccHHHHHHHHHcCCeEEEeChhh-hccccCC--CEE
Confidence 34678885 443 44444443332222 233444334455677888888888877656653322 2222222 343
Q ss_pred EeCCc-cccCcceeeecCCCCchHHHHHHHHhhh
Q 003167 668 VRGQE-FTKSGWGFAFPRDSPLAIDMSTAILTLS 700 (843)
Q Consensus 668 ~~~~~-~~~~~~~~~~~k~spl~~~in~~i~~l~ 700 (843)
+.... -....+.++.+|+.+........+..+.
T Consensus 258 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~i~ 291 (309)
T PRK11013 258 VRRFSISVPFTVSLIRPLHRPASALVDAFSEHLQ 291 (309)
T ss_pred EEeCCCCCceeEEEEecCCCCCCHHHHHHHHHHH
Confidence 33211 1234677888888776666665554443
No 310
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=83.95 E-value=19 Score=34.48 Aligned_cols=98 Identities=13% Similarity=-0.008 Sum_probs=62.6
Q ss_pred hHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhc--CcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEE
Q 003167 59 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 136 (843)
Q Consensus 59 ~~~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv 136 (843)
....+.+.+...+ .+|+++....+ .++.+.+.+++. |++|+....-+.+ ..+-...+++|++++||+|+
T Consensus 34 l~~~ll~~~~~~~-~~v~llG~~~~----~~~~~~~~l~~~yp~l~i~g~~~g~~~----~~~~~~i~~~I~~~~pdiv~ 104 (171)
T cd06533 34 LMPALLELAAQKG-LRVFLLGAKPE----VLEKAAERLRARYPGLKIVGYHHGYFG----PEEEEEIIERINASGADILF 104 (171)
T ss_pred HHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCcEEEEecCCCCC----hhhHHHHHHHHHHcCCCEEE
Confidence 3455555554443 67888875543 455555666665 7888764333333 44445589999999999999
Q ss_pred EEcChhhHHHHHHHHHHcCCcccceEEEEeCc
Q 003167 137 VHGYSRTGLMVFDVAQRLGMMDSGYVWIATTW 168 (843)
Q Consensus 137 ~~~~~~~~~~i~~~a~~~g~~~~~~~~i~~~~ 168 (843)
+.+..+.-..++...++.. ..-+++..++
T Consensus 105 vglG~PkQE~~~~~~~~~l---~~~v~~~vG~ 133 (171)
T cd06533 105 VGLGAPKQELWIARHKDRL---PVPVAIGVGG 133 (171)
T ss_pred EECCCCHHHHHHHHHHHHC---CCCEEEEece
Confidence 9988777777776666543 2236666543
No 311
>cd08193 HVD 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. 5-hydroxyvalerate dehydrogenase (HVD) is an iron-containing (type III) NAD-dependent alcohol dehydrogenase. It plays a role in the cyclopentanol metabolism biochemical pathway. It catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. This cyclopentanol (cpn) degradation pathway is present in some bacteria which can use cyclopentanol as sole carbon source. In Comamonas sp. strain NCIMB 9872, this enzyme is encoded by the CpnD gene.
Probab=83.92 E-value=5.4 Score=43.78 Aligned_cols=88 Identities=14% Similarity=0.123 Sum_probs=64.6
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.++++.++.+++.+++...-...+..+.+.+.+++.|+.+.....+..+ .+..++...+..+++.++|+||-.+.
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 92 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEVTVFDDVEAD--PPEAVVEAAVEAARAAGADGVIGFGG 92 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4466778888999999888654444456888999999999877544444444 56778889999999999999998765
Q ss_pred h--hhHHHHHHH
Q 003167 141 S--RTGLMVFDV 150 (843)
Q Consensus 141 ~--~~~~~i~~~ 150 (843)
+ -|+.+++..
T Consensus 93 Gs~iD~aK~ia~ 104 (376)
T cd08193 93 GSSMDVAKLVAV 104 (376)
T ss_pred chHHHHHHHHHH
Confidence 4 355555443
No 312
>cd08551 Fe-ADH iron-containing alcohol dehydrogenases (Fe-ADH)-like. Large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. They contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alcohol dehydrogenases which contains different protein domains. There are several distinct families of alcohol dehydrogenases: Zinc-containing long-chain alcohol dehydrogenases; insect-type, or short-chain alcohol dehydrogenases; iron-containing alcohol dehydrogenases, and others. The iron-containing family has a Rossmann fold-like topology that resembles the fold of the zinc-dependent alcohol dehydrogenases, but lacks sequence homology, and differs in strand arrangement. ADH catalyzes the reversible oxidation of alcohol to acetaldehyde with the simultaneous reduction of NAD(P)+ to NAD(P)H.
Probab=83.67 E-value=6.2 Score=43.25 Aligned_cols=89 Identities=11% Similarity=0.114 Sum_probs=65.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
+.+.++++.++.+++.+|+....+.....+.+.+.+++.|+++.....+..+ .+..++...+..++..++|+||-.+.
T Consensus 12 ~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~IiaiGG 89 (370)
T cd08551 12 EKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPN--PTLSNVDAAVAAYREEGCDGVIAVGG 89 (370)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4567778888999999998655444467788999999998876544344444 55788889999999999999997765
Q ss_pred h--hhHHHHHHHH
Q 003167 141 S--RTGLMVFDVA 151 (843)
Q Consensus 141 ~--~~~~~i~~~a 151 (843)
+ -|+.+++...
T Consensus 90 Gs~~D~AK~va~~ 102 (370)
T cd08551 90 GSVLDTAKAIALL 102 (370)
T ss_pred chHHHHHHHHHHH
Confidence 4 4555555443
No 313
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=83.63 E-value=35 Score=35.90 Aligned_cols=85 Identities=15% Similarity=0.135 Sum_probs=52.2
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
+.++||+.. .+. ..+..+++..+.++.+ .+++.... ++..+++..|.+|++|++++..
T Consensus 92 g~l~Ig~~~--~~~------------~~~l~~~l~~~~~~~p-~i~i~i~~-------~~~~~~~~~l~~g~~Dl~i~~~ 149 (300)
T PRK11074 92 GQLSIAVDN--IVR------------PDRTRQLIVDFYRHFD-DVELIIRQ-------EVFNGVWDALADGRVDIAIGAT 149 (300)
T ss_pred ceEEEEEcC--ccc------------hhHHHHHHHHHHHhCC-CceEEEEe-------hhhhHHHHHHHCCCCCEEEecC
Confidence 579999874 211 2334577777777665 24455543 4467899999999999999732
Q ss_pred eeecCcceeeeecccccccceEEEEeccC
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 483 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~~ 483 (843)
... .....+ -..++....+++++++..
T Consensus 150 ~~~-~~~~~l-~~~~l~~~~~~~v~~~~h 176 (300)
T PRK11074 150 RAI-PVGGRF-AFRDMGMLSWACVVSSDH 176 (300)
T ss_pred ccC-Cccccc-ceeecccceEEEEEcCCC
Confidence 211 111112 244566777788776654
No 314
>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=82.81 E-value=5.6 Score=43.49 Aligned_cols=89 Identities=17% Similarity=0.188 Sum_probs=67.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.+.++.+| ++.+|+...-...+..+.+.+.|++.|+++.....+... .+..++...+..+++.++|+||..+.
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 87 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSKSGLVDRVLDALEEAGIEVQVFDGVGPN--PTLEDVDEAAEQARKFGADCIIAIGG 87 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHHHTHHHHHHHHHHHTTCEEEEEEEESSS---BHHHHHHHHHHHHHTTSSEEEEEES
T ss_pred HHHHHHHHhcC--CEEEEECchHHhCccHHHHHHHHhhCceEEEEEecCCCC--CcHHHHHHHHHHHHhcCCCEEEEcCC
Confidence 34666777777 999999763333447899999999999998766666666 66889999999999999999998876
Q ss_pred hh--hHHHHHHHHHH
Q 003167 141 SR--TGLMVFDVAQR 153 (843)
Q Consensus 141 ~~--~~~~i~~~a~~ 153 (843)
+. ++.+++.....
T Consensus 88 GS~~D~aK~va~~~~ 102 (366)
T PF00465_consen 88 GSVMDAAKAVALLLA 102 (366)
T ss_dssp HHHHHHHHHHHHHHT
T ss_pred CCcCcHHHHHHhhcc
Confidence 54 55555555444
No 315
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=82.64 E-value=30 Score=35.58 Aligned_cols=115 Identities=19% Similarity=0.179 Sum_probs=66.7
Q ss_pred CCChHHhhh-CCCeEEEEe------CchHHHHHHHhhCCC---CcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHh
Q 003167 592 IKGIDTLMT-SNDRVGYQV------GSFAENYLIEELSIP---KSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLS 661 (843)
Q Consensus 592 i~s~~dL~~-~~~~i~~~~------~~~~~~~l~~~~~~~---~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~ 661 (843)
+..+++|.+ .+.++++.. |......| +..+.- ..+++...+.++.+..+.+|+.|+.+.-...+...-
T Consensus 124 ~~~~~~l~~~~~~~lai~~p~~~P~G~ya~~~l-~~~g~~~~~~~k~v~~~~v~~~l~~V~~G~ad~g~vy~sd~~~~~- 201 (258)
T COG0725 124 IESLEDLLERPDVRLAIGDPKTVPAGKYAKEAL-ELLGLWYTLKDKLVLATNVRQALAYVETGEADAGFVYVSDALLSK- 201 (258)
T ss_pred cccHHHHhcCcCcEEEecCCCCCCchHHHHHHH-HHhchhhhccccEEecCcHHHHHHHHHcCCCCeEEEEEEhhhccC-
Confidence 334677765 356677653 55666666 333322 347778888899999999999998876554332221
Q ss_pred cCCCeEEeCCcc-ccCcceeeecCCCCc---hHHHHHHHHhhhccccHHHHHHhh
Q 003167 662 DHCQFSVRGQEF-TKSGWGFAFPRDSPL---AIDMSTAILTLSENGELQRIHDKW 712 (843)
Q Consensus 662 ~~~~l~~~~~~~-~~~~~~~~~~k~spl---~~~in~~i~~l~e~G~~~~~~~kw 712 (843)
+-..+..+.... .+..|.+++.+++.- ...|-+.+.. ..-+++.++|
T Consensus 202 ~~~~~~~~~~~~~~Pi~y~iav~~~~~~~~~A~~f~~fl~s----~~a~~il~~~ 252 (258)
T COG0725 202 KVKIVGVFPEDLHSPIVYPIAVLKNAKNPELAKEFVDFLLS----PEAQEILEKY 252 (258)
T ss_pred CceEEEEcccccCCCeEEEEEEEcCCCCHHHHHHHHHHHhC----HHHHHHHHHc
Confidence 111233333322 245678888888764 5555555533 3334454544
No 316
>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=82.44 E-value=47 Score=31.75 Aligned_cols=70 Identities=13% Similarity=0.117 Sum_probs=45.5
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.++.+ .++++... ++..++...+.+|++|+++...... ...+ -+.++.+..++++++.
T Consensus 13 ~~l~~~l~~f~~~~P-~v~i~~~~-------~~~~~~~~~l~~g~~Dl~i~~~~~~---~~~~-~~~~l~~~~~~~v~~~ 80 (196)
T cd08458 13 SFMSGVIQTFIADRP-DVSVYLDT-------VPSQTVLELVSLQHYDLGISILAGD---YPGL-TTEPVPSFRAVCLLPP 80 (196)
T ss_pred hhhHHHHHHHHHHCC-CcEEEEec-------cChHHHHHHHHcCCCCEEEEeccCC---CCCc-eEEEeccCceEEEecC
Confidence 344678888888775 35565553 4467789999999999998632211 1122 2356677777777765
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~h 82 (196)
T cd08458 81 GH 82 (196)
T ss_pred CC
Confidence 44
No 317
>cd08194 Fe-ADH6 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions.
Probab=82.27 E-value=7.2 Score=42.76 Aligned_cols=87 Identities=11% Similarity=0.058 Sum_probs=64.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.++++.++.+++.+|+....+..+..+.+.+.|++.|+.+.....+..+ .+..++...+..++..++|+||-.+.
T Consensus 12 ~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 89 (375)
T cd08194 12 DETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSE--PTDESVEEGVKLAKEGGCDVIIALGG 89 (375)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 3456677777889999999655554457788999999999887654445555 55778889999999999999997765
Q ss_pred h--hhHHHHHH
Q 003167 141 S--RTGLMVFD 149 (843)
Q Consensus 141 ~--~~~~~i~~ 149 (843)
+ -|+.+.+.
T Consensus 90 GS~~D~AKaia 100 (375)
T cd08194 90 GSPIDTAKAIA 100 (375)
T ss_pred chHHHHHHHHH
Confidence 4 35554443
No 318
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=82.26 E-value=62 Score=34.23 Aligned_cols=70 Identities=10% Similarity=0.128 Sum_probs=45.1
Q ss_pred eHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEeccC
Q 003167 404 CIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVRK 483 (843)
Q Consensus 404 ~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~~ 483 (843)
-.+++..+.++.+. +++.... ++-.++.+.|.+|++|++++- .-.......+. ..|.....++++++...
T Consensus 108 l~~~l~~~~~~~P~-i~l~l~~-------~~~~~~~~~l~~g~~D~~i~~-~~~~~~~~~l~-~~~l~~~~~~~v~~~~h 177 (308)
T PRK10094 108 VAQLLAWLNERYPF-TQFHISR-------QIYMGVWDSLLYEGFSLAIGV-TGTEALANTFS-LDPLGSVQWRFVMAADH 177 (308)
T ss_pred HHHHHHHHHHhCCC-cEEEEEe-------ehhhhHHHHHhCCCccEEEec-ccCccccCCee-EEEecceeEEEEECCCC
Confidence 35778888887764 4566554 446788999999999998862 11111122232 44777778888876554
No 319
>TIGR02638 lactal_redase lactaldehyde reductase. This clade of genes encoding iron-containing alcohol dehydrogenase (pfam00465) proteins is generally found in apparent operons for the catabolism of rhamnose or fucose. Catabolism of both of these monosaccharides results in lactaldehyde which is reduced by this enzyme to 1,2 propanediol. This protein is alternatively known by the name 1,2 propanediol oxidoreductase. This enzyme is active under anaerobic conditions in E. coli while being inactivated by reactive oxygen species under aerobic conditions. Under aerobic conditions the lactaldehyde product of rhamnose and fucose catabolism is believed to be oxidized to lactate by a separate enzyme, lactaldehyde dehydrogenase.
Probab=82.18 E-value=6.8 Score=43.03 Aligned_cols=87 Identities=15% Similarity=0.130 Sum_probs=62.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.+.++.+|.+++.+++...-.-.+..+.+.+.|++.|+.+.....+.++ .+.+.....+..+++.++|+||..+.
T Consensus 18 ~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IiaiGG 95 (379)
T TIGR02638 18 EDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPN--PTITVVKAGVAAFKASGADYLIAIGG 95 (379)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4466778888999999988654443457888999999999876544344444 45677888888999999999997765
Q ss_pred h--hhHHHHHH
Q 003167 141 S--RTGLMVFD 149 (843)
Q Consensus 141 ~--~~~~~i~~ 149 (843)
+ -|+.+.+.
T Consensus 96 GSviD~aKaia 106 (379)
T TIGR02638 96 GSPIDTAKAIG 106 (379)
T ss_pred hHHHHHHHHHH
Confidence 4 34554443
No 320
>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=82.05 E-value=32 Score=35.78 Aligned_cols=121 Identities=21% Similarity=0.215 Sum_probs=73.6
Q ss_pred CCCCChHHhhh----CC--CeEEEE-eCch---HHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHH
Q 003167 590 SPIKGIDTLMT----SN--DRVGYQ-VGSF---AENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLF 659 (843)
Q Consensus 590 ~~i~s~~dL~~----~~--~~i~~~-~~~~---~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~ 659 (843)
.+++|++||++ +. .++|.. .|+. ....+.+..+.. .+.++|++..+.+.+|..|.+|+.+.......-+
T Consensus 88 sp~~t~~eli~~ak~~p~~~~~g~~g~g~~~hl~~~~l~~~~G~~-~~~Vpy~G~~~~~~allgG~vd~~~~~~~~~~~~ 166 (274)
T PF03401_consen 88 SPYKTLEELIEYAKANPGKLTFGSSGPGSSDHLAAALLAKAAGIK-FTHVPYDGGAEALTALLGGHVDAAFGSPGEALPY 166 (274)
T ss_dssp SS-SSHHHHHHHHHCSCCC-EEEESSTTSHHHHHHHHHHHHHT----EEEE-SSHHHHHHHHHTTSSSEEEEEHHHHHHH
T ss_pred CccccHHHHHHHHHhCCCCeEEEecCCCchHHHHHHHHHHHhCCc-eEEEEeCCccHHHHHHhCCeeeEEeecHHHHHHH
Confidence 58999999874 22 245554 2332 234444666765 5678999999999999999999998775544333
Q ss_pred Hhc-CC---------------CeEEeCCc----c-ccCcceeeecCCCC--chHHHHHHHHhhhccccHHHHHHh
Q 003167 660 LSD-HC---------------QFSVRGQE----F-TKSGWGFAFPRDSP--LAIDMSTAILTLSENGELQRIHDK 711 (843)
Q Consensus 660 ~~~-~~---------------~l~~~~~~----~-~~~~~~~~~~k~sp--l~~~in~~i~~l~e~G~~~~~~~k 711 (843)
++. .- ++-.+.+. + .....++++|||-| .++.+..++.+..++..+.+..++
T Consensus 167 ~~~G~~k~Lav~~~~r~~~~pdvPT~~E~G~~d~~~~~~~g~~~p~gtp~~~~~~l~~a~~~~~~~pe~~~~~~~ 241 (274)
T PF03401_consen 167 VEAGDLKPLAVFSDERSPALPDVPTFKEQGYPDIVFGSWRGLFAPKGTPDEIVDKLADAIKKALEDPEFQEFLEK 241 (274)
T ss_dssp HHTTSEEEEEECSSS-BTTCTTS-BTTTTT-TTG--EEEEEEEEETTS-HHHHHHHHHHHHHHHT-HHHHHHHHH
T ss_pred HhCCCceEEEEecCccccccCCCCCHHHhCccceeeeeeeeeecCCCCCHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 322 11 11111111 1 12235888999988 999999999999999877665554
No 321
>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=81.21 E-value=12 Score=38.57 Aligned_cols=85 Identities=11% Similarity=0.116 Sum_probs=59.1
Q ss_pred EEEEEEe----cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHH
Q 003167 74 EVIAIFN----DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 149 (843)
Q Consensus 74 ~v~ii~~----d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~ 149 (843)
+|+++++ |..|.....+.+++..++.|+++.+.+..+ . ..++.+.++++.+.++|+|+..+.. ....+.+
T Consensus 1 kva~l~~g~~~D~~~n~~~~~G~~~~~~~~gv~~~~~e~~~-~----~~~~~~~i~~~~~~g~dlIi~~g~~-~~~~~~~ 74 (258)
T cd06353 1 KVAFVYVGPIGDQGWNYAHDEGRKAAEKALGVEVTYVENVP-E----GADAERVLRELAAQGYDLIFGTSFG-FMDAALK 74 (258)
T ss_pred CEEEEEeCCCCccchhHHHHHHHHHHHHhcCCeEEEEecCC-c----hHhHHHHHHHHHHcCCCEEEECchh-hhHHHHH
Confidence 4777876 555666778888888888899988876543 3 6788999999988999999985532 2233455
Q ss_pred HHHHcCCcccceEEEEeCc
Q 003167 150 VAQRLGMMDSGYVWIATTW 168 (843)
Q Consensus 150 ~a~~~g~~~~~~~~i~~~~ 168 (843)
.|.+. ++..|+..++
T Consensus 75 vA~~~----p~~~F~~~d~ 89 (258)
T cd06353 75 VAKEY----PDVKFEHCSG 89 (258)
T ss_pred HHHHC----CCCEEEECCC
Confidence 55553 3445666543
No 322
>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=80.91 E-value=53 Score=31.36 Aligned_cols=73 Identities=15% Similarity=0.145 Sum_probs=45.9
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.+..+ .++++... +....+..+|.+|++|+++............+ -+.|.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~~~~~~~~~-~~~~l~~~~~~~v~~~ 83 (200)
T cd08453 13 SVLPELVRRFREAYP-DVELQLRE-------ATSDVQLEALLAGEIDAGIVIPPPGASAPPAL-AYRPLLSEPLVLAVPA 83 (200)
T ss_pred HHHHHHHHHHHHhCC-CceEEEEe-------CCHHHHHHHHHcCCCCEEEEecCcccCCCcce-eEEEeeeCceEEEEEC
Confidence 345677778877764 24555554 45678999999999999986321111011222 2566677788887776
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 84 ~h 85 (200)
T cd08453 84 AW 85 (200)
T ss_pred CC
Confidence 54
No 323
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=80.56 E-value=13 Score=38.80 Aligned_cols=95 Identities=13% Similarity=0.098 Sum_probs=75.4
Q ss_pred CCCceEEcCCChHHhHHHH----HHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHH
Q 003167 45 QYPFFVQTAPNDLYLMSAI----AEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDV 120 (843)
Q Consensus 45 ~~p~~fR~~p~d~~~~~ai----~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~ 120 (843)
..+|-|-..|+....++.+ ++-++..|.|++.+|.+.+---....+..++.|+++|+++.......++ .+...+
T Consensus 39 ~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~~vyD~v~~e--Ptv~s~ 116 (465)
T KOG3857|consen 39 MMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINVEVYDKVQPE--PTVGSV 116 (465)
T ss_pred cceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCceEEecCccCC--CchhhH
Confidence 3466677777777666653 4457889999999999877777788899999999999998766666555 567889
Q ss_pred HHHHHHHhcCCCeEEEEEcCh
Q 003167 121 RNELVKVRMMEARVIVVHGYS 141 (843)
Q Consensus 121 ~~~l~~i~~~~~~viv~~~~~ 141 (843)
...|.-+|..+.|.+|..+.+
T Consensus 117 ~~alefak~~~fDs~vaiGGG 137 (465)
T KOG3857|consen 117 TAALEFAKKKNFDSFVAIGGG 137 (465)
T ss_pred HHHHHHHHhcccceEEEEcCc
Confidence 999999999999999887654
No 324
>PRK11716 DNA-binding transcriptional regulator IlvY; Provisional
Probab=80.51 E-value=55 Score=33.54 Aligned_cols=83 Identities=17% Similarity=0.135 Sum_probs=52.2
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
..++||++.. . ...+..+++..+.+..+ .+++.... ++-.+++.++.+|++|+++...
T Consensus 67 ~~l~I~~~~~--~------------~~~~~~~~l~~~~~~~p-~i~l~i~~-------~~~~~~~~~l~~~~~D~~i~~~ 124 (269)
T PRK11716 67 GELSLFCSVT--A------------AYSHLPPILDRFRAEHP-LVEIKLTT-------GDAADAVEKVQSGEADLAIAAK 124 (269)
T ss_pred ceEEEEecch--H------------HHHHHHHHHHHHHHHCC-CeEEEEEE-------CCHHHHHHHHHCCCccEEEEec
Confidence 5688888741 1 12345678888888764 25555554 4567899999999999998632
Q ss_pred eeecCcceeeeecccccccceEEEEecc
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVR 482 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~ 482 (843)
.. .....+. ..+.....++++++..
T Consensus 125 ~~--~~~~~~~-~~~l~~~~~~~v~~~~ 149 (269)
T PRK11716 125 PE--TLPASVA-FSPIDEIPLVLIAPAL 149 (269)
T ss_pred CC--CCCcceE-EEEcccceEEEEEcCC
Confidence 21 1111122 3556677777777554
No 325
>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=80.44 E-value=16 Score=37.22 Aligned_cols=125 Identities=10% Similarity=0.029 Sum_probs=78.0
Q ss_pred HHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHH--cCCcEEEEEEecC-CCCcchHHHHHHHH
Q 003167 20 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY--FGWGEVIAIFNDD-DQGRNGVTALGDKL 96 (843)
Q Consensus 20 v~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~--~~w~~v~ii~~d~-~~g~~~~~~l~~~l 96 (843)
....+++.++|++......+. ...+++ +..++..-+..+++.+.. .|-+++++|.... ..++...+.+++++
T Consensus 68 ~~~~~~~~~~PvV~i~~~~~~--~~~~~~---V~~D~~~~~~~a~~~L~~~~~G~~~Ia~i~~~~~~~~~~R~~gf~~~l 142 (247)
T cd06276 68 YFLLKKIPKEKLLILDHSIPE--GGEYSS---VAQDFEKAIYNALQEGLEKLKKYKKLILVFPNKTAIPKEIKRGFERFC 142 (247)
T ss_pred HHHHhccCCCCEEEEcCcCCC--CCCCCe---EEEccHHHHHHHHHHHHHHhcCCCEEEEEecCccHhHHHHHHHHHHHH
Confidence 344555678898886543211 112232 445666666677787777 8999999997533 34567789999999
Q ss_pred HhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcccceEEEE
Q 003167 97 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 165 (843)
Q Consensus 97 ~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~~~~~~i~ 165 (843)
++.|+.... . .. ..+ . .+ .++++ |++++...+..+++.+++.|+..++-+=|+
T Consensus 143 ~~~g~~~~~---~-~~----~~~--~---~~--~~~~a-i~~~~d~~A~g~~~~l~~~g~~iP~disvi 195 (247)
T cd06276 143 KDYNIETEI---I-ND----YEN--R---EI--EKGDL-YIILSDTDLVFLIKKARESGLLLGKDIGII 195 (247)
T ss_pred HHcCCCccc---c-cc----cch--h---hc--cCCcE-EEEeCHHHHHHHHHHHHHcCCcCCceeEEE
Confidence 999976431 1 11 010 0 01 12355 555677778889999999998665544433
No 326
>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=80.44 E-value=4.4 Score=41.58 Aligned_cols=78 Identities=9% Similarity=0.073 Sum_probs=59.3
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC-hhhHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVA 151 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~-~~~~~~i~~~a 151 (843)
|++|.. ++.|.......+++++++.|..+... .+.. .+.......++++.+.++|.|++... ......+++++
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~--~~~~--~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~ 76 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGYEVEIV--FDAQ--NDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKA 76 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTCEEEEE--EEST--TTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCCEEEEe--CCCC--CCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHH
Confidence 455554 56688889999999999999998875 2222 34566677788888899999988754 45667899999
Q ss_pred HHcCC
Q 003167 152 QRLGM 156 (843)
Q Consensus 152 ~~~g~ 156 (843)
.+.|+
T Consensus 77 ~~~gI 81 (257)
T PF13407_consen 77 KAAGI 81 (257)
T ss_dssp HHTTS
T ss_pred hhcCc
Confidence 99886
No 327
>PLN02245 ATP phosphoribosyl transferase
Probab=80.44 E-value=20 Score=38.84 Aligned_cols=92 Identities=11% Similarity=0.013 Sum_probs=57.9
Q ss_pred CCCChHHhhh-------CCCeEEEEeCchHHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcC
Q 003167 591 PIKGIDTLMT-------SNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDH 663 (843)
Q Consensus 591 ~i~s~~dL~~-------~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~ 663 (843)
.+++++||.. ...+|+...-.....|| ++.++....++.....-|. +-.-|-.|++++-.....-+.+
T Consensus 178 ~~~s~~dL~g~~~~~~~~~~RIATkYp~ltr~ff-~~~Gv~~v~Iv~l~GAvE~--AP~lGlADaIvDIVsTGtTLra-- 252 (403)
T PLN02245 178 NINSLKELAQMPQWTEERPLRVVTGFTYLGPKFM-KDNGFKHVTFSTADGALEA--APAMGIADAILDLVSSGTTLRE-- 252 (403)
T ss_pred ccCCHHHhcccccccccCceEEEeCCHHHHHHHH-HHcCCCeEEEEECcCceec--ccccCchhhhcchhccHHHHHH--
Confidence 5788899862 11678888878888999 4557654566665554444 3444777888876555555433
Q ss_pred CCeEEeC-CccccCcceeeecCCCC
Q 003167 664 CQFSVRG-QEFTKSGWGFAFPRDSP 687 (843)
Q Consensus 664 ~~l~~~~-~~~~~~~~~~~~~k~sp 687 (843)
.+|.+++ +......-.++.+|++.
T Consensus 253 NgLk~i~~~~Il~S~A~LIan~~sl 277 (403)
T PLN02245 253 NNLKEIEGGVVLESQAVLVASRRAL 277 (403)
T ss_pred CCCEEccCceEEEEEEEEEEecchh
Confidence 3577775 44444455566666653
No 328
>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=80.09 E-value=24 Score=37.13 Aligned_cols=118 Identities=10% Similarity=0.166 Sum_probs=67.5
Q ss_pred hHHHHHHHHhcccCCCcEEecccCCCCCCC----CCCC--ceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEEecCCC-
Q 003167 14 AVMAHVLSHLANELQVPLLSFTALDPTLSP----LQYP--FFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ- 84 (843)
Q Consensus 14 S~~~~av~~~~~~~~vP~Is~~at~~~ls~----~~~p--~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~~d~~~- 84 (843)
+..+.++....... +|+|-.+-++|.-.+ .+.| ++.-+. +........++++++ +-++++++|.+++-
T Consensus 68 t~aa~~~~~~~~~~-iPVVf~~V~dp~~~~l~~~~~~~~~nvTGv~--~~~~~~~~l~l~~~l~P~~k~igvl~~~~~~~ 144 (294)
T PF04392_consen 68 TPAAQALAKHLKDD-IPVVFCGVSDPVGAGLVDSLDRPGKNVTGVS--ERPPIEKQLELIKKLFPDAKRIGVLYDPSEPN 144 (294)
T ss_dssp HHHHHHHHHH-SS--S-EEEECES-TTTTTS-S-SSS--SSEEEEE--E---HHHHHHHHHHHSTT--EEEEEEETT-HH
T ss_pred cHHHHHHHHhcCCC-cEEEEEeccChhhhhccccccCCCCCEEEEE--CCcCHHHHHHHHHHhCCCCCEEEEEecCCCcc
Confidence 44556666555544 999887776765432 2222 443333 444455566666664 56999999976643
Q ss_pred CcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh
Q 003167 85 GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 141 (843)
Q Consensus 85 g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~ 141 (843)
+....+.+++.+++.|+++.... ++ +..++...+..+. .+.|++++..+.
T Consensus 145 ~~~~~~~~~~~a~~~g~~l~~~~-v~-----~~~~~~~~~~~l~-~~~da~~~~~~~ 194 (294)
T PF04392_consen 145 SVAQIEQLRKAAKKLGIELVEIP-VP-----SSEDLEQALEALA-EKVDALYLLPDN 194 (294)
T ss_dssp HHHHHHHHHHHHHHTT-EEEEEE-ES-----SGGGHHHHHHHHC-TT-SEEEE-S-H
T ss_pred HHHHHHHHHHHHHHcCCEEEEEe-cC-----cHhHHHHHHHHhh-ccCCEEEEECCc
Confidence 45678888888999999877543 22 2567888888875 467888876554
No 329
>cd08188 Fe-ADH4 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=79.39 E-value=10 Score=41.58 Aligned_cols=86 Identities=13% Similarity=0.033 Sum_probs=61.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.++++.+|.+++.+|+.....-.+..+.+.+.+++.|+.+.....+..+ .+..+....+..+++.++|+||-.+.
T Consensus 17 ~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 94 (377)
T cd08188 17 KLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPN--PRDEEVMAGAELYLENGCDVIIAVGG 94 (377)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4566778888999999998644433456788999999988876544334444 45677888888999999999998765
Q ss_pred h--hhHHHHH
Q 003167 141 S--RTGLMVF 148 (843)
Q Consensus 141 ~--~~~~~i~ 148 (843)
+ -|+.+.+
T Consensus 95 GsviD~AK~i 104 (377)
T cd08188 95 GSPIDCAKGI 104 (377)
T ss_pred chHHHHHHHH
Confidence 4 3555444
No 330
>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=79.33 E-value=64 Score=33.88 Aligned_cols=40 Identities=13% Similarity=0.142 Sum_probs=30.8
Q ss_pred HHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEec
Q 003167 405 IDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGD 453 (843)
Q Consensus 405 ~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~ 453 (843)
..|+..+.+.+|+++++.. .+-.-+...|.+|++|+.+..
