Query psy17441
Match_columns 458
No_of_seqs 270 out of 2429
Neff 9.3
Searched_HMMs 46136
Date Fri Aug 16 22:33:07 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17441.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17441hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4440|consensus 100.0 2.1E-62 4.4E-67 472.5 29.7 431 22-458 73-734 (993)
2 KOG1054|consensus 100.0 2.4E-58 5.3E-63 442.3 23.6 421 15-458 61-718 (897)
3 KOG1053|consensus 100.0 1.6E-47 3.4E-52 382.1 38.3 427 25-458 81-731 (1258)
4 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 2.8E-38 6.1E-43 315.2 28.9 274 1-277 38-313 (377)
5 cd06361 PBP1_GPC6A_like Ligand 100.0 2.1E-36 4.5E-41 302.8 26.3 242 1-257 44-329 (403)
6 cd06367 PBP1_iGluR_NMDA N-term 100.0 6.3E-36 1.4E-40 296.7 29.3 268 2-277 22-300 (362)
7 cd06375 PBP1_mGluR_groupII Lig 100.0 4.2E-36 9.1E-41 305.5 26.4 245 1-258 39-376 (458)
8 cd06365 PBP1_Pheromone_recepto 100.0 4.4E-36 9.6E-41 306.5 26.2 249 2-262 49-385 (469)
9 cd06374 PBP1_mGluR_groupI Liga 100.0 9.2E-35 2E-39 297.7 25.6 248 1-259 50-394 (472)
10 cd06376 PBP1_mGluR_groupIII Li 100.0 1.4E-34 3E-39 295.8 25.8 258 1-269 39-391 (463)
11 cd06364 PBP1_CaSR Ligand-bindi 100.0 7.2E-34 1.6E-38 292.3 26.8 219 1-231 58-304 (510)
12 cd06362 PBP1_mGluR Ligand bind 100.0 8.3E-34 1.8E-38 289.8 26.2 247 1-258 39-376 (452)
13 cd06386 PBP1_NPR_C_like Ligand 100.0 2.8E-34 6.2E-39 286.9 21.9 245 2-258 27-320 (387)
14 cd06392 PBP1_iGluR_delta_1 N-t 100.0 1E-31 2.2E-36 265.4 25.6 259 2-277 21-339 (400)
15 cd06363 PBP1_Taste_receptor Li 100.0 1.1E-31 2.4E-36 270.5 25.0 243 2-258 52-330 (410)
16 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 4.2E-31 9.2E-36 260.0 27.5 250 22-277 40-301 (362)
17 cd06371 PBP1_sensory_GC_DEF_li 100.0 1.1E-31 2.4E-36 267.7 23.5 240 2-257 27-316 (382)
18 cd06372 PBP1_GC_G_like Ligand- 100.0 2.4E-31 5.2E-36 266.6 25.7 247 1-258 26-323 (391)
19 cd06393 PBP1_iGluR_Kainate_Glu 100.0 3.4E-31 7.4E-36 264.6 25.2 257 2-277 31-326 (384)
20 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 2.8E-31 6E-36 261.7 24.1 251 2-277 21-309 (364)
21 cd06373 PBP1_NPR_like Ligand b 100.0 9.6E-31 2.1E-35 262.7 25.5 245 1-257 27-329 (396)
22 cd06370 PBP1_Speract_GC_like L 100.0 8.8E-31 1.9E-35 263.4 23.9 243 2-258 29-338 (404)
23 PF01094 ANF_receptor: Recepto 100.0 6.7E-31 1.4E-35 258.8 22.6 248 2-258 10-296 (348)
24 cd06352 PBP1_NPR_GC_like Ligan 100.0 1.1E-30 2.4E-35 261.7 23.7 247 1-258 26-324 (389)
25 KOG1056|consensus 100.0 9.7E-31 2.1E-35 270.1 20.9 244 2-257 69-401 (878)
26 cd06380 PBP1_iGluR_AMPA N-term 100.0 6.5E-30 1.4E-34 255.5 25.9 260 2-277 21-327 (382)
27 cd06385 PBP1_NPR_A Ligand-bind 100.0 2.2E-30 4.8E-35 260.8 22.2 245 2-257 28-331 (405)
28 cd06350 PBP1_GPCR_family_C_lik 100.0 2.8E-30 6.1E-35 254.8 21.7 233 2-246 37-303 (348)
29 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 1.4E-29 2.9E-34 249.4 26.1 257 2-277 21-317 (372)
30 cd06391 PBP1_iGluR_delta_2 N-t 100.0 3.3E-29 7.2E-34 249.6 26.1 259 2-277 21-339 (400)
31 cd06384 PBP1_NPR_B Ligand-bind 100.0 1.5E-29 3.3E-34 254.1 22.6 246 1-257 27-332 (399)
32 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 5.3E-29 1.1E-33 246.5 25.7 257 2-277 21-315 (371)
33 cd06366 PBP1_GABAb_receptor Li 100.0 1.5E-29 3.2E-34 250.0 21.7 223 2-234 25-261 (350)
34 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 1.3E-28 2.8E-33 244.1 25.6 253 2-277 21-314 (370)
35 cd06383 PBP1_iGluR_AMPA_Like N 100.0 1.2E-27 2.5E-32 236.3 22.7 251 2-279 22-314 (368)
36 cd06394 PBP1_iGluR_Kainate_KA1 100.0 2.9E-28 6.3E-33 236.4 17.7 218 2-234 24-249 (333)
37 cd06382 PBP1_iGluR_Kainate N-t 100.0 5.6E-28 1.2E-32 236.4 19.7 216 1-233 21-243 (327)
38 KOG1052|consensus 100.0 2.5E-27 5.3E-32 252.3 23.9 164 284-458 332-498 (656)
39 cd06346 PBP1_ABC_ligand_bindin 100.0 5.2E-27 1.1E-31 228.0 21.6 234 2-250 27-288 (312)
40 cd06368 PBP1_iGluR_non_NMDA_li 99.9 5E-26 1.1E-30 222.3 20.6 215 1-232 20-241 (324)
41 cd06351 PBP1_iGluR_N_LIVBP_lik 99.9 5.3E-26 1.1E-30 222.2 20.7 222 2-235 21-250 (328)
42 cd06377 PBP1_iGluR_NMDA_NR3 N- 99.9 4E-25 8.7E-30 215.1 26.5 259 2-277 39-314 (382)
43 cd06381 PBP1_iGluR_delta_like 99.9 4.7E-25 1E-29 217.4 25.9 239 2-255 23-314 (363)
44 cd06269 PBP1_glutamate_recepto 99.9 7E-26 1.5E-30 217.5 19.6 226 2-246 29-264 (298)
45 cd06340 PBP1_ABC_ligand_bindin 99.9 4.7E-25 1E-29 217.5 21.2 242 2-255 27-303 (347)
46 cd06342 PBP1_ABC_LIVBP_like Ty 99.9 1.4E-24 3E-29 212.9 22.5 237 2-254 27-292 (334)
47 cd06345 PBP1_ABC_ligand_bindin 99.9 1.9E-24 4.1E-29 213.0 23.1 239 2-255 27-305 (344)
48 cd06338 PBP1_ABC_ligand_bindin 99.9 1.8E-24 3.9E-29 213.2 22.0 240 2-254 27-304 (345)
49 cd06348 PBP1_ABC_ligand_bindin 99.9 3.9E-24 8.4E-29 210.8 23.3 241 2-258 27-298 (344)
50 cd06344 PBP1_ABC_ligand_bindin 99.9 7.1E-24 1.5E-28 207.8 22.2 236 2-254 26-291 (332)
51 PRK15404 leucine ABC transport 99.9 8E-24 1.7E-28 210.1 22.1 237 2-254 53-317 (369)
52 cd06347 PBP1_ABC_ligand_bindin 99.9 1.1E-23 2.4E-28 206.4 22.9 236 2-254 27-293 (334)
53 cd06327 PBP1_SBP_like_1 Peripl 99.9 2.4E-23 5.2E-28 204.3 22.4 239 2-255 28-294 (334)
54 cd06343 PBP1_ABC_ligand_bindin 99.9 5.3E-23 1.1E-27 204.1 24.7 238 2-254 34-310 (362)
55 cd06349 PBP1_ABC_ligand_bindin 99.9 3.1E-23 6.8E-28 204.0 22.6 236 2-254 27-292 (340)
56 cd06329 PBP1_SBP_like_3 Peripl 99.9 3.8E-23 8.3E-28 203.5 22.5 238 2-254 27-302 (342)
57 cd06334 PBP1_ABC_ligand_bindin 99.9 6.7E-23 1.4E-27 202.1 22.1 241 2-258 27-307 (351)
58 cd06335 PBP1_ABC_ligand_bindin 99.9 1.3E-22 2.7E-27 200.2 24.0 239 2-255 27-303 (347)
59 cd06330 PBP1_Arsenic_SBP_like 99.9 8.9E-23 1.9E-27 201.2 22.5 244 2-256 27-302 (346)
60 cd06336 PBP1_ABC_ligand_bindin 99.9 8.1E-23 1.8E-27 201.6 22.1 240 2-255 27-300 (347)
61 cd06331 PBP1_AmiC_like Type I 99.9 6.8E-22 1.5E-26 193.9 23.1 236 2-254 27-293 (333)
62 COG0683 LivK ABC-type branched 99.9 4.4E-22 9.6E-27 197.3 21.7 244 1-256 37-310 (366)
63 cd06359 PBP1_Nba_like Type I p 99.9 7.5E-22 1.6E-26 193.6 22.5 236 2-255 27-291 (333)
64 cd06355 PBP1_FmdD_like Peripla 99.9 6.5E-22 1.4E-26 195.2 21.9 237 2-254 27-294 (348)
65 cd06328 PBP1_SBP_like_2 Peripl 99.9 2.8E-21 6E-26 189.6 24.4 239 2-255 27-294 (333)
66 cd04509 PBP1_ABC_transporter_G 99.9 1.2E-21 2.6E-26 188.0 19.0 219 2-233 27-252 (299)
67 cd06360 PBP1_alkylbenzenes_lik 99.9 6.7E-21 1.5E-25 187.0 23.1 234 10-255 32-294 (336)
68 TIGR03669 urea_ABC_arch urea A 99.9 1.1E-20 2.4E-25 187.5 21.7 234 2-255 28-294 (374)
69 TIGR03407 urea_ABC_UrtA urea A 99.9 2.5E-20 5.5E-25 184.6 22.6 237 2-254 28-295 (359)
70 cd06358 PBP1_NHase Type I peri 99.9 1.9E-20 4.1E-25 183.7 21.3 233 2-254 27-293 (333)
71 cd06356 PBP1_Amide_Urea_BP_lik 99.9 2.4E-20 5.2E-25 183.0 21.8 236 2-255 27-294 (334)
72 cd06332 PBP1_aromatic_compound 99.9 6.1E-20 1.3E-24 179.8 22.4 236 2-255 27-291 (333)
73 PF13458 Peripla_BP_6: Peripla 99.8 7E-20 1.5E-24 180.2 21.2 236 2-254 29-296 (343)
74 cd06337 PBP1_ABC_ligand_bindin 99.8 1.8E-19 4E-24 178.3 21.9 192 2-204 27-230 (357)
75 cd06357 PBP1_AmiC Periplasmic 99.8 5E-19 1.1E-23 175.4 23.7 236 2-254 27-295 (360)
76 KOG1055|consensus 99.8 1.4E-20 3.1E-25 189.3 12.3 242 2-257 71-362 (865)
77 cd06326 PBP1_STKc_like Type I 99.8 4.6E-19 1E-23 174.0 22.7 238 2-255 28-297 (336)
78 cd06339 PBP1_YraM_LppC_lipopro 99.8 3.3E-19 7.1E-24 175.0 20.1 225 15-254 32-302 (336)
79 cd06268 PBP1_ABC_transporter_L 99.8 1.2E-18 2.5E-23 167.1 21.2 216 2-233 27-249 (298)
80 cd06333 PBP1_ABC-type_HAAT_lik 99.8 2.3E-18 4.9E-23 167.3 22.9 188 2-204 27-215 (312)
81 cd06341 PBP1_ABC_ligand_bindin 99.8 3.9E-18 8.5E-23 167.8 22.5 236 2-255 27-295 (341)
82 TIGR03863 PQQ_ABC_bind ABC tra 99.8 7.2E-19 1.6E-23 172.3 15.5 175 2-189 21-199 (347)
83 PF00060 Lig_chan: Ligand-gate 99.8 1.4E-20 3.1E-25 162.1 -2.8 112 293-406 1-112 (148)
84 PF13433 Peripla_BP_5: Peripla 99.6 1.2E-14 2.5E-19 139.2 19.6 238 2-255 28-296 (363)
85 cd06369 PBP1_GC_C_enterotoxin_ 99.6 4.9E-14 1.1E-18 134.6 18.0 198 43-259 80-309 (380)
86 cd01391 Periplasmic_Binding_Pr 99.5 4.3E-12 9.3E-17 118.8 19.5 217 16-246 31-261 (269)
87 cd01537 PBP1_Repressors_Sugar_ 98.4 3.8E-05 8.3E-10 71.8 19.7 181 15-213 29-213 (264)
88 cd06267 PBP1_LacI_sugar_bindin 98.3 0.00016 3.5E-09 67.6 20.6 180 15-213 29-212 (264)
89 cd01536 PBP1_ABC_sugar_binding 98.2 0.00014 3E-09 68.2 19.2 182 15-213 29-215 (267)
90 cd06300 PBP1_ABC_sugar_binding 98.2 0.00034 7.3E-09 66.2 21.2 214 15-251 32-255 (272)
91 cd06282 PBP1_GntR_like_2 Ligan 98.0 0.00057 1.2E-08 64.2 19.0 213 15-252 29-247 (266)
92 cd06325 PBP1_ABC_uncharacteriz 97.9 0.00036 7.8E-09 66.2 15.9 213 15-252 32-250 (281)
93 PF07885 Ion_trans_2: Ion chan 97.9 2E-05 4.4E-10 59.6 5.2 56 335-390 22-77 (79)
94 PF04348 LppC: LppC putative l 97.8 0.00025 5.3E-09 73.6 11.9 159 20-198 257-420 (536)
95 cd06320 PBP1_allose_binding Pe 97.7 0.0048 1E-07 58.4 18.6 218 14-251 28-253 (275)
96 cd06309 PBP1_YtfQ_like Peripla 97.5 0.02 4.2E-07 54.1 20.4 221 14-251 28-257 (273)
97 cd06273 PBP1_GntR_like_1 This 97.5 0.022 4.8E-07 53.4 20.7 177 15-210 29-210 (268)
98 KOG1419|consensus 97.5 0.00021 4.6E-09 71.0 6.4 90 296-393 236-325 (654)
99 cd06323 PBP1_ribose_binding Pe 97.4 0.016 3.5E-07 54.3 18.0 181 15-214 29-215 (268)
100 cd06319 PBP1_ABC_sugar_binding 97.3 0.04 8.7E-07 51.9 20.4 216 15-251 29-256 (277)
101 KOG3713|consensus 97.3 0.00027 5.8E-09 69.8 5.1 67 302-380 354-420 (477)
102 cd01545 PBP1_SalR Ligand-bindi 97.3 0.021 4.6E-07 53.6 17.5 218 14-252 28-250 (270)
103 cd06298 PBP1_CcpA_like Ligand- 97.3 0.03 6.5E-07 52.5 18.4 214 15-251 29-247 (268)
104 cd06312 PBP1_ABC_sugar_binding 97.2 0.081 1.8E-06 49.8 20.3 179 15-211 30-214 (271)
105 cd06317 PBP1_ABC_sugar_binding 97.1 0.04 8.7E-07 51.8 18.0 175 15-203 30-212 (275)
106 TIGR01481 ccpA catabolite cont 97.1 0.091 2E-06 51.1 20.7 198 35-252 106-307 (329)
107 PF13407 Peripla_BP_4: Peripla 97.1 0.057 1.2E-06 50.4 18.1 218 15-251 28-253 (257)
108 cd06289 PBP1_MalI_like Ligand- 97.0 0.089 1.9E-06 49.2 18.5 166 33-213 44-214 (268)
109 cd06310 PBP1_ABC_sugar_binding 97.0 0.12 2.5E-06 48.7 19.3 185 14-214 28-218 (273)
110 cd06271 PBP1_AglR_RafR_like Li 97.0 0.055 1.2E-06 50.7 17.0 178 14-211 32-214 (268)
111 cd06305 PBP1_methylthioribose_ 96.9 0.11 2.3E-06 48.9 18.9 182 15-214 29-218 (273)
112 cd06301 PBP1_rhizopine_binding 96.9 0.1 2.2E-06 49.1 18.6 185 14-214 29-219 (272)
113 cd01542 PBP1_TreR_like Ligand- 96.9 0.22 4.8E-06 46.3 20.5 211 14-251 28-243 (259)
114 cd06284 PBP1_LacI_like_6 Ligan 96.9 0.28 6.1E-06 45.7 21.3 214 15-252 29-247 (267)
115 cd06303 PBP1_LuxPQ_Quorum_Sens 96.9 0.18 3.9E-06 47.8 19.9 185 15-214 30-225 (280)
116 cd06311 PBP1_ABC_sugar_binding 96.8 0.3 6.4E-06 46.0 20.5 214 15-251 34-257 (274)
117 PRK10653 D-ribose transporter 96.8 0.18 3.8E-06 48.3 18.9 181 15-214 56-241 (295)
118 cd01575 PBP1_GntR Ligand-bindi 96.7 0.32 7E-06 45.3 20.3 179 15-212 29-211 (268)
119 cd06294 PBP1_ycjW_transcriptio 96.7 0.21 4.5E-06 46.8 18.9 192 42-252 58-254 (270)
120 cd06288 PBP1_sucrose_transcrip 96.7 0.087 1.9E-06 49.3 16.0 180 15-214 30-213 (269)
121 cd01574 PBP1_LacI Ligand-bindi 96.7 0.2 4.2E-06 46.8 18.3 178 15-213 29-209 (264)
122 cd06297 PBP1_LacI_like_12 Liga 96.6 0.46 1E-05 44.6 20.6 190 39-252 50-249 (269)
123 cd06278 PBP1_LacI_like_2 Ligan 96.6 0.097 2.1E-06 48.9 15.8 166 14-201 28-197 (266)
124 cd06296 PBP1_CatR_like Ligand- 96.6 0.37 8E-06 45.1 19.9 181 15-213 29-214 (270)
125 cd06324 PBP1_ABC_sugar_binding 96.6 0.38 8.3E-06 46.2 20.2 223 15-252 30-275 (305)
126 cd06308 PBP1_sensor_kinase_lik 96.6 0.35 7.7E-06 45.3 19.6 182 15-215 30-218 (270)
127 PRK11303 DNA-binding transcrip 96.6 0.47 1E-05 46.0 20.9 160 35-211 108-271 (328)
128 PF00532 Peripla_BP_1: Peripla 96.5 0.4 8.8E-06 45.6 19.0 176 14-208 30-211 (279)
129 cd06322 PBP1_ABC_sugar_binding 96.4 0.63 1.4E-05 43.5 20.1 213 14-251 28-250 (267)
130 COG1609 PurR Transcriptional r 96.4 0.33 7.2E-06 47.5 18.6 175 15-208 88-267 (333)
131 cd06295 PBP1_CelR Ligand bindi 96.4 0.32 6.9E-06 45.7 18.1 160 37-212 57-220 (275)
132 cd06279 PBP1_LacI_like_3 Ligan 96.4 0.67 1.5E-05 43.9 20.1 195 37-252 49-265 (283)
133 cd06277 PBP1_LacI_like_1 Ligan 96.3 0.72 1.6E-05 43.1 19.7 213 15-252 32-248 (268)
134 cd01540 PBP1_arabinose_binding 96.3 1 2.2E-05 42.6 21.4 225 14-251 28-268 (289)
135 cd06293 PBP1_LacI_like_11 Liga 96.3 0.37 8E-06 45.1 17.6 180 15-213 29-212 (269)
136 PRK09526 lacI lac repressor; R 96.3 1.2 2.7E-05 43.3 21.9 195 35-252 111-311 (342)
137 cd06321 PBP1_ABC_sugar_binding 96.3 0.75 1.6E-05 43.1 19.5 196 35-252 48-254 (271)
138 PLN03192 Voltage-dependent pot 96.3 0.0052 1.1E-07 67.8 5.3 54 338-391 251-304 (823)
139 TIGR02417 fruct_sucro_rep D-fr 96.2 0.89 1.9E-05 44.1 20.5 158 36-211 108-270 (327)
140 cd06313 PBP1_ABC_sugar_binding 96.2 0.6 1.3E-05 44.0 18.6 174 14-202 28-207 (272)
141 PRK10014 DNA-binding transcrip 96.2 0.48 1E-05 46.3 18.1 157 34-205 110-270 (342)
142 cd06275 PBP1_PurR Ligand-bindi 96.2 0.99 2.1E-05 42.1 19.7 181 15-213 29-213 (269)
143 cd06291 PBP1_Qymf_like Ligand 96.1 1.1 2.3E-05 41.8 19.8 174 14-211 28-206 (265)
144 cd06299 PBP1_LacI_like_13 Liga 96.1 0.79 1.7E-05 42.7 18.8 199 34-251 45-245 (265)
145 COG2984 ABC-type uncharacteriz 96.1 0.43 9.3E-06 45.4 16.2 158 30-202 74-240 (322)
146 cd06270 PBP1_GalS_like Ligand 96.1 0.58 1.3E-05 43.8 17.6 178 15-211 29-210 (268)
147 cd06283 PBP1_RegR_EndR_KdgR_li 96.1 1.1 2.4E-05 41.7 19.5 180 15-213 29-213 (267)
148 cd06306 PBP1_TorT-like TorT-li 96.0 0.91 2E-05 42.6 18.6 170 15-202 29-207 (268)
149 PRK10703 DNA-binding transcrip 95.9 0.5 1.1E-05 46.1 16.8 163 35-212 106-273 (341)
150 PRK09492 treR trehalose repres 95.8 1 2.2E-05 43.3 18.5 145 35-202 109-256 (315)
151 cd06274 PBP1_FruR Ligand bindi 95.8 0.78 1.7E-05 42.8 17.1 215 14-251 28-248 (264)
152 cd06316 PBP1_ABC_sugar_binding 95.8 1.7 3.7E-05 41.3 19.7 186 14-213 28-219 (294)
153 cd06285 PBP1_LacI_like_7 Ligan 95.7 1.8 3.9E-05 40.3 19.3 164 33-214 44-212 (265)
154 PRK09701 D-allose transporter 95.6 2.3 4.9E-05 41.0 21.0 224 15-252 54-288 (311)
155 cd06281 PBP1_LacI_like_5 Ligan 95.6 0.37 8E-06 45.2 14.0 163 33-213 44-212 (269)
156 PRK10936 TMAO reductase system 95.5 1.5 3.2E-05 43.0 18.5 216 15-252 76-302 (343)
157 KOG1545|consensus 95.4 0.004 8.7E-08 58.9 -0.3 75 299-381 362-437 (507)
158 cd06272 PBP1_hexuronate_repres 95.3 1.4 2.9E-05 41.0 16.9 158 37-211 44-205 (261)
159 PRK10537 voltage-gated potassi 95.2 0.046 1E-06 54.5 6.5 55 335-389 166-220 (393)
160 PRK14987 gluconate operon tran 95.2 1.3 2.8E-05 43.0 16.8 160 36-212 111-273 (331)
161 cd06290 PBP1_LacI_like_9 Ligan 95.1 1.3 2.8E-05 41.3 16.2 180 14-213 28-212 (265)
162 PRK10423 transcriptional repre 95.0 2 4.4E-05 41.5 17.8 162 35-212 103-269 (327)
163 cd06280 PBP1_LacI_like_4 Ligan 95.0 0.99 2.1E-05 42.1 14.9 175 15-212 29-206 (263)
164 cd06286 PBP1_CcpB_like Ligand- 94.9 2.6 5.7E-05 39.0 17.4 178 14-212 28-209 (260)
165 cd06302 PBP1_LsrB_Quorum_Sensi 94.9 3.8 8.2E-05 39.1 20.6 203 34-251 46-256 (298)
166 cd01541 PBP1_AraR Ligand-bindi 94.7 2.4 5.3E-05 39.6 17.0 218 15-252 29-254 (273)
167 cd01539 PBP1_GGBP Periplasmic 94.7 4.2 9E-05 39.0 20.3 224 15-251 31-277 (303)
168 smart00079 PBPe Eukaryotic hom 94.7 0.058 1.3E-06 44.8 5.1 58 398-458 1-63 (134)
169 TIGR02405 trehalos_R_Ecol treh 94.7 4.3 9.4E-05 39.0 19.7 144 36-202 107-253 (311)
170 cd06318 PBP1_ABC_sugar_binding 94.6 3.9 8.4E-05 38.4 18.1 185 15-212 29-222 (282)
171 cd06354 PBP1_BmpA_PnrA_like Pe 94.6 4 8.7E-05 38.2 21.8 153 34-201 47-206 (265)
172 TIGR02955 TMAO_TorT TMAO reduc 94.5 4.4 9.5E-05 38.6 18.2 177 15-212 29-215 (295)
173 cd06292 PBP1_LacI_like_10 Liga 94.4 4.3 9.4E-05 37.8 18.1 169 34-213 45-216 (273)
174 PF04392 ABC_sub_bind: ABC tra 94.4 1.5 3.2E-05 42.0 14.6 154 17-187 33-194 (294)
175 PRK10727 DNA-binding transcrip 94.3 3.3 7E-05 40.4 17.2 160 35-211 106-270 (343)
176 KOG4390|consensus 94.3 0.022 4.7E-07 54.5 1.6 45 334-378 353-397 (632)
177 cd06304 PBP1_BmpA_like Peripla 94.1 4.5 9.7E-05 37.7 17.1 153 34-201 46-202 (260)
178 cd01538 PBP1_ABC_xylose_bindin 94.1 5.5 0.00012 37.7 18.1 176 15-204 29-216 (288)
179 cd06307 PBP1_uncharacterized_s 93.9 5.6 0.00012 37.2 20.4 200 35-252 50-257 (275)
180 cd06314 PBP1_tmGBP Periplasmic 93.9 5.6 0.00012 37.1 19.4 199 33-251 44-250 (271)
181 cd01543 PBP1_XylR Ligand-bindi 93.8 5.8 0.00013 36.9 19.1 194 37-251 43-242 (265)
182 PRK15408 autoinducer 2-binding 93.7 7.5 0.00016 38.0 19.4 218 15-251 53-279 (336)
183 cd06287 PBP1_LacI_like_8 Ligan 93.6 6.3 0.00014 37.0 17.3 157 40-212 52-212 (269)
184 TIGR02990 ectoine_eutA ectoine 93.6 1.6 3.5E-05 40.4 12.7 135 62-199 62-203 (239)
185 PRK10401 DNA-binding transcrip 93.4 6.3 0.00014 38.5 17.4 160 35-211 106-270 (346)
186 COG1879 RbsB ABC-type sugar tr 93.3 5.1 0.00011 38.7 16.5 199 21-233 69-275 (322)
187 cd01544 PBP1_GalR Ligand-bindi 92.9 4.5 9.7E-05 37.8 15.0 154 42-213 50-214 (270)
188 PRK11041 DNA-binding transcrip 92.0 11 0.00025 35.8 19.9 199 35-252 82-284 (309)
189 KOG3684|consensus 91.7 0.21 4.6E-06 49.3 4.2 54 334-387 284-337 (489)
190 PF13377 Peripla_BP_3: Peripla 91.5 1.8 3.9E-05 36.8 9.7 99 108-212 1-102 (160)
191 COG3473 Maleate cis-trans isom 90.0 6.5 0.00014 35.0 11.3 135 61-198 57-200 (238)
192 PF03808 Glyco_tran_WecB: Glyc 89.6 7.1 0.00015 34.1 11.7 102 102-215 35-136 (172)
193 PRK10339 DNA-binding transcrip 88.9 12 0.00026 36.2 14.1 151 43-211 113-267 (327)
194 KOG1418|consensus 88.8 0.18 3.9E-06 50.8 1.2 60 331-390 109-168 (433)
195 PRK10355 xylF D-xylose transpo 87.7 28 0.00062 33.8 16.9 179 15-212 55-243 (330)
196 KOG0498|consensus 87.4 0.49 1.1E-05 50.4 3.3 53 338-390 295-347 (727)
197 cd06533 Glyco_transf_WecG_TagA 85.8 16 0.00034 31.9 11.5 101 102-214 33-133 (171)
198 cd06353 PBP1_BmpA_Med_like Per 85.4 32 0.00069 32.1 14.6 169 15-202 31-201 (258)
199 cd06315 PBP1_ABC_sugar_binding 84.5 36 0.00077 31.9 16.0 161 34-206 46-217 (280)
200 TIGR02634 xylF D-xylose ABC tr 84.1 40 0.00086 32.2 17.4 175 15-203 28-209 (302)
201 TIGR00035 asp_race aspartate r 83.6 5 0.00011 36.9 7.7 46 27-76 58-103 (229)
202 TIGR02637 RhaS rhamnose ABC tr 81.6 49 0.0011 31.4 20.8 202 34-252 46-257 (302)
203 COG3107 LppC Putative lipoprot 81.4 13 0.00027 38.1 9.8 114 18-144 296-411 (604)
204 PRK10200 putative racemase; Pr 81.3 14 0.0003 34.0 9.7 47 26-76 57-103 (230)
205 PF06506 PrpR_N: Propionate ca 80.3 36 0.00079 29.7 11.7 124 31-203 20-145 (176)
206 PF00465 Fe-ADH: Iron-containi 79.4 68 0.0015 31.7 16.7 88 105-199 12-102 (366)
207 PF13407 Peripla_BP_4: Peripla 78.2 14 0.00029 34.1 8.9 79 119-203 1-82 (257)
208 PF13685 Fe-ADH_2: Iron-contai 78.1 26 0.00056 32.7 10.4 100 106-214 9-109 (250)
209 cd06276 PBP1_FucR_like Ligand- 77.7 58 0.0013 29.9 16.4 175 42-247 50-228 (247)
210 PRK15395 methyl-galactoside AB 76.2 78 0.0017 30.6 17.5 158 35-202 72-249 (330)
211 PF07302 AroM: AroM protein; 75.9 40 0.00086 30.7 10.6 114 67-197 83-200 (221)
212 COG1454 EutG Alcohol dehydroge 73.8 14 0.0003 36.6 7.7 90 104-197 17-108 (377)
213 cd06301 PBP1_rhizopine_binding 73.0 24 0.00051 32.7 9.1 79 118-203 1-83 (272)
214 PRK00945 acetyl-CoA decarbonyl 72.9 19 0.00041 31.4 7.5 89 42-139 34-132 (171)
215 KOG3857|consensus 72.2 23 0.00051 34.2 8.4 94 91-188 41-138 (465)
216 COG1880 CdhB CO dehydrogenase/ 72.1 24 0.00051 30.0 7.5 88 43-140 36-133 (170)
217 cd08190 HOT Hydroxyacid-oxoaci 72.1 13 0.00029 37.5 7.5 79 105-187 12-90 (414)
218 cd06305 PBP1_methylthioribose_ 72.0 21 0.00045 33.1 8.4 79 118-203 1-82 (273)
219 PRK09860 putative alcohol dehy 71.4 12 0.00027 37.3 7.0 78 105-187 20-98 (383)
220 PRK15454 ethanol dehydrogenase 70.7 12 0.00026 37.5 6.8 80 105-188 38-117 (395)
221 cd06303 PBP1_LuxPQ_Quorum_Sens 70.6 20 0.00043 33.7 8.0 81 118-202 1-85 (280)
222 cd06306 PBP1_TorT-like TorT-li 69.7 19 0.0004 33.6 7.6 80 118-203 1-83 (268)
223 cd06312 PBP1_ABC_sugar_binding 69.4 23 0.00049 33.0 8.1 78 118-202 1-83 (271)
224 cd06310 PBP1_ABC_sugar_binding 69.3 31 0.00067 31.9 9.0 80 118-203 1-84 (273)
225 PRK10624 L-1,2-propanediol oxi 69.2 15 0.00033 36.6 7.1 80 104-187 18-97 (382)
226 cd06353 PBP1_BmpA_Med_like Per 69.2 46 0.001 31.1 10.0 85 118-214 1-89 (258)
227 PF01007 IRK: Inward rectifier 68.3 18 0.0004 35.3 7.2 60 335-394 82-143 (336)
228 cd01545 PBP1_SalR Ligand-bindi 68.1 40 0.00087 31.0 9.5 78 119-203 2-82 (270)
229 cd08192 Fe-ADH7 Iron-containin 67.1 18 0.00038 35.9 7.1 87 105-195 13-101 (370)
230 cd06267 PBP1_LacI_sugar_bindin 67.1 41 0.00089 30.6 9.3 77 119-203 2-80 (264)
231 PRK15408 autoinducer 2-binding 67.1 31 0.00067 33.7 8.7 82 116-203 23-107 (336)
232 PRK07475 hypothetical protein; 66.9 24 0.00053 32.7 7.5 50 23-76 57-106 (245)
233 cd08551 Fe-ADH iron-containing 66.7 20 0.00044 35.5 7.4 85 105-194 12-99 (370)
234 cd06299 PBP1_LacI_like_13 Liga 66.2 49 0.0011 30.4 9.6 83 119-212 2-86 (265)
235 cd08193 HVD 5-hydroxyvalerate 66.0 19 0.00041 35.9 7.0 86 105-194 15-102 (376)
236 PRK03692 putative UDP-N-acetyl 65.4 1.1E+02 0.0024 28.4 11.4 91 100-200 90-180 (243)
237 cd06277 PBP1_LacI_like_1 Ligan 64.9 57 0.0012 30.1 9.8 76 119-203 2-82 (268)
238 cd06282 PBP1_GntR_like_2 Ligan 64.9 50 0.0011 30.2 9.4 78 119-203 2-81 (266)
239 cd06289 PBP1_MalI_like Ligand- 64.4 54 0.0012 30.1 9.6 78 119-203 2-81 (268)
240 cd06307 PBP1_uncharacterized_s 64.3 43 0.00094 31.1 8.9 82 118-203 1-85 (275)
241 cd01537 PBP1_Repressors_Sugar_ 64.0 33 0.00071 31.2 7.9 79 118-203 1-81 (264)
242 TIGR00315 cdhB CO dehydrogenas 64.0 34 0.00073 29.6 7.2 69 42-119 27-95 (162)
243 cd06302 PBP1_LsrB_Quorum_Sensi 63.9 34 0.00073 32.5 8.2 79 119-203 2-83 (298)
244 cd01540 PBP1_arabinose_binding 63.5 43 0.00093 31.3 8.8 78 118-203 1-81 (289)
245 cd08189 Fe-ADH5 Iron-containin 63.5 23 0.0005 35.2 7.1 85 105-195 15-103 (374)
246 cd08170 GlyDH Glycerol dehydro 63.5 36 0.00079 33.4 8.4 77 105-188 12-88 (351)
247 cd01536 PBP1_ABC_sugar_binding 63.1 51 0.0011 30.1 9.1 78 118-202 1-81 (267)
248 KOG1420|consensus 63.0 2.7 5.9E-05 42.8 0.4 58 332-389 283-340 (1103)
249 PF00520 Ion_trans: Ion transp 62.6 20 0.00043 31.2 5.9 54 332-385 140-199 (200)
250 cd06295 PBP1_CelR Ligand bindi 62.6 78 0.0017 29.3 10.3 78 116-203 3-89 (275)
251 TIGR02638 lactal_redase lactal 62.4 23 0.00049 35.3 6.8 79 104-187 17-96 (379)
252 cd08194 Fe-ADH6 Iron-containin 62.1 31 0.00068 34.3 7.7 77 105-187 12-90 (375)
253 TIGR00696 wecB_tagA_cpsF bacte 62.0 1.1E+02 0.0024 26.8 11.1 88 101-198 34-121 (177)
254 cd06316 PBP1_ABC_sugar_binding 61.9 46 0.001 31.3 8.7 80 118-203 1-83 (294)
255 cd08185 Fe-ADH1 Iron-containin 61.4 34 0.00073 34.1 7.9 77 105-187 15-93 (380)
256 PF00532 Peripla_BP_1: Peripla 61.2 53 0.0012 31.0 8.9 74 117-198 2-77 (279)
257 PRK09423 gldA glycerol dehydro 60.7 42 0.00091 33.2 8.4 83 105-195 19-104 (366)
258 cd06278 PBP1_LacI_like_2 Ligan 60.1 72 0.0016 29.2 9.5 76 119-203 2-79 (266)
259 cd06322 PBP1_ABC_sugar_binding 59.8 51 0.0011 30.4 8.5 78 119-203 2-82 (267)
260 PRK10014 DNA-binding transcrip 59.6 93 0.002 30.0 10.6 80 117-203 65-146 (342)
261 cd08177 MAR Maleylacetate redu 59.3 31 0.00068 33.7 7.1 76 105-187 12-87 (337)
262 PF01177 Asp_Glu_race: Asp/Glu 58.5 1.2E+02 0.0026 27.0 10.4 129 33-199 54-198 (216)
263 PF00497 SBP_bac_3: Bacterial 58.5 14 0.0003 32.9 4.2 66 382-458 82-150 (225)
264 cd06318 PBP1_ABC_sugar_binding 58.3 50 0.0011 30.7 8.2 78 119-203 2-82 (282)
265 cd01538 PBP1_ABC_xylose_bindin 58.1 57 0.0012 30.6 8.6 78 119-203 2-82 (288)
266 cd00338 Ser_Recombinase Serine 57.9 1E+02 0.0022 25.1 9.8 83 99-184 15-102 (137)
267 TIGR02995 ectoine_ehuB ectoine 57.9 21 0.00046 33.5 5.5 63 387-457 121-183 (275)
268 cd01391 Periplasmic_Binding_Pr 57.6 55 0.0012 29.4 8.2 79 118-203 1-84 (269)
269 PRK15424 propionate catabolism 56.9 2.5E+02 0.0055 29.5 13.5 131 31-212 50-181 (538)
270 cd06270 PBP1_GalS_like Ligand 56.7 1E+02 0.0022 28.4 9.9 77 119-203 2-80 (268)
271 cd08188 Fe-ADH4 Iron-containin 56.7 37 0.0008 33.8 7.2 79 104-187 16-95 (377)
272 cd06300 PBP1_ABC_sugar_binding 56.6 90 0.0019 28.8 9.6 79 118-202 1-86 (272)
273 PRK09701 D-allose transporter 55.8 67 0.0014 30.7 8.7 84 114-203 22-109 (311)
274 cd03770 SR_TndX_transposase Se 55.5 1.1E+02 0.0023 25.5 8.8 82 100-184 20-106 (140)
275 cd08183 Fe-ADH2 Iron-containin 55.3 47 0.001 33.0 7.7 81 105-194 12-94 (374)
276 KOG4404|consensus 55.3 2.9 6.3E-05 39.7 -0.8 56 331-386 74-133 (350)
277 PRK10797 glutamate and asparta 54.9 12 0.00025 36.1 3.2 70 378-457 126-195 (302)
278 cd06296 PBP1_CatR_like Ligand- 54.7 90 0.0019 28.7 9.2 77 119-203 2-80 (270)
279 cd08191 HHD 6-hydroxyhexanoate 54.6 48 0.001 33.1 7.7 84 105-194 12-98 (386)
280 cd02071 MM_CoA_mut_B12_BD meth 54.5 1.1E+02 0.0025 24.6 9.9 70 123-202 6-79 (122)
281 PF02608 Bmp: Basic membrane p 54.2 1.8E+02 0.0039 27.9 11.3 101 117-230 2-107 (306)
282 cd06281 PBP1_LacI_like_5 Ligan 54.0 1.1E+02 0.0024 28.1 9.7 77 119-202 2-80 (269)
283 PRK15395 methyl-galactoside AB 53.8 1.3E+02 0.0027 29.1 10.4 83 115-203 23-108 (330)
284 cd08181 PPD-like 1,3-propanedi 53.8 42 0.00092 33.1 7.0 79 105-188 15-94 (357)
285 cd06320 PBP1_allose_binding Pe 53.5 60 0.0013 30.1 7.8 79 118-202 1-83 (275)
286 cd08182 HEPD Hydroxyethylphosp 52.9 58 0.0013 32.2 7.9 84 105-195 12-97 (367)
287 PRK11303 DNA-binding transcrip 52.8 1.3E+02 0.0028 28.7 10.3 81 116-203 61-143 (328)
288 cd01539 PBP1_GGBP Periplasmic 52.7 83 0.0018 29.9 8.8 79 118-203 1-84 (303)
289 PRK10936 TMAO reductase system 52.1 74 0.0016 31.0 8.5 81 116-203 46-130 (343)
290 cd06285 PBP1_LacI_like_7 Ligan 52.1 1.3E+02 0.0029 27.5 9.9 77 119-203 2-80 (265)
291 cd08550 GlyDH-like Glycerol_de 51.8 72 0.0016 31.3 8.3 74 105-187 12-87 (349)
292 cd06324 PBP1_ABC_sugar_binding 51.4 1.1E+02 0.0024 29.0 9.5 78 119-203 2-84 (305)
293 cd08171 GlyDH-like2 Glycerol d 51.3 76 0.0016 31.1 8.3 82 105-194 12-97 (345)
294 TIGR02370 pyl_corrinoid methyl 50.9 1.8E+02 0.0039 25.9 10.6 86 118-213 86-175 (197)
295 cd08197 DOIS 2-deoxy-scyllo-in 50.8 1.6E+02 0.0036 29.0 10.6 97 106-213 13-119 (355)
296 cd08187 BDH Butanol dehydrogen 50.3 59 0.0013 32.4 7.5 78 105-187 18-96 (382)
297 cd07766 DHQ_Fe-ADH Dehydroquin 49.9 72 0.0016 30.9 8.0 86 106-197 13-100 (332)
298 TIGR02329 propionate_PrpR prop 49.8 3.3E+02 0.0071 28.5 14.0 124 38-212 48-171 (526)
299 cd08176 LPO Lactadehyde:propan 49.6 47 0.001 33.1 6.6 78 105-187 17-95 (377)
300 TIGR02637 RhaS rhamnose ABC tr 49.2 81 0.0018 29.8 8.1 72 126-202 10-82 (302)
301 cd01574 PBP1_LacI Ligand-bindi 49.2 1.5E+02 0.0033 27.0 9.8 76 119-202 2-80 (264)
302 PRK00002 aroB 3-dehydroquinate 48.6 1.6E+02 0.0035 29.0 10.2 102 105-213 20-127 (358)
303 cd06292 PBP1_LacI_like_10 Liga 48.3 1.6E+02 0.0034 27.1 9.8 78 119-203 2-85 (273)
304 PRK00865 glutamate racemase; P 48.2 86 0.0019 29.4 7.8 43 31-76 54-96 (261)
305 cd06314 PBP1_tmGBP Periplasmic 48.0 76 0.0016 29.4 7.6 77 119-202 2-80 (271)
306 cd06319 PBP1_ABC_sugar_binding 48.0 90 0.002 28.8 8.1 79 118-203 1-82 (277)
307 PF12683 DUF3798: Protein of u 48.0 89 0.0019 29.3 7.5 102 98-210 13-137 (275)
308 cd01575 PBP1_GntR Ligand-bindi 47.8 1.2E+02 0.0025 27.7 8.8 76 119-202 2-79 (268)
309 KOG2792|consensus 47.7 12 0.00027 34.4 1.9 60 2-73 166-225 (280)
310 TIGR02417 fruct_sucro_rep D-fr 47.6 2.2E+02 0.0048 27.1 11.0 80 116-202 60-141 (327)
311 cd06297 PBP1_LacI_like_12 Liga 47.4 1.6E+02 0.0035 27.1 9.7 75 119-202 2-79 (269)
312 PRK13054 lipid kinase; Reviewe 47.1 1.4E+02 0.003 28.6 9.3 75 117-199 4-78 (300)
313 cd06304 PBP1_BmpA_like Peripla 47.0 91 0.002 28.7 7.9 60 118-185 1-64 (260)
314 cd06323 PBP1_ribose_binding Pe 46.9 86 0.0019 28.7 7.7 78 119-203 2-82 (268)
315 PF09651 Cas_APE2256: CRISPR-a 46.8 1.4E+02 0.003 24.9 8.0 44 103-146 6-52 (136)
316 cd06315 PBP1_ABC_sugar_binding 46.8 1.3E+02 0.0028 28.1 9.0 80 117-203 1-83 (280)
317 cd01542 PBP1_TreR_like Ligand- 46.7 1.2E+02 0.0025 27.7 8.6 76 119-202 2-79 (259)
318 cd06321 PBP1_ABC_sugar_binding 46.4 1.1E+02 0.0024 28.1 8.5 77 119-202 2-83 (271)
319 PRK15007 putative ABC transpor 46.4 20 0.00043 32.8 3.2 28 398-431 117-144 (243)
320 PRK10653 D-ribose transporter 46.4 1.2E+02 0.0026 28.6 8.8 80 116-202 26-108 (295)
321 PF00625 Guanylate_kin: Guanyl 46.0 2E+02 0.0043 25.0 9.6 130 43-199 2-134 (183)
322 TIGR00288 conserved hypothetic 45.9 2E+02 0.0043 24.8 10.0 26 177-202 105-130 (160)
323 cd08186 Fe-ADH8 Iron-containin 45.7 70 0.0015 31.9 7.2 78 105-187 12-94 (383)
324 cd06273 PBP1_GntR_like_1 This 45.5 1.7E+02 0.0037 26.7 9.6 77 119-203 2-80 (268)
325 PRK10355 xylF D-xylose transpo 45.1 1.3E+02 0.0029 29.0 9.0 80 116-202 25-107 (330)
326 cd03364 TOPRIM_DnaG_primases T 44.8 55 0.0012 24.1 4.9 37 108-145 36-72 (79)
327 cd06317 PBP1_ABC_sugar_binding 44.7 1.2E+02 0.0027 27.8 8.5 78 119-203 2-83 (275)
328 PF00205 TPP_enzyme_M: Thiamin 44.3 27 0.00059 28.9 3.5 59 36-97 4-63 (137)
329 COG1794 RacX Aspartate racemas 44.2 2E+02 0.0043 26.3 8.9 84 27-144 58-142 (230)
330 cd06298 PBP1_CcpA_like Ligand- 43.9 1.9E+02 0.004 26.4 9.5 77 119-203 2-80 (268)
331 cd06274 PBP1_FruR Ligand bindi 43.7 1.8E+02 0.0039 26.6 9.4 76 119-202 2-79 (264)
332 COG4213 XylF ABC-type xylose t 43.5 3.1E+02 0.0067 26.5 14.4 164 38-217 75-253 (341)
333 cd06313 PBP1_ABC_sugar_binding 43.5 1.2E+02 0.0025 28.2 8.1 71 126-203 11-82 (272)
334 PF13380 CoA_binding_2: CoA bi 42.7 32 0.0007 27.7 3.5 35 176-213 54-88 (116)
335 cd08549 G1PDH_related Glycerol 42.6 99 0.0021 30.1 7.6 98 105-213 12-113 (332)
336 cd06354 PBP1_BmpA_PnrA_like Pe 42.1 1.3E+02 0.0029 27.8 8.2 61 118-186 1-66 (265)
337 cd06271 PBP1_AglR_RafR_like Li 42.1 1.7E+02 0.0038 26.6 9.0 76 119-203 2-84 (268)
338 cd06308 PBP1_sensor_kinase_lik 42.1 1.5E+02 0.0033 27.2 8.6 78 119-203 2-83 (270)
339 PRK09495 glnH glutamine ABC tr 41.9 32 0.0007 31.6 3.9 30 396-431 120-149 (247)
340 smart00857 Resolvase Resolvase 41.3 2E+02 0.0044 23.7 9.2 24 101-124 18-41 (148)
341 cd06309 PBP1_YtfQ_like Peripla 41.1 1.2E+02 0.0027 27.9 7.8 72 125-203 10-82 (273)
342 PRK11914 diacylglycerol kinase 41.0 1.5E+02 0.0032 28.4 8.5 79 112-198 4-85 (306)
343 cd01324 cbb3_Oxidase_CcoQ Cyto 40.9 43 0.00092 22.4 3.2 24 294-317 11-34 (48)
344 PF12273 RCR: Chitin synthesis 40.9 24 0.00052 29.1 2.6 23 294-316 2-24 (130)
345 KOG0500|consensus 40.7 81 0.0018 32.1 6.4 90 301-391 138-236 (536)
346 KOG4404|consensus 40.6 34 0.00075 32.7 3.7 47 336-382 185-239 (350)
347 PRK11260 cystine transporter s 40.5 28 0.00062 32.4 3.3 37 389-431 131-167 (266)
348 PF00448 SRP54: SRP54-type pro 40.2 80 0.0017 28.1 6.0 64 116-187 29-93 (196)
349 cd08173 Gro1PDH Sn-glycerol-1- 40.2 1.7E+02 0.0037 28.5 8.9 82 106-195 14-98 (339)
350 COG4905 Predicted membrane pro 39.9 72 0.0016 28.0 5.2 62 287-348 55-120 (243)
351 cd02067 B12-binding B12 bindin 39.3 2E+02 0.0042 22.9 10.0 37 166-202 39-79 (119)
352 TIGR02634 xylF D-xylose ABC tr 39.2 1.3E+02 0.0027 28.6 7.7 72 124-202 8-80 (302)
353 cd06283 PBP1_RegR_EndR_KdgR_li 38.5 2.5E+02 0.0054 25.5 9.5 76 119-202 2-79 (267)
354 PF00070 Pyr_redox: Pyridine n 38.3 1.5E+02 0.0032 21.6 6.4 51 104-155 11-65 (80)
355 cd01541 PBP1_AraR Ligand-bindi 37.9 2.7E+02 0.0058 25.5 9.7 77 119-202 2-84 (273)
356 PLN02834 3-dehydroquinate synt 37.7 4.6E+02 0.0099 26.7 11.7 90 116-214 100-199 (433)
357 PRK15411 rcsA colanic acid cap 37.5 2.7E+02 0.0059 24.8 9.1 48 165-214 35-86 (207)
358 PF02608 Bmp: Basic membrane p 37.3 3.8E+02 0.0082 25.6 15.0 175 14-203 33-213 (306)
359 PF02571 CbiJ: Precorrin-6x re 37.2 3E+02 0.0065 25.6 9.5 39 40-79 62-101 (249)
360 PRK11917 bifunctional adhesin/ 37.1 42 0.00092 31.2 3.9 53 397-457 138-190 (259)
361 cd06286 PBP1_CcpB_like Ligand- 36.8 2.1E+02 0.0045 26.0 8.6 74 119-200 2-77 (260)
362 cd08175 G1PDH Glycerol-1-phosp 36.7 1.5E+02 0.0032 29.1 7.8 85 105-195 12-100 (348)
363 cd00755 YgdL_like Family of ac 36.0 1.4E+02 0.0029 27.5 6.9 78 42-126 100-182 (231)
364 PF13362 Toprim_3: Toprim doma 35.7 1.3E+02 0.0027 23.0 5.8 52 114-172 39-92 (96)
365 cd06294 PBP1_ycjW_transcriptio 35.7 2.7E+02 0.0058 25.4 9.2 69 126-203 16-85 (270)
366 PF13662 Toprim_4: Toprim doma 35.5 1.6E+02 0.0034 21.7 6.1 31 116-146 46-76 (81)
367 TIGR00249 sixA phosphohistidin 35.1 2.5E+02 0.0053 23.7 8.0 95 97-198 24-120 (152)
368 cd08172 GlyDH-like1 Glycerol d 35.0 1.6E+02 0.0034 28.9 7.7 82 105-195 13-96 (347)
369 TIGR01481 ccpA catabolite cont 34.4 4.1E+02 0.0089 25.2 11.4 81 115-203 58-140 (329)
370 PF00072 Response_reg: Respons 34.3 2.1E+02 0.0045 21.8 10.1 37 165-201 31-69 (112)
371 PRK14987 gluconate operon tran 33.9 3.5E+02 0.0077 25.7 10.0 79 117-203 64-144 (331)
372 PF07287 DUF1446: Protein of u 33.6 3.1E+02 0.0068 27.1 9.3 50 62-128 62-112 (362)
373 TIGR00640 acid_CoA_mut_C methy 33.3 2.8E+02 0.006 22.9 9.2 75 119-203 5-83 (132)
374 TIGR01096 3A0103s03R lysine-ar 32.9 53 0.0012 29.9 3.9 49 398-457 122-170 (250)
375 cd06293 PBP1_LacI_like_11 Liga 32.9 2.5E+02 0.0054 25.7 8.5 62 119-187 2-65 (269)
376 TIGR02667 moaB_proteo molybden 32.9 1.7E+02 0.0037 25.1 6.7 65 116-186 4-72 (163)
377 PF10661 EssA: WXG100 protein 32.8 55 0.0012 27.7 3.5 27 290-316 115-141 (145)
378 PF02602 HEM4: Uroporphyrinoge 32.8 1.3E+02 0.0028 27.2 6.4 154 28-200 26-190 (231)
379 cd00886 MogA_MoaB MogA_MoaB fa 32.7 1.6E+02 0.0036 24.8 6.5 62 118-185 2-69 (152)
380 KOG0501|consensus 32.7 67 0.0015 33.4 4.6 53 338-390 424-476 (971)
381 cd08195 DHQS Dehydroquinate sy 32.7 4.4E+02 0.0095 25.7 10.4 96 107-213 14-120 (345)
382 COG0078 ArgF Ornithine carbamo 32.7 4.6E+02 0.0099 25.2 10.6 63 61-144 111-177 (310)
383 COG1609 PurR Transcriptional r 32.6 4.6E+02 0.01 25.4 10.5 81 115-203 57-139 (333)
384 TIGR00067 glut_race glutamate 32.3 1.1E+02 0.0024 28.5 5.8 44 31-77 47-91 (251)
385 PF10568 Tom37: Outer mitochon 32.1 1.2E+02 0.0027 22.0 4.8 54 58-111 15-71 (72)
386 PF02310 B12-binding: B12 bind 31.8 2.6E+02 0.0056 22.1 9.7 15 165-179 67-81 (121)
387 TIGR03702 lip_kinase_YegS lipi 31.5 3.1E+02 0.0068 26.0 9.0 73 119-199 2-74 (293)
388 PF00218 IGPS: Indole-3-glycer 31.2 4.4E+02 0.0095 24.6 9.5 89 103-203 69-160 (254)
389 COG3439 Uncharacterized conser 30.9 1.5E+02 0.0032 24.9 5.6 72 129-213 21-94 (137)
390 cd06280 PBP1_LacI_like_4 Ligan 30.7 3.7E+02 0.0081 24.4 9.3 62 119-187 2-65 (263)
391 COG1879 RbsB ABC-type sugar tr 30.7 2.7E+02 0.006 26.5 8.6 82 117-203 34-118 (322)
392 PRK10886 DnaA initiator-associ 30.6 3.6E+02 0.0079 24.0 8.6 17 37-53 35-51 (196)
393 PF13207 AAA_17: AAA domain; P 30.6 57 0.0012 25.9 3.2 32 45-79 1-32 (121)
394 PF02310 B12-binding: B12 bind 30.5 2.3E+02 0.005 22.4 6.8 74 119-202 3-80 (121)
395 PRK10859 membrane-bound lytic 30.2 62 0.0013 33.4 4.1 58 392-457 134-192 (482)
396 TIGR03884 sel_bind_Methan sele 30.2 1.7E+02 0.0038 21.4 5.1 37 14-50 10-48 (74)
397 KOG1418|consensus 30.2 11 0.00023 37.8 -1.5 48 336-383 241-296 (433)
398 TIGR00147 lipid kinase, YegS/R 30.1 3.3E+02 0.0072 25.7 8.9 75 117-199 2-79 (293)
399 TIGR00646 MG010 DNA primase-re 30.1 2.6E+02 0.0056 25.5 7.4 58 108-172 146-203 (218)
400 COG1744 Med Uncharacterized AB 29.9 5.4E+02 0.012 25.2 15.2 169 32-216 85-255 (345)
401 cd06268 PBP1_ABC_transporter_L 29.7 2.7E+02 0.0057 25.5 8.2 83 119-202 2-91 (298)
402 PRK11921 metallo-beta-lactamas 29.6 4.4E+02 0.0096 26.3 10.1 88 116-215 247-344 (394)
403 PF01745 IPT: Isopentenyl tran 29.6 46 0.00099 30.2 2.5 32 44-78 2-33 (233)
404 PF13155 Toprim_2: Toprim-like 29.3 1.2E+02 0.0026 23.0 4.7 41 104-144 35-75 (96)
405 COG1058 CinA Predicted nucleot 29.2 1.9E+02 0.0041 27.0 6.7 60 118-184 3-67 (255)
406 cd06291 PBP1_Qymf_like Ligand 29.2 3.5E+02 0.0077 24.5 8.9 73 119-202 2-76 (265)
407 PRK07239 bifunctional uroporph 29.1 3.7E+02 0.008 26.6 9.4 100 100-202 124-225 (381)
408 TIGR02467 CbiE precorrin-6y C5 29.1 4E+02 0.0087 23.6 8.8 44 170-214 133-176 (204)
409 KOG0025|consensus 28.9 2.5E+02 0.0055 26.9 7.3 95 91-202 162-258 (354)
410 COG2241 CobL Precorrin-6B meth 28.7 4.4E+02 0.0096 23.8 10.7 109 100-216 52-178 (210)
411 TIGR01425 SRP54_euk signal rec 28.7 3.2E+02 0.0069 27.8 8.7 87 104-199 117-206 (429)
412 TIGR01357 aroB 3-dehydroquinat 28.6 5.1E+02 0.011 25.2 10.1 94 107-213 13-116 (344)
413 cd02069 methionine_synthase_B1 28.4 4.5E+02 0.0097 23.8 10.3 87 117-215 89-179 (213)
414 cd00758 MoCF_BD MoCF_BD: molyb 28.3 1.8E+02 0.0038 23.9 5.9 46 133-185 21-66 (133)
415 cd01994 Alpha_ANH_like_IV This 28.3 4.2E+02 0.0092 23.5 13.7 101 60-187 47-147 (194)
416 cd06284 PBP1_LacI_like_6 Ligan 28.3 3.4E+02 0.0073 24.6 8.5 61 119-186 2-64 (267)
417 PF13292 DXP_synthase_N: 1-deo 28.0 2.1E+02 0.0046 26.9 6.6 77 35-112 124-207 (270)
418 PRK08057 cobalt-precorrin-6x r 27.9 5E+02 0.011 24.1 9.6 41 38-79 59-100 (248)
419 PRK14021 bifunctional shikimat 27.8 7.3E+02 0.016 26.1 12.4 96 106-214 200-305 (542)
420 PF09600 Cyd_oper_YbgE: Cyd op 27.6 2.2E+02 0.0047 21.5 5.5 73 299-382 6-78 (82)
421 cd06279 PBP1_LacI_like_3 Ligan 27.6 4.7E+02 0.01 24.1 9.5 66 126-203 16-81 (283)
422 cd02008 TPP_IOR_alpha Thiamine 27.3 3.6E+02 0.0078 23.3 8.0 98 42-144 69-168 (178)
423 PF09084 NMT1: NMT1/THI5 like; 27.2 82 0.0018 28.0 4.0 42 381-430 69-110 (216)
424 cd02070 corrinoid_protein_B12- 27.2 4.5E+02 0.0096 23.3 10.6 86 118-213 84-173 (201)
425 PRK00843 egsA NAD(P)-dependent 27.1 3.1E+02 0.0068 26.8 8.3 82 105-194 22-106 (350)
426 cd08178 AAD_C C-terminal alcoh 27.1 1.3E+02 0.0028 30.1 5.7 78 114-195 19-98 (398)
427 PF05706 CDKN3: Cyclin-depende 27.0 56 0.0012 28.3 2.5 82 109-197 65-152 (168)
428 PF05545 FixQ: Cbb3-type cytoc 27.0 97 0.0021 20.5 3.3 22 296-317 12-33 (49)
429 TIGR01744 XPRTase xanthine pho 26.9 97 0.0021 27.5 4.2 72 2-78 5-80 (191)
430 COG1419 FlhF Flagellar GTP-bin 26.6 2.2E+02 0.0047 28.6 6.8 83 92-187 205-291 (407)
431 PRK09219 xanthine phosphoribos 26.4 88 0.0019 27.7 3.9 73 2-79 5-81 (189)
432 COG0796 MurI Glutamate racemas 26.3 1.2E+02 0.0027 28.5 4.9 46 30-78 53-98 (269)
433 COG2344 AT-rich DNA-binding pr 26.3 4.7E+02 0.01 23.3 9.6 102 100-213 68-179 (211)
434 cd03078 GST_N_Metaxin1_like GS 26.3 2.2E+02 0.0048 20.6 5.4 58 53-112 13-70 (73)
435 PRK14723 flhF flagellar biosyn 26.3 8.7E+02 0.019 26.8 11.9 23 44-69 186-208 (767)
436 cd08179 NADPH_BDH NADPH-depend 26.1 1.4E+02 0.0031 29.6 5.7 70 113-187 20-91 (375)
437 PF02698 DUF218: DUF218 domain 26.0 2.6E+02 0.0057 23.3 6.7 103 98-204 20-124 (155)
438 PRK13337 putative lipid kinase 25.7 4.9E+02 0.011 24.8 9.2 74 117-198 2-78 (304)
439 PF04392 ABC_sub_bind: ABC tra 25.6 2E+02 0.0044 27.2 6.6 67 118-187 1-69 (294)
440 PLN02727 NAD kinase 25.6 4.1E+02 0.0088 29.9 9.1 109 83-199 254-363 (986)
441 TIGR00177 molyb_syn molybdenum 25.3 2.2E+02 0.0047 23.8 5.9 46 133-185 29-74 (144)
442 PRK05452 anaerobic nitric oxid 25.3 5.5E+02 0.012 26.5 10.0 92 116-216 251-349 (479)
443 COG0563 Adk Adenylate kinase a 25.2 67 0.0015 28.2 2.9 94 46-144 3-104 (178)
444 TIGR03871 ABC_peri_MoxJ_2 quin 25.1 87 0.0019 28.2 3.8 48 378-431 73-122 (232)
445 PRK11041 DNA-binding transcrip 24.9 4.1E+02 0.009 24.8 8.7 69 111-186 30-100 (309)
446 PF12606 RELT: Tumour necrosis 24.5 1.1E+02 0.0024 20.7 3.0 28 297-324 3-31 (50)
447 PRK05370 argininosuccinate syn 24.3 5.1E+02 0.011 26.4 9.0 84 110-202 4-89 (447)
448 PF10727 Rossmann-like: Rossma 24.3 2.3E+02 0.005 23.2 5.7 37 178-214 69-105 (127)
449 PRK10481 hypothetical protein; 24.2 3.4E+02 0.0073 24.9 7.2 66 117-190 130-195 (224)
450 PF01902 ATP_bind_4: ATP-bindi 24.2 4.9E+02 0.011 23.6 8.3 98 60-187 47-144 (218)
451 TIGR00290 MJ0570_dom MJ0570-re 24.2 5.5E+02 0.012 23.4 10.6 97 61-187 48-144 (223)
452 COG0299 PurN Folate-dependent 24.1 4.2E+02 0.0092 23.7 7.5 76 103-190 13-92 (200)
453 cd06272 PBP1_hexuronate_repres 23.8 5.4E+02 0.012 23.2 9.7 73 119-203 2-76 (261)
454 TIGR03870 ABC_MoxJ methanol ox 23.7 1E+02 0.0023 28.2 4.1 48 378-431 74-124 (246)
455 TIGR02619 putative CRISPR-asso 23.7 4.6E+02 0.0099 22.3 8.1 43 103-145 16-63 (149)
456 cd06290 PBP1_LacI_like_9 Ligan 23.7 3.7E+02 0.0081 24.4 7.9 61 119-186 2-64 (265)
457 COG1646 Predicted phosphate-bi 23.6 5.8E+02 0.013 23.5 10.4 73 158-234 21-99 (240)
458 PRK09526 lacI lac repressor; R 23.5 6.5E+02 0.014 24.0 10.5 61 117-184 64-127 (342)
459 cd06311 PBP1_ABC_sugar_binding 23.4 4.4E+02 0.0096 24.1 8.4 83 119-203 2-87 (274)
460 PRK15010 ABC transporter lysin 23.3 1.2E+02 0.0026 28.0 4.4 37 387-430 114-150 (260)
461 cd06275 PBP1_PurR Ligand-bindi 23.3 5.6E+02 0.012 23.2 9.9 62 119-187 2-65 (269)
462 cd08180 PDD 1,3-propanediol de 23.1 1.9E+02 0.0041 28.1 5.9 72 111-187 17-88 (332)
463 PF10853 DUF2650: Protein of u 22.9 48 0.001 20.9 1.0 15 292-306 22-36 (38)
464 PRK00278 trpC indole-3-glycero 22.8 6.3E+02 0.014 23.6 9.8 87 105-203 73-162 (260)
465 PF12270 Cyt_c_ox_IV: Cytochro 22.8 1.5E+02 0.0033 24.8 4.2 34 280-313 75-109 (137)
466 COG0134 TrpC Indole-3-glycerol 22.8 1.4E+02 0.0031 27.8 4.5 87 105-203 69-158 (254)
467 PRK09193 indolepyruvate ferred 22.5 4.5E+02 0.0099 30.5 9.2 92 42-144 499-608 (1165)
468 PF00107 ADH_zinc_N: Zinc-bind 22.2 2.3E+02 0.0049 22.6 5.5 74 104-196 3-78 (130)
469 TIGR02717 AcCoA-syn-alpha acet 22.1 2.8E+02 0.0061 28.3 7.1 37 177-216 64-100 (447)
470 TIGR02955 TMAO_TorT TMAO reduc 22.1 4E+02 0.0087 24.9 7.9 61 119-186 2-66 (295)
471 PRK13957 indole-3-glycerol-pho 22.1 6.5E+02 0.014 23.4 8.9 87 105-203 64-153 (247)
472 PRK06975 bifunctional uroporph 21.6 6E+02 0.013 27.5 9.7 93 99-199 118-214 (656)
473 cd00885 cinA Competence-damage 21.6 3.3E+02 0.0072 23.6 6.5 11 134-144 22-32 (170)
474 PRK09492 treR trehalose repres 21.6 6.7E+02 0.015 23.5 9.4 63 117-186 63-127 (315)
475 COG1179 Dinucleotide-utilizing 21.5 1.3E+02 0.0029 27.8 4.0 66 38-110 115-180 (263)
476 PRK10423 transcriptional repre 21.5 5.4E+02 0.012 24.3 8.8 66 115-187 55-122 (327)
477 PF12273 RCR: Chitin synthesis 21.4 49 0.0011 27.3 1.2 22 297-318 2-23 (130)
478 PF12683 DUF3798: Protein of u 21.3 7E+02 0.015 23.5 11.2 122 97-231 112-247 (275)
479 PLN02460 indole-3-glycerol-pho 21.2 2.3E+02 0.005 27.7 5.8 88 104-203 141-232 (338)
480 PF01936 NYN: NYN domain; Int 21.2 1.3E+02 0.0028 24.7 3.8 33 176-212 94-126 (146)
481 PRK10703 DNA-binding transcrip 21.1 7.2E+02 0.016 23.6 10.1 78 117-202 60-140 (341)
482 PRK02261 methylaspartate mutas 20.9 4.9E+02 0.011 21.6 10.7 85 118-213 5-93 (137)
483 TIGR01359 UMP_CMP_kin_fam UMP- 20.8 93 0.002 26.9 2.9 31 45-78 1-31 (183)
484 TIGR03590 PseG pseudaminic aci 20.6 7.1E+02 0.015 23.3 10.4 80 105-201 21-103 (279)
485 COG1922 WecG Teichoic acid bio 20.6 7E+02 0.015 23.3 9.5 99 102-214 95-195 (253)
486 PF03162 Y_phosphatase2: Tyros 20.4 3E+02 0.0066 23.7 5.9 85 91-187 12-100 (164)
487 COG3946 VirJ Type IV secretory 20.4 4.2E+02 0.0091 26.7 7.3 70 115-187 258-334 (456)
488 KOG3193|consensus 20.2 26 0.00056 35.8 -0.8 47 333-379 213-259 (1087)
489 COG0763 LpxB Lipid A disacchar 20.1 2.1E+02 0.0046 28.4 5.3 50 167-216 75-124 (381)
490 PLN00125 Succinyl-CoA ligase [ 20.0 7.8E+02 0.017 23.6 13.5 143 30-199 79-232 (300)
No 1
>KOG4440|consensus
Probab=100.00 E-value=2.1e-62 Score=472.46 Aligned_cols=431 Identities=62% Similarity=1.016 Sum_probs=392.9
Q ss_pred eeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCC--CchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCC
Q psy17441 22 GIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGD--LSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPP 99 (458)
Q Consensus 22 ~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~--~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~ 99 (458)
+...+.++.+.+..+|++|++..|.||+-+++.+|+ ....+++..++.++||++.....+..+++|+-++.|+|++|+
T Consensus 73 sv~~d~n~i~t~~~VC~~li~~~vyav~vSh~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda~fSdKnIh~sFlRtvpP 152 (993)
T KOG4440|consen 73 SVTHDPNAIQTALSVCEDLISSQVYAVLVSHPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDAIFSDKNIHLSFLRTVPP 152 (993)
T ss_pred cccCCCcHHHHHHHHHHHHHhhheeEEEecCCCCCCcccccccceeeccceeeeeeeeeehhhhhccCceeeeEeecCCC
Confidence 545678899999999999999999999988787764 235678889999999999999999999999999999999999
Q ss_pred chhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCe
Q psy17441 100 YSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQAR 179 (458)
Q Consensus 100 ~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~ 179 (458)
..+|+.+..+.+.+|.|++|.++.++|..|+....+++..+++.. .+...+..++++..++...|-++|...+|
T Consensus 153 yshqa~VwleMl~~~~y~~vi~l~s~d~~gra~~~r~qt~~e~~~------~~~e~v~~f~p~~~~~t~~l~~~k~~~~r 226 (993)
T KOG4440|consen 153 YSHQASVWLEMLRVYSYNHVILLVSDDHEGRAAQKRLQTLLEERE------SKAEKVLQFDPGTKNVTALLMEAKELEAR 226 (993)
T ss_pred ccchhHHHHHHHHHhhcceEEEEEcccccchhHHhHHHHHHHHHh------hhhhhheecCcccchHHHHHhhhhhhhhe
Confidence 999999999999999999999999999889888778887777532 34555677888889999999999999999
Q ss_pred EEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCCCCCeeEEEEecCCCchhHHHHHHHHHHHHHHHHHhhcCc
Q psy17441 180 VYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVLTSALKEMNQSAV 259 (458)
Q Consensus 180 viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~la~Al~~~~~~~~ 259 (458)
|+++....++|..+++.|.+++|+|++|+||+++.-......+.|++|.++-+.....+...|+|.++|.|+++++++.+
T Consensus 227 v~~~~as~dDA~~ifr~Ag~lnmTG~G~VWiV~E~a~~~nn~PdG~LGlqL~~~~~~~~hirDsv~vlasAv~e~~~~e~ 306 (993)
T KOG4440|consen 227 VIILSASEDDAATIFRAAGMLNMTGSGYVWIVGERAISGNNLPDGILGLQLINGKNESAHIRDSVGVLASAVHELLEKEN 306 (993)
T ss_pred eEEeecccchHHHHHHhhhhhcccCceEEEEEeccccccCCCCCceeeeEeecCccccceehhhHHHHHHHHHHHHhhcc
Confidence 99999999999999999999999999999999999888888899999999999888999999999999999999999888
Q ss_pred ccCCCcccCCCC-------------------------------------------------------------------c
Q psy17441 260 ITEAPQDCDNSG-------------------------------------------------------------------S 272 (458)
Q Consensus 260 ~~~~~~~c~~~~-------------------------------------------------------------------~ 272 (458)
|+.+|..|.|++ .
T Consensus 307 I~~~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~~yd~~r~~~nd~~I 386 (993)
T KOG4440|consen 307 ITDPPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVGIYDGTRVIPNDRKI 386 (993)
T ss_pred CCCCCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhccccceeeccCCcee
Confidence 887776555432 3
Q ss_pred ccccC---------------------------------------------------------------------------
Q psy17441 273 IWETG--------------------------------------------------------------------------- 277 (458)
Q Consensus 273 ~W~~g--------------------------------------------------------------------------- 277 (458)
.|+||
T Consensus 387 iWpGg~~~KP~gi~~pthLrivTi~~~PFVYv~p~~sd~~c~eef~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~c 466 (993)
T KOG4440|consen 387 IWPGGETEKPRGIQMPTHLRIVTIHQEPFVYVKPTLSDGTCKEEFTVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFC 466 (993)
T ss_pred ecCCCCcCCCccccccceeEEEEeccCCeEEEecCCCCcchhhhccccCCcccceeecCCCCCCCCCcccCcchhhhHHH
Confidence 46555
Q ss_pred --------------------------------------------------------------------------------
Q psy17441 278 -------------------------------------------------------------------------------- 277 (458)
Q Consensus 278 -------------------------------------------------------------------------------- 277 (458)
T Consensus 467 IDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew~G~iGEL~~~~ADMivaplTINpERa~yieFskPfkYq 546 (993)
T KOG4440|consen 467 IDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEWNGMIGELLSGQADMIVAPLTINPERAQYIEFSKPFKYQ 546 (993)
T ss_pred HHHHHHHHHhhcceEEEEEeecccccceeeeecccccccceehhhhhhhhCCccceEeeceeeChhhhhheeccCccccc
Confidence
Q ss_pred -------CccCCCCcceeeecCChhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccccccchhHHHHHHHhh
Q psy17441 278 -------KPSRSSTLVSFLQPFSNTLWILVMVSVHVVALVLYLLDRFSPFGRFRLSNSDNTEEDALNLSSAIWFAWGVLL 350 (458)
Q Consensus 278 -------~~~~~~~~~~fl~pf~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~l~ 350 (458)
|+.+.+.+-+||+||+..+|+++++++.++++++++++|+|||++......++++....+++.++||+|+.|+
T Consensus 547 GitILeKk~~r~Stl~SFlQPfqstLW~lv~~SVhvVal~lYlLDrfSPFgRFk~~ds~~~ee~alnlssAmWF~WGVLL 626 (993)
T KOG4440|consen 547 GITILEKKEIRRSTLDSFLQPFQSTLWLLVGLSVHVVALMLYLLDRFSPFGRFKVNDSEEEEEDALNLSSAMWFSWGVLL 626 (993)
T ss_pred ceEEEeeCCCCCchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccceeeccCccchhhhcchhhhHHHHhHhhh
Confidence 5567778899999999999999999999999999999999999988774455667778899999999999999
Q ss_pred ccCCCCCCCCchhhHHHHHHHHHHHHHHHhhcccceeEEeeeccCCCCCCChhhhhhcCCCCceEEEEeCCChHHHHHhh
Q psy17441 351 NSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLERPKTKLTGINDARLRNTMENLTCATVKGSAVDMYFRR 430 (458)
Q Consensus 351 ~~g~~~~~p~s~~~Ri~~~~w~~~~~i~~~~yta~l~s~lt~~~~~~~i~~~~dL~~~~~~~~~~~g~~~~s~~~~~~~~ 430 (458)
+.|.++..|||.|.|++.++|+-|++|++++|||||||||.+++.+..+++++|.++.++..++.++++++|++..||++
T Consensus 627 NSGigEgtPRSfSARvLGmVWaGFaMIiVASYTANLAAFLVLdrPe~~ltGinDpRLRNps~nf~~aTVk~SsVd~YFrR 706 (993)
T KOG4440|consen 627 NSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLDRPEERLTGINDPRLRNPSDNFIYATVKQSSVDIYFRR 706 (993)
T ss_pred ccccCCCCCcchhHHHHHHHHhhhheeeehhhhhhhhhheeecCccccccCCCCccccCcccceeEEEecCccHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhHHHHHHHHHcCCCCHHHHHHHhhC
Q psy17441 431 QVELSNMYRTMEANNYDTAEDAIADVKI 458 (458)
Q Consensus 431 ~~~~~~~~~~~~~~~~~~~~~gi~~v~~ 458 (458)
+-++..||++|+.|++.+.+|+|+.|++
T Consensus 707 qVELS~MyR~ME~hNy~~A~eAiq~v~~ 734 (993)
T KOG4440|consen 707 QVELSTMYRHMEKHNYESAAEAIQAVRD 734 (993)
T ss_pred HhHHHHHHHhhhhcchhhHHHHHHHHHc
Confidence 9889999999999999999999999985
No 2
>KOG1054|consensus
Probab=100.00 E-value=2.4e-58 Score=442.34 Aligned_cols=421 Identities=22% Similarity=0.422 Sum_probs=343.3
Q ss_pred ceEEEEe-eeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 15 GVTFSAT-GIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 15 ~~~l~~~-~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
..+|.++ +.-+..+++....++|+++ ++||.||+| ....- ....+-.+|+..++|.|+|+... +-+ .++.
T Consensus 61 pf~L~~~~d~~e~a~Sf~~tnafCsq~-s~Gv~Aifg--~yd~k-s~~~ltsfc~aLh~~~vtpsfp~----~~~-~~Fv 131 (897)
T KOG1054|consen 61 PFKLNPHVDNLESANSFAVTNAFCSQF-SRGVYAIFG--FYDKK-SVNTLTSFCGALHVSFVTPSFPT----DGD-NQFV 131 (897)
T ss_pred CcccccccchhhhhhhHHHHHHHHHHH-hhhHhhhee--ccccc-chhhhhhhccceeeeeecccCCc----CCC-ceEE
Confidence 3556555 3345578889999999999 899999999 44442 55778899999999999987622 222 3788
Q ss_pred eecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEE-EeCCCcccHHHHHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVI-EFEPGLTTFKDQLYE 172 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~-~~~~~~~d~~~~l~~ 172 (458)
.++.|+ ...++++++.|++|.++..+|+.+ -|...++++-+.+.+++ ..+...- ....+...|+.+.+.
T Consensus 132 iq~RP~---l~~al~s~i~hy~W~~fv~lyD~~-rg~s~Lqai~~~a~~~n------w~VtA~~v~~~~d~~~yr~~f~~ 201 (897)
T KOG1054|consen 132 IQMRPA---LKGALLSLIDHYKWEKFVYLYDTD-RGLSILQAIMEAAAQNN------WQVTAINVGNINDVKEYRMLFEM 201 (897)
T ss_pred EEeCch---HHHHHHHHHHhcccceEEEEEccc-chHHHHHHHHHHHHhcC------ceEEEEEcCCcccHHHHHHHHHH
Confidence 999998 668999999999999999999766 58888888888887765 3433322 222345559999999
Q ss_pred HHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCCC------CCeeEEEEecCCCc-----------
Q psy17441 173 MKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNV------PVGIIGLKLVNATN----------- 235 (458)
Q Consensus 173 ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~------~~g~~g~~~~~~~~----------- 235 (458)
+...+.+.++++|..+....++.++.+.+-...+|+|+..+....+.++ ..++.|++..+.+.
T Consensus 202 l~~r~e~rv~iDce~~~~~~il~q~i~~~k~~~~YHYvlaNl~f~d~dl~~f~~g~aNitgFqivn~~~~~~~k~~~~~~ 281 (897)
T KOG1054|consen 202 LDRRQENRVLIDCESERRNRILLQVIELGKHVKGYHYVLANLGFTDIDLERFQHGGANITGFQIVNKNNPMVKKFIQRWK 281 (897)
T ss_pred HhccccceEEEEcccHHHHHHHHHHHHHhhhccceEEEEeeCCCchhhHHHHhcCCcceeEEEEecCCChHHHHHHHHHh
Confidence 9988899999999999999999999999988899999999976555442 56788888876541
Q ss_pred -----------------hhHHHHHHHHHHHHHHHHHhhcCc-c--cCCCc------------------------------
Q psy17441 236 -----------------EDAHIRDSIYVLTSALKEMNQSAV-I--TEAPQ------------------------------ 265 (458)
Q Consensus 236 -----------------~~~~~yDAv~~la~Al~~~~~~~~-~--~~~~~------------------------------ 265 (458)
.+++.|||+.+.++|++.+++... + .+.+.
T Consensus 282 ~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~~~q~~~~~rRG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTG 361 (897)
T KOG1054|consen 282 ELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSLRRQRIDISRRGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTG 361 (897)
T ss_pred hhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHHHHhhhchhccCCCccccCCCCCchhcchhHHHHHHheeeccccc
Confidence 378999999999999998875310 0 00001
Q ss_pred --------------------------------------------------------------------------------
Q psy17441 266 -------------------------------------------------------------------------------- 265 (458)
Q Consensus 266 -------------------------------------------------------------------------------- 265 (458)
T Consensus 362 niqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~e~~~fv~~~t~a~~~~d~~~~~n~tvvvttiL~spyvm~kkn~~~~eg 441 (897)
T KOG1054|consen 362 NIQFDKYGRRTNYTIDIVELKSNGSRKVGYWNEGEGFVPGSTVAQSRNDQASKENRTVVVTTILESPYVMLKKNHEQLEG 441 (897)
T ss_pred ceeecccCccccceEEEEEeccCCcceeeeecccCceeeccccccccccccccccceEEEEEecCCchhHHHhhHHHhcC
Confidence
Q ss_pred ------ccCC----------------------------CCcccccC----------------------------------
Q psy17441 266 ------DCDN----------------------------SGSIWETG---------------------------------- 277 (458)
Q Consensus 266 ------~c~~----------------------------~~~~W~~g---------------------------------- 277 (458)
+|.| ++..|+++
T Consensus 442 n~ryEGyCvdLa~~iAkhi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviDFSKPfMs 521 (897)
T KOG1054|consen 442 NERYEGYCVDLAAEIAKHIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVIDFSKPFMS 521 (897)
T ss_pred CcccceeHHHHHHHHHHhcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhccccchhh
Confidence 1221 01346665
Q ss_pred --------CccC-CCCcceeeecCChhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCC-----CCCccccccccchhHH
Q psy17441 278 --------KPSR-SSTLVSFLQPFSNTLWILVMVSVHVVALVLYLLDRFSPFGRFRLSN-----SDNTEEDALNLSSAIW 343 (458)
Q Consensus 278 --------~~~~-~~~~~~fl~pf~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~w 343 (458)
||.+ .++.|+|+.|+..+.|+||+.+++-|+++++++.|+|||+|+.--. .+.+.++.|++.||+|
T Consensus 522 lGISIMIKKPqKsk~gVFSFldPLa~eIWm~ivfaYiGVSvvlFLVSrFSPYEwh~Ee~~rg~~t~~~~~NeFgifNsLW 601 (897)
T KOG1054|consen 522 LGISIMIKKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFERGRFTPSDPPNEFGIFNSLW 601 (897)
T ss_pred cCeEEEEeCcccCCCCeeeecchhHHHHHHHHHHHHhcceEEEEEEeccCchheeccccccCCCCCCCCCccchhhHHHH
Confidence 6664 4799999999999999999999999999999999999999974311 1224678899999999
Q ss_pred HHHHHhhccCCCCCCCCchhhHHHHHHHHHHHHHHHhhcccceeEEeeeccCCCCCCChhhhhhcCCCCceEEEEeCCCh
Q psy17441 344 FAWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLERPKTKLTGINDARLRNTMENLTCATVKGSA 423 (458)
Q Consensus 344 ~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~~i~~~~yta~l~s~lt~~~~~~~i~~~~dL~~~~~~~~~~~g~~~~s~ 423 (458)
|++++++||| .+..|||+||||+..+||||++|++++||||||||||++++.+||.|.|||+ +|+++.||+..+++
T Consensus 602 FsLgAFMQQG-~DI~PRslSGRIvggvWWFFTlIIiSSYTANLAAFLTvErMvsPIESaEDLA---kQteIaYGt~~~GS 677 (897)
T KOG1054|consen 602 FSLGAFMQQG-CDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLA---KQTEIAYGTLDSGS 677 (897)
T ss_pred HHHHHHHhcC-CCCCccccccceeccchhhhhhhhhhhhhhHHHHHHhHHhhcCcchhHHHHh---hcceeeeeecCCCc
Confidence 9999999999 5999999999999999999999999999999999999999999999999999 68999999999999
Q ss_pred HHHHHhhchh--hHHHHHHHHHc----CCCCHHHHHHHhhC
Q psy17441 424 VDMYFRRQVE--LSNMYRTMEAN----NYDTAEDAIADVKI 458 (458)
Q Consensus 424 ~~~~~~~~~~--~~~~~~~~~~~----~~~~~~~gi~~v~~ 458 (458)
+++||+.|.. |++||.+|+.. .+.+.+|||+|||+
T Consensus 678 TkeFFr~Skiavy~kMW~yM~SaepsVFv~t~aeGv~rVRk 718 (897)
T KOG1054|consen 678 TKEFFRRSKIAVYEKMWTYMKSAEPSVFVRTTAEGVARVRK 718 (897)
T ss_pred hHHHHhhhhHHHHHHHHHHHhcCCcceeeehhhhHHHHHHh
Confidence 9999999975 99999999876 38999999999984
No 3
>KOG1053|consensus
Probab=100.00 E-value=1.6e-47 Score=382.12 Aligned_cols=427 Identities=25% Similarity=0.504 Sum_probs=344.9
Q ss_pred eCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCC-CCchHHHHHhhcccCCcEEeeecCCC-CCCCCccccceeecCCCchh
Q psy17441 25 MDPNPILTALSVCKFLISERVYAVIVSHPLTG-DLSPAAVSYTSGFYHIPVIGISSRDS-AFSDKNIHVSFLRTVPPYSH 102 (458)
Q Consensus 25 ~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s-~~~~~~~~~i~~~~~iP~Is~~a~~~-~ls~~~~~p~~~r~~p~~~~ 102 (458)
+..++......+|..+...+|.+|+-. +.+- .+++....-++....||+|+....+. .+++++....|+++.|+..+
T Consensus 81 N~tdPkSll~~vC~lvs~~~V~glvf~-d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sieq 159 (1258)
T KOG1053|consen 81 NTTDPKSLLTQVCDLVSGARVHGLVFE-DDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIEQ 159 (1258)
T ss_pred CCCCHHHHHHHHHhhhhhcceeEEEee-cCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHHH
Confidence 457888889999998878999999963 3221 12444455577889999999977654 46777765689999999999
Q ss_pred HHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCccc-HHHHHHHHHhccCeEE
Q psy17441 103 QADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTT-FKDQLYEMKNAQARVY 181 (458)
Q Consensus 103 ~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d-~~~~l~~ik~~~~~vi 181 (458)
|++++.++|+.|+|..++++....+..+.+...+++..++.- .+..+.......+..+| ......++|+.++.||
T Consensus 160 qa~Vml~iL~~ydW~~Fs~vtt~~pg~~~f~~~ir~~~d~s~----vgwe~i~v~~l~~s~~d~~a~~q~qLkki~a~Vi 235 (1258)
T KOG1053|consen 160 QAQVMLKILEEYDWYNFSLVTTQFPGNRTFVSLIRQTNDNSH----VGWEMINVLTLDPSTDDLLAKLQAQLKKIQAPVI 235 (1258)
T ss_pred HHHHHHHHHHHcCcceeEEEEeecCchHHHHHHHHHhhhhcc----ccceeeeeeecCCCCCchHHHHHHHHHhcCCcEE
Confidence 999999999999999999999998888888888888877643 13344444444444444 4445557888889999
Q ss_pred EEEeChhhHHHHHHHHHhcCCcccceEEEeeccccc----cCCCCCeeEEEEecCCC-chhHHHHHHHHHHHHHHHHHhh
Q psy17441 182 LMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALT----AKNVPVGIIGLKLVNAT-NEDAHIRDSIYVLTSALKEMNQ 256 (458)
Q Consensus 182 il~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~----~~~~~~g~~g~~~~~~~-~~~~~~yDAv~~la~Al~~~~~ 256 (458)
+++|+.+++..|+..|.++|+++++|+||++..... ...++.|.+.++....+ ...+.+-|+|.++|.|...++.