T Consensus 24 ~~i~~~iLE~~Gy~Ve~~~---------~~~~~~~~al~~GdiD~~~e~ 63 (290)
T TIGR03414 24 TALASVLLEGLGYQPKVTL---------LSVPVTYAGLKDGDLDVFLGN 63 (290)
T ss_pred HHHHHHHHHHcCCcceeEE---------ccHHHHHHHHHcCCceEeccc
Confidence 5677788888898877642 335677888999999998864
No 331
>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=78.86 E-value=63 Score=30.98 Aligned_cols=70 Identities=11% Similarity=0.122 Sum_probs=43.5
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.++.+ .++++... ++-++++.+|.+|++|+++...... ...+. +.++.+..++++++.
T Consensus 14 ~~l~~~l~~~~~~~P-~i~l~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~~---~~~l~-~~~l~~~~~~~~~~~ 81 (198)
T cd08485 14 HTLPLLLRQLLSVAP-SATVSLTQ-------MSKNRQIEALDAGTIDIGFGRFYPY---QEGVV-VRNVTNERLFLGAQK 81 (198)
T ss_pred HHHHHHHHHHHHhCC-CcEEEEEE-------CCHHHHHHHHHcCCccEEEecCCCC---CCCeE-EEEeeccceEEEeCC
Confidence 344677777777653 35565554 4567899999999999998632211 12222 346666676766654
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 82 ~~ 83 (198)
T cd08485 82 SR 83 (198)
T ss_pred CC
Confidence 43
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=78.70 E-value=11 Score=41.48 Aligned_cols=87 Identities=11% Similarity=0.081 Sum_probs=62.8
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCC-CcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEc
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQ-GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 139 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~-g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~ 139 (843)
..+.++++.+| +++.||+..... ..+..+.+.+.|++.|+++.....+.++ .+..+....+..+++.++|+||-.+
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IiavG 91 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPN--PTTTTVMEGAALAREEGCDFVVGLG 91 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCC--CCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 34666777778 899888865442 5567888999999999887644445544 5577888888899999999999765
Q ss_pred Ch--hhHHHHHHH
Q 003167 140 YS--RTGLMVFDV 150 (843)
Q Consensus 140 ~~--~~~~~i~~~ 150 (843)
.+ -|+.+.+..
T Consensus 92 GGS~iD~aK~ia~ 104 (380)
T cd08185 92 GGSSMDTAKAIAF 104 (380)
T ss_pred CccHHHHHHHHHH
Confidence 43 455555443
No 333
>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=78.63 E-value=62 Score=30.77 Aligned_cols=72 Identities=11% Similarity=0.181 Sum_probs=45.8
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
++-.+++..+.+..+ .++++... +....+...+.+|++|+++..... ......+ -+.++....+++++++
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~-~~~~~~l-~~~~l~~~~~~~v~~~ 82 (199)
T cd08416 13 NTVPRIIMGLKLRRP-ELDIELTL-------GSNKDLLKKLKDGELDAILVATPE-GLNDPDF-EVVPLFEDDIFLAVPA 82 (199)
T ss_pred hhhHHHHHHHHHhCC-CeEEEEEE-------cCcHHHHHHHhCCCCCEEEEecCC-cCCCCCe-EEEEeecceEEEEECC
Confidence 455778888888774 24455543 446788999999999999863221 0011222 2456677778888776
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 83 ~h 84 (199)
T cd08416 83 TS 84 (199)
T ss_pred CC
Confidence 54
No 334
>PRK03635 chromosome replication initiation inhibitor protein; Validated
Probab=77.72 E-value=53 Score=34.40 Aligned_cols=82 Identities=12% Similarity=0.073 Sum_probs=51.6
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
.+|+||+.. ... ..+...++..+.++- .++++... +.-..++..+.+|++|+++...
T Consensus 90 g~l~I~~~~--~~~------------~~~l~~~l~~f~~~~--~i~i~l~~-------~~~~~~~~~l~~~~~d~~i~~~ 146 (294)
T PRK03635 90 LTLSIAVNA--DSL------------ATWFLPALAPVLARS--GVLLDLVV-------EDQDHTAELLRRGEVVGAVTTE 146 (294)
T ss_pred eEEEEeecc--hhH------------HHHHHHHHHHHHhCC--CcEEEEEe-------cCcHHHHHHHhCCCceEEEecc
Confidence 568999863 111 122345666676653 45666654 4456889999999999998532
Q ss_pred eeecCcceeeeecccccccceEEEEeccC
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 483 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~~ 483 (843)
. .....+ .+.|+....++++++...
T Consensus 147 ~---~~~~~l-~~~~l~~~~~~lv~~~~~ 171 (294)
T PRK03635 147 P---QPVQGC-RVDPLGAMRYLAVASPAF 171 (294)
T ss_pred C---CCCCCc-eeeecccceEEEEEcchH
Confidence 2 112222 467788888888887543
No 335
>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=77.55 E-value=13 Score=40.52 Aligned_cols=85 Identities=7% Similarity=0.117 Sum_probs=60.9
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCC-cchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEc
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQG-RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 139 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~ 139 (843)
..+.++++.+| +++.+|+....+- .+..+.+.+.+++.|+++.....+.++ .+..+....+..+++.++|+||-.+
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavG 91 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEEN--PSLETIMEAVEIAKKFNADFVIGIG 91 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34566777788 8988887655433 345688999999999887644444444 5577888889999999999999877
Q ss_pred Chh--hHHHHH
Q 003167 140 YSR--TGLMVF 148 (843)
Q Consensus 140 ~~~--~~~~i~ 148 (843)
.+. |+.+.+
T Consensus 92 GGSviD~aK~i 102 (357)
T cd08181 92 GGSPLDAAKAI 102 (357)
T ss_pred CchHHHHHHHH
Confidence 653 455444
No 336
>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=77.38 E-value=14 Score=40.78 Aligned_cols=87 Identities=11% Similarity=0.172 Sum_probs=60.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.++++.+| +++.+|+....+.....+.+.+.+++.|+++.....+.+. ....+....+...++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~--~~~~~v~~~~~~~~~~~~D~IIaiGG 88 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAGTPVFAELVQALAAAGVEVEVFDGVLPD--LPRSELCDAASAAARAGPDVIIGLGG 88 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhhcchHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 34667788888 8998888544333477888999999999876543333322 34566777778888899999998765
Q ss_pred h--hhHHHHHHH
Q 003167 141 S--RTGLMVFDV 150 (843)
Q Consensus 141 ~--~~~~~i~~~ 150 (843)
+ -|+.+++..
T Consensus 89 GS~iD~aK~ia~ 100 (386)
T cd08191 89 GSCIDLAKIAGL 100 (386)
T ss_pred chHHHHHHHHHH
Confidence 4 355555543
No 337
>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=77.34 E-value=11 Score=41.44 Aligned_cols=86 Identities=15% Similarity=0.182 Sum_probs=61.5
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.+.++.+|-+++.+++....+-....+.+.+.|++.|+++.....+..+ .+...+...+..+++.++|+||-.+.
T Consensus 17 ~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 94 (377)
T cd08176 17 KEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPN--PTITNVKDGLAVFKKEGCDFIISIGG 94 (377)
T ss_pred HHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4466778888888988887544333367888999999999876544344444 55677888889999999999997765
Q ss_pred h--hhHHHHH
Q 003167 141 S--RTGLMVF 148 (843)
Q Consensus 141 ~--~~~~~i~ 148 (843)
+ -|+.+.+
T Consensus 95 GS~iD~aK~i 104 (377)
T cd08176 95 GSPHDCAKAI 104 (377)
T ss_pred cHHHHHHHHH
Confidence 4 3455444
No 338
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=76.87 E-value=79 Score=33.06 Aligned_cols=70 Identities=16% Similarity=0.194 Sum_probs=48.4
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+..+++..+.+..+ .+.+.... .+.++++..+.+|++|+++..... ....++ +.|+....+++++++
T Consensus 103 ~~l~~~~~~~~~~~p-~v~i~~~~-------~~~~~~~~~l~~~~~D~~i~~~~~---~~~~l~-~~~l~~~~~~~v~~~ 170 (296)
T PRK09906 103 NLLPKVLPMFRLRHP-DTLIELVS-------LITTQQEEKLRRGELDVGFMRHPV---YSDEID-YLELLDEPLVVVLPV 170 (296)
T ss_pred hHHHHHHHHHHHHCC-CeEEEEEe-------CCcHHHHHHHHcCCeeEEEecCCC---CCCCce-EEEEecccEEEEecC
Confidence 344677777777764 35566554 456889999999999999864432 223343 368888889998876
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 171 ~~ 172 (296)
T PRK09906 171 DH 172 (296)
T ss_pred CC
Confidence 65
No 339
>PRK10537 voltage-gated potassium channel; Provisional
Probab=76.62 E-value=5.5 Score=43.69 Aligned_cols=56 Identities=20% Similarity=0.275 Sum_probs=42.3
Q ss_pred CCcccchhhHHHHHHHHhhcc--cccccccchhHHHHHHHHHHHHHHhhhhcceeeee
Q 003167 528 PPRKQIVTVLWFSFSTMFFAH--RENTVSTLGRVVLIIWLFVVLIITSSYTASLTSIL 583 (843)
Q Consensus 528 ~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~L 583 (843)
+...++.+++||++.++.--| .-.|.+..+|++.+++.++++.+..+..+.++..+
T Consensus 164 ~~~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p~ 221 (393)
T PRK10537 164 PPIESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGPV 221 (393)
T ss_pred cCCCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445679999999999888665 33688888999999999998876655555554433
No 340
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=76.45 E-value=16 Score=37.27 Aligned_cols=100 Identities=16% Similarity=0.243 Sum_probs=57.1
Q ss_pred HHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh
Q 003167 62 AIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 141 (843)
Q Consensus 62 ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~ 141 (843)
.+.+++++++.+++.+|+..+.| ....+.+.+.++..|+++......... .+..+......+++..++|+|+-.+.+
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~-~~~g~~v~~~l~~~g~~v~~~~~~~~~--~~~~~~~~~~~~~~~~~~d~ii~vGgG 85 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY-KAAGEKVEESLKSAGIEVAVIEEFVGD--ADEDEVEKLVEALRPKDADLIIGVGGG 85 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH-HHHHHHHHHHHHTTT-EEEEEE-EE-----BHHHHHHHHTTS--TT--EEEEEESH
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH-HHHHHHHHHHHHHcCCeEEEEecCCCC--CCHHHHHHHHHHhcccCCCEEEEeCCc
Confidence 35677888888999999866543 445577888899999988744322222 335556666667767789999988876
Q ss_pred hhHHHHHHHHHHcCCcccceEEEEeC
Q 003167 142 RTGLMVFDVAQRLGMMDSGYVWIATT 167 (843)
Q Consensus 142 ~~~~~i~~~a~~~g~~~~~~~~i~~~ 167 (843)
.-.-..=-.|.++|+ +|+-+.|.
T Consensus 86 ~i~D~~K~~A~~~~~---p~isVPTa 108 (250)
T PF13685_consen 86 TIIDIAKYAAFELGI---PFISVPTA 108 (250)
T ss_dssp HHHHHHHHHHHHHT-----EEEEES-
T ss_pred HHHHHHHHHHHhcCC---CEEEeccc
Confidence 533222223445553 45666654
No 341
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=76.15 E-value=49 Score=31.79 Aligned_cols=86 Identities=13% Similarity=0.023 Sum_probs=57.0
Q ss_pred HhHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhc--CcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEE
Q 003167 58 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVI 135 (843)
Q Consensus 58 ~~~~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~vi 135 (843)
.....+.+.....+ .++.++.... +.++.+.+.+++. |++|+... .. .++.+-..++++|.+++||++
T Consensus 35 dl~~~l~~~~~~~~-~~vfllG~~~----~v~~~~~~~l~~~yP~l~i~g~~---g~--f~~~~~~~i~~~I~~s~~dil 104 (177)
T TIGR00696 35 DLMEELCQRAGKEK-LPIFLYGGKP----DVLQQLKVKLIKEYPKLKIVGAF---GP--LEPEERKAALAKIARSGAGIV 104 (177)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCH----HHHHHHHHHHHHHCCCCEEEEEC---CC--CChHHHHHHHHHHHHcCCCEE
Confidence 34555555555556 5788887544 3566666777665 78887651 11 124455678999999999999
Q ss_pred EEEcChhhHHHHHHHHHH
Q 003167 136 VVHGYSRTGLMVFDVAQR 153 (843)
Q Consensus 136 v~~~~~~~~~~i~~~a~~ 153 (843)
++.+..+.-..++.+.+.
T Consensus 105 ~VglG~PkQE~~~~~~~~ 122 (177)
T TIGR00696 105 FVGLGCPKQEIWMRNHRH 122 (177)
T ss_pred EEEcCCcHhHHHHHHhHH
Confidence 998877666666655433
No 342
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B.
Probab=75.84 E-value=8.1 Score=38.53 Aligned_cols=104 Identities=14% Similarity=0.120 Sum_probs=48.9
Q ss_pred CCCeEEEEeCchHHHHHHHhhCCCCcc--eEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEe--CC--cc-
Q 003167 601 SNDRVGYQVGSFAENYLIEELSIPKSR--LVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVR--GQ--EF- 673 (843)
Q Consensus 601 ~~~~i~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~--~~--~~- 673 (843)
.|.+||+-..|.....+.+.. +...+ +++. ...++++.+.+|.+||.+..... .- .+.-++... .. ..
T Consensus 113 dGmRVGiD~~S~Dq~~LT~~~-~~gk~Ve~Vei-~Y~q~~~~l~~g~IDA~IWN~d~--i~-~~~~~l~~~~l~~~~~~~ 187 (232)
T PF14503_consen 113 DGMRVGIDPSSIDQKILTEAE-FEGKNVEFVEI-PYNQLLELLRSGEIDAAIWNYDE--IE-DKNFGLKYVPLKDDPMSK 187 (232)
T ss_dssp ---EEEE-TT-HHHHHHHHHH-HTTS--EEEE---HHHHHHHHHHTS--EEEEE--H--HC-CHHCTEEEEE--SSCHHH
T ss_pred eeeEeecCCCCccHHHHHHHH-hCCCceEEEEe-cHHHHHHHHHCCCccEEEECCcc--cc-cccCCeeEEeCCchHHHH
Confidence 478999999998887776533 22233 4443 56789999999999999987651 11 111223322 22 11
Q ss_pred ccCcceeeecCCCC-chHHHHHHHHhhhccccHHHHHHhhc
Q 003167 674 TKSGWGFAFPRDSP-LAIDMSTAILTLSENGELQRIHDKWL 713 (843)
Q Consensus 674 ~~~~~~~~~~k~sp-l~~~in~~i~~l~e~G~~~~~~~kw~ 713 (843)
....-.++++|+.+ +...+++ +.....+-.++++-.
T Consensus 188 ~~seAVivi~~~~~~i~~ll~~----~id~~~vl~iQ~~V~ 224 (232)
T PF14503_consen 188 DASEAVIVIRKDNEPIKALLRK----LIDVEKVLEIQKKVL 224 (232)
T ss_dssp HTT-EEEEEETT-HHHHHHHHH----H--HHHHHHHHHHHH
T ss_pred hcCeeEEEEeCCCHHHHHHHHH----hcCHHHHHHHHHHHH
Confidence 12344677788875 4433332 333344444554443
No 343
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=75.68 E-value=33 Score=36.15 Aligned_cols=79 Identities=28% Similarity=0.183 Sum_probs=48.5
Q ss_pred CCCCChHHhhhCCCeEEEEe-Cc----hHHHHHHHhhCCCCcceEe--CCCHHHHHHHHhcCCcEEEEcChhh---HHHH
Q 003167 590 SPIKGIDTLMTSNDRVGYQV-GS----FAENYLIEELSIPKSRLVA--LGSPEEYAIALENRTVAAVVDERPY---IDLF 659 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~~-~~----~~~~~l~~~~~~~~~~~~~--~~~~~~~~~~l~~g~~~a~~~~~~~---~~~~ 659 (843)
..|++++||. |++|++.. || ..+..| +.+++....... .-...+..+++++|.+||.+.-... .-..
T Consensus 127 ~~Ikti~DL~--GKrV~iG~~gSgt~~~a~~il-~a~Gi~~~~~~~~~~~~~a~~~~~l~~g~iDA~~~~~G~p~~ai~e 203 (321)
T COG2358 127 AGIKTIADLK--GKRVAIGPPGSGTEATARQIL-EALGITYDDYELDLGLGDAESADALKNGTIDAAFYVAGVPNPAISE 203 (321)
T ss_pred CCcceehhcC--CCEEeecCCCCccHHHHHHHH-HHcCCCCcchhhhhhcCchhhHHHhhCCcccEEEEecCCCCccHHH
Confidence 5799999995 99998863 33 223333 566666544322 1133455888999999998764321 2233
Q ss_pred HhcCCCeEEeCC
Q 003167 660 LSDHCQFSVRGQ 671 (843)
Q Consensus 660 ~~~~~~l~~~~~ 671 (843)
+...|++.++.-
T Consensus 204 l~~~~~i~lv~i 215 (321)
T COG2358 204 LATTCDIVLVPI 215 (321)
T ss_pred HHhhCCeEEEeC
Confidence 455677666643
No 344
>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=75.66 E-value=67 Score=33.30 Aligned_cols=135 Identities=13% Similarity=0.105 Sum_probs=67.9
Q ss_pred HhcccCCCcEEecccCCCCCCCCCCC-ceEEcCCChHHhHHHHHHHHHHc--CCcEEEEEEecCC-CCcchHHHHHHHHH
Q 003167 22 HLANELQVPLLSFTALDPTLSPLQYP-FFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD-QGRNGVTALGDKLA 97 (843)
Q Consensus 22 ~~~~~~~vP~Is~~at~~~ls~~~~p-~~fR~~p~d~~~~~ai~~ll~~~--~w~~v~ii~~d~~-~g~~~~~~l~~~l~ 97 (843)
..+.+.++|+|......+. .....+ .+-.+..++...+..++++|... |-++++++..... ......+.++..++
T Consensus 75 ~~~~~~~iPvV~~d~~~~~-~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~~~~r~~~~~~~~~ 153 (280)
T cd06315 75 ELAQKAGIPVVGWHAGPEP-GPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSIAKAKANAMKEIIE 153 (280)
T ss_pred HHHHHCCCCEEEecCCCCC-CcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCccHHHHHHHHHHHHH
Confidence 3456689999987553211 000011 13345566666777788877665 8899999864321 11111234444443
Q ss_pred hc-CcEEEEeeecCCCCCCChhHHHHHHHHHhcC---CCeEEEEEcChhhHHHHHHHHHHcCCcccc
Q 003167 98 EI-RCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGMMDSG 160 (843)
Q Consensus 98 ~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~viv~~~~~~~~~~i~~~a~~~g~~~~~ 160 (843)
.. +..+......... .........++++.+. .+++| ++++...+..+++.+++.|+..++
T Consensus 154 a~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai-~~~~D~~A~g~~~~l~~~g~~~p~ 217 (280)
T cd06315 154 ACKGCTVLSIEDVPIS--RTATRMPALTARLLQRYGDKWTHS-LAINDLYFDYMAPPLASAGRKADE 217 (280)
T ss_pred hCCCCEEEEecccCcc--hhhhhhHHHHHHHHHhcCccccee-cccchhhhHHhHHHHHHhcccCCC
Confidence 32 3333211111111 1111111334444332 35654 445556677788999999986543
No 345
>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=75.52 E-value=10 Score=41.10 Aligned_cols=84 Identities=12% Similarity=0.126 Sum_probs=60.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.++++.++ +++.+|+....+. ...+.+.+.+++.|+.+.+. .+..+ .+..+....++.+++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~~-~~~~~v~~~L~~~~i~~~~~-~~~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 86 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVLD-LVGAKIEESLAAAGIDARFE-VFGGE--CTRAEIERLAEIARDNGADVVIGIGG 86 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHHH-HHHHHHHHHHHhCCCeEEEE-EeCCc--CCHHHHHHHHHHHhhcCCCEEEEecC
Confidence 34566777776 8988888544443 77888999999999887643 35444 45678888889999999999998775
Q ss_pred hh--hHHHHHH
Q 003167 141 SR--TGLMVFD 149 (843)
Q Consensus 141 ~~--~~~~i~~ 149 (843)
+. |+.+++.
T Consensus 87 GS~iD~aK~ia 97 (351)
T cd08170 87 GKTLDTAKAVA 97 (351)
T ss_pred chhhHHHHHHH
Confidence 53 4444443
No 346
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=75.04 E-value=1.1e+02 Score=31.84 Aligned_cols=85 Identities=15% Similarity=0.181 Sum_probs=52.8
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
+.++||+... + ...+..+++..+.+..+ .+.+.... .+-++++.+|.+|++|+++...
T Consensus 97 ~~l~I~~~~~--~------------~~~~l~~~l~~f~~~~p-~i~l~i~~-------~~~~~~~~~l~~g~~D~~i~~~ 154 (294)
T PRK09986 97 GRIEIGIVGT--A------------LWGRLRPAMRHFLKENP-NVEWLLRE-------LSPSMQMAALERRELDAGIWRM 154 (294)
T ss_pred ceEEEEEehH--H------------hHHHHHHHHHHHHHhCC-CeEEEEEe-------CCHHHHHHHHHcCCCCEEEecC
Confidence 5689988641 1 11334667777777765 24455543 3457889999999999988521
Q ss_pred eeecCcceeeeecccccccceEEEEeccC
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 483 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~~ 483 (843)
. .......+. +.|+....+++++++..
T Consensus 155 ~-~~~~~~~l~-~~~l~~~~~~~v~~~~~ 181 (294)
T PRK09986 155 A-DLEPNPGFT-SRRLHESAFAVAVPEEH 181 (294)
T ss_pred C-ccCCCCCeE-EEEeecccEEEEEcCCC
Confidence 1 011223343 36667788888887765
No 347
>PRK10677 modA molybdate transporter periplasmic protein; Provisional
Probab=75.02 E-value=27 Score=35.98 Aligned_cols=71 Identities=25% Similarity=0.201 Sum_probs=42.0
Q ss_pred eHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCc-ccEEEeceeeecCcc---eee-eec-ccccccceEE
Q 003167 404 CIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGV-FDAAVGDIAIVTNRT---KAV-DFT-QPYIESGLVV 477 (843)
Q Consensus 404 ~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~-~Di~~~~~~i~~~r~---~~v-dfs-~p~~~~~~~~ 477 (843)
.-++.+.+.++.|.++.+.+- .-..+..++..|. +|+.+.+-....++. ..+ ..+ .+|....+++
T Consensus 41 ~~~l~~~Fe~~~g~~v~~~~~---------~Sg~l~~qi~~g~~~Dv~~~a~~~~~~~l~~~gl~~~~~~~~~a~n~lvl 111 (257)
T PRK10677 41 LQDIAAQYKKEKGVDVVSSFA---------SSSTLARQIEQGAPADLFISADQKWMDYAVDKKAIDTATRYTLLGNSLVV 111 (257)
T ss_pred HHHHHHHHHhhhCCeEEEEec---------ccHHHHHHHHcCCCCCEEEECCHHHHHHHHHCCCCCCcchheeecCEEEE
Confidence 345666666766766555442 2346778888877 999887542212111 122 222 3577778888
Q ss_pred EEeccC
Q 003167 478 VAPVRK 483 (843)
Q Consensus 478 ~v~~~~ 483 (843)
++++..
T Consensus 112 ~~~~~~ 117 (257)
T PRK10677 112 VAPKAS 117 (257)
T ss_pred EEECCC
Confidence 888764
No 348
>PRK13583 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=74.74 E-value=49 Score=33.07 Aligned_cols=92 Identities=13% Similarity=0.122 Sum_probs=55.1
Q ss_pred CCCChHHhhh--------CC--CeEEEEeCchHHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHH
Q 003167 591 PIKGIDTLMT--------SN--DRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFL 660 (843)
Q Consensus 591 ~i~s~~dL~~--------~~--~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~ 660 (843)
.+++++||.. .+ .+|+...-.....||. ..+.....++.....-|. +-..|-.|++++-.....-+.
T Consensus 110 ~~~~~~dl~~~~~~~~~~~g~~~RIATkYp~it~~yf~-~~Gv~~~~Iv~l~GsvEl--aP~~GlAD~IvDivsTG~TLr 186 (228)
T PRK13583 110 DVDTMADLDDVAADFRARHGRRLRIATKYWRLTQQFLS-QKGVQDYRIVESLGATEG--APANGSAEIIVDITSTGETLR 186 (228)
T ss_pred ccCCHHHhhhhhhhhhhccCCceEEEeCCHHHHHHHHH-HcCCceeEEEECCCceec--ccccCcchhhhhhhchhHHHH
Confidence 5677777751 12 4788877778888994 456653356655444443 233467777777655554443
Q ss_pred hcCCCeEEeC-CccccCcceeeecCCCC
Q 003167 661 SDHCQFSVRG-QEFTKSGWGFAFPRDSP 687 (843)
Q Consensus 661 ~~~~~l~~~~-~~~~~~~~~~~~~k~sp 687 (843)
+ .+|.+++ +......-.+..++.|.
T Consensus 187 ~--NgL~~i~~~~Il~SsA~LI~n~~s~ 212 (228)
T PRK13583 187 A--NHLKILSDGVILRSQACLVRARKAD 212 (228)
T ss_pred H--CCCEEecCceEEEEEEEEEEecccc
Confidence 2 3577776 34445555666677764
No 349
>cd08187 BDH Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. The butanol dehydrogenase (BDH) is involved in the final step of the butanol formation pathway in anaerobic micro-organism. Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. Activity in the reverse direction was 50-fold lower than that in the forward direction. The NADH-BDH had higher activity with longer chained aldehydes and was inhibited by metabolites containing an adenine moiety. This protein family belongs to the so-called iron-containing alcohol dehydrogenase superfamily. Since members of this superfamily use different divalent ions, preferentially iron or zinc, it has been suggested to be renamed to family III metal-dependent polyol dehydrogenases.
Probab=74.31 E-value=15 Score=40.30 Aligned_cols=85 Identities=12% Similarity=0.157 Sum_probs=59.9
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCC-CcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEc
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQ-GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 139 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~-g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~ 139 (843)
+.+.++++.++ +++.+|.....+ ..+..+.+.+.|++.|+++.....+.++ .+..+....+..+++.++|+||-.+
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 94 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPN--PRLETVREGIELCKEEKVDFILAVG 94 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCC--CCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 34566777775 888888754333 2356788999999999887644444444 4567888889999999999999776
Q ss_pred Ch--hhHHHHH
Q 003167 140 YS--RTGLMVF 148 (843)
Q Consensus 140 ~~--~~~~~i~ 148 (843)
.+ -|+.+++
T Consensus 95 GGS~iD~aK~i 105 (382)
T cd08187 95 GGSVIDSAKAI 105 (382)
T ss_pred ChHHHHHHHHH
Confidence 54 3555444
No 350
>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=74.26 E-value=25 Score=33.96 Aligned_cols=94 Identities=16% Similarity=0.181 Sum_probs=51.6
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccCC--CcE-EecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEE
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANELQ--VPL-LSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAI 78 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~~--vP~-Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii 78 (843)
.+++.++||.+|+-+..+..+++... .+. ++++.-.|.-.+ .+-.|.|-+ . +.+-++++.-.+=..+-
T Consensus 2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~TTR~~r~~E~~g~~y~fvs---~----~~f~~~~~~~~fie~~~- 73 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHTTRPPRPGEVDGVDYHFVS---K----EEFERMIKAGEFIEYGE- 73 (183)
T ss_dssp SSEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEESS-GGTTS-TTTSEEE-----H----HHHHHHHHTTHEEEEEE-
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhcccccccceeecccCCcccccCCcceEEEe---e----chhhhhhccccEEEEee-
Confidence 57899999999998888777877653 433 343333333333 344566642 1 12222332221112222
Q ss_pred EecCCCCcchHHHHHHHHHhcCcEEEE
Q 003167 79 FNDDDQGRNGVTALGDKLAEIRCKISY 105 (843)
Q Consensus 79 ~~d~~~g~~~~~~l~~~l~~~g~~v~~ 105 (843)
|.++-||.. .+.+.+.+++...++..
T Consensus 74 ~~g~~YGt~-~~~i~~~~~~gk~~il~ 99 (183)
T PF00625_consen 74 YDGNYYGTS-KSAIDKVLEEGKHCILD 99 (183)
T ss_dssp ETTEEEEEE-HHHHHHHHHTTTEEEEE
T ss_pred ecchhhhhc-cchhhHhhhcCCcEEEE
Confidence 445667755 47778888877776663
No 351
>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=74.25 E-value=81 Score=29.90 Aligned_cols=71 Identities=14% Similarity=0.125 Sum_probs=45.3
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.+..+ .++++... ++.+.++.++.+|++|+++...... ....+ .+.++....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~g~~D~~i~~~~~~--~~~~~-~~~~l~~~~~~~v~~~ 81 (195)
T cd08431 13 QPLYPLIAEFYQLNK-ATRIRLSE-------EVLGGTWDALASGRADLVIGATGEL--PPGGV-KTRPLGEVEFVFAVAP 81 (195)
T ss_pred HHHHHHHHHHHHHCC-CCceEEEE-------eccchHHHHHhCCCCCEEEEecCCC--CCCce-EEEecccceEEEEEcC
Confidence 455788888888875 24555554 3456889999999999998632111 11122 2456666777777766
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 82 ~h 83 (195)
T cd08431 82 NH 83 (195)
T ss_pred CC
Confidence 54
No 352
>cd08182 HEPD Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP). Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP) with either NADH or NADPH as a cofactor. NADH is the preferred cofactor. PnAA is a biosynthetic intermediate for several phosphonates such as the antibiotic fosfomycin, phosphinothricin tripeptide (PTT), and 2-aminoethylphosphonate (AEP). This enzyme is named PhpC in PTT biosynthesis pathway in Streptomyces hygroscopicus and S. viridochromogenes. Members of this family are only found in bacteria.
Probab=74.07 E-value=17 Score=39.79 Aligned_cols=86 Identities=10% Similarity=0.133 Sum_probs=60.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.++++.+|.+++.+|+....+ ..+.+.+.+++.|+.+.....+..+ .+.+.....+..+++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 86 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA---IASGLTDILKPLGTLVVVFDDVQPN--PDLEDLAAGIRLLREFGPDAVLAVGG 86 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH---HHHHHHHHHHHcCCeEEEEcCcCCC--cCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 346677788888999999865544 5567788888888766544444444 45677888888899899999997765
Q ss_pred h--hhHHHHHHHH
Q 003167 141 S--RTGLMVFDVA 151 (843)
Q Consensus 141 ~--~~~~~i~~~a 151 (843)
+ -|+.+++...
T Consensus 87 Gs~~D~aK~ia~~ 99 (367)
T cd08182 87 GSVLDTAKALAAL 99 (367)
T ss_pred cHHHHHHHHHHHH
Confidence 4 4555555443
No 353
>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=73.85 E-value=83 Score=29.85 Aligned_cols=99 Identities=11% Similarity=0.024 Sum_probs=52.6
Q ss_pred CCChHHhhhCCCe-EEEEeCchHH-HHHHHhhCCCC--cceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeE
Q 003167 592 IKGIDTLMTSNDR-VGYQVGSFAE-NYLIEELSIPK--SRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFS 667 (843)
Q Consensus 592 i~s~~dL~~~~~~-i~~~~~~~~~-~~l~~~~~~~~--~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~ 667 (843)
..+++||. +.+ |....+.... .++...++... .....+++.+.....+..|..-+++.+.. +..... ...+.
T Consensus 89 ~i~~~~L~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~G~Gi~~lp~~~-~~~~~~-~~~l~ 164 (195)
T cd08428 89 GLTREALL--KAPAVAFNRKDDLHQSFLQQHFGLPPGSYPCHYVPSSEAFVDLAAQGLAYGMIPELQ-IEPELA-SGELI 164 (195)
T ss_pred CCCHHHHh--cCcEEEEcCCCchhHHHHHHHhccCCCCceEEEECCHHHHHHHHHhCCeeEeccHHH-HHHHhc-CCCEE
Confidence 35678886 443 4444444332 34433333222 22345788888999999887756665433 332222 22344
Q ss_pred EeCCccccCcceeeecCCCCchHHHHHH
Q 003167 668 VRGQEFTKSGWGFAFPRDSPLAIDMSTA 695 (843)
Q Consensus 668 ~~~~~~~~~~~~~~~~k~spl~~~in~~ 695 (843)
.+.+. ....++++.+++.+....+...
T Consensus 165 ~l~~~-~~~~~~l~~~~~~~~s~~~~~~ 191 (195)
T cd08428 165 DLAPG-HLLRVTLYWHRWNLESGLMKRL 191 (195)
T ss_pred EccCc-ccccceEEEecccccCHHHHHh
Confidence 44332 3456778888886655444433
No 354
>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=73.62 E-value=15 Score=37.99 Aligned_cols=77 Identities=5% Similarity=0.026 Sum_probs=55.0
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC-hhhHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVA 151 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~-~~~~~~i~~~a 151 (843)
|+++.. ++.|.......+.+++++.|.++.... .. .+.......+..+.+.++|.||+... .......++.+
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~---~~--~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~ 76 (273)
T cd06305 2 IAVVRYGGSGDFDQAYLAGTKAEAEALGGDLRVYD---AG--GDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRA 76 (273)
T ss_pred eEEEeecCCCcHHHHHHHHHHHHHHHcCCEEEEEC---CC--CCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHH
Confidence 566665 577888899999999999999987632 22 22445556777777789999998753 33345667788
Q ss_pred HHcCC
Q 003167 152 QRLGM 156 (843)
Q Consensus 152 ~~~g~ 156 (843)
.+.|+
T Consensus 77 ~~~~i 81 (273)
T cd06305 77 LDAGI 81 (273)
T ss_pred HHcCC
Confidence 88775
No 355
>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=73.43 E-value=84 Score=29.72 Aligned_cols=70 Identities=17% Similarity=0.205 Sum_probs=45.9
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.+..+ .++++... ++...++..+.+|++|+++..... . ...+ ...+.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~--~-~~~~-~~~~l~~~~~~~~~~~ 80 (196)
T cd08450 13 QWLPEVLPILREEHP-DLDVELSS-------LFSPQLAEALMRGKLDVAFMRPEI--Q-SDGI-DYQLLLKEPLIVVLPA 80 (196)
T ss_pred hhHHHHHHHHHhhCC-CcEEEEEe-------cChHHHHHHHhcCCccEEEEeCCC--C-CCCc-EEEEEEccceEEEecC
Confidence 445677888887765 24555554 456789999999999999853211 1 1222 2456677778887776
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (196)
T cd08450 81 DH 82 (196)
T ss_pred CC
Confidence 54
No 356
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=73.07 E-value=37 Score=34.53 Aligned_cols=86 Identities=13% Similarity=0.030 Sum_probs=54.6
Q ss_pred hHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHh-cCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEE
Q 003167 59 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVV 137 (843)
Q Consensus 59 ~~~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~ 137 (843)
....+.+.....| .+|.++..+.+ .++.+.+.+++ .|+.|+....=.. +..+...++.+|.+++||++++
T Consensus 93 l~~~ll~~~~~~~-~~v~llG~~~~----v~~~a~~~l~~~y~l~i~g~~~Gyf----~~~e~~~i~~~I~~s~~dil~V 163 (243)
T PRK03692 93 LWEALMARAGKEG-TPVFLVGGKPE----VLAQTEAKLRTQWNVNIVGSQDGYF----TPEQRQALFERIHASGAKIVTV 163 (243)
T ss_pred HHHHHHHHHHhcC-CeEEEECCCHH----HHHHHHHHHHHHhCCEEEEEeCCCC----CHHHHHHHHHHHHhcCCCEEEE
Confidence 3444555555555 67888875543 45555555543 3788775432111 2455667899999999999999
Q ss_pred EcChhhHHHHHHHHHH
Q 003167 138 HGYSRTGLMVFDVAQR 153 (843)
Q Consensus 138 ~~~~~~~~~i~~~a~~ 153 (843)
.+..+.-..++...++
T Consensus 164 glG~PkQE~~~~~~~~ 179 (243)
T PRK03692 164 AMGSPKQEIFMRDCRL 179 (243)
T ss_pred ECCCcHHHHHHHHHHH
Confidence 8887666666655544
No 357
>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=72.53 E-value=41 Score=31.88 Aligned_cols=97 Identities=7% Similarity=-0.066 Sum_probs=49.8
Q ss_pred ChHHhhhCCCeEEEEeCchHHHHHHHhh---CCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeE-Ee
Q 003167 594 GIDTLMTSNDRVGYQVGSFAENYLIEEL---SIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFS-VR 669 (843)
Q Consensus 594 s~~dL~~~~~~i~~~~~~~~~~~l~~~~---~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~-~~ 669 (843)
+++||.+... +....+......+.+.. +.........++.+...+.+..|..-+++-+.. +.....+. .+. ..
T Consensus 87 ~~~~l~~~~~-i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~gi~~lp~~~-~~~~~~~~-~l~~~~ 163 (194)
T cd08432 87 SPADLARHTL-LHDATRPEAWQWWLWAAGVADVDARRGPRFDDSSLALQAAVAGLGVALAPRAL-VADDLAAG-RLVRPF 163 (194)
T ss_pred CHHHhhcCce-EEecCcccccHHHHhcCCeeccccCCeEEECCHHHHHHHHHhCCCeEEeeHHH-hhhhhcCC-ceEecc
Confidence 7888863322 33333322233332212 222233456788899999999887766665543 33322222 222 22
Q ss_pred CC-ccccCcceeeecCCCCchHHHH
Q 003167 670 GQ-EFTKSGWGFAFPRDSPLAIDMS 693 (843)
Q Consensus 670 ~~-~~~~~~~~~~~~k~spl~~~in 693 (843)
.. ......++++.+++.+......
T Consensus 164 ~~~~~~~~~~~~~~~~~~~~~~~~~ 188 (194)
T cd08432 164 DLPLPSGGAYYLVYPPGRAESPAVA 188 (194)
T ss_pred ccccCCCCCEEEEeccccccchHHH
Confidence 22 2234567788888765444433
No 358
>TIGR00035 asp_race aspartate racemase.
Probab=72.21 E-value=21 Score=35.97 Aligned_cols=42 Identities=12% Similarity=-0.019 Sum_probs=28.0
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEE
Q 003167 60 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKIS 104 (843)
Q Consensus 60 ~~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~ 104 (843)
.++.++.++..|.++|+++..... -....+++.+++.|+++.
T Consensus 105 ~~~~~~~~~~~~~~~VgvLaT~~T---~~s~~y~~~l~~~g~~v~ 146 (229)
T TIGR00035 105 IEETAEAVKEDGVKKAGLLGTKGT---MKDGVYEREMKKHGIEIV 146 (229)
T ss_pred HHHHHHHHHHcCCCEEEEEecHHH---HHhHHHHHHHHHCCCEEE
Confidence 445555566678899999975422 123457888888887765
No 359
>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=71.91 E-value=14 Score=38.16 Aligned_cols=78 Identities=10% Similarity=0.065 Sum_probs=56.5
Q ss_pred EEEEEEe--cCCCCcchHHHHHHHHHh-cCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHHH
Q 003167 74 EVIAIFN--DDDQGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFD 149 (843)
Q Consensus 74 ~v~ii~~--d~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~~ 149 (843)
+|++|.. +++|.....+.+.+++++ .|.++..... . .+.......+..+.+.++|.+++...... ...++.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~ 75 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGVELQFEDA---K--NDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVK 75 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCcEEEEeCC---C--CCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHH
Confidence 4677776 467888889999999999 8988886432 1 23556667788888889999988765432 445677
Q ss_pred HHHHcCC
Q 003167 150 VAQRLGM 156 (843)
Q Consensus 150 ~a~~~g~ 156 (843)
++.+.|.
T Consensus 76 ~l~~~~i 82 (272)
T cd06301 76 AANAAGI 82 (272)
T ss_pred HHHHCCC
Confidence 7777664
No 360
>cd08186 Fe-ADH8 Iron-containing alcohol dehydrogenase. Type III Iron-containing alcohol dehydrogenases (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. The ADH of hyperthermophilic archaeon Thermococcus hydrothermalis oxidizes a series of primary aliphatic and aromatic alcohols preferentially from C2 to C8 but is also active towards methanol and glycerol and stereospecific for monoterpenes. It was suggested that the type III ADHs in microorganisms are involved in acetaldehyde detoxication rather than in alcohol turnover.
Probab=71.69 E-value=19 Score=39.53 Aligned_cols=88 Identities=14% Similarity=0.143 Sum_probs=61.4
Q ss_pred HHHHHHHHHc---CCcEEEEEEecCCCC-cchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEE
Q 003167 61 SAIAEMVSYF---GWGEVIAIFNDDDQG-RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 136 (843)
Q Consensus 61 ~ai~~ll~~~---~w~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv 136 (843)
..+.++++.+ |.+++.+|+....+. .+..+.+.+.+++.|+.+.....+.++ .+.+++...+..+++.++|+||
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~II 89 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPN--PTVDQVDEAAKLGREFGAQAVI 89 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHHcCCCEEE
Confidence 3455667666 788999888544443 345788999999999876544344444 5567888889999999999999
Q ss_pred EEcCh--hhHHHHHHH
Q 003167 137 VHGYS--RTGLMVFDV 150 (843)
Q Consensus 137 ~~~~~--~~~~~i~~~ 150 (843)
..+.+ -|+.+++..
T Consensus 90 aiGGGS~iD~aK~ia~ 105 (383)
T cd08186 90 AIGGGSPIDSAKSAAI 105 (383)
T ss_pred EeCCccHHHHHHHHHH
Confidence 76543 455555544
No 361
>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=71.42 E-value=94 Score=29.45 Aligned_cols=70 Identities=14% Similarity=0.142 Sum_probs=46.2
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
++..+++..+.++.+ .++++... +.+..+..++.+|++|+++..... ....+ -+.++....++++++.
T Consensus 14 ~~l~~~i~~~~~~~P-~v~l~i~~-------~~~~~~~~~l~~~~~Dl~i~~~~~---~~~~~-~~~~l~~~~~~~v~~~ 81 (198)
T cd08446 14 DTVPRLLRAFLTARP-DVTVSLHN-------MTKDEQIEALRAGRIHIGFGRFYP---VEPDI-AVENVAQERLYLAVPK 81 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEee-------CCHHHHHHHHHCCCccEEEEecCC---CCCCc-eeEEeeeccEEEEEeC
Confidence 345677888877765 35566554 567889999999999999863221 11112 2456677778877776
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 82 ~~ 83 (198)
T cd08446 82 SH 83 (198)
T ss_pred CC
Confidence 54
No 362
>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=70.94 E-value=18 Score=39.20 Aligned_cols=85 Identities=16% Similarity=0.121 Sum_probs=58.8
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.+.++.++ +++.+|+....+ ....+.+.+.+++.|+.+.....+..+ .+..+....+...++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~-~~~~~~v~~~l~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~iiavGG 87 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL-AAAKDKIKAALEQSGIEITDFIWYGGE--STYENVERLKKNPAVQEADMIFAVGG 87 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH-HHHHHHHHHHHHHCCCeEEEEEecCCC--CCHHHHHHHHHHHhhcCCCEEEEeCC
Confidence 34566677777 888888754444 345777888898889876644445544 45677778888888899999997765
Q ss_pred h--hhHHHHHH
Q 003167 141 S--RTGLMVFD 149 (843)
Q Consensus 141 ~--~~~~~i~~ 149 (843)
+ -|+.+++.
T Consensus 88 Gs~~D~aK~ia 98 (345)
T cd08171 88 GKAIDTVKVLA 98 (345)
T ss_pred cHHHHHHHHHH
Confidence 4 34555443
No 363
>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=70.75 E-value=22 Score=38.29 Aligned_cols=99 Identities=14% Similarity=0.208 Sum_probs=64.4
Q ss_pred HHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh
Q 003167 62 AIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 141 (843)
Q Consensus 62 ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~ 141 (843)
.+.++++.+|.+++.+|+....+- ...+.+.+.+++. +++........+ .+.++....+..+++.++|+||..+.+
T Consensus 13 ~l~~~~~~~g~~~~liv~~~~~~~-~~~~~v~~~l~~~-~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~IIaiGGG 88 (332)
T cd07766 13 KIGEEIKRGGFDRALVVSDEGVVK-GVGEKVADSLKKL-IAVHIFDGVGPN--PTFEEVKEAVERARAAEVDAVIAVGGG 88 (332)
T ss_pred HHHHHHHhcCCCeEEEEeCCchhh-hHHHHHHHHHHhc-CcEEEeCCcCCC--cCHHHHHHHHHHHHhcCcCEEEEeCCc
Confidence 456677778889999998544433 6778888888876 655433333333 456778888889998999999977654
Q ss_pred --hhHHHHHHHHHHcCCcccceEEEEeC
Q 003167 142 --RTGLMVFDVAQRLGMMDSGYVWIATT 167 (843)
Q Consensus 142 --~~~~~i~~~a~~~g~~~~~~~~i~~~ 167 (843)
-|+.+++......|+ .++-|.|.
T Consensus 89 s~~D~aK~ia~~~~~~~---p~i~iPTt 113 (332)
T cd07766 89 STLDTAKAVAALLNRGL---PIIIVPTT 113 (332)
T ss_pred hHHHHHHHHHHHhcCCC---CEEEEeCC
Confidence 355555544332232 34555544
No 364
>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=70.34 E-value=1e+02 Score=29.37 Aligned_cols=69 Identities=12% Similarity=0.160 Sum_probs=44.9
Q ss_pred EeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEecc
Q 003167 403 YCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 482 (843)
Q Consensus 403 ~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~ 482 (843)
+-.+++..+.+..+ .++++... ++..++..+|.+|++|+++..- ......+. +.++....++++++..
T Consensus 14 ~l~~~l~~~~~~~P-~v~i~i~~-------~~~~~~~~~l~~~~~Dl~i~~~---~~~~~~~~-~~~l~~~~~~lv~~~~ 81 (197)
T cd08452 14 FLPPIVREYRKKFP-SVKVELRE-------LSSPDQVEELLKGRIDIGFLHP---PIQHTALH-IETVQSSPCVLALPKQ 81 (197)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEe-------cChHHHHHHHHCCCccEEEeeC---CCCCCCee-EEEeeeccEEEEEeCC
Confidence 44677888877764 34555554 5578899999999999998521 11222233 3566677777777654
Q ss_pred C
Q 003167 483 K 483 (843)
Q Consensus 483 ~ 483 (843)
.
T Consensus 82 h 82 (197)
T cd08452 82 H 82 (197)
T ss_pred C
Confidence 4
No 365
>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=70.22 E-value=16 Score=37.71 Aligned_cols=80 Identities=10% Similarity=0.016 Sum_probs=54.5
Q ss_pred EEEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHH
Q 003167 74 EVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVA 151 (843)
Q Consensus 74 ~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a 151 (843)
+|++++. ++.|.......+.+++++.|.++.....-. . .+..+....++.+.+.++|.|++.....+....++++
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~~~-~--~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~ 77 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLGVSLKLLEAGG-Y--PNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQ 77 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcCCEEEEecCCC-C--CCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHH
Confidence 3677776 467888889999999999999887642211 1 1234455677788888999999876544332246777
Q ss_pred HHcCC
Q 003167 152 QRLGM 156 (843)
Q Consensus 152 ~~~g~ 156 (843)
.+.|+
T Consensus 78 ~~~gi 82 (268)
T cd06306 78 VAASI 82 (268)
T ss_pred HHCCC
Confidence 77665
No 366
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=69.96 E-value=49 Score=39.26 Aligned_cols=67 Identities=19% Similarity=0.234 Sum_probs=47.4
Q ss_pred cCCcEEEEEEecCC---------CC---cchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEE
Q 003167 70 FGWGEVIAIFNDDD---------QG---RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVV 137 (843)
Q Consensus 70 ~~w~~v~ii~~d~~---------~g---~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~ 137 (843)
|..-+|++|...|+ -| ......+...+++.|.++.....++.+ ..++...+.++.+ ++|+||.
T Consensus 184 ~~~prv~vi~tG~El~~~~~~~~~g~i~dsn~~~l~~~l~~~g~~~~~~~~v~Dd----~~~i~~~l~~~~~-~~D~iIt 258 (633)
T PRK14498 184 YKKPRVGIISTGDELVEPGEPLKPGKIYDVNSYTLAAAVEEAGGEPVRYGIVPDD----EEELEAALRKALK-ECDLVLL 258 (633)
T ss_pred ecCcEEEEEecCccccCCCCCCCCCEEEEChHHHHHHHHHHCCCEEEEEEEeCCC----HHHHHHHHHHHHh-cCCEEEE
Confidence 33457888876544 13 234667888899999998877766654 6778888877754 7999998
Q ss_pred EcCh
Q 003167 138 HGYS 141 (843)
Q Consensus 138 ~~~~ 141 (843)
.+..
T Consensus 259 tGG~ 262 (633)
T PRK14498 259 SGGT 262 (633)
T ss_pred CCCC
Confidence 7654
No 367
>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=69.88 E-value=18 Score=37.43 Aligned_cols=78 Identities=12% Similarity=0.060 Sum_probs=54.9
Q ss_pred EEEEEEec---CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCC-ChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHH
Q 003167 74 EVIAIFND---DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSV-TETDVRNELVKVRMMEARVIVVHGYSRT-GLMVF 148 (843)
Q Consensus 74 ~v~ii~~d---~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~-~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~ 148 (843)
+|+++..+ +.|.....+.+.+++++.|..+..... . . +.......+.++...++|.+++.....+ ....+
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g~~v~~~~~---~--~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l 75 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLGVDVEYRGP---E--TFDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAI 75 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhCCEEEEECC---C--CCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH
Confidence 46677653 578888999999999999998875422 2 1 3455667788888889999988764432 34566
Q ss_pred HHHHHcCC
Q 003167 149 DVAQRLGM 156 (843)
Q Consensus 149 ~~a~~~g~ 156 (843)
+.+.+.|.
T Consensus 76 ~~~~~~~i 83 (271)
T cd06312 76 KRAVAAGI 83 (271)
T ss_pred HHHHHCCC
Confidence 77777664
No 368
>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=69.66 E-value=18 Score=38.42 Aligned_cols=88 Identities=16% Similarity=0.209 Sum_probs=61.1
Q ss_pred cEEEEEEe----cCCCCcchHHHHHHHHHhc-CcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHH
Q 003167 73 GEVIAIFN----DDDQGRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMV 147 (843)
Q Consensus 73 ~~v~ii~~----d~~~g~~~~~~l~~~l~~~-g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i 147 (843)
++++++.. |..|.+...+.+.+..++. |+++...+..+.. ..++...+.++.+.+.|+|+.++..-. ..+
T Consensus 2 ~~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~~~i~~~~~e~~~~~----~~~~~~~~~~~~~~g~dlIi~~g~~~~-~~~ 76 (306)
T PF02608_consen 2 KKVALLDPGGINDKGFNQSAYEGLKRAEKELDGIEIIYVENVPET----DADYEEAIRQLADQGYDLIIGHGFEYS-DAL 76 (306)
T ss_dssp EEEEEESSS-CCCSSHHHHHHHHHHHHHHHCTTEEEEEEES-S-T----CHHHHHHHHHHHHTT-SEEEEESGGGH-HHH
T ss_pred eEEEEEECCCCCCccHHHHHHHHHHHHHHHcCCceEEEEecCCcc----HHHHHHHHHHHHHcCCCEEEEccHHHH-HHH
Confidence 45666664 6678888899999999999 9999988776533 678999999999999999999875432 234
Q ss_pred HHHHHHcCCcccceEEEEeCcc
Q 003167 148 FDVAQRLGMMDSGYVWIATTWL 169 (843)
Q Consensus 148 ~~~a~~~g~~~~~~~~i~~~~~ 169 (843)
.+.|.+ .++..|+..++.
T Consensus 77 ~~vA~~----yPd~~F~~~d~~ 94 (306)
T PF02608_consen 77 QEVAKE----YPDTKFIIIDGY 94 (306)
T ss_dssp HHHHTC-----TTSEEEEESS-
T ss_pred HHHHHH----CCCCEEEEEecC
Confidence 444544 245567766644
No 369
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=69.43 E-value=1.2e+02 Score=31.32 Aligned_cols=83 Identities=13% Similarity=0.051 Sum_probs=55.0
Q ss_pred CeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEece
Q 003167 375 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDI 454 (843)
Q Consensus 375 ~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~ 454 (843)
..++||+.. . ....+-.+++..+.+..+ .+++.... +...+++..|.+|++|+++...
T Consensus 89 ~~l~Ig~~~--~------------~~~~~l~~~l~~f~~~~P-~v~v~~~~-------~~~~~~~~~l~~g~~Dl~i~~~ 146 (275)
T PRK03601 89 NELSIGASA--S------------LWECMLTPWLGRLYQNQE-ALQFEARI-------AQRQSLVKQLHERQLDLLITTE 146 (275)
T ss_pred ceEEEeccH--H------------HHHHHHHHHHHHHHHhCC-CcEEEEEE-------CChHHHHHHHHcCCCCEEEEcC
Confidence 568988874 1 112455677777777654 24555544 5578899999999999999743
Q ss_pred eeecCcceeeeecccccccceEEEEeccC
Q 003167 455 AIVTNRTKAVDFTQPYIESGLVVVAPVRK 483 (843)
Q Consensus 455 ~i~~~r~~~vdfs~p~~~~~~~~~v~~~~ 483 (843)
... . ..+ ...|+....+++++++..
T Consensus 147 ~~~--~-~~l-~~~~l~~~~~~~v~~~~~ 171 (275)
T PRK03601 147 APK--M-DEF-SSQLLGHFTLALYTSAPS 171 (275)
T ss_pred CCc--c-CCc-cEEEecceeEEEEecCch
Confidence 322 1 223 355778888888887654
No 370
>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=69.32 E-value=16 Score=37.19 Aligned_cols=76 Identities=12% Similarity=0.080 Sum_probs=55.6
Q ss_pred EEEEEec--CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|+++..+ +.|.....+.+++++++.|+.+.... .+ .+.......++++.+.++|+|++......... ++.+.
T Consensus 2 i~~v~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~---~~--~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~ 75 (264)
T cd06267 2 IGVIVPDISNPFFAELLRGIEEAAREAGYSVLLCN---SD--EDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELA 75 (264)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHcCCEEEEEc---CC--CCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHH
Confidence 5666654 78889999999999999998877532 22 22445667788888889999998776655554 77777
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|.
T Consensus 76 ~~~i 79 (264)
T cd06267 76 ALGI 79 (264)
T ss_pred HcCC
Confidence 7665
No 371
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=69.16 E-value=23 Score=38.19 Aligned_cols=82 Identities=12% Similarity=0.069 Sum_probs=59.2
Q ss_pred CCcEEEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHH
Q 003167 71 GWGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMV 147 (843)
Q Consensus 71 ~w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i 147 (843)
.-.+++++.. +++|.....+.+++++++.|.++.... +.. .+...-...++.+.+.++|.|++...... ....
T Consensus 22 ~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~~~--~~~--~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~ 97 (336)
T PRK15408 22 AAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTYDG--PTE--PSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPA 97 (336)
T ss_pred CCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEEEC--CCC--CCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHH
Confidence 3457888876 578888889999999999999887532 222 22333346778888899999998764433 4568
Q ss_pred HHHHHHcCC
Q 003167 148 FDVAQRLGM 156 (843)
Q Consensus 148 ~~~a~~~g~ 156 (843)
+++|.+.|.
T Consensus 98 l~~a~~~gI 106 (336)
T PRK15408 98 LKRAMQRGV 106 (336)
T ss_pred HHHHHHCCC
Confidence 888988775
No 372
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=68.00 E-value=21 Score=38.97 Aligned_cols=84 Identities=8% Similarity=0.095 Sum_probs=59.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.+.++.+| +++.+|+....+ ....+.+.+.+++.|+++.+. .+..+ .+.+.....+..+++.++|+||-.+.
T Consensus 19 ~~l~~~l~~~g-~~~livtd~~~~-~~~~~~v~~~l~~~~~~~~~~-~~~~e--p~~~~v~~~~~~~~~~~~d~IIavGG 93 (366)
T PRK09423 19 ARLGEYLKPLG-KRALVIADEFVL-GIVGDRVEASLKEAGLTVVFE-VFNGE--CSDNEIDRLVAIAEENGCDVVIGIGG 93 (366)
T ss_pred HHHHHHHHHcC-CEEEEEEChhHH-HHHHHHHHHHHHhCCCeEEEE-EeCCC--CCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 44666778888 899888854433 346788888898889887543 34444 45667888888888899999998765
Q ss_pred h--hhHHHHHH
Q 003167 141 S--RTGLMVFD 149 (843)
Q Consensus 141 ~--~~~~~i~~ 149 (843)
+ -|+.+++.
T Consensus 94 Gsv~D~aK~iA 104 (366)
T PRK09423 94 GKTLDTAKAVA 104 (366)
T ss_pred hHHHHHHHHHH
Confidence 4 34554443
No 373
>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=67.78 E-value=16 Score=37.07 Aligned_cols=78 Identities=8% Similarity=0.080 Sum_probs=54.5
Q ss_pred EEEEEEec--CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHH
Q 003167 74 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVA 151 (843)
Q Consensus 74 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a 151 (843)
+++++... +.|+......+++++++.|+.+.... .. .+.......++++.+.++|++|+..........+..+
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~g~~l~~~~---~~--~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l 75 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAAGYQVLLAN---SQ--NDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLA 75 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHcCCeEEEEe---CC--CCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHh
Confidence 36777764 67888899999999999998876543 22 2244566778888888999998876544443356666
Q ss_pred HHcCC
Q 003167 152 QRLGM 156 (843)
Q Consensus 152 ~~~g~ 156 (843)
.+.|.
T Consensus 76 ~~~~i 80 (264)
T cd01537 76 RKAGI 80 (264)
T ss_pred hhcCC
Confidence 66554
No 374
>COG4521 TauA ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=65.92 E-value=34 Score=33.99 Aligned_cols=106 Identities=16% Similarity=0.134 Sum_probs=64.7
Q ss_pred CCCCChHHhhhCCCeEEEEeCchHHHHHH---HhhCCCCcceEeCC-CHHHHHHHHhcCCcEEEEcChhhHHHHHhcCC-
Q 003167 590 SPIKGIDTLMTSNDRVGYQVGSFAENYLI---EELSIPKSRLVALG-SPEEYAIALENRTVAAVVDERPYIDLFLSDHC- 664 (843)
Q Consensus 590 ~~i~s~~dL~~~~~~i~~~~~~~~~~~l~---~~~~~~~~~~~~~~-~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~- 664 (843)
..|...+||+ |++|++..-|+...-|. ++.++++.++..++ .+.+...+-++|.+|+.....+.+.-+.....
T Consensus 120 sgI~kpeDL~--GK~iavPFvSTtHysLLaaLkhw~idp~~V~IlNl~Pp~IaAAwqRGDIDgAyVW~PAl~el~ksGkV 197 (334)
T COG4521 120 SGIEKPEDLI--GKRIAVPFVSTTHYSLLAALKHWGIDPGQVEILNLQPPAIAAAWQRGDIDGAYVWAPALSELKKSGKV 197 (334)
T ss_pred CCcCChHHhc--cCeeccceeehhHHHHHHHHHHcCCCccceeEeccCCHHHHHHHHcCCCCceeeccHhHHHHhhcCcE
Confidence 5899999997 99999875544332222 44566665554443 56788889999999988888777766543321
Q ss_pred --CeEEeCCccccCcceeeecCCC----C-chHHHHHHHH
Q 003167 665 --QFSVRGQEFTKSGWGFAFPRDS----P-LAIDMSTAIL 697 (843)
Q Consensus 665 --~l~~~~~~~~~~~~~~~~~k~s----p-l~~~in~~i~ 697 (843)
+-.-++..-.+..-+++++|+. | ....|-+..+
T Consensus 198 ltDs~qvgqwgaPTfdvwVvrkdfAekhPe~v~aFakv~~ 237 (334)
T COG4521 198 LTDSEQVGQWGAPTFDVWVVRKDFAEKHPEVVAAFAKVAL 237 (334)
T ss_pred eccHHHhhccCCCceeeEEeehHhhHhChHHHHHHHHHHH
Confidence 1112233223333467777764 4 4555555443
No 375
>cd08183 Fe-ADH2 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases (Fe-ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is a member of the iron-activated alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown. They are mainly found in bacteria.
Probab=65.84 E-value=31 Score=37.77 Aligned_cols=82 Identities=10% Similarity=0.103 Sum_probs=58.0
Q ss_pred HHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh
Q 003167 62 AIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 141 (843)
Q Consensus 62 ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~ 141 (843)
.+.++++.++ +++.||+..... ..+.+.+.|++.|+.+.... +..+ .+.+++...+..+++.++|+||-.+.+
T Consensus 13 ~l~~~l~~~~-~r~livtd~~~~---~~~~v~~~L~~~g~~~~~~~-~~~~--p~~~~v~~~~~~~~~~~~D~IIaiGGG 85 (374)
T cd08183 13 ELPALAAELG-RRVLLVTGASSL---RAAWLIEALRAAGIEVTHVV-VAGE--PSVELVDAAVAEARNAGCDVVIAIGGG 85 (374)
T ss_pred HHHHHHHHcC-CcEEEEECCchH---HHHHHHHHHHHcCCeEEEec-CCCC--cCHHHHHHHHHHHHhcCCCEEEEecCc
Confidence 4566677775 899888854443 67788889999998765433 3334 456778888888999999999987654
Q ss_pred --hhHHHHHHH
Q 003167 142 --RTGLMVFDV 150 (843)
Q Consensus 142 --~~~~~i~~~ 150 (843)
-|+.+++..
T Consensus 86 S~~D~aK~ia~ 96 (374)
T cd08183 86 SVIDAGKAIAA 96 (374)
T ss_pred hHHHHHHHHHH
Confidence 355555433
No 376
>PRK13348 chromosome replication initiation inhibitor protein; Provisional
Probab=65.74 E-value=1.8e+02 Score=30.38 Aligned_cols=100 Identities=10% Similarity=0.008 Sum_probs=53.1
Q ss_pred CChHHhhhCCCe-EEEEeCch-HHHHHHHhhCCC--CcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEE
Q 003167 593 KGIDTLMTSNDR-VGYQVGSF-AENYLIEELSIP--KSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSV 668 (843)
Q Consensus 593 ~s~~dL~~~~~~-i~~~~~~~-~~~~l~~~~~~~--~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~ 668 (843)
-+++||. +.+ |.+..+.. ...++....+.. ......+++.....+.+.+|...+++.......+ .. ...+..
T Consensus 180 v~~~~l~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~gi~~lp~~~~~~~-~~-~~~l~~ 255 (294)
T PRK13348 180 LTRHSAL--KAPAVAFNRKDTLQDSFLEQLFGLPVGAYPRHYVPSTHAHLAAIRHGLGYGMVPELLIGPL-LA-AGRLVD 255 (294)
T ss_pred CCHHHHc--CCCEEEecCCchHHHHHHHHHHhccccccceEEeCcHHHHHHHHHcCCeeEeCCHHHHHHH-Hh-cCeeee
Confidence 4678886 444 44444433 334443322221 1223456788888899988877666554433322 22 233444
Q ss_pred eCCccccCcceeeecCCCCchHHHHHHHH
Q 003167 669 RGQEFTKSGWGFAFPRDSPLAIDMSTAIL 697 (843)
Q Consensus 669 ~~~~~~~~~~~~~~~k~spl~~~in~~i~ 697 (843)
+... ....++++.+|+.+....+...+.
T Consensus 256 l~~~-~~~~~~l~~~~~~~~~~~~~~~~~ 283 (294)
T PRK13348 256 LAPG-HPVDVALYWHHWEVESPTMEALSQ 283 (294)
T ss_pred cCCC-CCCCceeEEeeccccChHHHHHHH
Confidence 4433 245677888888765544444443
No 377
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=65.28 E-value=12 Score=41.37 Aligned_cols=89 Identities=13% Similarity=0.197 Sum_probs=69.4
Q ss_pred hhHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCcccchhhHHHHHHHHhhcc--cccccccchhHHHHHHHHHHHHHHhh
Q 003167 497 PLMWAVTGVFFLVVGTVVWILEHRLNDEFRGPPRKQIVTVLWFSFSTMFFAH--RENTVSTLGRVVLIIWLFVVLIITSS 574 (843)
Q Consensus 497 ~~vW~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~s~~~R~~~~~w~~~~lil~~~ 574 (843)
...|..-++.+++.++++++.|.-...+-.+....+.-.++|+..-++.--| ...|..+.+|++..++.++++-+.+.