T Consensus 236 llyC~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~~~~pa~~P~GLisv~~~~w~~~l~~rVrdgvaiva~aa~s~~~ 315 (1258)
T KOG1053|consen 236 LLYCSREEAERIFEEAEQAGLTGPGYVWIVPQLVEGLEPRPAEFPLGLISVSYDTWRYSLEARVRDGVAIVARAASSMLR 315 (1258)
T ss_pred EEEecHHHHHHHHHHHHhcCCcCCceEEEeehhccCCCCCCccCccceeeeeccchhhhHHHHHhhhHHHHHHHHHHHHh
Confidence 999999999999999999999999999999887765 33568999998866654 3567889999999999998775
Q ss_pred cC-cccCCCccc--------------------------------------------------------------------
Q psy17441 257 SA-VITEAPQDC-------------------------------------------------------------------- 267 (458)
Q Consensus 257 ~~-~~~~~~~~c-------------------------------------------------------------------- 267 (458)
.. .++++..+|
T Consensus 316 ~~~~lp~~~~~C~~~~~~~~~~~~~l~r~l~NvT~~g~~lsf~~~g~~v~p~lvvI~l~~~r~We~VG~We~~~L~M~y~ 395 (1258)
T KOG1053|consen 316 IHGFLPEPKMDCREQEETRLTSGETLHRFLANVTWDGRDLSFNEDGYLVHPNLVVIDLNRDRTWERVGSWENGTLVMKYP 395 (1258)
T ss_pred hcccCCCcccccccccCccccchhhhhhhhheeeecccceeecCCceeeccceEEEecCCCcchheeceecCCeEEEecc
Confidence 31 111111111
Q ss_pred --------------------------------------------------------------------------CC----
Q psy17441 268 --------------------------------------------------------------------------DN---- 269 (458)
Q Consensus 268 --------------------------------------------------------------------------~~---- 269 (458)
.|
T Consensus 396 vWPr~~~~~q~~~d~~HL~VvTLeE~PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkK 475 (1258)
T KOG1053|consen 396 VWPRYHKFLQPVPDKLHLTVVTLEERPFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKK 475 (1258)
T ss_pred ccccccCccCCCCCcceeEEEEeccCCeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHH
Confidence 11
Q ss_pred ---------------C-------CcccccC------------------------------------------CccCCCCc
Q psy17441 270 ---------------S-------GSIWETG------------------------------------------KPSRSSTL 285 (458)
Q Consensus 270 ---------------~-------~~~W~~g------------------------------------------~~~~~~~~ 285 (458)
+ ...|+|+ +..-..+.
T Consensus 476 lA~~v~FtYDLYlVtnGKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVDFSvPFveTgIsVmV~rsngtvsp 555 (1258)
T KOG1053|consen 476 LARDVKFTYDLYLVTNGKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVDFSVPFVETGISVMVARSNGTVSP 555 (1258)
T ss_pred HHhhcCcceEEEEecCCcccceecCcchhhHHHHHhhhhheeeeeeEechhhhccccccccccccceEEEEEecCCccCc
Confidence 0 0223333 11122356
Q ss_pred ceeeecCChhHHHHHHH-HHHHHHHHHHHHhhcCCCCCCCC-CCCCCccccccccchhHHHHHHHhhccCCCCCCCCchh
Q psy17441 286 VSFLQPFSNTLWILVMV-SVHVVALVLYLLDRFSPFGRFRL-SNSDNTEEDALNLSSAIWFAWGVLLNSGIGEGTPRSFS 363 (458)
Q Consensus 286 ~~fl~pf~~~vW~~i~~-~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~w~~~~~l~~~g~~~~~p~s~~ 363 (458)
-+||.||++.||++|++ +++++++.++++|++||+++++. .+...+.++.|+++.++|+.|+.+|+..+....||++.
T Consensus 556 sAFLePfs~svWVmmFVm~livaai~vFlFEy~SPvgyn~~l~~gkkpggp~FtigkaiwllwaLvFnnsVpv~nPKgtT 635 (1258)
T KOG1053|consen 556 SAFLEPFSPSVWVMMFVMCLIVAAITVFLFEYFSPVGYNRNLANGKKPGGPSFTIGKAIWLLWALVFNNSVPVENPKGTT 635 (1258)
T ss_pred hhhcCCcchHHHHHHHHHHHHHHHHHHHHHhhcCcccccccccCCCCCCCcceehhhHHHHHHHHHhCCCcCCCCCCchH
Confidence 79999999999999998 56677788889999999998643 34455688999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHhhcccceeEEeeeccCCCCCCChhhhhhcCCCCc---eEEEEeCCChHHHHHhhchhhHHHHHH
Q psy17441 364 ARVLGMVWAGFAMIIVASYTANLAAFLVLERPKTKLTGINDARLRNTMEN---LTCATVKGSAVDMYFRRQVELSNMYRT 440 (458)
Q Consensus 364 ~Ri~~~~w~~~~~i~~~~yta~l~s~lt~~~~~~~i~~~~dL~~~~~~~~---~~~g~~~~s~~~~~~~~~~~~~~~~~~ 440 (458)
+|||+.+|.||++|++++|||||||||..+++-.+++++.|-+++.+|++ +|+||+.+++++++.+++ |.+|+++
T Consensus 636 skiMv~VWAfFavifLAsYTANLAAfMIqE~~~d~vSGlsD~KfqrP~dq~PpFRFGTVpngSTE~niR~N--yp~MHeY 713 (1258)
T KOG1053|consen 636 SKIMVLVWAFFAVIFLASYTANLAAFMIQEEYYDTVSGLSDPKFQRPHDQYPPFRFGTVPNGSTERNIRSN--YPEMHEY 713 (1258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccccCcccccCccccCCCcccccCCCCchhhhHHhc--cHHHHHH
Confidence 99999999999999999999999999999999999999999999888665 899999999999999997 9999999
Q ss_pred HHHcCCCCHHHHHHHhhC
Q psy17441 441 MEANNYDTAEDAIADVKI 458 (458)
Q Consensus 441 ~~~~~~~~~~~gi~~v~~ 458 (458)
|++.++..++||++.||+
T Consensus 714 M~kyNq~~v~dal~sLK~ 731 (1258)
T KOG1053|consen 714 MVKYNQPGVEDALESLKN 731 (1258)
T ss_pred HHHhccCchHHHHHHHhc
Confidence 999999999999999884
No 4
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=100.00 E-value=2.8e-38 Score=315.17 Aligned_cols=274 Identities=53% Similarity=0.876 Sum_probs=232.7
Q ss_pred CcccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCC--chHHHHHhhcccCCcEEeee
Q psy17441 1 MFQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDL--SPAAVSYTSGFYHIPVIGIS 78 (458)
Q Consensus 1 ~v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~--~~~~~~~i~~~~~iP~Is~~ 78 (458)
++++||++.+++ ++.+|+.....-+.++.+.+..+|++|++++|+||||+++.+|.. .+.+++.+++.++||+|+++
T Consensus 38 Ai~~~N~~~~~~-~~~~l~~~~i~~~~~~~~~a~~~~~~Li~~~V~aii~~~~~ss~~~~~~~~v~~~~~~~~iP~Is~~ 116 (377)
T cd06379 38 AVNAANVERHGS-RKIKLNATTITHDPNPIQTALSVCEQLISNQVYAVIVSHPPTSNDHLTPTSVSYTAGFYRIPVVGIS 116 (377)
T ss_pred HHHHHhhhhcCC-cceeeccceEeecCChhhHHHHHHHHHhhcceEEEEEeCCCCCcccccHHHHHHHhhCCCCcEEecc
Confidence 368899766655 566665553333568888899999998888999998643433321 36678889999999999999
Q ss_pred cCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEE
Q psy17441 79 SRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIE 158 (458)
Q Consensus 79 a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~ 158 (458)
++++.++++..||++||+.|++..|+.++++++++|+|++|++||++++||++..+.+++.+++.|+++ .+++.....
T Consensus 117 a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~~--~~~v~~~~~ 194 (377)
T cd06379 117 TRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDHEGRAAQKRFETLLEEREIEF--KIKVEKVVE 194 (377)
T ss_pred cCCccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCcchhHHHHHHHHHHHhcCCcc--ceeeeEEEe
Confidence 999999888779999999999999999999999999999999999999999999999999999998543 236666666
Q ss_pred eCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCCCCCeeEEEEecCCCchhH
Q psy17441 159 FEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNVPVGIIGLKLVNATNEDA 238 (458)
Q Consensus 159 ~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~ 238 (458)
++.+..|+...++++|+.++|+|+++++.+++..++++|+++|+++++|+||.++.+.......+|++|+++..+..+++
T Consensus 195 ~~~~~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~~~~~wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~ 274 (377)
T cd06379 195 FEPGEKNVTSLLQEAKELTSRVILLSASEDDAAVIYRNAGMLNMTGEGYVWIVSEQAGAARNAPDGVLGLQLINGKNESS 274 (377)
T ss_pred cCCchhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHcCCCCCCEEEEEeccccccccCCCceEEEEECCCCCHHH
Confidence 77677899999999999999999999999999999999999999999999999999977777889999999998888999
Q ss_pred HHHHHHHHHHHHHHHHhhcCcccCCCcccCCCCcccccC
Q psy17441 239 HIRDSIYVLTSALKEMNQSAVITEAPQDCDNSGSIWETG 277 (458)
Q Consensus 239 ~~yDAv~~la~Al~~~~~~~~~~~~~~~c~~~~~~W~~g 277 (458)
++||||+++|+|++++.++.+.+.++..|......|..|
T Consensus 275 ~~yDAV~~~A~Al~~~~~~~~~~~~~~~c~~~~~~~~~g 313 (377)
T cd06379 275 HIRDAVAVLASAIQELFEKENITEPPRECVGNTVIWETG 313 (377)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCCCCCccccCCCCCCcch
Confidence 999999999999999988766677777897643235544
No 5
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=100.00 E-value=2.1e-36 Score=302.80 Aligned_cols=242 Identities=23% Similarity=0.257 Sum_probs=206.9
Q ss_pred CcccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-------------------CCeEEEEEeCCCCCCCchH
Q psy17441 1 MFQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-------------------ERVYAVIVSHPLTGDLSPA 61 (458)
Q Consensus 1 ~v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-------------------~~V~aiIG~~~~~s~~~~~ 61 (458)
++||||+++ +| ||++|+++..|+.+++..++..+ ..|++ ++|.|||| |.+|. .+.
T Consensus 44 AieeIN~~~-~L-pg~~L~~~i~Dt~~~~~~a~~~a-~~li~~~~~~~~~~~~~c~~~~~~~~V~aVIG--~~~S~-~s~ 117 (403)
T cd06361 44 AIEMINNST-LL-LGVTLGYEIYDTCSEVTTAMAAV-LRFLSKFNCSRSTVEFKCDYSQYVPRIKAVIG--AGYSE-ISM 117 (403)
T ss_pred HHHHHhCCC-CC-CCCEEceEEEeCCCChHHHHHHH-HHHHhhcccccccccccccCCCCCCCeEEEEC--CCcch-HHH
Confidence 378999555 66 99999999999988887665554 44443 48999999 88886 899
Q ss_pred HHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhh
Q psy17441 62 AVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQ 141 (458)
Q Consensus 62 ~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~ 141 (458)
+++++++.++||+||++++++.|+++.+||||||+.|+|..|++++++++++|||++|++|+++++||++..+.|++.++
T Consensus 118 ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~d~yG~~~~~~f~~~~~ 197 (403)
T cd06361 118 AVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITDDDYGRSALETFIIQAE 197 (403)
T ss_pred HHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEecCchHHHHHHHHHHHHH
Confidence 99999999999999999999999998889999999999999999999999999999999999999999999999999999
Q ss_pred ccCCcceeeEEEEEEEEeCCCc-------ccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecc
Q psy17441 142 NQEDDVEIKVQVEAVIEFEPGL-------TTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 142 ~~gi~v~~~~~v~~~~~~~~~~-------~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~ 214 (458)
+.| +|++..+.++.+. .++..+++.++++++|+|++.+...++..++++|+++|+ + ++||.+++
T Consensus 198 ~~G------icIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~-~--~~wigs~~ 268 (403)
T cd06361 198 ANG------VCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVVFARQFHVFLLFNKAIERNI-N--KVWIASDN 268 (403)
T ss_pred HCC------eEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEEEeChHHHHHHHHHHHHhCC-C--eEEEEECc
Confidence 988 5666666665422 345566666889999999999999999999999999999 3 99999999
Q ss_pred ccccC--------CCCCeeEEEEecCCCc----------hhHHHHHHHHHHHHHHHHHhhc
Q psy17441 215 ALTAK--------NVPVGIIGLKLVNATN----------EDAHIRDSIYVLTSALKEMNQS 257 (458)
Q Consensus 215 ~~~~~--------~~~~g~~g~~~~~~~~----------~~~~~yDAv~~la~Al~~~~~~ 257 (458)
|.+.. ....|++|+.+..... +...+||||+++|+||++++.+
T Consensus 269 w~~~~~~~~~~~~~~~~g~ig~~~~~~~~~~F~~~~~~~~~~~v~~AVyaiA~Al~~~~~~ 329 (403)
T cd06361 269 WSTAKKILTDPNVKKIGKVVGFTFKSGNISSFHQFLKNLLIHSIQLAVFALAHAIRDLCQE 329 (403)
T ss_pred ccCccccccCCcccccceEEEEEecCCccchHHHHHHHhhHHHHHHHHHHHHHHHHHhccC
Confidence 97632 2367999999877652 3457899999999999997654
No 6
>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=6.3e-36 Score=296.71 Aligned_cols=268 Identities=32% Similarity=0.528 Sum_probs=228.5
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCc---hHHHHHhhcccCCcEEeee
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLS---PAAVSYTSGFYHIPVIGIS 78 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~---~~~~~~i~~~~~iP~Is~~ 78 (458)
+..+|.+.. +.++.++++...|+.+++.+.+..+|+.+.+++|.+|+| |.+|+ . +.+++++++.++||+|+++
T Consensus 22 ~~~~~~~~~-~~~~~~~~l~~~d~~~d~~~~~~~~~~~l~~~~v~~iig--~~~s~-~~~~~~~~~~v~~~~~iP~Is~~ 97 (362)
T cd06367 22 VTAANFRHN-LPYNLSLEAVAVSNDTDPISLLLSVCDLLVVQVVAGVVF--SDPTD-EEAVAQILDFTSAQTRIPVVGIS 97 (362)
T ss_pred hhhcccccc-CCcccceEEEEEecCCCHHHHHHHHHHHhcccceEEEEe--cCCCC-ccchhhhhhhhhhhhcCcEEEee
Confidence 345565554 337999999999999999999999999997788999999 88875 6 8999999999999999999
Q ss_pred cCCCCC-CCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEE
Q psy17441 79 SRDSAF-SDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVI 157 (458)
Q Consensus 79 a~~~~l-s~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~ 157 (458)
++++.+ +++..||+|||+.|++..|++++++++++|||++|++||++++||++..+.+++.+++.|+|+ .+....
T Consensus 98 ~~~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w~~vaii~~~~~~g~~~~~~l~~~l~~~g~~~----~i~~~~ 173 (362)
T cd06367 98 GRESIFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDWHQFSVVTSRDPGYRDFLDRVETTLEESFVGW----EFQLVL 173 (362)
T ss_pred ccccccccCCCcccceEeecCcHHHHHHHHHHHHHHcCCeEEEEEEEcCcccHHHHHHHHHHHHhcccce----eeeeeE
Confidence 999988 888889999999999999999999999999999999999999999999999999999988552 133344
Q ss_pred EeCCCcc-cHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc----CCCCCeeEEEEecC
Q psy17441 158 EFEPGLT-TFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA----KNVPVGIIGLKLVN 232 (458)
Q Consensus 158 ~~~~~~~-d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~----~~~~~g~~g~~~~~ 232 (458)
.++.... ++...+.++++.++|+|+++|+.+++..++++|+++|+++++|+||+++.+... ..+..|++|+++..
T Consensus 174 ~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g~~~~~~~wI~~~~~~~~~~~~~~~~~G~~g~~~~~ 253 (362)
T cd06367 174 TLDLSDDDGDARLLRQLKKLESRVILLYCSKEEAERIFEAAASLGLTGPGYVWIVGELALGSGLAPEGLPVGLLGVGLDT 253 (362)
T ss_pred EeccCCCcchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHHcCCCCCCcEEEECcccccccCCccCCCCeeEEEEecc
Confidence 4444433 889999999999999999999999999999999999999999999999998642 23578999999988
Q ss_pred CCchhHHHHHHHHHHHHHHHHHhhcC-cccCCCcccCCCCc-ccccC
Q psy17441 233 ATNEDAHIRDSIYVLTSALKEMNQSA-VITEAPQDCDNSGS-IWETG 277 (458)
Q Consensus 233 ~~~~~~~~yDAv~~la~Al~~~~~~~-~~~~~~~~c~~~~~-~W~~g 277 (458)
+..+.+++||||+++|+|++++.+++ ..+.+..+|.+... .|..|
T Consensus 254 ~~~~~~~~~Dav~~~a~Al~~~~~~~~~~~~~~~~C~~~~~~~~~~g 300 (362)
T cd06367 254 WYSLEARVRDAVAIVARAAESLLRDKGALPEPPVNCYDTANKRESSG 300 (362)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCcCCCCCCCCCch
Confidence 77889999999999999999998863 34445567876431 25444
No 7
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=100.00 E-value=4.2e-36 Score=305.53 Aligned_cols=245 Identities=20% Similarity=0.321 Sum_probs=209.6
Q ss_pred CcccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHh------------------------hcCCeEEEEEeCCCCC
Q psy17441 1 MFQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFL------------------------ISERVYAVIVSHPLTG 56 (458)
Q Consensus 1 ~v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l------------------------~~~~V~aiIG~~~~~s 56 (458)
+|||||+++++| ||++|+++..|+.+++..+...+.+.+ .+++|+|||| |.+|
T Consensus 39 AIe~IN~~~~lL-p~~~Lg~~i~Dtc~~~~~a~~~~~~~i~~~~~~~~~~~~~C~~~~~~~~~~~~~~V~aVIG--~~~S 115 (458)
T cd06375 39 AIDRINNDPRIL-PGIKLGVHILDTCSRDTYALEQSLEFVRASLTKVDTSEYECPDGSYAVQENSPLAIAGVIG--GSYS 115 (458)
T ss_pred HHHHHhCCCCCC-CCceeccEEEecCCCcHHHHHHHHHHHhhhhhcccccccccccCCccccccCCCCeEEEEc--CCCc
Confidence 378999888777 999999998887777665554443222 1358999999 9888
Q ss_pred CCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHH
Q psy17441 57 DLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRF 136 (458)
Q Consensus 57 ~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l 136 (458)
. .+.+++++++.++||+|+++++++.|+++..||||||+.|++..|++++++++++|||++|++||++++||+...+.+
T Consensus 116 ~-~s~ava~~~~~~~IP~Is~~sts~~Ls~~~~~~~ffRt~psd~~qa~ai~~ll~~~~W~~Vaii~~~~~yG~~~~~~~ 194 (458)
T cd06375 116 S-VSIQVANLLRLFQIPQISYASTSAKLSDKSRYDYFARTVPPDFYQAKAMAEILRFFNWTYVSTVASEGDYGETGIEAF 194 (458)
T ss_pred h-HHHHHHHHhhhccccceeeccCChhhcccccCCCeEEecCCcHHHHHHHHHHHHHCCCeEEEEEEeCchHHHHHHHHH
Confidence 6 999999999999999999999999999988899999999999999999999999999999999999999999999999
Q ss_pred HHhhhccCCcceeeEEEEEEEEeCC--CcccHHHHHHHHHh-ccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 137 QTTSQNQEDDVEIKVQVEAVIEFEP--GLTTFKDQLYEMKN-AQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 137 ~~~l~~~gi~v~~~~~v~~~~~~~~--~~~d~~~~l~~ik~-~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
++.+++.| +|++....++. +..|+..+++++++ .++|+||+++...++..++++|+++|++ ++||.++
T Consensus 195 ~~~~~~~g------i~i~~~~~i~~~~~~~d~~~~l~~l~~~~~a~vVvl~~~~~~~~~ll~~a~~~g~~---~~wigs~ 265 (458)
T cd06375 195 EQEARLRN------ICIATSEKVGRSADRKSYDSVIRKLLQKPNARVVVLFTRSEDARELLAAAKRLNAS---FTWVASD 265 (458)
T ss_pred HHHHHHCC------eeEEEEEEecCCCCHHHHHHHHHHHhccCCCEEEEEecChHHHHHHHHHHHHcCCc---EEEEEec
Confidence 99999988 55555555543 55789999999875 7899999999999999999999999997 8999999
Q ss_pred cccccC-------CCCCeeEEEEecCCC----------------------------------------------------
Q psy17441 214 QALTAK-------NVPVGIIGLKLVNAT---------------------------------------------------- 234 (458)
Q Consensus 214 ~~~~~~-------~~~~g~~g~~~~~~~---------------------------------------------------- 234 (458)
+|.... ...+|++|+.+....
T Consensus 266 ~~~~~~~~~~~~~~~~~G~i~~~~~~~~i~~f~~yl~~l~p~~~~~n~w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~ 345 (458)
T cd06375 266 GWGAQESIVKGSEDVAEGAITIELASHPIPDFDRYFQSLTPETNTRNPWFKDFWEQKFQCSLQNRDCANTTTNDKERLLD 345 (458)
T ss_pred cccccchhhhccchhhceEEEEEeccccchhHHHHHHhCCcCcCCCCcHHHHHHHHHcCCCCCCCCccCCCCCchhcccc
Confidence 986432 247899999887532
Q ss_pred -------chhHHHHHHHHHHHHHHHHHhhcC
Q psy17441 235 -------NEDAHIRDSIYVLTSALKEMNQSA 258 (458)
Q Consensus 235 -------~~~~~~yDAv~~la~Al~~~~~~~ 258 (458)
..+.++||||+++||||++|++|+
T Consensus 346 ~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~ 376 (458)
T cd06375 346 KVNYEQESKIMFVVNAVYAMAHALHNMQRDL 376 (458)
T ss_pred cCcccccchHHHHHHHHHHHHHHHHHHHHhc
Confidence 136789999999999999999754
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=4.4e-36 Score=306.45 Aligned_cols=249 Identities=18% Similarity=0.211 Sum_probs=209.8
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhh-------------cCCeEEEEEeCCCCCCCchHHHHHhhc
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLI-------------SERVYAVIVSHPLTGDLSPAAVSYTSG 68 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~-------------~~~V~aiIG~~~~~s~~~~~~~~~i~~ 68 (458)
+|+||+++.+| ||++|++...|..+++..++..+.+.+. .++|+|+|| |.+|. .+.+++++++
T Consensus 49 i~~IN~~~~lL-p~~~Lg~~i~dtc~~~~~a~~~~~~~~~~~~~~~~~~~C~~~~~vvavIG--~~~S~-~s~~va~i~~ 124 (469)
T cd06365 49 IEEINKNPHLL-PNISLGFHIYNVLHSDRKALESSLMWLSGEGETIPNYSCRRQRKSVAVIG--GPSWA-LSATIATLLG 124 (469)
T ss_pred HHHHhCCCCCC-CCceEEEEEECCCCccHHHHHHHHHHHhCCCcccCCccCCCCCceEEEEc--CCccH-HHHHHHHHhh
Confidence 68999888877 9999999988888777666665555442 257999999 88886 8999999999
Q ss_pred ccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcce
Q psy17441 69 FYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVE 148 (458)
Q Consensus 69 ~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~ 148 (458)
.++||+|+++++++.++++..||||||+.|++..|+.++++++++|+|++|++|+.+++||+...+.|.+++++.|
T Consensus 125 ~~~IP~Is~~sts~~lsd~~~yp~ffRt~psd~~q~~ai~~li~~f~W~~Vaiv~~d~~yg~~~~~~~~~~~~~~g---- 200 (469)
T cd06365 125 LYKFPQLTYGPFDPLLSDRVQFPSLYQMAPKDTSLPLGMVSLMLHFSWTWVGLVISDDDRGEQFLSDLREEMQRNG---- 200 (469)
T ss_pred hhcccceeeccCCccccchhhCCcceEecCCchhHHHHHHHHHHhcCCeEEEEEEecChhHHHHHHHHHHHHHHCC----
Confidence 9999999999999999998889999999999999999999999999999999999999999999999999999988
Q ss_pred eeEEEEEEEEeCCCc----ccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC-----
Q psy17441 149 IKVQVEAVIEFEPGL----TTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK----- 219 (458)
Q Consensus 149 ~~~~v~~~~~~~~~~----~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~----- 219 (458)
+|++....++... .++...+++++++++|+||++++.+++..++.++.+.+..+ ++||.+++|....
T Consensus 201 --i~I~~~~~i~~~~~~~~~~~~~~l~~i~~~~arvIvl~~~~~~~~~l~~~~~~~~~~~--~~wi~s~~w~~~~~~~~~ 276 (469)
T cd06365 201 --ICLAFVEKIPVNMQLYLTRAEKYYNQIMTSSAKVIIIYGDTDSLLEVSFRLWQYLLIG--KVWITTSQWDVTTSPKDF 276 (469)
T ss_pred --eEEEEEEEecCCchhhHHHHHHHHHHhhcCCCeEEEEEcCcHHHHHHHHHHHHhccCc--eEEEeecccccccccccc
Confidence 5556555555432 37788999999999999999999988877777666666554 9999999985432
Q ss_pred --CCCCeeEEEEecCCC---------------------------------------------------------------
Q psy17441 220 --NVPVGIIGLKLVNAT--------------------------------------------------------------- 234 (458)
Q Consensus 220 --~~~~g~~g~~~~~~~--------------------------------------------------------------- 234 (458)
+..+|++|+.+..++
T Consensus 277 ~~~~~~G~lg~~~~~~~~~~f~~fl~~l~~~~~~~npw~~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~ 356 (469)
T cd06365 277 TLNSFHGTLIFSHHHSEIPGFKDFLQTVNPSKYPEDIFLEKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAM 356 (469)
T ss_pred ccceeeEEEEEEeccCcCcchHHHhhccCcccCCCccHHHhhHhHhcCcccCcCCccccCCCCCCccccccccccccchh
Confidence 248999999877542
Q ss_pred -chhHHHHHHHHHHHHHHHHHhhcCcccC
Q psy17441 235 -NEDAHIRDSIYVLTSALKEMNQSAVITE 262 (458)
Q Consensus 235 -~~~~~~yDAv~~la~Al~~~~~~~~~~~ 262 (458)
..+.++||||+++||||+++++|+...+
T Consensus 357 ~~~~~~v~dAVya~AhALh~~l~c~~~~~ 385 (469)
T cd06365 357 SEESYNVYNAVYAVAHALHEMLLQQVETQ 385 (469)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHhhccCC
Confidence 0146799999999999999999865333
No 9
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=100.00 E-value=9.2e-35 Score=297.71 Aligned_cols=248 Identities=19% Similarity=0.283 Sum_probs=206.6
Q ss_pred CcccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhh-------------------------cCCeEEEEEeCCCC
Q psy17441 1 MFQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLI-------------------------SERVYAVIVSHPLT 55 (458)
Q Consensus 1 ~v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~-------------------------~~~V~aiIG~~~~~ 55 (458)
++|+||+++++| ||++|+|+..|+.+++..++..+.+.+. +++|.|||| |.+
T Consensus 50 Aie~IN~~~~lL-p~~~Lg~~i~Dtc~~~~~a~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiG--p~~ 126 (472)
T cd06374 50 TLDRINADPVLL-PNITLGCEIRDSCWHSSVALEQSIEFIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIG--PGS 126 (472)
T ss_pred HHHHHhCCcccC-CCceeccEEEEcCCCchHHHHHHHHHHhhcccccccccccccccCCCcccccCCCCeEEEEC--CCc
Confidence 378999888777 9999999988777677666655544442 348999999 999
Q ss_pred CCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHH
Q psy17441 56 GDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGR 135 (458)
Q Consensus 56 s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~ 135 (458)
|. ++.+++++++.++||+|+++++++.++++..||||||+.|++..++.++++++++|+|++|++||++++||+...+.
T Consensus 127 S~-~~~ava~~~~~~~iP~Is~~ats~~ls~~~~~p~~fRt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg~~~~~~ 205 (472)
T cd06374 127 SS-VAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYFLRVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYGESGMEA 205 (472)
T ss_pred ch-HHHHHHHHhhhhcccccccccCchhhcccccCCceEEcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHHHHHHHH
Confidence 96 99999999999999999999999999998889999999999999999999999999999999999999999999999
Q ss_pred HHHhhhccCCcceeeEEEEEEEEe--CCCcccHHHHHHHHHhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEe
Q psy17441 136 FQTTSQNQEDDVEIKVQVEAVIEF--EPGLTTFKDQLYEMKNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIV 211 (458)
Q Consensus 136 l~~~l~~~gi~v~~~~~v~~~~~~--~~~~~d~~~~l~~ik~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~ 211 (458)
+++.+++.| +|++....+ .....|+..++++||+. ++++|++++...+++.++++++++|++ ++++||.
T Consensus 206 ~~~~~~~~g------i~i~~~~~i~~~~~~~d~~~~l~~lk~~~~da~vvv~~~~~~~~~~~l~~a~~~g~~-~~~~wi~ 278 (472)
T cd06374 206 FKELAAHEG------LCIAHSDKIYSNAGEQSFDRLLRKLRSRLPKARVVVCFCEGMTVRGLLMAMRRLGVG-GEFQLIG 278 (472)
T ss_pred HHHHHHHCC------eeEEEEEEecCCCchHHHHHHHHHHHhcCCCcEEEEEEechHHHHHHHHHHHHhcCC-CceEEEE
Confidence 999999988 555555544 33567899999999975 466777778888899999999999997 4589999
Q ss_pred eccccccC-------CCCCeeEEEEecCCC--------------------------------------------------
Q psy17441 212 TEQALTAK-------NVPVGIIGLKLVNAT-------------------------------------------------- 234 (458)
Q Consensus 212 t~~~~~~~-------~~~~g~~g~~~~~~~-------------------------------------------------- 234 (458)
+++|.+.. ...+|.+++.+..+.
T Consensus 279 s~~~~~~~~~~~~~~~~~~G~l~~~~~~~~~~~F~~~l~~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~ 358 (472)
T cd06374 279 SDGWADRDDVVEGYEEEAEGGITIKLQSPEVPSFDDYYLKLRPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTG 358 (472)
T ss_pred ecccccchHhhhcchhhhheeEEEEecCCCCccHHHHHHhCCcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCC
Confidence 99987632 236888888555221
Q ss_pred -----------chhHHHHHHHHHHHHHHHHHhhcCc
Q psy17441 235 -----------NEDAHIRDSIYVLTSALKEMNQSAV 259 (458)
Q Consensus 235 -----------~~~~~~yDAv~~la~Al~~~~~~~~ 259 (458)
.+++++|||||++|+||++++++..
T Consensus 359 ~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~ 394 (472)
T cd06374 359 NESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLC 394 (472)
T ss_pred cccccccccccceeHHHHHHHHHHHHHHHHHHHhhC
Confidence 1235899999999999999987653
No 10
>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=1.4e-34 Score=295.83 Aligned_cols=258 Identities=22% Similarity=0.320 Sum_probs=209.8
Q ss_pred CcccccccccccccceEEEEeeeeeCCCHH---HHHHHHHHHhh-------------------cCCeEEEEEeCCCCCCC
Q psy17441 1 MFQHINFDIQYVNKGVTFSATGIQMDPNPI---LTALSVCKFLI-------------------SERVYAVIVSHPLTGDL 58 (458)
Q Consensus 1 ~v~eIN~~~~~l~~~~~l~~~~~~~~~~~~---~~~~~~~~~l~-------------------~~~V~aiIG~~~~~s~~ 58 (458)
++|+||+++++| ||++|++...|+.+++. +.+..+++.++ +++|+|||| |.+|.
T Consensus 39 Aie~IN~~~~iL-pg~~L~~~i~D~~~~~~~~~~~a~~~~~~l~~~~~~~~~C~~~~~~~~~~~~~V~aviG--~~~S~- 114 (463)
T cd06376 39 ALDQINSDPDLL-PNVTLGARILDTCSRDTYALEQSLTFVQALIQKDTSDVRCTNGEPPVFVKPEKVVGVIG--ASASS- 114 (463)
T ss_pred HHHHhhCCCCCC-CCceEccEEEeccCCcHHHHHHHHHHHhhhhhcccccCcCCCCCccccCCCCCeEEEEC--CCCch-
Confidence 378999877777 99999999777665543 33444444433 258999999 99996
Q ss_pred chHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHH
Q psy17441 59 SPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQT 138 (458)
Q Consensus 59 ~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~ 138 (458)
++.+++++++.++||+|+++++++.++++..||||||+.|++..++.++++++++|+|++|++||++++||....+.+.+
T Consensus 115 ~t~ava~i~~~~~iP~Is~~ats~~ls~~~~~~~ffR~~p~d~~~~~ai~~~i~~~~w~~Vaii~~~~~yg~~~~~~~~~ 194 (463)
T cd06376 115 VSIMVANILRLFQIPQISYASTAPELSDDRRYDFFSRVVPPDSFQAQAMVDIVKALGWNYVSTLASEGNYGESGVEAFTQ 194 (463)
T ss_pred HHHHHHHHhccccCcccccccCChhhcccccCCceEEccCCHHHHHHHHHHHHHHcCCeEEEEEEeCChHHHHHHHHHHH
Confidence 99999999999999999999999999988889999999999999999999999999999999999999999999999999
Q ss_pred hhhccCCcceeeEEEEEEEE--eCCCcccHHHHHHHHHh-ccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccc
Q psy17441 139 TSQNQEDDVEIKVQVEAVIE--FEPGLTTFKDQLYEMKN-AQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQA 215 (458)
Q Consensus 139 ~l~~~gi~v~~~~~v~~~~~--~~~~~~d~~~~l~~ik~-~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~ 215 (458)
.+++.| ++|+..... ...+..|+..++++||+ +++|+|++.++..++..++++|+++|+++ .++||.++.|
T Consensus 195 ~~~~~g-----~~~v~~~~~i~~~~~~~d~~~~l~~ik~~~~~~vIvl~~~~~~~~~ll~~a~~~~~~g-~~~wig~d~~ 268 (463)
T cd06376 195 ISREAG-----GVCIAQSIKIPREPRPGEFDKIIKRLLETPNARAVIIFANEDDIRRVLEAAKRANQVG-HFLWVGSDSW 268 (463)
T ss_pred HHHHcC-----CceEEEEEecCCCCCHHHHHHHHHHHhccCCCeEEEEecChHHHHHHHHHHHhcCCcC-ceEEEEeccc
Confidence 998865 244444333 23456789999999987 79999999999999999999999999986 5999999998
Q ss_pred cccC-------CCCCeeEEEEecCCC------------------------------------------------------
Q psy17441 216 LTAK-------NVPVGIIGLKLVNAT------------------------------------------------------ 234 (458)
Q Consensus 216 ~~~~-------~~~~g~~g~~~~~~~------------------------------------------------------ 234 (458)
.... ....|.+|+.+....
T Consensus 269 ~~~~~~~~~~~~~~~G~~~~~~~~~~~~~F~~~~~~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~ 348 (463)
T cd06376 269 GAKISPILQQEDVAEGAITILPKRASIEGFDAYFTSRTLENNRRNVWFAEFWEENFNCKLTISGSKKEDTDRKCTGQERI 348 (463)
T ss_pred cccccccccCcceeeeEEEEEeccccchhHHHHHHhCCcccCCCCcHHHHHHHHhCCCcccCCCCccccccCcCcchhhc
Confidence 5432 347888888554221
Q ss_pred ---------chhHHHHHHHHHHHHHHHHHhhcCcccCCCcccCC
Q psy17441 235 ---------NEDAHIRDSIYVLTSALKEMNQSAVITEAPQDCDN 269 (458)
Q Consensus 235 ---------~~~~~~yDAv~~la~Al~~~~~~~~~~~~~~~c~~ 269 (458)
..++++|||||++|+||++++++++ ..+...|..
T Consensus 349 ~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c-~~~~~~C~~ 391 (463)
T cd06376 349 GRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLC-PGYTGVCPE 391 (463)
T ss_pred cccCcccccchhHHHHHHHHHHHHHHHHHHHhhC-CCCCCCCcc
Confidence 0356899999999999999997654 233345743
No 11
>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=7.2e-34 Score=292.28 Aligned_cols=219 Identities=21% Similarity=0.315 Sum_probs=185.1
Q ss_pred CcccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc------------------CCeEEEEEeCCCCCCCchHH
Q psy17441 1 MFQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS------------------ERVYAVIVSHPLTGDLSPAA 62 (458)
Q Consensus 1 ~v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~------------------~~V~aiIG~~~~~s~~~~~~ 62 (458)
++||||+++++| ||++|++...|+..++..++..+.+.+.. .+|.|||| |.+|. ++.+
T Consensus 58 AieeIN~~~~lL-p~i~Lg~~i~Dtc~~~~~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG--~~sS~-~s~a 133 (510)
T cd06364 58 AIEEINNSPTLL-PNITLGYRIFDTCNTVSKALEATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVG--ATGSG-VSTA 133 (510)
T ss_pred HHHHHhCCCccC-CCCEEeEEEEccCCchHHHHHHHHHHHhcccccccccccccccCCCCCceEEEEC--CCchh-HHHH
Confidence 378999888777 99999999888877765555543332222 24679999 98886 9999
Q ss_pred HHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhc
Q psy17441 63 VSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQN 142 (458)
Q Consensus 63 ~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~ 142 (458)
++++++.++||+|+++++++.++++..||+|||+.|++..|+.++++++++|||++|++|+.|++||+...+.|++.+++
T Consensus 134 va~~~~~~~IP~IS~~sss~~ls~~~~yp~ffRt~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~~~~~~~~~~~~~ 213 (510)
T cd06364 134 VANLLGLFYIPQVSYASSSRLLSNKNQFKSFLRTIPNDEHQATAMADIIEYFRWNWVGTIAADDDYGRPGIEKFREEAEE 213 (510)
T ss_pred HHHHhccccccccccccCCcccCCccccCCeeEcCCChHHHHHHHHHHHHHcCCeEEEEEEecCcchHHHHHHHHHHHHH
Confidence 99999999999999999999999988899999999999999999999999999999999999999999999999999999
Q ss_pred cCCcceeeEEEEEEEEeCC--CcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC-
Q psy17441 143 QEDDVEIKVQVEAVIEFEP--GLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK- 219 (458)
Q Consensus 143 ~gi~v~~~~~v~~~~~~~~--~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~- 219 (458)
.| +|++....++. +..|+.+++++++++++|+||+.+...++..++++|+++|+++ ++||.++.|....
T Consensus 214 ~G------i~I~~~~~i~~~~~~~d~~~~l~klk~~~a~vVvl~~~~~~~~~ll~qa~~~g~~~--~iwI~s~~w~~~~~ 285 (510)
T cd06364 214 RD------ICIDFSELISQYSDEEEIQRVVEVIQNSTAKVIVVFSSGPDLEPLIKEIVRRNITG--KIWLASEAWASSSL 285 (510)
T ss_pred CC------cEEEEEEEeCCCCCHHHHHHHHHHHHhcCCeEEEEEeCcHHHHHHHHHHHHhCCCC--cEEEEEchhhcccc
Confidence 88 44554444443 5678999999999999999999999999999999999999986 8999998876432
Q ss_pred -------CCCCeeEEEEec
Q psy17441 220 -------NVPVGIIGLKLV 231 (458)
Q Consensus 220 -------~~~~g~~g~~~~ 231 (458)
....|++|+.+.
T Consensus 286 ~~~~~~~~~~gg~lg~~~~ 304 (510)
T cd06364 286 IAMPEYFDVMGGTIGFALK 304 (510)
T ss_pred cccCCccceeeEEEEEEEC
Confidence 235666666554
No 12
>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=8.3e-34 Score=289.79 Aligned_cols=247 Identities=22% Similarity=0.334 Sum_probs=205.8
Q ss_pred CcccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhh----------------------cCCeEEEEEeCCCCCCC
Q psy17441 1 MFQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLI----------------------SERVYAVIVSHPLTGDL 58 (458)
Q Consensus 1 ~v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~----------------------~~~V~aiIG~~~~~s~~ 58 (458)
++|+||+++++| ||++|++...|+..++..++..+.+.+. +++|.|||| |.+|.
T Consensus 39 Aie~IN~~~~iL-pg~~L~~~i~D~~~~~~~a~~~a~~li~~~~~~~~~~~~~~~~~~~~~~~~~~v~aviG--~~~S~- 114 (452)
T cd06362 39 ALDEINNDPTLL-PGITLGAHILDTCSRDTYALEQSLEFVRASLTKIDDCVYCDGGSPPPNNSPKPVAGVIG--ASYSS- 114 (452)
T ss_pred HHHHhhCCCCCC-CCCeeCcEEEEeCCCchHHHHHHHHHHhhhhhcCCccccccCCCcccccCCCCeEEEEC--CCCCc-
Confidence 378999777776 9999999988887777555544433221 258999999 99996
Q ss_pred chHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHH
Q psy17441 59 SPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQT 138 (458)
Q Consensus 59 ~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~ 138 (458)
++.+++++++.++||+|+++++++.++++..||+|||+.|++..++.++++++++|+|++|++|+++++||....+.+.+
T Consensus 115 ~~~av~~~~~~~~ip~Is~~sts~~ls~~~~~~~~fR~~p~d~~~~~a~~~~l~~~~w~~vaii~~~~~~G~~~~~~~~~ 194 (452)
T cd06362 115 VSIQVANLLRLFKIPQISYASTSPELSDKTRYDYFSRTVPPDSFQAQAMVDIVKAFNWTYVSTVASEGNYGEKGIEAFEK 194 (452)
T ss_pred hHHHHHHHhccccCcccccccCchhhccccccCCEEEecCChHHHHHHHHHHHHHCCCcEEEEEEeCCHHHHHHHHHHHH
Confidence 99999999999999999999999999988889999999999999999999999999999999999999999999999999
Q ss_pred hhhccCCcceeeEEEEEEEEeCC--CcccHHHHHHHHHh-ccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccc
Q psy17441 139 TSQNQEDDVEIKVQVEAVIEFEP--GLTTFKDQLYEMKN-AQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQA 215 (458)
Q Consensus 139 ~l~~~gi~v~~~~~v~~~~~~~~--~~~d~~~~l~~ik~-~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~ 215 (458)
.+++.| +|++....++. +..|+..++++|++ .++|+|++.+...++..++++|+++|++ ++++||.++.|
T Consensus 195 ~~~~~g------i~i~~~~~~~~~~~~~d~~~~l~~l~~~~~a~viil~~~~~~~~~~~~~a~~~g~~-~~~~~i~~~~~ 267 (452)
T cd06362 195 LAAERG------ICIAGSEKIPSSATEEEFDNIIRKLLSKPNARVVVLFCREDDIRGLLAAAKRLNAE-GHFQWIASDGW 267 (452)
T ss_pred HHHHCC------eeEEEEEEcCCCCCHHHHHHHHHHHhhcCCCeEEEEEcChHHHHHHHHHHHHcCCc-CceEEEEeccc
Confidence 999988 55555555543 56799999999987 5799999999999999999999999998 45899999988
Q ss_pred cccC-------CCCCeeEEEEecCCC------------------------------------------------------
Q psy17441 216 LTAK-------NVPVGIIGLKLVNAT------------------------------------------------------ 234 (458)
Q Consensus 216 ~~~~-------~~~~g~~g~~~~~~~------------------------------------------------------ 234 (458)
.... ...+|++++.+....
T Consensus 268 ~~~~~~~~~~~~~~~g~~~~~~~~~~i~~f~~~l~~l~~~~~~~~~~~~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~ 347 (452)
T cd06362 268 GARNSVVEGLEDVAEGAITIELQSAEVPGFDEYFLSLTPENNSRNPWFREFWEQKFNCKLTGNGSTKDNTCCTERILLLS 347 (452)
T ss_pred cccchhhcccccccceEEEEEecccccccHHHHhhhCCcCcCCCChHHHHHHHHhcCCCcCCCCccccCCCCcccccccc
Confidence 6532 235666544333211
Q ss_pred -----chhHHHHHHHHHHHHHHHHHhhcC
Q psy17441 235 -----NEDAHIRDSIYVLTSALKEMNQSA 258 (458)
Q Consensus 235 -----~~~~~~yDAv~~la~Al~~~~~~~ 258 (458)
.+++++|||||++|+||+++++++
T Consensus 348 ~~~~~~~~~~vyDAV~a~A~AL~~~l~~~ 376 (452)
T cd06362 348 NYEQESKVQFVIDAVYAMAHALHNMHRDL 376 (452)
T ss_pred ccccccchhHHHHHHHHHHHHHHHHHHhh
Confidence 146789999999999999999764
No 13
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=100.00 E-value=2.8e-34 Score=286.86 Aligned_cols=245 Identities=16% Similarity=0.209 Sum_probs=205.0
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRD 81 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~ 81 (458)
+|+||++++++ +|++|+++..|++|++ ..+..+.+.+.+++|.|||| |.||. ++.+++++++.++||+|++++++
T Consensus 27 ie~IN~~~~ll-~g~~l~~~~~d~~~~~-~~~~~~~~~l~~~~v~aiiG--p~~s~-~~~~va~ia~~~~iP~Is~~a~~ 101 (387)
T cd06386 27 QRRLEANRLLF-PGFRFNVHYEDSDCGN-EALFSLVDRSCARKPDLILG--PVCEY-AAAPVARLASHWNIPMISAGALA 101 (387)
T ss_pred HHHHhcCCCCC-CCcEEEEEEeCCcCCc-hHHHHHHHHHHhhCCCEEEC--CCCcc-HHHHHHHHHHhCCCcEEccccCc
Confidence 68999777766 8999999988888876 34555566665679999999 99996 99999999999999999999999
Q ss_pred CCCCC-CccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHH---HHHHHHhhhccCCcceeeEEEEEEE
Q psy17441 82 SAFSD-KNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRAL---LGRFQTTSQNQEDDVEIKVQVEAVI 157 (458)
Q Consensus 82 ~~ls~-~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~---~~~l~~~l~~~gi~v~~~~~v~~~~ 157 (458)
+.+++ +..||+++|+.|++..++.++++++++|+|++|++||++++||+.. .+.+.+.+++.|++ +....
T Consensus 102 ~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy~~~~~~~~~~~~~~~l~~~~~~~gi~------v~~~~ 175 (387)
T cd06386 102 AGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVYEDDKQERNCYFTLEGVHHVFQEEGYH------MSIYP 175 (387)
T ss_pred hhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEEEcCCCCccceehHHHHHHHHHhcCce------EEEEe
Confidence 99987 6679999999999999999999999999999999999999998876 88999999998844 33333
Q ss_pred EeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccc------------ccC------
Q psy17441 158 EFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQAL------------TAK------ 219 (458)
Q Consensus 158 ~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~------------~~~------ 219 (458)
..+.+..++..+++++++.+ |+||++++.++++.++++|+++||++++|+||..+... +..
T Consensus 176 ~~~~~~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm~~~~yv~i~~d~~~~~~~~~~~w~~~~~~~~~~~~ 254 (387)
T cd06386 176 FDETKDLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGLTSGDYIFFNIELFNSSSYGDGSWKRGDKHDFEAKQ 254 (387)
T ss_pred cCCCCcccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCCEEEEEEecccccccCCCCCccCCCcCHHHHH
Confidence 34445679999999999987 99999999999999999999999999999999997653 001
Q ss_pred --CCCCeeEEEEecCCC-------------------------chhHHHHHHHHHHHHHHHHHhhcC
Q psy17441 220 --NVPVGIIGLKLVNAT-------------------------NEDAHIRDSIYVLTSALKEMNQSA 258 (458)
Q Consensus 220 --~~~~g~~g~~~~~~~-------------------------~~~~~~yDAv~~la~Al~~~~~~~ 258 (458)
...+|+.+++++.++ .+++++||||+++|+||+++++.+
T Consensus 255 a~~~~~~v~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~~yDav~l~A~Al~~~~~~g 320 (387)
T cd06386 255 AYSSLNTVTLLRTVKPEFEKFSMEVKSSVEKAGDLNDCDYVNMFVEGFHDAILLYALALHEVLKNG 320 (387)
T ss_pred HHHhheEEeccCCCChHHHHHHHHHHHHHHhCCCCcccccchHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 125566666655332 247899999999999999987644
No 14
>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=1e-31 Score=265.42 Aligned_cols=259 Identities=15% Similarity=0.248 Sum_probs=201.5
Q ss_pred cccccccccccccceEEEEee-eeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeec-
Q psy17441 2 FQHINFDIQYVNKGVTFSATG-IQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISS- 79 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~-~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a- 79 (458)
++.+|.++..+ ++.+|.++. .++.+++++++.++|+++ ++||+|||| |.++. ++..++++|+.++||+|++++
T Consensus 21 v~~~N~~~~~l-~~~~L~~~~~~~~~~d~F~~~~~ac~l~-~~gV~AI~G--p~s~~-~a~~v~sic~~l~VP~is~~~~ 95 (400)
T cd06392 21 VSDLSLNDDIL-QSEKITYSIKSIEANNPFQAVQEACDLM-TQGILALVT--STGCA-SANALQSLTDAMHIPHLFVQRN 95 (400)
T ss_pred HHHhccCcccc-CCceEEEEEEecCCCChhHHHHHHHHHH-hcCeEEEEC--CCchh-HHHHHHHHhccCcCCcEeeccc
Confidence 67899777777 999999985 888999999999999977 999999999 98885 999999999999999999865
Q ss_pred ----------CCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCccee
Q psy17441 80 ----------RDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEI 149 (458)
Q Consensus 80 ----------~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~ 149 (458)
++|.++ ..+|| +.+.|+ ..+..|+++++.+|+|++|++|| |++||...++.|.+.+.+.+
T Consensus 96 ~~~~~~~~~~~~p~~~-~~~~~--~~lrp~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~gl~~lq~L~~~~~~~~----- 165 (400)
T cd06392 96 SGGSPRTACHLNPSPE-GEEYT--LAARPP-VRLNDVMLKLVTELRWQKFIVFY-DSEYDIRGLQSFLDQASRLG----- 165 (400)
T ss_pred ccccccccccCCCCcC-cCcee--EEecCc-hHHHHHHHHHHHhCCCcEEEEEE-ECcccHHHHHHHHHHHhhcC-----
Confidence 233332 23344 555565 57788999999999999999999 67799999999999998876
Q ss_pred eEEEEEEEEeCCC-cccHHHHHHHHHhcc-------CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCCC
Q psy17441 150 KVQVEAVIEFEPG-LTTFKDQLYEMKNAQ-------ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNV 221 (458)
Q Consensus 150 ~~~v~~~~~~~~~-~~d~~~~l~~ik~~~-------~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~ 221 (458)
..+.. ..++.+ +.++.+.++.++... -++||++|+++.+..++++|.++||++++|+||+|++...+.++
T Consensus 166 -~~I~~-~~v~~~~~~~~~~~l~~~~~~~L~~~~~~~r~iVv~~s~~~~~~il~qA~~lgM~~~~y~wI~t~~~~~~~dl 243 (400)
T cd06392 166 -LDVSL-QKVDRNISRVFTNLFTTMKTEELNRYRDTLRRAILLLSPRGAQTFINEAVETNLASKDSHWVFVNEEISDTEI 243 (400)
T ss_pred -ceEEE-EEcccCcchhhhhHHHHHHHhhhhhccccceEEEEEcCcHHHHHHHHHHHHhCcccCCeEEEEecCCcccccH
Confidence 23322 222221 224666666655544 58999999999999999999999999999999999998766543
Q ss_pred ---CC----eeEEEEecCCC-------------------------------chhHHHHHHHHHHHHHHHHHhhc-CcccC
Q psy17441 222 ---PV----GIIGLKLVNAT-------------------------------NEDAHIRDSIYVLTSALKEMNQS-AVITE 262 (458)
Q Consensus 222 ---~~----g~~g~~~~~~~-------------------------------~~~~~~yDAv~~la~Al~~~~~~-~~~~~ 262 (458)
.+ ++.|++.+.+. .+++++|||||++|+|+++++++ ..+..
T Consensus 244 ~~~~~g~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~l~~~aalayDaV~~~A~Al~~ll~~~~~~~~ 323 (400)
T cd06392 244 LELVHSALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLCDPQEGYLQMLQVSNLYLYDSVLMLANAFHRKLEDRKWHSM 323 (400)
T ss_pred HHHhcccccceeeEEEecCCcHHHHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHHHHHHHHHHHHhhccccCCC
Confidence 33 44558876332 14699999999999999997654 33444
Q ss_pred CCcccCC-CCcccccC
Q psy17441 263 APQDCDN-SGSIWETG 277 (458)
Q Consensus 263 ~~~~c~~-~~~~W~~g 277 (458)
...+|.. ...+|++|
T Consensus 324 ~~l~C~~~~~~~w~~G 339 (400)
T cd06392 324 ASLNCIRKSTKPWNGG 339 (400)
T ss_pred CCCccCCCCCCCCCCh
Confidence 4578964 34679998
No 15
>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=1.1e-31 Score=270.51 Aligned_cols=243 Identities=25% Similarity=0.308 Sum_probs=203.7
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhh----------------cCCeEEEEEeCCCCCCCchHHHHH
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLI----------------SERVYAVIVSHPLTGDLSPAAVSY 65 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~----------------~~~V~aiIG~~~~~s~~~~~~~~~ 65 (458)
+|+||+++|++ +|++|+++..|+ +++..+... .++|+ +++|.|||| |.+|. .+.++++
T Consensus 52 v~~IN~~ggil-~g~~l~~~~~D~-~~~~~a~~~-~~~li~~~~~~~~~~c~~~~~~~~V~aIiG--p~~S~-~~~av~~ 125 (410)
T cd06363 52 VEEINNSTSLL-PGVTLGYEIFDH-CSDSANFPP-TLSLLSVNGSRIEPQCNYTNYQPRVVAVIG--PDSST-LALTVAP 125 (410)
T ss_pred HHHHhCCCccC-CCCeeceEEEec-CCcHHHHHH-HHHHHhccCcccCcccccccCCCCeEEEEC--CCccH-HHHHHHH
Confidence 68999778777 899999998766 445443433 44443 379999999 99996 9999999
Q ss_pred hhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCC
Q psy17441 66 TSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQED 145 (458)
Q Consensus 66 i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi 145 (458)
+++.++||+|+++++++.++++..||++||+.|++..++.++++++++++|++|++++++++||....+.+++.+++.|
T Consensus 126 i~~~~~vp~is~~~~~~~lt~~~~~~~~fr~~~~~~~~~~al~~~l~~~~~k~vaii~~~~~~g~~~~~~~~~~l~~~g- 204 (410)
T cd06363 126 LFSFFLIPQISYGASSEVLSNKELYPSFLRTVPSDKDQIEAMVQLLQEFGWNWVAFLGSDDEYGRDGLQLFSELIANTG- 204 (410)
T ss_pred HhcccccccccccccCccccccccCCCeeEecCCcHHHHHHHHHHHHHCCCcEEEEEEeCChhHHHHHHHHHHHHHHCC-
Confidence 9999999999999999999887778999999999999999999999999999999999999999999999999999988
Q ss_pred cceeeEEEEEEEEeCC---CcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCC--
Q psy17441 146 DVEIKVQVEAVIEFEP---GLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKN-- 220 (458)
Q Consensus 146 ~v~~~~~v~~~~~~~~---~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~-- 220 (458)
+++.....++. +..|+.+++++|+++++|+|++.+..+++..++++|+++|+.+ ..|+.++.|.....
T Consensus 205 -----i~i~~~~~~~~~~~~~~d~~~~l~~i~~~~~dvIil~~~~~~~~~il~qa~~~g~~~--~~~i~~~~~~~~~~~~ 277 (410)
T cd06363 205 -----ICIAYQGLIPLDTDPETDYQQILKQINQTKVNVIVVFASRQPAEAFFNSVIQQNLTG--KVWIASEAWSLNDELP 277 (410)
T ss_pred -----eEEEEEEEecCCCchHHHHHHHHHHHhcCCCeEEEEEcChHHHHHHHHHHHhcCCCC--CEEEEeCccccccccc
Confidence 55555555543 4678999999999999999999999999999999999999975 68999988754321
Q ss_pred ------CCCeeEEEEecCCCc---------hhHHHHHHHHHHHHHHHHHhhcC
Q psy17441 221 ------VPVGIIGLKLVNATN---------EDAHIRDSIYVLTSALKEMNQSA 258 (458)
Q Consensus 221 ------~~~g~~g~~~~~~~~---------~~~~~yDAv~~la~Al~~~~~~~ 258 (458)
...+++++....+.. .++.+||||+++|+|++++++++
T Consensus 278 ~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~YDaV~~~a~Al~~a~~~~ 330 (410)
T cd06363 278 SLPGIRNIGTVLGVAQQTVTIPGFSDFIYSFAFSVYAAVYAVAHALHNVLQCG 330 (410)
T ss_pred CCccceeeccEEEEEeCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 244577776655432 35789999999999999998764
No 16
>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=4.2e-31 Score=260.02 Aligned_cols=250 Identities=22% Similarity=0.354 Sum_probs=203.3
Q ss_pred eeeeCCCHHHHHHHHHHHhhcCCeEEEE-EeCCCCCC-CchHHHHHhhcccCCcEEeeecCCC-CCCCCccccceeecCC
Q psy17441 22 GIQMDPNPILTALSVCKFLISERVYAVI-VSHPLTGD-LSPAAVSYTSGFYHIPVIGISSRDS-AFSDKNIHVSFLRTVP 98 (458)
Q Consensus 22 ~~~~~~~~~~~~~~~~~~l~~~~V~aiI-G~~~~~s~-~~~~~~~~i~~~~~iP~Is~~a~~~-~ls~~~~~p~~~r~~p 98 (458)
..-+..|+++.+..+|+.+.+.+|.|+| | |.++. ..+..++.++++++||+|++.++++ .++++..+|+|+|+.|
T Consensus 40 ~~~~~~d~~~~~~~vC~ll~~~~V~aiIfg--p~~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~~P 117 (362)
T cd06378 40 LLVNETDPKSILTQLCDLLSTTKVHGVVFE--DDTDQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQFGP 117 (362)
T ss_pred eecCCCCHHHHHHHHHHHhcccceEEEEec--CCCCccccchhhhhhhhceeccEEEecccccccccCCCCCceEEEeCC
Confidence 3337789999999999988566799877 8 87763 2345788888889999999987765 6778788999999999
Q ss_pred CchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC-CcccHHHHHHHHHhcc
Q psy17441 99 PYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP-GLTTFKDQLYEMKNAQ 177 (458)
Q Consensus 99 ~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~-~~~d~~~~l~~ik~~~ 177 (458)
++..|++|+++++++|+|++|++||++++++..+.+.+++.++..++|+ .+......+. ...+....++++|+.+
T Consensus 118 sd~~q~~Ai~~Ii~~f~W~~v~iV~~~~~g~~~~~~~l~~~~~~~~~~~----~i~~~~~~~~~~~~~~~~~l~~lk~~~ 193 (362)
T cd06378 118 SIEQQAAVMLKIMEEYDWHAFSVVTSRFPGYDDFVSAVRTTVDNSFVGW----ELQSVLTLDMSDDDGDARTQRQLKKLE 193 (362)
T ss_pred CHHHHHHHHHHHHHHCCCeEEEEEEEcCCCHHHHHHHHHHHHhhcccce----eEEEEEeeccCCCcchHHHHHHHHhcC
Confidence 9999999999999999999999999999888888888888887665443 2222223332 2334788999999999
Q ss_pred CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc-----CCCCCeeEEEEecCCC-chhHHHHHHHHHHHHHH
Q psy17441 178 ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA-----KNVPVGIIGLKLVNAT-NEDAHIRDSIYVLTSAL 251 (458)
Q Consensus 178 ~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~-----~~~~~g~~g~~~~~~~-~~~~~~yDAv~~la~Al 251 (458)
+|+||++|+.+++..++++|+++||++++|+||+++..... ..+..|+++++..... ...+..||||+++|+|+
T Consensus 194 arViVl~~s~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~~~~~~~~G~i~v~~~~w~~~~~a~~~DaV~vva~Al 273 (362)
T cd06378 194 SQVILLYCSKEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDLGPSEFPVGLISVSYDGWRYSLRARVRDGVAIIATGA 273 (362)
T ss_pred CCEEEEECCHHHHHHHHHHHHHcCCcCCCeEEEecccccCCCccccccCCcceEeeccccccccHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999987655 2467999999876654 45889999999999999
Q ss_pred HHHhhc-CcccCCCcccCCCCc-ccccC
Q psy17441 252 KEMNQS-AVITEAPQDCDNSGS-IWETG 277 (458)
Q Consensus 252 ~~~~~~-~~~~~~~~~c~~~~~-~W~~g 277 (458)
+.++++ +.++..+.+|.+... +|..|
T Consensus 274 ~~l~~~~~~~~~~~~~C~~~~~~~~~~G 301 (362)
T cd06378 274 SAMLRQHGFIPEAKGSCYGQAEKRDLPP 301 (362)
T ss_pred HHHHhccCCCCCCCCCcCCCCCCCCCch
Confidence 999864 456666779987543 36666
No 17
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=100.00 E-value=1.1e-31 Score=267.65 Aligned_cols=240 Identities=17% Similarity=0.216 Sum_probs=196.9
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhh-cCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLI-SERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~-~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+|+||++++++ +|.+++++..|+.|++..++.. .+. +++|.|||| |.||. ++.+++++++.++||+|+++++
T Consensus 27 ie~iN~~g~il-~g~~l~~~~~d~~~~~~~a~~~---~~~~~~~V~aviG--p~~S~-~~~a~a~va~~~~iP~Is~~a~ 99 (382)
T cd06371 27 VSRINRDPSLS-LGYWFDYVLLPEPCETSRALAA---FLGYEGYASAFVG--PVNPG-YCEAAALLAKEWDKALFSWGCV 99 (382)
T ss_pred HHHHhCCCCCC-CCceEEEEEecCCCChhHHHHH---HHcccCCceEEEC--CCCch-HHHHHHHHHHhcCceEEecccC
Confidence 68999777765 7999999988888887544433 232 578999999 99997 9999999999999999999999
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
++.++++..||+|+|+.|++ ..++++++++|+|++|++||+++++|....+.+.+.+++.|+ ++.....++
T Consensus 100 ~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~~~~~~~~~~~~l~~~l~~~gi------~v~~~~~~~ 170 (382)
T cd06371 100 NYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSSPQDIWVETAQKLASALRAHGL------PVGLVTSMG 170 (382)
T ss_pred chhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEecccchHHHHHHHHHHHHHCCC------cEEEEEEec
Confidence 99999877899999999886 567889999999999999999999999999999999998884 444445566
Q ss_pred CCcccHHHHHHHHHhcc-CeEEEEEeCh-----hhHHHHHHHHHhcCCcccceEEEeeccccccC---------------
Q psy17441 161 PGLTTFKDQLYEMKNAQ-ARVYLMYASK-----QDAEIIFKDAQYLNMTETGYVWIVTEQALTAK--------------- 219 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~-~~viil~~~~-----~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~--------------- 219 (458)
.+..|++.+|++||+.+ +|+|+++++. .++..+++||+++||++++|+||.++......
T Consensus 171 ~~~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i~~d~~~~~~~~~~~~~~~~~~~~~ 250 (382)
T cd06371 171 PDEKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFIPYDTLLYSLPYRNVSYPALRNNSK 250 (382)
T ss_pred CCHHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEEEeccccccCCCCCccccCCCCCHH
Confidence 67789999999999987 6999998776 67889999999999999999999998532100
Q ss_pred --CCCCeeEEEEecCCC--------------------------chhHHHHHHHHHHHHHHHHHhhc
Q psy17441 220 --NVPVGIIGLKLVNAT--------------------------NEDAHIRDSIYVLTSALKEMNQS 257 (458)
Q Consensus 220 --~~~~g~~g~~~~~~~--------------------------~~~~~~yDAv~~la~Al~~~~~~ 257 (458)
...++++++....+. .+++++|||++++|+|+++..+.
T Consensus 251 ~~~a~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~a~~~ 316 (382)
T cd06371 251 LRRAYDAVLTITMDSGEQSFYEAFRAAQERGEIPSDLEPEQVSPLFGTIYNSIYLLAHAVENARAA 316 (382)
T ss_pred HHHHhHhhEEEEecCCCCcHHHHHHHHHhcCCCCCCCCccccchhHHHHHHHHHHHHHHHHHHHHh
Confidence 135666666543221 12346899999999999998754
No 18
>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=2.4e-31 Score=266.64 Aligned_cols=247 Identities=15% Similarity=0.253 Sum_probs=199.8
Q ss_pred CcccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 1 MFQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 1 ~v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
++++||++++++ +|++|++...|+.|++.+++..+++.+.+++|.|||| |.||. ++.+++++++.++||+|+++++
T Consensus 26 Ai~~IN~~~~~l-~~~~l~~~~~D~~~~~~~a~~~~~~l~~~~~v~aiiG--p~~S~-~~~av~~va~~~~iP~is~~s~ 101 (391)
T cd06372 26 AMDKVNSDPVYL-GNYSMEFTYTNSTCSAKESLAGFIDQVQKEHISALFG--PACPE-AAEVTGLLASQWNIPMFGFVGQ 101 (391)
T ss_pred HHHHHhcCCCCC-CCceEEEEEecCCCCccHHHHHHHHHHHhcCceEEEC--CCCCc-HHHHHHHHHhccCccEEEeecC
Confidence 368999776666 8999999999999999898888888765679999999 99997 9999999999999999999999
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecC---cch--hHHHHHHHHhhhccCCcceeeEEEEE
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSD---TDG--RALLGRFQTTSQNQEDDVEIKVQVEA 155 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d---~~g--~~~~~~l~~~l~~~gi~v~~~~~v~~ 155 (458)
++.++++..||+++|+.|++..++.++++++++|||++|++||+++ .++ ....+.+.+.++ .| +++..
T Consensus 102 s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~vaii~~~~~~~~~~~~~~~~~~~~~~~~-~~------~~i~~ 174 (391)
T cd06372 102 TAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIGLFGGSSRDSSWDEVDELWKAVENQLK-FH------FNITA 174 (391)
T ss_pred CccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEEEEEeccccchhhhHHHHHHHHHHHHh-hC------EEEEE
Confidence 9999988889999999999999999999999999999999998543 344 234445556554 33 45555
Q ss_pred EEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecc-----ccccC---------CC
Q psy17441 156 VIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQ-----ALTAK---------NV 221 (458)
Q Consensus 156 ~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~-----~~~~~---------~~ 221 (458)
.+.++.+..++...+.+.+++++|+|+++++..+++.++++|+++||++++|+||.++. |.... ..
T Consensus 175 ~~~~~~~~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~~~~~~~~w~~~~~~~~~~~~~~~ 254 (391)
T cd06372 175 TVRYSSSNPDLLQEKLRYISSVARVIILICSSEDAKAILQAAEKLGLMKGKFVFFLLQQFEDNFWKEVLTDDQVQHLPKV 254 (391)
T ss_pred EEecCCCChHHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHHcCCCCCCEEEEEehhhcCccccccCCCcchHHHHHH
Confidence 56666666777776666667899999999999999999999999999988899999532 32110 13
Q ss_pred CCeeEEEEecCC--------------------------------CchhHHHHHHHHHHHHHHHHHhhcC
Q psy17441 222 PVGIIGLKLVNA--------------------------------TNEDAHIRDSIYVLTSALKEMNQSA 258 (458)
Q Consensus 222 ~~g~~g~~~~~~--------------------------------~~~~~~~yDAv~~la~Al~~~~~~~ 258 (458)
.+|++++.+..+ ..+++++|||||++|+|++++++++
T Consensus 255 ~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav~~~A~Al~~~~~~g 323 (391)
T cd06372 255 YESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAVLLYALAVKEMLKAG 323 (391)
T ss_pred HhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 567776655432 1247899999999999999988754
No 19
>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=3.4e-31 Score=264.60 Aligned_cols=257 Identities=18% Similarity=0.284 Sum_probs=208.4
Q ss_pred cccccccccccccceEEEEeeeeeC-CCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMD-PNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~-~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
|++||++++++ |+.+|.+...+.. +++...+..+|+++ .++|.|||| |.+|. ++.+++++++.++||+|+++++
T Consensus 31 v~~IN~~~~il-~~~~l~~~~~~~~~~d~~~~~~~~~~~l-~~~V~AiiG--p~~S~-~~~av~~i~~~~~iP~Is~~~t 105 (384)
T cd06393 31 ANIINRNRTLL-PNTTLTYDIQRIHFHDSFEATKKACDQL-ALGVVAIFG--PSQGS-CTNAVQSICNALEVPHIQLRWK 105 (384)
T ss_pred HHHhcCCCccC-CCceEEEEEEecccccchhHHHHhhccc-ccCcEEEEC--CCChH-HHHHHHHHHhccCCCeEeccCC
Confidence 78999888777 9999999865533 35667788889877 689999999 99996 9999999999999999999999
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
++.++++. ++++|+.|++..++.++++++++|+|++|++||++++ |...++.+.+.+++.|+ ++.. ..++
T Consensus 106 ~~~lt~~~--~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~~-g~~~l~~~~~~~~~~g~------~v~~-~~~~ 175 (384)
T cd06393 106 HHPLDNKD--TFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDST-GLIRLQELIMAPSRYNI------RLKI-RQLP 175 (384)
T ss_pred CcccCccc--eeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCch-hHHHHHHHHHhhhccCc------eEEE-EECC
Confidence 98888654 5788888999899999999999999999999998764 66666778888887773 4333 3356
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCCC------CCeeEEEEecCCC
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNV------PVGIIGLKLVNAT 234 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~------~~g~~g~~~~~~~ 234 (458)
.+..|++.+|++||+.++++|++.++..++..+++||+++||+.+.|+|++++......+. ..++.|++..++.
T Consensus 176 ~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~~~~~~~~~~~~~~~~~~~~~it~~~~~~~~ 255 (384)
T cd06393 176 TDSDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFIFTTLDLYALDLEPYRYSGVNLTGFRILNVD 255 (384)
T ss_pred CCchHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEEEccCccccccchhhhcCcceEEEEEecCCC
Confidence 6678999999999999999999999999999999999999999999999988875433221 2335777666532
Q ss_pred --------------------------------chhHHHHHHHHHHHHHHHHHhhcCcccCCCcccCCCCcccccC
Q psy17441 235 --------------------------------NEDAHIRDSIYVLTSALKEMNQSAVITEAPQDCDNSGSIWETG 277 (458)
Q Consensus 235 --------------------------------~~~~~~yDAv~~la~Al~~~~~~~~~~~~~~~c~~~~~~W~~g 277 (458)
..++++||||+++|+|+++..+ ...++.+|... .+|++|
T Consensus 256 ~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~a~A~~~~~~---~~~~~~~c~~~-~~w~~G 326 (384)
T cd06393 256 NPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMVSVCYQRAPQ---MTVNSLQCHRH-KAWRFG 326 (384)
T ss_pred cHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHHHHHHhhhhh---cCCCCCCCCCC-CCCccc
Confidence 1488999999999999996532 23445679764 469888
No 20
>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=2.8e-31 Score=261.72 Aligned_cols=251 Identities=18% Similarity=0.314 Sum_probs=200.8
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRD 81 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~ 81 (458)
++++|.+..++ |.+ ..-+..|+++....+|+++ ++||+|||| |.++. ++..++.+|+..+||+|+++.
T Consensus 21 v~~~N~~~~l~-~~~-----~~~~~~dsf~~~~~~C~~~-~~gV~AI~G--p~s~~-~a~~v~sic~~~~vP~i~~~~-- 88 (364)
T cd06390 21 LSQLTEPPKLL-PQI-----DIVNISDSFEMTYTFCSQF-SKGVYAIFG--FYDRK-TVNMLTSFCGALHVCFITPSF-- 88 (364)
T ss_pred HHHhccCcccc-cce-----EEeccccHHHHHHHHHHHh-hcCceEEEc--cCChh-HHHHHHHhhcCCCCCceecCC--
Confidence 56788443222 321 3446778999999999977 999999999 98885 999999999999999999755
Q ss_pred CCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC
Q psy17441 82 SAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP 161 (458)
Q Consensus 82 ~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~ 161 (458)
|..+ . .++++|+.|+ +.+|+++++++|||++|++||++| ||...++.|.+.+++.|+ ++......+.
T Consensus 89 ~~~~-~--~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g~~~lq~l~~~~~~~~~------~I~~~~~~~~ 155 (364)
T cd06390 89 PVDT-S--NQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RGLSVLQKVLDTAAEKNW------QVTAVNILTT 155 (364)
T ss_pred CCCC-C--CceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-ccHHHHHHHHHhhhccCc------eeeEEEeecC
Confidence 3222 2 3568999998 899999999999999999999765 999999999999998874 4444444445
Q ss_pred CcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC------CCCCeeEEEEecCCCc
Q psy17441 162 GLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK------NVPVGIIGLKLVNATN 235 (458)
Q Consensus 162 ~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------~~~~g~~g~~~~~~~~ 235 (458)
+..+++.+|+++++.++|+||++|+.+.+..+++++.+.++++.+|+||+|+....+. ...+|++|++++.++.
T Consensus 156 ~~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~~~~~~~~~~~nitg~r~~~~~~ 235 (364)
T cd06390 156 TEEGYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIGYHYILANLGFMDIDLTKFRESGANVTGFQLVNYTD 235 (364)
T ss_pred ChHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCceEEEecCCCcccccHHHHhcCCcCceEEEEecCCC
Confidence 5678999999999999999999999999999999999999999999999999543222 2378999999998751
Q ss_pred ----------------------------hhHHHHHHHHHHHHHHHHHhhcCc-cc--CCCcccCCC-CcccccC
Q psy17441 236 ----------------------------EDAHIRDSIYVLTSALKEMNQSAV-IT--EAPQDCDNS-GSIWETG 277 (458)
Q Consensus 236 ----------------------------~~~~~yDAv~~la~Al~~~~~~~~-~~--~~~~~c~~~-~~~W~~g 277 (458)
+++++|||||++|+|++++.+.+. ++ +++..|.+. ..+|++|
T Consensus 236 ~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~~~~~~~C~~~~~~~w~~G 309 (364)
T cd06390 236 TTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDISRRGNAGDCLANPAVPWGQG 309 (364)
T ss_pred HHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccCCCCCCCCCCCCCCCccH
Confidence 479999999999999999876432 21 223489763 4568887
No 21
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=99.98 E-value=9.6e-31 Score=262.71 Aligned_cols=245 Identities=19% Similarity=0.264 Sum_probs=200.0
Q ss_pred CcccccccccccccceEEEEeeeeeCC----CHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEe
Q psy17441 1 MFQHINFDIQYVNKGVTFSATGIQMDP----NPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIG 76 (458)
Q Consensus 1 ~v~eIN~~~~~l~~~~~l~~~~~~~~~----~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is 76 (458)
++|+||++++++ +|++|+++..|+.+ ++..++..+.+.+.+++|.|||| |.||. ++.+++++++.++||+|+
T Consensus 27 Ave~IN~~gg~l-~G~~l~~~~~D~~~~~~~~~~~a~~~a~~~~~~~~v~aiiG--p~~S~-~~~av~~~~~~~~ip~Is 102 (396)
T cd06373 27 AVERVNADPGLL-PGHNITLVFEDSECKCGCSESEAPLVAVDLYFQHKPDAFLG--PGCEY-AAAPVARFAAHWNVPVLT 102 (396)
T ss_pred HHHHHhcCCCcC-CCeEEEEEEecCccccccchhhhHHHHHHHHhccCCeEEEC--CCccc-hhHHHHHHHhcCCCceEC
Confidence 378999776676 89999999888877 77777776666555789999999 99997 999999999999999999
Q ss_pred eecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcch----hHHHHHHHHhhhccCCcceeeEE
Q psy17441 77 ISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDG----RALLGRFQTTSQNQEDDVEIKVQ 152 (458)
Q Consensus 77 ~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g----~~~~~~l~~~l~~~gi~v~~~~~ 152 (458)
++++++.++++..||++||+.|++..++.++++++++++|++++++|++++++ ....+.+.+.+++.|+ +
T Consensus 103 ~~as~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~~~~~~~~~~~~~~~~~~~g~------~ 176 (396)
T cd06373 103 AGAPAAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAALLYHDDKNDDRPCYFTLEGVYTVLKEENI------T 176 (396)
T ss_pred ccCCccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEEEEEECCCCCcchHHHHHHHHHHHHhhcCc------e
Confidence 99999999987779999999999999999999999999999999999987763 5577889999988774 3
Q ss_pred EEEEEEeCCC--cccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccc------------c
Q psy17441 153 VEAVIEFEPG--LTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALT------------A 218 (458)
Q Consensus 153 v~~~~~~~~~--~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~------------~ 218 (458)
+... .+..+ ..|+..+|+++++.. |+|+++++..++..++++++++|++.++|+||..+.... .
T Consensus 177 v~~~-~~~~~~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~g~~~~~yv~i~~~~~~~~~~~~~~~~~~~~ 254 (396)
T cd06373 177 VSDF-PFDEDKELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRLGLTSGEYVFFNIDLFGSSLYGGGPWWWERG 254 (396)
T ss_pred eeEE-eecCCccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCcEEEEEEccchhhhccCCCCcCCCC
Confidence 3322 34444 479999999999865 999999999999999999999999999999998764321 0
Q ss_pred CC-------CCCeeEEEEecCCC-----------------------------chhHHHHHHHHHHHHHHHHHhhc
Q psy17441 219 KN-------VPVGIIGLKLVNAT-----------------------------NEDAHIRDSIYVLTSALKEMNQS 257 (458)
Q Consensus 219 ~~-------~~~g~~g~~~~~~~-----------------------------~~~~~~yDAv~~la~Al~~~~~~ 257 (458)
.. ..+|++++....++ .+++++||||+++++||+++.++
T Consensus 255 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~ 329 (396)
T cd06373 255 DEDDEKAKEAYQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVNFFAGAFYDAVLLYALALNETLAE 329 (396)
T ss_pred CcccHHHHHHHHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 00 13456665544321 14567999999999999998654
No 22
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=99.97 E-value=8.8e-31 Score=263.38 Aligned_cols=243 Identities=17% Similarity=0.256 Sum_probs=199.0
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRD 81 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~ 81 (458)
+|+||++++++ +|++|+++..|+.+++.+++..+++.+ +++|.|||| |.||+ .+++.+++.++||+|++++++
T Consensus 29 v~~IN~~ggil-~g~~l~l~~~D~~~~~~~a~~~~~~li-~~~v~aiiG--p~~S~---~~~a~i~~~~~iP~Is~~a~~ 101 (404)
T cd06370 29 VEDVNADPNLL-PGYKLQFEWVDTHGDEVLSIRAVSDWW-KRGVVAFIG--PECTC---TTEARLAAAWNLPMISYKCDE 101 (404)
T ss_pred HHHHhCCCCCC-CCCEEEEEEEecCCChHHHHHHHHHHH-hcCceEEEC--CCchh---HHHHHHHhhcCCcEEecccCC
Confidence 68999777766 899999999999999988888877755 779999999 88874 346689999999999999999
Q ss_pred CCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC
Q psy17441 82 SAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP 161 (458)
Q Consensus 82 ~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~ 161 (458)
+.++++..||+|+|+.|++..++.++++++++++|++|++|+++++||+...+.+++.+++.| +++.....++.
T Consensus 102 ~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g------~~iv~~~~~~~ 175 (404)
T cd06370 102 EPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYENDSKYSSVFETLKEEAELRN------ITISHVEYYAD 175 (404)
T ss_pred ccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEecCcccHHHHHHHHHHHHHcC------CEEEEEEEECC
Confidence 999988889999999999999999999999999999999999999999999999999999888 45555555554
Q ss_pred C-------cccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCc-ccceEEEeeccc------------------
Q psy17441 162 G-------LTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMT-ETGYVWIVTEQA------------------ 215 (458)
Q Consensus 162 ~-------~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~-~~~~~wi~t~~~------------------ 215 (458)
. ..++...++++++. ++++++++...++..++++|+++||+ +.+|+||.++..
T Consensus 176 ~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~~~~~~~~l~qa~~~g~~~~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~ 254 (404)
T cd06370 176 FYPPDPIMDNPFEDIIQRTKET-TRIYVFIGEANELRQFLMSMLDEGLLESGDYMVLGVDIEYYDRDSQDYYSLHRGFQS 254 (404)
T ss_pred CCCchhhhHHHHHHHHHhccCC-CEEEEEEcCHHHHHHHHHHHHHcCCCCCCcEEEEEEchhhccccchhhhhhhhhhcc
Confidence 3 46788888888774 78888888888899999999999999 678999986631
Q ss_pred -cccC-------CCCCeeEEEEecC---------------------------------CCchhHHHHHHHHHHHHHHHHH
Q psy17441 216 -LTAK-------NVPVGIIGLKLVN---------------------------------ATNEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 216 -~~~~-------~~~~g~~g~~~~~---------------------------------~~~~~~~~yDAv~~la~Al~~~ 254 (458)
.... ...+|++++.... +..+++++||||+++|+||+++
T Consensus 255 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aa~~yDAv~~~a~Al~~~ 334 (404)
T cd06370 255 REYNRSDDEKALEAMKSVLIIVPTPVSPDYDSFSIFVRKYNLEPPFNGDLGESELVLEIDIEAAYLYDAVMLYAKALDET 334 (404)
T ss_pred ccccccccHHHHHHhHheEEEecCCCCchHHHHHHHHHHhccCCCCcccccccccccccceeeehhHHHHHHHHHHHHHH
Confidence 0001 1256666664321 1125679999999999999998
Q ss_pred hhcC
Q psy17441 255 NQSA 258 (458)
Q Consensus 255 ~~~~ 258 (458)
++++
T Consensus 335 ~~~~ 338 (404)
T cd06370 335 LLEG 338 (404)
T ss_pred HHhc
Confidence 7653
No 23
>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure [].; PDB: 3SAJ_D 3Q41_B 3QEM_C 3QEK_A 3QEL_C 3MQ4_A 3QLV_G 3OM1_A 3QLU_A 3OM0_A ....
Probab=99.97 E-value=6.7e-31 Score=258.82 Aligned_cols=248 Identities=27% Similarity=0.356 Sum_probs=207.0
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRD 81 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~ 81 (458)
+++||++++++ +|++|++...+..+++.......+..+.+++|.|||| |.|+. .+.+++.+++.++||+|++++++
T Consensus 10 i~~iN~~~~~~-~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~v~aviG--p~~~~-~~~~~~~~~~~~~ip~is~~~~~ 85 (348)
T PF01094_consen 10 IDEINNNPDLL-PNITLEVQVFDTCSDDSFALQAAICSLNKQGVVAVIG--PSCSS-SAEAVASLASEWNIPQISPGSTS 85 (348)
T ss_dssp HHHHHHSSTSS-TTSEEEEEEEEETTTTHHHHHHHHHHHHHHTECEEEE--TSSHH-HHHHHHHHHHHTT-EEEESSGGS
T ss_pred HHHHHcCCCCC-CCeEEEEEEEeeccCCcccccchhhhccCCCcEEEEC--CCccc-ccchhheeecccccceeeccccc
Confidence 68899887745 9999999977766444444555454555789999999 99986 89999999999999999999999
Q ss_pred CCCCC-CccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 82 SAFSD-KNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 82 ~~ls~-~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
+.+++ +..||+++|+.|++..+++++++++++|+|++|++||+++++|.+....+++.+++.++ .++.......
T Consensus 86 ~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~ 160 (348)
T PF01094_consen 86 PSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYSDDDYGNSLADSFQDLLRERGG-----ICVAFISVVI 160 (348)
T ss_dssp GGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEESSHHHHHHHHHHHHHHHHHTT-----CEEEEEEEEE
T ss_pred cccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeeccccccccccchhhhhhhccccc-----ceeccccccc
Confidence 99999 88999999999999999999999999999999999999999999999999999998652 3333322333
Q ss_pred CCcccHHHHHHHHHh--ccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC--------CCCCeeEEEEe
Q psy17441 161 PGLTTFKDQLYEMKN--AQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK--------NVPVGIIGLKL 230 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~--------~~~~g~~g~~~ 230 (458)
.+..+....++++++ .++|+|+++++..++..++++|.++|+.+++|+||.++.+.... ....|+++++.
T Consensus 161 ~~~~~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (348)
T PF01094_consen 161 SSDSDAEELLKKLKEIKSGARVVILCSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQNNEDFREAFQGVLGFTP 240 (348)
T ss_dssp TTTSHHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTSTHCHHHCCHTTEEEEEE
T ss_pred ccccchhhhhhhhhhccccceeeeeecccccccccccchhhhhccccceeEEeecccccccccccccccccccceeeeee
Confidence 455666777777776 99999999999999999999999999999999999999975542 24789999987
Q ss_pred cCCC----------------------------chhHHHHHHHHHHHHHHHHHhhcC
Q psy17441 231 VNAT----------------------------NEDAHIRDSIYVLTSALKEMNQSA 258 (458)
Q Consensus 231 ~~~~----------------------------~~~~~~yDAv~~la~Al~~~~~~~ 258 (458)
..+. .+++++||||+++|+|++++.+++
T Consensus 241 ~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~ 296 (348)
T PF01094_consen 241 PPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDG 296 (348)
T ss_dssp STTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ecccccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhc
Confidence 5542 257899999999999999999764
No 24
>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=99.97 E-value=1.1e-30 Score=261.69 Aligned_cols=247 Identities=19% Similarity=0.277 Sum_probs=210.7
Q ss_pred CcccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 1 MFQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 1 ~v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
++|+||++++++ +|++|+++..|+++++..++..+.+.+.+++|.|||| |.||+ .+.+++++++.++||+|+++++
T Consensus 26 Ave~iN~~g~~i-~g~~l~~~~~D~~~~~~~a~~~a~~l~~~~~v~aiiG--~~~s~-~~~a~~~~~~~~~ip~Is~~~~ 101 (389)
T cd06352 26 AVERVNADPNLL-PGYDFTFVYLDTECSESVALLAAVDLYWEHNVDAFIG--PGCPY-ACAPVARLAAHWNIPMISWGCV 101 (389)
T ss_pred HHHHHhcCCCCC-CCceEEEEEecCCCchhhhHHHHHHHHhhcCCcEEEC--CCChh-HHHHHHHHHhcCCCCEeccccc
Confidence 368999666567 8999999999999999887777766665689999999 99986 8999999999999999999999
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc-chhHHHHHHHHhhhccCCcceeeEEEEEEEEe
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT-DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF 159 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~-~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~ 159 (458)
++.++++..|||+||+.|++..++.++++++++++|++++++++++. ||....+.+++.+++.| +++.....+
T Consensus 102 ~~~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~~v~ii~~~~~~~g~~~~~~~~~~~~~~G------~~v~~~~~~ 175 (389)
T cd06352 102 ALSLSDKSEYPTLTRTLPPARKLGEAVLALLRWFNWHVAVVVYSDDSENCFFTLEALEAALREFN------LTVSHVVFM 175 (389)
T ss_pred ccccCccccCCceeecCCcHHHHHHHHHHHHHHcCceEEEEEEecCCccHHHHHHHHHHHHHhcC------CeEEEEEEe
Confidence 99998877789999999999999999999999999999999999888 99999999999999887 455555556
Q ss_pred CCC--cccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC------------------
Q psy17441 160 EPG--LTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK------------------ 219 (458)
Q Consensus 160 ~~~--~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------------------ 219 (458)
+.. ..|+...++++++.+ |+|++++...++..++++++++|+.+++++||.++.+....
T Consensus 176 ~~~~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~ 254 (389)
T cd06352 176 EDNSGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILIDLFNYSLPYQNSYPWERGDGDDEKA 254 (389)
T ss_pred cCCccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEEehhccccccCCCCCcccCCcccHHH
Confidence 655 689999999999887 99999999999999999999999997789999987755431
Q ss_pred -CCCCeeEEEEecCCC------------------------------chhHHHHHHHHHHHHHHHHHhhcC
Q psy17441 220 -NVPVGIIGLKLVNAT------------------------------NEDAHIRDSIYVLTSALKEMNQSA 258 (458)
Q Consensus 220 -~~~~g~~g~~~~~~~------------------------------~~~~~~yDAv~~la~Al~~~~~~~ 258 (458)
...+|++++.+..+. .+++++||||+++++|++++..++
T Consensus 255 ~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al~~~~~~~ 324 (389)
T cd06352 255 KEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDAVLLYAHALNETLAEG 324 (389)
T ss_pred HHHHHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHHHHHHHHHHHHHHHhC
Confidence 125677776655431 246789999999999999987653
No 25
>KOG1056|consensus
Probab=99.97 E-value=9.7e-31 Score=270.07 Aligned_cols=244 Identities=25% Similarity=0.334 Sum_probs=207.5
Q ss_pred cccccccccccccceEEEEee---eeeCCCHHHHHHHHHHHhh-c------------CCeEEEEEeCCCCCCCchHHHHH
Q psy17441 2 FQHINFDIQYVNKGVTFSATG---IQMDPNPILTALSVCKFLI-S------------ERVYAVIVSHPLTGDLSPAAVSY 65 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~---~~~~~~~~~~~~~~~~~l~-~------------~~V~aiIG~~~~~s~~~~~~~~~ 65 (458)
+||||+ +.+| ||++|++.. |..+..+.+....+.+... + ..|.|+|| +..|+ .+.+++.
T Consensus 69 l~~iN~-~~lL-p~~kLG~~i~DTCs~~t~aleqsl~Fv~~~~~~~~~e~~c~~g~sp~v~~VIG--~s~Ss-vsi~van 143 (878)
T KOG1056|consen 69 LDEINN-PDLL-PNIKLGARILDTCSRSTYALEQSLSFVRASLTSDDSEVRCPDGYSPPVVAVIG--PSYSS-VSIAVAN 143 (878)
T ss_pred HHHhcC-cccC-CCceeeeeEeeccCCcHHHHHhhHHHHHhcccCCCcceecCCCCCCceeEEeC--CCCch-HHHHHHH
Confidence 689995 8877 999999994 4444455555555554443 1 45999999 66675 8999999
Q ss_pred hhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCC
Q psy17441 66 TSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQED 145 (458)
Q Consensus 66 i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi 145 (458)
+...++||||+|+++++.|+||.+|+||.|++|+|..|++||++++++|+|++|..++++++||+.+.++|++..++.||
T Consensus 144 lLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~Am~~il~~f~W~yVstv~s~~dYGE~Gieaf~~~a~~~~i 223 (878)
T KOG1056|consen 144 LLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQAMVDILKKFNWNYVSTVASEGDYGESGIEAFKEEAAERGI 223 (878)
T ss_pred HHHhhcCceeccccCCcccccchhhhceeeecCChHHHHHHHHHHHHHhCeeEeeehhcCccchhhhHHHHHHhHHhcCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999884
Q ss_pred cceeeEEEEEEEEeC--CCcccHHHHHHHHHh-ccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCC--
Q psy17441 146 DVEIKVQVEAVIEFE--PGLTTFKDQLYEMKN-AQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKN-- 220 (458)
Q Consensus 146 ~v~~~~~v~~~~~~~--~~~~d~~~~l~~ik~-~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~-- 220 (458)
||+..+.++ .....+..+++++.+ .+++++|+++..++++.++++|+++++++ .++||++|+|....+
T Consensus 224 ------CIa~s~ki~~~~~~~~~~~~l~kl~~~~~a~vvV~F~~~~~~r~~~~aa~~~n~~g-~~~wiaSd~W~~~~~~~ 296 (878)
T KOG1056|consen 224 ------CIAFSEKIYQLSIEQEFDCVLRKLLETPNARVVVVFCRGEDARRLLKAARRANLTG-EFLWIASDGWASQNSPT 296 (878)
T ss_pred ------eEEehhhcccccchhHHHHHHHHHhhcCCCeEEEEecCcchHHHHHHHHHHhCCCc-ceEEEecchhhccCChh
Confidence 455444333 356778899999877 89999999999999999999999999997 699999999976443
Q ss_pred -----CCCeeEEEEecCCC-------------------------------------------------------------
Q psy17441 221 -----VPVGIIGLKLVNAT------------------------------------------------------------- 234 (458)
Q Consensus 221 -----~~~g~~g~~~~~~~------------------------------------------------------------- 234 (458)
..+|.+++.+..+.
T Consensus 297 ~~~e~~a~g~i~i~l~~~~v~~F~~y~~s~~p~nn~~n~w~~e~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~ 376 (878)
T KOG1056|consen 297 EAPEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFAEFWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYE 376 (878)
T ss_pred hhhhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccchhhhhcccCCCCcccccchhhhhhcccchhhccccchh
Confidence 37899999888653
Q ss_pred --chhHHHHHHHHHHHHHHHHHhhc
Q psy17441 235 --NEDAHIRDSIYVLTSALKEMNQS 257 (458)
Q Consensus 235 --~~~~~~yDAv~~la~Al~~~~~~ 257 (458)
.....++|||+.+|+||+.+.++
T Consensus 377 q~~k~~~Vi~aVya~A~aLh~m~~~ 401 (878)
T KOG1056|consen 377 QDSKVQFVIDAVYAMAHALHNMHQD 401 (878)
T ss_pred hhcccccHHHHHHHHHHHHHHHHHh
Confidence 02468999999999999999874
No 26
>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=99.97 E-value=6.5e-30 Score=255.48 Aligned_cols=260 Identities=18% Similarity=0.302 Sum_probs=201.0
Q ss_pred cccccccccccccceEEEEeeeee-CCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQM-DPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~-~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++||++..++ ++++|.+...++ .+++++++..+|+.+ +++|.|||| |.||. ++.+++++++.++||+|+++++
T Consensus 21 v~~iN~~~~~~-~~~~l~~~~~~~~~~d~~~~~~~~c~ll-~~~V~aiiG--p~~s~-~~~~~~~~~~~~~iP~i~~~~~ 95 (382)
T cd06380 21 ISQHNTNPNST-APFKLLPHVDNLDTSDSFALTNAICSQL-SRGVFAIFG--SYDKS-SVNTLTSYSDALHVPFITPSFP 95 (382)
T ss_pred HHHhccccccc-CCeeeeeeeeEecccchHHHHHHHHHHH-hcCcEEEEe--cCcHH-HHHHHHHHHhcCCCCeEecCCC
Confidence 67899766566 888888774444 479999999999977 789999999 88886 8889999999999999999999
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
++.+++ .++|+||+.|+. ..++++++++++|++|++||++++ |...++.+.+.+++.|.+ +.+.. ..+.
T Consensus 96 ~~~l~~--~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~~~~~-~~~~~~~~~~~~~~~g~~----i~v~~-~~~~ 164 (382)
T cd06380 96 TNDLDD--GNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLYDSDR-GLLRLQQLLDYLREKDNK----WQVTA-RRVD 164 (382)
T ss_pred cccCCC--CCcEEEEeccch---hHHHHHHHHhcCCeEEEEEECCCc-chHHHHHHHHHHhccCCc----eEEEE-EEec
Confidence 888743 468999998863 458899999999999999998775 666677788888887621 22222 2222
Q ss_pred C--CcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCCC------CCeeEEEEecC
Q psy17441 161 P--GLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNV------PVGIIGLKLVN 232 (458)
Q Consensus 161 ~--~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~------~~g~~g~~~~~ 232 (458)
. +..|++.+|++||+.++|+||+.++.+++..+++||+++||.+++|+||+++......++ ..++.+++...
T Consensus 165 ~~~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 244 (382)
T cd06380 165 NVTDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKNRKGYHYILANLGFDDIDLSKFLFGGVNITGFQLVD 244 (382)
T ss_pred CCCcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhcccceEEEEccCCcccccHHHhccCceeeEEEeccC
Confidence 2 346899999999999999999999999999999999999999999999998865443321 34566776533
Q ss_pred C----------------------------CchhHHHHHHHHHHHHHHHHHhhcCc---------ccCCCcccCCC-Cccc
Q psy17441 233 A----------------------------TNEDAHIRDSIYVLTSALKEMNQSAV---------ITEAPQDCDNS-GSIW 274 (458)
Q Consensus 233 ~----------------------------~~~~~~~yDAv~~la~Al~~~~~~~~---------~~~~~~~c~~~-~~~W 274 (458)
+ ..+++++||||+++|+|++++.+.+. ...+...|... ...|
T Consensus 245 ~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~ 324 (382)
T cd06380 245 NTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQRGSGRHRIDISRRGNGGDCLANPAVPW 324 (382)
T ss_pred CCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhccccccccccccCCCCCcCCCCCCCCc
Confidence 1 12578999999999999999865321 11234578653 2346
Q ss_pred ccC
Q psy17441 275 ETG 277 (458)
Q Consensus 275 ~~g 277 (458)
..|
T Consensus 325 ~~g 327 (382)
T cd06380 325 EHG 327 (382)
T ss_pred cch
Confidence 555
No 27
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=99.97 E-value=2.2e-30 Score=260.77 Aligned_cols=245 Identities=14% Similarity=0.178 Sum_probs=191.5
Q ss_pred cccccccccccccceEEEEeeeeeCC-----CHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEe
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDP-----NPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIG 76 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~-----~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is 76 (458)
+|+||++++++ +|++|+++..|+.+ ........+.+....++|.|||| |.||. ++.+++++++.++||+|+
T Consensus 28 ve~IN~~~gil-~g~~l~~~~~D~~~~~~~c~~~~~~~~~~~~~~~~~v~aiiG--p~~S~-~~~~va~~a~~~~iP~Is 103 (405)
T cd06385 28 IDRVNADPDLL-PGLHLQYVLGSSENKEGVCSDSAAPLVAVDLKFTHNPWAFIG--PGCDY-TASPVARFTTHWDVPLVT 103 (405)
T ss_pred HHHHhcCCCCC-CCceEEEEEccccccCCCCccccchHHHHHHHHhcCCcEEEC--CCccc-hHHHHHHHHhccCCcEEc
Confidence 78999777766 89999999766643 33333333333334689999999 99997 999999999999999999
Q ss_pred eecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEE-EEEecCcc-hhH---HHHHHHHhhhccCCcceeeE
Q psy17441 77 ISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVI-FIHSSDTD-GRA---LLGRFQTTSQNQEDDVEIKV 151 (458)
Q Consensus 77 ~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~-ii~~~d~~-g~~---~~~~l~~~l~~~gi~v~~~~ 151 (458)
++++++.++++..||++||+.|++..++.++++++++|+|++++ ++|.++++ ++. ..+.+.+.+++.| +
T Consensus 104 ~~a~~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~~~~~~~~~~~~~~~~~l~~~~~~~g------i 177 (405)
T cd06385 104 AGAPALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIYSDNKVDDRPCYFAMEGLYMELKKNN------I 177 (405)
T ss_pred cccChhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEEecCcccccchHHHHHHHHHHHHhCC------e
Confidence 99999999988889999999999999999999999999999998 56665542 233 4688899998887 4
Q ss_pred EEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc-------------
Q psy17441 152 QVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA------------- 218 (458)
Q Consensus 152 ~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~------------- 218 (458)
++......+.+..|+...|+++|+. .|+|+++++..+++.++++|+++||++++|+||.++.+...
T Consensus 178 ~v~~~~~~~~~~~d~~~~l~~ik~~-~~iii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~~~~~~~~~~~~~~~~w~~~ 256 (405)
T cd06385 178 TVVDLVFEEDDLINYTTLLQDIKQK-GRVIYVCCSPDIFRRLMLQFWREGLPSEDYVFFYIDLFGASLQGPDPKRPWYRG 256 (405)
T ss_pred EEEEeeccCCchhhHHHHHHHHhhc-ceEEEEeCCHHHHHHHHHHHHHcCCCCCcEEEEEeecchhhccCCCCCCCCCCC
Confidence 4444433334567899999999885 49999999999999999999999999999999998664211
Q ss_pred C-------CCCCeeEEEEecCCC-----------------------------chhHHHHHHHHHHHHHHHHHhhc
Q psy17441 219 K-------NVPVGIIGLKLVNAT-----------------------------NEDAHIRDSIYVLTSALKEMNQS 257 (458)
Q Consensus 219 ~-------~~~~g~~g~~~~~~~-----------------------------~~~~~~yDAv~~la~Al~~~~~~ 257 (458)
. ...+++++.....+. .+++++|||||++|+||+++.+.
T Consensus 257 ~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aa~~YDav~l~a~Al~~~~~~ 331 (405)
T cd06385 257 DADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTVEDSLMNIIAGGFYDGVMLYAHALNETMAK 331 (405)
T ss_pred CcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCccchhhHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 0 114666665443321 23456899999999999998654
No 28
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=99.97 E-value=2.8e-30 Score=254.85 Aligned_cols=233 Identities=27% Similarity=0.366 Sum_probs=200.4
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-------------CCeEEEEEeCCCCCCCchHHHHHhhc
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-------------ERVYAVIVSHPLTGDLSPAAVSYTSG 68 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-------------~~V~aiIG~~~~~s~~~~~~~~~i~~ 68 (458)
+++||++++++ +|++|+++..|+.+++.+++..+.+.+.+ ++|.+||| |.||. .+.+++++++
T Consensus 37 v~~iN~~~~~l-~g~~l~l~~~D~~~~~~~a~~~a~~li~~~~~~~~~~~~~~~~~v~aiiG--~~~S~-~~~a~~~~~~ 112 (348)
T cd06350 37 VEEINNDPDLL-PNITLGYHIYDSCCSPAVALRAALDLLLSGEGTTPPYSCRKQPKVVAVIG--PGSSS-VSMAVAELLG 112 (348)
T ss_pred HHHHcCCCccC-CCCceeEEEEecCCcchHHHHHHHHHHhcCCCCCCCCcCCCCCceEEEEC--CCccH-HHHHHHHHHh
Confidence 68999776666 99999999999999987777776665544 69999999 98886 8999999999
Q ss_pred ccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcce
Q psy17441 69 FYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVE 148 (458)
Q Consensus 69 ~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~ 148 (458)
.++||+|+++++++.++++..||++||+.|++..++.++++++++++|+++++++.+++||....+.+++.+++.|+
T Consensus 113 ~~~vp~is~~~~~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~gi--- 189 (348)
T cd06350 113 LFKIPQISYGATSPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHFGWTWVGLVYSDDDYGRSGLSDLEEELEKNGI--- 189 (348)
T ss_pred cCcCceecccCCChhhccccccCCeeEecCCcHHHHHHHHHHHHHCCCeEEEEEEecchhHHHHHHHHHHHHHHCCC---
Confidence 99999999999999998888899999999999999999999999999999999999999999999999999999884
Q ss_pred eeEEEEEEEEeCCC--cccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC-------
Q psy17441 149 IKVQVEAVIEFEPG--LTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK------- 219 (458)
Q Consensus 149 ~~~~v~~~~~~~~~--~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------- 219 (458)
++.....++.+ ..|+...+++++++++|+|++.++..++..++++++++|+ + +..|+.++.|....
T Consensus 190 ---~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~~~g~-~-~~~~i~~~~~~~~~~~~~~~~ 264 (348)
T cd06350 190 ---CIAFVEAIPPSSTEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAYKLGM-T-GKYWIISTDWDTSTCLLLFTL 264 (348)
T ss_pred ---cEEEEEEccCCCcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHHHhCC-C-CeEEEEEccccCccccccCCc
Confidence 44555666654 5799999999999999999999999999999999999999 3 25666666665431
Q ss_pred CCCCeeEEEEecCCC------------chhHHHHHHHHH
Q psy17441 220 NVPVGIIGLKLVNAT------------NEDAHIRDSIYV 246 (458)
Q Consensus 220 ~~~~g~~g~~~~~~~------------~~~~~~yDAv~~ 246 (458)
...+|++++..+.+. .+++++|||||+
T Consensus 265 ~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~YDav~~ 303 (348)
T cd06350 265 DAFQGVLGFSGHAPRSGEIPGFKDFLRKYAYNVYDAVYA 303 (348)
T ss_pred ceeeeEEEEEEEeecCCcCCChHHHHHHHHHHHHhheeE
Confidence 236899998877653 167899999999
No 29
>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=99.97 E-value=1.4e-29 Score=249.36 Aligned_cols=257 Identities=20% Similarity=0.287 Sum_probs=202.3
Q ss_pred cccccccccccccceEEEEe-eeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSAT-GIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~-~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
++++|.+...+.+..+|.+. ..-+..|+++...++|+++ ++||.||+| |+++. ++.+++++|+..+||+|.+...
T Consensus 21 v~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~-~~GV~AIfG--p~~~~-s~~~v~s~c~~~~iP~i~~~~~ 96 (372)
T cd06387 21 VQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQF-SRGVYAIFG--FYDQM-SMNTLTSFCGALHTSFITPSFP 96 (372)
T ss_pred HHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHh-hcccEEEEe--cCCHh-HHHHHHHhhccccCCeeeeCCC
Confidence 56788666556233688886 4446779999999999977 999999999 88775 8899999999999999988543
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
. ....++.+++.|+ ...|+++++++|+|++|++|| |+++|...++.|.+.++..+. .+......+
T Consensus 97 ~-----~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY-d~d~gl~~Lq~L~~~~~~~~~------~V~~~~v~~ 161 (372)
T cd06387 97 T-----DADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY-DTERGFSILQAIMEAAVQNNW------QVTARSVGN 161 (372)
T ss_pred C-----CCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-cCchhHHHHHHHHHhhccCCc------eEEEEEecc
Confidence 1 1233677899998 789999999999999999999 556898888898888887763 222221112
Q ss_pred -CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCC---CCCe---eEEEEecCC
Q psy17441 161 -PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKN---VPVG---IIGLKLVNA 233 (458)
Q Consensus 161 -~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~---~~~g---~~g~~~~~~ 233 (458)
.+..+++..++++++.+.++||++|+++.+..++++|.++||++++|+||+|+....+.+ +..| ++|++++.+
T Consensus 162 ~~~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld~~~~dl~~~~~g~~NItg~rl~~~ 241 (372)
T cd06387 162 IKDVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRGYHYMLANLGFTDISLERVMHGGANITGFQIVNN 241 (372)
T ss_pred CCchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccceEEEEecCCcccccHHHhccCCcceeEEEEecC
Confidence 245678999999999999999999999999999999999999999999999996554443 3344 999999986
Q ss_pred Cc----------------------------hhHHHHHHHHHHHHHHHHHhhcC-ccc--CCCcccCCC-CcccccC
Q psy17441 234 TN----------------------------EDAHIRDSIYVLTSALKEMNQSA-VIT--EAPQDCDNS-GSIWETG 277 (458)
Q Consensus 234 ~~----------------------------~~~~~yDAv~~la~Al~~~~~~~-~~~--~~~~~c~~~-~~~W~~g 277 (458)
+. +++++|||||++|+|++++...+ .++ +.+..|.+. ..+|+.|
T Consensus 242 ~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~~~~~~~~~~~~~~~C~~~~~~~W~~G 317 (372)
T cd06387 242 ENPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLRRQRVDVSRRGSAGDCLANPAVPWSQG 317 (372)
T ss_pred CCchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhcCCCcccCCCCCCcCCCCCCCccch
Confidence 51 47999999999999999986542 111 233489653 4578888
No 30
>cd06391 PBP1_iGluR_delta_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are closer related to non-NMDA receptors. GluRdelta2 was shown to function as a
Probab=99.97 E-value=3.3e-29 Score=249.65 Aligned_cols=259 Identities=15% Similarity=0.246 Sum_probs=194.8
Q ss_pred cccccccccccccceEEEE--eeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEee--
Q psy17441 2 FQHINFDIQYVNKGVTFSA--TGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGI-- 77 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~--~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~-- 77 (458)
+++||+++.++ |+.+|.+ +..+. .+++.+...+|+.+ +++|.|||| |.++. .+..++.+|+.++||+|++
T Consensus 21 i~~iN~~~~~l-~~~~l~~~~~~~d~-~d~f~a~~~~c~l~-~~gv~ai~G--p~~~~-~~~~v~~~~~~~~vP~i~~~~ 94 (400)
T cd06391 21 VADLNQNNEIL-QTEKITVSVTFVDG-NNPFQAVQEACELM-NQGILALVS--SIGCT-SAGSLQSLADAMHIPHLFIQR 94 (400)
T ss_pred HHHhcCCcccc-CCCcceEEEEEeeC-CCcHHHHHHHHHHH-hCCeEEEEC--CCcch-HHHHHHHHhccCcCCeEEeec
Confidence 67899777777 9986665 45544 58899999999977 899999999 75553 6788999999999999985
Q ss_pred --ecCC-----CCCCC-CccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCccee
Q psy17441 78 --SSRD-----SAFSD-KNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEI 149 (458)
Q Consensus 78 --~a~~-----~~ls~-~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~ 149 (458)
.+++ +.+++ +..||+++| |+ ..+.+++++++++|+|++++++|+ +++|...++.+.+.++++|+||
T Consensus 95 ~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~li~~f~W~~v~i~~d-~~~~~~~l~~l~~~~~~~~i~I-- 168 (400)
T cd06391 95 STAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRVVTEYAWQKFIIFYD-TDYDIRGIQEFLDKVSQQGMDV-- 168 (400)
T ss_pred ccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHHHHHcCCcEEEEEEe-CCccHHHHHHHHHHHHHcCCeE--
Confidence 4332 23433 556788887 54 678899999999999999998655 5588899999999999988554
Q ss_pred eEEEEEEEEeCCC-c----ccHHH-HHHHHHh--ccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCCC
Q psy17441 150 KVQVEAVIEFEPG-L----TTFKD-QLYEMKN--AQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNV 221 (458)
Q Consensus 150 ~~~v~~~~~~~~~-~----~d~~~-~l~~ik~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~ 221 (458)
... ..... . ..++. .+++|++ ++.|+||++|+.+.+..++++|+++||++++|+||++++.....++
T Consensus 169 ----~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~~~~~~ll~~a~~~gm~~~~y~wi~t~~~~~~~dl 243 (400)
T cd06391 169 ----ALQ-KVENNINKMITGLFRTMRIEELNRYRDTLRRAILVMNPATAKSFITEVVETNLVAFDCHWIIINEEISDMDV 243 (400)
T ss_pred ----EEE-ecCcchhhhhHHHHHHHHHHHHHhhcccccEEEEECCcHHHHHHHHHHHHcCCCCCCeEEEEeCcccccccc
Confidence 321 11111 1 12222 4456665 6789999999999999999999999999999999999997655432
Q ss_pred -------CCeeEEEEecCCC-------------------------------chhHHHHHHHHHHHHHHHHHhhcC-cccC
Q psy17441 222 -------PVGIIGLKLVNAT-------------------------------NEDAHIRDSIYVLTSALKEMNQSA-VITE 262 (458)
Q Consensus 222 -------~~g~~g~~~~~~~-------------------------------~~~~~~yDAv~~la~Al~~~~~~~-~~~~ 262 (458)
..|+.|++++.+. .+++++|||||++|+|++++.+.+ .+..
T Consensus 244 ~~~~~~~~~~v~~~r~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~alayDaV~~~A~A~~~l~~~~~~~~~ 323 (400)
T cd06391 244 QELVRRSIGRLTIIRQTFPLPQNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYIYDTVLLLANAFHKKLEDRKWHSM 323 (400)
T ss_pred chHHhcccceEEEeccCCchHHHHHHHHHHHhhhccccccCccccccccccchhhHHHHHHHHHHHHHHHHHhhccccCC
Confidence 4577777753321 258999999999999999986432 3344
Q ss_pred CCcccCC-CCcccccC
Q psy17441 263 APQDCDN-SGSIWETG 277 (458)
Q Consensus 263 ~~~~c~~-~~~~W~~g 277 (458)
...+|.. +..+|+.|
T Consensus 324 ~~~~c~~~~~~~w~~G 339 (400)
T cd06391 324 ASLSCIRKNSKPWQGG 339 (400)
T ss_pred CCcccccCCCCCCCCh
Confidence 4567875 34578888
No 31
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=99.97 E-value=1.5e-29 Score=254.08 Aligned_cols=246 Identities=14% Similarity=0.127 Sum_probs=189.6
Q ss_pred CcccccccccccccceEEEEeeeeeC----CCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEe
Q psy17441 1 MFQHINFDIQYVNKGVTFSATGIQMD----PNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIG 76 (458)
Q Consensus 1 ~v~eIN~~~~~l~~~~~l~~~~~~~~----~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is 76 (458)
++|+||++++++ +|++|++...|+. |.+..+...++.....+++.+||| |.||. ++.+++++++.++||+|+
T Consensus 27 AieeiN~~g~il-~g~~l~~~~~D~~~~~~~~~~~~~~~~~~~~~~~~v~aviG--p~~S~-~~~av~~i~~~~~iP~Is 102 (399)
T cd06384 27 AVERIQNKGKLL-RGYTITLLNKSSELNGGCSESLAPLHAVDLKLYSDPDVFFG--PGCVY-PTASVARFATHWRLPLIT 102 (399)
T ss_pred HHHHHhccCCcC-CCceEEEEEeccCCccccchhhhHHHHHHHHhhcCCCEEEC--CCCch-HHHHHHHHHhhcCCcEEe
Confidence 378999776666 8999999976654 444333322222222577889999 99997 999999999999999999
Q ss_pred eecCCCCCCCC-ccccceeecCCCchhHHHHHHHHHHhcCCe-EEEEEEecCcchh----HHHHHHHHhhhccCCcceee
Q psy17441 77 ISSRDSAFSDK-NIHVSFLRTVPPYSHQADVWVELLKHFNYM-KVIFIHSSDTDGR----ALLGRFQTTSQNQEDDVEIK 150 (458)
Q Consensus 77 ~~a~~~~ls~~-~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~-~v~ii~~~d~~g~----~~~~~l~~~l~~~gi~v~~~ 150 (458)
++++++.++++ ..||++||+.|++..++.++..++++|+|+ ++++||.++..+. ...+.+.+.+++.|+
T Consensus 103 ~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaiiy~~~~~~~~~~~~~~~~~~~~~~~~gi----- 177 (399)
T cd06384 103 AGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALLYLDLKTDDRPHYFISEGVFLALQEENA----- 177 (399)
T ss_pred eccchhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEEEecCCccCCcceEehHHHHHHHHhcCc-----
Confidence 99999999876 579999999999999999988999999999 6889987542211 134567777887774
Q ss_pred EEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC-----------
Q psy17441 151 VQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK----------- 219 (458)
Q Consensus 151 ~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~----------- 219 (458)
++........+..|+..+|+++|+ ++|+|+++++..++..+++||+++|+++++|+||..+.+....
T Consensus 178 -~v~~~~~~~~~~~d~~~~l~~ik~-~~~vIi~~~~~~~~~~i~~qa~~~g~~~~~y~~i~~d~~~~~~~~~~~~~~~~~ 255 (399)
T cd06384 178 -NVSAHPYHIEKNSDIIEIIQFIKQ-NGRIVYICGPLETFLEIMLQAQREGLTPGDYVFFYLDVFGESLRVKSPRESYKQ 255 (399)
T ss_pred -eEEEEEEeccchhhHHHHHHHHhh-cccEEEEeCCchHHHHHHHHHHHcCCCCCcEEEEEehhcccccccCCCCccccC
Confidence 334333344567899999999997 8999999999999999999999999999999999877533110
Q ss_pred ----------CCCCeeEEEEecCCC-----------------------------chhHHHHHHHHHHHHHHHHHhhc
Q psy17441 220 ----------NVPVGIIGLKLVNAT-----------------------------NEDAHIRDSIYVLTSALKEMNQS 257 (458)
Q Consensus 220 ----------~~~~g~~g~~~~~~~-----------------------------~~~~~~yDAv~~la~Al~~~~~~ 257 (458)
...++++++....+. .+++++||||+++|.|++++.++
T Consensus 256 ~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~~~~aa~~YDav~l~a~Al~~~~~~ 332 (399)
T cd06384 256 MNHSSWTVLKEAFKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLMNFIAGCFYDGVMLYAMALNETLAE 332 (399)
T ss_pred CCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchHhhhhhhhHHHHHHHHHHHHHHHhc
Confidence 024566666544331 12678999999999999998654
No 32
>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=99.97 E-value=5.3e-29 Score=246.53 Aligned_cols=257 Identities=15% Similarity=0.250 Sum_probs=196.3
Q ss_pred cccccccccccccceEEEEe-eeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSAT-GIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~-~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
++.+|.+...+.++.+|.+. ..-+..++++....+|+++ ++||.||+| |.+|. ++.+++++|+.++||+|+++++
T Consensus 21 ~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~-~~gV~AI~G--p~ss~-~~~~v~~i~~~~~IP~I~~~~~ 96 (371)
T cd06388 21 IFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQY-SRGVFAIFG--LYDKR-SVHTLTSFCSALHISLITPSFP 96 (371)
T ss_pred HHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHH-hCCceEEEe--cCCHH-HHHHHHHHhhCCCCCeeecCcc
Confidence 45677555444234677776 4456778999999999977 999999999 99886 9999999999999999998764
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
+ ...+.+.+++.|+ +..++++++++|+|+++++||+++ +|...++.|.+.+++.|+. +......+
T Consensus 97 ----~-~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiYd~~-~~~~~lq~l~~~~~~~g~~------v~~~~~~~ 161 (371)
T cd06388 97 ----T-EGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLYDTD-RGYSILQAIMEKAGQNGWQ------VSAICVEN 161 (371)
T ss_pred ----c-cCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEecCC-ccHHHHHHHHHhhHhcCCe------eeeEEecc
Confidence 1 2234555666666 568888899999999999999644 4556789999999988733 33222222
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCCC------CCeeEEEEecCCC
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNV------PVGIIGLKLVNAT 234 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~------~~g~~g~~~~~~~ 234 (458)
.+..|++.+|++||++++++||++|+++.+..|++||+++||+.++|+||+++....+.++ ..++.|+++.++.
T Consensus 162 ~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l~~~~~g~~nitg~~~~~~~ 241 (371)
T cd06388 162 FNDASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYIIANLGFKDISLERFMHGGANVTGFQLVDFN 241 (371)
T ss_pred CCcHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEEEccCccccccHHHHhccCCceEEEEeecCC
Confidence 3356999999999999999999999999999999999999999999999999975444432 2337788776432
Q ss_pred ---------------------------chhHHHHHHHHHHHHHHHHHhhcCcc---cCCCcccCCC-CcccccC
Q psy17441 235 ---------------------------NEDAHIRDSIYVLTSALKEMNQSAVI---TEAPQDCDNS-GSIWETG 277 (458)
Q Consensus 235 ---------------------------~~~~~~yDAv~~la~Al~~~~~~~~~---~~~~~~c~~~-~~~W~~g 277 (458)
..++++||||+++|.|++++...... .+++.+|... ..+|+.|
T Consensus 242 ~~~v~~~~~~~~~~~~~~~~~~~~~~~~~aAl~YDaV~l~a~A~~~l~~~~~~~~~~~~~~~C~~~~~~~w~~G 315 (371)
T cd06388 242 TPMVTKLMQRWKKLDQREYPGSESPPKYTSALTYDGVLVMAEAFRNLRRQKIDISRRGNAGDCLANPAAPWGQG 315 (371)
T ss_pred ChhHHHHHHHHHhcCccccCCCCCCccchHHHHHHHHHHHHHHHHHHHhcCCCcccCCCCCCcCCCCCCCCccc
Confidence 25789999999999999998543211 1234589653 3578888
No 33
>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=99.97 E-value=1.5e-29 Score=249.96 Aligned_cols=223 Identities=23% Similarity=0.340 Sum_probs=194.4
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRD 81 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~ 81 (458)
+|+||++++++ +|++|+++.+|+.+++..++..+++.+.+++|.+||| |.||. .+.++++++..++||+|++++++
T Consensus 25 v~~iN~~gg~~-~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~~v~~viG--~~~s~-~~~a~~~~~~~~~ip~i~~~~~~ 100 (350)
T cd06366 25 LEDVNADNSIL-PGYRLVLHVRDSKCDPVQAASAALDLLENKPVVAIIG--PQCSS-VAEFVAEVANEWNVPVLSFAATS 100 (350)
T ss_pred HHHHhcCCCcC-CCcEEEEEecCCCCCHHHHHHHHHHHhccCCceEEEC--CCcHH-HHHHHHHHhhcCCeeEEeccCCC
Confidence 68999666566 8999999999999999887777766554569999999 88886 89999999999999999999999
Q ss_pred CCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC
Q psy17441 82 SAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP 161 (458)
Q Consensus 82 ~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~ 161 (458)
+.++++..+|++||+.|++..++.++++++++++|+++++|+.+++||....+.+++.+++.| +++.....++.
T Consensus 101 ~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~g------~~v~~~~~~~~ 174 (350)
T cd06366 101 PSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKFGWRRVATIYEDDDYGSGGLPDLVDALQEAG------IEISYRAAFPP 174 (350)
T ss_pred ccccccccCCceEEcccchHhHHHHHHHHHHHCCCcEEEEEEEcCcccchhHHHHHHHHHHcC------CEEEEEeccCC
Confidence 988777778999999999999999999999999999999999999999999999999999988 45555555665
Q ss_pred C--cccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc-----C-------CCCCeeEE
Q psy17441 162 G--LTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA-----K-------NVPVGIIG 227 (458)
Q Consensus 162 ~--~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~-----~-------~~~~g~~g 227 (458)
+ ..|+...+++|+++++|+|++++...++..++++++++|+++++++|+.++.+... . ...+|+++
T Consensus 175 ~~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~gv~~ 254 (350)
T cd06366 175 SANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMMGKGYVWILTDWLSSNWWSSSDCTDEEMLEAMQGVIG 254 (350)
T ss_pred CCChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCcCCCEEEEECcchhhhhccCCCCChHHHHHhhceEEE
Confidence 4 57999999999999999999999999999999999999998888999999865432 1 23788998
Q ss_pred EEecCCC
Q psy17441 228 LKLVNAT 234 (458)
Q Consensus 228 ~~~~~~~ 234 (458)
+.++.+.
T Consensus 255 ~~~~~~~ 261 (350)
T cd06366 255 VRSYVPN 261 (350)
T ss_pred Eeecccc
Confidence 8876553
No 34
>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=99.97 E-value=1.3e-28 Score=244.14 Aligned_cols=253 Identities=15% Similarity=0.266 Sum_probs=199.5
Q ss_pred cccccccccccccceEEEEe-eeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSAT-GIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~-~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
++.+|. ++.+|..+ ..-+..|+++....+|+++ ++||.||+| |.+|. ++.+++++|+.++||+|+++++
T Consensus 21 ~~~~n~------~~~~l~~~~~~~~~~dsf~~~~~~C~~~-~~GV~AI~G--p~ss~-~~~~v~~i~~~~~IP~I~~~~~ 90 (370)
T cd06389 21 MVQFST------SEFRLTPHIDNLEVANSFAVTNAFCSQF-SRGVYAIFG--FYDKK-SVNTITSFCGTLHVSFITPSFP 90 (370)
T ss_pred HHHhcc------cCceeeeeeEEecccchHHHHHHHHHHh-hcCcEEEEe--cCCHH-HHHHHHHhhccCCCCeeeecCC
Confidence 466772 24567665 4446779999999999977 999999999 99886 9999999999999999998765
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEE--E
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVI--E 158 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~--~ 158 (458)
. + ..|++.+++.|+ ...++++++++|+|++|+++|+ ++||...++.+.+.+++.|..| +..... .
T Consensus 91 ~----~-~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailYd-sd~gl~~lq~l~~~~~~~g~~V----~~~~~~~i~ 157 (370)
T cd06389 91 T----D-GTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYLYD-SDRGLSTLQAVLDSAAEKKWQV----TAINVGNIN 157 (370)
T ss_pred C----C-CCCceEEEecch---hhhHHHHHHHhcCCcEEEEEec-CchHHHHHHHHHHhhccCCceE----EEEEeecCC
Confidence 2 2 246888899988 5789999999999999999998 5599999999999999887332 211111 1
Q ss_pred eCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCCC------CCeeEEEEecC
Q psy17441 159 FEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNV------PVGIIGLKLVN 232 (458)
Q Consensus 159 ~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~------~~g~~g~~~~~ 232 (458)
.+.+..|++.+|++||+.++++|++.|+.+++..+++||+++||++++|+||+++....+.++ ..++.|++..+
T Consensus 158 ~~~~~~d~~~~L~~ik~~~~~~Iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l~~~~~~~~nitg~~~~~ 237 (370)
T cd06389 158 NDRKDEAYRSLFQDLENKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDGDLSKIQFGGANVSGFQIVD 237 (370)
T ss_pred CccchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHhCccccceEEEEccCCccccchhhhccCCcceEEEEEec
Confidence 223456999999999999999999999999999999999999999999999998864444332 34677887654
Q ss_pred CC----------------------------chhHHHHHHHHHHHHHHHHHhhcC-cc--cCCCcccCCC-CcccccC
Q psy17441 233 AT----------------------------NEDAHIRDSIYVLTSALKEMNQSA-VI--TEAPQDCDNS-GSIWETG 277 (458)
Q Consensus 233 ~~----------------------------~~~~~~yDAv~~la~Al~~~~~~~-~~--~~~~~~c~~~-~~~W~~g 277 (458)
+. ..++++||||+++|.|++++...+ .+ .+++.+|.+. ..+|+.|
T Consensus 238 ~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~~~~~~~~C~~~~~~~w~~G 314 (370)
T cd06389 238 YDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEISRRGNAGDCLANPAVPWGQG 314 (370)
T ss_pred CCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCcccCCCCCCcCCCCCCCCCCc
Confidence 32 257899999999999999985432 11 1234589753 4568887
No 35
>cd06383 PBP1_iGluR_AMPA_Like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excitatory synaptic current.
Probab=99.96 E-value=1.2e-27 Score=236.31 Aligned_cols=251 Identities=12% Similarity=0.160 Sum_probs=181.6
Q ss_pred cccccccccccccceEEEEeeee-------eCCCHHHHHHHHHHHhhcCCe--EEEEEeCCCCCCCchHHHHHhhcccCC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQ-------MDPNPILTALSVCKFLISERV--YAVIVSHPLTGDLSPAAVSYTSGFYHI 72 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~-------~~~~~~~~~~~~~~~l~~~~V--~aiIG~~~~~s~~~~~~~~~i~~~~~i 72 (458)
++.+|+++ +.+|.....+ +..+.+.+..++|+++ ++++ .|||| |.++. .+.+++.+++.++|
T Consensus 22 v~~~N~~~-----~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~-~~gv~~~AIiG--p~ss~-~a~~V~si~~~~~I 92 (368)
T cd06383 22 LSYINRNI-----GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKA-DSAIVPHLVLD--TTTCG-DASEIKSVTGALGI 92 (368)
T ss_pred HHHHhcCC-----CCceEEEEecccccccccCCcHHHHHHHHHHHH-HccCCcEEEEC--CCcch-hHHHHHHHHhccCC
Confidence 56678553 4444444222 3345666667788876 7777 89999 88775 88889999999999
Q ss_pred cEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHH-HHHHhhhccCCcceeeE
Q psy17441 73 PVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLG-RFQTTSQNQEDDVEIKV 151 (458)
Q Consensus 73 P~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~-~l~~~l~~~gi~v~~~~ 151 (458)
|+|+++..+ .++ .+||+++|+.|++..+.+|+++++++|+|++|++||++++++..... .+++.....+ .
T Consensus 93 P~Is~s~~~--~~~-~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl~~~l~~~l~~~~~~~~------~ 163 (368)
T cd06383 93 PTFSASYGQ--EGD-LEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVMDHKYKSLLQNWPTRHV------I 163 (368)
T ss_pred CEEEccCCC--cCc-ccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchhhHHHHHHHHhHHhcCC------E
Confidence 999986542 222 36899999999999999999999999999999999987764432333 3333233222 3
Q ss_pred EEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh-hhHHHHHHHHHhcCCcccceEEEeeccccccCCC------CCe
Q psy17441 152 QVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK-QDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNV------PVG 224 (458)
Q Consensus 152 ~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~-~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~------~~g 224 (458)
++. +....++.+.+++|++++.+.||+.|.. +.+..++++|.++||++++|+||+++......++ ..+
T Consensus 164 ~v~-----~~~~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~dl~~~~~~~~N 238 (368)
T cd06383 164 TII-----NSIIDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIYDDLSCQLRNAS 238 (368)
T ss_pred EEE-----eccchhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhhhhhhhccccCc
Confidence 322 1234578999999999988666666664 9999999999999999999999999997654322 567
Q ss_pred eEEEEecCCC-------------------------chhHHHHHHHHHHHHHHHHHhhcCcccCCCcccCCCCcccccCCc
Q psy17441 225 IIGLKLVNAT-------------------------NEDAHIRDSIYVLTSALKEMNQSAVITEAPQDCDNSGSIWETGKP 279 (458)
Q Consensus 225 ~~g~~~~~~~-------------------------~~~~~~yDAv~~la~Al~~~~~~~~~~~~~~~c~~~~~~W~~g~~ 279 (458)
+.|+++.... ..++++||||++++.|++++... .....|.+...+|..|.+
T Consensus 239 itgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~----~~~~~~~~~~~~~~~g~~ 314 (368)
T cd06383 239 IFVTRPMMDYQSSVRGALLRTDEPTLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKK----RVEDGSTGTSVLPGFGIS 314 (368)
T ss_pred EEEeeccccchhhhccceeeccCCccCchhHHHHHHHHHHHHHHHHHhccccchhhee----eccCCCcCccccCCCCCC
Confidence 8888884221 14899999999999999988421 123356554445666643
No 36
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=99.96 E-value=2.9e-28 Score=236.36 Aligned_cols=218 Identities=18% Similarity=0.193 Sum_probs=170.1
Q ss_pred cccccccccccccceEEEEeeeeeCCCHH-HHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPI-LTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~-~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++||++++.+ ++.+|.++..|+..++. +.+..+|+.+ ++||.|||| |.+|..++.+++++|+..+||+|+++..
T Consensus 24 v~~iN~~~~~~-~~~~l~~~~~d~~~d~~f~~~~~~~~~l-~~gV~AIiG--p~ss~~~~~~v~~i~~~~~VP~Is~~~~ 99 (333)
T cd06394 24 RERINRAPERL-GKARVEVDIFELLRDSQYETTDTMCQIL-PKGVVSVLG--PSSSPASSSIVSHICGEKEIPHFKVGPE 99 (333)
T ss_pred HHHhccCcccc-CCceeEEEEeeccccChHHHHHHHHHHH-hcCeEEEEC--CCCchHHHHHHHHHhhccCCceEEeccc
Confidence 68999776665 77789998777777654 7788889877 889999999 9888413569999999999999998754
Q ss_pred C-CCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe
Q psy17441 81 D-SAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF 159 (458)
Q Consensus 81 ~-~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~ 159 (458)
. |.+. ..+|++ .++.|++..+.+|+++++++|||++|++||+++++ +..|++.++..++ ....+. ...
T Consensus 100 ~~~~~~-~~~~~~-i~l~P~~~~~~~Ai~dli~~~~W~~v~~iYe~d~~----l~~L~~~l~~~~~---~~~~i~-~~~- 168 (333)
T cd06394 100 ETPKLQ-YLRFAS-VNLHPSNEDISVAVAGILNSFNYPTASLICAKAEC----LLRLEELLRQFLI---SKETLS-VRM- 168 (333)
T ss_pred cCcccc-cccceE-EEecCCHHHHHHHHHHHHHhcCCCEEEEEEeCcHH----HHHHHHHHHhhcc---cCCcee-eEE-
Confidence 3 2222 223334 89999999999999999999999999999999987 4555666654331 111111 111
Q ss_pred CCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCCC------CCeeEEEEecCC
Q psy17441 160 EPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNV------PVGIIGLKLVNA 233 (458)
Q Consensus 160 ~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~------~~g~~g~~~~~~ 233 (458)
..+..|++.+|++|+++++|+||++|+.+.+..++++|+++||+.+.|+|++|+....+.++ ..++.|+++.++
T Consensus 169 ~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lGm~~~~y~~i~T~l~~~~~~L~~~~~~~~niTgF~l~d~ 248 (333)
T cd06394 169 LDDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKASELGMTSAFYKYILTTMDFPLLRLDSIVDDRSNILGFSMFNQ 248 (333)
T ss_pred ccCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcCCCCCceEEEEecCCcccccHHHhhcCCcceEEEEeecC
Confidence 22567899999999999999999999999999999999999999999999999987654332 455778887766
Q ss_pred C
Q psy17441 234 T 234 (458)
Q Consensus 234 ~ 234 (458)
+
T Consensus 249 ~ 249 (333)
T cd06394 249 S 249 (333)
T ss_pred C
Confidence 5
No 37
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=99.96 E-value=5.6e-28 Score=236.41 Aligned_cols=216 Identities=20% Similarity=0.265 Sum_probs=175.1
Q ss_pred CcccccccccccccceEEEEeeeeeC-CCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeec
Q psy17441 1 MFQHINFDIQYVNKGVTFSATGIQMD-PNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISS 79 (458)
Q Consensus 1 ~v~eIN~~~~~l~~~~~l~~~~~~~~-~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a 79 (458)
++|+||+++|++ +|++|+++..|++ +++..+...+|+.+ +++|.|||| |.+|+ .+.+++++++.++||+|++++
T Consensus 21 Av~~iN~~ggil-~g~~l~~~~~d~~~~~~~~a~~~~~~li-~~~V~aiiG--~~~S~-~~~av~~~~~~~~vP~Is~~~ 95 (327)
T cd06382 21 AIDRINREKELL-ANTTLEYDIKRVKPDDSFETTKKVCDLL-QQGVAAIFG--PSSSE-ASSIVQSICDAKEIPHIQTRW 95 (327)
T ss_pred HHHHhccccccc-CCceEEEEEEEecCCCcHHHHHHhhhhh-hcCcEEEEC--CCChh-HHHHHHHHHhccCCCceeccC
Confidence 378999777766 8999999977777 77878777777755 569999999 98886 899999999999999999998
Q ss_pred CCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe
Q psy17441 80 RDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF 159 (458)
Q Consensus 80 ~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~ 159 (458)
+++.++ .++++||+.|++..++.++++++++++|++++++|++++++.. +++.+++.|.+ +..+. ...+
T Consensus 96 ~~~~~~---~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~~~----l~~~~~~~~~~---g~~v~-~~~~ 164 (327)
T cd06382 96 DPEPKS---NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGLLR----LQELLQAFGIS---GITIT-VRQL 164 (327)
T ss_pred CcCccc---cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHHHH----HHHHHHhhccC---CCeEE-EEEc
Confidence 888776 3478999999999999999999999999999999999886544 44555544421 11222 2345
Q ss_pred CCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCCC------CCeeEEEEecCC
Q psy17441 160 EPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNV------PVGIIGLKLVNA 233 (458)
Q Consensus 160 ~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~------~~g~~g~~~~~~ 233 (458)
+.+. |++.+|++|++.++|+|++.+...++..++++|+++|++++.++|++++......++ ..++.++++..+
T Consensus 165 ~~~~-d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~~~~~~~~l~~~~~~~~~~~~~~~~~~ 243 (327)
T cd06382 165 DDDL-DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMSEYYHYIITNLDLHTLDLEDYRYSGVNITGFRLVDP 243 (327)
T ss_pred cCCc-cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccccceEEEEecCCccccchhhhccCceeEEEEEEecC
Confidence 5555 999999999999999999999999999999999999999988999998875544321 346777766544
No 38
>KOG1052|consensus
Probab=99.96 E-value=2.5e-27 Score=252.34 Aligned_cols=164 Identities=30% Similarity=0.609 Sum_probs=148.1
Q ss_pred CcceeeecCChhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccccccchhHHHHHHHhhccCCCCCCCCchh
Q psy17441 284 TLVSFLQPFSNTLWILVMVSVHVVALVLYLLDRFSPFGRFRLSNSDNTEEDALNLSSAIWFAWGVLLNSGIGEGTPRSFS 363 (458)
Q Consensus 284 ~~~~fl~pf~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~l~~~g~~~~~p~s~~ 363 (458)
..|.|++||+++||++++++++++++++|+++|++|+++ +. + ......+++.+++|++++++++|| ++..|++.+
T Consensus 332 ~~~~fl~Pf~~~vW~~i~~~~l~~~~~~~~~~~~~~~~~-~~-~--~~~~~~~~~~~~~~~~~~~~~~q~-~~~~p~~~~ 406 (656)
T KOG1052|consen 332 KLWNFLAPFSPEVWLLILASLLLVGLLLWILERLSPYEL-PP-R--QIVTSLFSLLNCLWLTVGSLLQQG-SDEIPRSLS 406 (656)
T ss_pred cceEEecCCcHHHHHHHHHHHHHHHHHHHHHhccccccC-Cc-c--ccceeEeecccchhhhhHHHhccC-CCccccchh
Confidence 389999999999999999999999999999999999988 22 2 113456677889999999999999 579999999
Q ss_pred hHHHHHHHHHHHHHHHhhcccceeEEeeeccCCCCCCChhhhhhcCCCCceEEEEeCCChHHHHHhhchhhHHHHHHHHH
Q psy17441 364 ARVLGMVWAGFAMIIVASYTANLAAFLVLERPKTKLTGINDARLRNTMENLTCATVKGSAVDMYFRRQVELSNMYRTMEA 443 (458)
Q Consensus 364 ~Ri~~~~w~~~~~i~~~~yta~l~s~lt~~~~~~~i~~~~dL~~~~~~~~~~~g~~~~s~~~~~~~~~~~~~~~~~~~~~ 443 (458)
+|++.++|||+++|++++|||||+|+||++++.+||++++||+ +++++.+|...+++...||+++ .+||..+..
T Consensus 407 ~Rll~~~w~~~~lil~ssYTa~L~a~Lt~~~~~~~i~~~~dL~---~~~~~~~g~~~~~~~~~~~~~~---~~~~~~~~~ 480 (656)
T KOG1052|consen 407 TRLLLGAWWLFVLILISSYTANLTAFLTVPRLRSPIDSLDDLA---DQSNIPYGTQRGSFTRIYLEES---EDMWAFKVS 480 (656)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCcccCHHHHH---HhcCCeEEEEecchHHHHHHHH---HHHHhhhcc
Confidence 9999999999999999999999999999999999999999998 3689999999999999999997 678877766
Q ss_pred ---cCCCCHHHHHHHhhC
Q psy17441 444 ---NNYDTAEDAIADVKI 458 (458)
Q Consensus 444 ---~~~~~~~~gi~~v~~ 458 (458)
..+.+.+||++|+++
T Consensus 481 ~~~~~~~~~~e~~~~v~~ 498 (656)
T KOG1052|consen 481 QRSVPLASPEEGVERVRK 498 (656)
T ss_pred CCCccCCCHHHHHHHHHc
Confidence 359999999999974
No 39
>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=99.95 E-value=5.2e-27 Score=228.01 Aligned_cols=234 Identities=14% Similarity=0.143 Sum_probs=198.2
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHH-HHhhcccCCcEEeeec
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAV-SYTSGFYHIPVIGISS 79 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~-~~i~~~~~iP~Is~~a 79 (458)
+++||+ .|++ .|++|++..+|+.+++..++.. +++|++ ++|.+||| +.+|. .+.++ +++++..++|+|++++
T Consensus 27 ~~~iN~-~ggi-~G~~iel~~~D~~~~p~~a~~~-a~~li~~~~v~~viG--~~~s~-~~~a~~~~~~~~~~vp~i~~~~ 100 (312)
T cd06346 27 VKEVNA-AGGV-LGEPVTLVTADTQTDPAAGVAA-ATKLVNVDGVPGIVG--AACSG-VTIAALTSVAVPNGVVMISPSS 100 (312)
T ss_pred HHHHHH-hCCC-CCceEEEEECCCCCCHHHHHHH-HHHHHhhcCCCEEEc--cccch-hhHhhhhhhhccCCcEEEecCC
Confidence 689995 4556 7999999999999998765555 555665 69999999 88886 88888 9999999999999999
Q ss_pred CCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe
Q psy17441 80 RDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF 159 (458)
Q Consensus 80 ~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~ 159 (458)
+++.++++..++++||+.|++..++.+++++++.++|+++++|+.+++||+.....+++.+++.| +++.....+
T Consensus 101 ~~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~vail~~~~~~g~~~~~~~~~~~~~~G------~~vv~~~~~ 174 (312)
T cd06346 101 TSPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSVATTYINNDYGVGLADAFTKAFEALG------GTVTNVVAH 174 (312)
T ss_pred CCccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeEEEEEccCchhhHHHHHHHHHHHHcC------CEEEEEEee
Confidence 99999887767999999999999999999999999999999999999999999999999999988 455566677
Q ss_pred CCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC-------CCCCeeEEEEecC
Q psy17441 160 EPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK-------NVPVGIIGLKLVN 232 (458)
Q Consensus 160 ~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~-------~~~~g~~g~~~~~ 232 (458)
+.+..|+...++++++.++|+|++.+...++..++++++++|+. ..|+.++.+.... ...+|+++..+..
T Consensus 175 ~~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~---~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 251 (312)
T cd06346 175 EEGKSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLF---DKFLLTDGMKSDSFLPADGGYILAGSYGTSPGA 251 (312)
T ss_pred CCCCCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCC---CceEeeccccChHHHHhhhHHHhCCcEEccCCC
Confidence 78889999999999999999999999999999999999999995 4577766543321 2357887765543
Q ss_pred CC-------------------chhHHHHHHHHHHHHH
Q psy17441 233 AT-------------------NEDAHIRDSIYVLTSA 250 (458)
Q Consensus 233 ~~-------------------~~~~~~yDAv~~la~A 250 (458)
+. ..++.+||+++++++|
T Consensus 252 ~~~~~~~f~~~~~~~~g~~p~~~~~~~Yd~~~~l~~A 288 (312)
T cd06346 252 GGPGLEAFTSAYKAAYGESPSAFADQSYDAAALLALA 288 (312)
T ss_pred CchhHHHHHHHHHHHhCCCCCccchhhHHHHHHHHHH
Confidence 22 2478999999999999
No 40
>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=99.94 E-value=5e-26 Score=222.33 Aligned_cols=215 Identities=20% Similarity=0.255 Sum_probs=169.5
Q ss_pred CcccccccccccccceEEEEeeeee-CCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeec
Q psy17441 1 MFQHINFDIQYVNKGVTFSATGIQM-DPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISS 79 (458)
Q Consensus 1 ~v~eIN~~~~~l~~~~~l~~~~~~~-~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a 79 (458)
++|+||+++|++ ++.+|.+...|+ .+++..+...+|+.+ +++|.|||| |.+|. .+.+++++++.++||+|++++
T Consensus 20 Av~~iN~~ggil-~~~~l~~~~~d~~~~~~~~a~~~a~~li-~~~V~aiiG--~~~S~-~~~av~~i~~~~~ip~is~~~ 94 (324)
T cd06368 20 AIDRINTNEEIL-AKFTLVPDIDELNTNDSFELTNKACDLL-SQGVAAIFG--PSSSS-SANTVQSICDALEIPHITTSW 94 (324)
T ss_pred HHHHhccccccc-CCceeeeEEEEecCCChHHHHHHHHHHH-hcCcEEEEC--CCCHH-HHHHHHHHHhccCCCcEEecC
Confidence 378999777766 788888886665 578888888878755 589999999 99886 899999999999999999999
Q ss_pred CCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe
Q psy17441 80 RDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF 159 (458)
Q Consensus 80 ~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~ 159 (458)
+++.++ ..++ ++..|+...++.++++++++++|++++++|++++++ ...+.+.+.+++.| .++......
T Consensus 95 ~~~~~~--~~~~--~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~-~~l~~~~~~~~~~g------~~v~~~~~~ 163 (324)
T cd06368 95 SPNPKP--RQFT--INLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDEGL-LRLQELLDALSPKG------IQVTVRRLD 163 (324)
T ss_pred CcCCCC--Ccce--EEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcHhH-HHHHHHHHhhccCC------ceEEEEEec
Confidence 988776 2234 455577779999999999999999999999877654 44566666677766 344433333
Q ss_pred CCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCC------CCCeeEEEEecC
Q psy17441 160 EPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKN------VPVGIIGLKLVN 232 (458)
Q Consensus 160 ~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~------~~~g~~g~~~~~ 232 (458)
....|++.+|+++++.++|+|++.++..++..++++|+++|+++++++||+++......+ ...++.|+....
T Consensus 164 -~~~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 241 (324)
T cd06368 164 -DDTDMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSEYYHYILTNLDFHTLDLELFRYGGVNITGFRLVD 241 (324)
T ss_pred -CCchHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccCCcEEEEccCCccccchhhhhcCCceEEEEEEec
Confidence 333489999999999999999999999999999999999999988899999886543221 134566665543
No 41
>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=99.94 E-value=5.3e-26 Score=222.23 Aligned_cols=222 Identities=27% Similarity=0.398 Sum_probs=174.8
Q ss_pred cccccccccccccceEEEEeeeee-CCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQM-DPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~-~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++||.+++.+ ++..+.++...- ..++.+++..+|+.+..++|.||+| |.++. .+.+++++++.++||+|+++++
T Consensus 21 i~~iN~~~~~~-~~~~l~~~~~~~~~~d~~~~~~~~c~l~~~~~v~ai~G--~~~s~-~~~~v~~~~~~~~iP~is~~~~ 96 (328)
T cd06351 21 IDALNTENLNA-LPTKLSVEVVEVNTNDPFSLLRAVCDLLVSQGVAAIFG--PTSSE-SASAVQSICDALEIPHISISGG 96 (328)
T ss_pred HHHhccCcccc-CCeeEEEEEEEeCCCChHHHHHHHHHHHhccCcEEEEC--CCCHH-HHHHHHHHhccCCCCeEEeecC
Confidence 57899777665 677776662222 4788898999998776789999999 98886 8899999999999999999998
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
++.++++..+|+++|+.|++..+++++++++++++|+++++||+++++.....+ +.+.....+ ..+. ...++
T Consensus 97 ~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~~~l~~-~~~~~~~~~------~~v~-~~~~~ 168 (328)
T cd06351 97 SEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGLSRLQE-LLDESGIKG------IQVT-VRRLD 168 (328)
T ss_pred cccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHHHHHHH-HHHhhcccC------ceEE-EEEec
Confidence 888887677899999999999999999999999999999999999985433322 222222222 2222 23344
Q ss_pred CCcccHHHHHHHHHhccC-eEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC------CCCCeeEEEEecCC
Q psy17441 161 PGLTTFKDQLYEMKNAQA-RVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK------NVPVGIIGLKLVNA 233 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~-~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------~~~~g~~g~~~~~~ 233 (458)
.+..+++..++++++.++ ++|++++..+++..++++|.++||++++|+||+++...... ....|++|++...+
T Consensus 169 ~~~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~~~~~~d~~~~~~~~~~i~g~~~~~~ 248 (328)
T cd06351 169 LDDDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMMGYGYHWILTNLDLSDIDLEPFQYGPANITGFRLVDP 248 (328)
T ss_pred CCchhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccccCCcEEEEecCCccccchhhhccCCcceEEEEEeCC
Confidence 444479999999999998 55555555489999999999999999999999999876532 24799999999876
Q ss_pred Cc
Q psy17441 234 TN 235 (458)
Q Consensus 234 ~~ 235 (458)
..
T Consensus 249 ~~ 250 (328)
T cd06351 249 DS 250 (328)
T ss_pred Cc
Confidence 53
No 42
>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=4e-25 Score=215.07 Aligned_cols=259 Identities=17% Similarity=0.224 Sum_probs=191.8
Q ss_pred cccccccccccccceEEEEe-eeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCC-CCCCCchHHHHHhhcccCCcEEeeec
Q psy17441 2 FQHINFDIQYVNKGVTFSAT-GIQMDPNPILTALSVCKFLISERVYAVIVSHP-LTGDLSPAAVSYTSGFYHIPVIGISS 79 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~-~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~-~~s~~~~~~~~~i~~~~~iP~Is~~a 79 (458)
++++|.++..+ ++.+|.++ ..-+..|+++.+..+|++|+++||.||+| + .++. .+..+..+|+.++||+|+++.
T Consensus 39 v~~~N~~~~l~-~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~~GV~AIfg--~p~s~~-~~~~v~sic~~l~IP~I~~~~ 114 (382)
T cd06377 39 LARANRAPLLP-YNLSLEVVAAAAPSRDPASLLRSVCQTVVVQGVSALLA--FPQTRP-ELVQLDFVSAALEIPVVSIVR 114 (382)
T ss_pred HHHhccccccc-cCceeEEeEEEcCCCChHHHHHHHHHhHhhCCeEEEEe--cCCCHH-HHHHHHHHhcCCCCCEEEecC
Confidence 57789666555 88999888 55577899999999999977999999999 5 5554 778999999999999999966
Q ss_pred CCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeE-EEEEEEE
Q psy17441 80 RDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKV-QVEAVIE 158 (458)
Q Consensus 80 ~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~-~v~~~~~ 158 (458)
.+....+...+..-.++.|+..+++.|+.+++++|||+++++||+.+.... .|++.++..+. +.. .+.....
T Consensus 115 ~~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~gl~----~lq~l~~~~~~---~~~~~~i~v~~ 187 (382)
T cd06377 115 REFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRERDPT----GLLLLWTNHAR---FHLGSVLNLSR 187 (382)
T ss_pred CcccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCcCHH----HHHHHHHHhcc---cccCceEEEEe
Confidence 543221223222334669999999999999999999999999999987543 34444444331 111 1111222
Q ss_pred eCC---CcccH-HHHHHHHHhcc-CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccc-cc---CCCCCeeEEEE
Q psy17441 159 FEP---GLTTF-KDQLYEMKNAQ-ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQAL-TA---KNVPVGIIGLK 229 (458)
Q Consensus 159 ~~~---~~~d~-~~~l~~ik~~~-~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~-~~---~~~~~g~~g~~ 229 (458)
.+. +..++ +..|++++++. .++|+++|+.+.+..+++++.+. |+||+++... .. ..+..|+++..
T Consensus 188 ~~~~~~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~~------y~wIv~~~~~le~~~~~g~nigLl~~~ 261 (382)
T cd06377 188 NDPSTADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPPG------PHWILGDPLPPEALRTEGLPPGLLAHG 261 (382)
T ss_pred ccCccCChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhccc------eEEEEcCCcChhhccCCCCCceEEEEe
Confidence 221 34455 99999999999 99999999999999999887653 9999998321 11 13456777765
Q ss_pred ecCCCchhHHHHHHHHHHHHHHHHHh---hcCcccCCCcccCCCC-c-ccccC
Q psy17441 230 LVNATNEDAHIRDSIYVLTSALKEMN---QSAVITEAPQDCDNSG-S-IWETG 277 (458)
Q Consensus 230 ~~~~~~~~~~~yDAv~~la~Al~~~~---~~~~~~~~~~~c~~~~-~-~W~~g 277 (458)
........+++||||+++|.|++.+. ....++.++.+|.+.+ . +|+.|
T Consensus 262 ~~~~~~l~ali~DAV~lvA~a~~~l~~~~~~~~l~~~~~~C~~~~~~~~W~~G 314 (382)
T cd06377 262 ETTQPPLEAYVQDALELVARAVGSATLVQPELALIPATVNCMDLPTKGNESSG 314 (382)
T ss_pred ecccccHHHHHHHHHHHHHHHHHHhhhcccccccCCCCCCcccCCCCCCCCch
Confidence 44444558999999999999999874 3456777778998652 3 79998
No 43
>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=99.94 E-value=4.7e-25 Score=217.42 Aligned_cols=239 Identities=15% Similarity=0.143 Sum_probs=174.9
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRD 81 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~ 81 (458)
++++|++ ++. .+..+.+...|+..++.+++..+|+.+ +++|.|||| |.+|. ++.+++++++.++||+|++.+..
T Consensus 23 ~~~iN~~-gg~-~~~~i~~v~~dd~~d~~~a~~~~c~Li-~~gV~AI~G--~~~s~-~~~av~~i~~~~~IP~Is~~~~~ 96 (363)
T cd06381 23 DLNINEQ-ILQ-TEKITLSISFIDLNNHFDAVQEACDLM-NQGILALVT--STGCA-SAIALQSLTDAMHIPHLFIQRGY 96 (363)
T ss_pred Hhhcccc-ccC-CccceeeeEeecCCChHHHHHHHHHHH-hcCcEEEEe--cCChh-HHHHHHHHhhCCCCCEEEeecCc
Confidence 3567844 434 455566677889999999999999876 569999999 88886 99999999999999999976421
Q ss_pred --C------CCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEE
Q psy17441 82 --S------AFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQV 153 (458)
Q Consensus 82 --~------~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v 153 (458)
+ .+.+....+|.|++.|++ .+..++++++++|||++|+++|++++ |....+.+.+.+++.|+. +
T Consensus 97 ~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~~~~wkkvavly~~d~-g~~~l~~~~~~~~~~g~~------v 168 (363)
T cd06381 97 GGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVTEWRWQKFVYFYDNDY-DIRGLQEFLDQLSRQGID------V 168 (363)
T ss_pred CCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHHhCCCeEEEEEEECCc-hHHHHHHHHHHHHhcCce------E
Confidence 1 111221224555666774 68899999999999999999999886 555557777888887732 2
Q ss_pred EEEEEeCCC-cccHHHHHHHHH-------hccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC------
Q psy17441 154 EAVIEFEPG-LTTFKDQLYEMK-------NAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK------ 219 (458)
Q Consensus 154 ~~~~~~~~~-~~d~~~~l~~ik-------~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------ 219 (458)
.. ...+.+ ...+..+++.++ +.+.++||++|+++.+..++++|+++||+.++|+|++++.|....
T Consensus 169 ~~-~~~~~~~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~~~~~l~~a~~~gm~~~~~~wi~~~~l~~~~~~l~~~ 247 (363)
T cd06381 169 LL-QKVDLNISKMATALFTTMRCEELNRYRDTLRRALLLLSPNGAYTFIDASVETNLAIKDSHWFLINEEISDTEIDELV 247 (363)
T ss_pred EE-EecccccchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHHHHHHHHHHHHcCCCcCceEEEEeccccccchhhHHH
Confidence 21 122222 223344444332 445668999999999999999999999998899999888775532
Q ss_pred -CCCCeeEEEEecCCC------------------------------chhHHHHHHHHHHHHHHHHHh
Q psy17441 220 -NVPVGIIGLKLVNAT------------------------------NEDAHIRDSIYVLTSALKEMN 255 (458)
Q Consensus 220 -~~~~g~~g~~~~~~~------------------------------~~~~~~yDAv~~la~Al~~~~ 255 (458)
....|++|+++.++. .+++++|||||++..+|++..
T Consensus 248 ~~~~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~yDaV~~~~~~~~~~~ 314 (363)
T cd06381 248 RYAHGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPKDGYLQMLEISNLYIYDSVLLLLETIKKGP 314 (363)
T ss_pred hhcCccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCCCCCCCChhHHHHHHHHHHHHHHHHHHhcC
Confidence 237999999998542 138999999999955555444
No 44
>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=99.94 E-value=7e-26 Score=217.48 Aligned_cols=226 Identities=35% Similarity=0.440 Sum_probs=187.9
Q ss_pred cccccccccccccceEEEEeeeeeCCCHH---HHHHHHHHHhh-cCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEee
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPI---LTALSVCKFLI-SERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGI 77 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~---~~~~~~~~~l~-~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~ 77 (458)
++++|++ + +|++|++...|+.+++. ..+..+|+.+. .+++.|||| |.++. .+.+++++++.++||+|++
T Consensus 29 ~~~~n~~---~-~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG--~~~s~-~~~~v~~~~~~~~iP~is~ 101 (298)
T cd06269 29 VEEINND---L-PNTTLGYEIYDSCCSPSDAFSAALDLCSLLEKSRGVVAVIG--PSSSS-SAEAVASLLGALHIPQISY 101 (298)
T ss_pred HHHHhcc---C-CCCeeeeEEEecCCChHHHHHHHHHHHhcCCCCCceEEEEC--CCCch-HHHHHHHHhccCCCcEEec
Confidence 4567733 5 89999999777776554 34444444332 268999999 88886 8889999999999999999
Q ss_pred ecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEE
Q psy17441 78 SSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVI 157 (458)
Q Consensus 78 ~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~ 157 (458)
+++++.++++..+|+++|+.|++..+++++++++++++|++++++|+++++|....+.+++.+++.| +++....
T Consensus 102 ~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~~~~~~~~~~~~~~~~~~~~------~~v~~~~ 175 (298)
T cd06269 102 SATSPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSDDDYGRRLLELLEEELEKNG------ICVAFVE 175 (298)
T ss_pred ccCchhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEecchhhHHHHHHHHHHHHHCC------eeEEEEE
Confidence 9999999888788999999999999999999999999999999999999999999999999999876 5556666
Q ss_pred EeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc---C---CCCCeeEEEEec
Q psy17441 158 EFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA---K---NVPVGIIGLKLV 231 (458)
Q Consensus 158 ~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~---~---~~~~g~~g~~~~ 231 (458)
.++....++...++++++.++++|++++..+++..++++++++|++ ++++||.++.|... . ....+.++...
T Consensus 176 ~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~- 253 (298)
T cd06269 176 SIPDGSEDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMM-TGYHWIITDLWLTSCLDLELLEYFPGNLTGFG- 253 (298)
T ss_pred EcCCCHHHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCC-CCeEEEEEChhhccccccCCccccceEEEEEE-
Confidence 6665567899999999999999999999999999999999999998 77999999998753 1 12333333332
Q ss_pred CCCchhHHHHHHHHH
Q psy17441 232 NATNEDAHIRDSIYV 246 (458)
Q Consensus 232 ~~~~~~~~~yDAv~~ 246 (458)
++.++|||+++
T Consensus 254 ----~~~~~~dav~~ 264 (298)
T cd06269 254 ----EAALVYDAVYA 264 (298)
T ss_pred ----eeEeEEEEEEe
Confidence 77889999998
No 45
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.93 E-value=4.7e-25 Score=217.50 Aligned_cols=242 Identities=15% Similarity=0.185 Sum_probs=196.0
Q ss_pred ccccccccc--ccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeec
Q psy17441 2 FQHINFDIQ--YVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISS 79 (458)
Q Consensus 2 v~eIN~~~~--~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a 79 (458)
+++||+++| ++ +|++|+++.+|+..++..+...+++.+.+++|.+|+| +.+|. .+.+++++++.++||+|++++
T Consensus 27 ~~~iN~~GGi~~i-~G~~v~lv~~D~~~~~~~a~~~~~~li~~~~v~aiiG--~~~s~-~~~a~~~~~~~~~ip~i~~~~ 102 (347)
T cd06340 27 VEEINAAGGIKSL-GGAKLELVFGDSQGNPDIGATEAERLITEEGVVALVG--AYQSA-VTLAASQVAERYGVPFVVDGA 102 (347)
T ss_pred HHHHHhcCCccCC-CCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEec--ccchH-hHHHHHHHHHHhCCCEEeccc
Confidence 688996665 35 7899999999999998777766555443459999999 88885 889999999999999999998
Q ss_pred CCCCCCCCccccceeecCCCchhHHHHHHHHHHhcC------CeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEE
Q psy17441 80 RDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFN------YMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQV 153 (458)
Q Consensus 80 ~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~------w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v 153 (458)
+++.++.. .+|++||+.|++..+..++++++.+++ |+++++++++++||....+.+++.+++.| .++
T Consensus 103 ~~~~l~~~-~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~G------~~v 175 (347)
T cd06340 103 VSDSITER-GFKYTFRITPHDGMFTRDMFDFLKDLNEKTGKPLKTVALVHEDTEFGTSVAEAIKKFAKERG------FEI 175 (347)
T ss_pred cchHHhhc-CCceEEecCCChHHHHHHHHHHHHHhhHhcCCCCceEEEEecCchHhHHHHHHHHHHHHHcC------CEE
Confidence 88888744 579999999999999999999998774 59999999999999999999999999988 455
Q ss_pred EEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc------CCCCCeeEE
Q psy17441 154 EAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA------KNVPVGIIG 227 (458)
Q Consensus 154 ~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~------~~~~~g~~g 227 (458)
.....++.+..|+..+++++++.++|+|++.+...++..+++++++.|+..+ .++...++.... ....+|++.
T Consensus 176 v~~~~~~~~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~~~~~~~~~g~~~~g~~~ 254 (347)
T cd06340 176 VEDISYPANARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKEQRVEPK-AVYSVGGGAEDPSFVKALGKDAEGILT 254 (347)
T ss_pred EEeeccCCCCcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCCCCc-EEEecCCCcCcHHHHHHhhHhhheEEe
Confidence 5566677678899999999999999999999999999999999999999752 222222211111 123677777
Q ss_pred EEecCCC---------------------chhHHHHHHHHHHHHHHHHHh
Q psy17441 228 LKLVNAT---------------------NEDAHIRDSIYVLTSALKEMN 255 (458)
Q Consensus 228 ~~~~~~~---------------------~~~~~~yDAv~~la~Al~~~~ 255 (458)
..++.+. ..+...||+++++++|+++.-
T Consensus 255 ~~~~~~~~~~~~~~f~~~y~~~~~~~~~~~~~~~Y~a~~~l~~A~~~ag 303 (347)
T cd06340 255 RNEWSDPKDPMAKDLNKRFKARFGVDLSGNSARAYTAVLVIADALERAG 303 (347)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHHHHhc
Confidence 7655432 247799999999999999763
No 46
>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=99.93 E-value=1.4e-24 Score=212.95 Aligned_cols=237 Identities=16% Similarity=0.148 Sum_probs=197.0
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRD 81 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~ 81 (458)
+++||++ +++ +|+++.+..+|+.+++..+. ..++.|++++|.+||| |.++. .+.+++++++..+||+|++++++
T Consensus 27 ~~~iN~~-ggi-~g~~i~~~~~D~~~~~~~~~-~~~~~li~~~v~aiiG--~~~s~-~~~~~~~~~~~~~ip~i~~~~~~ 100 (334)
T cd06342 27 VEDINAK-GGG-KGVKLELVVEDDQADPKQAV-AVAQKLVDDGVVGVVG--HLNSG-VTIPASPIYADAGIVMISPAATN 100 (334)
T ss_pred HHHHHhc-CCC-CCeEEEEEEecCCCChHHHH-HHHHHHHhCCceEEEC--CCccH-hHHHhHHHHHhCCCeEEecCCCC
Confidence 5789944 566 79999999999999886654 4466677779999999 88886 88899999999999999999887
Q ss_pred CCCCCCccccceeecCCCchhHHHHHHHHH-HhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 82 SAFSDKNIHVSFLRTVPPYSHQADVWVELL-KHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 82 ~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll-~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
+.++++ .||++||+.|++..++.++++++ ++++|++|++++++++||+...+.+++.+++.| .++.....++
T Consensus 101 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~~~~g------~~v~~~~~~~ 173 (334)
T cd06342 101 PKLTER-GYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYGQGLADEFKKALKAAG------GKVVAREGTT 173 (334)
T ss_pred chhhcC-CCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchhhHHHHHHHHHHHHcC------CEEEEEecCC
Confidence 777654 47999999999999999999975 578999999999999999999999999999887 4555666677
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc------CCCCCeeEEEEecCCC
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA------KNVPVGIIGLKLVNAT 234 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~------~~~~~g~~g~~~~~~~ 234 (458)
.+..|+...++++++.++++|++.+...++..+++++++.|+. ..|+.++.+... ....+|++....+.+.
T Consensus 174 ~~~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~---~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 250 (334)
T cd06342 174 DGATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLK---APFMGGDGLCDPEFIKIAGDAAEGTYATFPGGPL 250 (334)
T ss_pred CCCccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCC---CcEEecCccCCHHHHHHhhHhhCCcEEEecCCCC
Confidence 6788999999999999999999999999999999999999996 467776654322 1235777776655432
Q ss_pred ----------------------chhHHHHHHHHHHHHHHHHH
Q psy17441 235 ----------------------NEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 235 ----------------------~~~~~~yDAv~~la~Al~~~ 254 (458)
..+..+|||++++++|+++.
T Consensus 251 ~~~~~~~~f~~~~~~~~~~~~~~~~~~~yda~~~~~~al~~~ 292 (334)
T cd06342 251 EKMPAGKAFVARYKAKFGDPPGAYAPYAYDAANVLAEAIKKA 292 (334)
T ss_pred CCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHHHHHHHHh
Confidence 24679999999999999975
No 47
>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=99.93 E-value=1.9e-24 Score=212.98 Aligned_cols=239 Identities=16% Similarity=0.143 Sum_probs=192.3
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++||++ |++ .|+++++..+|+.+++..+...+++ |++ ++|.+||| |.||. .+.+++++++.++||+|+++++
T Consensus 27 ~~~iN~~-ggi-~g~~v~l~~~D~~~~~~~a~~~~~~-li~~~~v~aiiG--~~~s~-~~~a~~~~~~~~~vp~i~~~~~ 100 (344)
T cd06345 27 AEEINAA-GGI-LGRKVELVFEDTEGSPEDAVRAFER-LVSQDKVDAVVG--GYSSE-VVLALQDVAAENKVPFIVTGAA 100 (344)
T ss_pred HHHHHHc-CCC-CCceEEEEEecCCCCHHHHHHHHHH-HhccCCceEEEC--CcchH-HHHHHHHHHHHcCCcEEeccCC
Confidence 6789954 556 7899999999999998776666544 555 59999999 88886 8899999999999999999998
Q ss_pred CCCCCC---CccccceeecCCCchhHHHHHHHHHHh-----cCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEE
Q psy17441 81 DSAFSD---KNIHVSFLRTVPPYSHQADVWVELLKH-----FNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQ 152 (458)
Q Consensus 81 ~~~ls~---~~~~p~~~r~~p~~~~~~~ai~~ll~~-----~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~ 152 (458)
++.+++ +..+|++||+.|++..+..++++++++ ++|++|++++.+++||+.....+++.+++.| ++
T Consensus 101 ~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g~~~~~~~~~~~~~~G------~~ 174 (344)
T cd06345 101 SPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWGKGIDAGIKALLPEAG------LE 174 (344)
T ss_pred CCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhhhHHHHHHHHHHHHcC------Ce
Confidence 888874 556899999999999999999998876 8999999999999999999999999999987 45
Q ss_pred EEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc-------CCCCCee
Q psy17441 153 VEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA-------KNVPVGI 225 (458)
Q Consensus 153 v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~-------~~~~~g~ 225 (458)
+.....++.+..|+..++++|++.++++|++.+...++..+++++.+.|+.. .++..+.+... ....+|+
T Consensus 175 vv~~~~~~~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (344)
T cd06345 175 VVSVERFSPDTTDFTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVPI---PTIGISVEGNSPAFWKATNGAGNYV 251 (344)
T ss_pred EEEEEecCCCCCchHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCCC---ceEEecCCcCCHHHHHhhchhcceE
Confidence 5555667767789999999999999999999999999999999999999853 23333322111 1224555
Q ss_pred EEEEecCC----C--------------------chhHHHHHHHHHHHHHHHHHh
Q psy17441 226 IGLKLVNA----T--------------------NEDAHIRDSIYVLTSALKEMN 255 (458)
Q Consensus 226 ~g~~~~~~----~--------------------~~~~~~yDAv~~la~Al~~~~ 255 (458)
++.....+ . ..++.+||+++++++|+++.-
T Consensus 252 ~~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~p~~~~~~~yda~~~l~~A~~~ag 305 (344)
T cd06345 252 ITAESGAPGVEAITDKTVPFTEAYEAKFGGPPNYMGASTYDSIYILAEAIERAG 305 (344)
T ss_pred EeecccccCccCCCHHHHHHHHHHHHHhCCCCcccchHHHHHHHHHHHHHHHhc
Confidence 54433221 1 246789999999999999753
No 48
>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=99.93 E-value=1.8e-24 Score=213.23 Aligned_cols=240 Identities=16% Similarity=0.169 Sum_probs=192.9
Q ss_pred ccccccccccc--ccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeee
Q psy17441 2 FQHINFDIQYV--NKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGIS 78 (458)
Q Consensus 2 v~eIN~~~~~l--~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~ 78 (458)
+++||+++|+. ..|+++++..+|+.+++..+... ++.|++ ++|.+||| |.+|. .+.+++++++.++||+|+++
T Consensus 27 ~~~iN~~ggi~~g~~g~~i~l~~~D~~~~~~~a~~~-~~~li~~~~v~aviG--~~~s~-~~~a~~~~~~~~~vp~i~~~ 102 (345)
T cd06338 27 VEDVNAAGGIKGGGKGYPVELIYYDDQSNPARAARA-YERLITQDKVDFLLG--PYSSG-LTLAAAPVAEKYGVPMVAGS 102 (345)
T ss_pred HHHHHhcCCcccCCCCceEEEEEecCCCCHHHHHHH-HHHHHhhcCccEEec--CCcch-hHHHHHHHHHHhCCcEEecC
Confidence 68899665432 15789999999999998665555 555665 59999999 88886 88999999999999999999
Q ss_pred cCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcC--CeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEE
Q psy17441 79 SRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFN--YMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAV 156 (458)
Q Consensus 79 a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~--w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~ 156 (458)
++++.++ +..+|++||+.|++..+..++++++++++ |+++++++.+++||+...+.+++.+++.| +++...