T Consensus 234 iTt~YIGFL~LIfsSflVYLaEKd~~~e~~n~~F~TyADALWWG~ITltTIGYGDk~P~TWlGr~laa~fsligiSFFAL 313 (654)
T KOG1419|consen 234 ITTWYIGFLVLIFSSFLVYLAEKDAQGEGTNDEFPTYADALWWGVITLTTIGYGDKTPQTWLGRLLAACFSLIGISFFAL 313 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcccccccccccchhHHHHHHhhheeEEeeccCCcCcccchhHHHHHHHHHHHHHHHhc
Confidence 3578888999999999999999884443333334568899999998888664 55899999999999988888877777
Q ss_pred hhcceeeeeee
Q 003167 575 YTASLTSILTV 585 (843)
Q Consensus 575 Yta~L~s~Lt~ 585 (843)
=.+-|-|=++.
T Consensus 314 PAGILGSGfAL 324 (654)
T KOG1419|consen 314 PAGILGSGFAL 324 (654)
T ss_pred ccccccchhhh
Confidence 77777766654
No 378
>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=65.18 E-value=24 Score=36.32 Aligned_cols=80 Identities=10% Similarity=0.088 Sum_probs=54.1
Q ss_pred EEEEEEec--CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhH-HHHHHH
Q 003167 74 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTG-LMVFDV 150 (843)
Q Consensus 74 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~-~~i~~~ 150 (843)
||++|..+ +.|.......+.+++++.|.++.....-.. .+.......+.++...++|.+|+....... ...++.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~ 77 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKELGVKVTFQGPASE---TDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKE 77 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHcCCEEEEecCccC---CCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHH
Confidence 57777754 667888899999999999998775432111 124455667777777899999886544332 446667
Q ss_pred HHHcCC
Q 003167 151 AQRLGM 156 (843)
Q Consensus 151 a~~~g~ 156 (843)
+.+.|.
T Consensus 78 ~~~~~i 83 (273)
T cd06310 78 AKDAGI 83 (273)
T ss_pred HHHCCC
Confidence 666554
No 379
>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=64.77 E-value=57 Score=29.03 Aligned_cols=73 Identities=14% Similarity=0.122 Sum_probs=46.8
Q ss_pred EEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChh----hHHHHHHHH
Q 003167 76 IAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR----TGLMVFDVA 151 (843)
Q Consensus 76 ~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~----~~~~i~~~a 151 (843)
.+....++...-....+...++..|.+|.+--.. ......+..+.+.+|++|.+++... .+..+++++
T Consensus 3 v~~~~~gd~H~lG~~~~~~~l~~~G~~vi~lG~~--------vp~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L 74 (122)
T cd02071 3 LVAKPGLDGHDRGAKVIARALRDAGFEVIYTGLR--------QTPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELL 74 (122)
T ss_pred EEEecCCChhHHHHHHHHHHHHHCCCEEEECCCC--------CCHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHH
Confidence 3334444555556677777888999998864322 2223566777778999999987543 345566677
Q ss_pred HHcCC
Q 003167 152 QRLGM 156 (843)
Q Consensus 152 ~~~g~ 156 (843)
++.|.
T Consensus 75 ~~~~~ 79 (122)
T cd02071 75 RELGA 79 (122)
T ss_pred HhcCC
Confidence 77654
No 380
>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=64.74 E-value=26 Score=35.83 Aligned_cols=77 Identities=10% Similarity=0.012 Sum_probs=53.7
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|++|.. .+.|.......+.+++++.|.++... ... .+.......++++.+.++|.+++..........++++.
T Consensus 2 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~---~~~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (268)
T cd06289 2 IGLVINDLTNPFFAELAAGLEEVLEEAGYTVFLA---NSG--EDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLA 76 (268)
T ss_pred EEEEecCCCcchHHHHHHHHHHHHHHcCCeEEEe---cCC--CChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHH
Confidence 566665 46777888899999999999887542 222 22444567788888889999988765444344677777
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|.
T Consensus 77 ~~~i 80 (268)
T cd06289 77 ESGI 80 (268)
T ss_pred hcCC
Confidence 7665
No 381
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=64.28 E-value=9.5 Score=46.79 Aligned_cols=54 Identities=17% Similarity=0.357 Sum_probs=46.2
Q ss_pred cchhhHHHHHHHHhhccc--ccccccchhHHHHHHHHHHHHHHhhhhcceeeeeee
Q 003167 532 QIVTVLWFSFSTMFFAHR--ENTVSTLGRVVLIIWLFVVLIITSSYTASLTSILTV 585 (843)
Q Consensus 532 ~~~~~~~~~~~~l~~~~~--~~~~s~~~R~~~~~w~~~~lil~~~Yta~L~s~Lt~ 585 (843)
+...++||++.++..-|. -.|.+...|++.++|.++++++.++..+++++++..
T Consensus 250 ~Yi~slYwai~TmtTVGYGDi~p~t~~E~i~~i~~ml~g~~~~a~~ig~i~~li~~ 305 (823)
T PLN03192 250 RYISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLVVE 305 (823)
T ss_pred HHHHHHHHHHHHHhhccCCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345689999999987663 378999999999999999999999999999987754
No 382
>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=63.91 E-value=24 Score=37.02 Aligned_cols=79 Identities=8% Similarity=0.148 Sum_probs=52.8
Q ss_pred EEEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHHHH
Q 003167 74 EVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDV 150 (843)
Q Consensus 74 ~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~~~ 150 (843)
||++|.. ++.|.......+.+++++.|..+.... ... .+.......+..+...++|.|++...... ....+++
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~--~~~--~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~ 76 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKLGIEVVATT--DAQ--FDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKK 76 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHcCCEEEEec--CCC--CCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHH
Confidence 4666664 345667788889999999998876431 122 22444556777777789998888654332 3566788
Q ss_pred HHHcCC
Q 003167 151 AQRLGM 156 (843)
Q Consensus 151 a~~~g~ 156 (843)
+.+.|.
T Consensus 77 ~~~~~i 82 (294)
T cd06316 77 VAEAGI 82 (294)
T ss_pred HHHcCC
Confidence 887765
No 383
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=63.79 E-value=29 Score=35.41 Aligned_cols=77 Identities=5% Similarity=0.015 Sum_probs=53.7
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|+++.. +++|.....+.+.+++++.|..+..... . .+.......++++.+.++|.||+..........++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 76 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYSLLLATT---D--YDAEREADAVETLLRQRVDGLILTVADAATSPALDLLD 76 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCEEEEeeC---C--CCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHh
Confidence 556664 4667788899999999999998876432 2 22455567788888889999998643333334677777
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|.
T Consensus 77 ~~~i 80 (266)
T cd06282 77 AERV 80 (266)
T ss_pred hCCC
Confidence 7775
No 384
>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=63.42 E-value=38 Score=34.73 Aligned_cols=75 Identities=11% Similarity=0.026 Sum_probs=51.4
Q ss_pred EEEEEec-----CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHH
Q 003167 75 VIAIFND-----DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 149 (843)
Q Consensus 75 v~ii~~d-----~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~ 149 (843)
|+++..+ +.|.....+.+++++++.|.++..... ... ..+....+..+.+.++|.|++.....+. .++
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~~~----~~~~~~~~~~l~~~~vdgiii~~~~~~~--~~~ 74 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGYNLILKFV-SDE----DEEEFELPSFLEDGKVDGIILLGGISTE--YIK 74 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCCEEEEEeC-CCC----hHHHHHHHHHHHHCCCCEEEEeCCCChH--HHH
Confidence 5666655 778888899999999999988775431 222 3344455666777899999987754332 366
Q ss_pred HHHHcCC
Q 003167 150 VAQRLGM 156 (843)
Q Consensus 150 ~a~~~g~ 156 (843)
.+.+.|.
T Consensus 75 ~l~~~~i 81 (268)
T cd06277 75 EIKELGI 81 (268)
T ss_pred HHhhcCC
Confidence 6766664
No 385
>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=63.30 E-value=55 Score=33.66 Aligned_cols=144 Identities=15% Similarity=0.115 Sum_probs=69.3
Q ss_pred CCCeEEEEcCCChHHHHHHHHhcccC-CCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 2 ETDTLAIVGPQSAVMAHVLSHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 2 ~~~V~aiiGp~~S~~~~av~~~~~~~-~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
+++...||+. +.....++..++.++ ++.++...+..+. +.-..+.|+.. .....+-.+|.++. +-.+|++|..
T Consensus 55 ~~g~dlIi~~-g~~~~~~~~~vA~~~p~~~F~~~d~~~~~--~Nv~~~~~~~~-e~~ylaG~~Aa~~t--~t~kVG~I~g 128 (258)
T cd06353 55 AQGYDLIFGT-SFGFMDAALKVAKEYPDVKFEHCSGYKTA--PNVGSYFARIY-EGRYLAGVVAGKMT--KTNKVGYVAA 128 (258)
T ss_pred HcCCCEEEEC-chhhhHHHHHHHHHCCCCEEEECCCCCCC--CCeeeEechhh-HHHHHHHHHHHHhh--cCCcEEEEcC
Confidence 3567788873 334445555666555 3333332221110 11112223332 11223333444443 3368999976
Q ss_pred cC-CCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcC
Q 003167 81 DD-DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 81 d~-~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g 155 (843)
.. +........|.+-++..+-.+.....+.-.. .+...-......+.+.++|+|+..+ ....++++|++.|
T Consensus 129 ~~~~~~~~~~~gF~~G~~~~~p~~~v~~~~~g~~-~D~~~a~~~a~~l~~~G~DvI~~~~---~~~g~~~aa~~~g 200 (258)
T cd06353 129 FPIPEVVRGINAFALGARSVNPDATVKVIWTGSW-FDPAKEKEAALALIDQGADVIYQHT---DSPGVIQAAEEKG 200 (258)
T ss_pred cccHHHHHHHHHHHHHHHHHCCCcEEEEEEecCC-CCcHHHHHHHHHHHHCCCcEEEecC---CChHHHHHHHHhC
Confidence 33 2223445566665554433332222222110 1122234455566678999888877 2245778888866
No 386
>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=63.02 E-value=29 Score=36.45 Aligned_cols=78 Identities=10% Similarity=0.014 Sum_probs=54.0
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDVA 151 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~~~a 151 (843)
|+++.. ++.|.......+++++++.|..+.... +.. .+.......++.+.+.++|.||+...... ....++++
T Consensus 2 I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~v~~~~--~~~--~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~ 77 (298)
T cd06302 2 IAFVPKVTGIPYFNRMEEGAKEAAKELGVDAIYVG--PTT--ADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKA 77 (298)
T ss_pred EEEEEcCCCChHHHHHHHHHHHHHHHhCCeEEEEC--CCC--CCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHH
Confidence 565654 567888889999999999998877421 121 22455567777787889999998754333 35677777
Q ss_pred HHcCC
Q 003167 152 QRLGM 156 (843)
Q Consensus 152 ~~~g~ 156 (843)
++.|+
T Consensus 78 ~~~~i 82 (298)
T cd06302 78 REAGI 82 (298)
T ss_pred HHCCC
Confidence 77665
No 387
>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=63.01 E-value=30 Score=35.46 Aligned_cols=78 Identities=4% Similarity=0.007 Sum_probs=52.1
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|+++.. ++.|.......+.+++++.|.++..... ..+ ........++.+...++|.|++..........++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~~~---~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 77 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQLVIEPC-DSG---SPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLD 77 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCeEEEEeC-CCC---chHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHH
Confidence 566664 4678899999999999999988775432 111 1234556666777889998888654322345566666
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|.
T Consensus 78 ~~~i 81 (270)
T cd01545 78 EAGV 81 (270)
T ss_pred hcCC
Confidence 6664
No 388
>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=62.44 E-value=25 Score=36.66 Aligned_cols=77 Identities=12% Similarity=0.044 Sum_probs=54.0
Q ss_pred EEEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh-hhHHHHHHH
Q 003167 74 EVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDV 150 (843)
Q Consensus 74 ~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~-~~~~~i~~~ 150 (843)
+|++|.. ++.|.....+.+.+++++.|..+...... + .......++++...++|.||+.... .....++++
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~--~----~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~ 74 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEKGFTVVKIDVP--D----GEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAK 74 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHcCCEEEEccCC--C----HHHHHHHHHHHHHcCCCEEEEccCchhhhHHHHHH
Confidence 3566665 35678888999999999999887643211 2 3445567778888899999987643 334557788
Q ss_pred HHHcCC
Q 003167 151 AQRLGM 156 (843)
Q Consensus 151 a~~~g~ 156 (843)
+.+.|.
T Consensus 75 ~~~~~i 80 (289)
T cd01540 75 AKAYNM 80 (289)
T ss_pred HHhCCC
Confidence 888764
No 389
>cd08550 GlyDH-like Glycerol_dehydrogenase-like. Families of proteins related to glycerol dehydrogenases. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site. Some subfamilies have not been characterized till now.
Probab=62.23 E-value=33 Score=37.21 Aligned_cols=83 Identities=18% Similarity=0.169 Sum_probs=55.8
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.++++.+| +++.+|+....+ +...+.+.+.+++.|+.+.... +... .+.......+..+++.++|+||-.+.
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~-~~~~~~v~~~l~~~~i~~~~~~-~~~~--p~~~~v~~~~~~~~~~~~d~IIavGG 86 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVL-KKSRPRFEAALAKSIIVVDVIV-FGGE--CSTEEVVKALCGAEEQEADVIIGVGG 86 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHH-HHHHHHHHHHHHhcCCeeEEEE-cCCC--CCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 34667778888 888887743333 3556788888988887654332 3333 34667778888888899999997765
Q ss_pred h--hhHHHHH
Q 003167 141 S--RTGLMVF 148 (843)
Q Consensus 141 ~--~~~~~i~ 148 (843)
+ -|+.+++
T Consensus 87 Gs~~D~aK~i 96 (349)
T cd08550 87 GKTLDTAKAV 96 (349)
T ss_pred cHHHHHHHHH
Confidence 4 3444444
No 390
>PRK11119 proX glycine betaine transporter periplasmic subunit; Provisional
Probab=62.09 E-value=46 Score=35.67 Aligned_cols=62 Identities=16% Similarity=0.188 Sum_probs=43.1
Q ss_pred cCCCCeeEEEecCcccccccEEeecCcceEEeEeHHHHHHHHHHCCCcc-cEEEEeCCCCCCCCChHHHHHHHHcCcccE
Q 003167 371 PNNGRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAV-PYKFIPYGDGHKNPTYSELINQITTGVFDA 449 (843)
Q Consensus 371 ~~~g~~lrv~v~~~~~~~p~~~~~~~~~~~~G~~~dl~~~i~~~l~f~~-~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di 449 (843)
|..|+++++++.. |.. .-+.-.+++.+.+.+|+++ ++... +-.-+...|.+|++|+
T Consensus 25 ~~~~~~V~~~~~~---W~~-----------~~~~t~v~~~iLe~~GY~V~e~~~~---------~~~~~~~ala~GdiDv 81 (331)
T PRK11119 25 PGKGITVQPAQST---IAE-----------ETFQTLLVSRALEKLGYDVNKPKEV---------DYNVFYTSIANGDATF 81 (331)
T ss_pred CCCCeEEEEeecC---ccH-----------HHHHHHHHHHHHHHcCCceeeeccc---------CcHHHHHHHHcCCCeE
Confidence 4578899988873 321 1233578888888899876 55443 2367788999999999
Q ss_pred EEecee
Q 003167 450 AVGDIA 455 (843)
Q Consensus 450 ~~~~~~ 455 (843)
.+....
T Consensus 82 ~~~~W~ 87 (331)
T PRK11119 82 TAVNWF 87 (331)
T ss_pred ehhhcc
Confidence 886544
No 391
>smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.
Probab=61.77 E-value=1.5e+02 Score=28.44 Aligned_cols=128 Identities=9% Similarity=0.069 Sum_probs=64.8
Q ss_pred CeEEEEcCCChHHHHHHHHhcccC--CCcEEecccCCCCCCC--CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEE
Q 003167 4 DTLAIVGPQSAVMAHVLSHLANEL--QVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF 79 (843)
Q Consensus 4 ~V~aiiGp~~S~~~~av~~~~~~~--~vP~Is~~at~~~ls~--~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~ 79 (843)
.+++++||.+|+=...+..++... ++..+-...|-+.-.. .+-.|.|-+. +.+-.+++.-.+-...- +
T Consensus 3 r~ivl~Gpsg~GK~tl~~~L~~~~~~~~~~~~~~TtR~~r~~e~~g~dy~fvs~-------~ef~~~i~~g~fve~~~-~ 74 (184)
T smart00072 3 RPIVLSGPSGVGKGTLLAELIQEIPDAFERVVSHTTRPPRPGEVNGVDYHFVSR-------EEFEDDIKSGLFLEWGE-Y 74 (184)
T ss_pred cEEEEECCCCCCHHHHHHHHHhcCCcceEeeeeecCCCCCCCCcCCceEEECCH-------HHHHHHHHcCCeEEEEE-E
Confidence 578999999998888888887775 3443333333333222 2335666431 22333343322222222 2
Q ss_pred ecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHH
Q 003167 80 NDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQR 153 (843)
Q Consensus 80 ~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~ 153 (843)
.++-||... +.+.+.+++...+|.... + ..+.++++...+.++++..+.....+.+...+
T Consensus 75 ~g~~YGt~~-~~i~~~~~~~~~~ild~~---~----------~~~~~l~~~~~~~~vIfi~~~s~~~l~~rl~~ 134 (184)
T smart00072 75 SGNYYGTSK-ETIRQVAEQGKHCLLDID---P----------QGVKQLRKAQLYPIVIFIAPPSSEELERRLRG 134 (184)
T ss_pred cCcCcccCH-HHHHHHHHcCCeEEEEEC---H----------HHHHHHHHhCCCcEEEEEeCcCHHHHHHHHHh
Confidence 245566554 456666666555555321 1 12344555555555555544444334444443
No 392
>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=61.42 E-value=32 Score=35.04 Aligned_cols=78 Identities=6% Similarity=-0.002 Sum_probs=53.4
Q ss_pred EEEEEEec--CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChh-hHHHHHHH
Q 003167 74 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFDV 150 (843)
Q Consensus 74 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~-~~~~i~~~ 150 (843)
+|++|..+ +.|.....+.+.+++++.|+++..... . .+.......++++...++|.|++..... .....++.
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~ 75 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGVELIVLDA---Q--NDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKK 75 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCceEEEECC---C--CCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHH
Confidence 46777764 678888999999999999988775322 2 1244455777888888999998875433 23335666
Q ss_pred HHHcCC
Q 003167 151 AQRLGM 156 (843)
Q Consensus 151 a~~~g~ 156 (843)
+.+.+.
T Consensus 76 l~~~~i 81 (267)
T cd01536 76 ANAAGI 81 (267)
T ss_pred HHHCCC
Confidence 666553
No 393
>PRK11139 DNA-binding transcriptional activator GcvA; Provisional
Probab=61.27 E-value=1.4e+02 Score=31.19 Aligned_cols=101 Identities=5% Similarity=-0.067 Sum_probs=51.9
Q ss_pred CCChHHhhhCCCe-EEEEeCchHHHHHHHhhCCC---CcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeE
Q 003167 592 IKGIDTLMTSNDR-VGYQVGSFAENYLIEELSIP---KSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFS 667 (843)
Q Consensus 592 i~s~~dL~~~~~~-i~~~~~~~~~~~l~~~~~~~---~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~ 667 (843)
.-+++||. +.+ |....+.....++. ..+.. ......+++.+...+.+..|..-+++... ..........-..
T Consensus 180 ~i~~~dL~--~~p~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~v~~g~gi~~lp~~-~~~~~~~~~~l~~ 255 (297)
T PRK11139 180 LKTPEDLA--RHTLLHDDSREDWRAWFR-AAGLDDLNVQQGPIFSHSSMALQAAIHGQGVALGNRV-LAQPEIEAGRLVC 255 (297)
T ss_pred CCCHHHhh--cCceEeecCcccHHHHHH-HhCCCCcCcccceeeCCHHHHHHHHHhCCCeEecchh-hhHHHHHCCceec
Confidence 45778886 444 33333334455553 33431 11234567888888888887766666543 3332222221111
Q ss_pred EeCCcc-ccCcceeeecCCCCchHHHHHHH
Q 003167 668 VRGQEF-TKSGWGFAFPRDSPLAIDMSTAI 696 (843)
Q Consensus 668 ~~~~~~-~~~~~~~~~~k~spl~~~in~~i 696 (843)
.+.+.. ....+.++.+|+.+....+...+
T Consensus 256 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~ 285 (297)
T PRK11139 256 PFDTVLPSPNAFYLVCPDSQAELPKVAAFR 285 (297)
T ss_pred ccccCcCCCccEEEEeccccccChhHHHHH
Confidence 222222 23567888888766555544443
No 394
>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=61.27 E-value=36 Score=35.05 Aligned_cols=80 Identities=10% Similarity=0.030 Sum_probs=53.2
Q ss_pred EEEEEEe--cCCCCcchHHHHHHHHHhc---CcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHH
Q 003167 74 EVIAIFN--DDDQGRNGVTALGDKLAEI---RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMV 147 (843)
Q Consensus 74 ~v~ii~~--d~~~g~~~~~~l~~~l~~~---g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i 147 (843)
||+++.. ++.|.....+.+.+++++. |.++.... +... .+.......++++...++|.||+...... ....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i-~~~~--~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~ 77 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIV-TSAD--GDVAQQIADIRNLIAQGVDAIIINPASPTALNPV 77 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEE-ecCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHH
Confidence 4666664 4567778889999999998 87432222 1222 23455678888888889999999765433 3446
Q ss_pred HHHHHHcCC
Q 003167 148 FDVAQRLGM 156 (843)
Q Consensus 148 ~~~a~~~g~ 156 (843)
+..+++.|.
T Consensus 78 l~~~~~~~i 86 (272)
T cd06300 78 IEEACEAGI 86 (272)
T ss_pred HHHHHHCCC
Confidence 677777664
No 395
>cd08422 PBP2_CrgA_like The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain. This CD includes the substrate binding domain of LysR-type transcriptional regulator (LTTR) CrgA and its related homologs. The LTTRs are acting as both auto-repressors and activators of target promoters, controlling operons involved in a wide variety of cellular processes such as amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, nodule formation of nitrogen-fixing bacteria, and synthesis of virulence factors, to name a few. In contrast to the tetrameric form of other LTTRs, CrgA from Neisseria meningitides assembles into an octameric ring, which can bind up to four 63-bp DNA oligonucleotides. Phylogenetic cluster analysis further showed that the CrgA-like regulators form a subclass of the LTTRs that function as octamers. The CrgA is an auto-repressor of its own
Probab=61.26 E-value=49 Score=31.26 Aligned_cols=66 Identities=9% Similarity=-0.049 Sum_probs=37.6
Q ss_pred ceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEeCC--ccccCcceeeecCCCCchHHHHH
Q 003167 627 RLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQ--EFTKSGWGFAFPRDSPLAIDMST 694 (843)
Q Consensus 627 ~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~~~~~~k~spl~~~in~ 694 (843)
.....++.+...+.+..|..-+++.+.. +..... ...+..+.. ......++++.+|+.+....+..
T Consensus 125 ~~~~~~~~~~~~~~v~~g~gi~~~p~~~-~~~~~~-~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 192 (197)
T cd08422 125 GRLVVNDGEALRAAALAGLGIALLPDFL-VAEDLA-SGRLVRVLPDWRPPPLPIYAVYPSRRHLPAKVRA 192 (197)
T ss_pred ccEEEccHHHHHHHHHcCCcEEEecHHH-Hhhhcc-CCeEEEecCcccCCCceEEEEEcccccCCHHHHH
Confidence 3456788889999999887766665532 222222 222333321 23345678888877655444443
No 396
>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=61.23 E-value=34 Score=35.03 Aligned_cols=77 Identities=8% Similarity=0.014 Sum_probs=53.6
Q ss_pred EEEEEec--CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHHHHH
Q 003167 75 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDVA 151 (843)
Q Consensus 75 v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~~~a 151 (843)
|+++..| +.|.....+.+.+++++.|.++.... .. .+.......+.++.+.++|.+++...... ....++++
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~i~~---~~--~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVNLIVSI---AN--QDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKA 76 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCEEEEec---CC--CCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHH
Confidence 4556654 66788889999999999998876532 12 22445567777888889999998665333 34566777
Q ss_pred HHcCC
Q 003167 152 QRLGM 156 (843)
Q Consensus 152 ~~~g~ 156 (843)
.+.|+
T Consensus 77 ~~~~i 81 (267)
T cd06322 77 KKAGI 81 (267)
T ss_pred HHCCC
Confidence 77664
No 397
>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=61.10 E-value=52 Score=33.59 Aligned_cols=76 Identities=12% Similarity=0.033 Sum_probs=54.6
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|+++.. +++|.....+.+.+++++.|..+..... . .+.......+..+.+.++|.||+....... ..++++.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~ 75 (265)
T cd06299 2 IGVIVPDIRNPYFASLATAIQDAASAAGYSTIIGNS---D--ENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLL 75 (265)
T ss_pred EEEEecCCCCccHHHHHHHHHHHHHHcCCEEEEEeC---C--CCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHH
Confidence 566765 5678888899999999999998875432 2 224455677888888999999987654333 3477877
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|.
T Consensus 76 ~~~i 79 (265)
T cd06299 76 KRGI 79 (265)
T ss_pred hCCC
Confidence 7664
No 398
>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=60.58 E-value=31 Score=35.77 Aligned_cols=78 Identities=6% Similarity=-0.035 Sum_probs=53.9
Q ss_pred EEEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHHHH
Q 003167 74 EVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDV 150 (843)
Q Consensus 74 ~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~~~ 150 (843)
+|+++.. .+.|.......+.+++++.|..+.... .. .+.......+..+.+.++|.|++.....+ ....++.
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~---~~--~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~ 75 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKALGYELISTD---AQ--GDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAA 75 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHcCCEEEEEc---CC--CCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHH
Confidence 3566665 467788889999999999999876532 12 22444556788888899999998754333 2356677
Q ss_pred HHHcCC
Q 003167 151 AQRLGM 156 (843)
Q Consensus 151 a~~~g~ 156 (843)
+.+.|.
T Consensus 76 ~~~~~i 81 (282)
T cd06318 76 AKAAGV 81 (282)
T ss_pred HHHCCC
Confidence 777664
No 399
>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=60.31 E-value=27 Score=36.24 Aligned_cols=81 Identities=9% Similarity=0.083 Sum_probs=52.4
Q ss_pred EEEEEEec---CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHH
Q 003167 74 EVIAIFND---DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDV 150 (843)
Q Consensus 74 ~v~ii~~d---~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~ 150 (843)
+|++|..+ ++|.....+.+.+++++.|..+......... ..+.......+..+.+.++|.||+..........++.
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~ 79 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEELNIPYELTQFSSRP-GIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIER 79 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHHcCCcEEEEEeccCc-ccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHH
Confidence 36777764 4677888899999999999877654221111 0123444566778888999999887543333345566
Q ss_pred HHHcC
Q 003167 151 AQRLG 155 (843)
Q Consensus 151 a~~~g 155 (843)
+.+.+
T Consensus 80 l~~~~ 84 (280)
T cd06303 80 VLASG 84 (280)
T ss_pred HHhCC
Confidence 66654
No 400
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=59.95 E-value=2.3e+02 Score=29.73 Aligned_cols=90 Identities=13% Similarity=0.139 Sum_probs=57.7
Q ss_pred CeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcC-----CC---hHHhHHHHHHHHHHcC----
Q 003167 4 DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTA-----PN---DLYLMSAIAEMVSYFG---- 71 (843)
Q Consensus 4 ~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~-----p~---d~~~~~ai~~ll~~~~---- 71 (843)
-|+-|+||...+....++.++.+.++=++..+.... ...-.||.|+. |. ....-.++.++.+.+|
T Consensus 10 ~iitv~G~Dr~GIVA~Vs~~Lae~g~NI~disq~~d---~~~~~ffm~i~~~~~~~~~~~~~~l~~~l~~l~~~l~l~~~ 86 (289)
T PRK13010 10 YVLTLACPSAPGIVAAVSGFLAEKGCYIVELTQFDD---DESGRFFMRVSFHAQSAEAASVDTFRQEFQPVAEKFDMQWA 86 (289)
T ss_pred EEEEEECCCCCCcHHHHHHHHHHCCCCEEecccccc---cccCcEEEEEEEEcCCCCCCCHHHHHHHHHHHHHHhCCeEE
Confidence 378899999999999999999999988887544321 12224666622 22 2334445666666553
Q ss_pred ------CcEEEEEEecCCCCcchHHHHHHHHHhc
Q 003167 72 ------WGEVIAIFNDDDQGRNGVTALGDKLAEI 99 (843)
Q Consensus 72 ------w~~v~ii~~d~~~g~~~~~~l~~~l~~~ 99 (843)
..+++++.+... ..++++.++.+..
T Consensus 87 i~~~~~~~kiavl~Sg~g---~nl~al~~~~~~~ 117 (289)
T PRK13010 87 IHPDGQRPKVVIMVSKFD---HCLNDLLYRWRMG 117 (289)
T ss_pred EecCCCCeEEEEEEeCCC---ccHHHHHHHHHCC
Confidence 458888887542 2355566665544
No 401
>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=59.86 E-value=42 Score=35.01 Aligned_cols=77 Identities=9% Similarity=0.099 Sum_probs=55.8
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh-hhHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVA 151 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~-~~~~~i~~~a 151 (843)
|+++.. ++.|.....+.+.+++++.|.++..... . .+.......++.+.+.++|.|++.... ......++++
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~~---~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l 76 (288)
T cd01538 2 IGLSLPTKTEERWIRDRPNFEAALKELGAEVIVQNA---N--GDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKA 76 (288)
T ss_pred eEEEEeCCCcHHHHHHHHHHHHHHHHcCCEEEEECC---C--CCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHH
Confidence 567775 4677888899999999999999776432 2 224555677888888899999887643 3345677788
Q ss_pred HHcCC
Q 003167 152 QRLGM 156 (843)
Q Consensus 152 ~~~g~ 156 (843)
.+.|.
T Consensus 77 ~~~~i 81 (288)
T cd01538 77 ADAGI 81 (288)
T ss_pred HHCCC
Confidence 77664
No 402
>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=59.02 E-value=1.1e+02 Score=26.71 Aligned_cols=84 Identities=13% Similarity=0.116 Sum_probs=47.1
Q ss_pred HHHHcCCcEEEEEEecCC-CCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhH
Q 003167 66 MVSYFGWGEVIAIFNDDD-QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTG 144 (843)
Q Consensus 66 ll~~~~w~~v~ii~~d~~-~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~ 144 (843)
-++..|.+.|.-+-.|++ .+....+.+.+.+++.|+..++.-..... .+..++....+.+....-.|++.|.++..+
T Consensus 22 ~la~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~~~--~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra 99 (110)
T PF04273_consen 22 QLAAQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHIPVDGGA--ITEEDVEAFADALESLPKPVLAHCRSGTRA 99 (110)
T ss_dssp HHHHCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE----TTT----HHHHHHHHHHHHTTTTSEEEE-SCSHHH
T ss_pred HHHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEeecCCCC--CCHHHHHHHHHHHHhCCCCEEEECCCChhH
Confidence 345589999998887754 45667778889999999987643222222 345666666666665555577777777766
Q ss_pred HHHHHHH
Q 003167 145 LMVFDVA 151 (843)
Q Consensus 145 ~~i~~~a 151 (843)
..+...+
T Consensus 100 ~~l~~l~ 106 (110)
T PF04273_consen 100 SALWALA 106 (110)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 6555443
No 403
>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=58.61 E-value=49 Score=33.94 Aligned_cols=76 Identities=4% Similarity=-0.066 Sum_probs=52.8
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|++|.. ++.|.....+.+.+++++.|..+..... . .+.......++.+.+.++|.|++.+...... .++++.