T Consensus 103 ~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~~~~g------~~v~~~ 175 (345)
T cd06338 103 GASDSIF-AQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFSQDVAEGAREKAEAAG------LEVVYD 175 (345)
T ss_pred CCCchHh-hcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHHcC------CEEEEE
Confidence 9888776 45579999999999999999999999988 99999999999999999999999999887 455555
Q ss_pred EEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc------CCCCCeeEEEEe
Q psy17441 157 IEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA------KNVPVGIIGLKL 230 (458)
Q Consensus 157 ~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~------~~~~~g~~g~~~ 230 (458)
..++.+..|+..++++|++.++|+|++.+...++..+++++++.|++. .....+.+.... ....+|+++...
T Consensus 176 ~~~~~~~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~--~~~~~~~~~~~~~~~~~~g~~~~g~~~~~~ 253 (345)
T cd06338 176 ETYPPGTADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNP--KALYMTVGPAFPAFVKALGADAEGVFGPTQ 253 (345)
T ss_pred eccCCCccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCC--CEEEEecCCCcHHHHHHHhhhhCceeecce
Confidence 566667789999999999999999999999999999999999999975 232223322111 122467766543
Q ss_pred cCCC---------------------------chhHHHHHHHHHHHHHHHHH
Q psy17441 231 VNAT---------------------------NEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 231 ~~~~---------------------------~~~~~~yDAv~~la~Al~~~ 254 (458)
+.+. ..+..+|||++++++|+++.
T Consensus 254 ~~~~~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~y~a~~~~~~a~~~a 304 (345)
T cd06338 254 WTPALDYKDDLFPSAAEFAAAYKEKYGKAPDYHAAGAYAAGQVLQEAVERA 304 (345)
T ss_pred eccCcccccccCccHHHHHHHHHHHhCCCCCcccHHHHHHHHHHHHHHHHh
Confidence 3211 13678999999999999875
No 49
>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=99.93 E-value=3.9e-24 Score=210.78 Aligned_cols=241 Identities=18% Similarity=0.180 Sum_probs=191.0
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRD 81 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~ 81 (458)
+++||+ .|++ .|.+++++.+|+.+++..+...+++.+.+++|.+|+| |.+|. .+.++.+++...+||+|++++++
T Consensus 27 ~~~iNa-~ggi-~G~~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG--~~~s~-~~~a~~~~~~~~~ip~i~~~~~~ 101 (344)
T cd06348 27 EDRFNQ-AGGV-NGRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIG--PTLSQ-QAFAADPIAERAGVPVVGPSNTA 101 (344)
T ss_pred HHHHhh-cCCc-CCcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEEC--CCCcH-HHHhhhHHHHhCCCCEEeccCCC
Confidence 688995 4556 6889999999999999776666555443459999999 88885 88889999999999999998877
Q ss_pred CCCCCCccccceeecCCCchhHH-HHHHHHHHhc-CCeEEEEEEecCc-chhHHHHHHHHhhhccCCcceeeEEEEEEEE
Q psy17441 82 SAFSDKNIHVSFLRTVPPYSHQA-DVWVELLKHF-NYMKVIFIHSSDT-DGRALLGRFQTTSQNQEDDVEIKVQVEAVIE 158 (458)
Q Consensus 82 ~~ls~~~~~p~~~r~~p~~~~~~-~ai~~ll~~~-~w~~v~ii~~~d~-~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~ 158 (458)
+.+.. .++++||+.+++..+. .++..+++++ +|++++++|.+++ ||+.....+++.+++.| .++.....
T Consensus 102 ~~~~~--~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~g~~~~~~~~~~~~~~g------~~v~~~~~ 173 (344)
T cd06348 102 KGIPE--IGPYVFRVSAPEAVVAPAAIAAALKLNPGIKRVAVFYAQDDAFSVSETEIFQKALRDQG------LNLVTVQT 173 (344)
T ss_pred CCcCC--CCCeEEEccCcHHHHHHHHHHHHHHHhcCCeEEEEEEeCCchHHHHHHHHHHHHHHHcC------CEEEEEEe
Confidence 76643 3589999987766554 4555677888 9999999997655 99999999999999988 45555666
Q ss_pred eCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC------CCCCeeEEEEecC
Q psy17441 159 FEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK------NVPVGIIGLKLVN 232 (458)
Q Consensus 159 ~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------~~~~g~~g~~~~~ 232 (458)
++.+..|+..++.+++++++++|++.+...++..+++++++.|+.. .++.++.+.... ...+|+++...+.
T Consensus 174 ~~~~~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~~~~~~~g~~~~g~~~~~~~~ 250 (344)
T cd06348 174 FQTGDTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNG---LIVGGNGFNTPNVFPVCQAACDGVLVAQAYS 250 (344)
T ss_pred eCCCCCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCC---ceeccccccCHHHHHhhhHhhcCeEEEeecc
Confidence 7777889999999999999999999999999999999999999974 456555432211 2367777766554
Q ss_pred CC----------------------chhHHHHHHHHHHHHHHHHHhhcC
Q psy17441 233 AT----------------------NEDAHIRDSIYVLTSALKEMNQSA 258 (458)
Q Consensus 233 ~~----------------------~~~~~~yDAv~~la~Al~~~~~~~ 258 (458)
+. ..+..+|||++++++|++++..++
T Consensus 251 ~~~~~~~~~~f~~~~~~~~g~~p~~~~~~~yda~~~~~~A~~~a~~~~ 298 (344)
T cd06348 251 PENDTPVNRDFVEAYKKKYGKAPPQFSAQAFDAVQVVAEALKRLNQKQ 298 (344)
T ss_pred CCCCCHHHHHHHHHHHHHHCCCccHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 32 135678999999999999887544
No 50
>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=99.92 E-value=7.1e-24 Score=207.85 Aligned_cols=236 Identities=17% Similarity=0.114 Sum_probs=190.2
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++|| +.|++ .|++++++.+|+..++.. +...+++|++ ++|.+|+| +.+|. .+.+++++++.+++|+|++.++
T Consensus 26 ~~~iN-a~ggi-~G~~ielv~~D~~~~p~~-a~~~a~~li~~~~v~aiiG--~~~s~-~~~a~~~~~~~~~ip~i~~~a~ 99 (332)
T cd06344 26 QTEIN-LQGGI-NGKLLKVVIANDGNDPEI-AKKVADELVKDPEILGVVG--HYSSD-ATLAALDIYQKAKLVLISPTST 99 (332)
T ss_pred HHHHH-hcCCC-CCCeEEEEEECCCCChHH-HHHHHHHHhcccCceEEEc--CCCcH-HHHHHHHHHhhcCceEEccCcC
Confidence 68999 44556 799999999999999855 4555777875 59999999 88886 8889999999999999999888
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcC-CeEEEEEEecCc-chhHHHHHHHHhhhc-cCCcceeeEEEEEEE
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFN-YMKVIFIHSSDT-DGRALLGRFQTTSQN-QEDDVEIKVQVEAVI 157 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~-w~~v~ii~~~d~-~g~~~~~~l~~~l~~-~gi~v~~~~~v~~~~ 157 (458)
++.+++ .+|++||+.|++..+..++++++++.+ |+++++++.+++ ||+...+.+.+.+++ .| .++....
T Consensus 100 ~~~lt~--~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g~~~~~~~~~~~~~~~g------~~v~~~~ 171 (332)
T cd06344 100 SVKLSN--PGPYFFRTVPSNAVAARALAKYLKKKNKIKKVAIFYNSTSPYSQSLKQEFTSALLERGG------GIVVTPC 171 (332)
T ss_pred chhhcC--CCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEEEEeCCCchHhHHHHHHHHHHHHHhcC------Ceeeeec
Confidence 888873 469999999999999999999998876 999999999876 999999999999998 46 3333333
Q ss_pred EeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc------CCCCCeeEEEEec
Q psy17441 158 EFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA------KNVPVGIIGLKLV 231 (458)
Q Consensus 158 ~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~------~~~~~g~~g~~~~ 231 (458)
.++..+.++...+.++++.++++|++.+.......+++++++.+.. ..++.++.+... ....+|+++..++
T Consensus 172 ~~~~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~---~~i~~~~~~~~~~~~~~~~~~~~G~~~~~~~ 248 (332)
T cd06344 172 DLSSPDFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKGR---LTLLGGDSLYTPDTLLDGGKDLEGLVLAVPW 248 (332)
T ss_pred cCCCCCCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCCC---ceEEecccccCHHHHHhchhhhcCeEEEEec
Confidence 3344566788999999999999999999988889999999887753 345555544322 1236788887766
Q ss_pred CCC--------------------chhHHHHHHHHHHHHHHHHH
Q psy17441 232 NAT--------------------NEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 232 ~~~--------------------~~~~~~yDAv~~la~Al~~~ 254 (458)
.+. ..++..||+++++++|+++.
T Consensus 249 ~~~~~~~~~f~~~~~~~~~~~~~~~a~~~Yda~~~l~~A~~~a 291 (332)
T cd06344 249 HPLASPNSPFAKLAQQLWGGDVSWRTATAYDATKALIAALSQG 291 (332)
T ss_pred ccccccchHHHHHHHHHhcCCchHHHHhHHHHHHHHHHHHHhC
Confidence 542 24789999999999999875
No 51
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=99.92 E-value=8e-24 Score=210.11 Aligned_cols=237 Identities=13% Similarity=0.102 Sum_probs=195.2
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRD 81 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~ 81 (458)
+++||++ |++ .|++++++.+|+..++.. +....+.|++++|.+||| +.+|. .+.+++++++..+||+|++.+++
T Consensus 53 v~~iNa~-GGi-~G~~ielv~~D~~~~p~~-a~~~~~~Li~~~V~~iiG--~~~s~-~~~a~~~~~~~~~ip~i~~~s~~ 126 (369)
T PRK15404 53 IEDINAK-GGI-KGDKLEGVEYDDACDPKQ-AVAVANKVVNDGIKYVIG--HLCSS-STQPASDIYEDEGILMITPAATA 126 (369)
T ss_pred HHHHHhc-CCC-CCeEEEEEeecCCCCHHH-HHHHHHHHHhCCceEEEc--CCCch-hHHHhHHHHHHCCCeEEecCCCC
Confidence 6899954 556 688999999999999865 445567788899999999 87775 88899999999999999999999
Q ss_pred CCCCCCccccceeecCCCchhHHHHHHHHH-HhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 82 SAFSDKNIHVSFLRTVPPYSHQADVWVELL-KHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 82 ~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll-~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
+.+++. .++++||+.+.+..+..++++.+ +.++|++++++++|+.||++..+.+++.+++.| .++.....++
T Consensus 127 ~~l~~~-~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g~~~~~~~~~~~~~~G------~~v~~~~~~~ 199 (369)
T PRK15404 127 PELTAR-GYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYGEGLARSVKDGLKKAG------ANVVFFEGIT 199 (369)
T ss_pred HHHhcC-CCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchhHHHHHHHHHHHHHcC------CEEEEEEeeC
Confidence 988863 47999999999999999999965 567999999999999999999999999999988 4555556677
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc------CCCCCeeEEEEecCCC
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA------KNVPVGIIGLKLVNAT 234 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~------~~~~~g~~g~~~~~~~ 234 (458)
.+..|+..++.++++.++|+|++.+...+...+++++++.|+. ..|+.++.+... ....+|+++..+....
T Consensus 200 ~g~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~---~~~i~~~~~~~~~~~~~~~~~~~Gv~~~~~~~~~ 276 (369)
T PRK15404 200 AGDKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLK---TQFMGPEGVGNKSLSNIAGPASEGMLVTLPKRYD 276 (369)
T ss_pred CCCCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCC---CeEEecCcCCCHHHHHhhhhhhcCcEEEccCCCc
Confidence 7889999999999999999999888888889999999999986 367776544322 1236777765432211
Q ss_pred ---------------------chhHHHHHHHHHHHHHHHHH
Q psy17441 235 ---------------------NEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 235 ---------------------~~~~~~yDAv~~la~Al~~~ 254 (458)
..+..+||++++++.|+++.
T Consensus 277 ~~~~~~~f~~~~~~~~~~~~~~~~~~~Y~~~~~l~~Al~~a 317 (369)
T PRK15404 277 QDPANKAIVDAFKAKKQDPSGPFVWTTYAAVQSLAAGINRA 317 (369)
T ss_pred cChhHHHHHHHHHHhcCCCCccchHHHHHHHHHHHHHHHhh
Confidence 13578999999999999864
No 52
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=99.92 E-value=1.1e-23 Score=206.44 Aligned_cols=236 Identities=18% Similarity=0.173 Sum_probs=193.7
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+|+||+++ ++ .|++|+++.+|+.+++.+....+++ +++ ++|.+||| |.++. .+.+++++++..+||+|+++++
T Consensus 27 ~~~iN~~g-gi-~g~~l~~~~~D~~~~~~~~~~~~~~-li~~~~v~aiiG--~~~s~-~~~~v~~~~~~~~ip~i~~~~~ 100 (334)
T cd06347 27 VKEINAAG-GV-LGKKIELVVEDNKSDKEEAANAATR-LIDQDKVVAIIG--PVTSG-ATLAAGPIAEDAKVPMITPSAT 100 (334)
T ss_pred HHHHHhcC-CC-CCeeEEEEEecCCCChHHHHHHHHH-HhcccCeEEEEc--CCccH-hHHHhHHHHHHCCCeEEcCCCC
Confidence 68899554 56 7999999999999999877766554 556 59999999 88875 7889999999999999999998
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHH-HhcCCeEEEEEEecC-cchhHHHHHHHHhhhccCCcceeeEEEEEEEE
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELL-KHFNYMKVIFIHSSD-TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIE 158 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll-~~~~w~~v~ii~~~d-~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~ 158 (458)
.+.++++. +++||+.|++..++.++++++ ++++|+++++|+.++ +|+....+.+++.+++.| +++.....
T Consensus 101 ~~~~~~~~--~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~~~~~~~~~~~~~~g------~~v~~~~~ 172 (334)
T cd06347 101 NPKVTQGK--DYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYSKGLAKAFKEAFKKLG------GEIVAEET 172 (334)
T ss_pred CCCcccCC--CeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchhHHHHHHHHHHHHHcC------CEEEEEEE
Confidence 88777654 589999999999999999986 678999999999886 899999999999999887 45555556
Q ss_pred eCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC------CCCCeeEEEEecC
Q psy17441 159 FEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK------NVPVGIIGLKLVN 232 (458)
Q Consensus 159 ~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------~~~~g~~g~~~~~ 232 (458)
++.+..|+...++++++.++++|++.+...+...+++++++.|+. ..|+.++.|.... ...+|++...++.
T Consensus 173 ~~~~~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~---~~i~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 249 (334)
T cd06347 173 FNAGDTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIK---VPILGGDGWDSPKLEEAGGAAAEGVYFTTHFS 249 (334)
T ss_pred ecCCCCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCC---CcEEecccccCHHHHHHHHHHhCCcEEecccC
Confidence 666778999999999999999999999999999999999999985 4677777665432 2367766665543
Q ss_pred CC----------------------chhHHHHHHHHHHHHHHHHH
Q psy17441 233 AT----------------------NEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 233 ~~----------------------~~~~~~yDAv~~la~Al~~~ 254 (458)
+. .++..+|||++++++|+++.
T Consensus 250 ~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~yda~~~~~~Al~~a 293 (334)
T cd06347 250 ADDPTPKAKKFVKAYKAKYGKEPDAFAALGYDAYYLLADAIERA 293 (334)
T ss_pred CCCCCHHHHHHHHHHHHHHCCCcchhHHHHHHHHHHHHHHHHHh
Confidence 32 14678899999999999864
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=99.92 E-value=2.4e-23 Score=204.29 Aligned_cols=239 Identities=13% Similarity=0.026 Sum_probs=195.7
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++|| |++ .|+++++..+|+.+++.++... +++|++ ++|.+||| +.+|. .+.++++++++.+||+|+++++
T Consensus 28 ~~~iN---ggi-~G~~v~l~~~D~~~~p~~a~~~-~~~l~~~~~V~aviG--~~~s~-~~~a~~~~~~~~~vp~i~~~s~ 99 (334)
T cd06327 28 VEDFG---GGV-LGRPIELVVADHQNKADVAAAK-AREWIDRDGVDMIVG--GPNSA-VALAVQEVAREKKKIYIVTGAG 99 (334)
T ss_pred HHHhc---CCc-cCeEEEEEEecCCCCchHHHHH-HHHHHhhcCceEEEC--CccHH-HHHHHHHHHHHhCceEEecCCC
Confidence 57899 456 6899999999999998665555 566765 59999999 88885 8889999999999999999998
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
++.++++..+|++||+.|++..++.++++.+...+++++++++.+++||+.....+++.+++.| .++.....++
T Consensus 100 ~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~~~~~~G------~~vv~~~~~~ 173 (334)
T cd06327 100 SDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFGHSLERDARKVVKANG------GKVVGSVRHP 173 (334)
T ss_pred ccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHhHHHHHHHHHHHHhcC------CEEcCcccCC
Confidence 8888876657999999999999999999988777799999999999999999999999999988 4555556666
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccc-----cCCCCCeeEEEEecCCC-
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALT-----AKNVPVGIIGLKLVNAT- 234 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~-----~~~~~~g~~g~~~~~~~- 234 (458)
.+..|+..++.++++.++|+|++.+...++..+++++++.|+..+ ..++....+.. .....+|+++..++.+.
T Consensus 174 ~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~ 252 (334)
T cd06327 174 LGTSDFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLTKG-QKLAGLLLFLTDVHSLGLDAAQGLYLTTAWYWDL 252 (334)
T ss_pred CCCccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCccC-CcEEEecccHHHHHhhchhhhcCeEEeeeccccC
Confidence 778899999999999999999999999999999999999998632 33333322211 11236788777665332
Q ss_pred ---------------------chhHHHHHHHHHHHHHHHHHh
Q psy17441 235 ---------------------NEDAHIRDSIYVLTSALKEMN 255 (458)
Q Consensus 235 ---------------------~~~~~~yDAv~~la~Al~~~~ 255 (458)
..++.+||+++++++|+++.-
T Consensus 253 ~~~~~~~f~~~~~~~~g~~p~~~~~~~Y~~~~~~~~A~~~ag 294 (334)
T cd06327 253 PNDETRAFVKRFQAKYGKMPSMVQAGAYSAVLHYLKAVEAAG 294 (334)
T ss_pred CCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHHHHHHHC
Confidence 246799999999999999764
No 54
>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=99.92 E-value=5.3e-23 Score=204.14 Aligned_cols=238 Identities=16% Similarity=0.172 Sum_probs=195.1
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
++++|+ .|++ .|++|+++.+|+..++..+... +++|++ ++|.+||| +.+|. .+.+++++++..+||+|++.++
T Consensus 34 ~~~~Na-~gGi-~G~~i~l~~~D~~~~~~~a~~~-a~~li~~~~v~avvG--~~~s~-~~~~~~~~~~~~~ip~i~~~~~ 107 (362)
T cd06343 34 FMINND-QGGI-NGRKIELIVEDDGYSPPKTVEQ-TRKLVESDEVFAMVG--GLGTP-TNLAVQKYLNEKKVPQLFPASG 107 (362)
T ss_pred HHHHHh-cCCc-CCeEEEEEEecCCCChHHHHHH-HHHHHhhcCeEEEEe--cCCcH-HHHHhHHHHHhcCCceEecccc
Confidence 467884 5556 6899999999988887555544 555664 79999999 88886 8889999999999999999888
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHH-HHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVEL-LKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF 159 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~l-l~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~ 159 (458)
++.+++++.+|++||+.|++..+..++++. +++++|+++++++.+++||+...+.+++.+++.| .++.....+
T Consensus 108 ~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g~~~~~~~~~~~~~~G------~~vv~~~~~ 181 (362)
T cd06343 108 ASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFGKDYLKGLKDGLGDAG------LEIVAETSY 181 (362)
T ss_pred cHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHHHHHHHHHHHHHHHcC------CeEEEEeee
Confidence 888887767899999999999999999995 5678999999999999999999999999999988 455566667
Q ss_pred CCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC--------CCCCeeEEEEec
Q psy17441 160 EPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK--------NVPVGIIGLKLV 231 (458)
Q Consensus 160 ~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~--------~~~~g~~g~~~~ 231 (458)
+.+..|+...++++++.++++|++.+...++..+++++++.|+.. .++.++.+.... ...+|+++...+
T Consensus 182 ~~~~~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 258 (362)
T cd06343 182 EVTEPDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKP---TFLLSSVSASVASVLKPAGLEAAEGVIAAAYL 258 (362)
T ss_pred cCCCccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCc---eEEEEecccccHHHHHHhhhHhhCceEEEEEe
Confidence 778889999999999999999999999999999999999999985 355555543222 235777765433
Q ss_pred C-------CC----------------------chhHHHHHHHHHHHHHHHHH
Q psy17441 232 N-------AT----------------------NEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 232 ~-------~~----------------------~~~~~~yDAv~~la~Al~~~ 254 (458)
. .. ..+...||++.++++|+++.
T Consensus 259 ~~~~~p~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~a~~~a 310 (362)
T cd06343 259 KDPTDPAWADDPGVKEFIAFYKKYFPEGDPPDTYAVYGYAAAETLVKVLKQA 310 (362)
T ss_pred cCCCccccccCHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHHh
Confidence 1 01 13578999999999999975
No 55
>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=99.91 E-value=3.1e-23 Score=203.98 Aligned_cols=236 Identities=15% Similarity=0.191 Sum_probs=192.8
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++||+ .|++ +|++|+++.+|+.+++..+... +++|++ ++|.+|+| +.+|+ .+.+++++++..+||+|++.++
T Consensus 27 ~~~iN~-~ggi-~G~~i~l~~~D~~~~~~~a~~~-a~~li~~~~V~~i~G--~~~s~-~~~a~~~~~~~~~vp~i~~~~~ 100 (340)
T cd06349 27 LDEINA-AGGV-GGRPLNIVFEDSKSDPRQAVTI-AQKFVADPRIVAVLG--DFSSG-VSMAASPIYQRAGLVQLSPTNS 100 (340)
T ss_pred HHHHHh-hCCc-CCeEEEEEEeCCCCChHHHHHH-HHHHhccCCeEEEEC--CCccH-hHHHhHHHHHhCCCeEEecCCC
Confidence 578994 4556 7999999999999998665544 556664 68999999 88886 8899999999999999999988
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHH-HhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELL-KHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF 159 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll-~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~ 159 (458)
++.+++. .+|+||+.|++..+..++++++ +.++|+++++++.+++||....+.+++.+++.| .++.....+
T Consensus 101 ~~~~~~~--~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~g------~~v~~~~~~ 172 (340)
T cd06349 101 HPDFTKG--GDFIFRNSTSQAIEAPLLADYAVKDLGFKKVAILSVNTDWGRTSADIFVKAAEKLG------GQVVAHEEY 172 (340)
T ss_pred CCccccC--CCeEEEccCCcHHHHHHHHHHHHHHcCCcEEEEEecCChHhHHHHHHHHHHHHHcC------CEEEEEEEe
Confidence 8877654 4899999999999999999985 778999999999999999999999999999987 445555556
Q ss_pred CCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC------CCCCeeEEEEecCC
Q psy17441 160 EPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK------NVPVGIIGLKLVNA 233 (458)
Q Consensus 160 ~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------~~~~g~~g~~~~~~ 233 (458)
+.+..|+...+.+++++++|+|++.+...++..+++++++.|+.. .++.++.+.... ...+|++....+.+
T Consensus 173 ~~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 249 (340)
T cd06349 173 VPGEKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDI---PVVASSSVYSPKFIELGGDAVEGVYTPTAFFP 249 (340)
T ss_pred CCCCCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCC---cEEccCCcCCHHHHHHhHHHhCCcEEecccCC
Confidence 667889999999999999999999999999999999999999974 345444332211 23577776655443
Q ss_pred C----------------------chhHHHHHHHHHHHHHHHHH
Q psy17441 234 T----------------------NEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 234 ~----------------------~~~~~~yDAv~~la~Al~~~ 254 (458)
. ..+..+||+++++++|+++.
T Consensus 250 ~~~~~~~~~f~~~~~~~~~~~p~~~~~~~y~~~~~~~~a~~~a 292 (340)
T cd06349 250 GDPRPEVQSFVSAYEAKYGAQPDAFAAQAYDAVGILAAAVRRA 292 (340)
T ss_pred CCCCHHHHHHHHHHHHHHCCCcchhhhhHHHHHHHHHHHHHHh
Confidence 2 14689999999999999964
No 56
>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=99.91 E-value=3.8e-23 Score=203.53 Aligned_cols=238 Identities=13% Similarity=0.095 Sum_probs=193.4
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHH-------HHhhcccCCcE
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAV-------SYTSGFYHIPV 74 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~-------~~i~~~~~iP~ 74 (458)
+++|| +.|++ .|++++++.+|+.+++.++... +++|++++|.+||| +.+|. .+.++ ++++..+++|+
T Consensus 27 ~~~iN-~~GGi-~G~~i~l~~~D~~~~p~~a~~~-a~~lv~~~v~aiiG--~~~s~-~~~~~~~~~~~~~~~~~~~~ip~ 100 (342)
T cd06329 27 ADEIN-AKGGV-DGRPIELVEEDNKGSPQEALRK-AQKAIDDGVRLVVQ--GNSSS-VALALTEAVRKHNQRNPGKEVLY 100 (342)
T ss_pred HHHHH-hcCCc-CCeEEEEEeccCCCChHHHHHH-HHHHHHhCCeEEEc--ccchH-HHHHhhhhhhhhhhhhccCCeEE
Confidence 67899 45556 6899999999999998776655 55566779999999 88885 77777 78889999999
Q ss_pred EeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcC-CeEEEEEEecCcchhHHHHHHHHhhhc--cCCcceeeE
Q psy17441 75 IGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFN-YMKVIFIHSSDTDGRALLGRFQTTSQN--QEDDVEIKV 151 (458)
Q Consensus 75 Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~-w~~v~ii~~~d~~g~~~~~~l~~~l~~--~gi~v~~~~ 151 (458)
|++.++++.+++...+|++||+.|++..++.+++++++..+ |+++++++.++.||+...+.+++.+++ .| .
T Consensus 101 i~~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g~~~~~~~~~~~~~~~~G------~ 174 (342)
T cd06329 101 LNYASVAPALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWGQDVAAAFKAMLAAKRPD------I 174 (342)
T ss_pred EecCCCCchhhhccCcceEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHHHHHHHHHHHHHHhhcCC------c
Confidence 99998888887765569999999999999999999998876 999999999999999999999999998 77 5
Q ss_pred EEEEEEEeCCCc-ccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc-----CCCCCee
Q psy17441 152 QVEAVIEFEPGL-TTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA-----KNVPVGI 225 (458)
Q Consensus 152 ~v~~~~~~~~~~-~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~-----~~~~~g~ 225 (458)
++.....++.+. .|+..++.++++.++++|++.....++..+++++++.|+.. .++........ ....+|.
T Consensus 175 ~vv~~~~~~~~~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~~~~~~g~~~~g~ 251 (342)
T cd06329 175 QIVGEDLHPLGKVKDFSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAGLKL---PFYTPYLDQPGNPAALGEAGLGL 251 (342)
T ss_pred EEeceeccCCCCCCchHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCCc---eEEeccccchhHHHhhcccccce
Confidence 555555666677 89999999999999999999988889999999999999964 35544432221 1235676
Q ss_pred EEEEecCCC----------------------chhHHHHHHHHHHHHHHHHH
Q psy17441 226 IGLKLVNAT----------------------NEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 226 ~g~~~~~~~----------------------~~~~~~yDAv~~la~Al~~~ 254 (458)
+....+.+. ..+..+||++++++.|+++.
T Consensus 252 ~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~y~~~~~~~~a~~~a 302 (342)
T cd06329 252 VVAVAYWHPNDTPANRAFVEAFKAKYGRVPDYYEGQAYNGIQMLADAIEKA 302 (342)
T ss_pred EEeeeccCCCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHHHHHh
Confidence 665544321 24678999999999999964
No 57
>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=6.7e-23 Score=202.14 Aligned_cols=241 Identities=13% Similarity=0.110 Sum_probs=193.8
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcC-CeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISE-RVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~-~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++|| +.|++ .|++++++.+|+..++..++. .+++|+.+ +|.+|+| .+|. .+.++++++++.+||+|+++++
T Consensus 27 ~~~iN-a~GGI-~Gr~ielv~~D~~~~p~~a~~-~a~~Li~~~~V~~i~~---~~S~-~~~a~~~~~~~~~vp~i~~~~~ 99 (351)
T cd06334 27 FKYIN-EDGGI-NGVKLEWEECDTGYEVPRGVE-CYERLKGEDGAVAFQG---WSTG-ITEALIPKIAADKIPLMSGSYG 99 (351)
T ss_pred HHHHH-HcCCc-CCeEEEEEEecCCCCcHHHHH-HHHHHhccCCcEEEec---CcHH-HHHHhhHHHhhcCCcEEecccc
Confidence 68899 44556 689999999999999866544 46777764 7887654 4554 7889999999999999999887
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcC-----CeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEE
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFN-----YMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEA 155 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~-----w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~ 155 (458)
++.+++...+|++||+.|++..+..+++++++..+ .++|++++.|++||+...+.+++.+++.| .++..
T Consensus 100 ~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~~~~~~~~~~G------~~vv~ 173 (351)
T cd06334 100 ATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIEALKALAEKLG------FEVVL 173 (351)
T ss_pred hhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHHHHHHHHHHcC------Ceeee
Confidence 77776556679999999999999999999887655 69999999999999999999999999988 45555
Q ss_pred EEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC------CCCCeeEEEE
Q psy17441 156 VIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK------NVPVGIIGLK 229 (458)
Q Consensus 156 ~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------~~~~g~~g~~ 229 (458)
...++.+..|+..++.++++.++|+|++.....++..++++++++|+.. .++.+....... ...+|+++..
T Consensus 174 ~~~~~~~~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~---~~~~~~~~~~~~~~~~~g~~~~g~~~~~ 250 (351)
T cd06334 174 EPVPPPGPNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLDD---KFIGNWWSGDEEDVKPAGDAAKGYKGVT 250 (351)
T ss_pred eccCCCCcccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCCc---eEEEeeccCcHHHHHHhhhhhcCcEEee
Confidence 6667778899999999999999999999999999999999999999953 455543322111 2367777766
Q ss_pred ecCCC----------------------------chhHHHHHHHHHHHHHHHHHhhcC
Q psy17441 230 LVNAT----------------------------NEDAHIRDSIYVLTSALKEMNQSA 258 (458)
Q Consensus 230 ~~~~~----------------------------~~~~~~yDAv~~la~Al~~~~~~~ 258 (458)
++.+. .+++..|||++++++||++.-++.
T Consensus 251 ~~~~~~~~p~~~~f~~~~~~~~~~~~~~~~~~~~~~~~gy~a~~~l~~Al~~ag~~~ 307 (351)
T cd06334 251 PFAGGADDPVGKEIVKEVYDKGKGSGNDKEIGSVYYNRGVVNAMIMVEAIRRAQEKG 307 (351)
T ss_pred cccCCCCchHHHHHHHHHHHccCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHhc
Confidence 55331 135689999999999999987653
No 58
>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=99.91 E-value=1.3e-22 Score=200.24 Aligned_cols=239 Identities=20% Similarity=0.130 Sum_probs=188.4
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++|| +.|++ .|++++++.+|+..++.. +.+.+++|++ ++|.+|+| +.+|+ .+.+++++++..+||+|++.++
T Consensus 27 ~~~iN-~~gGi-~G~~i~lv~~D~~~~p~~-a~~~a~~Li~~~~V~aiiG--~~~s~-~~~a~~~~~~~~~vp~i~~~~~ 100 (347)
T cd06335 27 IDEIN-AAGGV-LGRKLELVERDDRGNPAR-GLQNAQELAADEKVVAVLG--GLHTP-VALANLEFIQQNKIPLIGPWAA 100 (347)
T ss_pred HHHHH-hcCCc-CCeEEEEEeccCCCCcHH-HHHHHHHHhccCCeEEEEc--CCCCH-HHHhhhHHHHhcCCcEEecCCC
Confidence 57899 44555 689999999999988855 4455677776 59999999 87775 8889999999999999999888
Q ss_pred CCCCCCC-ccccceeecCCCchhHHHHHHHHH-HhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEE
Q psy17441 81 DSAFSDK-NIHVSFLRTVPPYSHQADVWVELL-KHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIE 158 (458)
Q Consensus 81 ~~~ls~~-~~~p~~~r~~p~~~~~~~ai~~ll-~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~ 158 (458)
++.++.. ..++++||+.|++..++.++++++ ++.+|++|+++|.+++||+...+.+++.+++.| +++.....
T Consensus 101 ~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~G------~~v~~~~~ 174 (347)
T cd06335 101 GTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKKVALLLDNTGWGRSNRKDLTAALAARG------LKPVAVEW 174 (347)
T ss_pred CcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCeEEEEeccCchhhhHHHHHHHHHHHcC------CeeEEEee
Confidence 7777653 446899999999999999999976 556799999999999999999999999999988 44455566
Q ss_pred eCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccc------cCCCCCeeEEEEecC
Q psy17441 159 FEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALT------AKNVPVGIIGLKLVN 232 (458)
Q Consensus 159 ~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~------~~~~~~g~~g~~~~~ 232 (458)
++.+..|++..+++|++.++++|++.+...++..+++++++.|+.. .++....... .....+|++....+.
T Consensus 175 ~~~~~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~~~~~~~g~~~~g~~~~~~~~ 251 (347)
T cd06335 175 FNWGDKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKV---PIISHWGLSGGNFIEGAGPAANDALMIQTFI 251 (347)
T ss_pred ecCCCccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCC---cEecccCCcCchhhhccchhhcCcEEEEeec
Confidence 7777889999999999999999999999999999999999999863 2222221111 112246666553321
Q ss_pred C---C--------------------------chhHHHHHHHHHHHHHHHHHh
Q psy17441 233 A---T--------------------------NEDAHIRDSIYVLTSALKEMN 255 (458)
Q Consensus 233 ~---~--------------------------~~~~~~yDAv~~la~Al~~~~ 255 (458)
+ . .+++.+||+++++++|+++.-
T Consensus 252 ~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aYd~~~~l~~A~~~ag 303 (347)
T cd06335 252 FEPPSNPKAKAFLAAYHKKYPEKKPADIPAPVGAAHAYDAVHLLAAAIKQAG 303 (347)
T ss_pred cccCCCHHHHHHHHHHHHHhCCCcccccCcchhHHHHHHHHHHHHHHHHHhc
Confidence 1 1 023678999999999998753
No 59
>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=99.91 E-value=8.9e-23 Score=201.23 Aligned_cols=244 Identities=13% Similarity=0.076 Sum_probs=194.4
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++||++ |++ +|+++++..+|+..++..+... +++|++ ++|.+||| |.++. .+.+++++++..+||+|++.++
T Consensus 27 ~~~iN~~-ggi-~G~~v~~~~~D~~~~~~~a~~~-a~~li~~~~v~aiig--~~~s~-~~~~~~~~~~~~~ip~i~~~s~ 100 (346)
T cd06330 27 VEEINAA-GGI-GGRKIELVVRDEAGKPDEAIRE-ARELVENEGVDMLIG--LISSG-VALAVAPVAEELKVFFIATDPG 100 (346)
T ss_pred HHHHhhc-CCc-CCeEEEEEEecCCCCHHHHHHH-HHHHHhccCCcEEEc--ccchH-HHHHHHHHHHHcCCeEEEcCCC
Confidence 5789944 556 7899999999988888665555 455655 59999999 88885 8899999999999999999988
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcC--CeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEE
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFN--YMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIE 158 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~--w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~ 158 (458)
++.++++..++++||+.|++..+..++++++++++ |+++++++.+++||....+.+++.+++.|++ +.+.....
T Consensus 101 ~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~g~~----~~~v~~~~ 176 (346)
T cd06330 101 TPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYGQDAWADFKAALKRLRPD----VEVVSEQW 176 (346)
T ss_pred CcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHHHHHHHHHHHHHHHhCCC----Ceeccccc
Confidence 88887766679999999999999999999998874 9999999999999999999999999988633 23333333
Q ss_pred eCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc-----CCCCCeeEEEEec--
Q psy17441 159 FEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA-----KNVPVGIIGLKLV-- 231 (458)
Q Consensus 159 ~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~-----~~~~~g~~g~~~~-- 231 (458)
.+....|+...+.+|++.++|+|++.+...+...+++++++.|+.. +..|+.+...... ....+|++.....
T Consensus 177 ~~~~~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 255 (346)
T cd06330 177 PKLGAPDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLFD-GTTVVLTLTGAPELAPLGDEMPEGVIIGGRGPY 255 (346)
T ss_pred CCCCCcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCccc-CceEEeeccchhhhhhhhcccCCceEEeccccC
Confidence 4456789999999999999999999998899999999999999965 4677776653322 1235666543321
Q ss_pred CC--C--------------------chhHHHHHHHHHHHHHHHHHhh
Q psy17441 232 NA--T--------------------NEDAHIRDSIYVLTSALKEMNQ 256 (458)
Q Consensus 232 ~~--~--------------------~~~~~~yDAv~~la~Al~~~~~ 256 (458)
.. . ..+..+||+++++++|+++...
T Consensus 256 ~~~~~~~~~~~f~~~~~~~~g~~p~~~~~~~y~a~~~l~~a~~~a~~ 302 (346)
T cd06330 256 FIPPDTPENKAFVDAYQEKYGDYPTYGAYGAYQAVMALAAAVEKAGA 302 (346)
T ss_pred CCCCCChHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHHHHhcC
Confidence 11 1 2366899999999999997754
No 60
>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=99.91 E-value=8.1e-23 Score=201.58 Aligned_cols=240 Identities=16% Similarity=0.181 Sum_probs=192.4
Q ss_pred ccccccccccc--ccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeee
Q psy17441 2 FQHINFDIQYV--NKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGIS 78 (458)
Q Consensus 2 v~eIN~~~~~l--~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~ 78 (458)
++++|+++|++ +++++++++.+|+.+++..+... +++|++ ++|.+||| +.++. .+.+ +++++..++|+|++.
T Consensus 27 ~~~iN~~GGi~~~G~~~~iel~~~D~~~~p~~a~~~-~~~li~~~~v~~iiG--~~~s~-~~~~-~~~~~~~~ip~i~~~ 101 (347)
T cd06336 27 AEEINAAGGIKVGGKKYKVEIVSYDDKYDPAEAAAN-ARRLVQQDGVKFILG--PIGGG-ITAA-QQITERNKVLLLTAY 101 (347)
T ss_pred HHHHHhcCCcccCCceeeEEEEEecCCCCHHHHHHH-HHHHHhhcCceEEEe--CCCCc-hhhh-hhhhhhcCceEEecc
Confidence 67899665543 23468999999999998665554 566765 59999999 88775 7777 999999999999999
Q ss_pred cCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEE
Q psy17441 79 SRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIE 158 (458)
Q Consensus 79 a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~ 158 (458)
++++.++.. .++++||+.|++..+..+++++++..+|++|++++.|+.||+...+.+++.+++.| .++.....
T Consensus 102 ~~~~~~~~~-~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~~~l~~~G------~~vv~~~~ 174 (347)
T cd06336 102 SSDLSIDTA-GNPLTFRVPPIYNVYGVPFLAYAKKPGGKKVALLGPNDAYGQPWVAAYKAAWEAAG------GKVVSEEP 174 (347)
T ss_pred CCccccccc-CCceEEEecCCchhHHHHHHHHHhhcCCceEEEEccCCchhHHHHHHHHHHHHHcC------CEEeeecc
Confidence 988888633 45899999999999999999999889999999999999999999999999999887 45555666
Q ss_pred eCCCcccHHHHHHHHHhccCeEEEEEeChh-hHHHHHHHHHhcCCcccceEEEeecccccc------CCCCCeeEEEEec
Q psy17441 159 FEPGLTTFKDQLYEMKNAQARVYLMYASKQ-DAEIIFKDAQYLNMTETGYVWIVTEQALTA------KNVPVGIIGLKLV 231 (458)
Q Consensus 159 ~~~~~~d~~~~l~~ik~~~~~viil~~~~~-~~~~il~~a~~~g~~~~~~~wi~t~~~~~~------~~~~~g~~g~~~~ 231 (458)
++.+..|+..++++++++++|+|++.+... ++..++++++++|++. ..+......... ....+|+++..+.
T Consensus 175 ~~~~~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~--~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 252 (347)
T cd06336 175 YDPGTTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKG--GFLSCTGDKYDELLVATGADFMEGVYFQFPD 252 (347)
T ss_pred cCCCCcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCc--cEEeccCCCchHHHHHhcHHhhCceEEEeec
Confidence 777889999999999999999999999998 9999999999999975 222222111111 1235788777654
Q ss_pred CCC------------------------chhHHHHHHHHHHHHHHHHHh
Q psy17441 232 NAT------------------------NEDAHIRDSIYVLTSALKEMN 255 (458)
Q Consensus 232 ~~~------------------------~~~~~~yDAv~~la~Al~~~~ 255 (458)
.+. .++..+||+++++++|+++.-
T Consensus 253 ~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~y~~~~~~~~Al~~ag 300 (347)
T cd06336 253 VDDPALAFPRAKAFVEEYKKRYGEPPNSEAAVSYDAVYILKAAMEAAG 300 (347)
T ss_pred ccccccCCHHHHHHHHHHHHHHCCCCcHHHHHHHHHHHHHHHHHHhcC
Confidence 331 146799999999999999753
No 61
>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=99.90 E-value=6.8e-22 Score=193.92 Aligned_cols=236 Identities=13% Similarity=0.048 Sum_probs=187.4
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++|| +.|++ .|+++++..+|+++++..+... +++|++ ++|.+|+| +.+|. .+.++.++++..++|+|++.+.
T Consensus 27 ~~~iN-~~gGi-~G~~i~l~~~D~~~~p~~a~~~-a~~Li~~~~V~aiiG--~~~s~-~~~a~~~~~~~~~vp~i~~~~~ 100 (333)
T cd06331 27 IEEIN-AAGGI-LGRPLELVVEDPASDPAFAAKA-ARRLIRDDKVDAVFG--CYTSA-SRKAVLPVVERGRGLLFYPTQY 100 (333)
T ss_pred HHHHH-hcCCC-CCeEEEEEEECCCCCHHHHHHH-HHHHHhccCCcEEEe--cccHH-HHHHHHHHHHhcCceEEeCCCC
Confidence 57899 44556 7899999999999988665555 566766 49999999 88885 8899999999999999997654
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
+.. ...|++||+.|++..+..++++.+...+|++|++|+.|+.||+...+.+++.+++.| .++.....++
T Consensus 101 ~~~----~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~~~~~~~G------~~vv~~~~~~ 170 (333)
T cd06331 101 EGG----ECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFYLIGSDYVWPRESNRIARALLEELG------GEVVGEEYLP 170 (333)
T ss_pred CCC----cCCCCeEEccCChHHhHHHHHHHHHHhcCCeEEEECCCchhHHHHHHHHHHHHHHcC------CEEEEEEEec
Confidence 321 224789999999999999999987666699999999999999999999999999988 4555556677
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC------CCCCeeEEEEecCCC
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK------NVPVGIIGLKLVNAT 234 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------~~~~g~~g~~~~~~~ 234 (458)
.+..|+..++.++++.++++|++.+...++..+++++++.|+..+. .++.+....... ...+|+++..++.+.
T Consensus 171 ~~~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~-~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 249 (333)
T cd06331 171 LGTSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDADR-IPILSLTLDENELAAIGAEAAEGHYSAASYFQS 249 (333)
T ss_pred CCcccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcCC-CeeEEcccchhhhhccChhhhCCcEeechhhhh
Confidence 7889999999999999999999999999999999999999997332 334333322211 125777776554321
Q ss_pred ------------------------chhHHHHHHHHHHHHHHHHH
Q psy17441 235 ------------------------NEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 235 ------------------------~~~~~~yDAv~~la~Al~~~ 254 (458)
..++.+|||+++++.|+++.
T Consensus 250 ~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~A~~~a 293 (333)
T cd06331 250 LDTPENKAFVARYRARYGDDAVINSPAEAAYEAVYLWAAAVEKA 293 (333)
T ss_pred cCChhHHHHHHHHHHHcCCCcCCCchhHHHHHHHHHHHHHHHHc
Confidence 13678999999999999864
No 62
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=99.90 E-value=4.4e-22 Score=197.34 Aligned_cols=244 Identities=18% Similarity=0.174 Sum_probs=189.2
Q ss_pred CcccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 1 MFQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 1 ~v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
++|+||+.+| + .|.+|+++..|+.+++..++..+-+.+.+++|.+||| +.+|. ++.++.++++..++|+|+++++
T Consensus 37 Av~~iNa~Gg-i-~G~~velv~~D~~~dp~~a~~~A~~li~~~~V~~vvG--~~~S~-~~~a~~~v~~~~~i~~i~p~st 111 (366)
T COG0683 37 AVEEINAAGG-I-LGRKVELVVEDDASDPATAAAVARKLITQDGVDAVVG--PTTSG-VALAASPVAEEAGVPLISPSAT 111 (366)
T ss_pred HHHHHhhhCC-c-CCceEEEEEecCCCChHHHHHHHHHHHhhcCceEEEE--eccCc-ccccchhhHhhcCceEEeecCC
Confidence 3689996666 5 4666888888899999776666444343599999999 99997 9999999999999999999999
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHH-hcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLK-HFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF 159 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~-~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~ 159 (458)
++.++.....+++||+.|++..|+.++++.+. .++.+++++|+.++.||++..+.+++.+++.| .++.....+
T Consensus 112 ~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v~ii~~~~~yg~~~~~~~~~~l~~~G------~~~~~~~~~ 185 (366)
T COG0683 112 APQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRVAIIGDDYAYGEGLADAFKAALKALG------GEVVVEEVY 185 (366)
T ss_pred CCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcEEEEEeCCCCcchhHHHHHHHHHHhCC------CeEEEEEee
Confidence 99877776545699999999999999999875 56666999999999999999999999999998 323333455
Q ss_pred CCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCCC----CCe-eEEEEec-CC
Q psy17441 160 EPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNV----PVG-IIGLKLV-NA 233 (458)
Q Consensus 160 ~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~----~~g-~~g~~~~-~~ 233 (458)
.+...++..++.+++++++++|++.+...+...+++++++.|+... ..++.+........+ ..+ ......+ .+
T Consensus 186 ~~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 264 (366)
T COG0683 186 APGDTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAK-LIGGDGAGTAEFEEIAGAGGAGAGLLATAYSTP 264 (366)
T ss_pred CCCCCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCc-cccccccCchhhhhhcccCccccEEEEeccccc
Confidence 5566679999999999999999999999999999999999999852 222222222111111 222 2222222 11
Q ss_pred C-----------------------chhHHHHHHHHHHHHHHHHHhh
Q psy17441 234 T-----------------------NEDAHIRDSIYVLTSALKEMNQ 256 (458)
Q Consensus 234 ~-----------------------~~~~~~yDAv~~la~Al~~~~~ 256 (458)
. .++..+|||+++++.|+++...
T Consensus 265 ~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~y~a~~~~~~ai~~a~~ 310 (366)
T COG0683 265 DDSPANKKFVEAYKAKYGDPAAPSYFAAAAYDAVKLLAKAIEKAGK 310 (366)
T ss_pred ccCcchHHHHHHHHHHhCCCCCcccchHHHHHHHHHHHHHHHHHhc
Confidence 1 2678999999999999988873
No 63
>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=99.89 E-value=7.5e-22 Score=193.60 Aligned_cols=236 Identities=14% Similarity=0.124 Sum_probs=188.0
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++|| |++ .|+++++..+|+..++.+ +...+++|++ ++|.+||| +.+|. .+.+++++++..+||+|+++++
T Consensus 27 v~~in---ggi-~G~~i~l~~~D~~~~p~~-a~~~~~~lv~~~~v~~viG--~~~s~-~~~a~~~~~~~~~ip~i~~~~~ 98 (333)
T cd06359 27 LKQLG---GKL-GGLPVEVVVEDDGLKPDV-AKQAAERLIKRDKVDFVTG--VVFSN-VLLAVVPPVLESGTFYISTNAG 98 (333)
T ss_pred HHHhC---Ccc-CCEEEEEEecCCCCChHH-HHHHHHHHHhhcCCcEEEc--cCCcH-HHHHHHHHHHHcCCeEEecCCC
Confidence 56777 445 689999999999888855 4455677775 59999999 88886 8899999999999999999877
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
.+.+.++..+|++||+.|++..+..+++++++..+|+++++++.+++||+...+.+++.++. .+.....++
T Consensus 99 ~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g~~~~~~~~~~~~~---------~v~~~~~~~ 169 (333)
T cd06359 99 PSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAGKDALAGFKRTFKG---------EVVGEVYTK 169 (333)
T ss_pred ccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhhHHHHHHHHHHhCc---------eeeeeecCC
Confidence 67776655579999999999999999999999999999999999999999998888887752 233334455
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc------CCCCCeeEEEEecCCC
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA------KNVPVGIIGLKLVNAT 234 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~------~~~~~g~~g~~~~~~~ 234 (458)
.+..|+..++.++++.++|+|++.....++..+++++++.|+.. ...++.+...... ....+|+++...+.+.
T Consensus 170 ~~~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~-~~~~~~~~~~~~~~~~~~~g~~~~g~~~~~~~~~~ 248 (333)
T cd06359 170 LGQLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKK-DIPLYSPGFSDEEDTLPAVGDAALGLYNTAQWAPD 248 (333)
T ss_pred CCCcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCccc-CCeeeccCcccCHHHHHhcchhhcCeeeccccCCC
Confidence 67789999999999999999999888888999999999999854 2345544433222 1236787776655442
Q ss_pred ----------------------chhHHHHHHHHHHHHHHHHHh
Q psy17441 235 ----------------------NEDAHIRDSIYVLTSALKEMN 255 (458)
Q Consensus 235 ----------------------~~~~~~yDAv~~la~Al~~~~ 255 (458)
.++..+||+++++++|+++.-
T Consensus 249 ~~~~~~~~f~~~~~~~~~~~~~~~~~~~yda~~~~~~A~~~ag 291 (333)
T cd06359 249 LDNPANKKFVADFEKKYGRLPTLYAAQAYDAAQLLDSAVRKVG 291 (333)
T ss_pred CCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHhc
Confidence 245789999999999999763
No 64
>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=99.89 E-value=6.5e-22 Score=195.19 Aligned_cols=237 Identities=14% Similarity=0.014 Sum_probs=185.7
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+|+||++ |++ .|++++++.+|+..++.+++.. +++|++ ++|.+|+| +.+|+ .+.++.++++..++|+|++.+.
T Consensus 27 ~~~iN~~-GGi-~G~~ielv~~D~~~~p~~a~~~-a~~Li~~~~V~~iiG--~~~S~-~~~a~~~~~~~~~~~~i~~~~~ 100 (348)
T cd06355 27 IEEINAA-GGV-LGRKIEAVVEDGASDWPTFAEK-ARKLLTQDKVAAVFG--CWTSA-SRKAVLPVFERHNGLLFYPVQY 100 (348)
T ss_pred HHHHHhc-CCC-CCcEEEEEEeCCCCCHHHHHHH-HHHHHHhCCCcEEEe--ccchh-hHHHHHHHHhccCCceecCCCc
Confidence 6899955 445 4889999999999998665544 666764 79999999 88886 8899999999999999987643
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHh-cCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKH-FNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF 159 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~-~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~ 159 (458)
. +....|++||+.+.+..+...+++.+.. .+++++++++.|++||....+.+++.+++.| ..+.....+
T Consensus 101 ~----~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~d~~~g~~~~~~~~~~~~~~G------~~vv~~~~~ 170 (348)
T cd06355 101 E----GLEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGSDYVYPRTANKILKAQLESLG------GEVVGEEYL 170 (348)
T ss_pred c----CCCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECCcchHHHHHHHHHHHHHHHcC------CeEEeeEEe
Confidence 2 2233589999999999998888887764 5799999999999999999999999999988 455555667
Q ss_pred CCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc-----CCCCCeeEEEEecCCC
Q psy17441 160 EPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA-----KNVPVGIIGLKLVNAT 234 (458)
Q Consensus 160 ~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~-----~~~~~g~~g~~~~~~~ 234 (458)
+.+..|+..+++++++.++|+|++.....++..+++++++.|+..+...++........ ....+|+++...+.+.
T Consensus 171 ~~~~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~g~~~~~g~~~~~~~~~~ 250 (348)
T cd06355 171 PLGHTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITASKVPVLSFSVAEEELRGIGPENLAGHYAAWNYFQS 250 (348)
T ss_pred cCChhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCccCCeeEEccccHHHHhhcChHhhcCCEEeccchhh
Confidence 77889999999999999999999999999999999999999997543445543321110 1235666654332111
Q ss_pred ------------------------chhHHHHHHHHHHHHHHHHH
Q psy17441 235 ------------------------NEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 235 ------------------------~~~~~~yDAv~~la~Al~~~ 254 (458)
..++..|||+++++.|+++.
T Consensus 251 ~~~~~~~~f~~~y~~~~g~~~~~~~~a~~~Y~a~~~~~~Al~~a 294 (348)
T cd06355 251 VDTPENKKFVAAFKARYGQDRVTNDPMEAAYIGVYLWKQAVEKA 294 (348)
T ss_pred cCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHh
Confidence 12567899999999999975
No 65
>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=99.89 E-value=2.8e-21 Score=189.56 Aligned_cols=239 Identities=13% Similarity=0.001 Sum_probs=185.8
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++||+..|++ .|+++++..+|+.+++..+... .++|++ ++|.+|+| +.+|+ .+.++.+++++.++|+|+++++
T Consensus 27 v~~inn~~ggi-~G~~i~lv~~D~~~~p~~a~~~-~~~li~~~~V~avvG--~~~S~-~~~a~~~~~~~~~ip~i~~~~~ 101 (333)
T cd06328 27 LEYATGGTMQV-DGRPIEVIVKDDAGNPEVAVSL-ARELIGDDGVDILVG--STSSG-VALAVLPVAEENKKILIVEPAA 101 (333)
T ss_pred HHHHHhcCCCc-CCEEEEEEEecCCCChHHHHHH-HHHHHHhcCCeEEEc--cCCcH-HHHHHHHHHHHhCCcEEecCCC
Confidence 57886466677 7999999999999998665555 556665 59999999 88886 8999999999999999999988
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
++.++..+.++|+||+.+++..+...+++.+... ++++++|+.+++||++..+.+++.+++.| .++.....++
T Consensus 102 ~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v~~i~~~~~~g~~~~~~~~~~~~~~G------~~vv~~~~~~ 174 (333)
T cd06328 102 ADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKIATLAQDYAFGRDGVAAFKAALEKLG------AAIVTEEYAP 174 (333)
T ss_pred CchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeEEEEecCccccHHHHHHHHHHHHhCC------CEEeeeeeCC
Confidence 8888766545899999988888888888777665 89999999999999999999999999988 5556666777
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChh-hHHHHHHHHHhcCCcccceEEEeeccccccC------CCCCeeEEEEecC-
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQ-DAEIIFKDAQYLNMTETGYVWIVTEQALTAK------NVPVGIIGLKLVN- 232 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~-~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------~~~~g~~g~~~~~- 232 (458)
.+..|+...+.+++++++|+|++..... ++..+++++.+.|+.. ............ ...+|.+....+.
T Consensus 175 ~~~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (333)
T cd06328 175 TDTTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYGI---EITLAGDILANLTMYKAGPGMSGASYYYHYFL 251 (333)
T ss_pred CCCcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCCC---eEEecccccCccccccccccccceeeeecCCC
Confidence 7889999999999999999998876555 6777788888877663 222222221111 1134444433322
Q ss_pred CC--------------------chhHHHHHHHHHHHHHHHHHh
Q psy17441 233 AT--------------------NEDAHIRDSIYVLTSALKEMN 255 (458)
Q Consensus 233 ~~--------------------~~~~~~yDAv~~la~Al~~~~ 255 (458)
+. .+++..||++.++++|+++.-
T Consensus 252 ~~~~~~~~f~~~y~~~~g~~p~~~~~~~y~a~~~l~~Ai~~ag 294 (333)
T cd06328 252 PKNPVNDWLVEEHKARFGSPPDLFTAGGMSAAIAVVEALEETG 294 (333)
T ss_pred CCCHHHHHHHHHHHHHhCCCcchhhHHHHHHHHHHHHHHHHhC
Confidence 11 247799999999999999764
No 66
>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=99.88 E-value=1.2e-21 Score=188.00 Aligned_cols=219 Identities=22% Similarity=0.296 Sum_probs=180.4
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcC-CeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISE-RVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~-~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
++++|+++ ++ +|+++++..+|+.+++.... ...+.+.++ +|.+||| +.++. .+.++++++...+||+|++.+.
T Consensus 27 ~~~~n~~~-g~-~g~~~~~~~~d~~~~~~~~~-~~~~~l~~~~~v~~iig--~~~~~-~~~~~~~~~~~~~iP~i~~~~~ 100 (299)
T cd04509 27 VEEINAKG-GI-PGRKLELVIYDDQSDPARAL-AAARRLCQQEGVDALVG--PVSSG-VALAVAPVAEALKIPLISPGAT 100 (299)
T ss_pred HHHHHhcC-CC-CCcEEEEEEecCCCCHHHHH-HHHHHHhcccCceEEEc--CCCcH-HHHHHHHHHhhCCceEEeccCC
Confidence 57899544 56 89999999888888775544 445556666 9999999 87774 6778899999999999999988
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
++.++++..+|+++|+.|++..++..+++++++++|+++++++.++.++....+.+++.+++.| +++.....++
T Consensus 101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~~~~~g------~~i~~~~~~~ 174 (299)
T cd04509 101 APGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYGRGLLEAFKAAFKKKG------GTVVGEEYYP 174 (299)
T ss_pred CcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHHHHHHHHHHHHHHHcC------CEEEEEecCC
Confidence 8777766668999999999999999999999999999999999999899999999999999987 3444444455
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC------CCCCeeEEEEecCC
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK------NVPVGIIGLKLVNA 233 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------~~~~g~~g~~~~~~ 233 (458)
.+..++...++++++.++++|++++....+..+++++++.|+. +++.|+..+.+.... ...+|+++.....+
T Consensus 175 ~~~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 252 (299)
T cd04509 175 LGTTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT-GGYPILGITLGLSDVLLEAGGEAAEGVLTGTPYFP 252 (299)
T ss_pred CCCccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-CCCcEEecccccCHHHHHHhHHhhcCcEEeeccCC
Confidence 5557899999999988899999998889999999999999998 678999988765432 34678887766544
No 67
>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=99.88 E-value=6.7e-21 Score=187.00 Aligned_cols=234 Identities=14% Similarity=0.100 Sum_probs=191.0
Q ss_pred cccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCc
Q psy17441 10 QYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKN 88 (458)
Q Consensus 10 ~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~ 88 (458)
+++ .|+++++..+|+..++...... .+.|+. ++|.+||| +.++. .+.++.+++...+||+|+++++++.++++.
T Consensus 32 ~~i-~G~~i~l~~~D~~~~~~~~~~~-~~~lv~~~~v~~iig--~~~s~-~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~ 106 (336)
T cd06360 32 GKL-GGREVEFVVEDDEAKPDVAVEK-ARKLIEQDKVDVVVG--PVHSG-EALAMVKVLREPGTPLINPNAGADDLTGRL 106 (336)
T ss_pred CCc-CCEEEEEEEcCCCCChHHHHHH-HHHHHHHhCCcEEEc--cCccH-hHHHHHHHHHhcCceEEecCCCCccccccC
Confidence 345 7899999999999888655544 555654 79999999 77775 677888999999999999998888888776
Q ss_pred cccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHH
Q psy17441 89 IHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKD 168 (458)
Q Consensus 89 ~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~ 168 (458)
.+|++||+.|++..+...+++++...+|+++++++.++.||++..+.+++.+++.| .++.....++.+..|+..
T Consensus 107 ~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~G------~~v~~~~~~~~~~~d~~~ 180 (336)
T cd06360 107 CAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEAFTEAG------GKIVKELWVPFGTSDFAS 180 (336)
T ss_pred CCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHHHHHcC------CEEEEEEecCCCCcchHH
Confidence 67999999999999999999999999999999999999999999999999999988 444445566667889999
Q ss_pred HHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC------CCCCeeEEEEecCCC--------
Q psy17441 169 QLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK------NVPVGIIGLKLVNAT-------- 234 (458)
Q Consensus 169 ~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------~~~~g~~g~~~~~~~-------- 234 (458)
+++++++.++|+|++.....++..+++++++.|+.+ +..++.++.+.+.. ...+|++...++.+.
T Consensus 181 ~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~~~~g~~~~g~~~~~~~~~~~~~~~~~~ 259 (336)
T cd06360 181 YLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKA-KIPLIGSGFLTDGTTLGAAGEAAEGVITALHYADTLDNPANQA 259 (336)
T ss_pred HHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCcc-CCeEEecccccCHHHHHhhHhhhcCceeccccCCCCCCHHHHH
Confidence 999999999999999999999999999999999964 23556555443221 236777766554332
Q ss_pred --------------chhHHHHHHHHHHHHHHHHHh
Q psy17441 235 --------------NEDAHIRDSIYVLTSALKEMN 255 (458)
Q Consensus 235 --------------~~~~~~yDAv~~la~Al~~~~ 255 (458)
.++..+||+++++++|+++.-
T Consensus 260 f~~~y~~~~~~~~~~~~~~~yda~~~~~~A~~~a~ 294 (336)
T cd06360 260 FVKAYRAAYPDTPSVYAVQGYDAGQALILALEAVG 294 (336)
T ss_pred HHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHhC
Confidence 247899999999999999864
No 68
>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=99.87 E-value=1.1e-20 Score=187.48 Aligned_cols=234 Identities=9% Similarity=0.043 Sum_probs=181.3
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+|+||+++| + .|++++++.+|+..++..+... +++|++ ++|.+||| +.+|+ .+.++++++++.++|+|....
T Consensus 28 v~~iNa~GG-i-~Gr~ielv~~D~~~~p~~a~~~-a~~li~~d~v~~viG--~~~S~-~~~A~~~~~~~~~~~~i~~~~- 100 (374)
T TIGR03669 28 IEEINKSGG-I-LGRQIELIDPDPQSDNERYQEL-TRRLLNRDKVDALWA--GYSSA-TREAIRPIIDRNEQLYFYTNQ- 100 (374)
T ss_pred HHHHHhcCC-C-CCceeEEEEeCCCCCHHHHHHH-HHHHHHhCCCCEEEc--CCchH-HHHHHHHHHHhcCceEEcCcc-
Confidence 689995555 5 4889999999999998665554 666664 79999999 88886 899999999999999996432
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHh-cCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKH-FNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF 159 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~-~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~ 159 (458)
.+.....+|+||+.|++..+..++++++.. .+ +++++++.|++||+...+.+++.+++.| ..+.....+
T Consensus 101 ---~~~~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g-~~va~l~~d~~~g~~~~~~~~~~~~~~G------~~vv~~~~~ 170 (374)
T TIGR03669 101 ---YEGGVCDEYTFAVGATARQQLGTVVPYMVEEYG-KKIYTIAADYNFGQLSADWVRVIAKENG------AEVVGEEFI 170 (374)
T ss_pred ---cccccCCCCEEEcCCChHHHHHHHHHHHHHcCC-CeEEEEcCCcHHHHHHHHHHHHHHHHcC------CeEEeEEec
Confidence 122222479999999999999999998764 56 6899999999999999999999999887 455556667
Q ss_pred CCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc-------CCCCCeeEEEEecC
Q psy17441 160 EPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA-------KNVPVGIIGLKLVN 232 (458)
Q Consensus 160 ~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~-------~~~~~g~~g~~~~~ 232 (458)
+.+..|+..++.+|+++++|+|++.....+...+++|++++|+..+ ++........ .....|+++...+.
T Consensus 171 ~~g~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~---~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 247 (374)
T TIGR03669 171 PLSVSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLP---MGTSTAMAQGYEHKRFEPPALKDVYAGVNYM 247 (374)
T ss_pred CCCcchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCc---ccchhhhhhhhhhhhcCchhhCCcEEeeecc
Confidence 7788999999999999999999999888899999999999999642 2222211110 11245666555443
Q ss_pred CC------------------------chhHHHHHHHHHHHHHHHHHh
Q psy17441 233 AT------------------------NEDAHIRDSIYVLTSALKEMN 255 (458)
Q Consensus 233 ~~------------------------~~~~~~yDAv~~la~Al~~~~ 255 (458)
+. ..++.+|||++++++|+++.-
T Consensus 248 ~~~~~~~~~~F~~~y~~~~g~~p~~~~~a~~~Yda~~~l~~Ai~~AG 294 (374)
T TIGR03669 248 EEIDTPENEAFVERFYAKFPDAPYINQEAENNYFSVYMYKQAVEEAG 294 (374)
T ss_pred ccCCCHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHhC
Confidence 22 125678999999999999753
No 69
>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=99.86 E-value=2.5e-20 Score=184.61 Aligned_cols=237 Identities=14% Similarity=0.011 Sum_probs=183.0
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++||++ |++ .|++++++.+|+.+++..++.. +++|++ ++|.+||| +.+|. .+.++.++++..++|+|++...
T Consensus 28 v~~iN~~-GGi-~G~~i~l~~~Dd~~~p~~a~~~-a~~Lv~~~~V~~iiG--~~~S~-~~~a~~~~~~~~~~~~i~~~~~ 101 (359)
T TIGR03407 28 IEEINAS-GGV-LGKKIEPVVEDGASDWPTFAEK-ARKLITQDKVAAVFG--CWTSA-SRKAVLPVFEENNGLLFYPVQY 101 (359)
T ss_pred HHHHHhc-CCC-CCcEEEEEEeCCCCCHHHHHHH-HHHHHhhCCCcEEEc--CCcHH-HHHHHHHHHhccCCceEeCCcc
Confidence 6889955 455 5889999999999998665554 666765 78999999 88886 8889999999999999987532
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHh-cCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKH-FNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF 159 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~-~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~ 159 (458)
. .....|++||+.+++..+..++++.+.. .|.+++++++.|++||+...+.+++.+++.| ..+.....+
T Consensus 102 ~----~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l~~d~~~g~~~~~~~~~~~~~~G------~~vv~~~~~ 171 (359)
T TIGR03407 102 E----GEECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLLGSDYVFPRTANKIIKAYLKSLG------GTVVGEDYT 171 (359)
T ss_pred c----CcccCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEecCccHHHHHHHHHHHHHHHHcC------CEEEeeEEe
Confidence 2 1223589999999999999999887765 5999999999999999999999999999988 444555667
Q ss_pred CCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc-----CCCCCeeEEEEecCCC
Q psy17441 160 EPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA-----KNVPVGIIGLKLVNAT 234 (458)
Q Consensus 160 ~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~-----~~~~~g~~g~~~~~~~ 234 (458)
+.+..|+..++++|++.++|+|++.....+...+++++++.|+..+...++.+...... ....+|+++...+.+.
T Consensus 172 ~~~~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~g~~~~~G~~~~~~~~~~ 251 (359)
T TIGR03407 172 PLGHTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITAKDVPVVSFSVAEEEIRGIGPENLVGHLAAWNYFQS 251 (359)
T ss_pred cCChHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCccCCcEEEeecCHHHHhhcChHhhCCeEEeccchhc
Confidence 77889999999999999999999888887888999999999997533334443321111 1235676643222111
Q ss_pred ------------------------chhHHHHHHHHHHHHHHHHH
Q psy17441 235 ------------------------NEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 235 ------------------------~~~~~~yDAv~~la~Al~~~ 254 (458)
..++..|||++++++|+++.
T Consensus 252 ~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~A~~~a 295 (359)
T TIGR03407 252 VDTPANKKFVKAFKAKYGDDRVTNDPMEAAYLGVYLWKAAVEKA 295 (359)
T ss_pred CCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHh
Confidence 12456899999999999975
No 70
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=99.86 E-value=1.9e-20 Score=183.69 Aligned_cols=233 Identities=15% Similarity=0.047 Sum_probs=181.7
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++|| +.|++ .|+++++..+|+.+++..+... +++|++ ++|.+||| +.+|. .+.++.++++ .+||+|++.+.
T Consensus 27 ~~~iN-~~gGi-~G~~i~l~~~D~~~~p~~a~~~-a~~Li~~~~v~aviG--~~~s~-~a~a~~~~~~-~~vp~i~~~~~ 99 (333)
T cd06358 27 VEEIN-AAGGI-LGREVELVIVDDGSPPAEAAAA-AARLVDEGGVDAIIG--WHTSA-VRNAVAPVVA-GRVPYVYTSLY 99 (333)
T ss_pred HHHHH-hcCCc-CCcEEEEEEECCCCChHHHHHH-HHHHHHhCCCcEEEe--cCcHH-HHHHHHHHHh-cCceEEeCCCc
Confidence 57899 55556 6899999999999998765554 666765 59999999 88886 8888999999 99999998654
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHH-HhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELL-KHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF 159 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll-~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~ 159 (458)
+.. ...|++||+.+++..+..++++.+ +..+|++|++++.++.||+...+.+++.+++.| ..+.....+
T Consensus 100 ~~~----~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g~~~~~~~~~~~~~~G------~~v~~~~~~ 169 (333)
T cd06358 100 EGG----ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWPRGSLAAAKRYIAELG------GEVVGEEYV 169 (333)
T ss_pred CCC----CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhhHHHHHHHHHHHHHcC------CEEeeeeee
Confidence 332 234899999999998887777655 668999999999999999999999999999988 445555667
Q ss_pred CCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEe-ecccccc------CCCCCeeEEEEecC
Q psy17441 160 EPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIV-TEQALTA------KNVPVGIIGLKLVN 232 (458)
Q Consensus 160 ~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~-t~~~~~~------~~~~~g~~g~~~~~ 232 (458)
+.+..|+...++++++.++|+|++.....++..+++++++.|+..+ ++. +..+... ....+|++....+.
T Consensus 170 ~~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 246 (333)
T cd06358 170 PLGTTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRDR---ILRLSPLMDENMLLASGAEAAEGLYSSSGYF 246 (333)
T ss_pred cCChHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCcc---CceeecccCHHHHHhcChHhhCCcEEeccch
Confidence 7788999999999999999999999888888999999999999852 222 2222111 12357776654432
Q ss_pred CC-------------------------chhHHHHHHHHHHHHHHHHH
Q psy17441 233 AT-------------------------NEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 233 ~~-------------------------~~~~~~yDAv~~la~Al~~~ 254 (458)
+. ..+..+||+++++++|+++.
T Consensus 247 ~~~~~~~~~~f~~~~~~~~g~~~~~~~~~~~~~yda~~~~~~A~~~a 293 (333)
T cd06358 247 ASLQTPANAAFLARYRARFGDDAPPLNSLSESCYEAVHALAAAAERA 293 (333)
T ss_pred hhcCCHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHHHHHh
Confidence 21 13457899999999999853
No 71
>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=99.86 E-value=2.4e-20 Score=182.98 Aligned_cols=236 Identities=9% Similarity=0.013 Sum_probs=183.1
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++||++ |++ .|+++++..+|+++++..+... +++|++ ++|.+||| +.+|. .+.++.++++..++|+|++...
T Consensus 27 ~~~iNa~-gGi-~Gr~v~lv~~D~~~~p~~a~~~-~~~Li~~~~V~aiiG--~~~s~-~~~a~~~~~~~~~vp~i~~~~~ 100 (334)
T cd06356 27 VDEINAS-GGI-LGREVELVDYDTQSDNERYQQY-AQRLALQDKVDVVWG--GISSA-SREAIRPIMDRTKQLYFYTTQY 100 (334)
T ss_pred HHHHHhc-CCC-CCceEEEEEECCCCCHHHHHHH-HHHHHHhCCCCEEEe--CcchH-HHHHHHHHHHhcCceEEeCCCc
Confidence 6899954 556 6899999999999998555444 566664 79999999 88886 8899999999999999986443
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
.... ..+++||+.+++..+..++++.+...+-+++++|+.|++||......+++.+++.| ..+.....++
T Consensus 101 ~~~~----~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d~~~g~~~~~~~~~~~~~~G------~~vv~~~~~~ 170 (334)
T cd06356 101 EGGV----CDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAADYNFGQISAEWVRKIVEENG------GEVVGEEFIP 170 (334)
T ss_pred cCCc----ccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCCchhhHHHHHHHHHHHHHcC------CEEEeeeecC
Confidence 2211 13799999999999999999987664448899999999999999999999999988 4555566777
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccc-------cCCCCCeeEEEEecCC
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALT-------AKNVPVGIIGLKLVNA 233 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~-------~~~~~~g~~g~~~~~~ 233 (458)
.+..|++..++++++.++|+|++.....+...+++++++.|+ +. ...+.+..... .....+|+++...+.+
T Consensus 171 ~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~-~~-~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 248 (334)
T cd06356 171 LDVSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGL-GN-IPMASSTLGAQGYEHKRLKPPALKDMYATANYIE 248 (334)
T ss_pred CCchhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCC-cc-CceeeeecccchhHHhccCchhcCCeEEecchhh
Confidence 788999999999999999999998888889999999999998 21 12222211100 1123577776654422
Q ss_pred C------------------------chhHHHHHHHHHHHHHHHHHh
Q psy17441 234 T------------------------NEDAHIRDSIYVLTSALKEMN 255 (458)
Q Consensus 234 ~------------------------~~~~~~yDAv~~la~Al~~~~ 255 (458)
. ..++.+||+++++++|+++.-
T Consensus 249 ~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~y~a~~~~~~A~~~ag 294 (334)
T cd06356 249 ELDTPANKAFVERFRAKFPDAPYINEEAENNYEAIYLYKEAVEKAG 294 (334)
T ss_pred hcCCHHHHHHHHHHHHHcCCCCCCCchhHHHHHHHHHHHHHHHHHC
Confidence 1 135789999999999999753
No 72
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=99.86 E-value=6.1e-20 Score=179.84 Aligned_cols=236 Identities=16% Similarity=0.154 Sum_probs=187.8
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcC-CeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISE-RVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~-~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
++++| +++ .|+++.+..+|++.++.. +...++.|+++ +|.+||| +.+|. .+.++.+.+...++|+|++++.
T Consensus 27 ~~~~~---~~i-~G~~i~l~~~d~~~~~~~-~~~~~~~l~~~~~v~~iig--~~~s~-~~~~~~~~~~~~~ip~v~~~~~ 98 (333)
T cd06332 27 LKQLG---GKL-GGRPVEVVVEDDELKPDV-AVQAARKLIEQDKVDVVVG--PVFSN-VALAVVPSLTESGTFLISPNAG 98 (333)
T ss_pred HHHhC---CCc-CCeEEEEEEecCCCCHHH-HHHHHHHHHHHcCCcEEEc--CCccH-HHHHHHHHHhhcCCeEEecCCC
Confidence 34555 345 789999999999888755 44556777764 9999999 87775 6778889999999999999988
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
.+.++++..+|++||+.|++..+...+++++...+|+++++++.++.+|++..+.+++.++ | .+.....++
T Consensus 99 ~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~~~~~~~~~~~~~--~-------~~~~~~~~~ 169 (333)
T cd06332 99 PSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAGKDAVAGFKRTFK--G-------EVVEEVYTP 169 (333)
T ss_pred CccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchhHHHHHHHHHhhc--E-------EEeeEEecC
Confidence 8778776657999999999999999999999999999999999999999998899988887 3 122334455
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc------CCCCCeeEEEEecCCC
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA------KNVPVGIIGLKLVNAT 234 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~------~~~~~g~~g~~~~~~~ 234 (458)
....|+...++++++.++++|++......+..++++++++|+.+ ...++.++.+... ....+|+++..++.+.
T Consensus 170 ~~~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 248 (333)
T cd06332 170 LGQLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKK-KIPLYGPGFLTDQDTLPAQGDAAVGVLTALHWAPD 248 (333)
T ss_pred CCCcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCccc-CCceeccCCCCCHHHHHhhchhhcCeeeeeccCCC
Confidence 56778999999999999999999888889999999999999954 2456665554322 1236788776665432
Q ss_pred ----------------------chhHHHHHHHHHHHHHHHHHh
Q psy17441 235 ----------------------NEDAHIRDSIYVLTSALKEMN 255 (458)
Q Consensus 235 ----------------------~~~~~~yDAv~~la~Al~~~~ 255 (458)
.++..+||++++++.|+++.-
T Consensus 249 ~~~~~~~~f~~~~~~~~~~~~~~~~~~~yda~~~~~~a~~~ag 291 (333)
T cd06332 249 LDNPANKRFVAAYKAAYGRVPSVYAAQGYDAAQLLDAALRAVG 291 (333)
T ss_pred CCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHhc
Confidence 246789999999999998763
No 73
>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=99.85 E-value=7e-20 Score=180.20 Aligned_cols=236 Identities=22% Similarity=0.240 Sum_probs=187.0
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
++++|+ .|++ .|+++.++.+|+..++.. +...++++++ ++|.+||| +.++. .+.++++.++..++|.|++.+.
T Consensus 29 ~~~~N~-~ggi-~G~~i~l~~~D~~~~~~~-a~~~~~~l~~~~~v~~vvg--~~~s~-~~~~~~~~~~~~~ip~i~~~~~ 102 (343)
T PF13458_consen 29 VDEINA-AGGI-NGRKIELVVYDDGGDPAQ-AVQAARKLIDDDGVDAVVG--PLSSA-QAEAVAPIAEEAGIPYISPSAS 102 (343)
T ss_dssp HHHHHH-TTEE-TTEEEEEEEEE-TT-HHH-HHHHHHHHHHTSTESEEEE--SSSHH-HHHHHHHHHHHHT-EEEESSGG
T ss_pred HHHHHH-hCCc-CCccceeeeccCCCChHH-HHHHHHHhhhhcCcEEEEe--cCCcH-HHHHHHHHHHhcCcEEEEeecc
Confidence 578994 4566 699999999998888855 4555777776 99999999 87775 8899999999999999997654
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHH-HhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELL-KHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF 159 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll-~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~ 159 (458)
++ ...++++||+.|++..+..++++.+ ++++.+++++|+.++++|+...+.+++.+++.| ..+.....+
T Consensus 103 ~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~~~~~g~~~~~~~~~~~~~~G------~~vv~~~~~ 172 (343)
T PF13458_consen 103 SP----SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYPDDPYGRSLAEAFRKALEAAG------GKVVGEIRY 172 (343)
T ss_dssp GG----TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEESSHHHHHHHHHHHHHHHHTT------CEEEEEEEE
T ss_pred CC----CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEecCchhhhHHHHHHHHHHhhcC------ceeccceec
Confidence 42 2345899999999999999999975 568999999999999999999999999999988 445555667
Q ss_pred CCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc------CCCCCeeEEEEecCC
Q psy17441 160 EPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA------KNVPVGIIGLKLVNA 233 (458)
Q Consensus 160 ~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~------~~~~~g~~g~~~~~~ 233 (458)
+.+..|+...++++++.++++|++.+...+...+++++.+.|+..+. +++........ ....+|+++...+.+
T Consensus 173 ~~~~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~g~~~~~~~~~ 251 (343)
T PF13458_consen 173 PPGDTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKPPR-IPLFGTSLDDASLQQLGGDALEGVYIVSPWFP 251 (343)
T ss_dssp -TTSSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCSCT-EEEEEGGGSSHHHHHHHGGGGTTEEEEESGGG
T ss_pred ccccccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhcccccc-ceeeccccCcHHHHHhhhhhccCceeecccCC
Confidence 77889999999999999999999999999999999999999988532 44433332211 234788888777654
Q ss_pred C------------------------chhHHHHHHHHHHHHHHHHH
Q psy17441 234 T------------------------NEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 234 ~------------------------~~~~~~yDAv~~la~Al~~~ 254 (458)
+ ..+..+||++.+++.|+++.
T Consensus 252 ~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~al~~~ 296 (343)
T PF13458_consen 252 DPDSPAVKQFQERYRAAYGEEPPPSLYAAQGYDAARLLAQALERA 296 (343)
T ss_dssp TGGSHHHHHHHHHHHHHHSSTGGTCHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHcCCCCCCchhHHHHHHHHHHHHHHHHHh
Confidence 3 14679999999999999985
No 74
>cd06337 PBP1_ABC_ligand_binding_like_4 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.84 E-value=1.8e-19 Score=178.35 Aligned_cols=192 Identities=17% Similarity=0.157 Sum_probs=154.1
Q ss_pred ccccccccccc-ccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeec
Q psy17441 2 FQHINFDIQYV-NKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISS 79 (458)
Q Consensus 2 v~eIN~~~~~l-~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a 79 (458)
+++|| +.+.+ ++++++++..+|+..++.+++.. +++|++ ++|.+||| +.+|+ .+.++++++++.+||+|++.+
T Consensus 27 ~~~in-~g~~i~G~~~~i~lv~~D~~~~p~~a~~~-a~~li~~d~v~~iiG--~~~s~-~~~a~~~~~~~~~ip~i~~~~ 101 (357)
T cd06337 27 RSALA-DGLVVGGSTYEVEIIVRDSQSNPNRAGLV-AQELILTDKVDLLLA--GGTPD-TTNPVSDQCEANGVPCISTMA 101 (357)
T ss_pred HHHhc-CCeeECCceeEEEEEEecCCCCHHHHHHH-HHHHHhccCccEEEe--cCCcc-hhhHHHHHHHHhCCCeEEecc
Confidence 56788 55544 23468999999999998665555 566665 59999999 77775 788899999999999999765
Q ss_pred CCCCC--C---C-CccccceeecCCCchhHHHHHHHHHHhcC-CeEEEEEEecCcchhHHHHHHH---HhhhccCCccee
Q psy17441 80 RDSAF--S---D-KNIHVSFLRTVPPYSHQADVWVELLKHFN-YMKVIFIHSSDTDGRALLGRFQ---TTSQNQEDDVEI 149 (458)
Q Consensus 80 ~~~~l--s---~-~~~~p~~~r~~p~~~~~~~ai~~ll~~~~-w~~v~ii~~~d~~g~~~~~~l~---~~l~~~gi~v~~ 149 (458)
..+.+ + . ...++++||..+++..+..++++.++..+ .+++++++.+++||....+.+. +.+++.|
T Consensus 102 ~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g~~~~~~~~~~~~~~~~~G----- 176 (357)
T cd06337 102 PWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDGNAFADPVIGLPAALADAG----- 176 (357)
T ss_pred chhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchhHHHHHhhhcccHHHHhCC-----
Confidence 32211 1 1 12368999999998888889998888877 9999999999999997766654 5566666
Q ss_pred eEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcc
Q psy17441 150 KVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTE 204 (458)
Q Consensus 150 ~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~ 204 (458)
.++.....++.+..|+..++++||++++|+|++.+...++..++++++++|+..
T Consensus 177 -~~vv~~~~~~~~~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~ 230 (357)
T cd06337 177 -YKLVDPGRFEPGTDDFSSQINAFKREGVDIVTGFAIPPDFATFWRQAAQAGFKP 230 (357)
T ss_pred -cEEecccccCCCCCcHHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHHHCCCCC
Confidence 556666677888899999999999999999999999999999999999999975
No 75
>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=99.84 E-value=5e-19 Score=175.38 Aligned_cols=236 Identities=12% Similarity=0.028 Sum_probs=179.9
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++||++ |++ .|++++++.+|+..++..+... +++|++ ++|.+||| +.+|. .+.+++++++..++|++++++.