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~---~--~~~~~~~~~i~~~~~~~vdgii~~~~~~~~~-~~~~~~ 75 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHLIITAG---H--HSAEKEREAIEFLLERRCDALILHSKALSDD-ELIELA 75 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEEEEEeC---C--CchHHHHHHHHHHHHcCCCEEEEecCCCCHH-HHHHHh
Confidence 455554 5778889999999999999998875432 1 1234455778888888999999876532222 367777
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd06270 76 AQVP 79 (268)
T ss_pred hCCC
Confidence 7664
No 404
>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=58.25 E-value=1.4e+02 Score=30.45 Aligned_cols=151 Identities=11% Similarity=0.054 Sum_probs=78.9
Q ss_pred CeEEEE-cCCChHHHHHHHHhcc-cCCCcEEecccCC-CCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEe
Q 003167 4 DTLAIV-GPQSAVMAHVLSHLAN-ELQVPLLSFTALD-PTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 80 (843)
Q Consensus 4 ~V~aii-Gp~~S~~~~av~~~~~-~~~vP~Is~~at~-~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~ 80 (843)
.|.||| --.-.+++.|.-.+=+ +-.|..|+-.... |.+-..... +-+.+.....+..++...+.+|-+.++-+..
T Consensus 62 ~mKaIVv~q~vpGt~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aD--i~~~~D~~~~G~~i~~~Ak~mGAktFVh~sf 139 (275)
T PF12683_consen 62 DMKAIVVSQAVPGTAEAFRKIKEKRPDILLIAGEPHEDPEVISSAAD--IVVNPDEISRGYTIVWAAKKMGAKTFVHYSF 139 (275)
T ss_dssp TEEEEEEE-SS---HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSS--EEEE--HHHHHHHHHHHHHHTT-S-EEEEEE
T ss_pred CccEEEEeCCCcchHHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccC--eEeccchhhccHHHHHHHHHcCCceEEEEec
Confidence 455555 2223445555555533 3456666432211 111111112 2234666778889999999999999998876
Q ss_pred cCCCCcch----HHHHHHHHHhcCcEEEEeeecCCCCCCCh---hHH--HHHHHHHhcCCCeEEEEEcChhhHHHHHHHH
Q 003167 81 DDDQGRNG----VTALGDKLAEIRCKISYKSALPPDQSVTE---TDV--RNELVKVRMMEARVIVVHGYSRTGLMVFDVA 151 (843)
Q Consensus 81 d~~~g~~~----~~~l~~~l~~~g~~v~~~~~~~~~~~~~~---~d~--~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a 151 (843)
...-+... .+.+++++++.|++.+....-.+..+.+. ++| ..+-+.|++-+.++-+.+++......+++++
T Consensus 140 prhms~~~l~~Rr~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~TN~a~~epllk~~ 219 (275)
T PF12683_consen 140 PRHMSYELLARRRDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTEPLLKQA 219 (275)
T ss_dssp TTGGGSHHHHHHHHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHHHHHHHH
T ss_pred hhhcchHHHHHHHHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccHHHHHHH
Confidence 54444333 45667777889999887655433311111 111 1222456778999999999999999999999
Q ss_pred HHcCC
Q 003167 152 QRLGM 156 (843)
Q Consensus 152 ~~~g~ 156 (843)
.+.|.
T Consensus 220 ~~~g~ 224 (275)
T PF12683_consen 220 LEYGG 224 (275)
T ss_dssp HHH--
T ss_pred HHcCC
Confidence 98763
No 405
>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=57.63 E-value=39 Score=34.03 Aligned_cols=78 Identities=12% Similarity=0.078 Sum_probs=54.8
Q ss_pred EEEEEEec---CCCCcchHHHHHHHHHh--cCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHH
Q 003167 74 EVIAIFND---DDQGRNGVTALGDKLAE--IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVF 148 (843)
Q Consensus 74 ~v~ii~~d---~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~ 148 (843)
+|+++..+ +.|+....+.+.+++++ .++++..... . .+..+....+.++...++++|+..........+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~--~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~ 75 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEIGRGLEVILADS---Q--SDPERALEALRDLIQQGVDGIIGPPSSSSALAVV 75 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHhCCceEEEEecC---C--CCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHH
Confidence 36777763 46788888999999999 7777664322 2 2345677778888888999999887765555466
Q ss_pred HHHHHcCC
Q 003167 149 DVAQRLGM 156 (843)
Q Consensus 149 ~~a~~~g~ 156 (843)
..+.+.|.
T Consensus 76 ~~~~~~~i 83 (269)
T cd01391 76 ELAAAAGI 83 (269)
T ss_pred HHHHHcCC
Confidence 77777654
No 406
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=57.15 E-value=54 Score=35.19 Aligned_cols=80 Identities=13% Similarity=0.087 Sum_probs=58.2
Q ss_pred CcEEEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHH
Q 003167 72 WGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVF 148 (843)
Q Consensus 72 w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~ 148 (843)
-.+|+++.. +++|.....+.+.+++++.|..+.... .. .+.......++.+.+.++|.|++...... ....+
T Consensus 25 ~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l~i~~---~~--~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l 99 (330)
T PRK10355 25 EVKIGMAIDDLRLERWQKDRDIFVKKAESLGAKVFVQS---AN--GNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVI 99 (330)
T ss_pred CceEEEEecCCCchHHHHHHHHHHHHHHHcCCEEEEEC---CC--CCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHH
Confidence 467777775 678999999999999999999887542 22 23455667788888899999998765432 23456
Q ss_pred HHHHHcCC
Q 003167 149 DVAQRLGM 156 (843)
Q Consensus 149 ~~a~~~g~ 156 (843)
+.+.+.|.
T Consensus 100 ~~~~~~~i 107 (330)
T PRK10355 100 KEAKQEGI 107 (330)
T ss_pred HHHHHCCC
Confidence 67766663
No 407
>PRK01686 hisG ATP phosphoribosyltransferase catalytic subunit; Reviewed
Probab=56.76 E-value=2.1e+02 Score=28.40 Aligned_cols=92 Identities=16% Similarity=0.075 Sum_probs=57.1
Q ss_pred CCCeEEEEeCchHHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEeCCccccCccee
Q 003167 601 SNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRGQEFTKSGWGF 680 (843)
Q Consensus 601 ~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 680 (843)
.+.+|+...-.....||. ..+.+ ..++.....-|. +-..|-.|++++-.....-+.++ +|.++.+.+ ...-.+
T Consensus 114 ~~~rIATkYp~it~~yf~-~~gv~-~~iv~l~GsvE~--aP~~GlAD~IvDivsTG~TLr~N--gL~~ie~Il-~s~A~L 186 (215)
T PRK01686 114 PRLRVATKYPNIARRYFA-EKGEQ-VEIIKLYGSVEL--APLVGLADAIVDIVETGNTLRAN--GLVEVEEIM-DISARL 186 (215)
T ss_pred CCCEEEeCCHHHHHHHHH-HcCCe-EEEEECcCceee--ccccCCccEEEEeecChHHHHHC--cCEEeeEEE-eeEEEE
Confidence 467899888888899994 45665 556655544444 23347889998877766665444 466665444 344456
Q ss_pred eecCCCC--chHHHHHHHHhh
Q 003167 681 AFPRDSP--LAIDMSTAILTL 699 (843)
Q Consensus 681 ~~~k~sp--l~~~in~~i~~l 699 (843)
..++.|. -.+.++..+.++
T Consensus 187 I~n~~s~~~k~~~i~~l~~~l 207 (215)
T PRK01686 187 IVNRASLKLKREEIRPLIEKL 207 (215)
T ss_pred EEecccchhhHHHHHHHHHHH
Confidence 6677765 224555555554
No 408
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=56.46 E-value=48 Score=35.74 Aligned_cols=81 Identities=10% Similarity=0.009 Sum_probs=55.4
Q ss_pred CcEEEEEEec--CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhH-HHHH
Q 003167 72 WGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTG-LMVF 148 (843)
Q Consensus 72 w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~-~~i~ 148 (843)
-+.|+++..+ +.|.....+.+++++++.|..+.....-.. .+.......++.+.+.++|.||+.....+. ...+
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~~---~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l 122 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGGY---YNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL 122 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCCC---CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH
Confidence 4788888864 667788889999999999988776432111 123444567788888899999887644333 3444
Q ss_pred HHHHHcCC
Q 003167 149 DVAQRLGM 156 (843)
Q Consensus 149 ~~a~~~g~ 156 (843)
++.+.|.
T Consensus 123 -~~~~~gi 129 (343)
T PRK10936 123 -ELQAANI 129 (343)
T ss_pred -HHHHCCC
Confidence 6666664
No 409
>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=56.41 E-value=44 Score=34.45 Aligned_cols=80 Identities=6% Similarity=0.023 Sum_probs=52.6
Q ss_pred EEEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh-hhHHHHHHH
Q 003167 74 EVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDV 150 (843)
Q Consensus 74 ~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~-~~~~~i~~~ 150 (843)
++++|.. ++.|.....+.+.+++++.|..+.....-.. .+...-...+.++...++|.|++.... ......++.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~ 77 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKLGVSVDIQAAPSE---GDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVER 77 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHhCCeEEEEccCCC---CCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHH
Confidence 3566665 5667788889999999999988775432111 123344566777877899998876543 223345677
Q ss_pred HHHcCC
Q 003167 151 AQRLGM 156 (843)
Q Consensus 151 a~~~g~ 156 (843)
+.+.|.
T Consensus 78 ~~~~~i 83 (275)
T cd06320 78 AKKKGI 83 (275)
T ss_pred HHHCCC
Confidence 777664
No 410
>PF14851 FAM176: FAM176 family
Probab=56.40 E-value=10 Score=35.08 Aligned_cols=28 Identities=18% Similarity=0.274 Sum_probs=17.5
Q ss_pred hHHHHHHH--HHHHHHHHHHHHHHHHHhhh
Q 003167 736 RGLFLICG--IACFLALLAYFCLMLRQFKK 763 (843)
Q Consensus 736 ~g~f~il~--~g~~lal~vf~~e~~~~~~~ 763 (843)
.++|++++ +|+++.|+++++.+.++.++
T Consensus 22 ~aLYFv~gVC~GLlLtLcllV~risc~~r~ 51 (153)
T PF14851_consen 22 FALYFVSGVCAGLLLTLCLLVIRISCRPRK 51 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhheeeccc
Confidence 55666654 56666777777777664433
No 411
>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=56.08 E-value=38 Score=37.51 Aligned_cols=78 Identities=15% Similarity=0.064 Sum_probs=55.9
Q ss_pred cCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh--hhHHHH
Q 003167 70 FGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS--RTGLMV 147 (843)
Q Consensus 70 ~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~--~~~~~i 147 (843)
.+.+++.+|+.......+..+.+.+.|++.|+++.....+.++ .+.......+..+++.++|+||-.+.+ -|+.++
T Consensus 19 ~~~~k~liVtd~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD~AK~ 96 (398)
T cd08178 19 KGKKRAFIVTDRFMVKLGYVDKVIDVLKRRGVETEVFSDVEPD--PSLETVRKGLELMNSFKPDTIIALGGGSPMDAAKI 96 (398)
T ss_pred cCCCeEEEEcChhHHhCccHHHHHHHHHHCCCeEEEecCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHH
Confidence 4568988888544344457888999999999887644445545 556778888899999999999976543 455555
Q ss_pred HH
Q 003167 148 FD 149 (843)
Q Consensus 148 ~~ 149 (843)
+.
T Consensus 97 iA 98 (398)
T cd08178 97 MW 98 (398)
T ss_pred HH
Confidence 54
No 412
>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=55.48 E-value=1.1e+02 Score=30.45 Aligned_cols=73 Identities=15% Similarity=0.149 Sum_probs=51.5
Q ss_pred cEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEc--ChhhHHHHHHH
Q 003167 73 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG--YSRTGLMVFDV 150 (843)
Q Consensus 73 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~--~~~~~~~i~~~ 150 (843)
.++++|....+ -.+...+..+..+..+.+...-|.. .+..++...-+++++.++|+|+++| +......++++
T Consensus 126 ~~vGVivP~~e----Q~~~~~~kW~~l~~~~~~a~asPy~--~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r~~~~~ 199 (221)
T PF07302_consen 126 HQVGVIVPLPE----QIAQQAEKWQPLGNPVVVAAASPYE--GDEEELAAAARELAEQGADLIVLDCMGYTQEMRDIVQR 199 (221)
T ss_pred CeEEEEecCHH----HHHHHHHHHHhcCCCeEEEEeCCCC--CCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHHHHHHH
Confidence 89999997654 2344445555566666655554543 4578899999999999999999976 45666777766
Q ss_pred H
Q 003167 151 A 151 (843)
Q Consensus 151 a 151 (843)
+
T Consensus 200 ~ 200 (221)
T PF07302_consen 200 A 200 (221)
T ss_pred H
Confidence 5
No 413
>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=55.20 E-value=1.4e+02 Score=26.09 Aligned_cols=53 Identities=11% Similarity=0.068 Sum_probs=29.5
Q ss_pred EecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEc
Q 003167 79 FNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 139 (843)
Q Consensus 79 ~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~ 139 (843)
..-.++-.-++..+...+++.|.++..... . .+.....+.+++.++|+|.+.+
T Consensus 7 ~~~~~~~~lGl~~la~~l~~~G~~v~~~d~---~-----~~~~~l~~~~~~~~pd~V~iS~ 59 (121)
T PF02310_consen 7 CVPGEVHPLGLLYLAAYLRKAGHEVDILDA---N-----VPPEELVEALRAERPDVVGISV 59 (121)
T ss_dssp EBTTSSTSHHHHHHHHHHHHTTBEEEEEES---S-----B-HHHHHHHHHHTTCSEEEEEE
T ss_pred eeCCcchhHHHHHHHHHHHHCCCeEEEECC---C-----CCHHHHHHHHhcCCCcEEEEEc
Confidence 333444444566677777777776664321 1 1124455566667777777765
No 414
>TIGR00070 hisG ATP phosphoribosyltransferase. Members of this family from B. subtilis, Aquifex aeolicus, and Synechocystis PCC6803 (and related taxa) lack the C-terminal third of the sequence. The sole homolog from Archaeoglobus fulgidus lacks the N-terminal 50 residues (as reported) and is otherwise atypical of the rest of the family. This model excludes the C-terminal extension.
Probab=55.08 E-value=81 Score=30.37 Aligned_cols=74 Identities=18% Similarity=0.202 Sum_probs=48.7
Q ss_pred CCCChHHhhhCCCeEEEEeCchHHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEeC
Q 003167 591 PIKGIDTLMTSNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRG 670 (843)
Q Consensus 591 ~i~s~~dL~~~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~ 670 (843)
++++.+||. +.+|+...-.....|| .+.+++ -.++.....-|. +-..|-.|++++-......+.++ +|.++.
T Consensus 100 ~~~~~~~l~--~~rIATkyp~i~~~~f-~~~Gi~-v~ii~l~GsvE~--aP~~GlaD~IvDiv~TG~TL~~N--gL~~ie 171 (182)
T TIGR00070 100 DISSVEDLK--GKRIATKYPNLARRYF-EKKGID-VEIIKLNGSVEL--APLLGLADAIVDIVSTGTTLREN--GLRIIE 171 (182)
T ss_pred CCCChHHhC--CCEEEECCHHHHHHHH-HHcCCe-EEEEECcceeec--ccCCCceeEEEEEeCCHHHHHHC--CCEEee
Confidence 577889984 8899998877889999 455664 455555544443 22358889998876666665443 344444
Q ss_pred Cc
Q 003167 671 QE 672 (843)
Q Consensus 671 ~~ 672 (843)
+.
T Consensus 172 ~i 173 (182)
T TIGR00070 172 VI 173 (182)
T ss_pred EE
Confidence 33
No 415
>PRK09701 D-allose transporter subunit; Provisional
Probab=55.08 E-value=58 Score=34.51 Aligned_cols=84 Identities=11% Similarity=0.077 Sum_probs=57.8
Q ss_pred cCCcEEEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHH
Q 003167 70 FGWGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLM 146 (843)
Q Consensus 70 ~~w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~ 146 (843)
+--.+|+++.. ++.|.....+.+.+++++.|..+..... +.. .+..+....+..+.+.++|.||+.....+ ...
T Consensus 22 ~~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~v~~~~~-~~~--~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 98 (311)
T PRK09701 22 FAAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFAS-PSE--GDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVM 98 (311)
T ss_pred ccCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCeEEEecC-CCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHH
Confidence 45568999996 4778888999999999999988775321 111 12344556677788889999988765432 334
Q ss_pred HHHHHHHcCC
Q 003167 147 VFDVAQRLGM 156 (843)
Q Consensus 147 i~~~a~~~g~ 156 (843)
.+.++.+.|+
T Consensus 99 ~l~~~~~~gi 108 (311)
T PRK09701 99 PVARAWKKGI 108 (311)
T ss_pred HHHHHHHCCC
Confidence 4566667664
No 416
>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=54.60 E-value=50 Score=35.75 Aligned_cols=87 Identities=11% Similarity=0.154 Sum_probs=55.5
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.++++.++.+++.+|+....+ ....+.+.+.+++.|+.+............+.......+..+++ ++|+||-.+.
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~-~~~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIGG 89 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTY-AAAGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVGS 89 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHH-HHHHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEECC
Confidence 346677777888999888843332 22357788889999986643322222111345667777777777 9999997765
Q ss_pred h--hhHHHHHH
Q 003167 141 S--RTGLMVFD 149 (843)
Q Consensus 141 ~--~~~~~i~~ 149 (843)
+ -|+.+++.
T Consensus 90 Gs~~D~aK~vA 100 (348)
T cd08175 90 GTINDITKYVS 100 (348)
T ss_pred cHHHHHHHHHH
Confidence 4 35555554
No 417
>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=54.56 E-value=57 Score=33.45 Aligned_cols=77 Identities=8% Similarity=0.001 Sum_probs=53.7
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|+++.. ++.|.....+.+.+.+++.|..+..... . .+.......++.+.+.++|.|++.........++++++
T Consensus 2 Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~ 76 (269)
T cd06281 2 IGCLVSDITNPLLAQLFSGAEDRLRAAGYSLLIANS---L--NDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALA 76 (269)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEeC---C--CChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHH
Confidence 566765 4678888899999999999998775432 1 22445567778888889999988764333345666666
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.+.
T Consensus 77 ~~~i 80 (269)
T cd06281 77 SLDL 80 (269)
T ss_pred hCCC
Confidence 6553
No 418
>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=54.45 E-value=46 Score=34.28 Aligned_cols=77 Identities=6% Similarity=-0.013 Sum_probs=52.3
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDVA 151 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~~~a 151 (843)
|++|.. ++.|.......+.+.+++.|.++... ... .+.......++++.+.++|.|++.....+ ....++.+
T Consensus 2 i~vi~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~---~~~--~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~~ 76 (277)
T cd06319 2 IAYIVSDLRIPFWQIMGRGVKSKAKALGYDAVEL---SAE--NSAKKELENLRTAIDKGVSGIIISPTNSSAAVTLLKLA 76 (277)
T ss_pred eEEEeCCCCchHHHHHHHHHHHHHHhcCCeEEEe---cCC--CCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHHHHHHH
Confidence 566664 46788888999999999999887643 222 22344456777777789999987654333 33566777
Q ss_pred HHcCC
Q 003167 152 QRLGM 156 (843)
Q Consensus 152 ~~~g~ 156 (843)
.+.|.
T Consensus 77 ~~~~i 81 (277)
T cd06319 77 AQAKI 81 (277)
T ss_pred HHCCC
Confidence 77664
No 419
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=54.34 E-value=28 Score=33.54 Aligned_cols=29 Identities=31% Similarity=0.493 Sum_probs=26.7
Q ss_pred EEEEcCCChHHHHHHHHhcccCCCcEEec
Q 003167 6 LAIVGPQSAVMAHVLSHLANELQVPLLSF 34 (843)
Q Consensus 6 ~aiiGp~~S~~~~av~~~~~~~~vP~Is~ 34 (843)
+.|+||..|+=+..+..+++.+++|+|+-
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlst 31 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDT 31 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcH
Confidence 67999999999999999999999999973
No 420
>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=54.30 E-value=62 Score=32.97 Aligned_cols=77 Identities=8% Similarity=0.042 Sum_probs=50.6
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|++|.. ++.|.....+.+.+++++.|..+..... .. .........+..+.+.++|.+++........ .+.++.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~--~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~-~~~~~~ 76 (264)
T cd01574 2 IGVVTTDLALHGPSSTLAAIESAAREAGYAVTLSML--AE--ADEEALRAAVRRLLAQRVDGVIVNAPLDDAD-AALAAA 76 (264)
T ss_pred EEEEeCCCCcccHHHHHHHHHHHHHHCCCeEEEEeC--CC--CchHHHHHHHHHHHhcCCCEEEEeCCCCChH-HHHHHH
Confidence 556664 5667788899999999999988765422 11 1134556678888888999998876543333 234445
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|.
T Consensus 77 ~~~i 80 (264)
T cd01574 77 PADV 80 (264)
T ss_pred hcCC
Confidence 5553
No 421
>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=53.92 E-value=20 Score=31.73 Aligned_cols=86 Identities=16% Similarity=0.115 Sum_probs=47.2
Q ss_pred cEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHh--cCCCeEEEEEcChhhHHHHHHH
Q 003167 73 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVR--MMEARVIVVHGYSRTGLMVFDV 150 (843)
Q Consensus 73 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~--~~~~~viv~~~~~~~~~~i~~~ 150 (843)
|++++|...++-+.-. ..+.+.+.+.|.+|... .+. ...-+=......+. -..+|+++++........++++
T Consensus 1 ksiAVvGaS~~~~~~g-~~v~~~l~~~G~~v~~V---np~--~~~i~G~~~y~sl~e~p~~iDlavv~~~~~~~~~~v~~ 74 (116)
T PF13380_consen 1 KSIAVVGASDNPGKFG-YRVLRNLKAAGYEVYPV---NPK--GGEILGIKCYPSLAEIPEPIDLAVVCVPPDKVPEIVDE 74 (116)
T ss_dssp -EEEEET--SSTTSHH-HHHHHHHHHTT-EEEEE---STT--CSEETTEE-BSSGGGCSST-SEEEE-S-HHHHHHHHHH
T ss_pred CEEEEEcccCCCCChH-HHHHHHHHhCCCEEEEE---CCC--ceEECcEEeeccccCCCCCCCEEEEEcCHHHHHHHHHH
Confidence 5788887655544444 33444555577676532 332 11100011222333 3688999999999999999999
Q ss_pred HHHcCCcccceEEEEeC
Q 003167 151 AQRLGMMDSGYVWIATT 167 (843)
Q Consensus 151 a~~~g~~~~~~~~i~~~ 167 (843)
+.++|. +.+|+.++
T Consensus 75 ~~~~g~---~~v~~~~g 88 (116)
T PF13380_consen 75 AAALGV---KAVWLQPG 88 (116)
T ss_dssp HHHHT----SEEEE-TT
T ss_pred HHHcCC---CEEEEEcc
Confidence 999883 56999887
No 422
>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=53.84 E-value=71 Score=33.09 Aligned_cols=79 Identities=13% Similarity=0.115 Sum_probs=54.7
Q ss_pred cEEEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHHH
Q 003167 73 GEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFD 149 (843)
Q Consensus 73 ~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~~ 149 (843)
++|+++.. ++.|.....+.+.+++++.|.++.... .. .+.+.....+..+...++|.||+.....+ ....++
T Consensus 1 ~~ig~i~~~~~~~~~~~~~~gi~~~a~~~gy~~~~~~---~~--~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~ 75 (280)
T cd06315 1 KNIIFVASDLKNGGILGVGEGVREAAKAIGWNLRILD---GR--GSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELE 75 (280)
T ss_pred CeEEEEecccCCcHHHHHHHHHHHHHHHcCcEEEEEC---CC--CCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHH
Confidence 46787776 366777889999999999998877542 11 23455567888888899999998754322 234456
Q ss_pred HHHHcCC
Q 003167 150 VAQRLGM 156 (843)
Q Consensus 150 ~a~~~g~ 156 (843)
.+.+.|.
T Consensus 76 ~~~~~~i 82 (280)
T cd06315 76 LAQKAGI 82 (280)
T ss_pred HHHHCCC
Confidence 6666554
No 423
>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=53.32 E-value=55 Score=34.47 Aligned_cols=78 Identities=10% Similarity=0.087 Sum_probs=53.3
Q ss_pred EEEEEEe--cCCCCcchHHHHHHHHHh--cCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChh-hHHHHH
Q 003167 74 EVIAIFN--DDDQGRNGVTALGDKLAE--IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVF 148 (843)
Q Consensus 74 ~v~ii~~--d~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~-~~~~i~ 148 (843)
+|++|.. ++.|.......+.+++++ .|.++.... .. .+.......+..+.+.++|.|++..... .....+
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~~~~~~~---~~--~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~ 75 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKVEFTFYD---AK--NNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVI 75 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCeeEEEec---CC--CCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHH
Confidence 4666665 356777888899999999 787766432 22 2344455778888889999988865433 335677
Q ss_pred HHHHHcCC
Q 003167 149 DVAQRLGM 156 (843)
Q Consensus 149 ~~a~~~g~ 156 (843)
+++.+.|.
T Consensus 76 ~~~~~~gi 83 (303)
T cd01539 76 NKAKQKNI 83 (303)
T ss_pred HHHHHCCC
Confidence 77877665
No 424
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=53.32 E-value=1.3e+02 Score=32.59 Aligned_cols=101 Identities=9% Similarity=0.017 Sum_probs=62.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEee--ecCCCCCCChhHHHHHHHHHhcCCC---eEE
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKS--ALPPDQSVTETDVRNELVKVRMMEA---RVI 135 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~--~~~~~~~~~~~d~~~~l~~i~~~~~---~vi 135 (843)
..+.+.++.++.+++.+|+.... .....+.+.+.+++.|+.+.... ..... .+...+...++.+++.++ |+|
T Consensus 20 ~~l~~~l~~~~~~~~livtd~~~-~~~~~~~v~~~L~~~gi~~~~~~~~~~e~~--~~~~~v~~~~~~~~~~~~~r~d~I 96 (358)
T PRK00002 20 SELGELLAPLKGKKVAIVTDETV-APLYLEKLRASLEAAGFEVDVVVLPDGEQY--KSLETLEKIYDALLEAGLDRSDTL 96 (358)
T ss_pred HHHHHHHHhcCCCeEEEEECCch-HHHHHHHHHHHHHhcCCceEEEEeCCCCCC--CCHHHHHHHHHHHHHcCCCCCCEE
Confidence 34666677778899999985443 44577888888988888665221 12222 346677788888877655 888
Q ss_pred EEEcCh--hhHHHHHHHHHHcCCcccceEEEEeC
Q 003167 136 VVHGYS--RTGLMVFDVAQRLGMMDSGYVWIATT 167 (843)
Q Consensus 136 v~~~~~--~~~~~i~~~a~~~g~~~~~~~~i~~~ 167 (843)
|..+.+ -|+..++......|. .++-|.|.
T Consensus 97 IavGGGsv~D~aK~iA~~~~~gi---p~i~IPTT 127 (358)
T PRK00002 97 IALGGGVIGDLAGFAAATYMRGI---RFIQVPTT 127 (358)
T ss_pred EEEcCcHHHHHHHHHHHHhcCCC---CEEEcCch
Confidence 877654 355555543333342 34444443
No 425
>PRK14737 gmk guanylate kinase; Provisional
Probab=53.31 E-value=1.8e+02 Score=28.10 Aligned_cols=94 Identities=16% Similarity=0.120 Sum_probs=50.9
Q ss_pred CCeEEEEcCCChHHHHHHHHhcccC-CCc-EEecccCCCCCCC-CCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEE
Q 003167 3 TDTLAIVGPQSAVMAHVLSHLANEL-QVP-LLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF 79 (843)
Q Consensus 3 ~~V~aiiGp~~S~~~~av~~~~~~~-~vP-~Is~~at~~~ls~-~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~ 79 (843)
..+++++||.+|+=+..+..+++.. ++. .++++...|.-.+ .+-.|+|-+. +.+.+.++.-..=..+- |
T Consensus 4 ~~~ivl~GpsG~GK~tl~~~l~~~~~~~~~~v~~TTR~~r~gE~~G~dY~fvs~-------~~F~~~i~~~~f~e~~~-~ 75 (186)
T PRK14737 4 PKLFIISSVAGGGKSTIIQALLEEHPDFLFSISCTTRAPRPGDEEGKTYFFLTI-------EEFKKGIADGEFLEWAE-V 75 (186)
T ss_pred CeEEEEECCCCCCHHHHHHHHHhcCCccccccCccCCCCCCCCCCCceeEeCCH-------HHHHHHHHcCCeEEEEE-E
Confidence 4688999999999988888887765 222 1233333333333 3446777532 11222332211111111 3
Q ss_pred ecCCCCcchHHHHHHHHHhcCcEEEE
Q 003167 80 NDDDQGRNGVTALGDKLAEIRCKISY 105 (843)
Q Consensus 80 ~d~~~g~~~~~~l~~~l~~~g~~v~~ 105 (843)
.++-||... +.+.+.+.+..++|..
T Consensus 76 ~g~~YGt~~-~~i~~~~~~g~~~i~d 100 (186)
T PRK14737 76 HDNYYGTPK-AFIEDAFKEGRSAIMD 100 (186)
T ss_pred CCeeecCcH-HHHHHHHHcCCeEEEE
Confidence 355677654 4567777766666653
No 426
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=53.30 E-value=72 Score=34.16 Aligned_cols=79 Identities=10% Similarity=0.055 Sum_probs=55.2
Q ss_pred cEEEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHH
Q 003167 73 GEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDV 150 (843)
Q Consensus 73 ~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~ 150 (843)
+.++++.. ++.|.......+.+++++.|..+.... .. .+.......+..+.+.++|.||+..........++.
T Consensus 65 ~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~---~~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~ 139 (342)
T PRK10014 65 GVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQ---GG--KDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREM 139 (342)
T ss_pred CEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEe---CC--CCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHH
Confidence 47888886 467888889999999999998765432 12 224455677888888899999987644333456666
Q ss_pred HHHcCC
Q 003167 151 AQRLGM 156 (843)
Q Consensus 151 a~~~g~ 156 (843)
+.+.|.
T Consensus 140 l~~~~i 145 (342)
T PRK10014 140 AEEKGI 145 (342)
T ss_pred HhhcCC
Confidence 666654
No 427
>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=53.10 E-value=56 Score=33.62 Aligned_cols=77 Identities=12% Similarity=-0.009 Sum_probs=50.4
Q ss_pred CcEEEEEEe---------cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChh
Q 003167 72 WGEVIAIFN---------DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR 142 (843)
Q Consensus 72 w~~v~ii~~---------d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~ 142 (843)
.+.|++|.. ++.|.....+.+.+++++.|..+.... .+ . . +.....+.+.+.++|.|++.....
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~~~v~~---~~--~-~-~~~~~~~~l~~~~~dgiii~~~~~ 75 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGYDLLLSF---VS--S-P-DRDWLARYLASGRADGVILIGQHD 75 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCCEEEEEe---CC--c-h-hHHHHHHHHHhCCCCEEEEeCCCC
Confidence 567888885 345677778889999999998876532 22 1 1 234445556667899988865432
Q ss_pred hHHHHHHHHHHcCC
Q 003167 143 TGLMVFDVAQRLGM 156 (843)
Q Consensus 143 ~~~~i~~~a~~~g~ 156 (843)
. ...++++.+.|.
T Consensus 76 ~-~~~~~~~~~~~i 88 (275)
T cd06295 76 Q-DPLPERLAETGL 88 (275)
T ss_pred C-hHHHHHHHhCCC
Confidence 2 234677777665
No 428
>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=53.07 E-value=54 Score=33.46 Aligned_cols=77 Identities=6% Similarity=0.032 Sum_probs=53.0
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDVA 151 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~~~a 151 (843)
|++|.. ++.|.......+.+++++.|..+... ... .+..+....+.++...++|.|++...... ....++++
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~---~~~--~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l 76 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKELGYELTVL---DAQ--NDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAA 76 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHcCceEEec---CCC--CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHH
Confidence 455554 56788888999999999999888643 222 23455667788888889999888653332 34566777
Q ss_pred HHcCC
Q 003167 152 QRLGM 156 (843)
Q Consensus 152 ~~~g~ 156 (843)
.+.|.
T Consensus 77 ~~~~i 81 (268)
T cd06323 77 NEAGI 81 (268)
T ss_pred HHCCC
Confidence 66554
No 429
>cd08179 NADPH_BDH NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria. NADPH-dependent butanol dehydrogenase (BDH) is involved in the butanol and ethanol formation pathway of some bacteria. The fermentation process is characterized by an acid producing growth phase, followed by a solvent producing phase. The latter phase is associated with the induction of solventogenic enzymes such as butanol dehydrogenase. The activity of the enzymes require NADPH as cofactor, as well as divalent ions zinc or iron. This family is a member of the iron-containing alcohol dehydrogenase superfamily. Protein structure has a dehydroquinate synthase-like fold.
Probab=53.06 E-value=37 Score=37.20 Aligned_cols=78 Identities=12% Similarity=0.047 Sum_probs=54.4
Q ss_pred cCCcEEEEEEecCCCC-cchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh--hhHHH
Q 003167 70 FGWGEVIAIFNDDDQG-RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS--RTGLM 146 (843)
Q Consensus 70 ~~w~~v~ii~~d~~~g-~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~--~~~~~ 146 (843)
++-+++.+|+....+- .+..+.+.+.|++.|+.+.....+.++ .+.+.+...+..+++.++|+||-.+.+ -|+.+
T Consensus 21 ~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavGGGSviD~AK 98 (375)
T cd08179 21 LKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPD--PSVETVLKGAEAMREFEPDWIIALGGGSPIDAAK 98 (375)
T ss_pred hcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHH
Confidence 3458888887544332 355678899999989877644444444 557778888999999999999987654 35555
Q ss_pred HHH
Q 003167 147 VFD 149 (843)
Q Consensus 147 i~~ 149 (843)
.+.
T Consensus 99 ~ia 101 (375)
T cd08179 99 AMW 101 (375)
T ss_pred HHH
Confidence 543
No 430
>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=52.92 E-value=89 Score=29.54 Aligned_cols=65 Identities=14% Similarity=0.164 Sum_probs=45.8
Q ss_pred CcEEEEEEecCCCC---cchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc-CCCeEEEEEcC
Q 003167 72 WGEVIAIFNDDDQG---RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGY 140 (843)
Q Consensus 72 w~~v~ii~~d~~~g---~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~-~~~~viv~~~~ 140 (843)
.-++++|...|+-+ ......+...+++.|.++.....++.+ ..++...+++..+ .++|+|+..+.
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 45777776654322 223557778889999998887777655 7778888877643 57899988654
No 431
>PF00218 IGPS: Indole-3-glycerol phosphate synthase; InterPro: IPR013798 Indole-3-glycerol phosphate synthase (4.1.1.48 from EC) (IGPS) catalyses the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyses N-(5'-phosphoribosyl)anthranilate isomerase (5.3.1.24 from EC) (PRAI) activity (see IPR001240 from INTERPRO), the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (2.4.2 from EC) (GATase) N-terminal domain (see IPR000991 from INTERPRO). A structure of the IGPS domain of the bifunctional enzyme from the mesophilic bacterium E. coli (eIGPS) has been compared with the monomeric indole-3-glycerol phosphate synthase from the hyperthermophilic archaeon Sulfolobus solfataricus (sIGPS). Both are single-domain (beta/alpha)8 barrel proteins, with one (eIGPS) or two (sIGPS) additional helices inserted before the first beta strand []. ; GO: 0004425 indole-3-glycerol-phosphate synthase activity; PDB: 1VC4_A 1PII_A 1JCM_P 1I4N_B 1J5T_A 3TSM_B 4FB7_A 3QJA_A 1JUL_A 2C3Z_A ....
Probab=52.89 E-value=97 Score=31.70 Aligned_cols=88 Identities=13% Similarity=0.115 Sum_probs=60.1
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEc
Q 003167 60 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 139 (843)
Q Consensus 60 ~~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~ 139 (843)
...++......|-.-+.+++ |..|..+..+.+...-+..++.+-.+..+ .+ .-++.+.+..++|+|++..
T Consensus 70 ~~~~a~~y~~~GA~aiSVlT-e~~~F~Gs~~dL~~v~~~~~~PvL~KDFI-id--------~~QI~eA~~~GADaVLLI~ 139 (254)
T PF00218_consen 70 PAEIAKAYEEAGAAAISVLT-EPKFFGGSLEDLRAVRKAVDLPVLRKDFI-ID--------PYQIYEARAAGADAVLLIA 139 (254)
T ss_dssp HHHHHHHHHHTT-SEEEEE---SCCCHHHHHHHHHHHHHSSS-EEEES----S--------HHHHHHHHHTT-SEEEEEG
T ss_pred HHHHHHHHHhcCCCEEEEEC-CCCCCCCCHHHHHHHHHHhCCCcccccCC-CC--------HHHHHHHHHcCCCEeehhH
Confidence 45566677778999999998 56678888888888888778777754433 22 2467788889999998875
Q ss_pred C---hhhHHHHHHHHHHcCCc
Q 003167 140 Y---SRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 140 ~---~~~~~~i~~~a~~~g~~ 157 (843)
. ......++..|.++||.
T Consensus 140 ~~L~~~~l~~l~~~a~~lGle 160 (254)
T PF00218_consen 140 AILSDDQLEELLELAHSLGLE 160 (254)
T ss_dssp GGSGHHHHHHHHHHHHHTT-E
T ss_pred HhCCHHHHHHHHHHHHHcCCC
Confidence 4 34457899999999984
No 432
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=52.55 E-value=77 Score=33.70 Aligned_cols=80 Identities=8% Similarity=-0.011 Sum_probs=53.2
Q ss_pred CcEEEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHH
Q 003167 72 WGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 149 (843)
Q Consensus 72 w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~ 149 (843)
-+.|+++.. ++.|.......+.+++++.|..+..... . .+.......+..+.+.++|.||+..........++
T Consensus 61 ~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~ 135 (328)
T PRK11303 61 TRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLIACS---D--DQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQ 135 (328)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeC---C--CCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHH
Confidence 357888875 4567778888999999999998875432 1 12333445677777789999988654322234556
Q ss_pred HHHHcCC
Q 003167 150 VAQRLGM 156 (843)
Q Consensus 150 ~a~~~g~ 156 (843)
++.+.|.
T Consensus 136 ~l~~~~i 142 (328)
T PRK11303 136 RLQNDGL 142 (328)
T ss_pred HHHhcCC
Confidence 6666564
No 433
>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=52.48 E-value=82 Score=29.33 Aligned_cols=63 Identities=19% Similarity=0.257 Sum_probs=43.7
Q ss_pred EEEEEEecCC--CCc---chHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhc-CCCeEEEEEcC
Q 003167 74 EVIAIFNDDD--QGR---NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGY 140 (843)
Q Consensus 74 ~v~ii~~d~~--~g~---~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~-~~~~viv~~~~ 140 (843)
++++|...|+ .|+ .....+.+.+++.|.++.....++.+ ..++...+++..+ +++|+|+..+.
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 5677765542 222 23557888899999998887777655 6778787776654 37899988654
No 434
>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=52.39 E-value=53 Score=34.52 Aligned_cols=77 Identities=10% Similarity=0.095 Sum_probs=50.5
Q ss_pred EEEEe--cCCCCcchHHHHHHHHHhcCc-EEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh-hhHHHHHHHH
Q 003167 76 IAIFN--DDDQGRNGVTALGDKLAEIRC-KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVA 151 (843)
Q Consensus 76 ~ii~~--d~~~g~~~~~~l~~~l~~~g~-~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~-~~~~~i~~~a 151 (843)
++|.. ++.|.....+.+.+++++.|. .+.+.. +.. .+.......++.+.+.++|.|++.... ......++++
T Consensus 2 gvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~i~~~--~~~--~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~ 77 (302)
T TIGR02637 2 GLVVKSLGNPFFEAANKGAEEAAKELGSVYIIYTG--PTG--TTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKA 77 (302)
T ss_pred EEEeccCCCHHHHHHHHHHHHHHHHhCCeeEEEEC--CCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHH
Confidence 44443 466777888999999999994 443321 111 224455677888888899998887643 3344567888
Q ss_pred HHcCC
Q 003167 152 QRLGM 156 (843)
Q Consensus 152 ~~~g~ 156 (843)
++.|.
T Consensus 78 ~~~gi 82 (302)
T TIGR02637 78 MKRGI 82 (302)
T ss_pred HHCCC
Confidence 87774
No 435
>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=52.30 E-value=53 Score=34.61 Aligned_cols=71 Identities=10% Similarity=0.046 Sum_probs=52.4
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChh-hHHHHHHHHHHcCC
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFDVAQRLGM 156 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~-~~~~i~~~a~~~g~ 156 (843)
+++|.....+.+++++++.|.++.... .. .+.......++.+.+.++|.|++..... .....++.+++.|+
T Consensus 9 ~~~~~~~~~~~i~~~a~~~g~~v~~~~---~~--~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~i 80 (302)
T TIGR02634 9 RLERWQKDRDIFVAAAESLGAKVFVQS---AN--GNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGI 80 (302)
T ss_pred chhhHHHHHHHHHHHHHhcCCEEEEEe---CC--CCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCC
Confidence 678888899999999999999887542 22 2344556788888889999999876433 34567777877664
No 436
>cd08177 MAR Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes. Maleylacetate reductases (MAR) play an important role in the degradation of aromatic compounds in aerobic microbes. In fungi and yeasts, the enzymes are involved in the catabolism of compounds such as phenol, tyrosine, benzoate, 4-hydroxybenzoate and resorcinol. In bacteria, the enzymes contribute to the degradation of resorcinol, 2,4-dihydroxybenzoate ([beta]-resorcylate) and 2,6-dihydroxybenzoate ([gamma]-resorcylate) via hydroxyquinol and maleylacetate. Maleylacetate reductases catalyze NADH- or NADPH-dependent reduction, at the carbon-carbon double bond, of maleylacetate or 2-chloromaleylacetate to 3-oxoadipate. In the case of 2-chloromaleylacetate, Maleylacetate reductases initially catalyses the NAD(P)H-dependent dechlorination to maleylacetate, which is then reduced to 3-oxoadipate. This enzyme is a homodimer. It is inhibited by thiol-blocking reagents such as p-
Probab=51.88 E-value=38 Score=36.51 Aligned_cols=84 Identities=11% Similarity=0.045 Sum_probs=56.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..+.+.++.+|.+++.+|+....+-. ..+.+.+.+++.+..+ + ..+..+ .+...+...+..+++.++|.||-.+.
T Consensus 12 ~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~~~~-~-~~~~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 86 (337)
T cd08177 12 AALAAELERLGASRALVLTTPSLATK-LAERVASALGDRVAGT-F-DGAVMH--TPVEVTEAAVAAAREAGADGIVAIGG 86 (337)
T ss_pred HHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCCcEE-e-CCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 45677888899999998885443333 6667777787765432 2 223333 44667788888888899999997765
Q ss_pred h--hhHHHHHH
Q 003167 141 S--RTGLMVFD 149 (843)
Q Consensus 141 ~--~~~~~i~~ 149 (843)
+ -|+.+++.
T Consensus 87 Gs~iD~aK~ia 97 (337)
T cd08177 87 GSTIDLAKAIA 97 (337)
T ss_pred cHHHHHHHHHH
Confidence 4 35555544
No 437
>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=51.52 E-value=3e+02 Score=28.55 Aligned_cols=64 Identities=13% Similarity=0.065 Sum_probs=40.3
Q ss_pred HHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEecc
Q 003167 406 DVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPVR 482 (843)
Q Consensus 406 dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~~ 482 (843)
.++..+.++. .+++.... ++-..+++.|.+|++|+++...... ...+. +.|+.+..+++++++.
T Consensus 107 ~~l~~~~~~~--~i~i~l~~-------~~~~~~~~~l~~g~~d~~i~~~~~~---~~~l~-~~~l~~~~~~~v~~~~ 170 (292)
T TIGR03298 107 PALAPVLAQE--GVLLDLVV-------EDQDHTAELLRSGEVLGAVTTQAKP---VQGCR-VVPLGAMRYLAVASPA 170 (292)
T ss_pred HHHHHHHhCC--CceEEEEe-------CcchhHHHHHhCCCceEEEecCCCC---CCCce-EEecCCceEEEEECch
Confidence 4556666653 35555544 4456788999999999998642221 22233 4677778888877654
No 438
>COG0134 TrpC Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]
Probab=51.42 E-value=46 Score=33.77 Aligned_cols=87 Identities=17% Similarity=0.111 Sum_probs=67.6
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEc-
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG- 139 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~- 139 (843)
..+++..+++|-.-+.+++ |..|.++..+.+++.-+...+.|--+..+. + .-++...+..++|+|++..
T Consensus 69 ~~ia~~Ye~~GAa~iSVLT-d~~~F~Gs~e~L~~v~~~v~~PvL~KDFii-D--------~yQI~~Ar~~GADavLLI~~ 138 (254)
T COG0134 69 VEIAKAYEEGGAAAISVLT-DPKYFQGSFEDLRAVRAAVDLPVLRKDFII-D--------PYQIYEARAAGADAVLLIVA 138 (254)
T ss_pred HHHHHHHHHhCCeEEEEec-CccccCCCHHHHHHHHHhcCCCeeeccCCC-C--------HHHHHHHHHcCcccHHHHHH
Confidence 3467777888999999998 667889999999888888888877554332 2 2467788889999987754
Q ss_pred --ChhhHHHHHHHHHHcCCc
Q 003167 140 --YSRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 140 --~~~~~~~i~~~a~~~g~~ 157 (843)
.......++..|.++||.
T Consensus 139 ~L~~~~l~el~~~A~~LGm~ 158 (254)
T COG0134 139 ALDDEQLEELVDRAHELGME 158 (254)
T ss_pred hcCHHHHHHHHHHHHHcCCe
Confidence 345678899999999985
No 439
>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=51.34 E-value=40 Score=34.75 Aligned_cols=71 Identities=10% Similarity=0.101 Sum_probs=51.7
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHHHHHHHcCC
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDVAQRLGM 156 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~~~a~~~g~ 156 (843)
++.|.....+.+.+++++.|.++.... .. .+.......++.+...++|.||+.....+ ....++++.+.|.
T Consensus 10 ~~~~~~~~~~~~~~~a~~~g~~~~~~~---~~--~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~i 81 (273)
T cd06309 10 ESPWRTAETKSIKDAAEKRGFDLKFAD---AQ--QKQENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAGI 81 (273)
T ss_pred CCHHHHHHHHHHHHHHHhcCCEEEEeC---CC--CCHHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCCC
Confidence 577888899999999999999988642 22 22445567788888889999988654333 2456777877664
No 440
>PRK10200 putative racemase; Provisional
Probab=51.20 E-value=80 Score=31.83 Aligned_cols=41 Identities=12% Similarity=0.000 Sum_probs=26.4
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhc-CcEEE
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI-RCKIS 104 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~-g~~v~ 104 (843)
+++++.++..+-++|+++..... -....+++.+++. |+++.
T Consensus 106 ~~~~~~~~~~~~~~VglLaT~~T---i~s~~Y~~~l~~~~g~~~~ 147 (230)
T PRK10200 106 DATGRAITGAGMTRVALLGTRYT---MEQDFYRGRLTEQFSINCL 147 (230)
T ss_pred HHHHHHHHHcCCCeEEEeccHHH---HHHhHHHHHHHHhcCCeEe
Confidence 44555555668889999986532 2345666776655 87764
No 441
>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=50.76 E-value=46 Score=35.78 Aligned_cols=78 Identities=12% Similarity=0.071 Sum_probs=51.6
Q ss_pred HHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh--hhHH
Q 003167 68 SYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS--RTGL 145 (843)
Q Consensus 68 ~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~--~~~~ 145 (843)
+.++.+++.+|+...-+-.+..+.+.+.+++. +.+.....+..+ .+.+.+...+..+++.++|+||-.+.+ -|+.
T Consensus 18 ~~~~~~~~lvv~~~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IiaiGGGs~~D~a 94 (332)
T cd08180 18 KELKNKRVLIVTDPFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPD--PPIEVVAKGIKKFLDFKPDIVIALGGGSAIDAA 94 (332)
T ss_pred HHhCCCeEEEEeCchhhhCccHHHHHHHHHhc-CcEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEECCchHHHHH
Confidence 44556899888854444344677888888876 554333333333 456777888888999999999976654 3555
Q ss_pred HHH
Q 003167 146 MVF 148 (843)
Q Consensus 146 ~i~ 148 (843)
+.+
T Consensus 95 Ka~ 97 (332)
T cd08180 95 KAI 97 (332)
T ss_pred HHH
Confidence 444
No 442
>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=50.72 E-value=1.8e+02 Score=31.50 Aligned_cols=101 Identities=15% Similarity=0.108 Sum_probs=63.4
Q ss_pred HHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCC-CCCChhHHHHHHHHHhcCCCe---EEEE
Q 003167 62 AIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPD-QSVTETDVRNELVKVRMMEAR---VIVV 137 (843)
Q Consensus 62 ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~-~~~~~~d~~~~l~~i~~~~~~---viv~ 137 (843)
-+.++++.++-+++.+++..+.+ ....+.+.+.+++.|+.+... .++.. ...+.+.+...+..+++.++| +||.
T Consensus 13 ~l~~~l~~~g~~rvlvVtd~~v~-~~~~~~l~~~L~~~g~~~~~~-~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~IIA 90 (355)
T cd08197 13 SVLGYLPELNADKYLLVTDSNVE-DLYGHRLLEYLREAGAPVELL-SVPSGEEHKTLSTLSDLVERALALGATRRSVIVA 90 (355)
T ss_pred HHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhcCCceEEE-EeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEE
Confidence 35566777777899988865543 336678888999888765332 23221 113456788888888888888 8777
Q ss_pred EcCh--hhHHHHHHHHHHcCCcccceEEEEeC
Q 003167 138 HGYS--RTGLMVFDVAQRLGMMDSGYVWIATT 167 (843)
Q Consensus 138 ~~~~--~~~~~i~~~a~~~g~~~~~~~~i~~~ 167 (843)
.+.+ -|+..++......| .+++.|.|.
T Consensus 91 vGGGsv~D~ak~~A~~~~rg---ip~I~IPTT 119 (355)
T cd08197 91 LGGGVVGNIAGLLAALLFRG---IRLVHIPTT 119 (355)
T ss_pred ECCcHHHHHHHHHHHHhccC---CCEEEecCc
Confidence 6654 35555554333233 345666554
No 443
>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=50.42 E-value=62 Score=33.19 Aligned_cols=77 Identities=9% Similarity=-0.005 Sum_probs=52.2
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHh--cCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAE--IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFD 149 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~--~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~~ 149 (843)
|+++.. ++.|.......+.+++++ .|.++.... .. .+.......+..+.+.++|.||+...... ....++
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~---~~--~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~i~ 76 (271)
T cd06321 2 IGVSVGDLGNPFFVALAKGAEAAAKKLNPGVKVTVVS---AD--YDLNKQVSQIDNFIAAKVDLILLNAVDSKGIAPAVK 76 (271)
T ss_pred eEEEecccCCHHHHHHHHHHHHHHHHhCCCeEEEEcc---CC--CCHHHHHHHHHHHHHhCCCEEEEeCCChhHhHHHHH
Confidence 566665 467888899999999999 776665432 12 22445566777777889999988764332 345667
Q ss_pred HHHHcCC
Q 003167 150 VAQRLGM 156 (843)
Q Consensus 150 ~a~~~g~ 156 (843)
.+.+.|.
T Consensus 77 ~~~~~~i 83 (271)
T cd06321 77 RAQAAGI 83 (271)
T ss_pred HHHHCCC
Confidence 7777654
No 444
>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=50.19 E-value=73 Score=32.53 Aligned_cols=76 Identities=14% Similarity=0.115 Sum_probs=52.0
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|+++.. ++.|.......+.+++++.|.++... ... .+.......++++.+.++|.+++.+.... ...++.+.
T Consensus 2 i~vv~p~~~~~~~~~~~~~i~~~~~~~g~~~~~~---~~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~l~ 75 (268)
T cd06273 2 IGAIVPTLDNAIFARVIQAFQETLAAHGYTLLVA---SSG--YDLDREYAQARKLLERGVDGLALIGLDHS-PALLDLLA 75 (268)
T ss_pred eEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEe---cCC--CCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHH
Confidence 566775 46778888899999999999888753 222 23445567788888888998888654322 24455666
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd06273 76 RRGV 79 (268)
T ss_pred hCCC
Confidence 6554
No 445
>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=50.10 E-value=68 Score=32.81 Aligned_cols=76 Identities=9% Similarity=0.097 Sum_probs=52.5
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
++++.. ++.|.......+.+.+++.|.++..... . .+.......++.+.+.++|.|++....... ..++.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~ 75 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAAGYDVVLSES---G--RRTSPERQWVERLSARRTDGVILVTPELTS-AQRAALR 75 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHcCCeEEEecC---C--CchHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHh
Confidence 566664 5788999999999999999998765422 1 123445567788888899988876543332 3467776
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|.
T Consensus 76 ~~~i 79 (270)
T cd06296 76 RTGI 79 (270)
T ss_pred cCCC
Confidence 6554
No 446
>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=50.09 E-value=69 Score=32.62 Aligned_cols=75 Identities=15% Similarity=0.131 Sum_probs=52.0
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|+++.. ++.|.....+.+.+.+++.|..+.... .. ... +....++++.+.++|.|++....... ..++.+.
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~---~~--~~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~~~~~~ 74 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQARGYQPLLIN---TD--DDE-DLDAALRQLLQYRVDGVIVTSGTLSS-ELAEECR 74 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHCCCeEEEEc---CC--CCH-HHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHh
Confidence 455554 467888889999999999999877542 12 123 66677888888999998886543332 3467777
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|.
T Consensus 75 ~~~i 78 (266)
T cd06278 75 RNGI 78 (266)
T ss_pred hcCC
Confidence 7664
No 447
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=49.88 E-value=66 Score=31.83 Aligned_cols=44 Identities=14% Similarity=0.018 Sum_probs=33.4
Q ss_pred HhHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEE
Q 003167 58 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKIS 104 (843)
Q Consensus 58 ~~~~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~ 104 (843)
+..++.++-+++.|.++|+++..... -....+++.|+++|++++
T Consensus 103 hIidaTa~~ik~~g~kkvgLLgT~~T---m~~~fY~~~l~~~gievv 146 (230)
T COG1794 103 HIIDATAKAIKAAGAKKVGLLGTRFT---MEQGFYRKRLEEKGIEVV 146 (230)
T ss_pred hHHHHHHHHHHhcCCceeEEeeccch---HHhHHHHHHHHHCCceEe
Confidence 45667777788889999999986432 234567889999998876
No 448
>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=49.81 E-value=25 Score=33.17 Aligned_cols=101 Identities=16% Similarity=0.152 Sum_probs=58.4
Q ss_pred CCCChHHhhhCCCeEEEEeCchHHHHHHHhhCCCCcceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEeC
Q 003167 591 PIKGIDTLMTSNDRVGYQVGSFAENYLIEELSIPKSRLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRG 670 (843)
Q Consensus 591 ~i~s~~dL~~~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~ 670 (843)
++.+++||.+ +.+|+...-...+.||. +.+.+ .+++.....-|.. ...|-.|++++-.....-+.++ +|..++
T Consensus 57 ~~~~~~~l~~-~~rIATkyp~l~~~yf~-~~g~~-~~ii~l~GsvE~a--p~~glAD~IvDiv~TG~TLr~N--gL~~i~ 129 (163)
T PF01634_consen 57 PYKSVEDLKA-GLRIATKYPNLTRRYFA-EKGIN-VEIIKLSGSVELA--PPLGLADAIVDIVETGTTLRAN--GLKEIE 129 (163)
T ss_dssp CGCCGGGGSS-TEEEEES-HHHHHHHHH-HCT-E-EEEEE-SS-TTHH--HHTTSSSEEEEEESSSHHHHHT--TEEEEE
T ss_pred CCCCHHHhcc-CCEEEECCHHHHHHHHH-HcCCc-EEEEEccCCcccc--CCCCCCCEEEEeccCcHHHHHC--CCEEeE
Confidence 4788888853 77898888788889994 44444 4455544433333 3347789999877766555443 466665
Q ss_pred CccccCcceeeecCCCC--chHHHHHHHHhh
Q 003167 671 QEFTKSGWGFAFPRDSP--LAIDMSTAILTL 699 (843)
Q Consensus 671 ~~~~~~~~~~~~~k~sp--l~~~in~~i~~l 699 (843)
..+. ..-.+..+|.+- -.+.++..+.+|
T Consensus 130 ~i~~-s~a~LI~n~~~~~~k~~~i~~l~~~l 159 (163)
T PF01634_consen 130 TILE-SSARLIANKASLKEKEEKIDELVTRL 159 (163)
T ss_dssp EEEE-EEEEEEEEHHHHHHCHHHHHHHHHHH
T ss_pred EEEE-EEEEEEEcCccchhhHHHHHHHHHHH
Confidence 5444 444555555543 223455555444
No 449
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=49.68 E-value=2.8e+02 Score=29.05 Aligned_cols=96 Identities=13% Similarity=0.132 Sum_probs=58.8
Q ss_pred CeEEEEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcC----C--Ch-HHhHHHHHHHHHHc------
Q 003167 4 DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTA----P--ND-LYLMSAIAEMVSYF------ 70 (843)
Q Consensus 4 ~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~----p--~d-~~~~~ai~~ll~~~------ 70 (843)
=++-++|+...+....++.++...++=+.....+...+++ . +..++. | .+ ...-.++.++-+.+
T Consensus 7 ~vitv~G~DrpGIVa~Vt~~La~~g~NI~d~s~~~~~~~g-~--F~m~i~v~~~~~~~~~~~L~~~L~~l~~~l~l~i~l 83 (286)
T PRK06027 7 YVLTLSCPDRPGIVAAVSNFLYEHGGNIVDADQFVDPETG-R--FFMRVEFEGDGLIFNLETLRADFAALAEEFEMDWRL 83 (286)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHCCCCEEEceeEEcCCCC-e--EEEEEEEEeCCCCCCHHHHHHHHHHHHHHhCCEEEE
Confidence 3788999999999999999999999988876555433332 1 333322 1 11 22333444444443
Q ss_pred ----CCcEEEEEEecCCCCcchHHHHHHHHHhc--CcEEEE
Q 003167 71 ----GWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISY 105 (843)
Q Consensus 71 ----~w~~v~ii~~d~~~g~~~~~~l~~~l~~~--g~~v~~ 105 (843)
...|++++.+.+ | ..++++.++.+.. +.+|+.
T Consensus 84 ~~~~~~~ri~vl~Sg~--g-snl~al~~~~~~~~~~~~i~~ 121 (286)
T PRK06027 84 LDSAERKRVVILVSKE--D-HCLGDLLWRWRSGELPVEIAA 121 (286)
T ss_pred cccccCcEEEEEEcCC--C-CCHHHHHHHHHcCCCCcEEEE
Confidence 467899988755 3 3456666665553 344443
No 450
>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=49.68 E-value=67 Score=32.74 Aligned_cols=76 Identities=9% Similarity=0.107 Sum_probs=51.6
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|++|.. ++.|.....+.+.+++++.|.++..... . .+..+....++.+.+.++|.|++...... ...++.+.
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~ 75 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAAGYQLLLGNT---G--YSPEREEELLRTLLSRRPAGLILTGLEHT-ERTRQLLR 75 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHcCCEEEEecC---C--CCchhHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHH
Confidence 566665 4567778889999999999988765322 2 22455667888888889999988764332 23455555
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd01575 76 AAGI 79 (268)
T ss_pred hcCC
Confidence 6554
No 451
>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=49.67 E-value=56 Score=33.68 Aligned_cols=80 Identities=8% Similarity=-0.027 Sum_probs=52.4
Q ss_pred EEEEEEec--CCCCcchHHHHHHHHHhcCcEEEEeeec-CCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHHH
Q 003167 74 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSAL-PPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFD 149 (843)
Q Consensus 74 ~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~-~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~~ 149 (843)
+|+++..+ +.|.....+.+.+++++.|.++...... ... .+.......+..+.. ++|.+++...... ....++
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~~~i~ 77 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDARIRVRIHFVES--FDPAALAAALLRLGA-RSDGVALVAPDHPQVRAAVA 77 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhccCceEEEEEccC--CCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHHHHHH
Confidence 46777753 5677888999999999988654433222 111 123445577777777 9999988664433 346678
Q ss_pred HHHHcCC
Q 003167 150 VAQRLGM 156 (843)
Q Consensus 150 ~a~~~g~ 156 (843)
++.+.|.
T Consensus 78 ~~~~~~i 84 (275)
T cd06307 78 RLAAAGV 84 (275)
T ss_pred HHHHCCC
Confidence 8877664
No 452
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=49.09 E-value=2.1e+02 Score=26.15 Aligned_cols=68 Identities=15% Similarity=0.069 Sum_probs=47.7
Q ss_pred chHHHHHHHHHhcCcEEEEeeecC--CCCCCChhHHH---HHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCC
Q 003167 87 NGVTALGDKLAEIRCKISYKSALP--PDQSVTETDVR---NELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 87 ~~~~~l~~~l~~~g~~v~~~~~~~--~~~~~~~~d~~---~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~ 156 (843)
.....+.++++..|.++....... .. .+..|.. ..+..+...+.|.|++.+...+...+++.+++.|.
T Consensus 52 ~~~~~~~~~L~~~g~~~~~~~~~~~~~~--~~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~i~~lr~~G~ 124 (149)
T cd06167 52 ERQRGFLDALRRLGFEPIQKPLRTRGSG--KKGVDVALAIDALELAYKRRIDTIVLVSGDSDFVPLVERLRELGK 124 (149)
T ss_pred hhHHHHHHHHHHCCcEEEEEcceecCCc--ccCccHHHHHHHHHHhhhcCCCEEEEEECCccHHHHHHHHHHcCC
Confidence 467889999999999887655321 11 1233332 33444444578999999888899999999999874
No 453
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=48.84 E-value=3.7e+02 Score=30.61 Aligned_cols=137 Identities=12% Similarity=0.169 Sum_probs=73.1
Q ss_pred EEcCCChHHHHHHHHhcc-cCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHH---HHcCCcEEEEEEecCC
Q 003167 8 IVGPQSAVMAHVLSHLAN-ELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV---SYFGWGEVIAIFNDDD 83 (843)
Q Consensus 8 iiGp~~S~~~~av~~~~~-~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll---~~~~w~~v~ii~~d~~ 83 (843)
|+||++..+-.++..+.+ ...+=+|.++ +-| ++|. +. .+.+..++ ....-+++.|+|. +.
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~---------HG~-i~r~--~~---~~~l~~Y~~~~~~~~~~kv~IvY~-S~ 261 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATS---------HGV-VWRD--NP---TQIVELYLKWAADYQEDRITIFYD-TM 261 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECC---------CCc-eEeC--CH---HHHHHHHHHHhhccCcCcEEEEEE-CC
Confidence 678887776666666654 2344445432 112 3552 11 12333333 2223478999994 44
Q ss_pred CC--cchHHHHHHHHHhc--CcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh------hhHHHHHHHHHH
Q 003167 84 QG--RNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS------RTGLMVFDVAQR 153 (843)
Q Consensus 84 ~g--~~~~~~l~~~l~~~--g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~------~~~~~i~~~a~~ 153 (843)
|| +..++.+.+.+++. |+.+.... + . +.+...++..+ .++|.|++.+.. +....++.....