T Consensus 27 ~~~iN~~-GGi-~G~~ielv~~D~~~~p~~a~~~-a~~li~~~~V~aiiG--~~~s~-~~~a~~~~~~~~~~~~~~~~~~ 100 (360)
T cd06357 27 IEEINAA-GGV-LGRELEPVEYDPGGDPDAYRAL-AERLLREDGVRVIFG--CYTSS-SRKAVLPVVERHDALLWYPTLY 100 (360)
T ss_pred HHHHhhc-CCC-CCeEEEEEEECCCCCHHHHHHH-HHHHHhhCCCcEEEe--CccHH-HHHHHHHHHHhcCceEEeCCCc
Confidence 6789955 445 5899999999999998665544 666764 89999999 88775 7889999999999999987653
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
.. + ..-|++|++.++...+..++++++...+-+++++|+.|++||++....+.+.+++.|+ .+.....++
T Consensus 101 ~~-~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~d~~~g~~~~~~~~~~~~~~G~------~vv~~~~~~ 170 (360)
T cd06357 101 EG-F---EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVFLVGSNYIYPYESNRIMRDLLEQRGG------EVLGERYLP 170 (360)
T ss_pred cC-C---cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEEEECCCCcchHHHHHHHHHHHHHcCC------EEEEEEEec
Confidence 32 2 1125678888877777788888876555589999999999999999999999999883 333333344
Q ss_pred CC--cccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccc-c-----CCCCCeeEEEEecC
Q psy17441 161 PG--LTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALT-A-----KNVPVGIIGLKLVN 232 (458)
Q Consensus 161 ~~--~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~-~-----~~~~~g~~g~~~~~ 232 (458)
.+ ..|+..++.+++++++|+|++.+...++..++++++++|+.++. ..+.+..... . ....+|+++...+.
T Consensus 171 ~~~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~~-~~~~~~~~~~~~~~~~~g~~~~g~~~~~~~~ 249 (360)
T cd06357 171 LGASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPAR-MPIASLTTSEAEVAAMGAEAAAGHITAAPYF 249 (360)
T ss_pred CCCchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCccC-ceeEEeeccHHHHhhcchHhhCCcEEecccc
Confidence 44 88999999999999999999999999999999999999997532 3333332111 1 12367777765442
Q ss_pred CC------------------------chhHHHHHHHHHHHHHHHHH
Q psy17441 233 AT------------------------NEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 233 ~~------------------------~~~~~~yDAv~~la~Al~~~ 254 (458)
+. .+++..||+++++++|+++.
T Consensus 250 ~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~yda~~~l~~Al~~a 295 (360)
T cd06357 250 SSIDTPANRAFVARYRARFGEDAPVSACAEAAYFQVHLFARALQRA 295 (360)
T ss_pred cccCChhHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHc
Confidence 21 14678999999999999974
No 76
>KOG1055|consensus
Probab=99.84 E-value=1.4e-20 Score=189.33 Aligned_cols=242 Identities=15% Similarity=0.221 Sum_probs=200.7
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
++++|+.+.+| ||+.|.+...|++|++..+....-..+.. ..-+.++| . |++ .+..++.-+..++..+.||+++
T Consensus 71 l~~vn~~~~il-p~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~mll~--G-Cs~-v~~~iaea~~~w~l~~lsy~~s 145 (865)
T KOG1055|consen 71 LEDVNSRSDIL-PGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKLMLLG--G-CSS-VTTLIAEAAKMWNLIVLSYGAS 145 (865)
T ss_pred HHHhhcccccc-CCcEEEEEeccccCCccccHHHHHHHHHcCCchheecc--C-CCC-cchHHHhhccccceeeecccCC
Confidence 67899777766 99999999999999998888887776654 45567777 4 886 8899999999999999999999
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
+|.|++++.||+|||+.|+...+...++.++++|+|++|+.++.++.-.....+.+...+.+.| +++.....
T Consensus 146 sp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~f~~~~~dl~~~~~~~~------ieiv~~qs-- 217 (865)
T KOG1055|consen 146 SPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEVFSSTLNDLEARLKEAG------IEIVFRQS-- 217 (865)
T ss_pred CccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhhhcchHHHHHHhhhccc------cEEEEeec--
Confidence 9999999999999999999999999999999999999999999988777777888888888876 33332222
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCC----------------CCCe
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKN----------------VPVG 224 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~----------------~~~g 224 (458)
-..|....+.++++..+|+|+-..+...|+..++++++.+|.+..|+|+...+..++.. ..+|
T Consensus 218 -f~~dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~~~g~y~d~w~ev~~~~~~ctveem~~A~eg 296 (865)
T KOG1055|consen 218 -FSSDPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWFLIGWYADNWWEITHPSENCTVEEMTEAAEG 296 (865)
T ss_pred -cccCHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEEEEEeeccchhhccCchhhhhHHHHHHHHhh
Confidence 23577788899999999999999999999999999999999999999999876443310 2566
Q ss_pred eEEEEecCCC---------------------------------chhHHHHHHHHHHHHHHHHHhhc
Q psy17441 225 IIGLKLVNAT---------------------------------NEDAHIRDSIYVLTSALKEMNQS 257 (458)
Q Consensus 225 ~~g~~~~~~~---------------------------------~~~~~~yDAv~~la~Al~~~~~~ 257 (458)
-+++.....+ .+..++|||+|++|+|++++...
T Consensus 297 ~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~~~~~~~~~~~~ayd~Iwa~ala~n~t~e~ 362 (865)
T KOG1055|consen 297 HITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHPEETGGFQEAPLAYDAIWALALALNKTMEG 362 (865)
T ss_pred heeeeeeccccccceeeccchhHHHHHHHHhhhccccccccCcccCchHHHHHHHHHHHHHHHHhc
Confidence 6665443221 24679999999999999987753
No 77
>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=99.83 E-value=4.6e-19 Score=173.96 Aligned_cols=238 Identities=14% Similarity=0.132 Sum_probs=182.8
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++|| +.|++ .|+++.+..+|+..++.... ...+.|++ ++|.+||| +.++. .+.++.+++...++|+|++++.
T Consensus 28 ~~~iN-~~ggi-~G~~v~l~~~D~~~d~~~~~-~~~~~l~~~~~v~avig--~~~s~-~~~~~~~~~~~~~iP~i~~~~~ 101 (336)
T cd06326 28 FDAVN-AAGGV-NGRKIELVTLDDGYEPERTV-ANTRKLIEDDKVFALFG--YVGTP-TTAAALPLLEEAGVPLVGPFTG 101 (336)
T ss_pred HHHHH-hcCCc-CCceEEEEEeCCCCChHHHH-HHHHHHHhhcCcEEEEe--CCCch-hHHHHHHHHHHcCCeEEEecCC
Confidence 67899 45566 79999999999888886544 44566766 59999999 77664 6677889999999999998776
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
++.++.. ..+++||+.+++..++..+++++...||+++++++.++.++....+.+++.+++.|++ +.....++
T Consensus 102 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~~~~~~~~~~~~~~~G~~------~~~~~~~~ 174 (336)
T cd06326 102 ASSLRDP-PDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFGKDGLAGVEKALAARGLK------PVATASYE 174 (336)
T ss_pred cHHhcCC-CCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcchHHHHHHHHHHHHHcCCC------eEEEEeec
Confidence 6656432 3589999999999999999999999999999999998889999999999999998843 33344455
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccc------cCCCCCeeEEEEe--cC
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALT------AKNVPVGIIGLKL--VN 232 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~------~~~~~~g~~g~~~--~~ 232 (458)
.+..|+...+.++++.++++|++..+...+..++++++++|+.. . .+....... .....+|++.... ..
T Consensus 175 ~~~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~--~-~~~~~~~~~~~~~~~~g~~~~g~~~~~~~~~~ 251 (336)
T cd06326 175 RNTADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGA--Q-FYNLSFVGADALARLLGEYARGVIVTQVVPNP 251 (336)
T ss_pred CCcccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCC--c-EEEEeccCHHHHHHHhhhhhcceEEEEEecCc
Confidence 56679999999999999999999998888999999999999964 2 122222111 1123567664321 11
Q ss_pred --CC---------------------chhHHHHHHHHHHHHHHHHHh
Q psy17441 233 --AT---------------------NEDAHIRDSIYVLTSALKEMN 255 (458)
Q Consensus 233 --~~---------------------~~~~~~yDAv~~la~Al~~~~ 255 (458)
.. ..+..+||+++++++|+++.-
T Consensus 252 ~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~y~~~~~~~~a~~~~g 297 (336)
T cd06326 252 WSRTLPIVREYQAAMKAYGPGAPPSYVSLEGYIAAKVLVEALRRAG 297 (336)
T ss_pred cccCCHHHHHHHHHHHhhCCCCCCCeeeehhHHHHHHHHHHHHHcC
Confidence 10 135689999999999999753
No 78
>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=99.83 E-value=3.3e-19 Score=175.00 Aligned_cols=225 Identities=12% Similarity=0.075 Sum_probs=173.4
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++++..+|+.+ +.+ +..+++.|++++|.+||| |.+|. .+.++++++...+||+|+++++.+ +.. .+++|
T Consensus 32 G~~i~l~~~D~~~-~~~-a~~~~~~li~~~V~~iiG--~~~s~-~~~a~~~~~~~~~ip~i~~~~~~~-~~~---~~~~f 102 (336)
T cd06339 32 GASIELRVYDTAG-AAG-AAAAARQAVAEGADIIVG--PLLKE-NVAALAAAAAELGVPVLALNNDES-VAA---GPNLF 102 (336)
T ss_pred CCCceEEEEeCCC-ccc-HHHHHHHHHHcCCCEEEc--cCCHH-HHHHHHhhhccCCCCEEEccCCcc-ccC---CCCEE
Confidence 4556677777877 544 444566677789999999 88886 778888999999999999876544 322 37899
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMK 174 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik 174 (458)
|+.+++..+..++++++...|++++++++.+++||++..+.+++.+++.| ..+.....++.+..|+...+++|+
T Consensus 103 ~~~~~~~~~~~~~~~~~~~~g~k~vaii~~~~~~g~~~~~~f~~~~~~~G------~~vv~~~~~~~~~~d~~~~i~~i~ 176 (336)
T cd06339 103 YFGLSPEDEARRAAEYARSQGKRRPLVLAPDGAYGQRVADAFRQAWQQLG------GTVVAIESYDPSPTDLSDAIRRLL 176 (336)
T ss_pred EecCChHHHHHHHHHHHHhcCccceEEEecCChHHHHHHHHHHHHHHHcC------CceeeeEecCCCHHHHHHHHHHHh
Confidence 99999999999999999888999999999999999999999999999988 444555667778899999999999
Q ss_pred hc---------------------cCeEEEEEeChh-hHHHHHHHHHhcCCcccceEEEeeccccccC------CCCCeeE
Q psy17441 175 NA---------------------QARVYLMYASKQ-DAEIIFKDAQYLNMTETGYVWIVTEQALTAK------NVPVGII 226 (458)
Q Consensus 175 ~~---------------------~~~viil~~~~~-~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------~~~~g~~ 226 (458)
+. ++|.|++.+.+. ++..+.++++..+....+-.++.++.+.+.. ...+|++
T Consensus 177 ~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~g~~~~g~~ 256 (336)
T cd06339 177 GVDDSEQRIAQLKSLESEPRRRQDIDAIDAVALPDGEARLIKPQLLFYYGVPGDVPLYGTSRWYSGTPAPLRDPDLNGAW 256 (336)
T ss_pred ccccchhhhhhhhhcccCccccCCCCcEEEEecChhhhhhhcchhhhhccCcCCCCEEEeccccCCCCCcccCcccCCcE
Confidence 98 999999988886 7777777777666411125677777766432 1245655
Q ss_pred EEEec-----------------CC-CchhHHHHHHHHHHHHHHHHH
Q psy17441 227 GLKLV-----------------NA-TNEDAHIRDSIYVLTSALKEM 254 (458)
Q Consensus 227 g~~~~-----------------~~-~~~~~~~yDAv~~la~Al~~~ 254 (458)
..... .| ..+++++|||+.+++.++++.
T Consensus 257 ~~~~~~~~~~~f~~~y~~~~~~~p~~~~~a~~YDa~~l~~~~~~~~ 302 (336)
T cd06339 257 FADPPWLLDANFELRYRAAYGWPPLSRLAALGYDAYALAAALAQLG 302 (336)
T ss_pred EeCCCcccCcchhhhHHHHhcCCCCchHHHHHHhHHHHHHHHHHcc
Confidence 43321 12 345788999999998877653
No 79
>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=99.82 E-value=1.2e-18 Score=167.14 Aligned_cols=216 Identities=20% Similarity=0.248 Sum_probs=174.2
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRD 81 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~ 81 (458)
++++| +.|++ +|+++.+..+|+.+++.. +...++++++++|.+||| +.++. .+.++.+.+...+||+|++.+.+
T Consensus 27 ~~~~n-~~gg~-~g~~v~~~~~d~~~~~~~-~~~~~~~l~~~~v~~iig--~~~~~-~~~~~~~~~~~~~ip~i~~~~~~ 100 (298)
T cd06268 27 VEEIN-AAGGI-LGRKIELVVEDTQGDPEA-AAAAARELVDDGVDAVIG--PLSSG-VALAAAPVAEEAGVPLISPGATS 100 (298)
T ss_pred HHHHH-hcCCC-CCeEEEEEEecCCCCHHH-HHHHHHHHHhCCceEEEc--CCcch-hHHhhHHHHHhCCCcEEccCCCC
Confidence 46788 44556 799999998888887754 445566777889999999 77764 66788999999999999998887
Q ss_pred CCCCCCccccceeecCCCchhHHHHHHHHHHhcC-CeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 82 SAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFN-YMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 82 ~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~-w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
+.+.+ ..+|++|++.|++..+..+++++++..+ |+++++++.+++++....+.+++.+++.| .++......+
T Consensus 101 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~~~~~~~~~~~~~~g------~~i~~~~~~~ 173 (298)
T cd06268 101 PALTG-KGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYGRGLAAAFREALKKLG------GEVVAEETYP 173 (298)
T ss_pred ccccc-CCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchhHHHHHHHHHHHHHcC------CEEEEEeccC
Confidence 76654 3468999999999999999999999888 99999999998899999999999999887 3344344444
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC------CCCCeeEEEEecCC
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK------NVPVGIIGLKLVNA 233 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------~~~~g~~g~~~~~~ 233 (458)
.+..++...++++++.++++|++.+....+..+++++++.|+. ..|+..+.+.... ...+|+++..++.+
T Consensus 174 ~~~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~---~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ 249 (298)
T cd06268 174 PGATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGLK---VPIVGGDGAAAPALLELAGDAAEGVLGTTPYAP 249 (298)
T ss_pred CCCccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCC---CcEEecCccCCHHHHHhhhHhhCCcEEeccCCC
Confidence 4557899999999998999999998888999999999999983 5778777664421 24677777766543
No 80
>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=99.82 E-value=2.3e-18 Score=167.35 Aligned_cols=188 Identities=19% Similarity=0.173 Sum_probs=155.5
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhc-CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLIS-ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~-~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
+++|| + |++ +|+++.+..+|+.+++.... ..++.+++ ++|.+||| +.++. .+.++.+++...++|+|++.++
T Consensus 27 ~~~iN-~-ggi-~g~~i~l~~~d~~~~~~~a~-~~~~~li~~~~v~~vig--~~~s~-~~~~~~~~~~~~~vP~v~~~~~ 99 (312)
T cd06333 27 PDEIN-A-GGI-GGEKVELIVLDDGSDPTKAV-TNARKLIEEDKVDAIIG--PSTTP-ATMAVAPVAEEAKTPMISLAPA 99 (312)
T ss_pred HHHHh-c-CCc-CCeEEEEEEecCCCCHHHHH-HHHHHHHhhCCeEEEEC--CCCCH-HHHHHHHHHHhcCCCEEEccCC
Confidence 68899 4 667 79999999999988885544 44666665 59999999 76664 6677889999999999998876
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
++.++. ..+++||+.+++..++..+++++...||+++++++.++.+|+...+.+++.+++.|+ ++.....++
T Consensus 100 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~~~~~~~~~~~~~~~G~------~v~~~~~~~ 171 (312)
T cd06333 100 AAIVEP--KRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALAPKYGI------EVVADERYG 171 (312)
T ss_pred ccccCC--CCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHHHHHHHHHHHHHHHcCC------EEEEEEeeC
Confidence 554432 347899999999999999999999999999999999888999999999999999883 344444555
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcc
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTE 204 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~ 204 (458)
.+..|+...+.++++.++++|++......+..+++++++.|+..
T Consensus 172 ~~~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~ 215 (312)
T cd06333 172 RTDTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKG 215 (312)
T ss_pred CCCcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCC
Confidence 56678999999998889999999988878888999999999874
No 81
>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=3.9e-18 Score=167.81 Aligned_cols=236 Identities=11% Similarity=0.018 Sum_probs=181.7
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcC-CeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISE-RVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR 80 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~-~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~ 80 (458)
++++| +.|++ .|+++.+..+|++.++.+.. ...++|+++ +|.+||| +.++. ...++ +++...++|+|++.+.
T Consensus 27 ~~~~N-~~Ggi-~G~~i~lv~~D~~~~~~~~~-~~~~~li~~~~V~~iig--~~~s~-~~~~~-~~~~~~~ip~v~~~~~ 99 (341)
T cd06341 27 AGYAN-AAGGI-AGRPIEYVWCDDQGDPASAA-ACARDLVEDDKVVAVVG--GSSGA-GGSAL-PYLAGAGIPVIGGAGT 99 (341)
T ss_pred HHHHH-hcCCc-CCceEEEEEecCCCChhHHH-HHHHHHHHhcCceEEEe--ccccc-chhHH-HHHhhcCCceecCCCC
Confidence 57889 45556 68899999998888885544 446667765 9999999 76664 55555 8899999999998877
Q ss_pred CCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc-chhHHHHHHHHhhhccCCcceeeEEEEEEEEe
Q psy17441 81 DSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT-DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF 159 (458)
Q Consensus 81 ~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~-~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~ 159 (458)
++.++. .|+.|++.+++..+...+++++...+.+++++++.++. ||+.....+++.+++.|+ .+.....+
T Consensus 100 ~~~~~~---~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~~~~g~~~~~~~~~~~~~~G~------~v~~~~~~ 170 (341)
T cd06341 100 SAWELT---SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTALSAAVSAAAALLARSLAAAGV------SVAGIVVI 170 (341)
T ss_pred Cchhhc---CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCCcHHHHHHHHHHHHHHHHcCC------cccccccc
Confidence 665543 36788989999999999999998889999999987765 999999999999999883 33333444
Q ss_pred CCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccc-----cCCCCCeeEEEEecCCC
Q psy17441 160 EPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALT-----AKNVPVGIIGLKLVNAT 234 (458)
Q Consensus 160 ~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~-----~~~~~~g~~g~~~~~~~ 234 (458)
+.+..|+...++++++.++|+|++..+...+..++++++++|+..+ ..+....... .....+|++....+.+.
T Consensus 171 ~~~~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~--~~~~~~~~~~~~~~~~g~~~~g~~~~~~~~~~ 248 (341)
T cd06341 171 TATAPDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPK--VVLSGTCYDPALLAAPGPALAGVYIAVFYRPF 248 (341)
T ss_pred CCCCCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCC--EEEecCCCCHHHHHhcCcccCceEEEeeeccc
Confidence 5567899999999999999999999888899999999999999763 2222111111 12347887776654331
Q ss_pred --------------------------chhHHHHHHHHHHHHHHHHHh
Q psy17441 235 --------------------------NEDAHIRDSIYVLTSALKEMN 255 (458)
Q Consensus 235 --------------------------~~~~~~yDAv~~la~Al~~~~ 255 (458)
..++.+||+++++++|+++.-
T Consensus 249 ~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~yda~~~~~~a~~~ag 295 (341)
T cd06341 249 ESGTPAVALYLAAMARYAPQLDPPEQGFALIGYIAADLFLRGLSGAG 295 (341)
T ss_pred cCCCHHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHHHHhcC
Confidence 146789999999999999764
No 82
>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=99.80 E-value=7.2e-19 Score=172.33 Aligned_cols=175 Identities=14% Similarity=0.181 Sum_probs=138.3
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRD 81 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~ 81 (458)
+||||+++|++ |+++++...| ..++ ..+...+++|++++|.+|+| +.+|+ ++.++.+++++.++|+|++++++
T Consensus 21 veeiNaaGGv~--G~~ielv~~D-~~~p-~~a~~~a~~Li~~~V~~vvG--~~~S~-~~~Av~~~a~~~~vp~i~~~a~~ 93 (347)
T TIGR03863 21 IEDNNTTGRFL--GQTFTLDEVA-VRTP-EDLVAALKALLAQGVRFFVL--DLPAA-ALLALADAAKAKGALLFNAGAPD 93 (347)
T ss_pred HHHHHhhCCcC--CceEEEEEcc-CCCH-HHHHHHHHHHHHCCCCEEEe--cCChH-HHHHHHHHHHhCCcEEEeCCCCC
Confidence 68999555554 6778777664 3555 44566677788889999999 88886 99999999999999999999999
Q ss_pred CCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC
Q psy17441 82 SAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP 161 (458)
Q Consensus 82 ~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~ 161 (458)
+.++.+..++|+||+.|++..++.++++.+...+.+++++|+.|++||....+.+++.+++.| .++...+.++.
T Consensus 94 ~~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkvaii~~~~~~g~~~~~~~~~~~~~~G------~~vv~~~~~~~ 167 (347)
T TIGR03863 94 DALRGADCRANLLHTLPSRAMLADALAQYLAAKRWRRILLIQGPLPADALYADAFRRSAKRFG------AKIVAERPFTF 167 (347)
T ss_pred hHHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEEEEEeCCCcccHHHHHHHHHHHHHCC------CEEEEeEEecc
Confidence 999877667999999999999999999998777999999999999999999999999999987 44444455543
Q ss_pred Cc----ccHHHHHHHHHhccCeEEEEEeChhh
Q psy17441 162 GL----TTFKDQLYEMKNAQARVYLMYASKQD 189 (458)
Q Consensus 162 ~~----~d~~~~l~~ik~~~~~viil~~~~~~ 189 (458)
+. .|+.......+.+++|+|++.....+
T Consensus 168 ~~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~ 199 (347)
T TIGR03863 168 SGDPRRTDQSEVPLFTQGADYDVVVVADEAGE 199 (347)
T ss_pred CCchhhhhcccCceeecCCCCCEEEEecchhh
Confidence 32 23332222234489999998765544
No 83
>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=99.77 E-value=1.4e-20 Score=162.15 Aligned_cols=112 Identities=36% Similarity=0.715 Sum_probs=83.3
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccccccchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHH
Q psy17441 293 SNTLWILVMVSVHVVALVLYLLDRFSPFGRFRLSNSDNTEEDALNLSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWA 372 (458)
Q Consensus 293 ~~~vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~ 372 (458)
+|+||++++++++++++++|+++|++|+++++. ..+...+...++.+++|++++++++|+ ....|++.++|++.++||
T Consensus 1 s~~vW~~il~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~q~-~~~~~~s~s~Ril~~~w~ 78 (148)
T PF00060_consen 1 SWSVWLLILLSILLVSLVLWLFERFSPYEWRKN-QSSPPRRWRFSLSNSFWYTFGTLLQQG-SSIRPRSWSGRILLAFWW 78 (148)
T ss_dssp -HHHHHHHHHHHHHHHTTGGGT-------------------HHHHHHHHHHHCCCCCHHHH-H------HHHHHHHHHHH
T ss_pred CHhHHHHHHHHHHHHHHHHHHHHHHhhhhhccc-cccccccCcccHHHHHHHHHHhhcccc-ccccccchHHHHHHHHHH
Confidence 589999999999999999999999988776541 122344567789999999999999998 689999999999999999
Q ss_pred HHHHHHHhhcccceeEEeeeccCCCCCCChhhhh
Q psy17441 373 GFAMIIVASYTANLAAFLVLERPKTKLTGINDAR 406 (458)
Q Consensus 373 ~~~~i~~~~yta~l~s~lt~~~~~~~i~~~~dL~ 406 (458)
+++++++++|||+|+|+||.++.+.+|++++||+
T Consensus 79 l~~lil~~~Yta~L~s~Lt~~~~~~~i~sl~dL~ 112 (148)
T PF00060_consen 79 LFSLILIASYTANLTSFLTVPKYEPPIDSLEDLA 112 (148)
T ss_dssp HHHHHHHHHHHHHHHHHHHCHHHTSS-SSHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhcccCcCCCCCCHHHHH
Confidence 9999999999999999999999999999999998
No 84
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.65 E-value=1.2e-14 Score=139.24 Aligned_cols=238 Identities=13% Similarity=0.059 Sum_probs=161.2
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCC
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRD 81 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~ 81 (458)
+||||+++|++ |++|+.+.+|...++..-+..+-+.+.+++|.+|+| +.+|. +-.++.++.++++-.+.-+..-
T Consensus 28 I~eINa~GGvl--G~~le~v~~Dp~Sd~~~ya~~A~~Li~~d~V~~ifG--c~TSa-sRKaVlPvvE~~~~LL~Yp~~Y- 101 (363)
T PF13433_consen 28 IEEINAAGGVL--GRQLEPVIYDPASDPSTYAEKAEKLIREDGVRAIFG--CYTSA-SRKAVLPVVERHNALLFYPTQY- 101 (363)
T ss_dssp HHHHHCTTTBT--TB--EEEEE--TT-HHHHHHHHHHHHHHS---EEEE----SHH-HHHHHHHHHHHCT-EEEE-S---
T ss_pred HHHHHhcCCcC--CeEEEEEEECCCCCHHHHHHHHHHHHHhCCccEEEe--cchhh-hHHHHHHHHHhcCceEEecccc-
Confidence 78999666655 889999999999999777776444444699999999 88885 8899999999999998855421
Q ss_pred CCCCCCccccceeecCCCchhHHHHHHH-HHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC
Q psy17441 82 SAFSDKNIHVSFLRTVPPYSHQADVWVE-LLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE 160 (458)
Q Consensus 82 ~~ls~~~~~p~~~r~~p~~~~~~~ai~~-ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~ 160 (458)
.-+ +.-|+++=+....++|...+++ ++.+||-+|+.+|.+|..|++..-..+++.+++.| ..+.....++
T Consensus 102 EG~---E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~pre~Nri~r~~l~~~G------gevvgE~Y~p 172 (363)
T PF13433_consen 102 EGF---ECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYPRESNRIIRDLLEARG------GEVVGERYLP 172 (363)
T ss_dssp ---------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHHHHHHHHHHHHHHHTT-------EEEEEEEE-
T ss_pred ccc---cCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccchHHHHHHHHHHHHHcC------CEEEEEEEec
Confidence 112 2226777778777777777776 56889999999999999999999999999999988 5566666778
Q ss_pred CCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC------CCCCeeEEEEecCCC
Q psy17441 161 PGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK------NVPVGIIGLKLVNAT 234 (458)
Q Consensus 161 ~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~------~~~~g~~g~~~~~~~ 234 (458)
.+.+|+..++.+|++.++|+|+-...++....|+++.++.|+..+ ..-|++-...... ....|.+....+...
T Consensus 173 lg~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~~-~~Pi~S~~~~E~E~~~~g~~~~~Gh~~~~~YFqs 251 (363)
T PF13433_consen 173 LGATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDPE-RIPIASLSTSEAELAAMGAEAAAGHYTSAPYFQS 251 (363)
T ss_dssp S-HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SSS----EEESS--HHHHTTS-HHHHTT-EEEES--TT
T ss_pred CCchhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCcc-cCeEEEEecCHHHHhhcChhhcCCcEEeehhhhh
Confidence 889999999999999999999988888999999999999999864 4555555433221 135677776665433
Q ss_pred ------------------------chhHHHHHHHHHHHHHHHHHh
Q psy17441 235 ------------------------NEDAHIRDSIYVLTSALKEMN 255 (458)
Q Consensus 235 ------------------------~~~~~~yDAv~~la~Al~~~~ 255 (458)
.....+|-+|+++|+|+++.-
T Consensus 252 idtp~N~~Fv~~~~~~~g~~~v~s~~~eaaY~~v~l~a~Av~~ag 296 (363)
T PF13433_consen 252 IDTPENQAFVARFRARYGDDRVTSDPMEAAYFQVHLWAQAVEKAG 296 (363)
T ss_dssp -SSHHHHHHHHHHHTTS-TT----HHHHHHHHHHHHHHHHHHHHT
T ss_pred CCcHHHHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHHHHHHHHhC
Confidence 135579999999999999864
No 85
>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=99.60 E-value=4.9e-14 Score=134.59 Aligned_cols=198 Identities=13% Similarity=0.127 Sum_probs=148.7
Q ss_pred CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHH------HhcCC
Q psy17441 43 ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELL------KHFNY 116 (458)
Q Consensus 43 ~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll------~~~~w 116 (458)
+.-.+++| |.|.- ++.+++.+...+++|+||.++..-....| +++.|+.|+....+..+.++. ++++|
T Consensus 80 ~~gcv~lG--P~CtY-at~~~~~~~~~~~~P~ISaGsfglscd~k---~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W 153 (380)
T cd06369 80 RLGCVLLG--PSCTY-ATFQMVDDEFNLSLPIISAGSFGLSCDYK---ENLTRLLPPARKISDFFVDFWKEKNFPKKPKW 153 (380)
T ss_pred ccCcEEEc--Cccce-ehhhhhhhhhcCCCceEeccccccCCCch---hhhhhcCchHHHHHHHHHHHHhcccccCCCCC
Confidence 45689999 99995 89999999999999999999866544332 589999999999999999999 59999
Q ss_pred eEEEEEEecCcchhH---HHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHH
Q psy17441 117 MKVIFIHSSDTDGRA---LLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEII 193 (458)
Q Consensus 117 ~~v~ii~~~d~~g~~---~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~i 193 (458)
+.. .||.+++-.++ .++++....+.-+ ..+..... -...+++.+.++.+++ +.||||+++++.+.+.|
T Consensus 154 ~~a-yvyk~~~~~edCf~~i~al~a~~~~f~------~~~~~~~~-l~~~~~~~~il~~~~~-~sRIiImCG~p~~ir~l 224 (380)
T cd06369 154 ETA-YVYKKQENTEDCFWYINALEAGVAYFS------SALKFKEL-LRTEEELQKLLTDKNR-KSNVIIMCGTPEDIVNL 224 (380)
T ss_pred cee-EEEcCCCCccceeeEhHhhhhhhhhhh------hcccceee-ecCchhHHHHHHHhcc-CccEEEEeCCHHHHHHH
Confidence 754 48877643222 2455555444322 12221122 2345678888888775 68999999999999999
Q ss_pred HHHHHhcCCcccceEEEeeccccccC-------CCCCeeEEEEecCCC----------------chhHHHHHHHHHHHHH
Q psy17441 194 FKDAQYLNMTETGYVWIVTEQALTAK-------NVPVGIIGLKLVNAT----------------NEDAHIRDSIYVLTSA 250 (458)
Q Consensus 194 l~~a~~~g~~~~~~~wi~t~~~~~~~-------~~~~g~~g~~~~~~~----------------~~~~~~yDAv~~la~A 250 (458)
+.+ ++..++|++|.-|.+.... ..++.++.+++..|+ .+++..||||.++|+|
T Consensus 225 m~~----~~~~gDYVf~~IDlF~~sy~~d~~a~~amqsVLvIT~~~p~~~~~~~~~~fn~~l~~~~aa~fyDaVLLYa~A 300 (380)
T cd06369 225 KGD----RAVAEDIVIILIDLFNDVYYENTTSPPYMRNVLVLTLPPRNSTNNSSFTTDNSLLKDDYVAAYHDGVLLFGHV 300 (380)
T ss_pred Hhc----CccCCCEEEEEEecccchhccCcchHHHHhceEEEecCCCCCcccccCCCCCcchHHHHHHHHHHHHHHHHHH
Confidence 987 3444579999998764322 247888888877663 2578999999999999
Q ss_pred HHHHhhcCc
Q psy17441 251 LKEMNQSAV 259 (458)
Q Consensus 251 l~~~~~~~~ 259 (458)
|+++++++.
T Consensus 301 L~EtL~~G~ 309 (380)
T cd06369 301 LKKFLESQE 309 (380)
T ss_pred HHHHHHhCC
Confidence 999998753
No 86
>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=99.47 E-value=4.3e-12 Score=118.83 Aligned_cols=217 Identities=18% Similarity=0.170 Sum_probs=153.7
Q ss_pred eEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceee
Q psy17441 16 VTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLR 95 (458)
Q Consensus 16 ~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r 95 (458)
..+.+..++...++ .......+.+..+++.++|| +.++. ....+...+...++|+|++....+... .++++++
T Consensus 31 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~d~ii~--~~~~~-~~~~~~~~~~~~~ip~v~~~~~~~~~~---~~~~~~~ 103 (269)
T cd01391 31 RGLEVILADSQSDP-ERALEALRDLIQQGVDGIIG--PPSSS-SALAVVELAAAAGIPVVSLDATAPDLT---GYPYVFR 103 (269)
T ss_pred CceEEEEecCCCCH-HHHHHHHHHHHHcCCCEEEe--cCCCH-HHHHHHHHHHHcCCcEEEecCCCCccC---CCceEEE
Confidence 44455555556665 33444455566779999999 66653 444478888999999999988766554 4588999
Q ss_pred cCCCchhHHHHHHHHHHhcCCeEEEEEEecC-cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCc-ccHHHHHHHH
Q psy17441 96 TVPPYSHQADVWVELLKHFNYMKVIFIHSSD-TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGL-TTFKDQLYEM 173 (458)
Q Consensus 96 ~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d-~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~-~d~~~~l~~i 173 (458)
+.+++..++..+++++.+.+|+++++++.+. ..+....+.+++.+++.| .++......+.+. .++....+.+
T Consensus 104 ~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~l 177 (269)
T cd01391 104 VGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALKKAG------IEVVAIEYGDLDTEKGFQALLQLL 177 (269)
T ss_pred EcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchhhHHHHHHHHHHHhcC------cEEEeccccCCCccccHHHHHHHH
Confidence 9999999999999999999999999999887 677788899999999876 2222222233222 5677777777
Q ss_pred Hhc-cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc----CCCCCeeEEEEecCCC-------chhHHHH
Q psy17441 174 KNA-QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA----KNVPVGIIGLKLVNAT-------NEDAHIR 241 (458)
Q Consensus 174 k~~-~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~----~~~~~g~~g~~~~~~~-------~~~~~~y 241 (458)
++. ++++|++.++ ..+..+++++.+.|+.+++..|+..+.+... .....+...+....+. .....+|
T Consensus 178 ~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~~ 256 (269)
T cd01391 178 KAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGFDGSPAALLAAGEAGPGLTTVAQPFPGDDPDQPDYPAALGY 256 (269)
T ss_pred hcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEecccccccccccccccceEEecccCCCCCCCCCCCcccccee
Confidence 776 6888888777 8899999999999998555777777766544 2233444444433111 1345667
Q ss_pred HHHHH
Q psy17441 242 DSIYV 246 (458)
Q Consensus 242 DAv~~ 246 (458)
||+.+
T Consensus 257 ~a~~~ 261 (269)
T cd01391 257 DAVLL 261 (269)
T ss_pred eeeee
Confidence 76654
No 87
>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=98.41 E-value=3.8e-05 Score=71.78 Aligned_cols=181 Identities=10% Similarity=0.032 Sum_probs=118.2
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+. +...++ ......++.+.+.++.++|+ ..+.. ........+...++|+|..+...+. .++++
T Consensus 29 g~~l~~~--~~~~~~-~~~~~~~~~~~~~~~d~ii~--~~~~~-~~~~~~~~l~~~~ip~v~~~~~~~~------~~~~~ 96 (264)
T cd01537 29 GYQVLLA--NSQNDA-EKQLSALENLIARGVDGIII--APSDL-TAPTIVKLARKAGIPVVLVDRDIPD------GDRVP 96 (264)
T ss_pred CCeEEEE--eCCCCH-HHHHHHHHHHHHcCCCEEEE--ecCCC-cchhHHHHhhhcCCCEEEeccCCCC------Ccccc
Confidence 5555444 334444 34455566677789999998 33332 2233567788899999998776542 13556
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYE 172 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ 172 (458)
++.+.+...+..+++.+...+-++++++..+++ ++....+.+++.+++.| . ..+........+..+....+.+
T Consensus 97 ~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~-~----~~~~~~~~~~~~~~~~~~~~~~ 171 (264)
T cd01537 97 SVGSDNEQAGYLAGEHLAEKGHRRIALLAGPLGSSTARERVAGFKDALKEAG-P----IEIVLVQEGDWDAEKGYQAAEE 171 (264)
T ss_pred eEecCcHHHHHHHHHHHHHhcCCcEEEEECCCCCCcHHHHHHHHHHHHHHcC-C----cChhhhccCCCCHHHHHHHHHH
Confidence 667788888889999998889999999987654 66677899999998765 1 1111122223345566677777
Q ss_pred HHhcc--CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 173 MKNAQ--ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 173 ik~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
+.+.+ ++++++.. ...+..+++++.+.|+..++.+-+++-
T Consensus 172 ~l~~~~~~~~i~~~~-~~~a~~~~~~~~~~g~~i~~~i~i~~~ 213 (264)
T cd01537 172 LLTAHPDPTAIFAAN-DDMALGALRALREAGLRVPDDISVIGF 213 (264)
T ss_pred HHhcCCCCCEEEEcC-cHHHHHHHHHHHHhCCCCCCCeEEEee
Confidence 77666 45555443 356777899999999864444544433
No 88
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=98.27 E-value=0.00016 Score=67.55 Aligned_cols=180 Identities=14% Similarity=0.084 Sum_probs=114.9
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+.. .+.++ .......+.+..+++.++|. ..... .... ...+...+||+|..+...+. +.+.
T Consensus 29 g~~~~~~~--~~~~~-~~~~~~~~~~~~~~~d~iii--~~~~~-~~~~-~~~~~~~~ipvv~~~~~~~~-------~~~~ 94 (264)
T cd06267 29 GYSVLLCN--SDEDP-EKEREALELLLSRRVDGIIL--APSRL-DDEL-LEELAALGIPVVLVDRPLDG-------LGVD 94 (264)
T ss_pred CCEEEEEc--CCCCH-HHHHHHHHHHHHcCcCEEEE--ecCCc-chHH-HHHHHHcCCCEEEecccccC-------CCCC
Confidence 55555443 44444 33455566777889999997 33332 3333 66678999999998775432 2334
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYE 172 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ 172 (458)
.+.+.+...+..+++.+...|.+++++++.+.. ++....+.+++.+++.|+.+ ..........+.++....+++
T Consensus 95 ~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~g~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~ 170 (264)
T cd06267 95 SVGIDNRAGAYLAVEHLIELGHRRIAFIGGPPDLSTARERLEGYREALEEAGIPL----DEELIVEGDFSEESGYEAARE 170 (264)
T ss_pred EEeeccHHHHHHHHHHHHHCCCceEEEecCCCccchHHHHHHHHHHHHHHcCCCC----CcceEEecccchhhHHHHHHH
Confidence 455666777778888887779999999986654 67777888999998876322 111112222234566677777
Q ss_pred HHhcc--CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 173 MKNAQ--ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 173 ik~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
+.+.. +++|+.. ....+..+++++++.|+..++.+-+.+-
T Consensus 171 ~l~~~~~~~~i~~~-~~~~a~~~~~al~~~g~~~~~~i~i~~~ 212 (264)
T cd06267 171 LLASGERPTAIFAA-NDLMAIGALRALRELGLRVPEDVSVVGF 212 (264)
T ss_pred HHhcCCCCcEEEEc-CcHHHHHHHHHHHHhCCCCCCceEEEee
Confidence 77655 5666543 4456678888999999864445544443
No 89
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=98.23 E-value=0.00014 Score=68.22 Aligned_cols=182 Identities=12% Similarity=0.072 Sum_probs=111.6
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+..+ +.++.. .....+.+...++.++|+ ..++..........+...++|+|......+. .+.+.
T Consensus 29 g~~~~~~~~--~~~~~~-~~~~~~~l~~~~vdgvi~--~~~~~~~~~~~~~~l~~~~ip~V~~~~~~~~------~~~~~ 97 (267)
T cd01536 29 GVELIVLDA--QNDVSK-QIQQIEDLIAQGVDGIII--SPVDSAALTPALKKANAAGIPVVTVDSDIDG------GNRLA 97 (267)
T ss_pred CceEEEECC--CCCHHH-HHHHHHHHHHcCCCEEEE--eCCCchhHHHHHHHHHHCCCcEEEecCCCCc------cceeE
Confidence 555555443 334433 334556676779999987 3222102223455667789999998765432 12334
Q ss_pred ecCCCchhHHHHHHHHHHhc--CCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHF--NYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQL 170 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~--~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l 170 (458)
.+.+.+...+..+++.+... |-+++++++..+. ++....+.+++.+++.| . ..+...........+..+.+
T Consensus 98 ~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~-~----~~~~~~~~~~~~~~~~~~~~ 172 (267)
T cd01536 98 YVGTDNYEAGRLAGEYLAKLLGGKGKVAIIEGPPGSSNAQERVKGFRDALKEYP-D----IEIVAVQDGNWDREKALQAM 172 (267)
T ss_pred EEecCHHHHHHHHHHHHHHHhCCCceEEEEEcccccchHHHHHHHHHHHHHhCC-C----cEEEEEecCCCcHHHHHHHH
Confidence 45666666778888888776 8899999986653 67778899999998873 1 22222222222334556777
Q ss_pred HHHHhccCeE-EEEEeChhhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 171 YEMKNAQARV-YLMYASKQDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 171 ~~ik~~~~~v-iil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
+++.+..++. .++.++...+..+++++++.|+. ++...+..+
T Consensus 173 ~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~-~~i~ivg~d 215 (267)
T cd01536 173 EDLLQANPDIDAIFAANDSMALGAVAALKAAGRK-GDVKIVGVD 215 (267)
T ss_pred HHHHHhCCCccEEEEecCCchHHHHHHHHhcCCC-CCceEEecC
Confidence 7776555443 33334446778899999999986 334444343
No 90
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=98.20 E-value=0.00034 Score=66.17 Aligned_cols=214 Identities=10% Similarity=0.015 Sum_probs=125.4
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+.+.+..++...++.. .....+.+..+++.+||. ..............+...++|+|......+ . +.+.
T Consensus 32 g~~~~l~i~~~~~~~~~-~~~~~~~~~~~~vdgiIi--~~~~~~~~~~~l~~~~~~~iPvv~~~~~~~---~----~~~~ 101 (272)
T cd06300 32 GLISEFIVTSADGDVAQ-QIADIRNLIAQGVDAIII--NPASPTALNPVIEEACEAGIPVVSFDGTVT---T----PCAY 101 (272)
T ss_pred CCeeEEEEecCCCCHHH-HHHHHHHHHHcCCCEEEE--eCCChhhhHHHHHHHHHCCCeEEEEecCCC---C----Ccee
Confidence 55444555555555533 344556677789999998 333210223344556678999999875321 1 3345
Q ss_pred ecCCCchhHHHHHHHHHHhc--CCeEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHF--NYMKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQL 170 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~--~w~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l 170 (458)
++.+.+...+..+++.+... +-++++++... ...+....+.+++.+++.| +..+......+.+.++..+.+
T Consensus 102 ~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~g~~~a~~~~~-----~~~~~~~~~~~~~~~~~~~~~ 176 (272)
T cd06300 102 NVNEDQAEFGKQGAEWLVKELGGKGNVLVVRGLAGHPVDEDRYAGAKEVLKEYP-----GIKIVGEVYGDWDQAVAQKAV 176 (272)
T ss_pred EecCCHHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchHHHHHHHHHHHHHCC-----CcEEEeecCCCCCHHHHHHHH
Confidence 67778888888888887665 88999999743 2346677888999998765 122221122222334556777
Q ss_pred HHHHhccC--eEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCC---C-CCeeEEEEecCCCchhHHHHHHH
Q psy17441 171 YEMKNAQA--RVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKN---V-PVGIIGLKLVNATNEDAHIRDSI 244 (458)
Q Consensus 171 ~~ik~~~~--~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~---~-~~g~~g~~~~~~~~~~~~~yDAv 244 (458)
.++.++++ ++|++..+ . +..+++++++.|+..+ -+.+........ + ..++..+....+. ..++-|+
T Consensus 177 ~~~l~~~~~~~~i~~~~d-~-A~g~~~al~~~g~~~p---~v~g~d~~~~~~~~~~~~~~ltti~~~~~~---~~g~~a~ 248 (272)
T cd06300 177 ADFLASNPDVDGIWTQGG-D-AVGAVQAFEQAGRDIP---PVTGEDENGFLRWRLWKDKGLKGIAISNPP---GQSAAAL 248 (272)
T ss_pred HHHHHhCCCcCEEEecCC-C-cHHHHHHHHHcCCCCc---EEEeeCCcHHHHHHhhhccCceeEEEeCCh---HHHHHHH
Confidence 77766554 44444433 3 8889999999998532 233322221111 2 2345555543321 2456666
Q ss_pred HHHHHHH
Q psy17441 245 YVLTSAL 251 (458)
Q Consensus 245 ~~la~Al 251 (458)
.++...+
T Consensus 249 ~~l~~~~ 255 (272)
T cd06300 249 RAAVQAL 255 (272)
T ss_pred HHHHHHH
Confidence 6665554
No 91
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=98.04 E-value=0.00057 Score=64.19 Aligned_cols=213 Identities=8% Similarity=0.055 Sum_probs=121.2
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+.+.+.. .+.++ .......+.+...++.++|. ..+.. ........+...++|+|......+ ..++++
T Consensus 29 g~~~~~~~--~~~~~-~~~~~~~~~l~~~~vdgiii--~~~~~-~~~~~~~~~~~~~ipvV~~~~~~~-----~~~~~v- 96 (266)
T cd06282 29 GYSLLLAT--TDYDA-EREADAVETLLRQRVDGLIL--TVADA-ATSPALDLLDAERVPYVLAYNDPQ-----PGRPSV- 96 (266)
T ss_pred CCEEEEee--CCCCH-HHHHHHHHHHHhcCCCEEEE--ecCCC-CchHHHHHHhhCCCCEEEEeccCC-----CCCCEE-
Confidence 55554443 33343 23344556676788999986 32222 223355667788999998865322 123433
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEec---CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSS---DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLY 171 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~---d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~ 171 (458)
...+...+..+++.+...|.++++++..+ ++++....+.+.+.++++|+.+ ......+.+..+..+.+.
T Consensus 97 --~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~------~~~~~~~~~~~~~~~~~~ 168 (266)
T cd06282 97 --SVDNRAAARDVAQALAALGHRRIAMLAGRLAASDRARQRYAGYRAAMRAAGLAP------LPPVEIPFNTAALPSALL 168 (266)
T ss_pred --eeCcHHHHHHHHHHHHHcCcccEEEeccccccCchHHHHHHHHHHHHHHcCCCC------CccccCCCcHHHHHHHHH
Confidence 34556777788888888899999999743 3357778899999999887432 111112222223334445
Q ss_pred HHH-hc-cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEe-eccccccCCCCCeeEEEEecCCCchhHHHHHHHHHHH
Q psy17441 172 EMK-NA-QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIV-TEQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVLT 248 (458)
Q Consensus 172 ~ik-~~-~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~-t~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~la 248 (458)
++. +. .+++|++ ++...+..+++++++.|+..++.+-+. .|..... .+..+-+..-. ......++-|+.++.
T Consensus 169 ~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~di~v~g~d~~~~~-~~~~p~lt~i~---~~~~~~g~~a~~~l~ 243 (266)
T cd06282 169 ALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRVPDDLSVVGFDGIAIG-RLLTPPLATVA---QPNRDIGRQAVQRLL 243 (266)
T ss_pred HHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCceEEEeecchHHH-hhcCCCceeec---CCHHHHHHHHHHHHH
Confidence 443 32 3566655 556667889999999998654444443 3332211 11111121111 124456777777666
Q ss_pred HHHH
Q psy17441 249 SALK 252 (458)
Q Consensus 249 ~Al~ 252 (458)
..++
T Consensus 244 ~~l~ 247 (266)
T cd06282 244 ARIA 247 (266)
T ss_pred HHhc
Confidence 6553
No 92
>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=97.94 E-value=0.00036 Score=66.23 Aligned_cols=213 Identities=9% Similarity=0.038 Sum_probs=123.6
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCC---CCcccc
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFS---DKNIHV 91 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls---~~~~~p 91 (458)
|.++.+..+++..++.+ .....+.+.++++.++|+ ..++ ..... .....++|+|..+..++... +....+
T Consensus 32 g~~v~l~~~~~~~~~~~-~~~~~~~l~~~~vd~iI~--~~~~--~~~~~--~~~~~~iPvV~~~~~~~~~~~~~~~~~~~ 104 (281)
T cd06325 32 GKNVKIDYQNAQGDQSN-LPTIARKFVADKPDLIVA--IATP--AAQAA--ANATKDIPIVFTAVTDPVGAGLVKSLEKP 104 (281)
T ss_pred CceEEEEEecCCCCHHH-HHHHHHHHHhcCCCEEEE--cCcH--HHHHH--HHcCCCCCEEEEecCCccccccccccccC
Confidence 56777777766666543 445566677789999998 4332 22222 25678999998875433211 111111
Q ss_pred ceeecCCCchhHHHHHHHHHHhc--CCeEEEEEEecC-cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHH
Q psy17441 92 SFLRTVPPYSHQADVWVELLKHF--NYMKVIFIHSSD-TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKD 168 (458)
Q Consensus 92 ~~~r~~p~~~~~~~ai~~ll~~~--~w~~v~ii~~~d-~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~ 168 (458)
....+...+......+++++... |.+++++++.+. .++....+.+++.+++.|+ .+.... . ....+..+
T Consensus 105 ~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~~~~~~~g~------~~~~~~-~-~~~~~~~~ 176 (281)
T cd06325 105 GGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELKKAAAKLGI------EVVEAT-V-SSSNDVQQ 176 (281)
T ss_pred CCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHHHHHHhCCC------EEEEEe-c-CCHHHHHH
Confidence 11223334555667778887765 999999998654 3677778999999988773 222211 1 23445667
Q ss_pred HHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCCCCCeeEEEEecCCCchhHHHHHHHHHHH
Q psy17441 169 QLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVLT 248 (458)
Q Consensus 169 ~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~la 248 (458)
.++++.+ ++++|++.. ...+...++++.+.|+.. +-..+..+... +..+.++.. . .+.....+.|+.++.
T Consensus 177 ~~~~~~~-~~dai~~~~-d~~a~~~~~~~~~~~~~~-~ipvig~d~~~----~~~~~l~tv--~-~~~~~~G~~a~~~l~ 246 (281)
T cd06325 177 AAQSLAG-KVDAIYVPT-DNTVASAMEAVVKVANEA-KIPVIASDDDM----VKRGGLATY--G-IDYYELGRQTGKMAA 246 (281)
T ss_pred HHHHhcc-cCCEEEEcC-chhHHhHHHHHHHHHHHc-CCCEEEcCHHH----HhCCceEEe--c-CCHHHHHHHHHHHHH
Confidence 7777765 357766654 456777888888887631 12333333211 122333321 1 134556677776665
Q ss_pred HHHH
Q psy17441 249 SALK 252 (458)
Q Consensus 249 ~Al~ 252 (458)
..++
T Consensus 247 ~~l~ 250 (281)
T cd06325 247 KILK 250 (281)
T ss_pred HHHc
Confidence 5443
No 93
>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=97.90 E-value=2e-05 Score=59.58 Aligned_cols=56 Identities=18% Similarity=0.442 Sum_probs=48.3
Q ss_pred ccccchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHHHHHHhhcccceeEEe
Q psy17441 335 ALNLSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFL 390 (458)
Q Consensus 335 ~~~~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~~i~~~~yta~l~s~l 390 (458)
..++.+++||++.++++.|++|..|.+..||+++.++.+.++.+.+...+.+++.+
T Consensus 22 ~~~~~da~yfs~~t~tTvGyGDi~p~t~~gr~~~~~~~~~G~~~~~~~~~~~~~~l 77 (79)
T PF07885_consen 22 KWSFIDALYFSFVTITTVGYGDIVPQTPAGRIFTIIYMLIGIFLFALFLSVLASVL 77 (79)
T ss_dssp TTSHHHHHHHHHHHHTT---SSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHhcccCCCccCCccchHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34789999999999999999999999999999999999999999999888877654
No 94
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=97.75 E-value=0.00025 Score=73.61 Aligned_cols=159 Identities=11% Similarity=0.144 Sum_probs=92.3
Q ss_pred EeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcc--c---CCcEEeeecCCCCCCCCcccccee
Q psy17441 20 ATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGF--Y---HIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~--~---~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
+..+|+..++. ..+.+....+|+..||| |..- ..+..++.. . .||++..+..+..-+ . +.+|
T Consensus 257 l~~~Dt~~~~~---~~~~~~a~~~ga~~ViG--PL~k----~~V~~l~~~~~~~~~~vp~LaLN~~~~~~~-~---~~l~ 323 (536)
T PF04348_consen 257 LRFYDTNADSA---DALYQQAVADGADFVIG--PLLK----SNVEALAQLPQLQAQPVPVLALNQPDNSQA-P---PNLY 323 (536)
T ss_dssp EEEEETTTS-H---HHHHHHHHHTT--EEE-----SH----HHHHHHHH-GG-GGTT-EEEES---TT--------TTEE
T ss_pred eEEecCCCCCH---HHHHHHHHHcCCCEEEc--CCCH----HHHHHHHhcCcccccCCceeeccCCCcccC-c---cceE
Confidence 33444555543 33444566789999999 8754 233333333 2 789999887665421 2 3445
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMK 174 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik 174 (458)
...-+..+++..+++.+..-|+++..||+.++++|....++|.+.+++.|..+ .....++ ...++...++.-.
T Consensus 324 ~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g~R~~~aF~~~W~~~gg~~------~~~~~~~-~~~~~~~~i~~r~ 396 (536)
T PF04348_consen 324 QFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWGQRMAEAFNQQWQALGGQV------AEVSYYG-SPADLQAAIQPRR 396 (536)
T ss_dssp E----HHHHHHHHHHHHHHTT--S-EEEEESSHHHHHHHHHHHHHHHHHHSS--------EEEEES-STTHHHHHHHHS-
T ss_pred EEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHHHHHHHHHHHHHHHcCCCc------eeeEecC-CHHHHHHHHhhcC
Confidence 55556678889999999999999999999999999999999999999987332 3334444 4568888877656
Q ss_pred hccCeEEEEEeChhhHHHHHHHHH
Q psy17441 175 NAQARVYLMYASKQDAEIIFKDAQ 198 (458)
Q Consensus 175 ~~~~~viil~~~~~~~~~il~~a~ 198 (458)
+.+.|.|++.+.+.+++.|--...
T Consensus 397 r~d~D~ifl~a~~~~ar~ikP~l~ 420 (536)
T PF04348_consen 397 RQDIDAIFLVANPEQARLIKPQLD 420 (536)
T ss_dssp -TT--EEEE---HHHHHHHHHHHT
T ss_pred CCCCCEEEEeCCHHHHHHHhhhcc
Confidence 668999999999999887766553
No 95
>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=97.67 E-value=0.0048 Score=58.35 Aligned_cols=218 Identities=12% Similarity=0.034 Sum_probs=119.7
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+++.+..+++..++.. .....+.+.+++|.++|- .|..+. ........+...++|+|..+...+ + ...++
T Consensus 28 ~g~~~~~~~~~~~~~~~~-~~~~i~~l~~~~vdgiIi-~~~~~~-~~~~~~~~~~~~~iPvV~~~~~~~---~-~~~~~- 99 (275)
T cd06320 28 LGVSVDIQAAPSEGDQQG-QLSIAENMINKGYKGLLF-SPISDV-NLVPAVERAKKKGIPVVNVNDKLI---P-NATAF- 99 (275)
T ss_pred hCCeEEEEccCCCCCHHH-HHHHHHHHHHhCCCEEEE-CCCChH-HhHHHHHHHHHCCCeEEEECCCCC---C-ccceE-
Confidence 466666665554455433 334456676788988664 143222 223445666789999998765321 1 11122
Q ss_pred eecCCCchhHHHHHHHHHHhc--CCeEEEEEEecC--cchhHHHHHHHHhhhcc-CCcceeeEEEEEEEEeCCCcccHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHF--NYMKVIFIHSSD--TDGRALLGRFQTTSQNQ-EDDVEIKVQVEAVIEFEPGLTTFKD 168 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~--~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~-gi~v~~~~~v~~~~~~~~~~~d~~~ 168 (458)
+...+...+...++.+... |.++++++.... .......+.+.+.++++ |+ .+...........+...
T Consensus 100 --V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~~~~~~~~------~~~~~~~~~~~~~~~~~ 171 (275)
T cd06320 100 --VGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTEAIKKASGI------EVVASQPADWDREKAYD 171 (275)
T ss_pred --EecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHHHhhCCCc------EEEEecCCCccHHHHHH
Confidence 3456666677788877665 899999997533 23456678899999987 63 22211111112334455
Q ss_pred HHHHHHhccCeEEEEEe-ChhhHHHHHHHHHhcCCcccceEEEeeccccccCC-CCCeeE-EEEecCCCchhHHHHHHHH
Q psy17441 169 QLYEMKNAQARVYLMYA-SKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKN-VPVGII-GLKLVNATNEDAHIRDSIY 245 (458)
Q Consensus 169 ~l~~ik~~~~~viil~~-~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~-~~~g~~-g~~~~~~~~~~~~~yDAv~ 245 (458)
.++++.+..+++-.+++ +...+..+++.+++.|+. ++...+..+....... +..+.+ ..... .....++.|+.
T Consensus 172 ~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~-~di~vig~d~~~~~~~~i~~~~~~~ti~~---~~~~~g~~a~~ 247 (275)
T cd06320 172 VATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ-GKVLVVGTDGIPEAYKSIRAGELTATVDS---FPALIGEVAME 247 (275)
T ss_pred HHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC-CCeEEEecCCCHHHHHHHHcCCeeEEecc---CHHHHHHHHHH
Confidence 66666554444433344 445566788888999985 2333444443322211 123332 22211 23446666666
Q ss_pred HHHHHH
Q psy17441 246 VLTSAL 251 (458)
Q Consensus 246 ~la~Al 251 (458)
++...+
T Consensus 248 ~l~~~l 253 (275)
T cd06320 248 VMLRAL 253 (275)
T ss_pred HHHHHh
Confidence 665544
No 96
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=97.51 E-value=0.02 Score=54.09 Aligned_cols=221 Identities=11% Similarity=0.029 Sum_probs=122.8
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+++.+.. ...+. +......+.+..+++.++|-. +.... ........+...++|+|......+.. .. .+++
T Consensus 28 ~g~~~~~~~--~~~~~-~~~~~~i~~l~~~~vdgiIi~-~~~~~-~~~~~i~~~~~~~iPvV~~~~~~~~~-~~--~~~~ 99 (273)
T cd06309 28 RGFDLKFAD--AQQKQ-ENQISAIRSFIAQGVDVIILA-PVVET-GWDPVLKEAKAAGIPVILVDRGVDVK-DD--SLYV 99 (273)
T ss_pred cCCEEEEeC--CCCCH-HHHHHHHHHHHHcCCCEEEEc-CCccc-cchHHHHHHHHCCCCEEEEecCcCCc-cC--ccee
Confidence 355555533 33343 333445566767888888751 33221 22334455678899999987642211 11 1345
Q ss_pred eecCCCchhHHHHHHHHHHhc--CCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHF--NYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQ 169 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~--~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~ 169 (458)
.++.+.+...+...++.+... +-++++++..+.+ ......+.+++.+++.+ +..+........+..+..+.
T Consensus 100 ~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~-----~~~~~~~~~~~~~~~~~~~~ 174 (273)
T cd06309 100 TFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAEVIKKYP-----NMKIVASQTGDFTRAKGKEV 174 (273)
T ss_pred eEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHHHHHHCC-----CCEEeeccCCcccHHHHHHH
Confidence 667777777888888877666 8899999975432 33466788888888753 12221111111122333445
Q ss_pred HHHHHhcc---CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccc-cC-CCCCeeEEEEecCCCchhHHHHHHH
Q psy17441 170 LYEMKNAQ---ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALT-AK-NVPVGIIGLKLVNATNEDAHIRDSI 244 (458)
Q Consensus 170 l~~ik~~~---~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~-~~-~~~~g~~g~~~~~~~~~~~~~yDAv 244 (458)
+.++.+.. +++|+ +.+...+..+++++++.|+..++.+-+.+-.... .. .+..+.+....... . ..++.|+
T Consensus 175 ~~~~l~~~~~~~~aI~-~~~d~~a~g~~~a~~~~g~~ip~di~iig~d~~~~~~~~~~~~~lt~~~~~~--~-~~g~~a~ 250 (273)
T cd06309 175 MEALLKAHGDDIDAVY-AHNDEMALGAIQAIKAAGKKPGKDIKIVSIDGTKDAFQAMADGKLNATVECN--P-LFGPLAF 250 (273)
T ss_pred HHHHHHhCCCCccEEE-ECCcHHHHHHHHHHHHcCCCCCCCeEEEecCCCHHHHHHHHcCceEEEEecC--h-hHHHHHH
Confidence 55554433 45443 3344566678999999999755555555443332 21 23444443322221 1 2578887
Q ss_pred HHHHHHH
Q psy17441 245 YVLTSAL 251 (458)
Q Consensus 245 ~~la~Al 251 (458)
.++...+
T Consensus 251 ~~l~~~i 257 (273)
T cd06309 251 DTLEKYL 257 (273)
T ss_pred HHHHHHh
Confidence 7776555
No 97
>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=97.51 E-value=0.022 Score=53.44 Aligned_cols=177 Identities=10% Similarity=-0.003 Sum_probs=105.3
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+.+.+ ++++.++.+ ....++.+.+.+|.|+|-.++.. . ......+...++|+|......+. ...++
T Consensus 29 g~~~~~--~~~~~~~~~-~~~~~~~l~~~~vdgiii~~~~~---~-~~~~~~l~~~~iPvv~~~~~~~~----~~~~~-- 95 (268)
T cd06273 29 GYTLLV--ASSGYDLDR-EYAQARKLLERGVDGLALIGLDH---S-PALLDLLARRGVPYVATWNYSPD----SPYPC-- 95 (268)
T ss_pred CCEEEE--ecCCCCHHH-HHHHHHHHHhcCCCEEEEeCCCC---C-HHHHHHHHhCCCCEEEEcCCCCC----CCCCE--
Confidence 555544 334444433 34445667677887777521321 1 34445667789999998653321 11233
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEec---CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSS---DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLY 171 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~---d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~ 171 (458)
....+...+..+++.+...|.++++++... +..+......|.+.+++.|+.+.. ......+.+.++..+.+.
T Consensus 96 -v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~----~~~~~~~~~~~~~~~~~~ 170 (268)
T cd06273 96 -VGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRARARRAGVRAALAEAGLELPE----LWQVEAPYSIADGRAALR 170 (268)
T ss_pred -EEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccHHHHHHHHHHHHHHcCCCCCH----HHeeeCCCcHHHHHHHHH
Confidence 235666677788888877799999999743 234667889999999987743211 001111112223345556
Q ss_pred HHHh--ccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEE
Q psy17441 172 EMKN--AQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWI 210 (458)
Q Consensus 172 ~ik~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi 210 (458)
++.+ ..+++|++ ++...+..+++++++.|+..++.+-+
T Consensus 171 ~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~~p~~i~v 210 (268)
T cd06273 171 QLLEQPPRPTAVIC-GNDVLALGALYEARRLGLSVPEDLSI 210 (268)
T ss_pred HHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCCCCCceEE
Confidence 6544 33666665 55666788899999999865444433
No 98
>KOG1419|consensus
Probab=97.48 E-value=0.00021 Score=70.96 Aligned_cols=90 Identities=18% Similarity=0.359 Sum_probs=76.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccccccchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHH
Q psy17441 296 LWILVMVSVHVVALVLYLLDRFSPFGRFRLSNSDNTEEDALNLSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWAGFA 375 (458)
Q Consensus 296 vW~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~ 375 (458)
.|+.-++.+++.+.++|+.|+-.+-+ ..+....++.+++||...++++-|+||+.|.++.||+++.+.-|++
T Consensus 236 t~YIGFL~LIfsSflVYLaEKd~~~e--------~~n~~F~TyADALWWG~ITltTIGYGDk~P~TWlGr~laa~fslig 307 (654)
T KOG1419|consen 236 TWYIGFLVLIFSSFLVYLAEKDAQGE--------GTNDEFPTYADALWWGVITLTTIGYGDKTPQTWLGRLLAACFSLIG 307 (654)
T ss_pred HHHHHHHHHHHHHHHHHHhhcccccc--------cccccchhHHHHHHhhheeEEeeccCCcCcccchhHHHHHHHHHHH
Confidence 79999999999999999999964321 1222334689999999999999999999999999999999999999
Q ss_pred HHHHhhcccceeEEeeec
Q psy17441 376 MIIVASYTANLAAFLVLE 393 (458)
Q Consensus 376 ~i~~~~yta~l~s~lt~~ 393 (458)
+-+.+.=.+-|.|=+++.
T Consensus 308 iSFFALPAGILGSGfALK 325 (654)
T KOG1419|consen 308 ISFFALPAGILGSGFALK 325 (654)
T ss_pred HHHHhcccccccchhhhh
Confidence 988888888888877764
No 99
>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=97.38 E-value=0.016 Score=54.28 Aligned_cols=181 Identities=13% Similarity=0.087 Sum_probs=99.4
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+. +.+.++. ......+.+..+++.|+|-. +..+. ........+...++|+|......+. . +.+-
T Consensus 29 g~~v~~~--~~~~~~~-~~~~~~~~~~~~~~dgii~~-~~~~~-~~~~~l~~l~~~~ipvv~~~~~~~~----~--~~~~ 97 (268)
T cd06323 29 GYELTVL--DAQNDAA-KQLNDIEDLITRGVDAIIIN-PTDSD-AVVPAVKAANEAGIPVFTIDREANG----G--EVVS 97 (268)
T ss_pred CceEEec--CCCCCHH-HHHHHHHHHHHcCCCEEEEc-CCChH-HHHHHHHHHHHCCCcEEEEccCCCC----C--ceEE
Confidence 4555443 3344443 33344555667788886641 43321 2233444556789999998764321 1 1122
Q ss_pred ecCCCchhHHHHHHHHHHhc--CCeEEEEEEecC--cchhHHHHHHHHhhhcc-CCcceeeEEEEEEEEeCCCcccHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHF--NYMKVIFIHSSD--TDGRALLGRFQTTSQNQ-EDDVEIKVQVEAVIEFEPGLTTFKDQ 169 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~--~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~-gi~v~~~~~v~~~~~~~~~~~d~~~~ 169 (458)
.+...+...+..+++.+... |-+++++++.+. ..+....+.+++.++++ | ..+........+..+....
T Consensus 98 ~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~l~~~~~------~~~~~~~~~~~~~~~~~~~ 171 (268)
T cd06323 98 QIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHEVVDKYPG------LKVVASQPADFDRAKGLNV 171 (268)
T ss_pred EEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHHHHhCCC------cEEEecccCCCCHHHHHHH
Confidence 23344444567788887776 789999998643 35667788899999873 5 2222111111222333345
Q ss_pred HHHHHhccCeEE-EEEeChhhHHHHHHHHHhcCCcccceEEEeecc
Q psy17441 170 LYEMKNAQARVY-LMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 170 l~~ik~~~~~vi-il~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~ 214 (458)
+.++.+..++.- +++.+...+..+++++++.|+ ++-..+..+.
T Consensus 172 ~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~--~di~iig~d~ 215 (268)
T cd06323 172 MENILQAHPDIKGVFAQNDEMALGAIEALKAAGK--DDVKVVGFDG 215 (268)
T ss_pred HHHHHHHCCCcCEEEEcCCchHHHHHHHHHHcCC--CCcEEEEeCC
Confidence 555544333322 333444556678899999998 2344444433
No 100
>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=97.35 E-value=0.04 Score=51.95 Aligned_cols=216 Identities=11% Similarity=0.058 Sum_probs=113.7
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+ +++..++.+. ....+.+...++.++|- .+..+. ........+...++|+|......+ .. .++.
T Consensus 29 g~~~~~--~~~~~~~~~~-~~~i~~~~~~~~dgiii-~~~~~~-~~~~~l~~~~~~~ipvV~~~~~~~----~~--~~~~ 97 (277)
T cd06319 29 GYDAVE--LSAENSAKKE-LENLRTAIDKGVSGIII-SPTNSS-AAVTLLKLAAQAKIPVVIADIGAE----GG--DYVS 97 (277)
T ss_pred CCeEEE--ecCCCCHHHH-HHHHHHHHhcCCCEEEE-cCCchh-hhHHHHHHHHHCCCCEEEEecCCC----CC--ceEE
Confidence 444433 3344454333 34455566778888753 143332 334556677788999998754221 11 1222
Q ss_pred ecCCCchhHHHHHHHHHHhc------CCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEE-eCCCccc
Q psy17441 95 RTVPPYSHQADVWVELLKHF------NYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIE-FEPGLTT 165 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~------~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~-~~~~~~d 165 (458)
.+.+.+..-+..+++++... |-++++++.... ..+....+.+++.++++|+.+ ..... .+.+..+
T Consensus 98 ~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~------~~~~~~~~~~~~~ 171 (277)
T cd06319 98 YIKSDNYEGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNGQKRTKGFKEAMKEAGCDL------AGIRQQKDFSYQE 171 (277)
T ss_pred EEeeccHHHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccHHHHHHHHHHHHHhcCCce------EeeccCCCCCHHH
Confidence 23344444455666655443 668999997432 346778899999999887432 11111 1112223
Q ss_pred HHHHHHHHHhccCeEE-EEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCC-CCCeeE-EEEecCCCchhHHHHH
Q psy17441 166 FKDQLYEMKNAQARVY-LMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKN-VPVGII-GLKLVNATNEDAHIRD 242 (458)
Q Consensus 166 ~~~~l~~ik~~~~~vi-il~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~-~~~g~~-g~~~~~~~~~~~~~yD 242 (458)
....++++.+..++.- +++.....+..+++++++.|+. ++...+..+....... ...|.+ +..... ....++-
T Consensus 172 ~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~-~di~vvg~d~~~~~~~~~~~~~~~~tv~~~---~~~~g~~ 247 (277)
T cd06319 172 TFDYTNDLLTANPDIRAIWLQGSDRYQGALDAIATAGKT-GKVLLICFDAEPEFIELLKSGALVGAGMQQ---PFLMGER 247 (277)
T ss_pred HHHHHHHHHHhCCCCCEEEECCCccchHHHHHHHHcCCC-CCEEEEEcCCCHHHHHHhhcCceEEEEecC---HHHHHHH
Confidence 3455556554445432 3334445567899999999986 2333333333221212 234443 222222 2345666
Q ss_pred HHHHHHHHH
Q psy17441 243 SIYVLTSAL 251 (458)
Q Consensus 243 Av~~la~Al 251 (458)
|+.++...+
T Consensus 248 a~~~l~~~~ 256 (277)
T cd06319 248 AVETVYNAL 256 (277)
T ss_pred HHHHHHHHH
Confidence 666665554
No 101
>KOG3713|consensus
Probab=97.33 E-value=0.00027 Score=69.76 Aligned_cols=67 Identities=13% Similarity=0.399 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccccccchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHHHHHHh
Q psy17441 302 VSVHVVALVLYLLDRFSPFGRFRLSNSDNTEEDALNLSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVA 380 (458)
Q Consensus 302 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~~i~~~ 380 (458)
+.+++.+.+++.+||-.| .++-.++--++||++.+|++-|+||..|++.+||+++..=.++++++++
T Consensus 354 ~GI~iFStlvY~~Ek~~~------------~~~FtSIPa~~WWaiVTMTTVGYGDm~P~T~~Gklvas~cil~GVLvlA 420 (477)
T KOG3713|consen 354 VGIVIFSTLVYFAEKDEP------------DTKFTSIPAGFWWAVVTMTTVGYGDMVPVTVLGKLVASLCILCGVLVLA 420 (477)
T ss_pred HHHHHHHHHHHHhhhcCC------------CCCCccccchhheeeEEEeeecccCccccccchHHHHHHHHHHhHHHhh
Confidence 356677888888898432 3335578899999999999999999999999999999999988888754
No 102
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=97.28 E-value=0.021 Score=53.55 Aligned_cols=218 Identities=10% Similarity=0.024 Sum_probs=118.5
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+.+.+...+.... .....+.+.+.+.++.|+|. ..+.. ........+...++|+|..+...+. ..++++
T Consensus 28 ~g~~~~~~~~~~~~~--~~~~~~~~~l~~~~vdgiii--~~~~~-~~~~~~~~~~~~~ipvv~i~~~~~~----~~~~~V 98 (270)
T cd01545 28 TGYQLVIEPCDSGSP--DLAERVRALLQRSRVDGVIL--TPPLS-DNPELLDLLDEAGVPYVRIAPGTPD----PDSPCV 98 (270)
T ss_pred CCCeEEEEeCCCCch--HHHHHHHHHHHHCCCCEEEE--eCCCC-CccHHHHHHHhcCCCEEEEecCCCC----CCCCeE
Confidence 356665554332222 23344455565788999998 33321 2234456677899999988764321 112332
Q ss_pred eecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcc--hhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTD--GRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLY 171 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~--g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~ 171 (458)
.......+..+++.+...|.++++++..+..+ .......+++.+++.|+.+. .. .......+..+-...+.
T Consensus 99 ---~~d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~~~~~~---~~-~~~~~~~~~~~~~~~~~ 171 (270)
T cd01545 99 ---RIDDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDALAEAGLPLD---PE-LVAQGDFTFESGLEAAE 171 (270)
T ss_pred ---EeccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHHHHcCCCCC---hh-hEEeCCCChhhHHHHHH
Confidence 24555566777888877899999999865543 34557888999988774320 00 01111111122223444
Q ss_pred HHHh--ccCeEEEEEeChhhHHHHHHHHHhcCCcccceE-EEeeccccccCCCCCeeEEEEecCCCchhHHHHHHHHHHH
Q psy17441 172 EMKN--AQARVYLMYASKQDAEIIFKDAQYLNMTETGYV-WIVTEQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVLT 248 (458)
Q Consensus 172 ~ik~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~-wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~la 248 (458)
++.+ ..+++|++ ++...+..+++++++.|...++.+ .+.-|..............+. ......++.|+.++.
T Consensus 172 ~~l~~~~~~~~i~~-~~d~~a~~~~~~~~~~g~~~p~~i~vig~d~~~~~~~~~~~~~ti~----~~~~~~g~~a~~~l~ 246 (270)
T cd01545 172 ALLALPDRPTAIFA-SNDDMAAGVLAVAHRRGLRVPDDLSVVGFDDTPIATTIWPPLTTVR----QPIAEMARAAAELLI 246 (270)
T ss_pred HHHhCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEEEECChhHHhcCCCCceEee----CcHHHHHHHHHHHHH
Confidence 5443 34566664 555777899999999998644433 444443221111111111111 123345677766665
Q ss_pred HHHH
Q psy17441 249 SALK 252 (458)
Q Consensus 249 ~Al~ 252 (458)
..++
T Consensus 247 ~~l~ 250 (270)
T cd01545 247 ARLR 250 (270)
T ss_pred HHhc
Confidence 5443
No 103
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=97.27 E-value=0.03 Score=52.48 Aligned_cols=214 Identities=15% Similarity=0.041 Sum_probs=118.0
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+.+.+.. ...++ .......+.+.+.++.|+|- ..+. ....+...+...++|+|..+...+ ....++
T Consensus 29 g~~~~~~~--~~~~~-~~~~~~i~~l~~~~vdgiii--~~~~--~~~~~~~~l~~~~ipvV~~~~~~~----~~~~~~-- 95 (268)
T cd06298 29 KYNIILSN--SDNDK-EKELKVLNNLLAKQVDGIIF--MGGK--ISEEHREEFKRSPTPVVLAGSVDE----DNELPS-- 95 (268)
T ss_pred CCeEEEEe--CCCCH-HHHHHHHHHHHHhcCCEEEE--eCCC--CcHHHHHHHhcCCCCEEEEccccC----CCCCCE--
Confidence 45554443 23333 22334445566778888885 2222 123345556678999998865322 111232
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc---chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT---DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLY 171 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~---~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~ 171 (458)
+.+.+...+..+++.+...|-++++++..+.. .+......+++.++++|+.+.. ........+.......++
T Consensus 96 -v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~gf~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~ 170 (268)
T cd06298 96 -VNIDYKKAAFEATELLIKNGHKKIAFISGPLEDSINGDERLAGYKEALSEANIEFDE----SLIFEGDYTYESGYELAE 170 (268)
T ss_pred -EEECcHHHHHHHHHHHHHcCCceEEEEeCCcccccchhHHHHHHHHHHHHcCCCCCH----HHeEeCCCChhHHHHHHH
Confidence 34556666677888887789999999975432 5677888999999888743211 011111112223334555
Q ss_pred HHHhcc-CeEEEEEeChhhHHHHHHHHHhcCCcccceE-EEeeccccccCCCCCeeEEEEecCCCchhHHHHHHHHHHHH
Q psy17441 172 EMKNAQ-ARVYLMYASKQDAEIIFKDAQYLNMTETGYV-WIVTEQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVLTS 249 (458)
Q Consensus 172 ~ik~~~-~~viil~~~~~~~~~il~~a~~~g~~~~~~~-wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~la~ 249 (458)
++.+.. +++|++ ++...+..+++++++.|+.-++.+ ++.-+..... .+....+.. . .......++-|+.++..
T Consensus 171 ~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~vvg~d~~~~~-~~~~~~ltt-v--~~~~~~~g~~a~~~l~~ 245 (268)
T cd06298 171 ELLEDGKPTAAFV-TDDELAIGILNAAQDAGLKVPEDFEIIGFNNTKLA-SMVRPQLTS-V--TQPLYDIGAVAMRLLTK 245 (268)
T ss_pred HHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEEeeccHHHH-hhcCCCcce-E--cCCHHHHHHHHHHHHHH
Confidence 665544 667665 444557789999999998754444 4444432211 111111111 1 11334566777766654
Q ss_pred HH
Q psy17441 250 AL 251 (458)
Q Consensus 250 Al 251 (458)
.+
T Consensus 246 ~~ 247 (268)
T cd06298 246 LM 247 (268)
T ss_pred HH
Confidence 44
No 104
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.17 E-value=0.081 Score=49.81 Aligned_cols=179 Identities=13% Similarity=0.058 Sum_probs=105.7
Q ss_pred ceEEEEeeeeeCC-CHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 15 GVTFSATGIQMDP-NPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 15 ~~~l~~~~~~~~~-~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
|+++.+.. .+. ++ .......+.+...++.++|. ..............+...++|+|......+.... .+.+
T Consensus 30 g~~v~~~~--~~~~~~-~~~~~~i~~l~~~~vdgiii--~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~~~~~---~~~~ 101 (271)
T cd06312 30 GVDVEYRG--PETFDV-ADMARLIEAAIAAKPDGIVV--TIPDPDALDPAIKRAVAAGIPVISFNAGDPKYKE---LGAL 101 (271)
T ss_pred CCEEEEEC--CCCCCH-HHHHHHHHHHHHhCCCEEEE--eCCChHHhHHHHHHHHHCCCeEEEeCCCCCcccc---ccce
Confidence 55554443 233 44 33344556676788998887 3222102233445566789999998653322211 1334
Q ss_pred eecCCCchhHHHHHHHHHHh-cCCeEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKH-FNYMKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQL 170 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~-~~w~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l 170 (458)
..+...+...+..+++.+.. -|-++++++..+ ...+....+.+++.++++|+ .... .....+..+....+
T Consensus 102 ~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~g~~~~~~~~~r~~g~~~~~~~~~~------~~~~-~~~~~~~~~~~~~~ 174 (271)
T cd06312 102 AYVGQDEYAAGEAAGERLAELKGGKNVLCVIHEPGNVTLEDRCAGFADGLGGAGI------TEEV-IETGADPTEVASRI 174 (271)
T ss_pred EEeccChHHHHHHHHHHHHHhcCCCeEEEEecCCCCccHHHHHHHHHHHHHhcCc------eeeE-eecCCCHHHHHHHH
Confidence 45667778888889998888 899999999743 23456778889999988762 1111 11111223344555
Q ss_pred HHHHhcc--CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEe
Q psy17441 171 YEMKNAQ--ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIV 211 (458)
Q Consensus 171 ~~ik~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~ 211 (458)
+++.+.. +++|++. +...+..+++.+++.|+. + .+-+.
T Consensus 175 ~~~l~~~~~~~aI~~~-~d~~a~g~~~al~~~g~~-~-di~vv 214 (271)
T cd06312 175 AAYLRANPDVDAVLTL-GAPSAAPAAKALKQAGLK-G-KVKLG 214 (271)
T ss_pred HHHHHhCCCccEEEEe-CCccchHHHHHHHhcCCC-C-CeEEE
Confidence 5554333 4554443 445677888899999986 2 44444
No 105
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.15 E-value=0.04 Score=51.83 Aligned_cols=175 Identities=13% Similarity=0.026 Sum_probs=97.1
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+.+.+. +...++. ......+.+..+++.++|.. +..+. ........+...++|+|..+...+ .. ..+++.
T Consensus 30 g~~~~~~--~~~~~~~-~~~~~~~~l~~~~vdgiii~-~~~~~-~~~~~l~~~~~~~iPvV~~~~~~~---~~-~~~~v~ 100 (275)
T cd06317 30 GVEVIVL--DANGDVA-RQAAQVEDLIAQKVDGIILW-PTDGQ-AYIPGLRKAKQAGIPVVITNSNIS---EK-GFEFIK 100 (275)
T ss_pred CCEEEEE--cCCcCHH-HHHHHHHHHHHcCCCEEEEe-cCCcc-ccHHHHHHHHHCCCcEEEeCCCCC---CC-ccchhh
Confidence 5555443 3444443 33344555667889988762 32222 223444556789999998765321 11 124433
Q ss_pred ecCC-CchhHHHHHHHHHHhc--CCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHH
Q psy17441 95 RTVP-PYSHQADVWVELLKHF--NYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQ 169 (458)
Q Consensus 95 r~~p-~~~~~~~ai~~ll~~~--~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~ 169 (458)
..+. .+...+...++.+... |-++++++....+ .+....+.+++.++++|..+ .+......+.+.++....
T Consensus 101 ~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~ 176 (275)
T cd06317 101 SFTGPDDISQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQKGFEDELAEVCPGV----EVLDTQPADWDREKAQVA 176 (275)
T ss_pred hhccccHHHHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHHHHHHHHHhhCCCC----EEEeccCCCCCHHHHHHH
Confidence 3333 3344556666665444 7789999975433 34566788999998876322 221111111122223334
Q ss_pred HHHHHhc---cCeEEEEEeChhhHHHHHHHHHhcCCc
Q psy17441 170 LYEMKNA---QARVYLMYASKQDAEIIFKDAQYLNMT 203 (458)
Q Consensus 170 l~~ik~~---~~~viil~~~~~~~~~il~~a~~~g~~ 203 (458)
++++-+. .++.|++ ++...+..+++++++.|+.
T Consensus 177 ~~~~l~~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ 212 (275)
T cd06317 177 MEALITKFGDDIDGVYA-GDDNMARGALNAAKEAGLA 212 (275)
T ss_pred HHHHHHhCCCCccEEEE-CCCcHHHHHHHHHHhcCCc
Confidence 4444322 3566664 4455678899999999987
No 106
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=97.12 E-value=0.091 Score=51.07 Aligned_cols=198 Identities=14% Similarity=0.054 Sum_probs=110.8
Q ss_pred HHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhc
Q psy17441 35 SVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHF 114 (458)
Q Consensus 35 ~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~ 114 (458)
...+.+.+.++.++|-.++. ........+...++|+|..+...+ ...+++ +...+..-+..+++.+...
T Consensus 106 ~~~~~l~~~~vdGiIi~~~~----~~~~~~~~l~~~~iPvV~~~~~~~----~~~~~~---V~~D~~~~~~~a~~~L~~~ 174 (329)
T TIGR01481 106 QVLNTLLSKQVDGIIFMGGT----ITEKLREEFSRSPVPVVLAGTVDK----ENELPS---VNIDYKQATKEAVGELIAK 174 (329)
T ss_pred HHHHHHHhCCCCEEEEeCCC----CChHHHHHHHhcCCCEEEEecCCC----CCCCCE---EEECcHHHHHHHHHHHHHC
Confidence 33455667788887741121 123344556678999998765321 111232 3345555556777888788
Q ss_pred CCeEEEEEEecC--c-chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHH
Q psy17441 115 NYMKVIFIHSSD--T-DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAE 191 (458)
Q Consensus 115 ~w~~v~ii~~~d--~-~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~ 191 (458)
|.++++++.... . .+....+.+.+.+++.|+.+... .......+..+-...++++.+..+++|++. +...+.