T Consensus 262 ~GnTe~mA~~ia~gl~~~g~gv~v~~~~-v--~----~~~~~~i~~~~--~~ad~vilGspT~~~~~~p~~~~fl~~l~~ 332 (479)
T PRK05452 262 SNNTRMMADAIAQGIAEVDPRVAVKIFN-V--A----RSDKNEILTNV--FRSKGVLVGSSTMNNVMMPKIAGLLEEITG 332 (479)
T ss_pred ccHHHHHHHHHHHHHHhhCCCceEEEEE-C--C----CCCHHHHHhHH--hhCCEEEEECCccCCcchHHHHHHHHHhhc
Confidence 54 67799999999876 45544322 2 2 23344445555 356788776543 234456666655
Q ss_pred cCCcccceEEEEeCcc
Q 003167 154 LGMMDSGYVWIATTWL 169 (843)
Q Consensus 154 ~g~~~~~~~~i~~~~~ 169 (843)
..+.+....-+++.+|
T Consensus 333 ~~l~gK~~~vFGSygw 348 (479)
T PRK05452 333 LRFRNKRASAFGSHGW 348 (479)
T ss_pred cCcCCCEEEEEECCCc
Confidence 5544333334444444
No 454
>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=48.73 E-value=43 Score=34.93 Aligned_cols=73 Identities=5% Similarity=-0.025 Sum_probs=52.9
Q ss_pred cEEEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHH
Q 003167 73 GEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDV 150 (843)
Q Consensus 73 ~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~ 150 (843)
+.+++|.. ++.|....+..+.+++++.|..+.....- . +.+-...++.+.+.++|.+|+.+...+...+...
T Consensus 2 ~~IGvivp~~~npff~~ii~gIe~~a~~~Gy~l~l~~t~--~----~~~~e~~i~~l~~~~vDGiI~~s~~~~~~~l~~~ 75 (279)
T PF00532_consen 2 KTIGVIVPDISNPFFAEIIRGIEQEAREHGYQLLLCNTG--D----DEEKEEYIELLLQRRVDGIILASSENDDEELRRL 75 (279)
T ss_dssp CEEEEEESSSTSHHHHHHHHHHHHHHHHTTCEEEEEEET--T----THHHHHHHHHHHHTTSSEEEEESSSCTCHHHHHH
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHHcCCEEEEecCC--C----chHHHHHHHHHHhcCCCEEEEecccCChHHHHHH
Confidence 46788887 46788889999999999999988754332 1 2333388899999999999998766553334333
Q ss_pred H
Q 003167 151 A 151 (843)
Q Consensus 151 a 151 (843)
.
T Consensus 76 ~ 76 (279)
T PF00532_consen 76 I 76 (279)
T ss_dssp H
T ss_pred H
Confidence 3
No 455
>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=48.40 E-value=1.4e+02 Score=29.19 Aligned_cols=87 Identities=13% Similarity=0.069 Sum_probs=60.0
Q ss_pred cEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC----hhhHHHHH
Q 003167 73 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY----SRTGLMVF 148 (843)
Q Consensus 73 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~----~~~~~~i~ 148 (843)
.+|.+....++...-+...+...++..|.+|.+-- . +.....+++.+++.+||+|.+.+. ......++
T Consensus 85 ~~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~LG---~-----~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i 156 (197)
T TIGR02370 85 GKVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDLG---R-----DVPIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDIN 156 (197)
T ss_pred CeEEEEeCCCchhHHHHHHHHHHHHhCCcEEEECC---C-----CCCHHHHHHHHHHcCCCEEEEccccccCHHHHHHHH
Confidence 46666666777777778888889999999988532 2 223455677778889999988654 24566678
Q ss_pred HHHHHcCCcccceEEEEeC
Q 003167 149 DVAQRLGMMDSGYVWIATT 167 (843)
Q Consensus 149 ~~a~~~g~~~~~~~~i~~~ 167 (843)
+++++.|....-.+++++.
T Consensus 157 ~~l~~~~~~~~v~i~vGG~ 175 (197)
T TIGR02370 157 DKLKEEGYRDSVKFMVGGA 175 (197)
T ss_pred HHHHHcCCCCCCEEEEECh
Confidence 8888877654344555543
No 456
>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=48.34 E-value=60 Score=33.37 Aligned_cols=77 Identities=10% Similarity=0.074 Sum_probs=52.0
Q ss_pred EEEEEe-cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHHHHHH
Q 003167 75 VIAIFN-DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~-d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~~~a~ 152 (843)
|++|.. .++|.......+.+++++.|..+.... +.. .+...-...+..+.+.++|.+|+...... ....++++.
T Consensus 2 i~~v~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~--~~~--~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~ 77 (271)
T cd06314 2 IAVVTNGASPFWKIAEAGVKAAGKELGVDVEFVV--PQQ--GTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIPALNKAA 77 (271)
T ss_pred eEEEcCCCcHHHHHHHHHHHHHHHHcCCeEEEeC--CCC--CCHHHHHHHHHHHHhcCCCEEEEecCChhHhHHHHHHHh
Confidence 455553 456778889999999999998877542 111 12444567788888899999998764433 345667765
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+ |.
T Consensus 78 ~-~i 80 (271)
T cd06314 78 A-GI 80 (271)
T ss_pred c-CC
Confidence 5 54
No 457
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=48.27 E-value=1e+02 Score=32.17 Aligned_cols=80 Identities=1% Similarity=0.007 Sum_probs=55.8
Q ss_pred CcEEEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHH
Q 003167 72 WGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVF 148 (843)
Q Consensus 72 w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~ 148 (843)
-+.++++.. ++.|.......+.+++++.|.++..... . .+.......++++...++|++++.....+ ....+
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~~~~~~---~--~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l 100 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDS---Q--NNPAKELANVQDLTVRGTKILLINPTDSDAVGNAV 100 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeEEEecC---C--CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHH
Confidence 567888886 4667888899999999999998875321 1 12444566777787788998887654433 23566
Q ss_pred HHHHHcCC
Q 003167 149 DVAQRLGM 156 (843)
Q Consensus 149 ~~a~~~g~ 156 (843)
+.+++.|.
T Consensus 101 ~~~~~~~i 108 (295)
T PRK10653 101 KMANQANI 108 (295)
T ss_pred HHHHHCCC
Confidence 77777664
No 458
>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=48.19 E-value=70 Score=32.77 Aligned_cols=77 Identities=8% Similarity=-0.027 Sum_probs=52.7
Q ss_pred EEEEEe---cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhh-HHHHHHH
Q 003167 75 VIAIFN---DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDV 150 (843)
Q Consensus 75 v~ii~~---d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~-~~~i~~~ 150 (843)
|++|.. ++.|+....+.+.+++++.|..+.... .. .+.......++.+...++|.|++.....+ ....++.
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~---~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~ 76 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVEVIVLD---AN--GDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRK 76 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCEEEEEc---CC--cCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHH
Confidence 456664 457888889999999999998877542 22 22445556677777789999988764332 3456677
Q ss_pred HHHcCC
Q 003167 151 AQRLGM 156 (843)
Q Consensus 151 a~~~g~ 156 (843)
+.+.|.
T Consensus 77 ~~~~~i 82 (275)
T cd06317 77 AKQAGI 82 (275)
T ss_pred HHHCCC
Confidence 777664
No 459
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=48.00 E-value=94 Score=28.92 Aligned_cols=98 Identities=10% Similarity=-0.071 Sum_probs=57.9
Q ss_pred cCCChHHhHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCC
Q 003167 52 TAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME 131 (843)
Q Consensus 52 ~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~ 131 (843)
..+.-..|++.+++.++..+..--.|+.+.-.-.+..++.+.+.+.. ...+.....+.++ .+..++...+.++...+
T Consensus 23 Lt~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l~~~~~~-~~~~~~~~~l~p~--~~~~~~~~~l~~~~~~~ 99 (152)
T TIGR00249 23 LTTNGCDESRLVAQWLKGQGVEIERILVSPFVRAEQTAEIVGDCLNL-PSSAEVLEGLTPC--GDIGLVSDYLEALTNEG 99 (152)
T ss_pred cCHHHHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHHcCC-CcceEEccCcCCC--CCHHHHHHHHHHHHhcC
Confidence 34444578888999888765543345555444444455555444321 1223333334333 34566777777776555
Q ss_pred CeEEEEEcChhhHHHHHHHHH
Q 003167 132 ARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 132 ~~viv~~~~~~~~~~i~~~a~ 152 (843)
.+.++++++.+....++..+-
T Consensus 100 ~~~vliVgH~P~i~~l~~~l~ 120 (152)
T TIGR00249 100 VASVLLVSHLPLVGYLVAELC 120 (152)
T ss_pred CCEEEEEeCCCCHHHHHHHHh
Confidence 677888888888888877764
No 460
>KOG3713 consensus Voltage-gated K+ channel KCNB/KCNC [Inorganic ion transport and metabolism]
Probab=47.27 E-value=23 Score=39.06 Aligned_cols=63 Identities=19% Similarity=0.331 Sum_probs=47.9
Q ss_pred HHHHHHhhhhhcccCCCCCCCCcccchhhHHHHHHHHhhccc--ccccccchhHHHHHHHHHHHHHHhh
Q 003167 508 LVVGTVVWILEHRLNDEFRGPPRKQIVTVLWFSFSTMFFAHR--ENTVSTLGRVVLIIWLFVVLIITSS 574 (843)
Q Consensus 508 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~s~~~R~~~~~w~~~~lil~~~ 574 (843)
++.+.+++++|+-.+. +...++--++|++..+|.--|. -.|+..++|++.....++++++.+.
T Consensus 357 ~iFStlvY~~Ek~~~~----~~FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~GVLvlAl 421 (477)
T KOG3713|consen 357 VIFSTLVYFAEKDEPD----TKFTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILCGVLVLAL 421 (477)
T ss_pred HHHHHHHHHhhhcCCC----CCCccccchhheeeEEEeeecccCccccccchHHHHHHHHHHhHHHhhc
Confidence 3445566777765543 2356788899999999986664 4899999999999999998887764
No 461
>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=47.17 E-value=82 Score=31.93 Aligned_cols=75 Identities=12% Similarity=0.031 Sum_probs=51.1
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|+++.. ++.|.....+.+.+++++.|.++..... . .+.......++++.+.++|.+++...... ..++..+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~~~ 75 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYENGYQMLLMNT---N--FSIEKEIEALELLARQKVDGIILLATTIT-DEHREAIK 75 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHCCCEEEEEeC---C--CCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHh
Confidence 456665 3566678899999999999998865322 2 22455567778888899999998765432 23555666
Q ss_pred HcC
Q 003167 153 RLG 155 (843)
Q Consensus 153 ~~g 155 (843)
+.|
T Consensus 76 ~~~ 78 (259)
T cd01542 76 KLN 78 (259)
T ss_pred cCC
Confidence 555
No 462
>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=47.07 E-value=1.3e+02 Score=27.37 Aligned_cols=73 Identities=10% Similarity=0.096 Sum_probs=47.5
Q ss_pred EEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChh----hHHHHHHHH
Q 003167 76 IAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR----TGLMVFDVA 151 (843)
Q Consensus 76 ~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~----~~~~i~~~a 151 (843)
.+-....|-..-....+...|+..|.+|...-.. ......++.+++.++++|.+++... ....+++..
T Consensus 6 ~~a~~g~D~Hd~g~~iv~~~l~~~GfeVi~lg~~--------~s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L 77 (132)
T TIGR00640 6 LVAKMGQDGHDRGAKVIATAYADLGFDVDVGPLF--------QTPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKEL 77 (132)
T ss_pred EEEeeCCCccHHHHHHHHHHHHhCCcEEEECCCC--------CCHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHH
Confidence 3333334444455667777888899998864332 2234567788889999999987654 344566667
Q ss_pred HHcCC
Q 003167 152 QRLGM 156 (843)
Q Consensus 152 ~~~g~ 156 (843)
++.|.
T Consensus 78 ~~~g~ 82 (132)
T TIGR00640 78 DKLGR 82 (132)
T ss_pred HhcCC
Confidence 77664
No 463
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=46.94 E-value=1e+02 Score=31.27 Aligned_cols=88 Identities=10% Similarity=-0.018 Sum_probs=54.1
Q ss_pred HhHHHHHHHHHHc--CCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEE
Q 003167 58 YLMSAIAEMVSYF--GWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVI 135 (843)
Q Consensus 58 ~~~~ai~~ll~~~--~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~vi 135 (843)
..++.+++++... .-++|.++. |....+.+.+.|++.|..|.....|... ....+.......+++.+.|+|
T Consensus 102 ~~~e~L~~~~~~~~~~~~~vL~~r-----g~~~r~~l~~~L~~~G~~v~~~~vY~~~--~~~~~~~~~~~~l~~~~~d~i 174 (240)
T PRK09189 102 GDGVRLAETVAAALAPTARLLYLA-----GRPRAPVFEDRLAAAGIPFRVAECYDML--PVMYSPATLSAILGGAPFDAV 174 (240)
T ss_pred CCHHHHHHHHHHhcCCCCcEEEec-----cCcccchhHHHHHhCCCeeEEEEEEEee--cCCCChHHHHHHHhcCCCCEE
Confidence 4567777776542 446666665 3445678889999999887766655332 111222344555666678887
Q ss_pred EEEcChhhHHHHHHHHHH
Q 003167 136 VVHGYSRTGLMVFDVAQR 153 (843)
Q Consensus 136 v~~~~~~~~~~i~~~a~~ 153 (843)
++.+ +..+..+++....
T Consensus 175 ~f~S-~~~~~~f~~~~~~ 191 (240)
T PRK09189 175 LLYS-RVAARRFFALMRL 191 (240)
T ss_pred EEeC-HHHHHHHHHHHhh
Confidence 7765 4456667766543
No 464
>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=46.91 E-value=64 Score=32.98 Aligned_cols=61 Identities=13% Similarity=0.303 Sum_probs=45.1
Q ss_pred EEEEEEec----CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 74 EVIAIFND----DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 74 ~v~ii~~d----~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
||++|..+ ++|.....+.+.+.+++.|..+...... + ..+....++.+...++|.|++...
T Consensus 1 ~Igvi~~~~~~~~~f~~~l~~gi~~~~~~~gy~~~~~~~~--~----~~~~~~~~~~l~~~~vdgiii~~~ 65 (260)
T cd06304 1 KVALVYDGGGGDKSFNQSAYEGLEKAEKELGVEVKYVESV--E----DADYEPNLRQLAAQGYDLIFGVGF 65 (260)
T ss_pred CEEEEecCCCCcchHHHHHHHHHHHHHHhcCceEEEEecC--C----HHHHHHHHHHHHHcCCCEEEECCc
Confidence 47777764 5677788889999999999987764322 3 345567888888889998888643
No 465
>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=46.86 E-value=90 Score=31.80 Aligned_cols=76 Identities=12% Similarity=0.101 Sum_probs=51.6
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|+++.. ++.|.......+.+++++.|.++..... . .+.......+..+...++|.|++.....+... ++++.
T Consensus 2 igvi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~-~~~~~ 75 (264)
T cd06274 2 IGLIIPDLENRSFARIAKRLEALARERGYQLLIACS---D--DDPETERETVETLIARQVDALIVAGSLPPDDP-YYLCQ 75 (264)
T ss_pred EEEEeccccCchHHHHHHHHHHHHHHCCCEEEEEeC---C--CCHHHHHHHHHHHHHcCCCEEEEcCCCCchHH-HHHHH
Confidence 455554 4677788889999999999998776432 1 12444567788888899999988765433322 55666
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|.
T Consensus 76 ~~~i 79 (264)
T cd06274 76 KAGL 79 (264)
T ss_pred hcCC
Confidence 6564
No 466
>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=46.50 E-value=87 Score=31.86 Aligned_cols=76 Identities=8% Similarity=0.050 Sum_probs=51.4
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|++|.. ++.|.......+.+++++.|..+.... .. .+.......++++.+.++|.|++........ .++++.
T Consensus 2 igvi~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~---~~--~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~-~l~~~~ 75 (267)
T cd06283 2 IGVIVADITNPFSSLVLKGIEDVCRAHGYQVLVCN---SD--NDPEKEKEYLESLLAYQVDGLIVNPTGNNKE-LYQRLA 75 (267)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEc---CC--CCHHHHHHHHHHHHHcCcCEEEEeCCCCChH-HHHHHh
Confidence 455554 567888889999999999998876432 22 2244556778888888999998876543332 356666
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|.
T Consensus 76 ~~~i 79 (267)
T cd06283 76 KNGK 79 (267)
T ss_pred cCCC
Confidence 6553
No 467
>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=46.46 E-value=87 Score=31.95 Aligned_cols=76 Identities=9% Similarity=0.030 Sum_probs=52.7
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|+++.. ++.|.......+.+++++.|.++.... .. .+.......++.+.+.++|.|++....... ..++++.
T Consensus 2 igvi~p~~~~~~~~~~~~gi~~~~~~~~~~~~~~~---~~--~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~ 75 (265)
T cd06285 2 IGVLVPRLTDTVMATMYEGIEEAAAERGYSTFVAN---TG--DNPDAQRRAIEMLLDRRVDGLILGDARSDD-HFLDELT 75 (265)
T ss_pred EEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEe---CC--CCHHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHH
Confidence 566766 467888889999999999999875422 22 224455677888888999988887644333 3466777
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|.
T Consensus 76 ~~~i 79 (265)
T cd06285 76 RRGV 79 (265)
T ss_pred HcCC
Confidence 7664
No 468
>PRK13054 lipid kinase; Reviewed
Probab=46.06 E-value=1.9e+02 Score=30.42 Aligned_cols=75 Identities=12% Similarity=0.094 Sum_probs=49.2
Q ss_pred cEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 73 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 73 ~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
+++.+|+....-+......+.+.+.+.|..+....+-. ..+...+.+++...+.|+|++.+.......++..+.
T Consensus 4 ~~~~~i~N~~~~~~~~~~~~~~~l~~~g~~~~v~~t~~------~~~a~~~a~~~~~~~~d~vvv~GGDGTl~evv~~l~ 77 (300)
T PRK13054 4 PKSLLILNGKSAGNEELREAVGLLREEGHTLHVRVTWE------KGDAARYVEEALALGVATVIAGGGDGTINEVATALA 77 (300)
T ss_pred ceEEEEECCCccchHHHHHHHHHHHHcCCEEEEEEecC------CCcHHHHHHHHHHcCCCEEEEECCccHHHHHHHHHH
Confidence 57778886433244456667778888898765432211 234556666666677899998888777777777765
Q ss_pred H
Q 003167 153 R 153 (843)
Q Consensus 153 ~ 153 (843)
.
T Consensus 78 ~ 78 (300)
T PRK13054 78 Q 78 (300)
T ss_pred h
Confidence 4
No 469
>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=45.94 E-value=1.3e+02 Score=32.05 Aligned_cols=80 Identities=8% Similarity=0.041 Sum_probs=53.8
Q ss_pred CcEEEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHH
Q 003167 72 WGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 149 (843)
Q Consensus 72 w~~v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~ 149 (843)
-+.|+++.. ++.|.......+.+++++.|..+..... . .+.......+..+...++|.||+..........++
T Consensus 60 ~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~---~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~ 134 (327)
T TIGR02417 60 SRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIACS---D--DNPDQEKVVIENLLARQVDALIVASCMPPEDAYYQ 134 (327)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeC---C--CCHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHHH
Confidence 457888876 4667788899999999999998875432 1 12334456677788889999888754321234456
Q ss_pred HHHHcCC
Q 003167 150 VAQRLGM 156 (843)
Q Consensus 150 ~a~~~g~ 156 (843)
++.+.|.
T Consensus 135 ~l~~~~i 141 (327)
T TIGR02417 135 KLQNEGL 141 (327)
T ss_pred HHHhcCC
Confidence 6666553
No 470
>PF14981 FAM165: FAM165 family
Probab=45.90 E-value=51 Score=23.14 Aligned_cols=33 Identities=18% Similarity=0.232 Sum_probs=26.8
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 003167 732 IQSFRGLFLICGIACFLALLAYFCLMLRQFKKY 764 (843)
Q Consensus 732 l~~~~g~f~il~~g~~lal~vf~~e~~~~~~~~ 764 (843)
++++--++||++.-.++-++.|..--+|++++.
T Consensus 3 L~~vPlLlYILaaKtlilClaFAgvK~yQ~krl 35 (51)
T PF14981_consen 3 LDNVPLLLYILAAKTLILCLAFAGVKMYQRKRL 35 (51)
T ss_pred hhhchHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 567788899999888888888888888877653
No 471
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=45.85 E-value=22 Score=25.74 Aligned_cols=27 Identities=19% Similarity=0.463 Sum_probs=21.9
Q ss_pred hHHHHHHHHHHHHHHHhhhhhcccCCC
Q 003167 498 LMWAVTGVFFLVVGTVVWILEHRLNDE 524 (843)
Q Consensus 498 ~vW~~~~~~~~~~~~v~~~~~~~~~~~ 524 (843)
++|.++..+.+++++++|.+..+..+.
T Consensus 12 ~~~~l~~~~~~Figiv~wa~~p~~k~~ 38 (48)
T cd01324 12 DSWGLLYLALFFLGVVVWAFRPGRKKA 38 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCcchh
Confidence 678888889999999999997655443
No 472
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=45.79 E-value=13 Score=36.48 Aligned_cols=31 Identities=26% Similarity=0.404 Sum_probs=25.8
Q ss_pred CeEEEEcCCChHHHHHHHHhcccCCCcEEec
Q 003167 4 DTLAIVGPQSAVMAHVLSHLANELQVPLLSF 34 (843)
Q Consensus 4 ~V~aiiGp~~S~~~~av~~~~~~~~vP~Is~ 34 (843)
+|.+|+||++++-+.....++++.+.|+|+.
T Consensus 2 ~v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~ 32 (233)
T PF01745_consen 2 KVYLIVGPTGTGKTALAIALAQKTGAPVISL 32 (233)
T ss_dssp EEEEEE-STTSSHHHHHHHHHHHH--EEEEE
T ss_pred cEEEEECCCCCChhHHHHHHHHHhCCCEEEe
Confidence 6889999999999999999999999999974
No 473
>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=45.44 E-value=1.3e+02 Score=26.34 Aligned_cols=71 Identities=13% Similarity=0.060 Sum_probs=44.4
Q ss_pred EEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh----hhHHHHHHHHH
Q 003167 77 AIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS----RTGLMVFDVAQ 152 (843)
Q Consensus 77 ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~----~~~~~i~~~a~ 152 (843)
+.....+.-.-+...+...++..|.+|.+-. .. ......+..+.+.+|++|.+.+.. ..+..+.++++
T Consensus 4 ~~~~~~e~H~lG~~~~~~~l~~~G~~V~~lg---~~-----~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~ 75 (119)
T cd02067 4 IATVGGDGHDIGKNIVARALRDAGFEVIDLG---VD-----VPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELK 75 (119)
T ss_pred EEeeCCchhhHHHHHHHHHHHHCCCEEEECC---CC-----CCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHH
Confidence 3334555556667778888888998886432 11 123355666777889988887652 34455666776
Q ss_pred HcC
Q 003167 153 RLG 155 (843)
Q Consensus 153 ~~g 155 (843)
+.+
T Consensus 76 ~~~ 78 (119)
T cd02067 76 EAG 78 (119)
T ss_pred HcC
Confidence 654
No 474
>cd06324 PBP1_ABC_sugar_binding_like_13 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=45.31 E-value=80 Score=33.24 Aligned_cols=77 Identities=6% Similarity=0.050 Sum_probs=52.0
Q ss_pred EEEEEe---cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC--CCeEEEEEcChhhHHHHHH
Q 003167 75 VIAIFN---DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFD 149 (843)
Q Consensus 75 v~ii~~---d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~viv~~~~~~~~~~i~~ 149 (843)
|+++.. ++.|.......+++++++.|.++..... . .+.......+..+.+. ++|.|++..........++
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~g~~v~~~~~---~--~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~ 76 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDLGIELEVLYA---E--RDRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLR 76 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhcCCeEEEEeC---C--CCHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHH
Confidence 555653 4567778888999999999998765421 2 2244445667777778 9999998654333445667
Q ss_pred HHHHcCC
Q 003167 150 VAQRLGM 156 (843)
Q Consensus 150 ~a~~~g~ 156 (843)
.+.+.|.
T Consensus 77 ~~~~~gi 83 (305)
T cd06324 77 LAEGAGV 83 (305)
T ss_pred HHHhCCC
Confidence 7777664
No 475
>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=45.02 E-value=1.4e+02 Score=28.03 Aligned_cols=97 Identities=10% Similarity=0.023 Sum_probs=50.3
Q ss_pred CChHHhhhCCCeEEE-EeC-chHHHHHHHhhCCCCc---ceEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeE
Q 003167 593 KGIDTLMTSNDRVGY-QVG-SFAENYLIEELSIPKS---RLVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFS 667 (843)
Q Consensus 593 ~s~~dL~~~~~~i~~-~~~-~~~~~~l~~~~~~~~~---~~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~ 667 (843)
-+++||. +.++.. ... .....++. ..+.... ....+++.+...+.+..|..-+++.......+ .. ...+.
T Consensus 86 ~~~~dl~--~~~~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~v~~g~Gi~~~p~~~~~~~-~~-~~~l~ 160 (194)
T cd08481 86 AAPADLA--HLPLLQQTTRPEAWRDWFE-EVGLEVPTAYRGMRFEQFSMLAQAAVAGLGVALLPRFLIEEE-LA-RGRLV 160 (194)
T ss_pred CcHHHHh--hCceEecCCCCcCHHHHHH-HcCCCCCCccCceEeccHHHHHHHHHhCCCeEEecHHHHHHH-HH-CCCEE
Confidence 4678886 333322 211 22344453 3343211 22445788888999998887677765443323 22 22333
Q ss_pred Ee--CCccccCcceeeecCCCCchHHHHH
Q 003167 668 VR--GQEFTKSGWGFAFPRDSPLAIDMST 694 (843)
Q Consensus 668 ~~--~~~~~~~~~~~~~~k~spl~~~in~ 694 (843)
.. .+......++++.+++.+....+..
T Consensus 161 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 189 (194)
T cd08481 161 VPFNLPLTSDKAYYLVYPEDKAESPPVQA 189 (194)
T ss_pred eecCccccCCCeEEEEeCcccccCHHHHH
Confidence 22 2222345778888887665544443
No 476
>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=44.97 E-value=84 Score=33.74 Aligned_cols=98 Identities=9% Similarity=0.139 Sum_probs=60.1
Q ss_pred HHHHHHHHHcCC-cEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEee-ecCCCCCCChhHHHHHHHHHhcCCCeEEEEE
Q 003167 61 SAIAEMVSYFGW-GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKS-ALPPDQSVTETDVRNELVKVRMMEARVIVVH 138 (843)
Q Consensus 61 ~ai~~ll~~~~w-~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~-~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~ 138 (843)
..+.++++.++. +++.+|+....+-.. .+.+.+.+++.|+.+.... ....+ .+...+...+..+++ ++|+||..
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~~~-~~~i~~~L~~~~~~~~i~~~~~~~~--p~~~~v~~~~~~~~~-~~d~IIai 87 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYKVA-GKEIIERLESNNFTKEVLERDSLLI--PDEYELGEVLIKLDK-DTEFLLGI 87 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHHHH-HHHHHHHHHHcCCeEEEEecCCCCC--CCHHHHHHHHHHhhc-CCCEEEEE
Confidence 345666777776 788888865443332 4778888988887654211 12222 346677788888887 99999987
Q ss_pred cCh--hhHHHHHHHHHHcCCcccceEEEEeC
Q 003167 139 GYS--RTGLMVFDVAQRLGMMDSGYVWIATT 167 (843)
Q Consensus 139 ~~~--~~~~~i~~~a~~~g~~~~~~~~i~~~ 167 (843)
+.+ -|+..++. ...|+ .++-|.|.
T Consensus 88 GGGsv~D~aK~iA--~~~gi---p~I~VPTT 113 (332)
T cd08549 88 GSGTIIDLVKFVS--FKVGK---PFISVPTA 113 (332)
T ss_pred CCcHHHHHHHHHH--HHcCC---CEEEeCCC
Confidence 654 45555554 22332 44555544
No 477
>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=44.96 E-value=1.1e+02 Score=28.10 Aligned_cols=48 Identities=27% Similarity=0.300 Sum_probs=37.1
Q ss_pred hHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 88 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 88 ~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
....+.+.+++.|.++.....++.+ ..++...+.++.+ ++|+||..+.
T Consensus 28 n~~~l~~~l~~~G~~v~~~~~v~Dd----~~~i~~~l~~~~~-~~DliIttGG 75 (144)
T TIGR00177 28 NGPLLAALLEEAGFNVSRLGIVPDD----PEEIREILRKAVD-EADVVLTTGG 75 (144)
T ss_pred cHHHHHHHHHHCCCeEEEEeecCCC----HHHHHHHHHHHHh-CCCEEEECCC
Confidence 3567888899999998887776655 6778887777654 7999998764
No 478
>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=44.88 E-value=94 Score=31.84 Aligned_cols=77 Identities=9% Similarity=-0.027 Sum_probs=52.7
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh-hh---HHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RT---GLMVF 148 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~-~~---~~~i~ 148 (843)
|++|.. ++.|.......+.+++++.|..+.... .. .+.+.....++.+.+.++|.+++.... .+ ....+
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~---~~--~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i 76 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQYGYTVLLCN---TY--RGGVSEADYVEDLLARGVRGVVFISSLHADTHADHSHY 76 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHHCCCEEEEEe---CC--CChHHHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHH
Confidence 456665 567888899999999999999876432 22 224556677889999999998886432 21 22345
Q ss_pred HHHHHcCC
Q 003167 149 DVAQRLGM 156 (843)
Q Consensus 149 ~~a~~~g~ 156 (843)
.++.+.|+
T Consensus 77 ~~~~~~~i 84 (273)
T cd06292 77 ERLAERGL 84 (273)
T ss_pred HHHHhCCC
Confidence 66666664
No 479
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=44.40 E-value=1.1e+02 Score=27.57 Aligned_cols=49 Identities=22% Similarity=0.466 Sum_probs=36.3
Q ss_pred chHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 87 NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 87 ~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
.....+.+.+++.|.++.....++.+ ...+...+.++.+. +|+|+..+.
T Consensus 19 ~n~~~l~~~l~~~G~~v~~~~~v~Dd----~~~i~~~i~~~~~~-~DlvittGG 67 (133)
T cd00758 19 TNGPALEALLEDLGCEVIYAGVVPDD----ADSIRAALIEASRE-ADLVLTTGG 67 (133)
T ss_pred chHHHHHHHHHHCCCEEEEeeecCCC----HHHHHHHHHHHHhc-CCEEEECCC
Confidence 34667888889999998877666544 67788888777544 899988754
No 480
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=44.34 E-value=4.4e+02 Score=28.78 Aligned_cols=141 Identities=12% Similarity=0.116 Sum_probs=77.9
Q ss_pred EEcCCChHHHHHHHHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecCCCC--
Q 003167 8 IVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQG-- 85 (843)
Q Consensus 8 iiGp~~S~~~~av~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~~~g-- 85 (843)
++||..-....++..+. ..+|=+|.++-. =++|-.|. ....+-.++.+...-++|.++|. +.||
T Consensus 195 lm~p~~~~v~~~l~~~~-~l~i~~IaP~HG----------~i~~~~~~--~i~~~Y~~W~~~~~~~~V~l~Y~-smyg~T 260 (388)
T COG0426 195 LMAPNARLVLWALKKIK-LLKIEMIAPSHG----------PIWRGNPK--EIVEAYRDWAEGQPKGKVDLIYD-SMYGNT 260 (388)
T ss_pred hhcccHHHHHHHHhhhc-ccCccEEEcCCC----------ceeeCCHH--HHHHHHHHHHccCCcceEEEEEe-cccCCH
Confidence 45666555544444333 366777764321 13444332 23344445554443448999994 4455
Q ss_pred cchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh------hhHHHHHHHHHHcCCccc
Q 003167 86 RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS------RTGLMVFDVAQRLGMMDS 159 (843)
Q Consensus 86 ~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~------~~~~~i~~~a~~~g~~~~ 159 (843)
+..++++.+-+.+.|+.|.... .. ..|.+.++..|. +++.+++.+.. +....++-.........+
T Consensus 261 ~~ma~aiaegl~~~gv~v~~~~---~~----~~~~~eI~~~i~--~a~~~vvGsPT~~~~~~p~i~~~l~~v~~~~~~~k 331 (388)
T COG0426 261 EKMAQAIAEGLMKEGVDVEVIN---LE----DADPSEIVEEIL--DAKGLVVGSPTINGGAHPPIQTALGYVLALAPKNK 331 (388)
T ss_pred HHHHHHHHHHhhhcCCceEEEE---cc----cCCHHHHHHHHh--hcceEEEecCcccCCCCchHHHHHHHHHhccCcCc
Confidence 5679999999999999877532 22 336666666764 45666665543 234444444444443333
Q ss_pred ceEEEEeCcccc
Q 003167 160 GYVWIATTWLST 171 (843)
Q Consensus 160 ~~~~i~~~~~~~ 171 (843)
.-.-+++-+|..