T Consensus 175 G~~~I~~i~g~~~~~~~~~~R~~Gf~~~l~~~g~~~~~~----~~~~~~~~~~~~~~~~~~ll~~~p~ai~~~-~d~~A~ 249 (329)
T TIGR01481 175 GHKSIAFVGGPLSDSINGEDRLEGYKEALNKAGIQFGED----LVCEGKYSYDAGYKAFAELKGSLPTAVFVA-SDEMAA 249 (329)
T ss_pred CCCeEEEEecCcccccchHHHHHHHHHHHHHcCCCCCcc----eEEecCCChHHHHHHHHHHhCCCCCEEEEc-CcHHHH
Confidence 999999996432 2 34677899999999888543111 111111122233455566655567777764 445788
Q ss_pred HHHHHHHhcCCcccceE-EEeeccccccCCCCCeeEEEEecCCCchhHHHHHHHHHHHHHHH
Q psy17441 192 IIFKDAQYLNMTETGYV-WIVTEQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVLTSALK 252 (458)
Q Consensus 192 ~il~~a~~~g~~~~~~~-wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~la~Al~ 252 (458)
.+++++++.|+.-++.+ .+.-|...........+..+.. .....++-|+.++...++
T Consensus 250 g~~~al~~~g~~vP~dvsvvgfd~~~~~~~~~p~lttv~~----~~~~~g~~Av~~L~~~i~ 307 (329)
T TIGR01481 250 GILNAAMDAGIKVPEDLEVITSNNTRLTEMVRPQLSTIIQ----PLYDIGAVAMRLLTKYMN 307 (329)
T ss_pred HHHHHHHHcCCCCCCceEEEeeCCchHHhhcCCCCcEEec----CHHHHHHHHHHHHHHHhc
Confidence 89999999999755444 3433332211111112222221 223456666666655543
No 107
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=97.08 E-value=0.057 Score=50.40 Aligned_cols=218 Identities=17% Similarity=0.103 Sum_probs=123.9
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|.++.+. .+...+. +......+.++++++.+||=. |..+. .......-+...+||+|..... ...+ .+...
T Consensus 28 g~~~~~~-~~~~~d~-~~q~~~i~~~i~~~~d~Iiv~-~~~~~-~~~~~l~~~~~~gIpvv~~d~~--~~~~---~~~~~ 98 (257)
T PF13407_consen 28 GYEVEIV-FDAQNDP-EEQIEQIEQAISQGVDGIIVS-PVDPD-SLAPFLEKAKAAGIPVVTVDSD--EAPD---SPRAA 98 (257)
T ss_dssp TCEEEEE-EESTTTH-HHHHHHHHHHHHTTESEEEEE-SSSTT-TTHHHHHHHHHTTSEEEEESST--HHTT---STSSE
T ss_pred CCEEEEe-CCCCCCH-HHHHHHHHHHHHhcCCEEEec-CCCHH-HHHHHHHHHhhcCceEEEEecc--cccc---cccee
Confidence 4555444 3455565 445555777888899888842 44443 4455666688889999997765 0111 13334
Q ss_pred ecCCCchhHHHHHHHHHHhcCC--eEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEe-CCCcccHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNY--MKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF-EPGLTTFKDQ 169 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w--~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~-~~~~~d~~~~ 169 (458)
.+.+.....+..+++.+....- .+++++....+ ......+.+.+.+++.+ ++++...... ..+.++..+.
T Consensus 99 ~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~l~~~~-----~~~~~~~~~~~~~~~~~a~~~ 173 (257)
T PF13407_consen 99 YVGTDNYEAGKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDALKEYP-----GVEIVDEYEYTDWDPEDARQA 173 (257)
T ss_dssp EEEE-HHHHHHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHHHHHCT-----TEEEEEEEEECTTSHHHHHHH
T ss_pred eeeccHHHHHHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHHHhhcc-----eeeeeeeeeccCCCHHHHHHH
Confidence 4456777788888887654322 68888854433 34467888888888744 2444332222 3345555666
Q ss_pred HHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccc-ccCC-CCCeeE-EEEecCCCchhHHHHHHHHH
Q psy17441 170 LYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQAL-TAKN-VPVGII-GLKLVNATNEDAHIRDSIYV 246 (458)
Q Consensus 170 l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~-~~~~-~~~g~~-g~~~~~~~~~~~~~yDAv~~ 246 (458)
+.++.+.++-..|+.++...+..++++.++.|+.+ .+++.+-... .... +..|.+ +.... ......|-|+.+
T Consensus 174 ~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~~~--~~~v~g~d~~~~~~~~i~~g~~~a~v~~---~~~~~g~~av~~ 248 (257)
T PF13407_consen 174 IENLLQANPVDAIIACNDGMALGAAQALQQAGRAG--KVIVVGFDGSPEALEAIKDGNITATVGQ---DPYQQGYKAVEA 248 (257)
T ss_dssp HHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTCTT--TSEEEEEECHHHHHHHHHTTSSSEEEEE----HHHHHHHHHHH
T ss_pred HHHhhhcCCceEEEeCCChHHHHHHHHHHHcCCcc--cceeecCCCCHHHHHHHHCCCCeEEEeC---CHHHHHHHHHHH
Confidence 66665555433345566677777899999999865 3433333221 1111 112221 12111 233457777777
Q ss_pred HHHHH
Q psy17441 247 LTSAL 251 (458)
Q Consensus 247 la~Al 251 (458)
+...+
T Consensus 249 l~~~l 253 (257)
T PF13407_consen 249 LFDAL 253 (257)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 76665
No 108
>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=96.98 E-value=0.089 Score=49.19 Aligned_cols=166 Identities=11% Similarity=0.071 Sum_probs=97.1
Q ss_pred HHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHH
Q psy17441 33 ALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLK 112 (458)
Q Consensus 33 ~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~ 112 (458)
.....+.+.++++.|+|. ..+.. ........+...++|+|......+. ...++ +.+.....+..+++.+.
T Consensus 44 ~~~~i~~~~~~~vdgiii--~~~~~-~~~~~~~~~~~~~ipvV~~~~~~~~----~~~~~---v~~d~~~~~~~~~~~l~ 113 (268)
T cd06289 44 QEQLLSTMLEHGVAGIIL--CPAAG-TSPDLLKRLAESGIPVVLVAREVAG----APFDY---VGPDNAAGARLATEHLI 113 (268)
T ss_pred HHHHHHHHHHcCCCEEEE--eCCCC-ccHHHHHHHHhcCCCEEEEeccCCC----CCCCE---EeecchHHHHHHHHHHH
Confidence 344456676889999988 33322 2233445567889999988653221 11222 33455566777778777
Q ss_pred hcCCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc--cCeEEEEEeChh
Q psy17441 113 HFNYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA--QARVYLMYASKQ 188 (458)
Q Consensus 113 ~~~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~--~~~viil~~~~~ 188 (458)
..|-++++++..+. .......+.+.+.+++.|+.+. .. .....+.+.......++++.+. .+++|++ .+..
T Consensus 114 ~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~~~~~~~~--~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~-~~~~ 188 (268)
T cd06289 114 SLGHRRIAFIGGLEDSSTRRERLAGYRAALAEAGLPFD--SE--LVVEGPPSRQGGAEAVAQLLDLPPRPTAIVC-FNDL 188 (268)
T ss_pred HCCCCCEEEecCCccccchHHHHHHHHHHHHHcCCCCC--ch--hEEecCcchhhHHHHHHHHHcCCCCCCEEEE-cCcH
Confidence 77999999987543 2456678889999988763321 10 1111111222334445554433 3455554 3444
Q ss_pred hHHHHHHHHHhcCCcccceE-EEeec
Q psy17441 189 DAEIIFKDAQYLNMTETGYV-WIVTE 213 (458)
Q Consensus 189 ~~~~il~~a~~~g~~~~~~~-wi~t~ 213 (458)
.+..+++++++.|+..++.+ .+..+
T Consensus 189 ~a~~~~~al~~~g~~~p~di~iig~d 214 (268)
T cd06289 189 VAFGAMSGLRRAGLTPGRDIAVVGFD 214 (268)
T ss_pred HHHHHHHHHHHcCCCCCcceEEEeec
Confidence 57778999999998754444 44444
No 109
>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=96.97 E-value=0.12 Score=48.70 Aligned_cols=185 Identities=12% Similarity=-0.010 Sum_probs=100.5
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+++.+...++..++.+ .....+.+...++.++|- ..+...........+...++|+|......+ +...+++
T Consensus 28 ~g~~~~~~~~~~~~~~~~-~~~~i~~l~~~~vdgvii--~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~---~~~~~~~- 100 (273)
T cd06310 28 LGVKVTFQGPASETDVAG-QVNLLENAIARGPDAILL--APTDAKALVPPLKEAKDAGIPVVLIDSGLN---SDIAVSF- 100 (273)
T ss_pred cCCEEEEecCccCCCHHH-HHHHHHHHHHhCCCEEEE--cCCChhhhHHHHHHHHHCCCCEEEecCCCC---CCcceEE-
Confidence 355655553322344433 334445566778988886 322210113344555678999998864321 1111122
Q ss_pred eecCCCchhHHHHHHHHHHhc--CCeEEEEEEecCc--chhHHHHHHHHhhhcc-CCcceeeEEEEEEEEeCCCcccHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHF--NYMKVIFIHSSDT--DGRALLGRFQTTSQNQ-EDDVEIKVQVEAVIEFEPGLTTFKD 168 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~--~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~-gi~v~~~~~v~~~~~~~~~~~d~~~ 168 (458)
+...+..-+..+++.+... |.++++++....+ ......+.+++.+++. |+ .+........+..+-..
T Consensus 101 --v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~a~~~~~~~------~~~~~~~~~~~~~~~~~ 172 (273)
T cd06310 101 --VATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLEGLKEYPGI------EIVATQYSDSDYAKALD 172 (273)
T ss_pred --EeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHHHHHhCCCc------EEEecccCCcCHHHHHH
Confidence 2334444556777777666 8999999964333 3445678888999876 62 22111111112223344
Q ss_pred HHHHHHhccCeE-EEEEeChhhHHHHHHHHHhcCCcccceEEEeecc
Q psy17441 169 QLYEMKNAQARV-YLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 169 ~l~~ik~~~~~v-iil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~ 214 (458)
.+.++.+..++. .+++.+...+..+++.+++.|+. ++...+..+.
T Consensus 173 ~~~~~l~~~~~~~~i~~~~d~~a~g~~~~l~~~g~~-~di~vig~d~ 218 (273)
T cd06310 173 ITEDLLTANPDLKGIFGANEGSAVGAARAVRQAGKA-GKVKVVGFDA 218 (273)
T ss_pred HHHHHHHhCCCceEEEecCchhHHHHHHHHHhcCCC-CCeEEEEeCC
Confidence 555554444333 33344456688899999999985 3344444443
No 110
>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=96.97 E-value=0.055 Score=50.65 Aligned_cols=178 Identities=12% Similarity=0.023 Sum_probs=101.5
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhh-cCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccc
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLI-SERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVS 92 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~-~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~ 92 (458)
.|+++.+..+++..+. ...+..++ ++++.++|. ..+.. ... ....+...++|+|..+...+ + ..+++
T Consensus 32 ~g~~~~~~~~~~~~~~----~~~~~~~~~~~~vdgiii--~~~~~-~~~-~~~~~~~~~ipvV~~~~~~~---~-~~~~~ 99 (268)
T cd06271 32 HGYDLVLLPVDPDEDP----LEVYRRLVESGLVDGVII--SRTRP-DDP-RVALLLERGFPFVTHGRTEL---G-DPHPW 99 (268)
T ss_pred CCceEEEecCCCcHHH----HHHHHHHHHcCCCCEEEE--ecCCC-CCh-HHHHHHhcCCCEEEECCcCC---C-CCCCe
Confidence 3666666654433222 22233343 467888887 32221 212 23445678999998865322 1 22344
Q ss_pred eeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHH
Q psy17441 93 FLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQL 170 (458)
Q Consensus 93 ~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l 170 (458)
+ .+.+...+..+++.+...|-++++++..... .+....+.+++.++++|+.+. .........+.....+.+
T Consensus 100 V---~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~ 172 (268)
T cd06271 100 V---DFDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFAQHRRAGYRRALAEAGLPLD----PALIVSGDMTEEGGYAAA 172 (268)
T ss_pred E---eeCcHHHHHHHHHHHHHcCCCcEEEecCccccchHHHHHHHHHHHHHHhCCCCC----CceEEeCCCChHHHHHHH
Confidence 3 3455566677778777789999999975432 355677889999998774321 111111111222234455
Q ss_pred HHHHhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEe
Q psy17441 171 YEMKNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIV 211 (458)
Q Consensus 171 ~~ik~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~ 211 (458)
+++.+. .+++|++. +...+..+++++++.|+..++.+-++
T Consensus 173 ~~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~vp~~i~ii 214 (268)
T cd06271 173 AELLALPDRPTAIVCS-SELMALGVLAALAEAGLRPGRDVSVV 214 (268)
T ss_pred HHHHhCCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCcceeEE
Confidence 555433 35666654 45667788999999998755445444
No 111
>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=96.95 E-value=0.11 Score=48.85 Aligned_cols=182 Identities=10% Similarity=-0.035 Sum_probs=101.9
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+. ++..++. ......+.+...++.+||.. +..+. ........+...++|+|......+. +.+.
T Consensus 29 g~~~~~~--~~~~~~~-~~~~~l~~~~~~~vdgii~~-~~~~~-~~~~~i~~~~~~~ipvV~~~~~~~~-------~~~~ 96 (273)
T cd06305 29 GGDLRVY--DAGGDDA-KQADQIDQAIAQKVDAIIIQ-HGRAE-VLKPWVKRALDAGIPVVAFDVDSDN-------PKVN 96 (273)
T ss_pred CCEEEEE--CCCCCHH-HHHHHHHHHHHcCCCEEEEe-cCChh-hhHHHHHHHHHcCCCEEEecCCCCC-------Cccc
Confidence 5554443 3444443 33444566667889999872 22221 2233445567789999988664221 2222
Q ss_pred ecCCCchhHHHHHHHHHHh--cCCeEEEEEEecC-cchhHHHHHHHHhhhccCCcceeeEEEEEEE--EeCCCcccHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKH--FNYMKVIFIHSSD-TDGRALLGRFQTTSQNQEDDVEIKVQVEAVI--EFEPGLTTFKDQ 169 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~--~~w~~v~ii~~~d-~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~--~~~~~~~d~~~~ 169 (458)
.+...+...++.+++.+.. -|.++++++...+ .........+++.+++.+ +..+.... ....+..+....
T Consensus 97 ~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~g~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~ 171 (273)
T cd06305 97 NTTQDDYSLARLSLDQLVKDLGGKGNVGYVNVAGFPPLDRRYDVWQAVLKAYP-----GIKEVAELGDVSNNTAQDAAAQ 171 (273)
T ss_pred eeeechHHHHHHHHHHHHHHhCCCCCEEEEEccCCchHHHHHHHHHHHHHHCC-----CcEEecccccccccchhHHHHH
Confidence 3456667777778887765 5899999997542 234456677888887655 12211111 111122334455
Q ss_pred HHHHHhccCeE---EEEEeChhhHHHHHHHHHhcCCcccceEEEeecc
Q psy17441 170 LYEMKNAQARV---YLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 170 l~~ik~~~~~v---iil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~ 214 (458)
++++.+..++. .+++.+...+..++.++++.|+.. +-..+..+.
T Consensus 172 ~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~-di~iig~d~ 218 (273)
T cd06305 172 VEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEAGRTD-EIKIYGVDI 218 (273)
T ss_pred HHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHcCCCC-CceEEEecC
Confidence 56654444443 233345556788889999999863 334444443
No 112
>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=96.94 E-value=0.1 Score=49.05 Aligned_cols=185 Identities=11% Similarity=0.021 Sum_probs=102.1
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+.+.+ ++...++.. .....+.+.+.+|.++|=. +..+. ........+...++|+|......+.. . +.+
T Consensus 29 ~~~~~~~--~~~~~~~~~-~~~~i~~l~~~~vdgiii~-~~~~~-~~~~~~~~l~~~~iPvv~~~~~~~~~--~---~~~ 98 (272)
T cd06301 29 GGVELQF--EDAKNDVAT-QLSQVENFIAQGVDAIIVV-PVDTA-ATAPIVKAANAAGIPLVYVNRRPENA--P---KGV 98 (272)
T ss_pred CCcEEEE--eCCCCCHHH-HHHHHHHHHHcCCCEEEEe-cCchh-hhHHHHHHHHHCCCeEEEecCCCCCC--C---Cee
Confidence 3555544 334444433 3334455667788888731 33322 23344555688999999876532211 0 123
Q ss_pred eecCCCchhHHHHHHHHHHhc--CCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHF--NYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQ 169 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~--~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~ 169 (458)
..+...+...+..+++.+... +-++++++.... .......+.+++.+++.| .+ .+.....-..+.......
T Consensus 99 ~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~~~R~~gf~~~l~~~~-~~----~~~~~~~~~~~~~~~~~~ 173 (272)
T cd06301 99 AYVGSDEVVAGRLQAEYVADKLGGKGNVAILMGPLGQSAQIDRTKGVEEVLAKYP-DI----KVVEEQTANWSRAEAMDL 173 (272)
T ss_pred EEEecChHHHHHHHHHHHHHHhCCCccEEEEECCCCCccHHHHHHHHHHHHHHCC-Cc----EEEecCCCCccHHHHHHH
Confidence 334566666777777777554 557999997543 235566788999998766 21 111111111111222344
Q ss_pred HHHHHhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecc
Q psy17441 170 LYEMKNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 170 l~~ik~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~ 214 (458)
++++.+. .+++|+ +.+...+..+++.+++.|+.+++...+.-+.
T Consensus 174 ~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~~di~ivg~d~ 219 (272)
T cd06301 174 MENWLSSGGKIDAVV-ANNDEMALGAIMALKAAGKSDKDVPVAGIDG 219 (272)
T ss_pred HHHHHHhCCCCCEEE-ECCCchHHHHHHHHHHcCCCCCCcEEEeeCC
Confidence 5554333 345543 3455567789999999998743444555444
No 113
>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=96.91 E-value=0.22 Score=46.27 Aligned_cols=211 Identities=10% Similarity=0.022 Sum_probs=120.1
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+++.+.. .+.++. ......+.+.++++.++|. .... ....+...+...++|+|......+ ..++
T Consensus 28 ~g~~~~~~~--~~~~~~-~~~~~i~~l~~~~~dgii~--~~~~--~~~~~~~~~~~~~ipvv~~~~~~~------~~~~- 93 (259)
T cd01542 28 NGYQMLLMN--TNFSIE-KEIEALELLARQKVDGIIL--LATT--ITDEHREAIKKLNVPVVVVGQDYP------GISS- 93 (259)
T ss_pred CCCEEEEEe--CCCCHH-HHHHHHHHHHhcCCCEEEE--eCCC--CCHHHHHHHhcCCCCEEEEeccCC------CCCE-
Confidence 355554442 233432 2334456677889999997 3222 223455566677999999865221 1232
Q ss_pred eecCCCchhHHHHHHHHHHhcCCeEEEEEEec-C--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHFNYMKVIFIHSS-D--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQL 170 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~-d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l 170 (458)
+.++....+..+++.+..-|-++++++... + ..+....+.+++.+++.|. . ... ......+...-.+.+
T Consensus 94 --v~~d~~~~~~~~~~~l~~~g~~~i~~v~~~~~~~~~~~~r~~gf~~~~~~~~~-~----~~~-~~~~~~~~~~~~~~~ 165 (259)
T cd01542 94 --VVYDDYGAGYELGEYLAQQGHKNIAYLGVSESDIAVGILRKQGYLDALKEHGI-C----PPN-IVETDFSYESAYEAA 165 (259)
T ss_pred --EEECcHHHHHHHHHHHHHcCCCcEEEEcCCcccchhHHHHHHHHHHHHHHcCC-C----hHH-eeeccCchhhHHHHH
Confidence 345666677788888888899999999643 2 2345677889999988773 0 000 111111223334555
Q ss_pred HHHHhcc-CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCCC-CCeeEEEEecCCCchhHHHHHHHHHHH
Q psy17441 171 YEMKNAQ-ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNV-PVGIIGLKLVNATNEDAHIRDSIYVLT 248 (458)
Q Consensus 171 ~~ik~~~-~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~-~~g~~g~~~~~~~~~~~~~yDAv~~la 248 (458)
.++.+.. +++|++.. ...+..+++.+++.|+.-++.+.+.+-.......+ ..+...+.. .....++.|+.++.
T Consensus 166 ~~~l~~~~~~~i~~~~-d~~a~g~~~~l~~~g~~vp~di~v~g~d~~~~~~~~~~~l~ti~~----~~~~~g~~a~~~l~ 240 (259)
T cd01542 166 QELLEPQPPDAIVCAT-DTIALGAMKYLQELGRRIPEDISVAGFGGYELSSVVTPSLTTVDF----GYKEAGKKAAELLL 240 (259)
T ss_pred HHHhcCCCCCEEEEcC-cHHHHHHHHHHHHcCCCCCCceEEEecCCchhhccccCCceEEee----CHHHHHHHHHHHHH
Confidence 5554444 56655544 55678899999999987656666665433221111 122222211 23456777777665
Q ss_pred HHH
Q psy17441 249 SAL 251 (458)
Q Consensus 249 ~Al 251 (458)
..+
T Consensus 241 ~~l 243 (259)
T cd01542 241 QLI 243 (259)
T ss_pred HHh
Confidence 554
No 114
>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=96.91 E-value=0.28 Score=45.71 Aligned_cols=214 Identities=9% Similarity=0.029 Sum_probs=115.6
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+. +...++ .......+.+...+|.|+|. ..+.. ... ..... ..++|+|..+...+ . +.+.
T Consensus 29 g~~~~~~--~~~~~~-~~~~~~~~~~~~~~vdgiii--~~~~~-~~~-~~~~~-~~~ipvv~~~~~~~----~---~~~~ 93 (267)
T cd06284 29 GYGVLLG--DTRSDP-EREQEYLDLLRRKQADGIIL--LDGSL-PPT-ALTAL-AKLPPIVQACEYIP----G---LAVP 93 (267)
T ss_pred CCeEEEe--cCCCCh-HHHHHHHHHHHHcCCCEEEE--ecCCC-CHH-HHHHH-hcCCCEEEEecccC----C---CCcc
Confidence 5555433 333343 33344466676789999887 32221 212 22333 35999998753211 1 1122
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYE 172 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ 172 (458)
.+...+...+..+++.+..-|.++++++..+ +..+....+.|.+.+++.|+.+. .. .......+..+..+.+++
T Consensus 94 ~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~~~~~~~~~~--~~--~~~~~~~~~~~~~~~~~~ 169 (267)
T cd06284 94 SVSIDNVAAARLAVDHLISLGHRRIALITGPRDNPLARDRLEGYRQALAEAGLPAD--EE--LIQEGDFSLESGYAAARR 169 (267)
T ss_pred eEEecccHHHHHHHHHHHHcCCceEEEEcCCccchhHHHHHHHHHHHHHHcCCCCC--cc--eEEeCCCChHHHHHHHHH
Confidence 2345566677778888877899999999764 23566778899999998774321 11 111111122233445555
Q ss_pred HHhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceE-EEeeccccccCCCCCeeEEEEecCCCchhHHHHHHHHHHHH
Q psy17441 173 MKNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYV-WIVTEQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVLTS 249 (458)
Q Consensus 173 ik~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~-wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~la~ 249 (458)
+.+. .+++|++. +...+..+++++++.|+..++.+ .+.-+.......+......+. .+....+|.|+..+..
T Consensus 170 ~l~~~~~~~ai~~~-~~~~a~g~~~al~~~g~~~p~~v~v~g~d~~~~~~~~~~~~~tv~----~~~~~~g~~a~~~l~~ 244 (267)
T cd06284 170 LLALPDRPTAIFCF-SDEMAIGAISALKELGLRVPEDISVVGFDDIDFARMTTPPLTTIR----QPRYEIGRTAAELLLD 244 (267)
T ss_pred HHhCCCCCcEEEEc-CcHHHHHHHHHHHHcCCCCccceeEEEeCCHHHHHhcCCCceEEe----cCHHHHHHHHHHHHHH
Confidence 5333 35666654 55557788999999998644344 343333221111111111111 1334567777777766
Q ss_pred HHH
Q psy17441 250 ALK 252 (458)
Q Consensus 250 Al~ 252 (458)
.++
T Consensus 245 ~l~ 247 (267)
T cd06284 245 IIE 247 (267)
T ss_pred HHh
Confidence 554
No 115
>cd06303 PBP1_LuxPQ_Quorum_Sensing Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs. Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs from other bacteria. The members of this group are highly homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea, and that are members of the type I periplasmic binding protein superfamily. The Vibrio harveyi AI-2 receptor consists of two polypeptides, LuxP and LuxQ: LuxP is a periplasmic binding protein that binds AI-2 by clamping it between two domains, LuxQ is an integral membrane protein belonging to the two-component sensor kinase family. Unlike AI-2 bound to the LsrB receptor in Salmonella typhimurium, the Vibrio harveyi AI-2 signaling molecule has an unusual furanosyl borate
Probab=96.88 E-value=0.18 Score=47.76 Aligned_cols=185 Identities=8% Similarity=-0.071 Sum_probs=99.7
Q ss_pred ceEEEEeeeeeCC--CHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeec-CCCC--CCCCcc
Q psy17441 15 GVTFSATGIQMDP--NPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISS-RDSA--FSDKNI 89 (458)
Q Consensus 15 ~~~l~~~~~~~~~--~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a-~~~~--ls~~~~ 89 (458)
|+.+.+..++++. ++ +......+.+.+++|.+||= ...+......+.. +...++|.|.... ..+. ..+.
T Consensus 30 g~~~~~~~~~~~~~~~~-~~~~~~i~~l~~~~vDgiIv--~~~~~~~~~~~~~-l~~~~~p~V~i~~~~~~~~~~~~~-- 103 (280)
T cd06303 30 NIPYELTQFSSRPGIDH-RLQSQQLNEALQSKPDYLIF--TLDSLRHRKLIER-VLASGKTKIILQNITTPVKAWLKH-- 103 (280)
T ss_pred CCcEEEEEeccCcccCH-HHHHHHHHHHHHcCCCEEEE--cCCchhhHHHHHH-HHhCCCCeEEEeCCCCCccccccC--
Confidence 5555555433322 33 33345566677888988886 3222101223333 3346777666533 2221 1011
Q ss_pred ccceeecCCCchhHHHHHHHHHHh--cCCeEEEEEEecC-cchhHHHHHHHHhhhcc-CCcceeeEEEEEEEEeCCCccc
Q psy17441 90 HVSFLRTVPPYSHQADVWVELLKH--FNYMKVIFIHSSD-TDGRALLGRFQTTSQNQ-EDDVEIKVQVEAVIEFEPGLTT 165 (458)
Q Consensus 90 ~p~~~r~~p~~~~~~~ai~~ll~~--~~w~~v~ii~~~d-~~g~~~~~~l~~~l~~~-gi~v~~~~~v~~~~~~~~~~~d 165 (458)
+.+..+.+.+..-+..+++.+.. .|.++++++.... .......+.+++.++++ |+ .+.....-+.+..+
T Consensus 104 -~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~~R~~gf~~al~~~~~~------~~~~~~~~~~~~~~ 176 (280)
T cd06303 104 -QPLLYVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYISTARGDTFIDCVHARNNW------TLTSEFYTDATRQK 176 (280)
T ss_pred -CCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcchhHHHHHHHHHHHhCCCc------eEEEeecCCCCHHH
Confidence 11223345555566777887766 7999999996543 33456678889999886 52 22111111112223
Q ss_pred HHHHHHHHHhcc--CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecc
Q psy17441 166 FKDQLYEMKNAQ--ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 166 ~~~~l~~ik~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~ 214 (458)
-...++++.+.. +++|+ +++...+..+++++++.|+. ++...+.-+.
T Consensus 177 ~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~l~al~~~G~~-~dv~vvg~d~ 225 (280)
T cd06303 177 AYQATSDILSNNPDVDFIY-ACSTDIALGASDALKELGRE-DDILINGWGG 225 (280)
T ss_pred HHHHHHHHHHhCCCCcEEE-ECCcHHHHHHHHHHHHcCCC-CCcEEEecCC
Confidence 344555554433 45444 45566778899999999986 3344444443
No 116
>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=96.79 E-value=0.3 Score=45.98 Aligned_cols=214 Identities=10% Similarity=0.020 Sum_probs=111.8
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+.. ...++ +......+.+..+++.+||-. |.... ........+...+||+|......+ +.. ....
T Consensus 34 g~~~~~~~--~~~~~-~~~~~~~~~l~~~~vDgiii~-~~~~~-~~~~~i~~~~~~gIpvV~~d~~~~---~~~--~~~~ 103 (274)
T cd06311 34 DVEFILVT--ASNDT-EQQNAQQDLLINRKIDALVIL-PFESA-PLTQPVAKAKKAGIFVVVVDRGLS---SPG--AQDL 103 (274)
T ss_pred CeEEEEEc--CCCCH-HHHHHHHHHHHHcCCCEEEEe-CCCch-hhHHHHHHHHHCCCeEEEEcCCCC---CCc--ccce
Confidence 45554443 33333 344555666777788887752 32221 222223445678999999865321 111 0111
Q ss_pred ecCCCchhHHHHHHHHHHhc--CCeEEEEEEecC-cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHF--NYMKVIFIHSSD-TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLY 171 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~--~w~~v~ii~~~d-~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~ 171 (458)
.+.+.+...+...++++... +.++++++.... .......+.+++.+++.| ..+......+.+..+....++
T Consensus 104 ~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~g~~~~~~~~R~~gf~~~l~~~~------~~~~~~~~~~~~~~~~~~~~~ 177 (274)
T cd06311 104 YVAGDNYGMGRVAGEYIATKLGGNGNIVVLRGIPTPIDNERVDAFDAAIAKYP------IKILDRQYANWNRDDAFSVMQ 177 (274)
T ss_pred EEcCCcHHHHHHHHHHHHHHhCCCCeEEEEECCCCcchhHHHHHHHHHHhhCC------cEEEeccCCCCcHHHHHHHHH
Confidence 23455556667777777655 889999997433 233456788999998776 222211111111222234444
Q ss_pred HHHhcc--CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEee-ccccccCC-CCCe---eEEEEecCCCchhHHHHHHH
Q psy17441 172 EMKNAQ--ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVT-EQALTAKN-VPVG---IIGLKLVNATNEDAHIRDSI 244 (458)
Q Consensus 172 ~ik~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t-~~~~~~~~-~~~g---~~g~~~~~~~~~~~~~yDAv 244 (458)
++.+.. +++|++. +...+..+++++++.|+.+ .+.+.+ +....... +..| +.+.....+ ...|.|+
T Consensus 178 ~~l~~~~~~~ai~~~-~d~~a~g~~~al~~~g~~~--~~~ivg~d~~~~~~~~i~~g~~~~~~~v~~~~----~~~~~~~ 250 (274)
T cd06311 178 DLLTKFPKIDAVWAH-DDDMAVGVLAAIKQAGRTD--IKFVVGGAGSKDMIKMIMDGDPLIPADVLYPP----SMIASAI 250 (274)
T ss_pred HHHHhCCCcCEEEEC-CCcHHHHHHHHHHHcCCCC--CceEEEeCCCHHHHHHHHCCCCceeEEEecCH----HHHHHHH
Confidence 543333 5555443 4445778889999999763 344443 43222222 2344 333333222 3566676
Q ss_pred HHHHHHH
Q psy17441 245 YVLTSAL 251 (458)
Q Consensus 245 ~~la~Al 251 (458)
.++...+
T Consensus 251 ~~~~~~~ 257 (274)
T cd06311 251 DLTVALF 257 (274)
T ss_pred HHHHHHH
Confidence 6665554
No 117
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=96.76 E-value=0.18 Score=48.30 Aligned_cols=181 Identities=13% Similarity=0.101 Sum_probs=96.8
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+. +...++. ......+.+.++++.++|- ++..+. ........+...++|+|......+ .. +.+.
T Consensus 56 G~~~~~~--~~~~d~~-~~~~~~~~l~~~~~dgiii-~~~~~~-~~~~~l~~~~~~~ipvV~~~~~~~----~~--~~~~ 124 (295)
T PRK10653 56 GYNLVVL--DSQNNPA-KELANVQDLTVRGTKILLI-NPTDSD-AVGNAVKMANQANIPVITLDRGAT----KG--EVVS 124 (295)
T ss_pred CCeEEEe--cCCCCHH-HHHHHHHHHHHcCCCEEEE-cCCChH-HHHHHHHHHHHCCCCEEEEccCCC----CC--ceee
Confidence 5555443 3333442 2344455566778876664 143332 323455677788999999865321 11 2223
Q ss_pred ecCCCchhHHHHHHHHHHh-cCCe-EEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKH-FNYM-KVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQL 170 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~-~~w~-~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l 170 (458)
.+.+.+..-+..+++++.. .+.+ +++++..+. .......+.+++.+++.|+. +........+..+....+
T Consensus 125 ~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~gf~~al~~~g~~------~~~~~~~~~~~~~~~~~~ 198 (295)
T PRK10653 125 HIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERGEGFKQAVAAHKFN------VLASQPADFDRTKGLNVM 198 (295)
T ss_pred EEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHHHHHHHHHhhCCCE------EEEecCCCCCHHHHHHHH
Confidence 3444444445777776654 4543 566665332 23557788999999988732 211111111222334455
Q ss_pred HHHHhccCeEE-EEEeChhhHHHHHHHHHhcCCcccceEEEeecc
Q psy17441 171 YEMKNAQARVY-LMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 171 ~~ik~~~~~vi-il~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~ 214 (458)
+++.+..++.- +++.+...+..+++++++.|+. +...+..+.
T Consensus 199 ~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~~--dv~vig~d~ 241 (295)
T PRK10653 199 QNLLTAHPDVQAVFAQNDEMALGALRALQTAGKS--DVMVVGFDG 241 (295)
T ss_pred HHHHHhCCCcCEEEECCChhHHHHHHHHHHcCCC--ceEEEEeCC
Confidence 56655444433 3334445566789999999982 344444443
No 118
>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=96.74 E-value=0.32 Score=45.33 Aligned_cols=179 Identities=12% Similarity=0.047 Sum_probs=102.2
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+... +.+. .......+.+...++.|+|- ..... . ......+...++|+|......+ .. ...
T Consensus 29 g~~~~~~~~--~~~~-~~~~~~~~~l~~~~vdgiii--~~~~~-~-~~~~~~~~~~~ipvv~~~~~~~----~~---~~~ 94 (268)
T cd01575 29 GYQLLLGNT--GYSP-EREEELLRTLLSRRPAGLIL--TGLEH-T-ERTRQLLRAAGIPVVEIMDLPP----DP---IDM 94 (268)
T ss_pred CCEEEEecC--CCCc-hhHHHHHHHHHHcCCCEEEE--eCCCC-C-HHHHHHHHhcCCCEEEEecCCC----CC---CCC
Confidence 555544432 2232 22334456676788998886 22221 2 2344455678999998754211 11 112
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYE 172 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ 172 (458)
.+.......+..+++.+...|-++++++..+.. ......+.+++.+++.|+... .. .......+.....+.+.+
T Consensus 95 ~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~--~~--~~~~~~~~~~~~~~~~~~ 170 (268)
T cd01575 95 AVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALRAAGLDPP--LV--VTTPEPSSFALGRELLAE 170 (268)
T ss_pred eEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccHHHHHHHHHHHHHHcCCCCC--ce--eEeccCCCHHHHHHHHHH
Confidence 233455666777788888889999999986643 455677889999998773221 11 111111122233455555
Q ss_pred HHhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEee
Q psy17441 173 MKNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVT 212 (458)
Q Consensus 173 ik~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t 212 (458)
+.+. .+++|++ ++...+..+++.+.+.|...++.+-+.+
T Consensus 171 ~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p~di~vig 211 (268)
T cd01575 171 LLARWPDLDAVFC-SNDDLALGALFECQRRGISVPEDIAIAG 211 (268)
T ss_pred HHhCCCCCCEEEE-CCcHHHHHHHHHHHHhCCCCCcceEEEe
Confidence 5433 3566554 4455677889999999976544543433
No 119
>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=96.73 E-value=0.21 Score=46.75 Aligned_cols=192 Identities=11% Similarity=0.031 Sum_probs=104.5
Q ss_pred cCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEE
Q psy17441 42 SERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIF 121 (458)
Q Consensus 42 ~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~i 121 (458)
+.++.++|- .... ........+...++|+|......+ .....++ +...+..-++.+++.+...|-+++++
T Consensus 58 ~~~~dgiii--~~~~--~~~~~~~~~~~~~ipvV~~~~~~~---~~~~~~~---v~~d~~~~g~~~~~~l~~~g~~~i~~ 127 (270)
T cd06294 58 QKRVDGFIL--LYSR--EDDPIIDYLKEEKFPFVVIGKPED---DKENITY---VDNDNIQAGYDATEYLIKLGHKKIAF 127 (270)
T ss_pred HcCcCEEEE--ecCc--CCcHHHHHHHhcCCCEEEECCCCC---CCCCCCe---EEECcHHHHHHHHHHHHHcCCccEEE
Confidence 456888776 2211 112334445678999998865322 1111222 23455556667778777779999999
Q ss_pred EEecCcc--hhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhcc--CeEEEEEeChhhHHHHHHHH
Q psy17441 122 IHSSDTD--GRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQ--ARVYLMYASKQDAEIIFKDA 197 (458)
Q Consensus 122 i~~~d~~--g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~--~~viil~~~~~~~~~il~~a 197 (458)
+.....+ .....+.+++.+++.|+... ... ....+.+..+..+.+.++.+.+ +++|++ .+...+..+++++
T Consensus 128 i~~~~~~~~~~~r~~gf~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al 202 (270)
T cd06294 128 VGGDLDLEVTQDRLQGYKQALEDHGIPDR--NEV--IISLDFSEEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVL 202 (270)
T ss_pred ecCCcccHHHHHHHHHHHHHHHHcCCCCC--cce--EEecCCchHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHH
Confidence 9754432 44567889999998874221 111 1111222233445555654433 555555 4556788899999
Q ss_pred HhcCCcccceE-EEeeccccccCCCCCeeEEEEecCCCchhHHHHHHHHHHHHHHH
Q psy17441 198 QYLNMTETGYV-WIVTEQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVLTSALK 252 (458)
Q Consensus 198 ~~~g~~~~~~~-wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~la~Al~ 252 (458)
++.|+.-++.+ .+.-+.... ..+....++.. ..+....++.|+.++...++
T Consensus 203 ~~~g~~iP~dv~vig~d~~~~-~~~~~p~l~~i---~~~~~~~g~~a~~~l~~~l~ 254 (270)
T cd06294 203 NELGLKVPEDLSIIGFNNSIL-SELAHPPLTSV---DINPRELGYEAAELLIDLIE 254 (270)
T ss_pred HHcCCCCCcceEEEeeCChhh-hhccCCCceEe---ccCHHHHHHHHHHHHHHHcc
Confidence 99998654444 443333211 11111111111 11344567777777665543
No 120
>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=96.69 E-value=0.087 Score=49.34 Aligned_cols=180 Identities=10% Similarity=0.057 Sum_probs=104.6
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+.. .+.+. .......+.+...++.|+|. ..... . .+.......++|.|......+. ..++
T Consensus 30 g~~~~~~~--~~~~~-~~~~~~~~~l~~~~~dgiii--~~~~~-~--~~~~~~~~~~ipvv~~~~~~~~----~~~~--- 94 (269)
T cd06288 30 GYLLLVVN--TGGDD-ELEAEAVEALLDHRVDGIIY--ATMYH-R--EVTLPPELLSVPTVLLNCYDAD----GALP--- 94 (269)
T ss_pred CCEEEEEe--CCCCH-HHHHHHHHHHHHcCCCEEEE--ecCCC-C--hhHHHHHhcCCCEEEEecccCC----CCCC---
Confidence 55554443 22233 22334455566788988887 32221 1 1122335578999987654321 1123
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYE 172 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ 172 (458)
.+.+.+...+..+++.+...|-++++++..+.. ......+.+.+.++++|+.+. .........+..+....+++
T Consensus 95 ~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~ 170 (269)
T cd06288 95 SVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQALAEAGIPFD----PDLVVHGDWSADDGYEAAAA 170 (269)
T ss_pred eEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHHHHcCCCCC----HHHeEeCCCChHHHHHHHHH
Confidence 344666667788888777779999999975543 345678889999988774321 11111112222334455566
Q ss_pred HHhcc--CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecc
Q psy17441 173 MKNAQ--ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 173 ik~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~ 214 (458)
+.+.. +++|++ ++...+..+++++++.|+.-++.+.+++-.
T Consensus 171 ~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~v~g~d 213 (269)
T cd06288 171 LLDLDDRPTAIFC-GNDRMAMGAYQALLERGLRIPQDVSVVGFD 213 (269)
T ss_pred HHhCCCCCCEEEE-eCcHHHHHHHHHHHHcCCCCcccceEEeeC
Confidence 54433 566654 555667788999999998755555555543
No 121
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=96.69 E-value=0.2 Score=46.80 Aligned_cols=178 Identities=16% Similarity=0.113 Sum_probs=100.7
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+.+.+...+. .++ .......+.+.++++.++|-.++.. ....+.. ....++|+|..+...+ ...++
T Consensus 29 ~~~~~~~~~~~-~~~-~~~~~~~~~l~~~~vdgiii~~~~~---~~~~~~~-~~~~~ipvv~~~~~~~-----~~~~~-- 95 (264)
T cd01574 29 GYAVTLSMLAE-ADE-EALRAAVRRLLAQRVDGVIVNAPLD---DADAALA-AAPADVPVVFVDGSPS-----PRVST-- 95 (264)
T ss_pred CCeEEEEeCCC-Cch-HHHHHHHHHHHhcCCCEEEEeCCCC---ChHHHHH-HHhcCCCEEEEeccCC-----CCCCE--
Confidence 55555553221 122 2333445556677898888522222 2223333 3468899999876421 11233
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYE 172 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ 172 (458)
+...+..-+..+++.+...|-++++++..+.. ......+.+.+.+++.|+.+ ........+.....+.+++
T Consensus 96 -v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~------~~~~~~~~~~~~~~~~~~~ 168 (264)
T cd01574 96 -VSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAALEAAGIAP------PPVLEGDWSAESGYRAGRE 168 (264)
T ss_pred -EEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHHHHCCCCc------ceeeecCCCHHHHHHHHHH
Confidence 33555666778888888889999999975543 23456778888888776432 1111111122233445555
Q ss_pred HHhcc-CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 173 MKNAQ-ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 173 ik~~~-~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
+.+.. +++|++ ++...+..+++++++.|..-++.+-+++-
T Consensus 169 ~l~~~~~~ai~~-~~d~~a~g~~~~~~~~g~~ip~~i~ii~~ 209 (264)
T cd01574 169 LLREGDPTAVFA-ANDQMALGVLRALHELGLRVPDDVSVVGF 209 (264)
T ss_pred HHhCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCccceEEecc
Confidence 54433 555444 45566788999999999764444444433
No 122
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=96.64 E-value=0.46 Score=44.63 Aligned_cols=190 Identities=11% Similarity=0.002 Sum_probs=108.3
Q ss_pred HhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeE
Q psy17441 39 FLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMK 118 (458)
Q Consensus 39 ~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~ 118 (458)
.+...+|.+||=. + +. ........+...++|+|......+ ..+++ .+.+..-+..+++.|... .++
T Consensus 50 ~l~~~~vdgvi~~-~-~~--~~~~~~~~l~~~~iPvv~~~~~~~------~~~~v---~~d~~~~g~~a~~~L~~~-~~~ 115 (269)
T cd06297 50 TTLAYLTDGLLLA-S-YD--LTERLAERRLPTERPVVLVDAENP------RFDSF---YLDNRLGGRLAGAYLADF-PGR 115 (269)
T ss_pred HHHhcCCCEEEEe-c-Cc--cChHHHHHHhhcCCCEEEEccCCC------CCCEE---EECcHHHHHHHHHHHHHh-CCc
Confidence 3556778888851 2 21 123344556678999998865321 12332 356666666777777666 899
Q ss_pred EEEEEecC--c------chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhcc--CeEEEEEeChh
Q psy17441 119 VIFIHSSD--T------DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQ--ARVYLMYASKQ 188 (458)
Q Consensus 119 v~ii~~~d--~------~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~--~~viil~~~~~ 188 (458)
++++.... . .+....+.+++.+++.|+.+.. . .......+..+....++++.+.. +++|++. +..
T Consensus 116 i~~i~~~~~~~~~~~~~~~~~R~~gf~~~~~~~g~~~~~--~--~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~ 190 (269)
T cd06297 116 IGAITVEEEPDRAFRRTVFAERRAGFQQALKDAGRPFSP--D--LLAITDHSEEGGRLAMRHLLEKASPPLAVFAS-ADQ 190 (269)
T ss_pred eEEEeCccccccccccccHHHHHHHHHHHHHHcCCCCCh--h--hEEeCCCChhhHHHHHHHHHcCCCCCcEEEEc-CcH
Confidence 99986432 2 4556789999999988854311 1 11111112233445666655433 4555554 555
Q ss_pred hHHHHHHHHHhcCCcccceEEEeeccccccCCCCCeeEEEEecCCCchhHHHHHHHHHHHHHHH
Q psy17441 189 DAEIIFKDAQYLNMTETGYVWIVTEQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVLTSALK 252 (458)
Q Consensus 189 ~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~la~Al~ 252 (458)
.+..+++.+++.|..-++.+-+++-......... ++..+. .......+.|+.++...++
T Consensus 191 ~a~g~~~~l~~~g~~vP~di~vvg~d~~~~~~~~-~lttv~----~~~~~~g~~av~~l~~~i~ 249 (269)
T cd06297 191 QALGALQEAVELGLTVGEDVRVVGFDDHPFAREA-GLSTLA----QPVEAMGARAAQLLLERLE 249 (269)
T ss_pred HHHHHHHHHHHcCCCCCCceEEEEECCchhhccC-Cceeee----cCHHHHHHHHHHHHHHHhc
Confidence 7788999999999876655555443322111112 322221 1345577888877766554
No 123
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.64 E-value=0.097 Score=48.87 Aligned_cols=166 Identities=13% Similarity=0.008 Sum_probs=96.0
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+++.+...++ +. . .....+.+.+.++.++|- ..+.. .. .....+...++|+|......+. . .+
T Consensus 28 ~g~~~~~~~~~~--~~-~-~~~~i~~~~~~~vdgiii--~~~~~-~~-~~~~~~~~~~ipvV~~~~~~~~----~---~~ 92 (266)
T cd06278 28 RGYQPLLINTDD--DE-D-LDAALRQLLQYRVDGVIV--TSGTL-SS-ELAEECRRNGIPVVLINRYVDG----P---GV 92 (266)
T ss_pred CCCeEEEEcCCC--CH-H-HHHHHHHHHHcCCCEEEE--ecCCC-CH-HHHHHHhhcCCCEEEECCccCC----C---CC
Confidence 466666554332 22 2 233455566788988886 32221 22 3355566789999998653221 1 12
Q ss_pred eecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLY 171 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~ 171 (458)
..+.+.+...+..+++.+...|-++++++..+.. ......+.+.+.+++.|+.+ .....-..+..+..+.+.
T Consensus 93 ~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~ 166 (266)
T cd06278 93 DAVCSDNYEAGRLAAELLLAKGCRRIAFIGGPADTSTSRERERGFRDALAAAGVPV------VVEEAGDYSYEGGYEAAR 166 (266)
T ss_pred CEEEEChHHHHHHHHHHHHHCCCceEEEEcCCCcccchHHHHHHHHHHHHHcCCCh------hhhccCCCCHHHHHHHHH
Confidence 3345667777778888888889999999985543 45567788999998877321 111111112223344555
Q ss_pred HHHhc--cCeEEEEEeChhhHHHHHHHHHhcC
Q psy17441 172 EMKNA--QARVYLMYASKQDAEIIFKDAQYLN 201 (458)
Q Consensus 172 ~ik~~--~~~viil~~~~~~~~~il~~a~~~g 201 (458)
++.+. .+++|++. +...+..+++..++.+
T Consensus 167 ~~l~~~~~~~~i~~~-~~~~a~~~~~~l~~~~ 197 (266)
T cd06278 167 RLLASRPRPDAIFCA-NDLLAIGVMDAARQEG 197 (266)
T ss_pred HHHhcCCCCCEEEEc-CcHHHHHHHHHHHHhc
Confidence 55443 35555554 3445667777777653
No 124
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.64 E-value=0.37 Score=45.09 Aligned_cols=181 Identities=12% Similarity=-0.003 Sum_probs=102.1
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+... ..+. +....+.+.+.++++.++|-. +... . ......+...++|+|....... +...+++
T Consensus 29 g~~~~~~~~--~~~~-~~~~~~i~~l~~~~~dgiii~-~~~~--~-~~~~~~~~~~~ipvV~i~~~~~---~~~~~~~-- 96 (270)
T cd06296 29 GYDVVLSES--GRRT-SPERQWVERLSARRTDGVILV-TPEL--T-SAQRAALRRTGIPFVVVDPAGD---PDADVPS-- 96 (270)
T ss_pred CCeEEEecC--CCch-HHHHHHHHHHHHcCCCEEEEe-cCCC--C-hHHHHHHhcCCCCEEEEecccC---CCCCCCE--
Confidence 555554432 2222 233344566767888888751 2222 2 2334556678999999876421 1112233
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYE 172 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ 172 (458)
..+.+...+..+++.+...|.++++++.... .......+.+.+.+++.|+.+. ...........++....+++
T Consensus 97 -v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~ 171 (270)
T cd06296 97 -VGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCSRARLDGYRAALAEAGIPVD----PALVREGDFSTESGFRAAAE 171 (270)
T ss_pred -EEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHHHHcCCCCC----hHHheeCCCCHHHHHHHHHH
Confidence 3455666677777877777999999997543 2345677889999988764321 00011111122233344455
Q ss_pred HHhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceE-EEeec
Q psy17441 173 MKNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYV-WIVTE 213 (458)
Q Consensus 173 ik~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~-wi~t~ 213 (458)
+.+. .+++|++ .+...+..+++..++.|+.-++.+ .+.-+
T Consensus 172 ~l~~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~~p~~i~v~~~d 214 (270)
T cd06296 172 LLALPERPTAIFA-GNDLMALGVYEAARERGLRIPEDLSVVGFD 214 (270)
T ss_pred HHhCCCCCcEEEE-cCcHHHHHHHHHHHHhCCCCCCceEEEEEC
Confidence 4433 3455554 455567788999999998644444 44444
No 125
>cd06324 PBP1_ABC_sugar_binding_like_13 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=96.62 E-value=0.38 Score=46.24 Aligned_cols=223 Identities=10% Similarity=0.010 Sum_probs=119.1
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcC--CeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCC------C
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISE--RVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFS------D 86 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~--~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls------~ 86 (458)
|+++.+.. .+.+. +......+.+.+. +|.+||=. +... ........+...++|+|......+... .
T Consensus 30 g~~v~~~~--~~~~~-~~~~~~i~~~~~~~~~vdgiIi~-~~~~--~~~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~ 103 (305)
T cd06324 30 GIELEVLY--AERDR-FLMLQQARTILQRPDKPDALIFT-NEKS--VAPELLRLAEGAGVKLFLVNSGLTEAQARELGPP 103 (305)
T ss_pred CCeEEEEe--CCCCH-HHHHHHHHHHHHhccCCCEEEEc-CCcc--chHHHHHHHHhCCCeEEEEecCCCcchhhccccc
Confidence 55554443 23343 2234445566677 89888751 2221 223334556679999999876432211 0
Q ss_pred Cccc-cceeecCCCchhHHHHHHHHHHhcCCeE--------EEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEE
Q psy17441 87 KNIH-VSFLRTVPPYSHQADVWVELLKHFNYMK--------VIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEA 155 (458)
Q Consensus 87 ~~~~-p~~~r~~p~~~~~~~ai~~ll~~~~w~~--------v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~ 155 (458)
+..+ +++-...+.+..-+..+++.+...+-++ ++++.... .......+.+++.++++| . ..+..
T Consensus 104 ~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~g-~----~~~~~ 178 (305)
T cd06324 104 REKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISGDPTTPAAILREAGLRRALAEHP-D----VRLRQ 178 (305)
T ss_pred ccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeCCCCChHHHHHHHHHHHHHHHCC-C----ceEee
Confidence 1111 1233455666777778888887777664 77776332 335567888999998876 1 22211
Q ss_pred EEEeCCCcccHHHHHHHHHhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEe-ecccccc-CCCCCeeEEEEec
Q psy17441 156 VIEFEPGLTTFKDQLYEMKNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIV-TEQALTA-KNVPVGIIGLKLV 231 (458)
Q Consensus 156 ~~~~~~~~~d~~~~l~~ik~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~-t~~~~~~-~~~~~g~~g~~~~ 231 (458)
........+.-...++++.+. .+++|+ +.+...+..+++++++.|+.-++.+-+. -+..... ..+..|.+.....
T Consensus 179 ~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~vp~di~vig~D~~~~~~~~~~~~~lttv~~ 257 (305)
T cd06324 179 VVYAGWSEDEAYEQAENLLKRYPDVRLIW-AANDQMAFGALRAAKEAGRKPGRDVLFGGVNWSPEALRAIKDGRLSVSAG 257 (305)
T ss_pred eecCCCCHHHHHHHHHHHHHHCCCccEEE-ECCchHHHHHHHHHHHcCCCcCCCEEEEecCCCHHHHHHHHcCceEEEec
Confidence 111111222334455555433 356555 3455667889999999998754444343 3432221 1233444443332
Q ss_pred CCCchhHHHHHHHHHHHHHHH
Q psy17441 232 NATNEDAHIRDSIYVLTSALK 252 (458)
Q Consensus 232 ~~~~~~~~~yDAv~~la~Al~ 252 (458)
.. ...++-|+.++.+.++
T Consensus 258 ~~---~~~g~~a~~~l~~~i~ 275 (305)
T cd06324 258 GH---FTEGGWALVLLYDYAH 275 (305)
T ss_pred CC---cccHHHHHHHHHHHHc
Confidence 22 2356666666665553
No 126
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=96.61 E-value=0.35 Score=45.34 Aligned_cols=182 Identities=10% Similarity=-0.005 Sum_probs=100.7
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+.. ...++.. .....+.+...++.+||=. +.... ........+...++|+|..+...+ +.. ...
T Consensus 30 g~~~~~~~--~~~~~~~-~~~~i~~~~~~~vdgiii~-~~~~~-~~~~~~~~~~~~~ipvV~~~~~~~---~~~---~~~ 98 (270)
T cd06308 30 DVELIIAD--AADDNSK-QVADIENFIRQGVDLLIIS-PNEAA-PLTPVVEEAYRAGIPVILLDRKIL---SDK---YTA 98 (270)
T ss_pred CcEEEEEc--CCCCHHH-HHHHHHHHHHhCCCEEEEe-cCchh-hchHHHHHHHHCCCCEEEeCCCCC---Ccc---ceE
Confidence 55554433 3333322 3344555667788777641 22211 112233445578999998865321 111 222
Q ss_pred ecCCCchhHHHHHHHHHHhc--CCeEEEEEEecCc--chhHHHHHHHHhhhcc-CCcceeeEEEEEEEEeCCCcccHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHF--NYMKVIFIHSSDT--DGRALLGRFQTTSQNQ-EDDVEIKVQVEAVIEFEPGLTTFKDQ 169 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~--~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~-gi~v~~~~~v~~~~~~~~~~~d~~~~ 169 (458)
.+...+...+...++.+... |-++++++..... ......+.+++.++++ |+. +........+..+....
T Consensus 99 ~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~~l~~~~~~~------~~~~~~~~~~~~~~~~~ 172 (270)
T cd06308 99 YIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKEALSKYPKIK------IVAQQDGDWLKEKAEEK 172 (270)
T ss_pred EeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHHHHHHCCCCE------EEEecCCCccHHHHHHH
Confidence 34456666777777777665 8899999975432 3446678899999887 632 21111111112222344
Q ss_pred HHHHHh--ccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccc
Q psy17441 170 LYEMKN--AQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQA 215 (458)
Q Consensus 170 l~~ik~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~ 215 (458)
++++-+ .++++|+ +.+...+..+++++++.|+. ++...+.-|..
T Consensus 173 ~~~~l~~~~~~~aI~-~~~d~~a~g~~~al~~~g~~-~dv~vvg~d~~ 218 (270)
T cd06308 173 MEELLQANPDIDLVY-AHNDPMALGAYLAAKRAGRE-KEIKFIGIDGL 218 (270)
T ss_pred HHHHHHhCCCCcEEE-eCCcHHHHHHHHHHHHcCCC-CCcEEEEecCC
Confidence 445432 2356544 44566777899999999987 44455555543
No 127
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=96.59 E-value=0.47 Score=45.99 Aligned_cols=160 Identities=11% Similarity=0.018 Sum_probs=94.0
Q ss_pred HHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhc
Q psy17441 35 SVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHF 114 (458)
Q Consensus 35 ~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~ 114 (458)
...+.+...++.++|- ..... ........+...++|+|..+...+ . ..+++ ....+...+..+++.|...
T Consensus 108 ~~~~~l~~~~vdgiIi--~~~~~-~~~~~~~~l~~~~iPvV~v~~~~~---~-~~~~~---V~~d~~~~~~~a~~~L~~~ 177 (328)
T PRK11303 108 RCAEHLLQRQVDALIV--STSLP-PEHPFYQRLQNDGLPIIALDRALD---R-EHFTS---VVSDDQDDAEMLAESLLKF 177 (328)
T ss_pred HHHHHHHHcCCCEEEE--cCCCC-CChHHHHHHHhcCCCEEEECCCCC---C-CCCCE---EEeCCHHHHHHHHHHHHHC
Confidence 4455566778888875 22211 112223334567999998765321 1 11233 2355566666777888788
Q ss_pred CCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc--cCeEEEEEeChhhH
Q psy17441 115 NYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA--QARVYLMYASKQDA 190 (458)
Q Consensus 115 ~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~--~~~viil~~~~~~~ 190 (458)
|-++++++....+ .+....+.+.+.+++.|+.+ .....-..+..+-...++++.+. .+++|++. +...+
T Consensus 178 G~r~I~~i~~~~~~~~~~~R~~Gf~~al~~~g~~~------~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~d~~A 250 (328)
T PRK11303 178 PAESILLLGALPELSVSFEREQGFRQALKDDPREV------HYLYANSFEREAGAQLFEKWLETHPMPDALFTT-SYTLL 250 (328)
T ss_pred CCCeEEEEeCccccccHHHHHHHHHHHHHHcCCCc------eEEEeCCCChHHHHHHHHHHHcCCCCCCEEEEc-CcHHH
Confidence 9999999975432 35667888999999888432 11111111222333455555433 46666665 44567
Q ss_pred HHHHHHHHhcCCcccceEEEe
Q psy17441 191 EIIFKDAQYLNMTETGYVWIV 211 (458)
Q Consensus 191 ~~il~~a~~~g~~~~~~~wi~ 211 (458)
..+++++.+.|+.-++.+=|+
T Consensus 251 ~g~~~al~~~g~~vP~disv~ 271 (328)
T PRK11303 251 QGVLDVLLERPGELPSDLAIA 271 (328)
T ss_pred HHHHHHHHHcCCCCCCceEEE
Confidence 788999999998655555443
No 128
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=96.47 E-value=0.4 Score=45.58 Aligned_cols=176 Identities=12% Similarity=0.067 Sum_probs=111.0
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+++.+. ....+.-.. ...+.+.+.+|.++|= ..... ....+..+... ++|+|....... .....|++
T Consensus 30 ~Gy~l~l~--~t~~~~~~e--~~i~~l~~~~vDGiI~--~s~~~-~~~~l~~~~~~-~iPvV~~~~~~~---~~~~~~~V 98 (279)
T PF00532_consen 30 HGYQLLLC--NTGDDEEKE--EYIELLLQRRVDGIIL--ASSEN-DDEELRRLIKS-GIPVVLIDRYID---NPEGVPSV 98 (279)
T ss_dssp TTCEEEEE--EETTTHHHH--HHHHHHHHTTSSEEEE--ESSSC-TCHHHHHHHHT-TSEEEEESS-SC---TTCTSCEE
T ss_pred cCCEEEEe--cCCCchHHH--HHHHHHHhcCCCEEEE--ecccC-ChHHHHHHHHc-CCCEEEEEeccC---CcccCCEE
Confidence 46665443 344444333 4456677889999886 32221 22566677766 999998766421 11123443
Q ss_pred eecCCCchhHHHHHHHHHHhcCCeE-EEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHFNYMK-VIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQL 170 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~~w~~-v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l 170 (458)
. ..+..-+..+++.|...|.++ ++++..+.+ ......+.++++++++|+++ ..........+.++-...+
T Consensus 99 ~---~D~~~a~~~a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~Al~~~Gl~~----~~~~i~~~~~~~~~g~~~~ 171 (279)
T PF00532_consen 99 Y---IDNYEAGYEATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDALKEAGLPI----DEEWIFEGDFDYESGYEAA 171 (279)
T ss_dssp E---EEHHHHHHHHHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHHHHHTTSCE----EEEEEEESSSSHHHHHHHH
T ss_pred E---EcchHHHHHHHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHHHHHcCCCC----CcccccccCCCHHHHHHHH
Confidence 3 334445557778888999999 999987654 35567888999999999543 2222222222334445666
Q ss_pred HHHHhccCe--EEEEEeChhhHHHHHHHHHhcC-CcccceE
Q psy17441 171 YEMKNAQAR--VYLMYASKQDAEIIFKDAQYLN-MTETGYV 208 (458)
Q Consensus 171 ~~ik~~~~~--viil~~~~~~~~~il~~a~~~g-~~~~~~~ 208 (458)
+++-+..++ +|+ +++...|...++++++.| +..++.+
T Consensus 172 ~~ll~~~p~idai~-~~nd~~A~ga~~~l~~~gr~~ip~di 211 (279)
T PF00532_consen 172 RELLESHPDIDAIF-CANDMMAIGAIRALRERGRLKIPEDI 211 (279)
T ss_dssp HHHHHTSTT-SEEE-ESSHHHHHHHHHHHHHTT-TCTTTEE
T ss_pred HHHHhhCCCCEEEE-EeCHHHHHHHHHHHHHcCCcccChhh
Confidence 777666666 444 456677888999999999 7766555
No 129
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=96.45 E-value=0.63 Score=43.47 Aligned_cols=213 Identities=13% Similarity=0.043 Sum_probs=111.4
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+++.+.. ...++ .......+.+.+.++.++|-. +..+. ........+...++|+|......+ +. +.+
T Consensus 28 ~g~~~~i~~--~~~~~-~~~~~~~~~~~~~~vdgiii~-~~~~~-~~~~~~~~~~~~~ipvV~~~~~~~---~~---~~~ 96 (267)
T cd06322 28 QKVNLIVSI--ANQDL-NKQLSDVEDFITKKVDAIVLS-PVDSK-GIRAAIAKAKKAGIPVITVDIAAE---GV---AVV 96 (267)
T ss_pred cCCEEEEec--CCCCH-HHHHHHHHHHHHcCCCEEEEc-CCChh-hhHHHHHHHHHCCCCEEEEcccCC---CC---ceE
Confidence 355554433 23333 333444555667889888862 22221 112333445678999999864211 11 112
Q ss_pred eecCCCchhHHHHHHHHHHhc--CCeEEEEEEecCc-chhHHHHHHHHhhhcc-CCcceeeEEEEEEEEeCCCcccHHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHF--NYMKVIFIHSSDT-DGRALLGRFQTTSQNQ-EDDVEIKVQVEAVIEFEPGLTTFKDQ 169 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~--~w~~v~ii~~~d~-~g~~~~~~l~~~l~~~-gi~v~~~~~v~~~~~~~~~~~d~~~~ 169 (458)
..+.+.+..-+...++.+... |-+++++++..+. ......+.+++.+++. |+ .+.... ...+.+.....
T Consensus 97 ~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~~~~~~~------~~~~~~-~~~~~~~~~~~ 169 (267)
T cd06322 97 SHVATDNYAGGVLAGELAAKVLNGKGQVAIIDYPTVQSVVDRVRGFKEALADYPNI------KIVAVQ-PGITRAEALTA 169 (267)
T ss_pred EEEecChHHHHHHHHHHHHHHhCCCceEEEEecCCCccHHHHHHHHHHHHHhCCCc------EEEEec-CCCChHHHHHH
Confidence 234455556666777777664 8889999975432 3456678889999887 62 221111 11112223334
Q ss_pred HHHHHhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccc-cCCCC---CeeEEEEecCCCchhHHHHHH
Q psy17441 170 LYEMKNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALT-AKNVP---VGIIGLKLVNATNEDAHIRDS 243 (458)
Q Consensus 170 l~~ik~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~-~~~~~---~g~~g~~~~~~~~~~~~~yDA 243 (458)
+.++.+. ++++|++ .+...+..+++++++.|+ + .+.+++-.... ..... ...++....+ ....++.|
T Consensus 170 ~~~~l~~~~~~~ai~~-~~d~~a~~~~~al~~~g~-~--di~vvg~d~~~~~~~~~~~~~~~ltti~~~---~~~~g~~a 242 (267)
T cd06322 170 AQNILQANPDLDGIFA-FGDDAALGAVSAIKAAGR-D--NVKVIGFDGMPEARKAVDGEPPFVAVIRQY---PDQMGKKA 242 (267)
T ss_pred HHHHHHhCCCCCEEEE-cCCcHHHHHHHHHHHCCC-C--CeEEEEecCCHHHHHHHhcCCcEEEEEecC---HHHHHHHH
Confidence 4454332 3454444 444567788899999998 2 45554443221 11111 1223322222 34466677
Q ss_pred HHHHHHHH
Q psy17441 244 IYVLTSAL 251 (458)
Q Consensus 244 v~~la~Al 251 (458)
+.++...+
T Consensus 243 ~~~l~~~i 250 (267)
T cd06322 243 IDAAADVL 250 (267)
T ss_pred HHHHHHHh
Confidence 66665554
No 130
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=96.44 E-value=0.33 Score=47.47 Aligned_cols=175 Identities=13% Similarity=0.053 Sum_probs=111.1
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+.+.+..+++ ++ +.-....+.+.+.+|.++|=. +.. ........+...++|+|-.+...+ +. .+++
T Consensus 88 gy~~~l~~~~~--~~-~~e~~~~~~l~~~~vdGiIi~-~~~---~~~~~~~~l~~~~~P~V~i~~~~~---~~-~~~~-- 154 (333)
T COG1609 88 GYSLLLANTDD--DP-EKEREYLETLLQKRVDGLILL-GER---PNDSLLELLAAAGIPVVVIDRSPP---GL-GVPS-- 154 (333)
T ss_pred CCEEEEECCCC--CH-HHHHHHHHHHHHcCCCEEEEe-cCC---CCHHHHHHHHhcCCCEEEEeCCCc---cC-CCCE--
Confidence 44444443332 33 333444455667899999963 222 335566777778999998877544 11 1233
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYE 172 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ 172 (458)
+...+..-+..+++.|...|-+++++|... ...+....+.+.+.++++|+... ......-+....+-...+.+
T Consensus 155 -V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~----~~~i~~~~~~~~~g~~~~~~ 229 (333)
T COG1609 155 -VGIDNFAGAYLATEHLIELGHRRIAFIGGPLDSSASRERLEGYRAALREAGLPIN----PEWIVEGDFSEESGYEAAER 229 (333)
T ss_pred -EEEChHHHHHHHHHHHHHCCCceEEEEeCCCccccHhHHHHHHHHHHHHCCCCCC----cceEEecCCChHHHHHHHHH
Confidence 346677777788999999999999999976 34567889999999999985420 11111111233344455555
Q ss_pred HHhcc---CeEEEEEeChhhHHHHHHHHHhcCCcccceE
Q psy17441 173 MKNAQ---ARVYLMYASKQDAEIIFKDAQYLNMTETGYV 208 (458)
Q Consensus 173 ik~~~---~~viil~~~~~~~~~il~~a~~~g~~~~~~~ 208 (458)
+.... ++.|++ ++...|..+++++++.|+..++.+
T Consensus 230 ll~~~~~~ptAif~-~nD~~Alg~l~~~~~~g~~vP~di 267 (333)
T COG1609 230 LLARGEPRPTAIFC-ANDLMALGALRALRELGLRVPEDL 267 (333)
T ss_pred HHhcCCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCCCee
Confidence 54322 556655 555678999999999999865533
No 131
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=96.43 E-value=0.32 Score=45.73 Aligned_cols=160 Identities=10% Similarity=0.007 Sum_probs=93.1
Q ss_pred HHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCC
Q psy17441 37 CKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNY 116 (458)
Q Consensus 37 ~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w 116 (458)
.+.+...++.+||-. +... . ......+...+||+|..+...+. ..+++ +.+.+...+...++.+...|.
T Consensus 57 ~~~l~~~~~dgiii~-~~~~--~-~~~~~~~~~~~ipvV~~~~~~~~----~~~~~---V~~d~~~~g~~~a~~l~~~g~ 125 (275)
T cd06295 57 ARYLASGRADGVILI-GQHD--Q-DPLPERLAETGLPFVVWGRPLPG----QPYCY---VGSDNVGGGRLATEHLLARGR 125 (275)
T ss_pred HHHHHhCCCCEEEEe-CCCC--C-hHHHHHHHhCCCCEEEECCccCC----CCCCE---EEECcHHHHHHHHHHHHHCCC
Confidence 344445788888741 2111 2 23344556789999988763321 22333 345566677788888888899
Q ss_pred eEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc--cCeEEEEEeChhhHHH
Q psy17441 117 MKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA--QARVYLMYASKQDAEI 192 (458)
Q Consensus 117 ~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~--~~~viil~~~~~~~~~ 192 (458)
++++++..+.. .+....+.+.+.+++.|+.+. . ........+..+....+.++.+. .+++|++. ....+..
T Consensus 126 ~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~--~--~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g 200 (275)
T cd06295 126 RRIAFLGGPQDMPEGEERLEGYREALAEAGLPLD--P--RLVAPGDFTEESGRAAMRALLERGPDFDAVFAA-SDLMALG 200 (275)
T ss_pred CeEEEEcCCCCcchhHHHHHHHHHHHHHcCCCCC--h--hhEEeccCCHHHHHHHHHHHHhCCCCCCEEEEC-CcHHHHH
Confidence 99999975432 355677889999988764321 1 11111111222233445554433 35665554 3456678
Q ss_pred HHHHHHhcCCcccceEEEee
Q psy17441 193 IFKDAQYLNMTETGYVWIVT 212 (458)
Q Consensus 193 il~~a~~~g~~~~~~~wi~t 212 (458)
+++.+++.|+..++.+-+.+
T Consensus 201 ~~~~l~~~g~~ip~~i~ii~ 220 (275)
T cd06295 201 ALRALREAGRRVPEDVAVVG 220 (275)
T ss_pred HHHHHHHhCCCCccceEEEe
Confidence 88999999986444444433
No 132
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.39 E-value=0.67 Score=43.86 Aligned_cols=195 Identities=13% Similarity=0.009 Sum_probs=107.7
Q ss_pred HHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCC
Q psy17441 37 CKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNY 116 (458)
Q Consensus 37 ~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w 116 (458)
.+.+...++.++|- ..+.. . .....-+...++|+|......+ ...++ +...+...+...++.+...|-
T Consensus 49 ~~~~~~~~~dgiii--~~~~~-~-~~~~~~~~~~~ipvV~~~~~~~-----~~~~~---v~~d~~~~g~~~~~~L~~~g~ 116 (283)
T cd06279 49 SALVVSALVDGFIV--YGVPR-D-DPLVAALLRRGLPVVVVDQPLP-----PGVPS---VGIDDRAAAREAARHLLDLGH 116 (283)
T ss_pred HHHHHhcCCCEEEE--eCCCC-C-hHHHHHHHHcCCCEEEEecCCC-----CCCCE---EeeCcHHHHHHHHHHHHHcCC
Confidence 34455788998887 32221 2 2334455678999998865321 11222 345666677778888888899
Q ss_pred eEEEEEEecC-------------------cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhcc
Q psy17441 117 MKVIFIHSSD-------------------TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQ 177 (458)
Q Consensus 117 ~~v~ii~~~d-------------------~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~ 177 (458)
++++++..+. .......+.+.+.+++.|+.... ..+ ......+..+..+.++++.++.
T Consensus 117 ~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~-~~~--~~~~~~~~~~~~~~~~~~l~~~ 193 (283)
T cd06279 117 RRIGILGLRLGRDRNTGRVTDERLASATFSVARERLEGYLEALEEAGIDISD-VPI--WEIPENDRASGEEAARELLDAS 193 (283)
T ss_pred CcEEEecCcccccccccccccccccccccccHHHHHHHHHHHHHHcCCCCCh-heE--EecCCCchHHHHHHHHHHHcCC
Confidence 9999997532 22456678899999887743211 011 1111112233445555654433
Q ss_pred --CeEEEEEeChhhHHHHHHHHHhcCCcccceE-EEeeccccccCCCCCeeEEEEecCCCchhHHHHHHHHHHHHHHH
Q psy17441 178 --ARVYLMYASKQDAEIIFKDAQYLNMTETGYV-WIVTEQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVLTSALK 252 (458)
Q Consensus 178 --~~viil~~~~~~~~~il~~a~~~g~~~~~~~-wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~la~Al~ 252 (458)
+++|+ +++...+..+++++++.|+.-++.+ .+.-|..... ....++..+. ......++-|+.++...++
T Consensus 194 ~~~~ai~-~~~d~~a~gv~~al~~~g~~ip~di~vig~d~~~~~-~~~p~~sti~----~~~~~~g~~av~~l~~~i~ 265 (283)
T cd06279 194 PRPTAIL-CMSDVLALGALQVARELGLRVPEDLSVVGFDGIPEA-RLRPGLTTVR----QPSEEKGRLAARLLLDLLE 265 (283)
T ss_pred CCCcEEE-ECCcHHHHHHHHHHHHcCCCCCCceEEeeeCCCcce-eeCCCCceec----CCHHHHHHHHHHHHHHHhc
Confidence 45544 4455667788999999998644333 4444432222 1111111111 1234466666666665554
No 133
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.32 E-value=0.72 Score=43.12 Aligned_cols=213 Identities=11% Similarity=0.019 Sum_probs=109.5
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+...++ +. +......+.+.+.++.+||.. + +.. ......+...++|+|......+. ...++
T Consensus 32 g~~~~~~~~~~--~~-~~~~~~~~~l~~~~vdgiii~-~-~~~---~~~~~~l~~~~ipvV~~~~~~~~----~~~~~-- 97 (268)
T cd06277 32 GYNLILKFVSD--ED-EEEFELPSFLEDGKVDGIILL-G-GIS---TEYIKEIKELGIPFVLVDHYIPN----EKADC-- 97 (268)
T ss_pred CCEEEEEeCCC--Ch-HHHHHHHHHHHHCCCCEEEEe-C-CCC---hHHHHHHhhcCCCEEEEccCCCC----CCCCE--
Confidence 56655553322 22 222333444557889999872 2 221 22344566789999987653221 11233
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEe-CCCcccHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF-EPGLTTFKDQLY 171 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~-~~~~~d~~~~l~ 171 (458)
+...+...+...++.+...|.++++++..... ......+.+.+.+++.|+.+.. .....- ..........++
T Consensus 98 -V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~l~ 172 (268)
T cd06277 98 -VLTDNYSGAYAATEYLIEKGHRKIGFVGDPLYSPSFEERYEGYKKALLDHGIPFNE----DYDITEKEEDEEDIGKFID 172 (268)
T ss_pred -EEecchHHHHHHHHHHHHCCCCcEEEECCCCCCcchHHHHHHHHHHHHHcCCCCCc----ceEEEcchhHHHHHHHHHh
Confidence 22344445556667777779999999976543 2345678899999888743311 111110 111122222222
Q ss_pred HHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceE-EEeeccccccCCCCCeeEEEEecCCCchhHHHHHHHHHHHHH
Q psy17441 172 EMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYV-WIVTEQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVLTSA 250 (458)
Q Consensus 172 ~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~-wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~la~A 250 (458)
+.. ..+++|++ +....+..+++++++.|+.-++.+ .+..+...........+..+.. .....++-|+.++...
T Consensus 173 ~~~-~~~~ai~~-~~d~~a~g~~~a~~~~g~~~p~di~vig~d~~~~~~~~~~~i~tv~~----~~~~~g~~a~~~l~~~ 246 (268)
T cd06277 173 ELK-PLPTAFFC-SNDGVAFLLIKVLKEMGIRVPEDVSVIGFDDIEYATIFTPPLTTVRV----DKEEMGKLAVKRLLEK 246 (268)
T ss_pred cCC-CCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCcceEEeecCchHHHhcCCCceEEec----CHHHHHHHHHHHHHHH
Confidence 211 23565544 455566778888899998644334 4443432221111222222221 2345666666666555
Q ss_pred HH
Q psy17441 251 LK 252 (458)
Q Consensus 251 l~ 252 (458)
++
T Consensus 247 l~ 248 (268)
T cd06277 247 LE 248 (268)
T ss_pred hc
Confidence 53
No 134
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=96.31 E-value=1 Score=42.64 Aligned_cols=225 Identities=10% Similarity=0.007 Sum_probs=113.0
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+++.+.. .. ++.+ .....+.+...++.+||=. +..+. ....+...+...++|+|......+....+. .+.+
T Consensus 28 ~g~~~~~~~--~~-~~~~-~~~~i~~~~~~~~dgiii~-~~~~~-~~~~~~~~~~~~~iPvV~~~~~~~~~~~~~-~~~~ 100 (289)
T cd01540 28 KGFTVVKID--VP-DGEK-VLSAIDNLGAQGAKGFVIC-VPDVK-LGPAIVAKAKAYNMKVVAVDDRLVDADGKP-MEDV 100 (289)
T ss_pred cCCEEEEcc--CC-CHHH-HHHHHHHHHHcCCCEEEEc-cCchh-hhHHHHHHHHhCCCeEEEecCCCcccCCCc-cccc
Confidence 355554443 33 4322 3345566767888888852 21121 234455667789999998765322110000 0111
Q ss_pred eecCCCchhHHHHHHHHH----HhcCC--eEEEEEEe-c--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcc
Q psy17441 94 LRTVPPYSHQADVWVELL----KHFNY--MKVIFIHS-S--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLT 164 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll----~~~~w--~~v~ii~~-~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~ 164 (458)
..+.......+...++.+ ..-|+ ++++++.. . ........+.+++.+++.|+.. ..+.....-..+.+
T Consensus 101 ~~V~~d~~~~g~~~~~~l~~~~~~~g~~~~~i~~i~~~~~~~~~~~~R~~G~~~~l~~~~~~~---~~~~~~~~~~~~~~ 177 (289)
T cd01540 101 PHVGMSATKIGEQVGEAIADEMKKRGWDPKEVGALRITYDELDTAKPRTDGALEALKAPGFPE---ANIFQAPQKTTDTE 177 (289)
T ss_pred eEecCCHHHHHHHHHHHHHHHHHhhcCCCcceEEEEecCCCCcchhhHHHHHHHHHhcCCCCc---ceEecccccCcchh
Confidence 223344444445554544 34577 78888752 2 2345677889999999877432 11111000001112
Q ss_pred cHHHHHHHHHhcc--CeE-EEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCC-C---CCeeEEEEecCCCchh
Q psy17441 165 TFKDQLYEMKNAQ--ARV-YLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKN-V---PVGIIGLKLVNATNED 237 (458)
Q Consensus 165 d~~~~l~~ik~~~--~~v-iil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~-~---~~g~~g~~~~~~~~~~ 237 (458)
.-...++++.+.. ++. .+++.+...+..+++++++.|+..++...+..+....... + ..+.++.... ...
T Consensus 178 ~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~al~~~g~~~~di~vig~d~~~~~~~~~~~~~~~~~ttv~~---~~~ 254 (289)
T cd01540 178 GAFDAAASTLTKNPNVKNWIIYGLNDETVLGAVRATEQSGIAAADVIGVGINGSDAADEESKKQPTGFYGTVLI---SPT 254 (289)
T ss_pred hHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHHHHHHcCCCCcceEEEecCCchhHHHHhcccCCceEEEEee---ChH
Confidence 2234455554433 343 4555666678889999999998743334444443222211 1 1222322222 233
Q ss_pred HHHHHHHHHHHHHH
Q psy17441 238 AHIRDSIYVLTSAL 251 (458)
Q Consensus 238 ~~~yDAv~~la~Al 251 (458)
..++.|+.++...+
T Consensus 255 ~~g~~a~~~l~~~l 268 (289)
T cd01540 255 NHGYITAQNLYEWI 268 (289)
T ss_pred HhHHHHHHHHHHHH
Confidence 45666776665554
No 135
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.30 E-value=0.37 Score=45.15 Aligned_cols=180 Identities=10% Similarity=0.029 Sum_probs=104.3
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+..++ .+. .......+.+...++.++|- -.+.. ....+..+. ..++|+|..+...+.. . .+
T Consensus 29 gy~v~~~~~~--~~~-~~~~~~i~~~~~~~~dgiii--~~~~~-~~~~~~~~~-~~~~pvV~i~~~~~~~---~-~~--- 94 (269)
T cd06293 29 GLSLVLCATR--NRP-ERELTYLRWLDTNHVDGLIF--VTNRP-DDGALAKLI-NSYGNIVLVDEDVPGA---K-VP--- 94 (269)
T ss_pred CCEEEEEeCC--CCH-HHHHHHHHHHHHCCCCEEEE--eCCCC-CHHHHHHHH-hcCCCEEEECCCCCCC---C-CC---
Confidence 5555444322 233 33344556676788999987 32221 222333433 3579999887543211 1 12
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYE 172 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ 172 (458)
.+.+.+...+..+++.+...|-++++++..... ......+.+++.+++.|+.+ ..........+.++..+.+.+
T Consensus 95 ~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~ 170 (269)
T cd06293 95 KVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALAEAHIPE----VPEYVCFGDYTREFGRAAAAQ 170 (269)
T ss_pred EEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHHHcCCCC----ChheEEecCCCHHHHHHHHHH
Confidence 244677777788888888889999999974433 34466788999999877432 111111111122233445555
Q ss_pred HHh--ccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 173 MKN--AQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 173 ik~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
+-+ ..+++|++ ++...+..+++.+++.|..-++.+-|++-
T Consensus 171 ~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~vp~di~i~g~ 212 (269)
T cd06293 171 LLARGDPPTAIFA-ASDEIAIGLLEVLRERGLSIPGDMSLVGF 212 (269)
T ss_pred HHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEEee
Confidence 533 33566555 45566778899999999875555555443
No 136
>PRK09526 lacI lac repressor; Reviewed
Probab=96.28 E-value=1.2 Score=43.33 Aligned_cols=195 Identities=14% Similarity=0.103 Sum_probs=105.9
Q ss_pred HHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhh-cccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHh
Q psy17441 35 SVCKFLISERVYAVIVSHPLTGDLSPAAVSYTS-GFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKH 113 (458)
Q Consensus 35 ~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~-~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~ 113 (458)
...+.+.+.++.++|-..+... .....+. ...++|+|..... + + ...++ +...+..-+..+++.|..
T Consensus 111 ~~l~~l~~~~vdGiii~~~~~~----~~~~~~~~~~~~iPvV~~d~~-~---~-~~~~~---V~~d~~~~~~~a~~~L~~ 178 (342)
T PRK09526 111 AAVNELLAQRVSGVIINVPLED----ADAEKIVADCADVPCLFLDVS-P---Q-SPVNS---VSFDPEDGTRLGVEHLVE 178 (342)
T ss_pred HHHHHHHhcCCCEEEEecCCCc----chHHHHHhhcCCCCEEEEecc-C---C-CCCCE---EEECcHHHHHHHHHHHHH
Confidence 3445566788888885213222 1222332 2358999987642 1 1 11222 334555556777888888
Q ss_pred cCCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc--cCeEEEEEeChhh
Q psy17441 114 FNYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA--QARVYLMYASKQD 189 (458)
Q Consensus 114 ~~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~--~~~viil~~~~~~ 189 (458)
.|.++++++.... .......+.+++.+++.|+.+ ........+..+-...+.++.+. .+++|++ ++...