T Consensus 332 ~~~vfgS~GW~g 343 (388)
T COG0426 332 LAGVFGSYGWSG 343 (388)
T ss_pred eEEEEeccCCCC
Confidence 334444545543
No 481
>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=43.74 E-value=2.8e+02 Score=25.98 Aligned_cols=70 Identities=19% Similarity=0.241 Sum_probs=44.8
Q ss_pred eEeHHHHHHHHHHCCCcccEEEEeCCCCCCCCChHHHHHHHHcCcccEEEeceeeecCcceeeeecccccccceEEEEec
Q 003167 402 GYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVFDAAVGDIAIVTNRTKAVDFTQPYIESGLVVVAPV 481 (843)
Q Consensus 402 G~~~dl~~~i~~~l~f~~~~~~~~~~~~~~n~~~~~~i~~l~~g~~Di~~~~~~i~~~r~~~vdfs~p~~~~~~~~~v~~ 481 (843)
.+-.+++..+.+..+ .++++... ++.+.+..++.+|++|+++.... .....+ .+.+.....++++++.
T Consensus 13 ~~l~~~l~~~~~~~P-~i~v~~~~-------~~~~~~~~~l~~g~~D~~i~~~~---~~~~~~-~~~~l~~~~~~~v~~~ 80 (198)
T cd08447 13 SFLPRLLAAARAALP-DVDLVLRE-------MVTTDQIEALESGRIDLGLLRPP---FARPGL-ETRPLVREPLVAAVPA 80 (198)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEe-------CCHHHHHHHHHcCCceEEEecCC---CCCCCe-eEEEeecCceEEEecC
Confidence 445678888887764 24455543 55789999999999999986321 111222 2356666777777665
Q ss_pred cC
Q 003167 482 RK 483 (843)
Q Consensus 482 ~~ 483 (843)
..
T Consensus 81 ~~ 82 (198)
T cd08447 81 GH 82 (198)
T ss_pred CC
Confidence 43
No 482
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=43.68 E-value=2.5e+02 Score=26.45 Aligned_cols=85 Identities=14% Similarity=0.126 Sum_probs=60.3
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHh---cCCCeEEE
Q 003167 60 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVR---MMEARVIV 136 (843)
Q Consensus 60 ~~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~---~~~~~viv 136 (843)
.+.+.+.+..+|-=.+.-+|.+- |. .+.|.+.+...|.+.... .+ +.|+.-.+..+. +.+.|.++
T Consensus 43 ~~~i~~~ls~~G~i~~~R~Y~~a-~a---~~~l~~~l~~~Gf~pv~~----kG----~~Dv~laIDame~~~~~~iD~~v 110 (160)
T TIGR00288 43 LDEIREILSEYGDIKIGKVLLNQ-YA---SDKLIEAVVNQGFEPIIV----AG----DVDVRMAVEAMELIYNPNIDAVA 110 (160)
T ss_pred HHHHHHHHHhcCCeEEEEEEech-hc---cHHHHHHHHHCCceEEEe----cC----cccHHHHHHHHHHhccCCCCEEE
Confidence 35677778888866666666543 22 246788999999986632 23 455555554443 36889999
Q ss_pred EEcChhhHHHHHHHHHHcCC
Q 003167 137 VHGYSRTGLMVFDVAQRLGM 156 (843)
Q Consensus 137 ~~~~~~~~~~i~~~a~~~g~ 156 (843)
+.+...+-..++..+++.|.
T Consensus 111 LvSgD~DF~~Lv~~lre~G~ 130 (160)
T TIGR00288 111 LVTRDADFLPVINKAKENGK 130 (160)
T ss_pred EEeccHhHHHHHHHHHHCCC
Confidence 99999999999999999875
No 483
>cd08173 Gro1PDH Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH, EC 1.1.1.261) plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids. It catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. The activity is zinc-dependent. One characteristic feature of archaea is that their cellular membrane has an ether linkage between the glycerol backbone and the hydrocarbon residues. The polar lipids of the members of Archaea consist of di- and tetraethers of glycerol with isoprenoid alcohols bound at the sn-2 and sn-3 positions of the glycerol moiety. The archaeal polar lipids have the enantiomeric configuration of a glycerophosph
Probab=43.53 E-value=1.1e+02 Score=33.07 Aligned_cols=82 Identities=13% Similarity=0.086 Sum_probs=55.1
Q ss_pred HHHHHHH-HcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 62 AIAEMVS-YFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 62 ai~~ll~-~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
.+.++++ ..+.+++.+|+.... .+...+.+.+.+++.| .+... +.++ .+.+.+...+..+++.++|+||..+.
T Consensus 14 ~l~~~l~~~~~~~~~liv~d~~~-~~~~~~~v~~~l~~~~-~~~~~--~~~~--~~~~~v~~~~~~~~~~~~d~iIaiGG 87 (339)
T cd08173 14 KIPNVLRDLLLGGRVLVVTGPTT-KSIAGKKVEALLEDEG-EVDVV--IVED--ATYEEVEKVESSARDIGADFVIGVGG 87 (339)
T ss_pred HHHHHHHHhCCCCeEEEEECCch-HHHHHHHHHHHHHhcC-CeEEE--EeCC--CCHHHHHHHHHHhhhcCCCEEEEeCC
Confidence 3556666 356789988884433 3356778888888888 44322 2233 45778888888998899999997765
Q ss_pred h--hhHHHHHH
Q 003167 141 S--RTGLMVFD 149 (843)
Q Consensus 141 ~--~~~~~i~~ 149 (843)
+ -|+..++.
T Consensus 88 Gs~~D~aK~~a 98 (339)
T cd08173 88 GRVIDVAKVAA 98 (339)
T ss_pred chHHHHHHHHH
Confidence 4 35555554
No 484
>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=43.29 E-value=1.3e+02 Score=32.61 Aligned_cols=83 Identities=10% Similarity=-0.006 Sum_probs=53.3
Q ss_pred HHHHHHHHHcCC--cEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcC---CCeEE
Q 003167 61 SAIAEMVSYFGW--GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVI 135 (843)
Q Consensus 61 ~ai~~ll~~~~w--~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~vi 135 (843)
..+.++++.+|. +++.+++ |...-. +.+.+.+++.|+.+.....+..+ .+..+....++..++. ++|+|
T Consensus 12 ~~l~~~~~~~g~~~~~~lvvt-d~~~~~---~~v~~~L~~~g~~~~~f~~v~~n--Pt~~~v~~~~~~~~~~~~~~~D~I 85 (347)
T cd08184 12 DQLNDLLAPKRKNKDPAVFFV-DDVFQG---KDLISRLPVESEDMIIWVDATEE--PKTDQIDALTAQVKSFDGKLPCAI 85 (347)
T ss_pred HHHHHHHHHcCCCCCeEEEEE-Ccchhh---hHHHHHHHhcCCcEEEEcCCCCC--cCHHHHHHHHHHHHhhCCCCCCEE
Confidence 346666777763 5566666 432221 56778888888865544445555 5567788888888877 89999
Q ss_pred EEEcCh--hhHHHHHH
Q 003167 136 VVHGYS--RTGLMVFD 149 (843)
Q Consensus 136 v~~~~~--~~~~~i~~ 149 (843)
|-.+.+ -|+.+.+.
T Consensus 86 IaiGGGS~iD~AKaia 101 (347)
T cd08184 86 VGIGGGSTLDVAKAVS 101 (347)
T ss_pred EEeCCcHHHHHHHHHH
Confidence 977654 35554443
No 485
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=43.20 E-value=1.4e+02 Score=32.02 Aligned_cols=82 Identities=5% Similarity=0.005 Sum_probs=54.3
Q ss_pred cCCcEEEEEEec--CCCCcchHHHHHHHHHhcC-cEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC-hhhHH
Q 003167 70 FGWGEVIAIFND--DDQGRNGVTALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGL 145 (843)
Q Consensus 70 ~~w~~v~ii~~d--~~~g~~~~~~l~~~l~~~g-~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~-~~~~~ 145 (843)
.+-+.|+++..+ +.|.....+.+.+++++.| ..+.... .. .+...-...+..+...++|.|++... .....
T Consensus 22 ~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~---~~--~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 96 (330)
T PRK15395 22 AADTRIGVTIYKYDDNFMSVVRKAIEKDAKAAPDVQLLMND---SQ--NDQSKQNDQIDVLLAKGVKALAINLVDPAAAP 96 (330)
T ss_pred cCCceEEEEEecCcchHHHHHHHHHHHHHHhcCCeEEEEec---CC--CCHHHHHHHHHHHHHcCCCEEEEeccCHHHHH
Confidence 355788888864 5677788888999999885 4555422 11 12333345677788889999998753 33344
Q ss_pred HHHHHHHHcCC
Q 003167 146 MVFDVAQRLGM 156 (843)
Q Consensus 146 ~i~~~a~~~g~ 156 (843)
..++++.+.|.
T Consensus 97 ~~l~~l~~~gi 107 (330)
T PRK15395 97 TVIEKARGQDV 107 (330)
T ss_pred HHHHHHHHCCC
Confidence 56777777664
No 486
>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=42.92 E-value=90 Score=32.05 Aligned_cols=61 Identities=15% Similarity=0.191 Sum_probs=45.7
Q ss_pred EEEEEEec-----CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 74 EVIAIFND-----DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 74 ~v~ii~~d-----~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
+|+++..+ +.|.....+.+.+++++.|..+...... + ..+....+..+.+.++|.||+...
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~~gy~~~i~~~~--~----~~~~~~~i~~l~~~~vdgiI~~~~ 66 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKELGIEYKYVESK--S----DADYEPNLEQLADAGYDLIVGVGF 66 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHHcCCeEEEEecC--C----HHHHHHHHHHHHhCCCCEEEEcCc
Confidence 46777743 5678888999999999999987764321 2 344567788888899999998754
No 487
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=42.82 E-value=2.8e+02 Score=33.38 Aligned_cols=24 Identities=29% Similarity=0.396 Sum_probs=18.5
Q ss_pred CeEEEEcCCChHHHHHHHHhcccC
Q 003167 4 DTLAIVGPQSAVMAHVLSHLANEL 27 (843)
Q Consensus 4 ~V~aiiGp~~S~~~~av~~~~~~~ 27 (843)
+|+++|||..++=+..++.++..+
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~~ 209 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAARC 209 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhhH
Confidence 588888888888877777777543
No 488
>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=42.71 E-value=80 Score=32.53 Aligned_cols=71 Identities=10% Similarity=0.037 Sum_probs=50.6
Q ss_pred cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh-hhHHHHHHHHHHcCC
Q 003167 81 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVAQRLGM 156 (843)
Q Consensus 81 d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~-~~~~~i~~~a~~~g~ 156 (843)
.+.|.....+.+.+++++.|.++..... . .+.......++.+.+.++|.|++.... ......++++.+.|.
T Consensus 10 ~~~f~~~~~~gi~~~~~~~G~~~~~~~~---~--~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~i 81 (272)
T cd06313 10 QATWCAQGKQAADEAGKLLGVDVTWYGG---A--LDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGI 81 (272)
T ss_pred CChHHHHHHHHHHHHHHHcCCEEEEecC---C--CCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCC
Confidence 4567778888999999999998886432 2 224555677888888999999986543 334556778877665
No 489
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=42.70 E-value=1.8e+02 Score=30.21 Aligned_cols=96 Identities=11% Similarity=0.103 Sum_probs=69.9
Q ss_pred CceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHH
Q 003167 47 PFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVK 126 (843)
Q Consensus 47 p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~ 126 (843)
.++.+-..+.. -++++.++.+.+|.+.+.+|-+.+ .++.+.+.|+..|.+.+.++.--.+ .++. -.+
T Consensus 162 D~vIQNganS~-VG~~ViQlaka~GiktinvVRdR~-----~ieel~~~Lk~lGA~~ViTeeel~~-----~~~~--k~~ 228 (354)
T KOG0025|consen 162 DSVIQNGANSG-VGQAVIQLAKALGIKTINVVRDRP-----NIEELKKQLKSLGATEVITEEELRD-----RKMK--KFK 228 (354)
T ss_pred CeeeecCcccH-HHHHHHHHHHHhCcceEEEeecCc-----cHHHHHHHHHHcCCceEecHHHhcc-----hhhh--hhh
Confidence 47777776554 688999999999999999998644 4799999999999887765432111 1111 112
Q ss_pred HhcCCCeEEEEEcChhhHHHHHHHHHHcC
Q 003167 127 VRMMEARVIVVHGYSRTGLMVFDVAQRLG 155 (843)
Q Consensus 127 i~~~~~~viv~~~~~~~~~~i~~~a~~~g 155 (843)
....+++.-+-|..+..+..+.+.+.+-|
T Consensus 229 ~~~~~prLalNcVGGksa~~iar~L~~Gg 257 (354)
T KOG0025|consen 229 GDNPRPRLALNCVGGKSATEIARYLERGG 257 (354)
T ss_pred ccCCCceEEEeccCchhHHHHHHHHhcCc
Confidence 34567888888888888888888887655
No 490
>PRK13957 indole-3-glycerol-phosphate synthase; Provisional
Probab=41.63 E-value=2.5e+02 Score=28.56 Aligned_cols=87 Identities=17% Similarity=0.158 Sum_probs=62.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcC
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 140 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~ 140 (843)
..++......|-.-+.|++ |..|..+..+.+++.-+...+.|..+..+- + .-++.+.+..++|+|++...
T Consensus 64 ~~~A~~y~~~GA~aISVlT-e~~~F~Gs~~~l~~v~~~v~~PvL~KDFIi-d--------~~QI~ea~~~GADavLLI~~ 133 (247)
T PRK13957 64 VQIAKTYETLGASAISVLT-DQSYFGGSLEDLKSVSSELKIPVLRKDFIL-D--------EIQIREARAFGASAILLIVR 133 (247)
T ss_pred HHHHHHHHHCCCcEEEEEc-CCCcCCCCHHHHHHHHHhcCCCEEeccccC-C--------HHHHHHHHHcCCCEEEeEHh
Confidence 3566667778998888887 555666677888877776666666544332 1 23566777799999988754
Q ss_pred ---hhhHHHHHHHHHHcCCc
Q 003167 141 ---SRTGLMVFDVAQRLGMM 157 (843)
Q Consensus 141 ---~~~~~~i~~~a~~~g~~ 157 (843)
..+...++..|.++||.
T Consensus 134 ~L~~~~l~~l~~~a~~lGle 153 (247)
T PRK13957 134 ILTPSQIKSFLKHASSLGMD 153 (247)
T ss_pred hCCHHHHHHHHHHHHHcCCc
Confidence 34678899999999985
No 491
>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=41.54 E-value=1.5e+02 Score=31.41 Aligned_cols=68 Identities=18% Similarity=0.231 Sum_probs=49.9
Q ss_pred cCCcEEEEEEecCCC--C---cchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcCh
Q 003167 70 FGWGEVIAIFNDDDQ--G---RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 141 (843)
Q Consensus 70 ~~w~~v~ii~~d~~~--g---~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~ 141 (843)
|.-.++++|...++- | ......+.+.+++.|.++.....++.+ ...+...+.++.+.++|+|+..+..
T Consensus 157 ~r~~rv~II~TG~Ev~~G~i~D~~~~~l~~~L~~~G~~v~~~~iv~Dd----~~~I~~ai~~~~~~g~DlIItTGGt 229 (312)
T cd03522 157 FRPLRVGLIVTGSEVYGGRIEDKFGPVLRARLAALGVELVEQVIVPHD----EAAIAAAIAEALEAGAELLILTGGA 229 (312)
T ss_pred cCCCEEEEEEcCCcCCCCcEEEhHHHHHHHHHHHCCCEEEEEEEcCCC----HHHHHHHHHHHhcCCCCEEEEeCCc
Confidence 445688888865532 2 233667888899999999888777655 7788888888776678999987653
No 492
>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=41.37 E-value=1.3e+02 Score=26.46 Aligned_cols=70 Identities=16% Similarity=0.119 Sum_probs=46.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeee-cCCCCCCChhHHHHHHHHHhcCCCeEEEEEc
Q 003167 61 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSA-LPPDQSVTETDVRNELVKVRMMEARVIVVHG 139 (843)
Q Consensus 61 ~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~-~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~ 139 (843)
..++.++++.|| .|.++-.+. ..+.+.+.+.+.+..++.... +... .......++.+|+..+++.++.+
T Consensus 18 ~~la~~l~~~G~-~v~~~d~~~-----~~~~l~~~~~~~~pd~V~iS~~~~~~----~~~~~~l~~~~k~~~p~~~iv~G 87 (121)
T PF02310_consen 18 LYLAAYLRKAGH-EVDILDANV-----PPEELVEALRAERPDVVGISVSMTPN----LPEAKRLARAIKERNPNIPIVVG 87 (121)
T ss_dssp HHHHHHHHHTTB-EEEEEESSB------HHHHHHHHHHTTCSEEEEEESSSTH----HHHHHHHHHHHHTTCTTSEEEEE
T ss_pred HHHHHHHHHCCC-eEEEECCCC-----CHHHHHHHHhcCCCcEEEEEccCcCc----HHHHHHHHHHHHhcCCCCEEEEE
Confidence 457788888898 444443222 237788888888777776655 3333 56677888889888888555544
Q ss_pred C
Q 003167 140 Y 140 (843)
Q Consensus 140 ~ 140 (843)
.
T Consensus 88 G 88 (121)
T PF02310_consen 88 G 88 (121)
T ss_dssp E
T ss_pred C
Confidence 3
No 493
>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=40.90 E-value=2.8e+02 Score=30.02 Aligned_cols=73 Identities=19% Similarity=0.174 Sum_probs=45.1
Q ss_pred CeEEEEcCCChHHHHHH------------------------HHhcccCCCcEEecccCCCCCCCCCCCceEEcCCChHHh
Q 003167 4 DTLAIVGPQSAVMAHVL------------------------SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYL 59 (843)
Q Consensus 4 ~V~aiiGp~~S~~~~av------------------------~~~~~~~~vP~Is~~at~~~ls~~~~p~~fR~~p~d~~~ 59 (843)
+|+.++|.+-++.++++ .+.+.+.+||+|+-++.. +....
T Consensus 23 ~~d~l~~d~LaE~tma~~~~~~~~~p~~gY~~~~~~~L~~~L~~~~~~gIkvI~NaGg~----------------np~~~ 86 (362)
T PF07287_consen 23 DVDYLVGDYLAERTMAILARAKRKDPTKGYAPDFVRDLRPLLPAAAEKGIKVITNAGGL----------------NPAGC 86 (362)
T ss_pred CCCEEEEecHHHHHHHHHHHHHhhCCCCCchHHHHHHHHHHHHHHHhCCCCEEEeCCCC----------------CHHHH
Confidence 56667777766655444 344556677777643321 12225
Q ss_pred HHHHHHHHHHcCCc-EEEEEEecCCCCcchHHHHHHHHH
Q 003167 60 MSAIAEMVSYFGWG-EVIAIFNDDDQGRNGVTALGDKLA 97 (843)
Q Consensus 60 ~~ai~~ll~~~~w~-~v~ii~~d~~~g~~~~~~l~~~l~ 97 (843)
++.+.++++..|.+ ||++|+.|+. .+.+.+.+.
T Consensus 87 a~~v~eia~e~Gl~lkvA~V~gDd~-----~~~v~~~~~ 120 (362)
T PF07287_consen 87 ADIVREIARELGLSLKVAVVYGDDL-----KDEVKELLA 120 (362)
T ss_pred HHHHHHHHHhcCCCeeEEEEECccc-----hHhHHHHHh
Confidence 67788888887775 8999997764 455555444
No 494
>cd08475 PBP2_CrgA_like_6 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type transcriptional regulator (LTTR) CrgA-like 6. The LTTRs are acting as both auto-repressors and activators of target promoters, controlling operons involved in a wide variety of cellular processes such as amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, nodule formation of nitrogen-fixing bacteria, and synthesis of virulence factors, to name a few. In contrast to the tetrameric form of other LTTRs, CrgA from Neisseria meningitides assembles into an octameric ring, which can bind up to four 63-bp DNA oligonucleotides. Phylogenetic cluster analysis showed that the CrgA-like regulators form a subclass of the LTTRs that function as octamers. The CrgA is an auto-repressor of its own gene a
Probab=40.68 E-value=3e+02 Score=25.74 Aligned_cols=66 Identities=14% Similarity=-0.021 Sum_probs=38.6
Q ss_pred eEeCCCHHHHHHHHhcCCcEEEEcChhhHHHHHhcCCCeEEeC--CccccCcceeeecCCCCchHHHHHH
Q 003167 628 LVALGSPEEYAIALENRTVAAVVDERPYIDLFLSDHCQFSVRG--QEFTKSGWGFAFPRDSPLAIDMSTA 695 (843)
Q Consensus 628 ~~~~~~~~~~~~~l~~g~~~a~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~~~~~~k~spl~~~in~~ 695 (843)
...+++.+...+.+..|..-+++.+. .++.... ...+..+. .......+.++.+|+......+...
T Consensus 128 ~~~~~~~~~~~~~v~~g~gi~~~p~~-~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 195 (199)
T cd08475 128 RLQFDDGEAIADAALAGLGIAQLPTW-LVADHLQ-RGELVEVLPELAPEGLPIHAVWPRTRHLPPKVRAA 195 (199)
T ss_pred cEEECCHHHHHHHHHhCCCEEeeeHH-HHHhHhh-cCcEEEecCCCcCCCccEEEEeCCcccCCHHHHHH
Confidence 45578888999999998776666543 3333222 22333332 2233456788888876655544443
No 495
>cd06286 PBP1_CcpB_like Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. This group includes the ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. CcpB is 30% identical in sequence to CcpA which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. Like CcpA, the DNA-binding protein CcpB exerts its catabolite-repressing effect by a mechanism dependent on the presence of HPr(Ser-P), the small phosphocarrier proteins of the phosphoenolpyruvate-sugar phosphotransferase system, but with a less significant degree.
Probab=40.51 E-value=1.2e+02 Score=30.83 Aligned_cols=73 Identities=5% Similarity=0.011 Sum_probs=49.8
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|+++.. ++.|.....+.+.+++++.|.++..... . .+.......+..+.+.++|.|++....... ..++++.
T Consensus 2 i~~i~~~~~~~~~~~i~~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~~-~~~~~~~ 75 (260)
T cd06286 2 IGVVLPYINHPYFSQLVDGIEKAALKHGYKVVLLQT---N--YDKEKELEYLELLKTKQVDGLILCSRENDW-EVIEPYT 75 (260)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeC---C--CChHHHHHHHHHHHHcCCCEEEEeCCCCCH-HHHHHHh
Confidence 566666 4778888999999999999998876432 2 224445567788888899988886543222 3345554
Q ss_pred H
Q 003167 153 R 153 (843)
Q Consensus 153 ~ 153 (843)
+
T Consensus 76 ~ 76 (260)
T cd06286 76 K 76 (260)
T ss_pred c
Confidence 4
No 496
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=40.42 E-value=1.8e+02 Score=30.97 Aligned_cols=78 Identities=4% Similarity=-0.009 Sum_probs=52.6
Q ss_pred cEEEEEEec--CCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHH
Q 003167 73 GEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDV 150 (843)
Q Consensus 73 ~~v~ii~~d--~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~ 150 (843)
+.|+++..+ +.|.....+.+.+++++.|..+.... .. .+.......+..+.+.++|.||+...... ...++.
T Consensus 64 ~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~---~~--~~~~~~~~~~~~~~~~~vdgiI~~~~~~~-~~~~~~ 137 (331)
T PRK14987 64 RAIGVLLPSLTNQVFAEVLRGIESVTDAHGYQTMLAH---YG--YKPEMEQERLESMLSWNIDGLILTERTHT-PRTLKM 137 (331)
T ss_pred CEEEEEeCCCcchhHHHHHHHHHHHHHHCCCEEEEec---CC--CCHHHHHHHHHHHHhcCCCEEEEcCCCCC-HHHHHH
Confidence 478888763 66778889999999999998876532 11 12333446677777889999998653222 245566
Q ss_pred HHHcCC
Q 003167 151 AQRLGM 156 (843)
Q Consensus 151 a~~~g~ 156 (843)
+.+.|+
T Consensus 138 l~~~~i 143 (331)
T PRK14987 138 IEVAGI 143 (331)
T ss_pred HHhCCC
Confidence 666664
No 497
>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=40.31 E-value=1.1e+02 Score=30.99 Aligned_cols=76 Identities=12% Similarity=0.002 Sum_probs=50.8
Q ss_pred EEEEEe--cCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHH
Q 003167 75 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 152 (843)
Q Consensus 75 v~ii~~--d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~ 152 (843)
|+++.. ++.|.....+.+.+++++.|..+..... . .+...-...+.++.+.++|.|++...... ..+++.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~-~~~~~~l~ 75 (268)
T cd06298 2 VGVIIPDITNSYFAELARGIDDIATMYKYNIILSNS---D--NDKEKELKVLNNLLAKQVDGIIFMGGKIS-EEHREEFK 75 (268)
T ss_pred EEEEECCCcchHHHHHHHHHHHHHHHcCCeEEEEeC---C--CCHHHHHHHHHHHHHhcCCEEEEeCCCCc-HHHHHHHh
Confidence 566665 4678888899999999999988775532 2 22445567777888889999998654311 23455555
Q ss_pred HcCC
Q 003167 153 RLGM 156 (843)
Q Consensus 153 ~~g~ 156 (843)
+.|+
T Consensus 76 ~~~i 79 (268)
T cd06298 76 RSPT 79 (268)
T ss_pred cCCC
Confidence 5453
No 498
>cd08169 DHQ-like Dehydroquinate synthase-like which includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. Dehydroquinate synthase-like. This group contains dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. They exhibit the dehydroquinate synthase structural fold. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-Deoxystreptamine (DOS)-containing aminoglycoside antibiotics includes ne
Probab=40.20 E-value=2.4e+02 Score=30.43 Aligned_cols=100 Identities=12% Similarity=0.039 Sum_probs=59.5
Q ss_pred HHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHh-cCcEEEEeeecCCCCCCChhHHHHHHHHHhcC---CCeEEEE
Q 003167 62 AIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVV 137 (843)
Q Consensus 62 ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~-~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~viv~ 137 (843)
.+.++++.++-+++.++++...+ +...+.+.+.+++ .++.+......... .+.+.+...+..+++. ++|+||.
T Consensus 13 ~l~~~~~~~~~~k~livtd~~v~-~~~~~~v~~~L~~~~~~~~~~~~~~e~~--k~~~~v~~~~~~~~~~~~~r~d~IIa 89 (344)
T cd08169 13 SVESYTTRDLFDQYFFISDSGVA-DLIAHYIAEYLSKILPVHILVIEGGEEY--KTFETVTRILERAIALGANRRTAIVA 89 (344)
T ss_pred HHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhhcCceEEEeCCCCCC--CCHHHHHHHHHHHHHcCCCCCcEEEE
Confidence 35556777787898888854433 3567777888876 56654322222222 3456677777777754 4899987
Q ss_pred EcCh--hhHHHHHHHHHHcCCcccceEEEEeC
Q 003167 138 HGYS--RTGLMVFDVAQRLGMMDSGYVWIATT 167 (843)
Q Consensus 138 ~~~~--~~~~~i~~~a~~~g~~~~~~~~i~~~ 167 (843)
.+.+ -|...++......|+ +++-|.|.
T Consensus 90 iGGGsv~D~ak~vA~~~~rgi---p~i~VPTT 118 (344)
T cd08169 90 VGGGATGDVAGFVASTLFRGI---AFIRVPTT 118 (344)
T ss_pred ECCcHHHHHHHHHHHHhccCC---cEEEecCC
Confidence 7654 355555544333343 44555553
No 499
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=40.09 E-value=1.7e+02 Score=31.61 Aligned_cols=96 Identities=14% Similarity=0.191 Sum_probs=61.1
Q ss_pred HHHHHHHHHcCC-cEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecCCCCCCChhHHHHHHHHHhcCCCeEEEEEc
Q 003167 61 SAIAEMVSYFGW-GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 139 (843)
Q Consensus 61 ~ai~~ll~~~~w-~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~viv~~~ 139 (843)
..+.++++.++. +++.+|+....+- ...+.+.+.+++.| .+... +.+. .+.+.+...+..+++.++|+||..+
T Consensus 22 ~~l~~~l~~~~~~~~~livtd~~~~~-~~~~~l~~~l~~~~-~~~~~--~~~~--~t~~~v~~~~~~~~~~~~d~IIaiG 95 (350)
T PRK00843 22 DDIGDVCSDLKLTGRALIVTGPTTKK-IAGDRVEENLEDAG-DVEVV--IVDE--ATMEEVEKVEEKAKDVNAGFLIGVG 95 (350)
T ss_pred HHHHHHHHHhCCCCeEEEEECCcHHH-HHHHHHHHHHHhcC-CeeEE--eCCC--CCHHHHHHHHHHhhccCCCEEEEeC
Confidence 345667777776 7888888655443 24567788888777 44322 3333 4577788888999988999999776
Q ss_pred Ch--hhHHHHHHHHHHcCCcccceEEEEeC
Q 003167 140 YS--RTGLMVFDVAQRLGMMDSGYVWIATT 167 (843)
Q Consensus 140 ~~--~~~~~i~~~a~~~g~~~~~~~~i~~~ 167 (843)
.+ -|...++. ...|. +++-|.|.
T Consensus 96 GGsv~D~ak~vA--~~rgi---p~I~IPTT 120 (350)
T PRK00843 96 GGKVIDVAKLAA--YRLGI---PFISVPTA 120 (350)
T ss_pred CchHHHHHHHHH--HhcCC---CEEEeCCC
Confidence 54 45555553 22343 44555554
No 500
>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=40.00 E-value=87 Score=29.99 Aligned_cols=109 Identities=17% Similarity=0.208 Sum_probs=0.0
Q ss_pred EEecccCCCCCCCCCCCceEEcCCChHHhHHHHHHHHHHcCCcEEEEEEecCCCCcchHHHHHHHHHhcCcEEEEeeecC
Q 003167 31 LLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALP 110 (843)
Q Consensus 31 ~Is~~at~~~ls~~~~p~~fR~~p~d~~~~~ai~~ll~~~~w~~v~ii~~d~~~g~~~~~~l~~~l~~~g~~v~~~~~~~ 110 (843)
+||-+++...|...-.--+....++.....+++...- .++ ++++++...+.. .....+.+.+ |..+.....
T Consensus 38 iIsRG~ta~~lr~~~~iPVV~I~~s~~Dil~al~~a~-~~~-~~Iavv~~~~~~--~~~~~~~~ll---~~~i~~~~~-- 108 (176)
T PF06506_consen 38 IISRGGTAELLRKHVSIPVVEIPISGFDILRALAKAK-KYG-PKIAVVGYPNII--PGLESIEELL---GVDIKIYPY-- 108 (176)
T ss_dssp EEEEHHHHHHHHCC-SS-EEEE---HHHHHHHHHHCC-CCT-SEEEEEEESS-S--CCHHHHHHHH---T-EEEEEEE--
T ss_pred EEECCHHHHHHHHhCCCCEEEECCCHhHHHHHHHHHH-hcC-CcEEEEeccccc--HHHHHHHHHh---CCceEEEEE--
Q ss_pred CCCCCChhHHHHHHHHHhcCCCeEEEEEcChhhHHHHHHHHHHcCCcc
Q 003167 111 PDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMD 158 (843)
Q Consensus 111 ~~~~~~~~d~~~~l~~i~~~~~~viv~~~~~~~~~~i~~~a~~~g~~~ 158 (843)
.+..|+...+.++++.+.++|+-.+. ..+.|++.|+..
T Consensus 109 ----~~~~e~~~~i~~~~~~G~~viVGg~~------~~~~A~~~gl~~ 146 (176)
T PF06506_consen 109 ----DSEEEIEAAIKQAKAEGVDVIVGGGV------VCRLARKLGLPG 146 (176)
T ss_dssp ----SSHHHHHHHHHHHHHTT--EEEESHH------HHHHHHHTTSEE
T ss_pred ----CCHHHHHHHHHHHHHcCCcEEECCHH------HHHHHHHcCCcE
Done!