T Consensus 179 ~G~~~I~~l~g~~~~~~~~~R~~Gf~~al~~~gi~~------~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~ 251 (342)
T PRK09526 179 LGHQRIALLAGPESSVSARLRLAGWLEYLTDYQLQP------IAVREGDWSAMSGYQQTLQMLREGPVPSAILV-ANDQM 251 (342)
T ss_pred CCCCeEEEEeCCCccccHHHHHHHHHHHHHHcCCCc------ceEEeCCCchHHHHHHHHHHhcCCCCCcEEEE-cCcHH
Confidence 8999999997543 234566788999999887432 11111111112222344444332 3555554 45567
Q ss_pred HHHHHHHHHhcCCcccceEEEee-ccccccCCCCCeeEEEEecCCCchhHHHHHHHHHHHHHHH
Q psy17441 190 AEIIFKDAQYLNMTETGYVWIVT-EQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVLTSALK 252 (458)
Q Consensus 190 ~~~il~~a~~~g~~~~~~~wi~t-~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~la~Al~ 252 (458)
+..+++++++.|+.-++.+-|++ |...........+..+.. .....++-|+.++...++
T Consensus 252 A~g~~~al~~~g~~vP~disvig~d~~~~~~~~~p~lttv~~----~~~~~g~~A~~~L~~~i~ 311 (342)
T PRK09526 252 ALGVLRALHESGLRVPGQISVIGYDDTEDSSYFIPPLTTIKQ----DFRLLGKEAVDRLLALSQ 311 (342)
T ss_pred HHHHHHHHHHcCCCCCCceEEEeeCCCchhcccCCCceEecC----CHHHHHHHHHHHHHHHHh
Confidence 88899999999997655554443 322211111222222221 344566777776655553
No 137
>cd06321 PBP1_ABC_sugar_binding_like_11 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=96.26 E-value=0.75 Score=43.09 Aligned_cols=196 Identities=9% Similarity=-0.004 Sum_probs=106.4
Q ss_pred HHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhc
Q psy17441 35 SVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHF 114 (458)
Q Consensus 35 ~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~ 114 (458)
...+.+...++.++|= .+.... ........+...++|+|..+...+ + . . ..+...+..-+..+++.+...
T Consensus 48 ~~i~~~~~~~~dgiIi-~~~~~~-~~~~~i~~~~~~~ipvv~~~~~~~---~-~-~---~~V~~d~~~~g~~~~~~l~~~ 117 (271)
T cd06321 48 SQIDNFIAAKVDLILL-NAVDSK-GIAPAVKRAQAAGIVVVAVDVAAE---G-A-D---ATVTTDNVQAGEISCQYLADR 117 (271)
T ss_pred HHHHHHHHhCCCEEEE-eCCChh-HhHHHHHHHHHCCCeEEEecCCCC---C-c-c---ceeeechHHHHHHHHHHHHHH
Confidence 3445555778877764 132221 112333445567999999876332 1 1 1 123456666677777887776
Q ss_pred --CCeEEEEEEecC-cchhHHHHHHHHhhhcc-CCcceeeEEEEEEEEe-CCCcccHHHHHHHHHhc--cCeEEEEEeCh
Q psy17441 115 --NYMKVIFIHSSD-TDGRALLGRFQTTSQNQ-EDDVEIKVQVEAVIEF-EPGLTTFKDQLYEMKNA--QARVYLMYASK 187 (458)
Q Consensus 115 --~w~~v~ii~~~d-~~g~~~~~~l~~~l~~~-gi~v~~~~~v~~~~~~-~~~~~d~~~~l~~ik~~--~~~viil~~~~ 187 (458)
|.++++++.... .......+.+++.+++. + .+....... ..+...-...++++.+. .+++|++ .+.
T Consensus 118 ~~g~~~i~~i~g~~~~~~~~R~~g~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d 190 (271)
T cd06321 118 LGGKGNVAILNGPPVSAVLDRVAGCKAALAKYPG------IKLLSDDQNGKGSRDGGLRVMQGLLTRFPKLDGVFA-IND 190 (271)
T ss_pred hCCCceEEEEeCCCCchHHHHHHHHHHHHHhCCC------cEEEeeecCCCCChhhHHHHHHHHHHhCCCCCEEEE-CCc
Confidence 999999997543 23456678888888876 4 221111111 11112223445555433 3566554 455
Q ss_pred hhHHHHHHHHHhcCCcccceEEEeeccccccCCC---C-CeeEEEEecCCCchhHHHHHHHHHHHHHHH
Q psy17441 188 QDAEIIFKDAQYLNMTETGYVWIVTEQALTAKNV---P-VGIIGLKLVNATNEDAHIRDSIYVLTSALK 252 (458)
Q Consensus 188 ~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~---~-~g~~g~~~~~~~~~~~~~yDAv~~la~Al~ 252 (458)
..+..++++.++.|+. +...+..+........ . ...++.... .....+|.|+.++.+.++
T Consensus 191 ~~a~g~~~al~~~g~~--di~v~g~d~~~~~~~~~~~~~~~~~tti~~---~~~~~g~~a~~~l~~~l~ 254 (271)
T cd06321 191 PTAIGADLAAKQAGRN--DIKITSVDGAPDAEKAILSGNSLIIATAAQ---DPRAMARKAVEIGYDILN 254 (271)
T ss_pred hhHHHHHHHHHHcCCC--CcEEEEecCCHHHHHHHhccCCcEEEEecC---CHHHHHHHHHHHHHHHHc
Confidence 5677889999999983 3555555443222111 1 122222211 334577888777765543
No 138
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=96.26 E-value=0.0052 Score=67.75 Aligned_cols=54 Identities=17% Similarity=0.262 Sum_probs=50.2
Q ss_pred cchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHHHHHHhhcccceeEEee
Q psy17441 338 LSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLV 391 (458)
Q Consensus 338 ~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~~i~~~~yta~l~s~lt 391 (458)
...++||++.+|++-|+|+..|.+..+|+++++|+++++++.++.++++++.+.
T Consensus 251 Yi~slYwai~TmtTVGYGDi~p~t~~E~i~~i~~ml~g~~~~a~~ig~i~~li~ 304 (823)
T PLN03192 251 YISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTAYLIGNMTNLVV 304 (823)
T ss_pred HHHHHHHHHHHHhhccCCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456999999999999999999999999999999999999999999999988653
No 139
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=96.25 E-value=0.89 Score=44.07 Aligned_cols=158 Identities=14% Similarity=0.050 Sum_probs=91.5
Q ss_pred HHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcC
Q psy17441 36 VCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFN 115 (458)
Q Consensus 36 ~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~ 115 (458)
..+.+...++.++|-. +... ........+...++|+|..+...+ + ..+++ +.+.+..-+..+++.+...|
T Consensus 108 ~~~~l~~~~vdgiIi~-~~~~--~~~~~~~~l~~~~iPvV~~~~~~~---~-~~~~~---V~~dn~~~~~~~~~~L~~~G 177 (327)
T TIGR02417 108 VIENLLARQVDALIVA-SCMP--PEDAYYQKLQNEGLPVVALDRSLD---D-EHFCS---VISDDVDAAAELIERLLSQH 177 (327)
T ss_pred HHHHHHHcCCCEEEEe-CCCC--CChHHHHHHHhcCCCEEEEccccC---C-CCCCE---EEeCcHHHHHHHHHHHHHCC
Confidence 3455667788887751 2221 112233444567999998765322 1 11232 23445555566677787789
Q ss_pred CeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc---cCeEEEEEeChhhH
Q psy17441 116 YMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA---QARVYLMYASKQDA 190 (458)
Q Consensus 116 w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~---~~~viil~~~~~~~ 190 (458)
.++++++....+ ......+.+++.++++|+.. ...........+-.+.+.++.+. .+++|++. +...+
T Consensus 178 ~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~------~~~~~~~~~~~~~~~~~~~ll~~~~~~~~Ai~~~-~D~~A 250 (327)
T TIGR02417 178 ADEFWYLGAQPELSVSRDRLAGFRQALKQATLEV------EWVYGGNYSRESGYQMFAKLCARLGRLPQALFTT-SYTLL 250 (327)
T ss_pred CCeEEEEeCcccchhHHHHHHHHHHHHHHcCCCh------HhEEeCCCChHHHHHHHHHHHhcCCCCCcEEEEc-CcHHH
Confidence 999999975432 35567888999999887321 11111111222334455565443 35666654 45567
Q ss_pred HHHHHHHHhcCCcccceEEEe
Q psy17441 191 EIIFKDAQYLNMTETGYVWIV 211 (458)
Q Consensus 191 ~~il~~a~~~g~~~~~~~wi~ 211 (458)
..+++++++.| .-++.+-|+
T Consensus 251 ~g~~~al~~~g-~vP~dvsvi 270 (327)
T TIGR02417 251 EGVLDYMLERP-LLDSQLHLA 270 (327)
T ss_pred HHHHHHHHHcC-CCCCcceEE
Confidence 88999999999 655444433
No 140
>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=96.22 E-value=0.6 Score=43.99 Aligned_cols=174 Identities=10% Similarity=-0.011 Sum_probs=98.1
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+++.+.. ...++. ......+.++.+++.+||=. +..+. .......-+...+||+|......+ ... .+.+
T Consensus 28 ~G~~~~~~~--~~~d~~-~~~~~i~~~~~~~vdgiii~-~~~~~-~~~~~i~~~~~~~iPvV~~~~~~~---~~~-~~~~ 98 (272)
T cd06313 28 LGVDVTWYG--GALDAV-KQVAAIENMASQGWDFIAVD-PLGIG-TLTEAVQKAIARGIPVIDMGTLIA---PLQ-INVH 98 (272)
T ss_pred cCCEEEEec--CCCCHH-HHHHHHHHHHHcCCCEEEEc-CCChH-HhHHHHHHHHHCCCcEEEeCCCCC---CCC-CceE
Confidence 355555543 233443 33444666778888888851 22221 222333445567999999866432 111 1222
Q ss_pred eecCCCchhHHHHHHHHHHhc--CCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHF--NYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQ 169 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~--~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~ 169 (458)
..+.+.+..-+..+++.+... |.++++++..+.. ......+.+++.+++.+ +..+.....-..+.....+.
T Consensus 99 ~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~ 173 (272)
T cd06313 99 SFLAPDNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYP-----DIEVVDEQPANWDVSKAARI 173 (272)
T ss_pred EEECCCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCC-----CCEEEeccCCCCCHHHHHHH
Confidence 334566676778888877666 8899999975432 34456788899998764 12221111111122233455
Q ss_pred HHHHHhcc--CeEEEEEeChhhHHHHHHHHHhcCC
Q psy17441 170 LYEMKNAQ--ARVYLMYASKQDAEIIFKDAQYLNM 202 (458)
Q Consensus 170 l~~ik~~~--~~viil~~~~~~~~~il~~a~~~g~ 202 (458)
++++.+.. +++|++ .+...+..+++.+++.|+
T Consensus 174 ~~~~l~~~~~~~ai~~-~nd~~a~g~~~al~~~g~ 207 (272)
T cd06313 174 WETWLTKYPQLDGAFC-HNDSMALAAYQIMKAAGR 207 (272)
T ss_pred HHHHHHhCCCCCEEEE-CCCcHHHHHHHHHHHcCC
Confidence 55554433 455444 555677788999999998
No 141
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=96.16 E-value=0.48 Score=46.28 Aligned_cols=157 Identities=12% Similarity=0.053 Sum_probs=93.0
Q ss_pred HHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHh
Q psy17441 34 LSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKH 113 (458)
Q Consensus 34 ~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~ 113 (458)
....+.+...++.+||-. +... ........+...++|+|......+ ...+++ +...+...+..++++|..
T Consensus 110 ~~~~~~l~~~~vdgiIi~-~~~~--~~~~~~~~l~~~~iPvV~~~~~~~----~~~~~~---V~~D~~~~~~~a~~~L~~ 179 (342)
T PRK10014 110 AQRFSTLLNQGVDGVVIA-GAAG--SSDDLREMAEEKGIPVVFASRASY----LDDVDT---VRPDNMQAAQLLTEHLIR 179 (342)
T ss_pred HHHHHHHHhCCCCEEEEe-CCCC--CcHHHHHHHhhcCCCEEEEecCCC----CCCCCE---EEeCCHHHHHHHHHHHHH
Confidence 444556667888888852 2211 223444556778999998754211 111232 344555666777888888
Q ss_pred cCCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc--cCeEEEEEeChhh
Q psy17441 114 FNYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA--QARVYLMYASKQD 189 (458)
Q Consensus 114 ~~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~--~~~viil~~~~~~ 189 (458)
.|.++++++..... ......+.+.+.+++.|+.+.. ......+.........++++.+. .+++|++ .+...
T Consensus 180 ~G~~~I~~i~g~~~~~~~~~R~~Gf~~al~~~g~~~~~----~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~ 254 (342)
T PRK10014 180 NGHQRIAWLGGQSSSLTRAERVGGYCATLLKFGLPFHS----EWVLECTSSQKQAAEAITALLRHNPTISAVVC-YNETI 254 (342)
T ss_pred CCCCEEEEEcCCcccccHHHHHHHHHHHHHHcCCCCCc----ceEecCCCChHHHHHHHHHHHcCCCCCCEEEE-CCcHH
Confidence 89999999964432 3445778899999988854311 11111111222233445555433 3455554 55567
Q ss_pred HHHHHHHHHhcCCccc
Q psy17441 190 AEIIFKDAQYLNMTET 205 (458)
Q Consensus 190 ~~~il~~a~~~g~~~~ 205 (458)
+..+++.+.+.|+.-+
T Consensus 255 A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 255 AMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHHHHHHHHHcCCCCC
Confidence 7888999999998654
No 142
>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=96.15 E-value=0.99 Score=42.12 Aligned_cols=181 Identities=12% Similarity=0.054 Sum_probs=99.8
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+. ..+.++ .......+.+...++.+||=. +... .......+....++|+|..+...+ + ..+++
T Consensus 29 g~~~~~~--~~~~~~-~~~~~~i~~l~~~~vdgiii~-~~~~--~~~~~~~l~~~~~ipvV~i~~~~~---~-~~~~~-- 96 (269)
T cd06275 29 GYNLILC--NTEGDP-ERQRSYLRMLAQKRVDGLLVM-CSEY--DQPLLAMLERYRHIPMVVMDWGPE---D-DFADK-- 96 (269)
T ss_pred CCEEEEE--eCCCCh-HHHHHHHHHHHHcCCCEEEEe-cCCC--ChHHHHHHHhcCCCCEEEEecccC---C-CCCCe--
Confidence 5555443 233333 233344555667788777751 2221 222223344456999998865322 1 11233
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYE 172 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ 172 (458)
+...+...+..+++.+...|-++++++.... .......+.+.+.+++.|+.+.. ........+.....+.+++
T Consensus 97 -V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~ 171 (269)
T cd06275 97 -IQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMAEAGLPVNP----GWIVEGDFECEGGYEAMQR 171 (269)
T ss_pred -EeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHHHcCCCCCH----HHhccCCCChHHHHHHHHH
Confidence 2344455566777888888999999997433 23456678889999887743310 0011111122233455556
Q ss_pred HHhcc--CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 173 MKNAQ--ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 173 ik~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
+.+.. +++|++ ++...+..+++.+++.|..-++.+-+++-
T Consensus 172 ~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~vp~di~vvg~ 213 (269)
T cd06275 172 LLAQPKRPTAVFC-GNDLMAMGALCAAQEAGLRVPQDLSIIGY 213 (269)
T ss_pred HHcCCCCCcEEEE-CChHHHHHHHHHHHHcCCCCCcceEEEEe
Confidence 54433 455444 45566778889999999865545554443
No 143
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=96.14 E-value=1.1 Score=41.80 Aligned_cols=174 Identities=13% Similarity=0.093 Sum_probs=97.7
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+++.+...+ .++.+ .....+.+...++.++|-. +... . .. -+...++|+|......+ ..+++
T Consensus 28 ~g~~~~~~~~~--~~~~~-~~~~i~~~~~~~~dgiii~-~~~~--~---~~-~~~~~gipvv~~~~~~~-----~~~~~- 91 (265)
T cd06291 28 KGYKLILCNSD--NDPEK-EREYLEMLRQNQVDGIIAG-THNL--G---IE-EYENIDLPIVSFDRYLS-----ENIPI- 91 (265)
T ss_pred CCCeEEEecCC--ccHHH-HHHHHHHHHHcCCCEEEEe-cCCc--C---HH-HHhcCCCCEEEEeCCCC-----CCCCe-
Confidence 35666554322 23322 2344455667788888851 2222 2 12 33567999999876532 12233
Q ss_pred eecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc---chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT---DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQL 170 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~---~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l 170 (458)
+.+.....+..+++.+...|.++++++....+ ......+.+.+.++++|+.+.. + ......+..+..+.+
T Consensus 92 --V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~---~--~~~~~~~~~~~~~~~ 164 (265)
T cd06291 92 --VSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDVLKENGLEVRI---I--EIQENFDDAEKKEEI 164 (265)
T ss_pred --EeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHHHHHcCCCCCh---h--eeeccccchHHHHHH
Confidence 23444555677778887789999999964432 3556778899999888754311 1 111111111223445
Q ss_pred HHHHhcc--CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEe
Q psy17441 171 YEMKNAQ--ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIV 211 (458)
Q Consensus 171 ~~ik~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~ 211 (458)
+++.+.. +++|++ ++...+..+++..++.|+.-++.+-++
T Consensus 165 ~~~l~~~~~~~ai~~-~~d~~a~~~~~al~~~g~~vp~di~v~ 206 (265)
T cd06291 165 KELLEEYPDIDGIFA-SNDLTAILVLKEAQQRGIRVPEDLQII 206 (265)
T ss_pred HHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcceEEe
Confidence 5544333 455444 345567788999999998644444343
No 144
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=96.13 E-value=0.79 Score=42.68 Aligned_cols=199 Identities=13% Similarity=0.029 Sum_probs=107.5
Q ss_pred HHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHh
Q psy17441 34 LSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKH 113 (458)
Q Consensus 34 ~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~ 113 (458)
....+.+.+.++.+||- ..... ... ...-+...++|+|..+...+ . ..++++ ...+..-...+++.+..
T Consensus 45 ~~~~~~l~~~~vdgiIi--~~~~~-~~~-~~~~l~~~~ipvV~~~~~~~---~-~~~~~v---~~d~~~~~~~~~~~l~~ 113 (265)
T cd06299 45 NRYLDNLLSQRVDGIIV--VPHEQ-SAE-QLEDLLKRGIPVVFVDREIT---G-SPIPFV---TSDPQPGMTEAVSLLVA 113 (265)
T ss_pred HHHHHHHHhcCCCEEEE--cCCCC-ChH-HHHHHHhCCCCEEEEecccC---C-CCCCEE---EECcHHHHHHHHHHHHH
Confidence 34455676788988886 22221 222 34455668999998876432 1 122433 22333344456677777
Q ss_pred cCCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHH
Q psy17441 114 FNYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAE 191 (458)
Q Consensus 114 ~~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~ 191 (458)
.|-++++++.... .......+.+.+.+++.|+.+. . .....-.....+....++++-+..+++|++ ++...+.
T Consensus 114 ~g~~~I~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~--~--~~~~~~~~~~~~~~~~~~~~l~~~~~av~~-~~d~~a~ 188 (265)
T cd06299 114 LGHKKIGYISGPQDTSTGRERLEAFRQACASLGLEVN--E--DLVVLGGYSQESGYAGATKLLDQGATAIIA-GDSMMTI 188 (265)
T ss_pred cCCCcEEEEeCCCCcccHHHHHHHHHHHHHHCCCCCC--h--HhEEecCcchHHHHHHHHHHHcCCCCEEEE-cCcHHHH
Confidence 7999999996443 2355667889999988774321 1 111111111223344555554444776555 4455677
Q ss_pred HHHHHHHhcCCcccceEEEeeccccccCCCCCeeEEEEecCCCchhHHHHHHHHHHHHHH
Q psy17441 192 IIFKDAQYLNMTETGYVWIVTEQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVLTSAL 251 (458)
Q Consensus 192 ~il~~a~~~g~~~~~~~wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~la~Al 251 (458)
.+++.+++.|+.-++.+-+++-.......+..+.+.... . .....++-|+.++...+
T Consensus 189 gv~~al~~~g~~vp~dv~v~g~d~~~~~~~~~~~~ttv~-~--~~~~~g~~a~~~l~~~l 245 (265)
T cd06299 189 GAIRAIHDAGLVIGEDISLIGFDDLPVFRLQTPPLTVID-Q--QVEQMGKRAVDMLLSLI 245 (265)
T ss_pred HHHHHHHHhCCCCCcceeEEEeCCHHHHhccCCCceEEe-C--CHHHHHHHHHHHHHHHh
Confidence 889999999987544454444332211112222222111 1 23445666666665554
No 145
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=96.10 E-value=0.43 Score=45.37 Aligned_cols=158 Identities=13% Similarity=0.104 Sum_probs=97.4
Q ss_pred HHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCC---CCCCccccceeecCCCchhHHHH
Q psy17441 30 ILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSA---FSDKNIHVSFLRTVPPYSHQADV 106 (458)
Q Consensus 30 ~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~---ls~~~~~p~~~r~~p~~~~~~~a 106 (458)
...++..++++..++...|++ -.+. . +-+-+..-.++|+|-.+.+++. |.+.-.-|----+.-+|..-...
T Consensus 74 ~~~a~~iarql~~~~~dviv~--i~tp--~--Aq~~~s~~~~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q 147 (322)
T COG2984 74 LGTAAQIARQLVGDKPDVIVA--IATP--A--AQALVSATKTIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQ 147 (322)
T ss_pred hHHHHHHHHHhhcCCCcEEEe--cCCH--H--HHHHHHhcCCCCEEEEccCchhhccCCccccCCCCceeecCCcchHHH
Confidence 355677788888777677775 3222 2 2223334445999987777653 22210011112223455554455
Q ss_pred HHHHHHh--cCCeEEEEEEecCc-chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEE
Q psy17441 107 WVELLKH--FNYMKVIFIHSSDT-DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLM 183 (458)
Q Consensus 107 i~~ll~~--~~w~~v~ii~~~d~-~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil 183 (458)
-+++++. -+-++++++|.-++ ......+.+++.+++.|++| .. ... .+..|....++.+. .++|+|+.
T Consensus 148 ~i~lik~~~Pnak~Igv~Y~p~E~ns~~l~eelk~~A~~~Gl~v------ve-~~v-~~~ndi~~a~~~l~-g~~d~i~~ 218 (322)
T COG2984 148 QIELIKALLPNAKSIGVLYNPGEANSVSLVEELKKEARKAGLEV------VE-AAV-TSVNDIPRAVQALL-GKVDVIYI 218 (322)
T ss_pred HHHHHHHhCCCCeeEEEEeCCCCcccHHHHHHHHHHHHHCCCEE------EE-Eec-CcccccHHHHHHhc-CCCcEEEE
Confidence 5666655 47899999997764 77788999999999999544 11 111 24556666666666 57899998
Q ss_pred EeChh---hHHHHHHHHHhcCC
Q psy17441 184 YASKQ---DAEIIFKDAQYLNM 202 (458)
Q Consensus 184 ~~~~~---~~~~il~~a~~~g~ 202 (458)
-++.. ....+++.|.+.+.
T Consensus 219 p~dn~i~s~~~~l~~~a~~~ki 240 (322)
T COG2984 219 PTDNLIVSAIESLLQVANKAKI 240 (322)
T ss_pred ecchHHHHHHHHHHHHHHHhCC
Confidence 87764 34566777777664
No 146
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=96.07 E-value=0.58 Score=43.76 Aligned_cols=178 Identities=14% Similarity=0.040 Sum_probs=102.6
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+.... .++ +......+.+.+.++.+||- ..+.. . ...-..+...++|+|......+.. .+++
T Consensus 29 g~~~~~~~~~--~~~-~~~~~~i~~~~~~~vdgii~--~~~~~-~-~~~~~~~~~~~ipvV~~~~~~~~~----~~~~-- 95 (268)
T cd06270 29 GKHLIITAGH--HSA-EKEREAIEFLLERRCDALIL--HSKAL-S-DDELIELAAQVPPLVLINRHIPGL----ADRC-- 95 (268)
T ss_pred CCEEEEEeCC--Cch-HHHHHHHHHHHHcCCCEEEE--ecCCC-C-HHHHHHHhhCCCCEEEEeccCCCC----CCCe--
Confidence 5555554332 222 22334455566788988886 22221 2 222344567899999887643211 1222
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYE 172 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ 172 (458)
+...+..-+..+++.+...|-++++++..... ......+.+++.+++.|+.+. . .....-..+..+..+.+++
T Consensus 96 -v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~--~--~~~~~~~~~~~~~~~~~~~ 170 (268)
T cd06270 96 -IWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALAEAGIALD--E--SLIIEGDFTEEGGYAAMQE 170 (268)
T ss_pred -EEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHHHcCCCCC--c--ceEEECCCCHHHHHHHHHH
Confidence 34566667778888888889999999975432 344667888999988774321 1 1111112223344556666
Q ss_pred HHhcc--CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEe
Q psy17441 173 MKNAQ--ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIV 211 (458)
Q Consensus 173 ik~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~ 211 (458)
+.+.. +++|++ +....+..+++.+++.|+.-++.+=+.
T Consensus 171 ~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ip~di~v~ 210 (268)
T cd06270 171 LLARGAPFTAVFC-ANDEMAAGAISALREHGISVPQDVSII 210 (268)
T ss_pred HHhCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceeEE
Confidence 55443 455554 444567788999999998654444333
No 147
>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=96.06 E-value=1.1 Score=41.70 Aligned_cols=180 Identities=12% Similarity=0.087 Sum_probs=102.1
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+.. .+.++ .......+.+...++.+||-. +... ....+ ..+...++|+|......+ ... .++
T Consensus 29 g~~~~~~~--~~~~~-~~~~~~~~~l~~~~~dgiii~-~~~~--~~~~l-~~~~~~~ipvV~~~~~~~---~~~-~~~-- 95 (267)
T cd06283 29 GYQVLVCN--SDNDP-EKEKEYLESLLAYQVDGLIVN-PTGN--NKELY-QRLAKNGKPVVLVDRKIP---ELG-VDT-- 95 (267)
T ss_pred CCEEEEEc--CCCCH-HHHHHHHHHHHHcCcCEEEEe-CCCC--ChHHH-HHHhcCCCCEEEEcCCCC---CCC-CCE--
Confidence 55554332 33333 223344566767888888852 2222 22233 445678999999876322 111 233
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc---chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT---DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLY 171 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~---~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~ 171 (458)
+...+..-+..+++.+...|-++++++..... ........+++.+++.|+... ... ......+..+..+.++
T Consensus 96 -v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~~~~ 170 (267)
T cd06283 96 -VTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEALAEHGIGVN--EEL--IEIDDEDADELDERLR 170 (267)
T ss_pred -EEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHHHHcCCCCC--cce--eEecccchHHHHHHHH
Confidence 23455566777788888889999999975432 123567888999988763221 111 1111112233455666
Q ss_pred HHHhcc--CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 172 EMKNAQ--ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 172 ~ik~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
++.++. +++|++. +...+..+++.+++.|+..++.+-+.+-
T Consensus 171 ~~l~~~~~~~ai~~~-~d~~a~g~~~~l~~~g~~vp~di~v~g~ 213 (267)
T cd06283 171 QLLNKPKKKTAIFAA-NGLILLEVLKALKELGIRIPEDVGLIGF 213 (267)
T ss_pred HHHcCCCCCCEEEEc-CcHHHHHHHHHHHHcCCCCccceEEEEe
Confidence 665443 4555554 4456678899999999865545544443
No 148
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=96.00 E-value=0.91 Score=42.60 Aligned_cols=170 Identities=13% Similarity=0.034 Sum_probs=95.9
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+.......+. +......+.+.+.++.+||-. +... ........+...++|+|......+ +.. ...
T Consensus 29 g~~~~~~~~~~~~~~-~~~~~~i~~~~~~~vdgiI~~-~~~~--~~~~~~~~~~~~giPvV~~~~~~~---~~~---~~~ 98 (268)
T cd06306 29 GVSLKLLEAGGYPNL-AKQIAQLEDCAAWGADAILLG-AVSP--DGLNEILQQVAASIPVIALVNDIN---SPD---ITA 98 (268)
T ss_pred CCEEEEecCCCCCCH-HHHHHHHHHHHHcCCCEEEEc-CCCh--hhHHHHHHHHHCCCCEEEeccCCC---Ccc---eeE
Confidence 555544422211222 334445666777889888851 2222 111123445678999998754211 111 112
Q ss_pred ecCCCchhHHHHHHHHHHhcCC-----eEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNY-----MKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFK 167 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w-----~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~ 167 (458)
.+...+...++.+++.+...+- ++++++....+ ......+.+++.+++.|+ .+.....-..+.+.-.
T Consensus 99 ~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~~g~~~~~~~~~~------~~~~~~~~~~~~~~~~ 172 (268)
T cd06306 99 KVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVKAVEKGFRDALAGSAI------EISAIKYGDTGKEVQR 172 (268)
T ss_pred EecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHHHHHHHHHHHHhhcCc------EEeeeccCCccHHHHH
Confidence 2345556666777888777676 89999975433 456678889999988773 2221111111222334
Q ss_pred HHHHHHHhc--cCeEEEEEeChhhHHHHHHHHHhcCC
Q psy17441 168 DQLYEMKNA--QARVYLMYASKQDAEIIFKDAQYLNM 202 (458)
Q Consensus 168 ~~l~~ik~~--~~~viil~~~~~~~~~il~~a~~~g~ 202 (458)
+.++++.+. ++++|++ ....+..+++.+++.|+
T Consensus 173 ~~~~~~l~~~~~~~~i~~--~d~~a~~~~~~l~~~g~ 207 (268)
T cd06306 173 KLVEEALEAHPDIDYIVG--SAVAAEAAVGILRQRGL 207 (268)
T ss_pred HHHHHHHHhCCCcCEEee--cchhhhHHHHHHHhcCC
Confidence 555555433 4566654 36677888999999997
No 149
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=95.86 E-value=0.5 Score=46.11 Aligned_cols=163 Identities=9% Similarity=0.028 Sum_probs=92.3
Q ss_pred HHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcc-cCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHh
Q psy17441 35 SVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGF-YHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKH 113 (458)
Q Consensus 35 ~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~-~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~ 113 (458)
...+.+...++.|||-. +... ....+ ..+.. .++|+|......+. .. +..+ ..+....-+...++.+..
T Consensus 106 ~~i~~l~~~~vdgiii~-~~~~--~~~~~-~~l~~~~~iPvV~~d~~~~~---~~-~~~~--v~~d~~~~g~~a~~~L~~ 175 (341)
T PRK10703 106 AYLSMLAQKRVDGLLVM-CSEY--PEPLL-AMLEEYRHIPMVVMDWGEAK---AD-FTDA--IIDNAFEGGYLAGRYLIE 175 (341)
T ss_pred HHHHHHHHcCCCEEEEe-cCCC--CHHHH-HHHHhcCCCCEEEEecccCC---cC-CCCe--EEECcHHHHHHHHHHHHH
Confidence 33455667788888752 2111 22233 34444 69999987653221 11 1111 233334456677777777
Q ss_pred cCCeEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc--cCeEEEEEeChhh
Q psy17441 114 FNYMKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA--QARVYLMYASKQD 189 (458)
Q Consensus 114 ~~w~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~--~~~viil~~~~~~ 189 (458)
.|-+++++|... +.......+.+.+.+++.|+.+.. . .....+....+....++++.+. .+++|++ ++...
T Consensus 176 ~G~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~gi~~~~--~--~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~ 250 (341)
T PRK10703 176 RGHRDIGVIPGPLERNTGAGRLAGFMKAMEEANIKVPE--E--WIVQGDFEPESGYEAMQQILSQKHRPTAVFC-GGDIM 250 (341)
T ss_pred CCCCcEEEEeCCccccchHHHHHHHHHHHHHcCCCCCh--H--HeEeCCCCHHHHHHHHHHHHhCCCCCCEEEE-CCcHH
Confidence 799999999643 234566788899999988854311 0 0111111222334455555433 3566664 45566
Q ss_pred HHHHHHHHHhcCCcccceEEEee
Q psy17441 190 AEIIFKDAQYLNMTETGYVWIVT 212 (458)
Q Consensus 190 ~~~il~~a~~~g~~~~~~~wi~t 212 (458)
+..+++++++.|..-++.+.+++
T Consensus 251 a~g~~~al~~~g~~ip~dv~vvg 273 (341)
T PRK10703 251 AMGAICAADEMGLRVPQDISVIG 273 (341)
T ss_pred HHHHHHHHHHcCCCCCCceEEEE
Confidence 77899999999986555554443
No 150
>PRK09492 treR trehalose repressor; Provisional
Probab=95.80 E-value=1 Score=43.33 Aligned_cols=145 Identities=8% Similarity=-0.077 Sum_probs=87.0
Q ss_pred HHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhc
Q psy17441 35 SVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHF 114 (458)
Q Consensus 35 ~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~ 114 (458)
...+.+.+.+|.++|- ...+. .. .......++|++...... ..++ .+...+..-+..+++.+...
T Consensus 109 ~~~~~l~~~~vdgiIi--~~~~~-~~---~~~l~~~~~pvv~i~~~~------~~~~---~V~~D~~~~~~~a~~~L~~~ 173 (315)
T PRK09492 109 EHLGVLKRRNVDGVIL--FGFTG-IT---EEMLAPWQDKLVLLARDA------KGFS---SVCYDDEGAIKLLMQRLYDQ 173 (315)
T ss_pred HHHHHHHhcCCCEEEE--eCCCc-cc---HHHHHhcCCCEEEEeccC------CCCc---EEEECcHHHHHHHHHHHHHc
Confidence 4455566778998886 22221 11 122334567877665321 1122 23345555566677888788
Q ss_pred CCeEEEEEEec-C--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHH
Q psy17441 115 NYMKVIFIHSS-D--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAE 191 (458)
Q Consensus 115 ~w~~v~ii~~~-d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~ 191 (458)
|-++++++... . ..+....+.+++.+++.|+.+ .. ...+.+..+-...++++.+.++++|++.. ...+.
T Consensus 174 G~~~I~~i~~~~~~~~~~~~R~~Gf~~al~~~g~~~------~~-~~~~~~~~~~~~~~~~~l~~~~~ai~~~~-D~~A~ 245 (315)
T PRK09492 174 GHRHISYLGVDHSDVTTGKRRHQAYLAFCKQHKLTP------VA-ALGGLSMQSGYELVAKVLTPETTALVCAT-DTLAL 245 (315)
T ss_pred CCCeEEEEcCCcccchhHHHHHHHHHHHHHHcCCCc------ee-ecCCCCchHHHHHHHHHhhcCCCEEEEcC-cHHHH
Confidence 99999999632 2 245677899999999988532 11 11111222233445555555678777554 56778
Q ss_pred HHHHHHHhcCC
Q psy17441 192 IIFKDAQYLNM 202 (458)
Q Consensus 192 ~il~~a~~~g~ 202 (458)
.+++++++.|+
T Consensus 246 g~~~al~~~g~ 256 (315)
T PRK09492 246 GASKYLQEQGR 256 (315)
T ss_pred HHHHHHHHcCC
Confidence 89999999998
No 151
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=95.78 E-value=0.78 Score=42.75 Aligned_cols=215 Identities=15% Similarity=0.078 Sum_probs=116.1
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+++.+.. ...++ .......+.+...++.|+|- ..+.. ....+. .+...++|+|......+ + ..+++
T Consensus 28 ~g~~~~~~~--~~~~~-~~~~~~i~~l~~~~vdgiii--~~~~~-~~~~~~-~~~~~~ipvV~~~~~~~---~-~~~~~- 95 (264)
T cd06274 28 RGYQLLIAC--SDDDP-ETERETVETLIARQVDALIV--AGSLP-PDDPYY-LCQKAGLPVVALDRPGD---P-SRFPS- 95 (264)
T ss_pred CCCEEEEEe--CCCCH-HHHHHHHHHHHHcCCCEEEE--cCCCC-chHHHH-HHHhcCCCEEEecCccC---C-CCCCE-
Confidence 355554443 22333 22334556676788988885 22221 222233 45668899998866432 1 11233
Q ss_pred eecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLY 171 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~ 171 (458)
+...+..-+..+++.+..-|-++++++..... ......+.+++.++++|+.+ ..........+...-...++
T Consensus 96 --V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~ 169 (264)
T cd06274 96 --VVSDNRDGAAELTRELLAAPPEEVLFLGGLPELSPSRERLAGFRQALADAGLPV----QPDWIYAEGYSPESGYQLMA 169 (264)
T ss_pred --EEEccHHHHHHHHHHHHHCCCCcEEEEeCCCcccchHHHHHHHHHHHHHcCCCC----CcceeecCCCChHHHHHHHH
Confidence 23344444567778777789999999975532 35567888999999877322 11111111112223334455
Q ss_pred HHHhc---cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccc-cCCCCCeeEEEEecCCCchhHHHHHHHHHH
Q psy17441 172 EMKNA---QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALT-AKNVPVGIIGLKLVNATNEDAHIRDSIYVL 247 (458)
Q Consensus 172 ~ik~~---~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~-~~~~~~g~~g~~~~~~~~~~~~~yDAv~~l 247 (458)
++.+. .+++|++. +...+..+++++++.|+..++.+-|++-.... ...+..+...+.. .....++.|+.++
T Consensus 170 ~~l~~~~~~~~ai~~~-~d~~A~g~~~al~~~g~~ip~dv~v~g~d~~~~~~~~~~~ltti~~----~~~~~g~~a~~~l 244 (264)
T cd06274 170 ELLARLGRLPRALFTT-SYTLLEGVLRFLRERPGLAPSDLRIATFDDHPLLDFLPFPVHSVPQ----DHEALAEAAFELA 244 (264)
T ss_pred HHHccCCCCCcEEEEc-ChHHHHHHHHHHHHcCCCCCcceEEEEeCCHHHHHhcCCCceEEeC----CHHHHHHHHHHHH
Confidence 54433 35666654 55667889999999998755555554433221 1112223332221 2345677777766
Q ss_pred HHHH
Q psy17441 248 TSAL 251 (458)
Q Consensus 248 a~Al 251 (458)
...+
T Consensus 245 ~~~~ 248 (264)
T cd06274 245 LAAL 248 (264)
T ss_pred HHHh
Confidence 5544
No 152
>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=95.76 E-value=1.7 Score=41.32 Aligned_cols=186 Identities=14% Similarity=0.039 Sum_probs=98.2
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+++.+.. ....++.. .....+.+...++.+||=. +.... ........+...++|+|......+...... +++
T Consensus 28 ~g~~~~~~~-~~~~~~~~-~~~~l~~~~~~~~dgiii~-~~~~~-~~~~~i~~~~~~~iPvV~~~~~~~~~~~~~--~~~ 101 (294)
T cd06316 28 LGIEVVATT-DAQFDPAK-QVADIETTISQKPDIIISI-PVDPV-STAAAYKKVAEAGIKLVFMDNVPSGLEHGK--DYA 101 (294)
T ss_pred cCCEEEEec-CCCCCHHH-HHHHHHHHHHhCCCEEEEc-CCCch-hhhHHHHHHHHcCCcEEEecCCCcccccCc--ceE
Confidence 355554332 23334422 2333444557778777641 32211 123334556678999998876433222111 122
Q ss_pred eecCCCchhHHHHHHHHHHhc--CCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHF--NYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQ 169 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~--~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~ 169 (458)
.-+...+..-+..+++.+... +-++++++..+.+ ......+.+.+.+++++.. ..+....... +.......
T Consensus 102 ~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~l~~~~~~----~~~~~~~~~~-~~~~~~~~ 176 (294)
T cd06316 102 GIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKETIKKNYPD----ITIVAEKGID-GPSKAEDI 176 (294)
T ss_pred EEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHHHHHHhCCC----cEEEeecCCc-chhHHHHH
Confidence 224455555567777877665 7899999975433 3456678888888765421 1111111111 11222344
Q ss_pred HHHHHhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 170 LYEMKNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 170 l~~ik~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
++++.+. .+++|++ .+...+..+++.+++.|+. +-..+.-+
T Consensus 177 ~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~--di~vvg~d 219 (294)
T cd06316 177 ANAMLTQNPDLKGIYA-VWDVPAEGVIAALRAAGRD--DIKVTTVD 219 (294)
T ss_pred HHHHHHhCCCeeEEEe-CCCchhHHHHHHHHHcCCC--CceEEEeC
Confidence 4554333 3455554 4456788999999999972 34444444
No 153
>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=95.69 E-value=1.8 Score=40.30 Aligned_cols=164 Identities=8% Similarity=0.034 Sum_probs=94.9
Q ss_pred HHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHH
Q psy17441 33 ALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLK 112 (458)
Q Consensus 33 ~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~ 112 (458)
.....+.+...++.++|=. +... ... ....+...++|+|......+ .+++ +...+..-+...++.+.
T Consensus 44 ~~~~i~~l~~~~~dgiii~-~~~~--~~~-~~~~~~~~~iPvv~~~~~~~------~~~~---V~~d~~~ag~~a~~~L~ 110 (265)
T cd06285 44 QRRAIEMLLDRRVDGLILG-DARS--DDH-FLDELTRRGVPFVLVLRHAG------TSPA---VTGDDVLGGRLATRHLL 110 (265)
T ss_pred HHHHHHHHHHcCCCEEEEe-cCCC--ChH-HHHHHHHcCCCEEEEccCCC------CCCE---EEeCcHHHHHHHHHHHH
Confidence 3344555667888877741 3222 223 33445668999998865321 1233 23455555667778887
Q ss_pred hcCCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc--cCeEEEEEeChh
Q psy17441 113 HFNYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA--QARVYLMYASKQ 188 (458)
Q Consensus 113 ~~~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~--~~~viil~~~~~ 188 (458)
..|-++++++..+.. .+....+.+.+.+++.|+.+. .. .......+.......++++.+. .+++|++ .+..
T Consensus 111 ~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~~~~~~--~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~ 185 (265)
T cd06285 111 DLGHRRIAVLAGPDYASTARDRLAGFRAALAEAGIEVP--PE--RIVYSGFDIEGGEAAAEKLLRSDSPPTAIFA-VNDF 185 (265)
T ss_pred HCCCccEEEEeCCcccccHHHHHHHHHHHHHHcCCCCC--hh--hEEeCCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcH
Confidence 789999999975432 456778889999998774321 00 0111111222233455555433 3455444 4556
Q ss_pred hHHHHHHHHHhcCCcccc-eEEEeecc
Q psy17441 189 DAEIIFKDAQYLNMTETG-YVWIVTEQ 214 (458)
Q Consensus 189 ~~~~il~~a~~~g~~~~~-~~wi~t~~ 214 (458)
.+..+++.+++.|+.-++ ...+.-+.
T Consensus 186 ~a~g~~~~l~~~g~~~p~di~iig~d~ 212 (265)
T cd06285 186 AAIGVMGAARDRGLRVPDDVALVGYND 212 (265)
T ss_pred HHHHHHHHHHHcCCCCCcceEEEeecC
Confidence 678899999999986433 34454443
No 154
>PRK09701 D-allose transporter subunit; Provisional
Probab=95.63 E-value=2.3 Score=41.01 Aligned_cols=224 Identities=10% Similarity=0.019 Sum_probs=114.8
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCC--CCCCccccc
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSA--FSDKNIHVS 92 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~--ls~~~~~p~ 92 (458)
|+++.+..++...+. .......+.+..+++.+||-. +..+. .......-+...+||+|..+...+. +...+ ...
T Consensus 54 g~~v~~~~~~~~~~~-~~~~~~i~~l~~~~vDgiIi~-~~~~~-~~~~~l~~~~~~giPvV~~~~~~~~~~~~~~~-~~~ 129 (311)
T PRK09701 54 GVSVDIFASPSEGDF-QSQLQLFEDLSNKNYKGIAFA-PLSSV-NLVMPVARAWKKGIYLVNLDEKIDMDNLKKAG-GNV 129 (311)
T ss_pred CCeEEEecCCCCCCH-HHHHHHHHHHHHcCCCEEEEe-CCChH-HHHHHHHHHHHCCCcEEEeCCCCCcccccccC-Cce
Confidence 555555432222333 233444555667788888752 22221 1112223345689999998754321 11111 011
Q ss_pred eeecCCCchhHHHHHHHHHHh-cCC--eEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHH
Q psy17441 93 FLRTVPPYSHQADVWVELLKH-FNY--MKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFK 167 (458)
Q Consensus 93 ~~r~~p~~~~~~~ai~~ll~~-~~w--~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~ 167 (458)
..-+...+...+...++.+.. .|- ++++++.... .......+.+++.++++| +..+........+..+-.
T Consensus 130 ~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~Gf~~al~~~~-----~~~~~~~~~~~~~~~~~~ 204 (311)
T PRK09701 130 EAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRNGATEAFKKAS-----QIKLVASQPADWDRIKAL 204 (311)
T ss_pred EEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHHHHHHHHHhCC-----CcEEEEecCCCCCHHHHH
Confidence 222455666677777776644 564 7999885433 235567788999998765 122211111111222234
Q ss_pred HHHHHHHhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCC-CCCeeE-EEEecCCCchhHHHHHH
Q psy17441 168 DQLYEMKNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKN-VPVGII-GLKLVNATNEDAHIRDS 243 (458)
Q Consensus 168 ~~l~~ik~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~-~~~g~~-g~~~~~~~~~~~~~yDA 243 (458)
..++++.+. .+++|+ +.+...+..+++++++.|.. ++-..+.-|....... +..|.+ ..... .....++.|
T Consensus 205 ~~~~~ll~~~~~~~~I~-~~~d~~A~g~~~al~~~G~~-~dv~vvg~d~~~~~~~~~~~~~i~ttv~~---~~~~~G~~a 279 (311)
T PRK09701 205 DVATNVLQRNPNIKAIY-CANDTMAMGVAQAVANAGKT-GKVLVVGTDGIPEARKMVEAGQMTATVAQ---NPADIGATG 279 (311)
T ss_pred HHHHHHHHhCCCCCEEE-ECCcchHHHHHHHHHHcCCC-CCEEEEEeCCCHHHHHHHHcCCceEEEec---CHHHHHHHH
Confidence 455555433 345444 45556778899999999985 2333444443322222 123332 22222 234567777
Q ss_pred HHHHHHHHH
Q psy17441 244 IYVLTSALK 252 (458)
Q Consensus 244 v~~la~Al~ 252 (458)
+.++.+.++
T Consensus 280 ~~~l~~~i~ 288 (311)
T PRK09701 280 LKLMVDAEK 288 (311)
T ss_pred HHHHHHHHh
Confidence 777766553
No 155
>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=95.57 E-value=0.37 Score=45.19 Aligned_cols=163 Identities=8% Similarity=0.047 Sum_probs=93.1
Q ss_pred HHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHH
Q psy17441 33 ALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLK 112 (458)
Q Consensus 33 ~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~ 112 (458)
.....+.+.+.+|.++|- -.+.. ....+...+...++|+|......+ ...++ +...+..-+..+++.+.
T Consensus 44 ~~~~i~~l~~~~vdgii~--~~~~~-~~~~~~~~~~~~~ipvV~i~~~~~-----~~~~~---V~~d~~~~g~~a~~~l~ 112 (269)
T cd06281 44 ELEILRSFEQRRMDGIII--APGDE-RDPELVDALASLDLPIVLLDRDMG-----GGADA---VLFDHAAGMRQAVEYLI 112 (269)
T ss_pred HHHHHHHHHHcCCCEEEE--ecCCC-CcHHHHHHHHhCCCCEEEEecccC-----CCCCE---EEECcHHHHHHHHHHHH
Confidence 334455566778988886 22221 223455566678999999876432 11232 22333333455667776
Q ss_pred hcCCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCC-cccHHHHHHHHHh--ccCeEEEEEeCh
Q psy17441 113 HFNYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPG-LTTFKDQLYEMKN--AQARVYLMYASK 187 (458)
Q Consensus 113 ~~~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~-~~d~~~~l~~ik~--~~~~viil~~~~ 187 (458)
..|-++++++.... ..+....+.+.+.++++|+.+.. .+ . ...+ ...-.+.+.++.+ ..+++|++ .+.
T Consensus 113 ~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~--~~---~-~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d 185 (269)
T cd06281 113 SLGHRRIALVGGGSNTRPGRERLEGYKAAFAAAGLPPDP--AL---V-RLSTPAASGFDATRALLALPDRPTAIIA-GGT 185 (269)
T ss_pred HCCCcEEEEecCccccccHHHHHHHHHHHHHHcCCCCCH--HH---e-ecCcHHHHHHHHHHHHHcCCCCCcEEEE-cCc
Confidence 67999999996543 23456678899999888743200 00 0 1111 1222344445433 33677664 355
Q ss_pred hhHHHHHHHHHhcCCcccceE-EEeec
Q psy17441 188 QDAEIIFKDAQYLNMTETGYV-WIVTE 213 (458)
Q Consensus 188 ~~~~~il~~a~~~g~~~~~~~-wi~t~ 213 (458)
..+..+++++.+.|+.-++.+ .+.-|
T Consensus 186 ~~a~g~~~~l~~~g~~ip~dv~iig~d 212 (269)
T cd06281 186 QVLVGVLRALREAGLRIPRDLSVISIG 212 (269)
T ss_pred HHHHHHHHHHHHcCCCCCcceeEEEec
Confidence 566788999999998754444 44443
No 156
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=95.49 E-value=1.5 Score=43.01 Aligned_cols=216 Identities=13% Similarity=0.046 Sum_probs=112.4
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+....+..+..+ .....+.++..++.|||=. |.... ...... .+...++|+|....... + .. ...
T Consensus 76 G~~l~i~~~~~~~~~~~-q~~~i~~l~~~~vdgIIl~-~~~~~-~~~~~l-~~~~~giPvV~~~~~~~--~-~~---~~~ 145 (343)
T PRK10936 76 GVDLKVLEAGGYYNLAK-QQQQLEQCVAWGADAILLG-AVTPD-GLNPDL-ELQAANIPVIALVNGID--S-PQ---VTT 145 (343)
T ss_pred CCEEEEEcCCCCCCHHH-HHHHHHHHHHhCCCEEEEe-CCChH-HhHHHH-HHHHCCCCEEEecCCCC--C-cc---ceE
Confidence 55555543222223322 2344566767888888851 32221 111222 45678999998743221 1 11 112
Q ss_pred ecCCCchhHHHHHHHHHHhc-----CCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHH
Q psy17441 95 RTVPPYSHQADVWVELLKHF-----NYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFK 167 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~-----~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~ 167 (458)
.+...+...+...++.+... |-++++++..+. .......+.+++.+++.|+ .+.....-..+...-.
T Consensus 146 ~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~~R~~Gf~~~l~~~~i------~~~~~~~~~~~~~~~~ 219 (343)
T PRK10936 146 RVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSKAVEQGFRAAIAGSDV------RIVDIAYGDNDKELQR 219 (343)
T ss_pred EEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHHHHHHHHHHHHhcCCC------EEEEeecCCCcHHHHH
Confidence 23455566666777766544 578999997432 2344567889999987763 2222111111222233
Q ss_pred HHHHHHHhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccccc-C-CCCCeeEEEEecCCCchhHHHHHH
Q psy17441 168 DQLYEMKNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTA-K-NVPVGIIGLKLVNATNEDAHIRDS 243 (458)
Q Consensus 168 ~~l~~ik~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~-~-~~~~g~~g~~~~~~~~~~~~~yDA 243 (458)
..++++.+. ++++|+ +....+..+++.+++.|+. +.+.|++-..... . .+..|.+-..... ......|.|
T Consensus 220 ~~~~~~l~~~~~~~ai~--~~d~~A~ga~~al~~~g~~--~di~Vvg~~~~p~~~~~i~~G~i~~tv~q--~~~~~G~~a 293 (343)
T PRK10936 220 NLLQELLERHPDIDYIA--GSAVAAEAAIGELRGRNLT--DKIKLVSFYLSHQVYRGLKRGKVLAAPSD--QMVLQGRLA 293 (343)
T ss_pred HHHHHHHHhCCCccEEE--eCCHHHHHHHHHHHhcCCC--CCeEEEEeCCCHHHHHHHHcCCeEEEEec--CHHHHHHHH
Confidence 445554332 357665 4456677888999999984 3565554321111 0 1245544333222 233467777
Q ss_pred HHHHHHHHH
Q psy17441 244 IYVLTSALK 252 (458)
Q Consensus 244 v~~la~Al~ 252 (458)
+.++...++
T Consensus 294 i~~l~~~l~ 302 (343)
T PRK10936 294 IDQAVRQLE 302 (343)
T ss_pred HHHHHHHHc
Confidence 777766553
No 157
>KOG1545|consensus
Probab=95.35 E-value=0.004 Score=58.90 Aligned_cols=75 Identities=17% Similarity=0.381 Sum_probs=53.5
Q ss_pred HHHHHHHHHHHHHHHHhh-cCCCCCCCCCCCCCccccccccchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHHHH
Q psy17441 299 LVMVSVHVVALVLYLLDR-FSPFGRFRLSNSDNTEEDALNLSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMI 377 (458)
Q Consensus 299 ~i~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~~i 377 (458)
+++++++++|++++--.- +. ..+++++...++-++|||+..+|++.|++|+.|.+..|+|+...-.+++++
T Consensus 362 gLLIFFlfIgviLFsSavYFA--------Eade~~S~F~SIPdaFWwavVTMTTVGYGDm~P~TvgGKIVGslCAiaGVL 433 (507)
T KOG1545|consen 362 GLLIFFLFIGVILFSSAVYFA--------EADEPESHFSSIPDAFWWAVVTMTTVGYGDMVPVTVGGKIVGSLCAIAGVL 433 (507)
T ss_pred HHHHHHHHHHHHHHhceeeee--------ecCCCccCCCcCcccceEEEEEEEeeccccceecccCceehhhHHhhhhhe
Confidence 344555666666654331 11 234445556679999999999999999999999999999998877666665
Q ss_pred HHhh
Q psy17441 378 IVAS 381 (458)
Q Consensus 378 ~~~~ 381 (458)
.++.
T Consensus 434 TiAL 437 (507)
T KOG1545|consen 434 TIAL 437 (507)
T ss_pred Eecc
Confidence 4443
No 158
>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=95.32 E-value=1.4 Score=41.03 Aligned_cols=158 Identities=11% Similarity=-0.012 Sum_probs=92.0
Q ss_pred HHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCC
Q psy17441 37 CKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNY 116 (458)
Q Consensus 37 ~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w 116 (458)
.+.+...++.++|-. + +.. .. .....+...++|+|..+...+ ..+++ +...+...+..+++.+...|-
T Consensus 44 ~~~l~~~~vdgii~~-~-~~~-~~-~~~~~~~~~~ipvV~~~~~~~-----~~~~~---V~~d~~~~~~~~~~~l~~~g~ 111 (261)
T cd06272 44 EDLFKENRFDGVIIF-G-ESA-SD-VEYLYKIKLAIPVVSYGVDYD-----LKYPI---VNVDNEKAMELAVLYLAEKGH 111 (261)
T ss_pred HHHHHHcCcCEEEEe-C-CCC-Ch-HHHHHHHHcCCCEEEEcccCC-----CCCCE---EEEChHHHHHHHHHHHHHcCc
Confidence 344656788888752 2 221 22 223445578899998765322 11233 334556666778888888899
Q ss_pred eEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhcc--CeEEEEEeChhhHHH
Q psy17441 117 MKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQ--ARVYLMYASKQDAEI 192 (458)
Q Consensus 117 ~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~--~~viil~~~~~~~~~ 192 (458)
++++++..... ........+++.+++.|+.+. ... ......+.......+.++.+.. +++| ++++...+..
T Consensus 112 ~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~ 186 (261)
T cd06272 112 KKIAYIGDLSLDRRQRKRFKGFLETCDENGISIS--DSH--IDVDGLSAEGGDNAAKKLLKESDLPTAI-ICGSYDIALG 186 (261)
T ss_pred hhEEEeecccccccHHHHHHHHHHHHHHcCCCCC--HHH--eeeCCCCHHHHHHHHHHHHcCCCCCCEE-EECCcHHHHH
Confidence 99999975433 345567889999988774221 000 1111112223344555554433 4554 4455566788
Q ss_pred HHHHHHhcCCcccceEEEe
Q psy17441 193 IFKDAQYLNMTETGYVWIV 211 (458)
Q Consensus 193 il~~a~~~g~~~~~~~wi~ 211 (458)
+++.+++.|+.-++.+-++
T Consensus 187 ~~~~l~~~g~~vp~dv~vv 205 (261)
T cd06272 187 VLSALNKQGISIPEDIEII 205 (261)
T ss_pred HHHHHHHhCCCCCCceEEE
Confidence 9999999998655444443
No 159
>PRK10537 voltage-gated potassium channel; Provisional
Probab=95.16 E-value=0.046 Score=54.48 Aligned_cols=55 Identities=22% Similarity=0.262 Sum_probs=47.0
Q ss_pred ccccchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHHHHHHhhcccceeEE
Q psy17441 335 ALNLSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAF 389 (458)
Q Consensus 335 ~~~~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~~i~~~~yta~l~s~ 389 (458)
..++.+++||+..++++-|+++..|.+..||++++++.++++.+..+..+.++..
T Consensus 166 ~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p 220 (393)
T PRK10537 166 IESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGP 220 (393)
T ss_pred CCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3479999999999999999999999999999999999999987766655555443
No 160
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=95.15 E-value=1.3 Score=43.05 Aligned_cols=160 Identities=9% Similarity=-0.035 Sum_probs=92.9
Q ss_pred HHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcC
Q psy17441 36 VCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFN 115 (458)
Q Consensus 36 ~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~ 115 (458)
..+.+.+.++.++|- ..+.. . ......+...++|+|....... +.. .. .+...+..-+..+++.|...|
T Consensus 111 ~~~~~~~~~vdgiI~--~~~~~-~-~~~~~~l~~~~iPvV~~~~~~~---~~~--~~--~V~~Dn~~~~~~a~~~L~~~G 179 (331)
T PRK14987 111 RLESMLSWNIDGLIL--TERTH-T-PRTLKMIEVAGIPVVELMDSQS---PCL--DI--AVGFDNFEAARQMTTAIIARG 179 (331)
T ss_pred HHHHHHhcCCCEEEE--cCCCC-C-HHHHHHHHhCCCCEEEEecCCC---CCC--Cc--eEEeCcHHHHHHHHHHHHHCC
Confidence 345566778888885 22221 2 2333445678999997642111 111 11 234555556667778888889
Q ss_pred CeEEEEEEecC-cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc--cCeEEEEEeChhhHHH
Q psy17441 116 YMKVIFIHSSD-TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA--QARVYLMYASKQDAEI 192 (458)
Q Consensus 116 w~~v~ii~~~d-~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~--~~~viil~~~~~~~~~ 192 (458)
.++++++.... .........+++.++++|+.. ... .........+-...++++.+. .+++|++ ++...+..
T Consensus 180 h~~I~~i~~~~~~~~~~R~~Gf~~al~~~g~~~---~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nD~~A~g 253 (331)
T PRK14987 180 HRHIAYLGARLDERTIIKQKGYEQAMLDAGLVP---YSV--MVEQSSSYSSGIELIRQARREYPQLDGVFC-TNDDLAVG 253 (331)
T ss_pred CceEEEEcCCCcccHHHHHHHHHHHHHHcCCCc---cce--eecCCCChhhHHHHHHHHHhcCCCCCEEEE-CCcHHHHH
Confidence 99999996432 234456788999999887421 111 111111111223445555443 3566554 45567888
Q ss_pred HHHHHHhcCCcccceEEEee
Q psy17441 193 IFKDAQYLNMTETGYVWIVT 212 (458)
Q Consensus 193 il~~a~~~g~~~~~~~wi~t 212 (458)
+++++++.|+.-++.+-|++
T Consensus 254 ~~~al~~~g~~vP~disvig 273 (331)
T PRK14987 254 AAFECQRLGLKVPDDMAIAG 273 (331)
T ss_pred HHHHHHHcCCCCCCccEEEe
Confidence 89999999998766665544
No 161
>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=95.14 E-value=1.3 Score=41.26 Aligned_cols=180 Identities=14% Similarity=0.055 Sum_probs=99.6
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+++.+.. .+.++ +......+.+.+.++.++|-. + +.. ....+..+ . .++|+|..+...+. ...++
T Consensus 28 ~gy~~~~~~--~~~~~-~~~~~~i~~l~~~~~dgiii~-~-~~~-~~~~~~~~-~-~~iPvV~i~~~~~~----~~~~~- 94 (265)
T cd06290 28 SGYSPIIAT--GHWNQ-SRELEALELLKSRRVDALILL-G-GDL-PEEEILAL-A-EEIPVLAVGRRVPG----PGAAS- 94 (265)
T ss_pred CCCEEEEEe--CCCCH-HHHHHHHHHHHHCCCCEEEEe-C-CCC-ChHHHHHH-h-cCCCEEEECCCcCC----CCCCE-
Confidence 355554432 33343 334445566767889888851 2 221 22223333 2 48999988764221 11233
Q ss_pred eecCCCchhHHHHHHHHHHhcCCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHFNYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLY 171 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~ 171 (458)
+...+..-+..+++.+...|-++++++..+. .......+.+.+.+++.|+.+.. . .......+...-...++
T Consensus 95 --V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~--~--~~~~~~~~~~~~~~~~~ 168 (265)
T cd06290 95 --IAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALEEAGLEVQP--D--LIVQGDFEEESGLEAVE 168 (265)
T ss_pred --EEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHHHcCCCCCH--H--HEEecCCCHHHHHHHHH
Confidence 2345555667777777777999999997542 23456678888998887643210 0 01111111222334555
Q ss_pred HHHhcc--CeEEEEEeChhhHHHHHHHHHhcCCcccceE-EEeec
Q psy17441 172 EMKNAQ--ARVYLMYASKQDAEIIFKDAQYLNMTETGYV-WIVTE 213 (458)
Q Consensus 172 ~ik~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~-wi~t~ 213 (458)
++.+.+ +++|++ ++...+..+++.+++.|+.-++.+ .+.-+
T Consensus 169 ~~l~~~~~~~aii~-~~~~~a~~~~~~l~~~g~~ip~di~vi~~d 212 (265)
T cd06290 169 ELLQRGPDFTAIFA-ANDQTAYGARLALYRRGLRVPEDVSLIGFD 212 (265)
T ss_pred HHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEeeec
Confidence 554433 566554 456677888999999998654443 44444
No 162
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=95.04 E-value=2 Score=41.46 Aligned_cols=162 Identities=8% Similarity=0.012 Sum_probs=90.4
Q ss_pred HHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcc-cCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHh
Q psy17441 35 SVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGF-YHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKH 113 (458)
Q Consensus 35 ~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~-~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~ 113 (458)
...+.+.+.+|.++|=. +... . ......... .++|+|..+.... ...++ .+...+..-+..+++.+..
T Consensus 103 ~~~~~l~~~~vdGiI~~-~~~~--~-~~~~~~l~~~~~iPvV~i~~~~~----~~~~~---~v~~d~~~~~~~a~~~L~~ 171 (327)
T PRK10423 103 RNLETLMQKRVDGLLLL-CTET--H-QPSREIMQRYPSVPTVMMDWAPF----DGDSD---LIQDNSLLGGDLATQYLID 171 (327)
T ss_pred HHHHHHHHcCCCEEEEe-CCCc--c-hhhHHHHHhcCCCCEEEECCccC----CCCCC---EEEEChHHHHHHHHHHHHH
Confidence 34455667788887742 2211 1 112222333 4899998864211 11111 1223333446777788888
Q ss_pred cCCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc--cCeEEEEEeChhh
Q psy17441 114 FNYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA--QARVYLMYASKQD 189 (458)
Q Consensus 114 ~~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~--~~~viil~~~~~~ 189 (458)
.|-+++++|.... .......+.+.+.++++|+.+.. .. ......+...-...++++.+. .+++|++ ++...
T Consensus 172 ~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~~--~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~ 246 (327)
T PRK10423 172 KGYTRIACITGPLDKTPARLRLEGYRAAMKRAGLNIPD--GY--EVTGDFEFNGGFDAMQQLLALPLRPQAVFT-GNDAM 246 (327)
T ss_pred cCCCeEEEEeCCccccchHHHHHHHHHHHHHcCCCCCc--ce--EEeCCCChHHHHHHHHHHhcCCCCCCEEEE-cCcHH
Confidence 8999999996432 34566788999999988854311 11 111111112223445555433 3555554 45566
Q ss_pred HHHHHHHHHhcCCcccceEEEee
Q psy17441 190 AEIIFKDAQYLNMTETGYVWIVT 212 (458)
Q Consensus 190 ~~~il~~a~~~g~~~~~~~wi~t 212 (458)
+..+++.+++.|+.-++.+-+++
T Consensus 247 A~g~~~~l~~~g~~vP~dvsvig 269 (327)
T PRK10423 247 AVGVYQALYQAGLSVPQDIAVIG 269 (327)
T ss_pred HHHHHHHHHHcCCCCCCceEEEE
Confidence 78899999999987655554443
No 163
>cd06280 PBP1_LacI_like_4 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=94.97 E-value=0.99 Score=42.08 Aligned_cols=175 Identities=13% Similarity=0.085 Sum_probs=99.3
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+.. .+.++.. .....+.+.+.++.++|=. +.... .... -....++|+|......+ ...++++
T Consensus 29 g~~~~~~~--~~~~~~~-~~~~i~~l~~~~~dgiii~-~~~~~---~~~~-~~~~~~iPvV~~~~~~~----~~~~~~v- 95 (263)
T cd06280 29 GLRVILCN--TDEDPEK-EAMYLELMEEERVTGVIFA-PTRAT---LRRL-AELRLSFPVVLIDRAGP----AGRVDAV- 95 (263)
T ss_pred CCEEEEEe--CCCCHHH-HHHHHHHHHhCCCCEEEEe-CCCCC---chHH-HHHhcCCCEEEECCCCC----CCCCCEE-
Confidence 56655443 2333322 2233445656778777752 22211 1222 23467899998876432 1223432
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecC-cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSD-TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEM 173 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d-~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~i 173 (458)
...+..-+..+++.+...|-++++++.... .........+++.+++.|+... ... ...+..+..+.+.++
T Consensus 96 --~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~----~~~---~~~~~~~~~~~~~~~ 166 (263)
T cd06280 96 --VLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMRRHGLAPD----ARF---VAPTAEAAEAALAAW 166 (263)
T ss_pred --EECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHHHcCCCCC----hhh---cccCHHHHHHHHHHH
Confidence 345555666777888888999999986542 2345677889999988774321 000 111222333444554
Q ss_pred Hhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEee
Q psy17441 174 KNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVT 212 (458)
Q Consensus 174 k~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t 212 (458)
.+. .+++|++ .+...+..+++.+++.|+.-++.+.+.+
T Consensus 167 l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~~p~di~iig 206 (263)
T cd06280 167 LAAPERPEALVA-SNGLLLLGALRAVRAAGLRIPQDLALAG 206 (263)
T ss_pred hcCCCCCcEEEE-CCcHHHHHHHHHHHHcCCCCCCcEEEEE
Confidence 433 3555544 5556688899999999987655555544
No 164
>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=94.87 E-value=2.6 Score=39.01 Aligned_cols=178 Identities=11% Similarity=0.030 Sum_probs=100.4
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccce
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF 93 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~ 93 (458)
.|+++.+... ..++ .......+.+.+.++.++|= ..+.. ....+..+.+ .+ |+|......+ ...++
T Consensus 28 ~g~~~~~~~~--~~~~-~~~~~~i~~l~~~~vdgiii--~~~~~-~~~~~~~~~~-~~-pvv~~~~~~~-----~~~~~- 93 (260)
T cd06286 28 HGYKVVLLQT--NYDK-EKELEYLELLKTKQVDGLIL--CSREN-DWEVIEPYTK-YG-PIVLCEEYDS-----KNISS- 93 (260)
T ss_pred cCCEEEEEeC--CCCh-HHHHHHHHHHHHcCCCEEEE--eCCCC-CHHHHHHHhc-CC-CEEEEecccC-----CCCCE-
Confidence 3566655432 3333 22334445566788888885 22221 2233444433 44 8887654221 12233
Q ss_pred eecCCCchhHHHHHHHHHHhcCCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHH
Q psy17441 94 LRTVPPYSHQADVWVELLKHFNYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLY 171 (458)
Q Consensus 94 ~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~ 171 (458)
+.+.....+..+++.+...|-++++++..+. .......+.+.+.+++.|+.+.. .. ......+..+-.+.++
T Consensus 94 --v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~~~~~~-~~---i~~~~~~~~~~~~~~~ 167 (260)
T cd06286 94 --VYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDALEEYGLTPDE-EW---IFEGCFTIEDGERIGH 167 (260)
T ss_pred --EEECChHHHHHHHHHHHHCCCceEEEEcCCcccchhHHHHHHHHHHHHHcCCCCCh-Hh---eEeCCCCHHHHHHHHH
Confidence 3456666777788888888999999997543 34556788999999988744311 00 1111112223344555
Q ss_pred HHHhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEee
Q psy17441 172 EMKNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVT 212 (458)
Q Consensus 172 ~ik~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t 212 (458)
++.+. .+++|+ +++...+..+++.+++.|+.-++.+-+.+
T Consensus 168 ~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~ip~di~v~g 209 (260)
T cd06286 168 QLLKMKDRPDAIF-TGSDEVAAGIITEAKKQGIRVPEDLAIIG 209 (260)
T ss_pred HHHcCCCCCCEEE-EcchHHHHHHHHHHHHcCCCCCcceEEEe
Confidence 55443 456554 45556778899999999986544443333
No 165
>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=94.86 E-value=3.8 Score=39.14 Aligned_cols=203 Identities=12% Similarity=0.014 Sum_probs=106.4
Q ss_pred HHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHh
Q psy17441 34 LSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKH 113 (458)
Q Consensus 34 ~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~ 113 (458)
....+.+...++.+||-. +.... ........+...++|+|......+ +.. ..+....+.+...+..+++.+..
T Consensus 46 ~~~i~~~~~~~~DgiIi~-~~~~~-~~~~~~~~~~~~~iPvV~v~~~~~---~~~--~~~~~v~~D~~~~g~~a~~~l~~ 118 (298)
T cd06302 46 VQIIEDLIAQGVDAIAVV-PNDPD-ALEPVLKKAREAGIKVVTHDSDVQ---PDN--RDYDIEQADNKAIGETLMDSLAE 118 (298)
T ss_pred HHHHHHHHhcCCCEEEEe-cCCHH-HHHHHHHHHHHCCCeEEEEcCCCC---CCc--ceeEEeccCHHHHHHHHHHHHHH
Confidence 344555667788888851 21111 112333445678999998865321 101 11233345666666777777655
Q ss_pred c-CC-eEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhcc--CeEEEEEeCh
Q psy17441 114 F-NY-MKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQ--ARVYLMYASK 187 (458)
Q Consensus 114 ~-~w-~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~--~~viil~~~~ 187 (458)
. +- ++++++..... ......+.+++.++++|.. ...+.....-..+.+.-...++++.+.. ++.|++ .+.
T Consensus 119 ~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~~l~~~g~~---~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~D 194 (298)
T cd06302 119 QMGGKGEYAIFVGSLTATNQNAWIDAAKAYQKEKYYP---MLELVDRQYGDDDADKSYQTAQELLKAYPDLKGIIG-PTS 194 (298)
T ss_pred HcCCCCEEEEEeCCCCCcchHHHHHHHHHHHhhcCCC---CeEEeCcccCCCCHHHHHHHHHHHHHhCCCceEEEE-CCC
Confidence 5 43 69999975432 3456678899999887611 1222111111112222234444543333 444443 445
Q ss_pred hhHHHHHHHHHhcCCcccceEEEeecccccc-CCCCCeeE-EEEecCCCchhHHHHHHHHHHHHHH
Q psy17441 188 QDAEIIFKDAQYLNMTETGYVWIVTEQALTA-KNVPVGII-GLKLVNATNEDAHIRDSIYVLTSAL 251 (458)
Q Consensus 188 ~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~-~~~~~g~~-g~~~~~~~~~~~~~yDAv~~la~Al 251 (458)
..+..+++++++.|+. ++...+.-+..... ..+..|.+ .+.... ....+|-|+.++...+
T Consensus 195 ~~A~g~~~al~~~g~~-~dv~vvG~D~~~~~~~~~~~g~i~~tv~~~---~~~~g~~a~~~l~~~l 256 (298)
T cd06302 195 VGIPGAARAVEEAGLK-GKVAVTGLGLPNQMAPYVKSGAVKEFALWN---PADLGYAAVYVAKALL 256 (298)
T ss_pred cchhHHHHHHHhcCCC-CCEEEEEeCCCHHHHHHHhCCeeEEEEecC---HHHHHHHHHHHHHHHh
Confidence 6788899999999986 23333333332222 22344554 332222 2346677766555444
No 166
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=94.74 E-value=2.4 Score=39.60 Aligned_cols=218 Identities=11% Similarity=0.086 Sum_probs=116.9
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCC--chHHHHHhhcccCCcEEeeecCCCCCCCCccccc
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDL--SPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVS 92 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~--~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~ 92 (458)
|+++.+. +...+.. ......+.+.+.+|.++|=. +..+.. .......-+...++|+|..+...+. . ..+
T Consensus 29 g~~~~~~--~~~~~~~-~~~~~i~~l~~~~vdgii~~-~~~~~~~~~~~~~~~~~~~~~ipvV~~~~~~~~---~-~~~- 99 (273)
T cd01541 29 GYSLLLA--STNNDPE-RERKCLENMLSQGIDGLIIE-PTKSALPNPNIDLYLKLEKLGIPYVFINASYEE---L-NFP- 99 (273)
T ss_pred CCEEEEE--eCCCCHH-HHHHHHHHHHHcCCCEEEEe-ccccccccccHHHHHHHHHCCCCEEEEecCCCC---C-CCC-
Confidence 4555433 3344442 23445666778889888741 322110 0112233456779999988754221 1 112
Q ss_pred eeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc-chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC--CcccHHHH
Q psy17441 93 FLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT-DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP--GLTTFKDQ 169 (458)
Q Consensus 93 ~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~-~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~--~~~d~~~~ 169 (458)
.+...+..-+..+++.+...|.++++++...++ .+......+++.+++.|+.+.. ........ ......+.
T Consensus 100 --~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~~l~~~~~~~~~----~~~~~~~~~~~~~~~~~~ 173 (273)
T cd01541 100 --SLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIKAYREHGIPFNP----SNVITYTTEEKEEKLFEK 173 (273)
T ss_pred --EEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHHHHHHcCCCCCh----HHEEeccccchhhHHHHH
Confidence 234556666677788888889999998875432 3556678889999887743210 00111111 11233455
Q ss_pred HHHHHhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccCC-CCCeeEEEEecCCCchhHHHHHHHHH
Q psy17441 170 LYEMKNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKN-VPVGIIGLKLVNATNEDAHIRDSIYV 246 (458)
Q Consensus 170 l~~ik~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~-~~~g~~g~~~~~~~~~~~~~yDAv~~ 246 (458)
++++.+. .+++|++ .+...+..+++++++.|+..++.+-|++-....... .......+.. .....+|.|+.+
T Consensus 174 ~~~~l~~~~~~~av~~-~~d~~a~g~~~al~~~g~~~p~dv~vvg~d~~~~~~~~~~~~t~i~~----~~~~~g~~a~~~ 248 (273)
T cd01541 174 IKEILKRPERPTAIVC-YNDEIALRVIDLLKELGLKIPEDISVVGFDDSYLSVASEVKLTTVTH----PKEQMGEDAAKM 248 (273)
T ss_pred HHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCcEEEEEcCCcchhhhccCcceEEec----CHHHHHHHHHHH
Confidence 5555433 3565544 555667789999999998765555554432221111 1111222211 233467888887
Q ss_pred HHHHHH
Q psy17441 247 LTSALK 252 (458)
Q Consensus 247 la~Al~ 252 (458)
+...++
T Consensus 249 l~~~~~ 254 (273)
T cd01541 249 ILKMIE 254 (273)
T ss_pred HHHHHh
Confidence 766553
No 167
>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=94.71 E-value=4.2 Score=38.96 Aligned_cols=224 Identities=10% Similarity=-0.008 Sum_probs=107.9
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+. +...++ .......+.+...++.+||=. |..+. ....+...+...++|+|......+.. +....+-+.
T Consensus 31 g~~~~~~--~~~~~~-~~q~~~i~~l~~~~vdgiii~-~~~~~-~~~~~~~~~~~~giPvV~~~~~~~~~-~~~~~~~~~ 104 (303)
T cd01539 31 KVEFTFY--DAKNNQ-STQNEQIDTALAKGVDLLAVN-LVDPT-AAQTVINKAKQKNIPVIFFNREPEEE-DIKSYDKAY 104 (303)
T ss_pred CeeEEEe--cCCCCH-HHHHHHHHHHHHcCCCEEEEe-cCchh-hHHHHHHHHHHCCCCEEEeCCCCccc-ccccccccc
Confidence 4444333 333344 233444566667888877741 32221 22334445567899999887532211 111111223
Q ss_pred ecCCCchhHHHHHHHHHHhc--CCe---------E--EEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEe
Q psy17441 95 RTVPPYSHQADVWVELLKHF--NYM---------K--VIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF 159 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~--~w~---------~--v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~ 159 (458)
.+.+.+..-+...++++... +-+ + ++++..+. .......+.+++.++++|+.+ ........
T Consensus 105 ~V~~d~~~~g~~~a~~l~~~~~~~~~~~~~~~~g~~~i~~~~g~~~~~~~~~R~~gf~~~l~~~~~~~----~~~~~~~~ 180 (303)
T cd01539 105 YVGTDAEQSGILQGKLIADYWNANKDALDKNGDGIIQYVMLKGEPGHPDAIARTKYSIETLNDAGIKT----EELASDTA 180 (303)
T ss_pred eeeecHHHHHHHHHHHHHHHhhccccccccCCCCceEEEEEEcCCCCchhhhhhhhHHHHHHhcCCCe----EEEEeecC
Confidence 34455555556666766543 221 2 34454332 233456778899998877322 11111111
Q ss_pred CCCcccHHHHHHHHHhc---cCeEEEEEeChhhHHHHHHHHHhcCCccc----ceEEEeeccccccCCC-CCeeEEEEec
Q psy17441 160 EPGLTTFKDQLYEMKNA---QARVYLMYASKQDAEIIFKDAQYLNMTET----GYVWIVTEQALTAKNV-PVGIIGLKLV 231 (458)
Q Consensus 160 ~~~~~d~~~~l~~ik~~---~~~viil~~~~~~~~~il~~a~~~g~~~~----~~~wi~t~~~~~~~~~-~~g~~g~~~~ 231 (458)
..+.....+.++++.+. .+++|++ .+...+..+++++++.|...+ +...+..+........ ..|..-....
T Consensus 181 ~~~~~~~~~~~~~~L~~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~~~~di~iig~d~~~~~~~~~~~g~~~tti~ 259 (303)
T cd01539 181 NWDRAQAKDKMDALLLKYGDKIEAVIA-NNDAMALGAIEALQKYGYNKGDKSKNIPVVGVDALPEALELIKKGSMTGTVL 259 (303)
T ss_pred CCCHHHHHHHHHHHHHhcCCCccEEEE-CCchHHHHHHHHHHHcCCCcCCCCCceEEEccCCCHHHHHHHHcCCceEEEe
Confidence 11222233445554332 2455544 444556678888899998754 3444444433222211 2343211111
Q ss_pred CCCchhHHHHHHHHHHHHHH
Q psy17441 232 NATNEDAHIRDSIYVLTSAL 251 (458)
Q Consensus 232 ~~~~~~~~~yDAv~~la~Al 251 (458)
......++.|+.++...+
T Consensus 260 --~~~~~~g~~a~~~l~~~l 277 (303)
T cd01539 260 --NDPKGQAEAIYNLGMNLV 277 (303)
T ss_pred --cCHHHHHHHHHHHHHHHh
Confidence 133456677777665544
No 168
>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins. Prokaryotic homologues are represented by a separate alignment: PBPb
Probab=94.69 E-value=0.058 Score=44.84 Aligned_cols=58 Identities=19% Similarity=0.391 Sum_probs=44.4
Q ss_pred CCCChhhhhhcCCCCceEEEEeCCChHHHHHhhchh--hHHHHHHH---HHcCCCCHHHHHHHhhC
Q psy17441 398 KLTGINDARLRNTMENLTCATVKGSAVDMYFRRQVE--LSNMYRTM---EANNYDTAEDAIADVKI 458 (458)
Q Consensus 398 ~i~~~~dL~~~~~~~~~~~g~~~~s~~~~~~~~~~~--~~~~~~~~---~~~~~~~~~~gi~~v~~ 458 (458)
||++++||+ .+++.++|+..||..+.++++... +.++++.+ +...+++.+++++.|+.
T Consensus 1 ~i~~~~dl~---~~~~~~vgv~~gs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 63 (134)
T smart00079 1 PITSVEDLA---KQTKIEYGTIRGSSTLAFFKRSGNPEYSRMWNYMSASPSVFVKSYAEGVQRVRV 63 (134)
T ss_pred CCCChHHHh---hCCCccceEecCchHHHHHHhCCChHHHHHHHHHHhCCCCCCCCHHHHHHHHHc
Confidence 589999997 123489999999999999988632 46666655 33458899999998863
No 169
>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=94.68 E-value=4.3 Score=38.97 Aligned_cols=144 Identities=12% Similarity=-0.014 Sum_probs=85.6
Q ss_pred HHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcC
Q psy17441 36 VCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFN 115 (458)
Q Consensus 36 ~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~ 115 (458)
..+.+...++.++|-. +.... ... .....++|.|..+...+ .+++ +.+.+..-+..+++.|...|
T Consensus 107 ~~~~l~~~~vdGvIi~-~~~~~-~~~----~l~~~~~p~V~i~~~~~------~~~~---V~~D~~~~~~~a~~~L~~~G 171 (311)
T TIGR02405 107 HLSVLQKRNVDGVILF-GFTGC-DEE----ILESWNHKAVVIARDTG------GFSS---VCYDDYGAIELLMANLYQQG 171 (311)
T ss_pred HHHHHHhcCCCEEEEe-CCCCC-CHH----HHHhcCCCEEEEecCCC------CccE---EEeCcHHHHHHHHHHHHHcC
Confidence 3445556778888852 21111 111 23456788887664211 1222 33555556667778888889
Q ss_pred CeEEEEEEe-cC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHH
Q psy17441 116 YMKVIFIHS-SD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEI 192 (458)
Q Consensus 116 w~~v~ii~~-~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~ 192 (458)
.+++++|.. .. ..+....+.+++.+++.|+.. . . ........+....++++.+.+++.|+ +++...+..
T Consensus 172 hr~I~~i~~~~~~~~~~~~R~~gf~~a~~~~gi~~-----~-~-~~~~~~~~~~~~~~~~~l~~~~tAi~-~~~D~~A~g 243 (311)
T TIGR02405 172 HRHISFLGVDPSDKTTGLMRHNAYLAYCESANLEP-----I-Y-QTGQLSHESGYVLTDKVLKPETTALV-CATDTLALG 243 (311)
T ss_pred CCcEEEEccCcccchhHHHHHHHHHHHHHHcCCCc-----e-e-eeCCCCHHHHHHHHHHHHhcCCCEEE-ECCcHHHHH
Confidence 999999973 22 245677889999999988431 1 1 11111222233445554444577665 456667888
Q ss_pred HHHHHHhcCC
Q psy17441 193 IFKDAQYLNM 202 (458)
Q Consensus 193 il~~a~~~g~ 202 (458)
+++.+++.|+
T Consensus 244 ~~~~l~~~g~ 253 (311)
T TIGR02405 244 AAKYLQELDR 253 (311)
T ss_pred HHHHHHHcCC
Confidence 9999999997
No 170
>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=94.60 E-value=3.9 Score=38.40 Aligned_cols=185 Identities=11% Similarity=0.033 Sum_probs=98.7
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+.. ...++ +......+.+.+.++.+||-. +..+. ........+...++|+|......+ ... +.+.
T Consensus 29 g~~v~~~~--~~~~~-~~~~~~i~~~~~~~~Dgiii~-~~~~~-~~~~~i~~~~~~~iPvV~~~~~~~---~~~--~~~~ 98 (282)
T cd06318 29 GYELISTD--AQGDL-TKQIADVEDLLTRGVNVLIIN-PVDPE-GLVPAVAAAKAAGVPVVVVDSSIN---LEA--GVVT 98 (282)
T ss_pred CCEEEEEc--CCCCH-HHHHHHHHHHHHcCCCEEEEe-cCCcc-chHHHHHHHHHCCCCEEEecCCCC---CCc--CeEE
Confidence 55554433 33343 223445666778888777752 22221 212333455678999999875321 111 1222
Q ss_pred ecCCCchhHHHHHHHHHHh-cCCe--EEEEEEec--CcchhHHHHHHHHhhhccCCccee--eEEEEEEEEeCCCcccHH
Q psy17441 95 RTVPPYSHQADVWVELLKH-FNYM--KVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEI--KVQVEAVIEFEPGLTTFK 167 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~-~~w~--~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~--~~~v~~~~~~~~~~~d~~ 167 (458)
.+...+...+..+++.+.. .|-+ +++++... ...+....+.+++.++++|+.... +..+.....-..+..+..
T Consensus 99 ~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (282)
T cd06318 99 QVQSSNAKNGNLVGEWVVGELGDKPMKIILLSGDAGNLVGQARRDGFLLGVSEAQLRKYGKTNFTIVAQGYGDWTREGGL 178 (282)
T ss_pred EEecCcHHHHHHHHHHHHHHhCCCCceEEEEECCCCCchHhHHHHhHHHHHhhCcccccccCCeEEEecCCCCCCHHHHH
Confidence 3445666677788887754 6865 88888643 234667788899999887632100 111111000011122223
Q ss_pred HHHHHHHhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEee
Q psy17441 168 DQLYEMKNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVT 212 (458)
Q Consensus 168 ~~l~~ik~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t 212 (458)
..+.++... .+++|++ .+...+..+++++++.|+. +.+-+.+
T Consensus 179 ~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~--~dv~vvg 222 (282)
T cd06318 179 KAMEDLLVAHPDINVVYS-ENDDMALGAMRVLAEAGKT--DDVKVAA 222 (282)
T ss_pred HHHHHHHHhCCCcCEEEE-CCcchHHHHHHHHHHcCCC--CCeEEEe
Confidence 444444332 3455554 4445677889999999985 2444444
No 171
>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=94.59 E-value=4 Score=38.20 Aligned_cols=153 Identities=15% Similarity=-0.039 Sum_probs=85.2
Q ss_pred HHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhccc-CCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHH
Q psy17441 34 LSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFY-HIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLK 112 (458)
Q Consensus 34 ~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~-~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~ 112 (458)
....+.+.+.+|.+||- .... ...........+ ++|++..+...+ +....++ ....+..-+..++.++.
T Consensus 47 ~~~i~~l~~~~vdgiI~--~~~~--~~~~~~~~~~~~~~~PiV~i~~~~~---~~~~~~~---v~~d~~~a~~~a~~ll~ 116 (265)
T cd06354 47 EPNLEQLADAGYDLIVG--VGFL--LADALKEVAKQYPDQKFAIIDAVVD---DPPNVAS---IVFKEEEGSFLAGYLAA 116 (265)
T ss_pred HHHHHHHHhCCCCEEEE--cCcc--hHHHHHHHHHHCCCCEEEEEecccC---CCCcEEE---EEecchhHHHHHHHHHH
Confidence 34456677889999996 2221 223455566555 899998765321 1011122 22333333344445555
Q ss_pred h-cCCeEEEEEEecCc-chhHHHHHHHHhhhccC---CcceeeEEEEEEEEeCCC-cccHHHHHHHHHhccCeEEEEEeC
Q psy17441 113 H-FNYMKVIFIHSSDT-DGRALLGRFQTTSQNQE---DDVEIKVQVEAVIEFEPG-LTTFKDQLYEMKNAQARVYLMYAS 186 (458)
Q Consensus 113 ~-~~w~~v~ii~~~d~-~g~~~~~~l~~~l~~~g---i~v~~~~~v~~~~~~~~~-~~d~~~~l~~ik~~~~~viil~~~ 186 (458)
. .|-++++++..+.. ......+.+++.+++.| +.+ ..........+ ..+-.+.++++.+.++++|++. +
T Consensus 117 ~~~G~~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~~~~~----~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~~~-n 191 (265)
T cd06354 117 LMTKTGKVGFIGGMDIPLIRRFEAGFEAGVKYVNPGVPDI----EVLVQYAGSFNDPAKGKEIAQAMYDQGADVIFAA-A 191 (265)
T ss_pred hhcCCCeEEEEecccChHHHHHHHHHHHHHHHHhccCCCc----eEEEEEcCcccCHHHHHHHHHHHHHCCCcEEEEC-C
Confidence 4 39999999975432 22233467888888766 432 11111111111 1233455666655567875554 5
Q ss_pred hhhHHHHHHHHHhcC
Q psy17441 187 KQDAEIIFKDAQYLN 201 (458)
Q Consensus 187 ~~~~~~il~~a~~~g 201 (458)
...+..+++++++.|
T Consensus 192 d~~A~gv~~al~~~g 206 (265)
T cd06354 192 GGTGNGVFQAAKEAG 206 (265)
T ss_pred CCCchHHHHHHHhcC
Confidence 667788999999998
No 172
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=94.47 E-value=4.4 Score=38.60 Aligned_cols=177 Identities=13% Similarity=0.122 Sum_probs=93.1
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+...+...+. .......+.+.+.+|.|||=. +.........+..+ . .++|+|....... +.. .+.
T Consensus 29 g~~v~~~~~~~~~~~-~~~~~~i~~l~~~~vDgiIi~-~~~~~~~~~~l~~~-~-~~iPvV~~~~~~~---~~~---~~~ 98 (295)
T TIGR02955 29 GVELKVLEAGGYPNL-DKQLAQIEQCKSWGADAILLG-TVSPEALNHDLAQL-T-KSIPVFALVNQID---SNQ---VKG 98 (295)
T ss_pred CCEEEEEcCCCCCCH-HHHHHHHHHHHHcCCCEEEEe-cCChhhhhHHHHHH-h-cCCCEEEEecCCC---ccc---eeE
Confidence 555555432222233 233345666778899888751 22111011223333 3 4899997643211 111 122
Q ss_pred ecCCCchhHHHHHHHHHHhcCC------eEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNY------MKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTF 166 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w------~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~ 166 (458)
.+...+..-+..+++.+.. +- ++++++....+ ......+.+++.+++.|+ .+.....-..+..+-
T Consensus 99 ~V~~D~~~~g~~~~~~L~~-~~~~~~g~~~I~~i~g~~~~~~~~~R~~Gf~~al~~~g~------~~~~~~~~~~~~~~~ 171 (295)
T TIGR02955 99 RVGVDWYQMGYQAGEYLAQ-RHPKGSGPTTLAWLPGPKNRGGTKPVTQGFRAALEGSDV------EISAILWADNDKELQ 171 (295)
T ss_pred EEeecHHHHHHHHHHHHHH-hcccCCCCeeEEEEeCCCcCCchhHHHHHHHHHHhcCCc------EEEEEecCCCcHHHH
Confidence 2334555555666776655 33 46999975432 456678899999988773 222211111122223
Q ss_pred HHHHHHHHhc--cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEee
Q psy17441 167 KDQLYEMKNA--QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVT 212 (458)
Q Consensus 167 ~~~l~~ik~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t 212 (458)
.+.++++.+. .+++| ++....+...++++++.|+. +.+.+++
T Consensus 172 ~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~~~g~~--~dv~vvg 215 (295)
T TIGR02955 172 RNLLQDLLKKHPDIDYL--VGSAVAAEAAISELRSLHMT--QQIKLVS 215 (295)
T ss_pred HHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHHhhCcc--CCeEEEE
Confidence 3455555432 35654 45556678889998888863 3565555
No 173
>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=94.41 E-value=4.3 Score=37.85 Aligned_cols=169 Identities=12% Similarity=0.013 Sum_probs=96.2
Q ss_pred HHHHHHhhcCCeEEEEEeCCCCCC-CchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHH
Q psy17441 34 LSVCKFLISERVYAVIVSHPLTGD-LSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLK 112 (458)
Q Consensus 34 ~~~~~~l~~~~V~aiIG~~~~~s~-~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~ 112 (458)
....+.+.+.++.++|=.++.... ........-+...++|+|..+...+. ...+++ +...+...+..+++.+.
T Consensus 45 ~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~i~~~~~~---~~~~~~---V~~d~~~~~~~~~~~l~ 118 (273)
T cd06292 45 ADYVEDLLARGVRGVVFISSLHADTHADHSHYERLAERGLPVVLVNGRAPP---PLKVPH---VSTDDALAMRLAVRHLV 118 (273)
T ss_pred HHHHHHHHHcCCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEEEcCCCCC---CCCCCE---EEECcHHHHHHHHHHHH
Confidence 344566767888887741111111 01112233456789999998764321 111233 34566667777888888
Q ss_pred hcCCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhH
Q psy17441 113 HFNYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDA 190 (458)
Q Consensus 113 ~~~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~ 190 (458)
..|.++++++.... .......+.+.+.++++|+.... ..+ .....+.......++++.+..+++|++. +...+
T Consensus 119 ~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~-~~i---~~~~~~~~~~~~~~~~~l~~~~~ai~~~-~d~~a 193 (273)
T cd06292 119 ALGHRRIGFASGPGRTVPRRRKIAGFRAALEEAGLEPPE-ALV---ARGMFSVEGGQAAAVELLGSGPTAIVAA-SDLMA 193 (273)
T ss_pred HCCCceEEEEeCCcccccHHHHHHHHHHHHHHcCCCCCh-hhe---EeCCCCHHHHHHHHHHHhcCCCCEEEEc-CcHHH
Confidence 88999999997543 23456778899999887732100 001 1111112223344455544447766644 45567
Q ss_pred HHHHHHHHhcCCcccceEEEeec
Q psy17441 191 EIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 191 ~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
..+++..++.|+.-++.+-+.+-
T Consensus 194 ~g~~~~l~~~g~~ip~di~ii~~ 216 (273)
T cd06292 194 LGAIRAARRRGLRVPEDVSVVGY 216 (273)
T ss_pred HHHHHHHHHcCCCCCcceEEEee
Confidence 78899999999865555544433
No 174
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=94.36 E-value=1.5 Score=42.03 Aligned_cols=154 Identities=10% Similarity=0.110 Sum_probs=79.7
Q ss_pred EEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCC---CCCCcccc--
Q psy17441 17 TFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSA---FSDKNIHV-- 91 (458)
Q Consensus 17 ~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~---ls~~~~~p-- 91 (458)
.+.+...+...+. ..+....+.+...+...|+- ..+. ++..+....... +|+|-.+-++|. +.+....|
T Consensus 33 ~~~~~~~~a~~d~-~~~~~~~~~l~~~~~DlIi~---~gt~-aa~~~~~~~~~~-iPVVf~~V~dp~~~~l~~~~~~~~~ 106 (294)
T PF04392_consen 33 NVEIEYKNAEGDP-EKLRQIARKLKAQKPDLIIA---IGTP-AAQALAKHLKDD-IPVVFCGVSDPVGAGLVDSLDRPGK 106 (294)
T ss_dssp CEEEEEEE-TT-H-HHHHHHHHHHCCTS-SEEEE---ESHH-HHHHHHHH-SS--S-EEEECES-TTTTTS-S-SSS--S
T ss_pred cEEEEEecCCCCH-HHHHHHHHHHhcCCCCEEEE---eCcH-HHHHHHHhcCCC-cEEEEEeccChhhhhccccccCCCC
Confidence 3455555555665 44566667776667666663 1222 445555444333 999977776664 22222222
Q ss_pred ceeecCCCchhHHHHHHHHHHhc--CCeEEEEEEecCcc-hhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHH
Q psy17441 92 SFLRTVPPYSHQADVWVELLKHF--NYMKVIFIHSSDTD-GRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKD 168 (458)
Q Consensus 92 ~~~r~~p~~~~~~~ai~~ll~~~--~w~~v~ii~~~d~~-g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~ 168 (458)
.+.-+. +......-+++++.+ +-++++++|+++.- +....+.+++..++.|+ .+.. ..++ +..+...
T Consensus 107 nvTGv~--~~~~~~~~l~l~~~l~P~~k~igvl~~~~~~~~~~~~~~~~~~a~~~g~------~l~~-~~v~-~~~~~~~ 176 (294)
T PF04392_consen 107 NVTGVS--ERPPIEKQLELIKKLFPDAKRIGVLYDPSEPNSVAQIEQLRKAAKKLGI------ELVE-IPVP-SSEDLEQ 176 (294)
T ss_dssp SEEEEE--E---HHHHHHHHHHHSTT--EEEEEEETT-HHHHHHHHHHHHHHHHTT-------EEEE-EEES-SGGGHHH
T ss_pred CEEEEE--CCcCHHHHHHHHHHhCCCCCEEEEEecCCCccHHHHHHHHHHHHHHcCC------EEEE-EecC-cHhHHHH
Confidence 343333 333344456666554 46999999987643 45667888888888773 3222 2232 5667888
Q ss_pred HHHHHHhccCeEEEEEeCh
Q psy17441 169 QLYEMKNAQARVYLMYASK 187 (458)
Q Consensus 169 ~l~~ik~~~~~viil~~~~ 187 (458)
.++.+.+ +.+++++..+.
T Consensus 177 ~~~~l~~-~~da~~~~~~~ 194 (294)
T PF04392_consen 177 ALEALAE-KVDALYLLPDN 194 (294)
T ss_dssp HHHHHCT-T-SEEEE-S-H
T ss_pred HHHHhhc-cCCEEEEECCc
Confidence 8887754 57888776554
No 175
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=94.26 E-value=3.3 Score=40.45 Aligned_cols=160 Identities=13% Similarity=0.027 Sum_probs=90.4
Q ss_pred HHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCc-EEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHh
Q psy17441 35 SVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIP-VIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKH 113 (458)
Q Consensus 35 ~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP-~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~ 113 (458)
...+.+...++.++|-. +... ....+..+.. ++| +|......+ +.. .++ +...+..-+..+++.+..
T Consensus 106 ~~i~~l~~~~vdgiIi~-~~~~--~~~~~~~~~~--~~p~vV~i~~~~~---~~~-~~~---V~~Dn~~~~~~a~~~L~~ 173 (343)
T PRK10727 106 QAIEQLIRHRCAALVVH-AKMI--PDAELASLMK--QIPGMVLINRILP---GFE-NRC---IALDDRYGAWLATRHLIQ 173 (343)
T ss_pred HHHHHHHhcCCCEEEEe-cCCC--ChHHHHHHHh--cCCCEEEEecCCC---CCC-CCE---EEECcHHHHHHHHHHHHH
Confidence 34555667788888752 2111 2223334433 677 676654221 111 122 234555555667777877
Q ss_pred cCCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhcc--CeEEEEEeChhh
Q psy17441 114 FNYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQ--ARVYLMYASKQD 189 (458)
Q Consensus 114 ~~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~--~~viil~~~~~~ 189 (458)
.|.+++++|.... .......+.+.+.+++.|+.+.. .. ...-..+...-...++++.+.+ +++|++ .+...
T Consensus 174 ~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~--~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nD~~ 248 (343)
T PRK10727 174 QGHTRIGYLCSNHSISDAEDRLQGYYDALAESGIPAND--RL--VTFGEPDESGGEQAMTELLGRGRNFTAVAC-YNDSM 248 (343)
T ss_pred CCCccEEEEeCCccccchHHHHHHHHHHHHHCCCCCCh--hh--EEeCCCChhHHHHHHHHHHhCCCCCCEEEE-cCcHH
Confidence 8999999997543 23566788999999998854311 00 1111111122234455554433 566554 45567
Q ss_pred HHHHHHHHHhcCCcccceEEEe
Q psy17441 190 AEIIFKDAQYLNMTETGYVWIV 211 (458)
Q Consensus 190 ~~~il~~a~~~g~~~~~~~wi~ 211 (458)
+..+++++++.|+.-++.+-|+
T Consensus 249 A~g~~~al~~~G~~vP~disVi 270 (343)
T PRK10727 249 AAGAMGVLNDNGIDVPGEISLI 270 (343)
T ss_pred HHHHHHHHHHcCCCCCcceeEE
Confidence 8889999999999755555444
No 176
>KOG4390|consensus
Probab=94.26 E-value=0.022 Score=54.53 Aligned_cols=45 Identities=13% Similarity=0.448 Sum_probs=37.3
Q ss_pred cccccchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHHHHH
Q psy17441 334 DALNLSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMII 378 (458)
Q Consensus 334 ~~~~~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~~i~ 378 (458)
...++-.+|||++.+|++.|++++.|++..|+|...+--+-++++
T Consensus 353 ~FTsIPaaFWYTIVTmTTLGYGDMVp~TIaGKIfGsiCSLSGVLV 397 (632)
T KOG4390|consen 353 KFTSIPAAFWYTIVTMTTLGYGDMVPSTIAGKIFGSICSLSGVLV 397 (632)
T ss_pred ccccCcHhHhhheeeeeeccccccchHHHHHHHhhhhhcccceEE
Confidence 344688999999999999999999999999999887665544443
No 177
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=94.11 E-value=4.5 Score=37.67 Aligned_cols=153 Identities=13% Similarity=-0.000 Sum_probs=86.3
Q ss_pred HHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhccc-CCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHH
Q psy17441 34 LSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFY-HIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLK 112 (458)
Q Consensus 34 ~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~-~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~ 112 (458)
....+.+...++.+||- .... ....+....... ++|++......+ .+...++ ....+..-+..++.++.
T Consensus 46 ~~~~~~l~~~~vdgiii--~~~~--~~~~~~~~~~~~~~ipvv~~~~~~~---~~~~~~~---v~~d~~~~~~~a~~l~~ 115 (260)
T cd06304 46 EPNLRQLAAQGYDLIFG--VGFG--FMDAVEKVAKEYPDVKFAIIDGVVD---APPNVAS---YVFREYEGSYLAGVLAA 115 (260)
T ss_pred HHHHHHHHHcCCCEEEE--CCcc--hhHHHHHHHHHCCCCEEEEecCccC---CCCCeee---eecchHHHHHHHHHHHH
Confidence 34555666778888876 3222 223444555444 789887755322 1011122 12233333334445665
Q ss_pred hc-CCeEEEEEEecC-cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC-CcccHHHHHHHHHhccCeEEEEEeChhh
Q psy17441 113 HF-NYMKVIFIHSSD-TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP-GLTTFKDQLYEMKNAQARVYLMYASKQD 189 (458)
Q Consensus 113 ~~-~w~~v~ii~~~d-~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~-~~~d~~~~l~~ik~~~~~viil~~~~~~ 189 (458)
.. |-++++++.... .......+.+.+.++++|+.. .......... +..+-.+.++++.+.++++| ++.+...
T Consensus 116 ~~~g~~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai-~~~~d~~ 190 (260)
T cd06304 116 LMTKTGKVGFVGGMPIPEVNRFINGFAAGAKSVNPDI----TVLVIYTGSFFDPAKGKEAALALIDQGADVI-FAAAGGT 190 (260)
T ss_pred HhccCCceEEEeccccHHHHHHHHHHHHHHHHhCCCc----EEEEEEecCccCcHHHHHHHHHHHhCCCCEE-EEcCCCC
Confidence 55 899999997532 334456788999999887432 1111111111 11233455666665567776 5566667
Q ss_pred HHHHHHHHHhcC
Q psy17441 190 AEIIFKDAQYLN 201 (458)
Q Consensus 190 ~~~il~~a~~~g 201 (458)
+..+++++++.|
T Consensus 191 A~gv~~al~~~g 202 (260)
T cd06304 191 GPGVIQAAKEAG 202 (260)
T ss_pred chHHHHHHHHcC
Confidence 788999999988
No 178
>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=94.06 E-value=5.5 Score=37.70 Aligned_cols=176 Identities=13% Similarity=0.104 Sum_probs=94.0
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+.. ...++ +......+.+...++.+||-. +..+. ........+...++|+|......+.. . .++.
T Consensus 29 g~~~~~~~--~~~~~-~~~~~~i~~~~~~~vdgiii~-~~~~~-~~~~~l~~l~~~~ipvV~~~~~~~~~---~-~~~~- 98 (288)
T cd01538 29 GAEVIVQN--ANGDP-AKQISQIENMIAKGVDVLVIA-PVDGE-ALASAVEKAADAGIPVIAYDRLILNS---N-VDYY- 98 (288)
T ss_pred CCEEEEEC--CCCCH-HHHHHHHHHHHHcCCCEEEEe-cCChh-hHHHHHHHHHHCCCCEEEECCCCCCC---C-cceE-
Confidence 55554443 33344 333455666767888888751 32221 22334445567899999987643211 1 1222
Q ss_pred ecCCCchhHHHHHHHHHHhc------CCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC-Cccc
Q psy17441 95 RTVPPYSHQADVWVELLKHF------NYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP-GLTT 165 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~------~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~-~~~d 165 (458)
+...+...+..+++.+... |-++++++..+. .......+.+++.++++|.+. ++.......... +..+
T Consensus 99 -v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~l~~~~~~~--~~~~~~~~~~~~~~~~~ 175 (288)
T cd01538 99 -VSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFNGAMSVLKPLIDSG--KITIVGEVATPDWDPET 175 (288)
T ss_pred -EEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHHHHHHHHHhccccC--CeeEEeccccCCCCHHH
Confidence 2334444556666665544 889999996543 234456788889998765110 011111111111 1122
Q ss_pred HHHHHHHHHhc---cCeEEEEEeChhhHHHHHHHHHhcCCcc
Q psy17441 166 FKDQLYEMKNA---QARVYLMYASKQDAEIIFKDAQYLNMTE 204 (458)
Q Consensus 166 ~~~~l~~ik~~---~~~viil~~~~~~~~~il~~a~~~g~~~ 204 (458)
-.+.++++-+. .+++|++ .+...+..+++++++.|+..
T Consensus 176 ~~~~~~~~l~~~~~~~~~I~~-~~d~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 176 AQKRMENALTANYNKVDGVLA-ANDGTAGGAIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHHHHhCCCCccEEEe-CCcHHHHHHHHHHHHcCCCC
Confidence 23445555433 2444444 34566788899999999875
No 179
>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=93.90 E-value=5.6 Score=37.21 Aligned_cols=200 Identities=12% Similarity=0.006 Sum_probs=102.4
Q ss_pred HHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhc
Q psy17441 35 SVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHF 114 (458)
Q Consensus 35 ~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~ 114 (458)
...+.+.+ ++.++|=. +.... ........+...++|+|......+ +....++ +...+..-+...++++...
T Consensus 50 ~~i~~~~~-~vdgiii~-~~~~~-~~~~~i~~~~~~~ipvV~~~~~~~---~~~~~~~---V~~d~~~~g~~~~~~l~~~ 120 (275)
T cd06307 50 AALLRLGA-RSDGVALV-APDHP-QVRAAVARLAAAGVPVVTLVSDLP---GSPRAGY---VGIDNRAAGRTAAWLIGRF 120 (275)
T ss_pred HHHHHHHh-cCCEEEEe-CCCcH-HHHHHHHHHHHCCCcEEEEeCCCC---CCceeeE---EccChHHHHHHHHHHHHHH
Confidence 33445556 88877741 32211 112333555568999998865322 1111122 2344445555556666554
Q ss_pred -CC--eEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHh--ccCeEEEEEeCh
Q psy17441 115 -NY--MKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKN--AQARVYLMYASK 187 (458)
Q Consensus 115 -~w--~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~--~~~~viil~~~~ 187 (458)
|. ++++++..... ......+.+.+.++++|+.+ ++.....-..+..+-...++++.+ .++++|++..+.
T Consensus 121 ~g~~~~~i~~i~~~~~~~~~~~R~~gf~~a~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~ 196 (275)
T cd06307 121 LGRRPGKVAVLAGSHRFRGHEEREMGFRSVLREEFPGL----RVLETLEGLDDPARAYEATRKLLARHPDLVGIYNAGGG 196 (275)
T ss_pred hCCCCCeEEEEecCCCCcchHHHHHHHHHHHHhhCCCc----EEEeeccCCCChHHHHHHHHHHHHhCCCceEEEECCCC
Confidence 54 69999975432 34566788999998776332 211111111122223345555533 245676666543
Q ss_pred hhHHHHHHHHHhcCCcccceEEEeeccccccCC-CCCeeEEEEecCCCchhHHHHHHHHHHHHHHH
Q psy17441 188 QDAEIIFKDAQYLNMTETGYVWIVTEQALTAKN-VPVGIIGLKLVNATNEDAHIRDSIYVLTSALK 252 (458)
Q Consensus 188 ~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~-~~~g~~g~~~~~~~~~~~~~yDAv~~la~Al~ 252 (458)
+..+++.+++.|+. ++...+..|....... +..|.+...... .....+|-|+.++...++
T Consensus 197 --~~g~~~al~~~g~~-~di~Ivg~d~~~~~~~~i~~~~l~~tv~~--~~~~~g~~a~~~l~~~~~ 257 (275)
T cd06307 197 --NRGVIRALREAGRA-GKVVFVGHELTPETRAALRDGTIDAVIDQ--DPGHLARSAVRVLLAACD 257 (275)
T ss_pred --hHHHHHHHHHcCCC-CCcEEEEecCChHHHHHHHcCeeEEEEEc--CHHHHHHHHHHHHHHHHh
Confidence 46889999999985 2344444443222211 234544211111 234567777777655553
No 180
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=93.88 E-value=5.6 Score=37.15 Aligned_cols=199 Identities=15% Similarity=0.068 Sum_probs=100.6
Q ss_pred HHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHH
Q psy17441 33 ALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLK 112 (458)
Q Consensus 33 ~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~ 112 (458)
.....+.+...+|.++|=. |.........+..+ .. ++|+|..+...+ +...+++ +...+..-+..+++++.
T Consensus 44 ~~~~i~~l~~~~vDgiIi~-~~~~~~~~~~l~~~-~~-~ipvV~~~~~~~---~~~~~~~---V~~D~~~~g~~a~~~l~ 114 (271)
T cd06314 44 QLRMLEDLIAEGVDGIAIS-PIDPKAVIPALNKA-AA-GIKLITTDSDAP---DSGRYVY---IGTDNYAAGRTAGEIMK 114 (271)
T ss_pred HHHHHHHHHhcCCCEEEEe-cCChhHhHHHHHHH-hc-CCCEEEecCCCC---ccceeEE---EccChHHHHHHHHHHHH
Confidence 3445566777889888851 32211012233444 45 999999865322 1111222 23445555567777765
Q ss_pred hc--CCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhcc--CeEEEEEeC
Q psy17441 113 HF--NYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQ--ARVYLMYAS 186 (458)
Q Consensus 113 ~~--~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~--~~viil~~~ 186 (458)
.. +-.+++++.... .......+.+++.+++.|+ .+.....-..+..+-...++++.+.. ++.|+. .+
T Consensus 115 ~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~-~~ 187 (271)
T cd06314 115 KALPGGGKVAIFVGSLGADNAKERIQGIKDAIKDSKI------EIVDTRGDEEDFAKAKSNAEDALNAHPDLKCMFG-LY 187 (271)
T ss_pred HHcCCCCEEEEEecCCCCCCHHHHHHHHHHHHhcCCc------EEEEEecCccCHHHHHHHHHHHHHhCCCccEEEe-cC
Confidence 53 234566655432 2356778889999988773 22211111112223344555554433 455543 34
Q ss_pred hhhHHHHHHHHHhcCCcccceEEEeeccccccCC-CCCee-EEEEecCCCchhHHHHHHHHHHHHHH
Q psy17441 187 KQDAEIIFKDAQYLNMTETGYVWIVTEQALTAKN-VPVGI-IGLKLVNATNEDAHIRDSIYVLTSAL 251 (458)
Q Consensus 187 ~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~~-~~~g~-~g~~~~~~~~~~~~~yDAv~~la~Al 251 (458)
...+..+++.+++.|+. ++...+.-+....... +..|. +..... .....++.|+.++...+
T Consensus 188 d~~a~~~~~al~~~g~~-~di~vig~d~~~~~~~~~~~~~~lttv~~---~~~~~g~~a~~~l~~~l 250 (271)
T cd06314 188 AYNGPAIAEAVKAAGKL-GKVKIVGFDEDPDTLQGVKEGTIQGTVVQ---RPYQMGYLSVTVLAALL 250 (271)
T ss_pred CccHHHHHHHHHHcCCC-CceEEEEeCCCHHHHHHHHcCcceEEEec---CHHHHHHHHHHHHHHHh
Confidence 45566788889999986 3333444443222211 22332 222211 22345667776665544
No 181
>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=93.75 E-value=5.8 Score=36.89 Aligned_cols=194 Identities=7% Similarity=0.006 Sum_probs=106.5
Q ss_pred HHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCC
Q psy17441 37 CKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNY 116 (458)
Q Consensus 37 ~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w 116 (458)
.+.+...+|.++|- ...+. . ....+...++|+|..+...+. +.+-.+...+..-+..+++.+...|-
T Consensus 43 ~~~l~~~~vdGiI~--~~~~~---~-~~~~l~~~~~PvV~~~~~~~~-------~~~~~v~~d~~~~g~~~~~~l~~~g~ 109 (265)
T cd01543 43 LRWLKDWQGDGIIA--RIDDP---E-MAEALQKLGIPVVDVSGSREK-------PGIPRVTTDNAAIGRMAAEHFLERGF 109 (265)
T ss_pred hhhccccccceEEE--ECCCH---H-HHHHHhhCCCCEEEEeCccCC-------CCCCEEeeCHHHHHHHHHHHHHHCCC
Confidence 34455678999986 32221 2 224445679999998764221 11233456666677777888888899
Q ss_pred eEEEEEEecCc-chhHHHHHHHHhhhccCCcceeeEEEEEEEEeC--CCcccHHHHHHHHHhc--cCeEEEEEeChhhHH
Q psy17441 117 MKVIFIHSSDT-DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE--PGLTTFKDQLYEMKNA--QARVYLMYASKQDAE 191 (458)
Q Consensus 117 ~~v~ii~~~d~-~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~--~~~~d~~~~l~~ik~~--~~~viil~~~~~~~~ 191 (458)
++++++..... ......+.+++++++.|+.+ ......... .+..+-.+.++++-+. .+++|++ ++...+.
T Consensus 110 ~~i~~i~~~~~~~~~~R~~gf~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~ 184 (265)
T cd01543 110 RHFAFYGLPGARWSDEREEAFRQLVAEAGYEC----SFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVGIFA-CTDARAR 184 (265)
T ss_pred cEEEEEcCCCCHHHHHHHHHHHHHHHHcCCcc----ccccCccccccccHHHHHHHHHHHHhcCCCCcEEEe-cChHHHH
Confidence 99999975543 23456788999999887432 000000011 0111223445554333 3455444 4556778
Q ss_pred HHHHHHHhcCCccc-ceEEEeeccccccCCCCCeeEEEEecCCCchhHHHHHHHHHHHHHH
Q psy17441 192 IIFKDAQYLNMTET-GYVWIVTEQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVLTSAL 251 (458)
Q Consensus 192 ~il~~a~~~g~~~~-~~~wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~la~Al 251 (458)
.+++.+++.|+.-+ +...+.-|.......+..+.+..-. ......++-|+.++..-+
T Consensus 185 g~~~~l~~~g~~vp~di~vigfd~~~~~~~~~~~~ltti~---~~~~~~g~~a~~~l~~~i 242 (265)
T cd01543 185 QLLEACRRAGIAVPEEVAVLGVDNDELICELSRPPLSSVE---QNAERIGYEAAKLLDRLM 242 (265)
T ss_pred HHHHHHHHhCCCCCCceEEEeeCCchhhhccCCCCCceee---cCHHHHHHHHHHHHHHHh
Confidence 88999999998533 3445555533221122222221111 123456677777665544
No 182
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=93.71 E-value=7.5 Score=38.04 Aligned_cols=218 Identities=16% Similarity=0.105 Sum_probs=105.6
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+. .....+..+. ....+.++.++|.+||-. |..+. .......-+...+||+|...+..+. .. ..++
T Consensus 53 G~~v~~~-~~~~~d~~~q-~~~i~~li~~~vdgIiv~-~~d~~-al~~~l~~a~~~gIpVV~~d~~~~~---~~--~~~~ 123 (336)
T PRK15408 53 GVDVTYD-GPTEPSVSGQ-VQLINNFVNQGYNAIIVS-AVSPD-GLCPALKRAMQRGVKVLTWDSDTKP---EC--RSYY 123 (336)
T ss_pred CCEEEEE-CCCCCCHHHH-HHHHHHHHHcCCCEEEEe-cCCHH-HHHHHHHHHHHCCCeEEEeCCCCCC---cc--ceEE
Confidence 5666543 2223344333 345667778999888862 33322 2234555567789999998764321 11 1111
Q ss_pred ecCCCchhHHHHHHHHHHh-c--CCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKH-F--NYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQ 169 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~-~--~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~ 169 (458)
--...+...+..+++.+.+ . +-.+++++..... ......+.+.+.+++++. ++++.....-..+...-...
T Consensus 124 V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g~~~~l~~~~p----~~~vv~~~~~~~d~~~a~~~ 199 (336)
T PRK15408 124 INQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKEAKAKIAKEHP----GWEIVTTQFGYNDATKSLQT 199 (336)
T ss_pred EecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHHHHHHHHhhCC----CCEEEeecCCCCcHHHHHHH
Confidence 1112233556555565543 3 3468998864321 233445667776654331 23332211111122222345
Q ss_pred HHHHHhccCeEEEEEeChhh-HHHHHHHHHhcCCcccceEEEeecccccc-C-CCCCeeE-EEEecCCCchhHHHHHHHH
Q psy17441 170 LYEMKNAQARVYLMYASKQD-AEIIFKDAQYLNMTETGYVWIVTEQALTA-K-NVPVGII-GLKLVNATNEDAHIRDSIY 245 (458)
Q Consensus 170 l~~ik~~~~~viil~~~~~~-~~~il~~a~~~g~~~~~~~wi~t~~~~~~-~-~~~~g~~-g~~~~~~~~~~~~~yDAv~ 245 (458)
.+++-+..+++=.++|.... +...+++.++.|+. .+-+.+-..... . .+..|.+ ++..++ .....|-++.
T Consensus 200 ~~~lL~~~pdi~aI~~~~~~~~~Ga~~Al~~~g~~---~v~VvG~D~~~~~~~~i~~G~i~~~~~~~---p~~~G~~av~ 273 (336)
T PRK15408 200 AEGILKAYPDLDAIIAPDANALPAAAQAAENLKRD---KVAIVGFSTPNVMRPYVKRGTVKEFGLWD---VVQQGKISVY 273 (336)
T ss_pred HHHHHHHCCCCcEEEECCCccHHHHHHHHHhCCCC---CEEEEEeCCcHHHHHHHhcCCcceEEecC---HHHHHHHHHH
Confidence 55655545554333333333 34578888888864 344433211111 1 1234543 232222 3346777776
Q ss_pred HHHHHH
Q psy17441 246 VLTSAL 251 (458)
Q Consensus 246 ~la~Al 251 (458)
++.+.+
T Consensus 274 ~a~~~l 279 (336)
T PRK15408 274 VANELL 279 (336)
T ss_pred HHHHHH
Confidence 655444
No 183
>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=93.64 E-value=6.3 Score=37.00 Aligned_cols=157 Identities=13% Similarity=0.027 Sum_probs=91.8
Q ss_pred hhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEE
Q psy17441 40 LISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKV 119 (458)
Q Consensus 40 l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v 119 (458)
+...+|.++|-. +... ....+. .+...++|+|..+...+ +...++++ ...+..-+..+++.+...|.+++
T Consensus 52 l~~~~vdgiIi~-~~~~--~~~~~~-~l~~~~iPvV~i~~~~~---~~~~~~~V---~~d~~~~~~~a~~~L~~~G~~~I 121 (269)
T cd06287 52 LDALDIDGAILV-EPMA--DDPQVA-RLRQRGIPVVSIGRPPG---DRTDVPYV---DLQSAATARMLLEHLRAQGARQI 121 (269)
T ss_pred hhccCcCeEEEe-cCCC--CCHHHH-HHHHcCCCEEEeCCCCC---CCCCCCeE---eeCcHHHHHHHHHHHHHcCCCcE
Confidence 335678887741 2111 112233 34567999998865321 01122332 34455555677788888899999
Q ss_pred EEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc--cCeEEEEEeChhhHHHHHH
Q psy17441 120 IFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA--QARVYLMYASKQDAEIIFK 195 (458)
Q Consensus 120 ~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~--~~~viil~~~~~~~~~il~ 195 (458)
++|.... .........+++.+++.|+.. .+. ......+.++-.+.++++.+. .+++|++ ++...+..+++
T Consensus 122 ~~i~~~~~~~~~~~R~~gf~~a~~~~g~~~----~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~gvl~ 195 (269)
T cd06287 122 ALIVGSARRNSYLEAEAAYRAFAAEHGMPP----VVL-RVDEAGGEEAGYAACAQLLAQHPDLDALCV-PVDAFAVGAVR 195 (269)
T ss_pred EEEeCCcccccHHHHHHHHHHHHHHcCCCc----cee-EecCCCChHHHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHH
Confidence 9996432 345567788999999887432 111 111111222333455555433 3565554 46677889999
Q ss_pred HHHhcCCcccceEEEee
Q psy17441 196 DAQYLNMTETGYVWIVT 212 (458)
Q Consensus 196 ~a~~~g~~~~~~~wi~t 212 (458)
.+++.|+.-++.+=|++
T Consensus 196 al~~~gl~vP~dvsvig 212 (269)
T cd06287 196 AATELGRAVPDQLRVVT 212 (269)
T ss_pred HHHHcCCCCCCceEEEe
Confidence 99999998766665554
No 184
>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=93.63 E-value=1.6 Score=40.37 Aligned_cols=135 Identities=7% Similarity=-0.023 Sum_probs=84.6
Q ss_pred HHHHhhcccCCcEEeeecCCCCCCC-Ccccccee---ecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHH
Q psy17441 62 AVSYTSGFYHIPVIGISSRDSAFSD-KNIHVSFL---RTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQ 137 (458)
Q Consensus 62 ~~~~i~~~~~iP~Is~~a~~~~ls~-~~~~p~~~---r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~ 137 (458)
+++.+....++=.|.|++|+..+-. .+.----. +...+-..-..|+.+-++++|-+|++++.. |-.+.-+.+.
T Consensus 62 aa~~ll~~a~~dvi~~~cTsgs~~~G~~~~~~~i~~~~~g~p~tt~~~A~~~AL~alg~~RIalvTP---Y~~~v~~~~~ 138 (239)
T TIGR02990 62 AAALILPDEELDVVAYSCTSASVVIGDDEVTRAINAAKPGTPVVTPSSAAVDGLAALGVRRISLLTP---YTPETSRPMA 138 (239)
T ss_pred HHHHhcCCCCCCEEEEccchhheecCHHHHHHHHHhcCCCCCeeCHHHHHHHHHHHcCCCEEEEECC---CcHHHHHHHH
Confidence 3344445567777888887765421 10000001 112344556678899999999999999965 7777789999
Q ss_pred HhhhccCCcceeeEEEEE--EEEe-CCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHh
Q psy17441 138 TTSQNQEDDVEIKVQVEA--VIEF-EPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQY 199 (458)
Q Consensus 138 ~~l~~~gi~v~~~~~v~~--~~~~-~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~ 199 (458)
+.+++.|++|........ ...+ ..+...+.+.++++...++|.|++.|..-....++.++.+
T Consensus 139 ~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aDAifisCTnLrt~~vi~~lE~ 203 (239)
T TIGR02990 139 QYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDADALFLSCTALRAATCAQRIEQ 203 (239)
T ss_pred HHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCCEEEEeCCCchhHHHHHHHHH
Confidence 999999965521101000 0011 1123445556666667889999999999888888888854
No 185
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=93.39 E-value=6.3 Score=38.48 Aligned_cols=160 Identities=14% Similarity=0.054 Sum_probs=89.7
Q ss_pred HHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCc-EEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHh
Q psy17441 35 SVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIP-VIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKH 113 (458)
Q Consensus 35 ~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP-~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~ 113 (458)
...+.+.++++.++|- ..... ....+..+.. ++| ++......+. . .+++ +...+..-+..+++++..
T Consensus 106 ~~i~~l~~~~vdGiIi--~~~~~-~~~~~~~~~~--~~p~vV~i~~~~~~---~-~~~~---V~~D~~~~~~~a~~~L~~ 173 (346)
T PRK10401 106 HAIEVLIRQRCNALIV--HSKAL-SDDELAQFMD--QIPGMVLINRVVPG---Y-AHRC---VCLDNVSGARMATRMLLN 173 (346)
T ss_pred HHHHHHHhcCCCEEEE--eCCCC-ChHHHHHHHh--cCCCEEEEecccCC---C-CCCE---EEECcHHHHHHHHHHHHH
Confidence 3455566778888875 21111 2233444444 355 6765542221 1 1232 223444445566778888
Q ss_pred cCCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc--cCeEEEEEeChhh
Q psy17441 114 FNYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA--QARVYLMYASKQD 189 (458)
Q Consensus 114 ~~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~--~~~viil~~~~~~ 189 (458)
.|-+++++|.... .......+.+.+.+++.|+.+.. . ....-..+...-...++++.+. .+++|++ ++...
T Consensus 174 ~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~--~--~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~nd~~ 248 (346)
T PRK10401 174 NGHQRIGYLSSSHGIEDDAMRRAGWMSALKEQGIIPPE--S--WIGTGTPDMQGGEAAMVELLGRNLQLTAVFA-YNDNM 248 (346)
T ss_pred CCCCeEEEEeCCCcCcchHHHHHHHHHHHHHcCCCCCh--h--heecCCCChHHHHHHHHHHHcCCCCCcEEEE-CCcHH
Confidence 8999999996543 24567789999999998854311 0 0111111112223444554432 3566665 45667
Q ss_pred HHHHHHHHHhcCCcccceEEEe
Q psy17441 190 AEIIFKDAQYLNMTETGYVWIV 211 (458)
Q Consensus 190 ~~~il~~a~~~g~~~~~~~wi~ 211 (458)
+..+++++++.|+.-++.+-++
T Consensus 249 A~g~~~al~~~G~~vP~disvi 270 (346)
T PRK10401 249 AAGALTALKDNGIAIPLHLSII 270 (346)
T ss_pred HHHHHHHHHHcCCCCCCceEEE
Confidence 7889999999999766555444
No 186
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=93.30 E-value=5.1 Score=38.71 Aligned_cols=199 Identities=16% Similarity=0.126 Sum_probs=109.4
Q ss_pred eeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCc
Q psy17441 21 TGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPY 100 (458)
Q Consensus 21 ~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~ 100 (458)
...+...++...... .+.++.+++.+|+- .|..+. ....+..-+...+||+|......+.- ... -.++ ....
T Consensus 69 ~~~~~~~d~~~Q~~~-i~~~ia~~~daIiv-~~~d~~-~~~~~v~~a~~aGIpVv~~d~~~~~~--~~~-~~~v--g~dn 140 (322)
T COG1879 69 VIADAQNDVAKQIAQ-IEDLIAQGVDAIII-NPVDPD-ALTPAVKKAKAAGIPVVTVDSDIPGP--GDR-VAYV--GSDN 140 (322)
T ss_pred EecccccChHHHHHH-HHHHHHcCCCEEEE-cCCChh-hhHHHHHHHHHCCCcEEEEecCCCCC--Cce-eEEE--ecCc
Confidence 344444555444444 44556889988886 366664 67778888899999999988754322 111 1222 2234
Q ss_pred hhHHHHHHHHH-HhcCC-eEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc
Q psy17441 101 SHQADVWVELL-KHFNY-MKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA 176 (458)
Q Consensus 101 ~~~~~ai~~ll-~~~~w-~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~ 176 (458)
...+...++.+ ++++= .++.++... ..........+++.+++.+.. ..+.....-..+...-.+..+.+-+.
T Consensus 141 ~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R~~G~~~~l~~~~~~----~~v~~~~~~~~~~~~a~~~~~~~L~~ 216 (322)
T COG1879 141 YKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEERVKGFRDALKEHPPD----IEVVDVQTGDWDRDKALEVMEDLLAA 216 (322)
T ss_pred HHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHHHhhHHHHHHhCCCc----EEEeeccCCcccHHHHHHHHHHHHHh
Confidence 44444445544 33332 446666533 334667788999999886511 22222111111233344566666667
Q ss_pred cCeEEEEEeCh-hhHHHHHHHHHhcCCcccceEEEe-eccccccC-CCCCe-eEEEEecCC
Q psy17441 177 QARVYLMYASK-QDAEIIFKDAQYLNMTETGYVWIV-TEQALTAK-NVPVG-IIGLKLVNA 233 (458)
Q Consensus 177 ~~~viil~~~~-~~~~~il~~a~~~g~~~~~~~wi~-t~~~~~~~-~~~~g-~~g~~~~~~ 233 (458)
.+++-.+++.. ..+....++.++.|..+ .+.+. .|...... .+..| +.++....|
T Consensus 217 ~pdi~~i~~~~d~~a~ga~~A~~~~g~~~--~v~v~g~D~~~~~~~~i~~G~~~~~v~q~p 275 (322)
T COG1879 217 NPDIDGIYAANDGMALGAIQALKAAGRKG--DVVVVGFDGTPDALKALKDGKLDATVLQDP 275 (322)
T ss_pred CCCceEEEECCchhHHHHHHHHHHcCCCC--ceEEEEecCCHHHHHHHHcCCceEEEecCH
Confidence 77766555544 44555566777788765 45555 44332222 23455 555554444
No 187
>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=92.89 E-value=4.5 Score=37.83 Aligned_cols=154 Identities=11% Similarity=0.048 Sum_probs=89.5
Q ss_pred cCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEE
Q psy17441 42 SERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIF 121 (458)
Q Consensus 42 ~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~i 121 (458)
.+++.++|-.++ .+ . .....+...++|+|......+ + ..+++ +...+...+..+++.+...|-+++++
T Consensus 50 ~~~vdgii~~~~-~~--~--~~~~~~~~~~~pvV~~~~~~~---~-~~~~~---v~~D~~~a~~~~~~~l~~~g~~~i~~ 117 (270)
T cd01544 50 LEDVDGIIAIGK-FS--Q--EQLAKLAKLNPNLVFVDSNPA---P-DGFDS---VVPDFEQAVEKALDYLLELGHTRIGF 117 (270)
T ss_pred ccCcCEEEEecC-CC--H--HHHHHHHhhCCCEEEECCCCC---C-CCCCE---EEECHHHHHHHHHHHHHHcCCCcEEE
Confidence 567777774112 12 1 334445667899998865321 1 12333 33456666677778888789999999
Q ss_pred EEecCc-------chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc----cCeEEEEEeChhhH
Q psy17441 122 IHSSDT-------DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA----QARVYLMYASKQDA 190 (458)
Q Consensus 122 i~~~d~-------~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~----~~~viil~~~~~~~ 190 (458)
+..... ......+.+++.+.+.|+ . ..+. ...-..+..+-...++++.+. .+++|++ ++...+
T Consensus 118 i~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~-~--~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~-~~d~~a 191 (270)
T cd01544 118 IGGEEKTTDGHEYIEDPRETAFREYMKEKGL-Y--DPEL--IYIGDFTVESGYQLMKEALKSLGDNLPTAFFI-ASDPMA 191 (270)
T ss_pred ECCCcccccccchhhhHHHHHHHHHHHHcCC-C--Chhe--EeeCCCCHHHHHHHHHHHHhccCCCCCCEEEE-cCcHHH
Confidence 976542 345567889999988773 1 1111 111111222223444454332 2455554 566778
Q ss_pred HHHHHHHHhcCCcccceEEEeec
Q psy17441 191 EIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 191 ~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
..+++.+++.|+.-++.+-|++-
T Consensus 192 ~g~~~~l~~~g~~vp~di~v~g~ 214 (270)
T cd01544 192 IGALRALQEAGIKVPEDVSVISF 214 (270)
T ss_pred HHHHHHHHHcCCCCCCceEEEEE
Confidence 88999999999875544444433
No 188
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=92.04 E-value=11 Score=35.78 Aligned_cols=199 Identities=9% Similarity=-0.012 Sum_probs=102.9
Q ss_pred HHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhc
Q psy17441 35 SVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHF 114 (458)
Q Consensus 35 ~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~ 114 (458)
...+.+...++.+||= ..+.. ...... .......|++..+...+. ..+++ +...+...+...++.+...
T Consensus 82 ~~i~~l~~~~vDgiIi--~~~~~-~~~~~~-~~~~~~~pvv~~~~~~~~----~~~~~---V~~Dn~~~g~~a~~~l~~~ 150 (309)
T PRK11041 82 TFVNLIITKQIDGMLL--LGSRL-PFDASK-EEQRNLPPMVMANEFAPE----LELPT---VHIDNLTAAFEAVNYLHEL 150 (309)
T ss_pred HHHHHHHHcCCCEEEE--ecCCC-ChHHHH-HHHhcCCCEEEEccccCC----CCCCE---EEECcHHHHHHHHHHHHHc
Confidence 3445565677877774 21111 111111 122222366665443221 11233 2345555666777777778
Q ss_pred CCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc--cCeEEEEEeChhhH
Q psy17441 115 NYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA--QARVYLMYASKQDA 190 (458)
Q Consensus 115 ~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~--~~~viil~~~~~~~ 190 (458)
|-+++++|..... ......+.|++.+++.|+.+. .................+.++.+. .+++|++ ++...+
T Consensus 151 G~~~I~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a 225 (309)
T PRK11041 151 GHKRIACIAGPEEMPLCHYRLQGYVQALRRCGITVD----PQYIARGDFTFEAGAKALKQLLDLPQPPTAVFC-HSDVMA 225 (309)
T ss_pred CCceEEEEeCCccccchHHHHHHHHHHHHHcCCCCC----HHHeEeCCCCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHH
Confidence 9999999975433 345678889999988874431 001111111222334555666543 3667665 455667
Q ss_pred HHHHHHHHhcCCcccceEEEeeccccccCCCCCeeEEEEecCCCchhHHHHHHHHHHHHHHH
Q psy17441 191 EIIFKDAQYLNMTETGYVWIVTEQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVLTSALK 252 (458)
Q Consensus 191 ~~il~~a~~~g~~~~~~~wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~la~Al~ 252 (458)
..++++.++.|+.-++.+.|++-............+.. -.......++-|+.++...++
T Consensus 226 ~gv~~al~~~g~~ip~di~vvg~D~~~~~~~~~~~~~t---i~~~~~~~g~~av~~l~~~~~ 284 (309)
T PRK11041 226 LGALSQAKRMGLRVPQDLSIIGFDDIDLAQYCDPPLTT---VAQPRYEIGREAMLLLLEQLQ 284 (309)
T ss_pred HHHHHHHHHcCCCCCcceEEEEeCCchhhhhcCCCceE---EecCHHHHHHHHHHHHHHHhh
Confidence 78899999999865555655543222111111111111 111344567777777665553
No 189
>KOG3684|consensus
Probab=91.68 E-value=0.21 Score=49.28 Aligned_cols=54 Identities=17% Similarity=0.270 Sum_probs=43.5
Q ss_pred cccccchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHHHHHHhhccccee
Q psy17441 334 DALNLSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLA 387 (458)
Q Consensus 334 ~~~~~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~~i~~~~yta~l~ 387 (458)
...++.+++|+...+++.-|+||..|.+..||.++++=...+..+.+.-.|-++
T Consensus 284 ~~~~~~nsmWli~iTFlsiGYGDiVP~TycGr~v~l~tGivGa~~sallvAvis 337 (489)
T KOG3684|consen 284 VTINYLNSMWLIAITFLSIGYGDIVPNTYCGRGVALLTGIVGAGCSSLLVAVIA 337 (489)
T ss_pred hHHHHHhhHHHHHHHHhhcccCcccCCccccchHHHHhhhhhhhHHHHHHHHHH
Confidence 455789999999999999999999999999999987766666555555555443
No 190
>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=91.52 E-value=1.8 Score=36.77 Aligned_cols=99 Identities=10% Similarity=0.131 Sum_probs=61.6
Q ss_pred HHHHHhcCCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHH-HHHhccCeEEEEE
Q psy17441 108 VELLKHFNYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLY-EMKNAQARVYLMY 184 (458)
Q Consensus 108 ~~ll~~~~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~-~ik~~~~~viil~ 184 (458)
++.+..-|.++++++.... .+.....+.+++.+++.|+.. .. ..........+...... .+++..+++|++
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~----~~-~~~~~~~~~~~~~~~~~~~l~~~~pdaii~- 74 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEF----EE-LIFFSDDDSEDAREAQLLWLRRLRPDAIIC- 74 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEE----EG-EEEEESSSHHHHHHHHHHHHHTCSSSEEEE-
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCC----Ce-eEeecCCcchhHHHHHHHHHhcCCCcEEEE-
Confidence 4567788999999999433 355677899999999988432 11 11112222222322222 244346676666
Q ss_pred eChhhHHHHHHHHHhcCCcccceEEEee
Q psy17441 185 ASKQDAEIIFKDAQYLNMTETGYVWIVT 212 (458)
Q Consensus 185 ~~~~~~~~il~~a~~~g~~~~~~~wi~t 212 (458)
++...+..+++.+.+.|+.-++.+-+++
T Consensus 75 ~~~~~a~~~~~~l~~~g~~vP~di~vv~ 102 (160)
T PF13377_consen 75 SNDRLALGVLRALRELGIRVPQDISVVS 102 (160)
T ss_dssp SSHHHHHHHHHHHHHTTSCTTTTSEEEE
T ss_pred cCHHHHHHHHHHHHHcCCcccccccEEE
Confidence 7778899999999999996554444443
No 191
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=89.98 E-value=6.5 Score=35.02 Aligned_cols=135 Identities=10% Similarity=-0.025 Sum_probs=80.3
Q ss_pred HHHHHhhcccCCcEEeeecCCCCCCCCccccc-ee-ec----CCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHH
Q psy17441 61 AAVSYTSGFYHIPVIGISSRDSAFSDKNIHVS-FL-RT----VPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLG 134 (458)
Q Consensus 61 ~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~-~~-r~----~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~ 134 (458)
..++..+...++-+|.|++++..+..-..|.- +- |+ --+...-+.|.++-|+.++-+++.++. +|-.+.-+
T Consensus 57 ~~aAl~Lada~vdvI~Y~CtsgS~i~G~~~d~ei~~~ie~~~~v~vvTts~Avv~aL~al~a~ri~vlT---PY~~evn~ 133 (238)
T COG3473 57 ERAALELADAGVDVIVYGCTSGSLIGGPGYDKEIAQRIEEAKGVPVVTTSTAVVEALNALGAQRISVLT---PYIDEVNQ 133 (238)
T ss_pred HHHHHhcCccccCEEEEeccceeeecCCchhHHHHHHHHhccCCceeechHHHHHHHHhhCcceEEEec---cchhhhhh
Confidence 44556666777888888887766543222210 00 00 001112335778889999999999995 46666778
Q ss_pred HHHHhhhccCCcceeeEEEEEEEEeCCCccc---HHHHHHHHHhccCeEEEEEeChhhHHHHHHHHH
Q psy17441 135 RFQTTSQNQEDDVEIKVQVEAVIEFEPGLTT---FKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQ 198 (458)
Q Consensus 135 ~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d---~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~ 198 (458)
...+.++++|+.|..-.+.-.......+..+ ..+..+++...++|.|++.|..-....++....
T Consensus 134 ~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~DaiFiSCTnlRt~eii~~lE 200 (238)
T COG3473 134 REIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADAIFISCTNLRTFEIIEKLE 200 (238)
T ss_pred HHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCeEEEEeeccccHHHHHHHH
Confidence 8889999999554222221111111112222 334455666788999999988766666666654
No 192
>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=89.61 E-value=7.1 Score=34.10 Aligned_cols=102 Identities=5% Similarity=-0.079 Sum_probs=64.9
Q ss_pred hHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEE
Q psy17441 102 HQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVY 181 (458)
Q Consensus 102 ~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~vi 181 (458)
+....+.+.+..-++ ++.++...+.......+.+++.... +.++....-+-+..+...+++.|+++++|+|
T Consensus 35 dl~~~l~~~~~~~~~-~ifllG~~~~~~~~~~~~l~~~yP~--------l~ivg~~~g~f~~~~~~~i~~~I~~~~pdiv 105 (172)
T PF03808_consen 35 DLFPDLLRRAEQRGK-RIFLLGGSEEVLEKAAANLRRRYPG--------LRIVGYHHGYFDEEEEEAIINRINASGPDIV 105 (172)
T ss_pred HHHHHHHHHHHHcCC-eEEEEeCCHHHHHHHHHHHHHHCCC--------eEEEEecCCCCChhhHHHHHHHHHHcCCCEE
Confidence 344555555555554 8888887766554444444444432 4444333222256678899999999999999
Q ss_pred EEEeChhhHHHHHHHHHhcCCcccceEEEeeccc
Q psy17441 182 LMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQA 215 (458)
Q Consensus 182 il~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~ 215 (458)
++....+.-..++.+.++..-. .+|+...+.
T Consensus 106 ~vglG~PkQE~~~~~~~~~l~~---~v~i~vG~~ 136 (172)
T PF03808_consen 106 FVGLGAPKQERWIARHRQRLPA---GVIIGVGGA 136 (172)
T ss_pred EEECCCCHHHHHHHHHHHHCCC---CEEEEECch
Confidence 9987777667777766655433 377776654
No 193
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=88.94 E-value=12 Score=36.17 Aligned_cols=151 Identities=8% Similarity=0.001 Sum_probs=84.7
Q ss_pred CCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEE
Q psy17441 43 ERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFI 122 (458)
Q Consensus 43 ~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii 122 (458)
.+|.++|-. + .. . ......+...++|+|..+...+ ...+++ +...+..-+..+++.+...|.++++++
T Consensus 113 ~~vDgiI~~-~-~~--~-~~~~~~l~~~~~pvV~~~~~~~----~~~~~~---V~~D~~~~~~~a~~~l~~~G~~~i~~i 180 (327)
T PRK10339 113 KNVTGILIV-G-KP--T-PALRAAASALTDNICFIDFHEP----GSGYDA---VDIDLARISKEIIDFYINQGVNRIGFI 180 (327)
T ss_pred ccCCEEEEe-C-CC--C-HHHHHHHHhcCCCEEEEeCCCC----CCCCCE---EEECHHHHHHHHHHHHHHCCCCeEEEe
Confidence 456677652 2 11 1 2333445677899998754321 111232 334555555677788888899999999
Q ss_pred EecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc--cCeEEEEEeChhhHHHHHHHHH
Q psy17441 123 HSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA--QARVYLMYASKQDAEIIFKDAQ 198 (458)
Q Consensus 123 ~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~--~~~viil~~~~~~~~~il~~a~ 198 (458)
..... ........+.+.++..|+ +. ... ....+....+....++++.+. .+++|++ ++...+..++++++
T Consensus 181 ~~~~~~~~~~~R~~gf~~~~~~~g~-~~--~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~-~~D~~A~g~~~al~ 254 (327)
T PRK10339 181 GGEDEPGKADIREVAFAEYGRLKQV-VR--EED--IWRGGFSSSSGYELAKQMLAREDYPKALFV-ASDSIAIGVLRAIH 254 (327)
T ss_pred CCccccchhhHHHHHHHHHHHHcCC-CC--hhh--eeecCcChhHHHHHHHHHHhCCCCCCEEEE-CCcHHHHHHHHHHH
Confidence 64432 344566778888887763 10 000 001111122233445555432 3555554 45567888999999
Q ss_pred hcCCcccceEEEe
Q psy17441 199 YLNMTETGYVWIV 211 (458)
Q Consensus 199 ~~g~~~~~~~wi~ 211 (458)
+.|+.-++.+-|+
T Consensus 255 ~~g~~vP~di~vi 267 (327)
T PRK10339 255 ERGLNIPQDISLI 267 (327)
T ss_pred HcCCCCCCceEEE
Confidence 9998755444333
No 194
>KOG1418|consensus
Probab=88.81 E-value=0.18 Score=50.82 Aligned_cols=60 Identities=23% Similarity=0.421 Sum_probs=51.1
Q ss_pred ccccccccchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHHHHHHhhcccceeEEe
Q psy17441 331 TEEDALNLSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFL 390 (458)
Q Consensus 331 ~~~~~~~~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~~i~~~~yta~l~s~l 390 (458)
......++.+++.|++.++++-|+|+..|++..||+.+++|.++++=++-..-+++.-+|
T Consensus 109 ~~~~~W~f~~al~fs~tv~TTIGYG~i~P~T~~Gr~~~i~YaliGIPl~li~l~~~g~~l 168 (433)
T KOG1418|consen 109 PDTQQWSFSSALLFSITVITTIGYGNIAPRTDAGRLFTILYALVGIPLMLLILADIGKFL 168 (433)
T ss_pred CCCcceecchhHhhhhheeeeccCCcccCCcCcchhHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 345567899999999999999999999999999999999999999877765555555554
No 195
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=87.69 E-value=28 Score=33.78 Aligned_cols=179 Identities=11% Similarity=0.017 Sum_probs=97.6
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+. ....++ +......+.+.++++.++|=. +.... ........+...++|+|......+ +.. ...
T Consensus 55 g~~l~i~--~~~~~~-~~~~~~i~~l~~~~vDGiIi~-~~~~~-~~~~~l~~~~~~~iPvV~id~~~~---~~~---~~~ 123 (330)
T PRK10355 55 GAKVFVQ--SANGNE-ETQMSQIENMINRGVDVLVII-PYNGQ-VLSNVIKEAKQEGIKVLAYDRMIN---NAD---IDF 123 (330)
T ss_pred CCEEEEE--CCCCCH-HHHHHHHHHHHHcCCCEEEEe-CCChh-hHHHHHHHHHHCCCeEEEECCCCC---CCC---ccE
Confidence 4554443 333344 233344566767889888751 22111 112344556788999998855321 111 112
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecC---cchhHHHHHHHHhhhcc---CCcceeeEEEEEEEEe-CCCcccHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSD---TDGRALLGRFQTTSQNQ---EDDVEIKVQVEAVIEF-EPGLTTFK 167 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d---~~g~~~~~~l~~~l~~~---gi~v~~~~~v~~~~~~-~~~~~d~~ 167 (458)
.+.+.+..-+..++++|...|-++++++.... .......+.+++.++++ | ++.+...... ..+..+-.
T Consensus 124 ~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~~~R~~gf~~~l~~~~~~~-----~i~~~~~~~~~~~~~~~~~ 198 (330)
T PRK10355 124 YISFDNEKVGELQAKALVDKVPQGNYFLMGGSPVDNNAKLFRAGQMKVLKPYIDSG-----KIKVVGDQWVDGWLPENAL 198 (330)
T ss_pred EEecCHHHHHHHHHHHHHHhcCCCCEEEEeCCCCCccHHHHHHHHHHHHhhhccCC-----CeEEecccCCCCCCHHHHH
Confidence 45667777888888988777888877654322 23455677788887753 2 1221111101 11112223
Q ss_pred HHHHHHH-h--ccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEee
Q psy17441 168 DQLYEMK-N--AQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVT 212 (458)
Q Consensus 168 ~~l~~ik-~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t 212 (458)
..++++. + ..+++|++ .+...+..+++++++.|+. +.+.|.+
T Consensus 199 ~~~~~lL~~~~~~~~aI~~-~nD~~A~g~l~al~~~g~~--~di~IiG 243 (330)
T PRK10355 199 KIMENALTANNNKIDAVVA-SNDATAGGAIQALSAQGLS--GKVAISG 243 (330)
T ss_pred HHHHHHHHhCCCCccEEEE-CCCchHHHHHHHHHHCCCC--CCceEEc
Confidence 4444443 2 23555444 5556677899999999986 2455555
No 196
>KOG0498|consensus
Probab=87.42 E-value=0.49 Score=50.45 Aligned_cols=53 Identities=17% Similarity=0.360 Sum_probs=50.7
Q ss_pred cchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHHHHHHhhcccceeEEe
Q psy17441 338 LSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFL 390 (458)
Q Consensus 338 ~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~~i~~~~yta~l~s~l 390 (458)
+.-++||++.+|+..|++...|.+.+-.+.+++.+++++++.++.-+|+++++
T Consensus 295 Y~~aLyw~l~tLstvG~g~~~s~~~~E~iFsi~~mi~GllL~A~lIGNmt~~i 347 (727)
T KOG0498|consen 295 YVYALYWGLSTLSTVGYGLVHANNMGEKIFSIFIMLFGLLLFAYLIGNMTALL 347 (727)
T ss_pred HHHHHHHHhhHhhhccCCccCCCCcHHHHHHHHHHHHhHHHHHHHHhhHHHhH
Confidence 45799999999999999999999999999999999999999999999999987
No 197
>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=85.82 E-value=16 Score=31.92 Aligned_cols=101 Identities=9% Similarity=0.015 Sum_probs=62.2
Q ss_pred hHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEE
Q psy17441 102 HQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVY 181 (458)
Q Consensus 102 ~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~vi 181 (458)
+....+.+.+...+ .++.++....+......+.+++.... +.++....-+.+..+-...+++|+++++|+|
T Consensus 33 dl~~~ll~~~~~~~-~~v~llG~~~~~~~~~~~~l~~~yp~--------l~i~g~~~g~~~~~~~~~i~~~I~~~~pdiv 103 (171)
T cd06533 33 DLMPALLELAAQKG-LRVFLLGAKPEVLEKAAERLRARYPG--------LKIVGYHHGYFGPEEEEEIIERINASGADIL 103 (171)
T ss_pred HHHHHHHHHHHHcC-CeEEEECCCHHHHHHHHHHHHHHCCC--------cEEEEecCCCCChhhHHHHHHHHHHcCCCEE
Confidence 34445555554444 67888887766655555555554442 4444422222234444558899999999999
Q ss_pred EEEeChhhHHHHHHHHHhcCCcccceEEEeecc
Q psy17441 182 LMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 182 il~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~ 214 (458)
++....+.-..++.+..+..-. -+++...+
T Consensus 104 ~vglG~PkQE~~~~~~~~~l~~---~v~~~vG~ 133 (171)
T cd06533 104 FVGLGAPKQELWIARHKDRLPV---PVAIGVGG 133 (171)
T ss_pred EEECCCCHHHHHHHHHHHHCCC---CEEEEece
Confidence 9998777777777776655422 46666554
No 198
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=85.39 E-value=32 Score=32.13 Aligned_cols=169 Identities=14% Similarity=0.059 Sum_probs=83.9
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+.. ...++ .......+.+.+++...||+ .... ...++..++..+ |-+.+...+.....++...+.|
T Consensus 31 gv~~~~~e--~~~~~-~~~~~~i~~~~~~g~dlIi~--~g~~--~~~~~~~vA~~~--p~~~F~~~d~~~~~~Nv~~~~~ 101 (258)
T cd06353 31 GVEVTYVE--NVPEG-ADAERVLRELAAQGYDLIFG--TSFG--FMDAALKVAKEY--PDVKFEHCSGYKTAPNVGSYFA 101 (258)
T ss_pred CCeEEEEe--cCCch-HhHHHHHHHHHHcCCCEEEE--Cchh--hhHHHHHHHHHC--CCCEEEECCCCCCCCCeeeEec
Confidence 45555543 22222 33445566677889999998 3322 445566666665 3222222222121122112222
Q ss_pred ecCCCchhHHHHHHHHHHhcCCeEEEEEEecCc-chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC-CcccHHHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYMKVIFIHSSDT-DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP-GLTTFKDQLYE 172 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~-~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~-~~~d~~~~l~~ 172 (458)
|.- .....+-.++..+. +-.+|++|...+. ........|.+-++..+. ++++.....-+- +...-....+.
T Consensus 102 ~~~-e~~ylaG~~Aa~~t--~t~kVG~I~g~~~~~~~~~~~gF~~G~~~~~p----~~~v~~~~~g~~~D~~~a~~~a~~ 174 (258)
T cd06353 102 RIY-EGRYLAGVVAGKMT--KTNKVGYVAAFPIPEVVRGINAFALGARSVNP----DATVKVIWTGSWFDPAKEKEAALA 174 (258)
T ss_pred hhh-HHHHHHHHHHHHhh--cCCcEEEEcCcccHHHHHHHHHHHHHHHHHCC----CcEEEEEEecCCCCcHHHHHHHHH
Confidence 221 11122223444433 3368999976543 233445667666654432 233222111111 22233556667
Q ss_pred HHhccCeEEEEEeChhhHHHHHHHHHhcCC
Q psy17441 173 MKNAQARVYLMYASKQDAEIIFKDAQYLNM 202 (458)
Q Consensus 173 ik~~~~~viil~~~~~~~~~il~~a~~~g~ 202 (458)
+.+.++|+|+-.+ .....+++|++.|.
T Consensus 175 l~~~G~DvI~~~~---~~~g~~~aa~~~g~ 201 (258)
T cd06353 175 LIDQGADVIYQHT---DSPGVIQAAEEKGV 201 (258)
T ss_pred HHHCCCcEEEecC---CChHHHHHHHHhCC
Confidence 7788999888777 33467888888774
No 199
>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=84.48 E-value=36 Score=31.91 Aligned_cols=161 Identities=9% Similarity=-0.023 Sum_probs=82.3
Q ss_pred HHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccc-ceeecCCCchhHHHHHHHHHH
Q psy17441 34 LSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHV-SFLRTVPPYSHQADVWVELLK 112 (458)
Q Consensus 34 ~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p-~~~r~~p~~~~~~~ai~~ll~ 112 (458)
....+.+...+|.+||= ..............+...++|+|......+. .....+ .+-.+...+..-+..+++.|.
T Consensus 46 ~~~i~~l~~~~vdgiil--~~~~~~~~~~~~~~~~~~~iPvV~~d~~~~~--~~~~~~~~~~~v~~D~~~~~~~~~~~L~ 121 (280)
T cd06315 46 AAALNQAIALKPDGIVL--GGVDAAELQAELELAQKAGIPVVGWHAGPEP--GPIEEPGIFYNVTTDPLAVAEVAALYAI 121 (280)
T ss_pred HHHHHHHHHcCCCEEEE--cCCCHHHHHHHHHHHHHCCCCEEEecCCCCC--CcccCCceeEEecCCHHHHHHHHHHHHH
Confidence 34566677788888885 2221101122234455689999988653211 010001 122344555556677777776
Q ss_pred hc--CCeEEEEEEecCc-chh---HHHHHHHHhhhccCCcceeeE-EEEEEEEeCCCcccHHHHHHHHHhc---cCeEEE
Q psy17441 113 HF--NYMKVIFIHSSDT-DGR---ALLGRFQTTSQNQEDDVEIKV-QVEAVIEFEPGLTTFKDQLYEMKNA---QARVYL 182 (458)
Q Consensus 113 ~~--~w~~v~ii~~~d~-~g~---~~~~~l~~~l~~~gi~v~~~~-~v~~~~~~~~~~~d~~~~l~~ik~~---~~~vii 182 (458)
.. |-++++++...+. ... ...+.+.+.+++.+ + .... .............++++.+. .+++|+
T Consensus 122 ~~~~G~~~i~~i~~~~~~~~~~r~~~~~~~~~a~~~~~------~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~ai~ 194 (280)
T cd06315 122 ANSGGKAGVVIFTDSRFSIAKAKANAMKEIIEACKGCT------VLSIED-VPISRTATRMPALTARLLQRYGDKWTHSL 194 (280)
T ss_pred HHcCCCceEEEEeCCCCccHHHHHHHHHHHHHhCCCCE------EEEecc-cCcchhhhhhHHHHHHHHHhcCcccceec
Confidence 65 8999999964322 221 34445555554332 1 1110 01111111112344444332 245544
Q ss_pred EEeChhhHHHHHHHHHhcCCcccc
Q psy17441 183 MYASKQDAEIIFKDAQYLNMTETG 206 (458)
Q Consensus 183 l~~~~~~~~~il~~a~~~g~~~~~ 206 (458)
+++...+..+++.+++.|+..++
T Consensus 195 -~~~D~~A~g~~~~l~~~g~~~p~ 217 (280)
T cd06315 195 -AINDLYFDYMAPPLASAGRKADE 217 (280)
T ss_pred -ccchhhhHHhHHHHHHhcccCCC
Confidence 45556778889999999987543
No 200
>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=84.13 E-value=40 Score=32.15 Aligned_cols=175 Identities=10% Similarity=-0.001 Sum_probs=92.2
Q ss_pred ceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCcccccee
Q psy17441 15 GVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFL 94 (458)
Q Consensus 15 ~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~ 94 (458)
|+++.+ ++...++.. .....+.+..++|.+||=. +..+. ........+...++|+|......+ .. +...
T Consensus 28 g~~v~~--~~~~~~~~~-q~~~i~~l~~~~vDgIIi~-~~~~~-~~~~~l~~~~~~~iPvV~~d~~~~---~~---~~~~ 96 (302)
T TIGR02634 28 GAKVFV--QSANGNEAK-QISQIENLIARGVDVLVII-PQNGQ-VLSNAVQEAKDEGIKVVAYDRLIN---DA---DIDF 96 (302)
T ss_pred CCEEEE--EeCCCCHHH-HHHHHHHHHHcCCCEEEEe-CCChh-HHHHHHHHHHHCCCeEEEecCcCC---CC---CccE
Confidence 455544 334444433 3345566777888887752 22221 223444556678999998865321 11 1122
Q ss_pred ecCCCchhHHHHHHHHHHhcCCe-EEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC-CCcccHHHHH
Q psy17441 95 RTVPPYSHQADVWVELLKHFNYM-KVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE-PGLTTFKDQL 170 (458)
Q Consensus 95 r~~p~~~~~~~ai~~ll~~~~w~-~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~-~~~~d~~~~l 170 (458)
.+......-+..+++.+...+-+ +++++.... .........+++.+++..-+ .++.+....... ....+..+.+
T Consensus 97 ~V~~d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~~R~~g~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~ 174 (302)
T TIGR02634 97 YLSFDNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNAKLLRGGQMKVLQPAIDS--GDIKIVGDQWVDGWLPENALRIM 174 (302)
T ss_pred EEecCHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcchHHHHHHHHHHHhhhccC--CCeEEecCcCCCCCCHHHHHHHH
Confidence 34456666677778877666655 788876432 23444567777777653100 012211111011 1122334555
Q ss_pred HHHHh---ccCeEEEEEeChhhHHHHHHHHHhcCCc
Q psy17441 171 YEMKN---AQARVYLMYASKQDAEIIFKDAQYLNMT 203 (458)
Q Consensus 171 ~~ik~---~~~~viil~~~~~~~~~il~~a~~~g~~ 203 (458)
+++.+ ..+++|++ ++...+..+++++++.|+.
T Consensus 175 ~~ll~~~~~~~~aI~~-~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 175 ENALTANDNKVDAVVA-SNDATAGGAIQALTAQGLA 209 (302)
T ss_pred HHHHHhCCCCccEEEE-CCCchHHHHHHHHHHCCCC
Confidence 55433 23565555 4445577889999999974
No 201
>TIGR00035 asp_race aspartate racemase.
Probab=83.60 E-value=5 Score=36.86 Aligned_cols=46 Identities=15% Similarity=0.159 Sum_probs=30.2
Q ss_pred CCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEe
Q psy17441 27 PNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIG 76 (458)
Q Consensus 27 ~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is 76 (458)
.++.......++.|.+.|+.+++= + |.+ ....+..+-+..++|+|+
T Consensus 58 ~~~~~~l~~~~~~L~~~g~d~ivi--a-CNT-ah~~~~~l~~~~~iPii~ 103 (229)
T TIGR00035 58 DRPRPILIDIAVKLENAGADFIIM--P-CNT-AHKFAEDIQKAIGIPLIS 103 (229)
T ss_pred chHHHHHHHHHHHHHHcCCCEEEE--C-Ccc-HHHHHHHHHHhCCCCEec
Confidence 345666777788887788988875 3 432 222345666667888886
No 202
>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=81.63 E-value=49 Score=31.37 Aligned_cols=202 Identities=12% Similarity=0.059 Sum_probs=98.5
Q ss_pred HHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchh-HHHHHHHHH-
Q psy17441 34 LSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSH-QADVWVELL- 111 (458)
Q Consensus 34 ~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~-~~~ai~~ll- 111 (458)
....+.++++++.+||=. |..+. .......-+...+||+|......+. .. ....+...+.. .++..++.+
T Consensus 46 ~~~i~~l~~~~vdgiIi~-~~~~~-~~~~~l~~~~~~giPvV~~~~~~~~---~~---~~~~v~~~Dn~~~g~~aa~~l~ 117 (302)
T TIGR02637 46 IEVVNSLIAQKVDAIAIS-ANDPD-ALVPALKKAMKRGIKVVTWDSGVAP---EG---RNLFLNQASADLIGRTQVQLAA 117 (302)
T ss_pred HHHHHHHHHcCCCEEEEe-CCChH-HHHHHHHHHHHCCCEEEEeCCCCCC---Cc---eeEEEecCCHHHHHHHHHHHHH
Confidence 344666777888887752 32221 2222334456689999987653221 11 12222233332 333334433
Q ss_pred Hhc-CCeEEEEEEecCc--chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhcc--CeEEEEEeC
Q psy17441 112 KHF-NYMKVIFIHSSDT--DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQ--ARVYLMYAS 186 (458)
Q Consensus 112 ~~~-~w~~v~ii~~~d~--~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~--~~viil~~~ 186 (458)
+++ +-.+++++..... ......+.+++.++++|.. +..+.....-..+..+-.+.++++.+.. +++|++ ..
T Consensus 118 ~~l~~~~~I~~i~g~~~~~~~~~r~~g~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~~ai~~-~~ 193 (302)
T TIGR02637 118 EQIGNGGEIAILSAASTATNQNAWIEIMKKELKDPKYP---KVKLVATVYGDDDAQKSYQEAQGLLKSYPNLKGIIA-PT 193 (302)
T ss_pred HHcCCCcEEEEEECCCCCccHHHHHHHHHHHHhhccCC---CCEEEeeecCCchHHHHHHHHHHHHHhCCCccEEEe-CC
Confidence 332 2279999975432 2334567778877764311 1222111111112223344455554444 445554 33
Q ss_pred hhhHHHHHHHHHhcCCcccceEEEeeccc-cccCC-CCCeeE-EEEecCCCchhHHHHHHHHHHHHHHH
Q psy17441 187 KQDAEIIFKDAQYLNMTETGYVWIVTEQA-LTAKN-VPVGII-GLKLVNATNEDAHIRDSIYVLTSALK 252 (458)
Q Consensus 187 ~~~~~~il~~a~~~g~~~~~~~wi~t~~~-~~~~~-~~~g~~-g~~~~~~~~~~~~~yDAv~~la~Al~ 252 (458)
...+...++++++.|..+ .+.+.+-.. ..... +..|.+ +...+. .....|-|+.++.++++
T Consensus 194 d~~a~ga~~al~~~g~~~--~i~vvg~d~~~~~~~~l~~g~i~~~~~q~---p~~~G~~~v~~~~~~~~ 257 (302)
T TIGR02637 194 TVGIKAAAQAVSDAKLIG--KVKLTGLGLPSEMAKYVKNGTVKAFALWN---PIDLGYSAAYTAYRLSS 257 (302)
T ss_pred CchHHHHHHHHHhcCCCC--CEEEEEcCCcHHHHHHHhcCccceEEEeC---HHHHHHHHHHHHHHHHc
Confidence 456677788888888753 454444332 21112 234432 222222 23367778888776654
No 203
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=81.41 E-value=13 Score=38.08 Aligned_cols=114 Identities=13% Similarity=0.126 Sum_probs=77.8
Q ss_pred EEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcc--cCCcEEeeecCCCCCCCCccccceee
Q psy17441 18 FSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGF--YHIPVIGISSRDSAFSDKNIHVSFLR 95 (458)
Q Consensus 18 l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~--~~iP~Is~~a~~~~ls~~~~~p~~~r 95 (458)
..+.+.|+...+...... +...+|+.-|+| |.--. . +..+... ..||++.-+.++..-.... -.+|-
T Consensus 296 ~~~~i~dT~~~~l~~i~a---qaqq~G~~~VVG--PLlK~-n---Ve~L~~~~q~~i~vLALN~~~n~r~~~~--~cyfa 364 (604)
T COG3107 296 AELKIYDTSAQPLDAILA---QAQQDGADFVVG--PLLKP-N---VEALLASNQQPIPVLALNQPENSRNPAQ--LCYFA 364 (604)
T ss_pred cceeeccCCcccHHHHHH---HHHhcCCcEEec--cccch-h---HHHHHhCcCCCCceeeecCCccccCccc--ceeee
Confidence 344455555666444433 444789999999 87653 2 2222222 6788887776544322111 23455
Q ss_pred cCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccC
Q psy17441 96 TVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQE 144 (458)
Q Consensus 96 ~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~g 144 (458)
.+|. ++++..++.+-.-|.+...++...+++|+...++|.+++++.|
T Consensus 365 LSPE--DEa~~AA~~l~~qG~R~plvlvPr~~lG~Rv~~AF~~~Wq~~g 411 (604)
T COG3107 365 LSPE--DEARDAANHLWDQGKRNPLVLVPRNDLGDRVANAFNQEWQKLG 411 (604)
T ss_pred cChh--HHHHHHHHHHHHccccCceEEecchHHHHHHHHHHHHHHHHhc
Confidence 5554 5667778999999999999999999999999999999999987
No 204
>PRK10200 putative racemase; Provisional
Probab=81.34 E-value=14 Score=34.04 Aligned_cols=47 Identities=6% Similarity=-0.088 Sum_probs=31.9
Q ss_pred CCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEe
Q psy17441 26 DPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIG 76 (458)
Q Consensus 26 ~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is 76 (458)
..++.......++.|.+.|+.+|+= | |.. +......+-+..++|+|+
T Consensus 57 ~~~~~~~l~~~~~~L~~~g~~~ivi--a-CNT-ah~~~~~l~~~~~iPii~ 103 (230)
T PRK10200 57 WDKTGDILAEAALGLQRAGAEGIVL--C-TNT-MHKVADAIESRCSLPFLH 103 (230)
T ss_pred cchHHHHHHHHHHHHHHcCCCEEEE--C-Cch-HHHHHHHHHHhCCCCEee
Confidence 3457777788888888889988885 3 442 333345566667788775
No 205
>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=80.31 E-value=36 Score=29.69 Aligned_cols=124 Identities=15% Similarity=0.158 Sum_probs=73.8
Q ss_pred HHHHHHHHHh-hcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHH
Q psy17441 31 LTALSVCKFL-ISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVE 109 (458)
Q Consensus 31 ~~~~~~~~~l-~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ 109 (458)
+.+...++.+ .++++.+||..| ..+..+-+..++|+|.... +..+..+++..
T Consensus 20 e~~v~~a~~~~~~~g~dViIsRG--------~ta~~lr~~~~iPVV~I~~-------------------s~~Dil~al~~ 72 (176)
T PF06506_consen 20 EEAVEEARQLLESEGADVIISRG--------GTAELLRKHVSIPVVEIPI-------------------SGFDILRALAK 72 (176)
T ss_dssp HHHHHHHHHHHTTTT-SEEEEEH--------HHHHHHHCC-SS-EEEE----------------------HHHHHHHHHH
T ss_pred HHHHHHHHHhhHhcCCeEEEECC--------HHHHHHHHhCCCCEEEECC-------------------CHhHHHHHHHH
Confidence 4455556667 689999999721 2345555667899987432 33334455544
Q ss_pred HHHhcCCeEEEEEEecCcc-hhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChh
Q psy17441 110 LLKHFNYMKVIFIHSSDTD-GRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQ 188 (458)
Q Consensus 110 ll~~~~w~~v~ii~~~d~~-g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~ 188 (458)
. +.++ ++++++...+.. + ...+.+.+. ..+.. ..+ .+..++...++++++.+.++|+-..
T Consensus 73 a-~~~~-~~Iavv~~~~~~~~---~~~~~~ll~---------~~i~~-~~~-~~~~e~~~~i~~~~~~G~~viVGg~--- 133 (176)
T PF06506_consen 73 A-KKYG-PKIAVVGYPNIIPG---LESIEELLG---------VDIKI-YPY-DSEEEIEAAIKQAKAEGVDVIVGGG--- 133 (176)
T ss_dssp C-CCCT-SEEEEEEESS-SCC---HHHHHHHHT----------EEEE-EEE-SSHHHHHHHHHHHHHTT--EEEESH---
T ss_pred H-HhcC-CcEEEEecccccHH---HHHHHHHhC---------CceEE-EEE-CCHHHHHHHHHHHHHcCCcEEECCH---
Confidence 2 3444 899999876643 3 566666664 22222 223 3567899999999999999988643
Q ss_pred hHHHHHHHHHhcCCc
Q psy17441 189 DAEIIFKDAQYLNMT 203 (458)
Q Consensus 189 ~~~~il~~a~~~g~~ 203 (458)
...+.|++.|+.
T Consensus 134 ---~~~~~A~~~gl~ 145 (176)
T PF06506_consen 134 ---VVCRLARKLGLP 145 (176)
T ss_dssp ---HHHHHHHHTTSE
T ss_pred ---HHHHHHHHcCCc
Confidence 236777889986
No 206
>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=79.39 E-value=68 Score=31.69 Aligned_cols=88 Identities=14% Similarity=0.117 Sum_probs=59.3
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEE-EEeCCCcccHHHHHHHHHhccCeEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAV-IEFEPGLTTFKDQLYEMKNAQARVYLM 183 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~-~~~~~~~~d~~~~l~~ik~~~~~viil 183 (458)
..+.+.++.+| |+.+|++..-......+.+.+.+++.|+.+ ..+. ..-.+...++.+.++.+++.++|.||-
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~~~~~~~v~~~L~~~~i~~-----~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIa 84 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSKSGLVDRVLDALEEAGIEV-----QVFDGVGPNPTLEDVDEAAEQARKFGADCIIA 84 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHHHTHHHHHHHHHHHTTCEE-----EEEEEESSS-BHHHHHHHHHHHHHTTSSEEEE
T ss_pred HHHHHHHHhcC--CEEEEECchHHhCccHHHHHHHHhhCceEE-----EEEecCCCCCcHHHHHHHHHHHHhcCCCEEEE
Confidence 45667788887 999999773333447899999998888432 1121 222335677889999999999999998
Q ss_pred EeChh--hHHHHHHHHHh
Q psy17441 184 YASKQ--DAEIIFKDAQY 199 (458)
Q Consensus 184 ~~~~~--~~~~il~~a~~ 199 (458)
.+.+. ++...+.....
T Consensus 85 iGGGS~~D~aK~va~~~~ 102 (366)
T PF00465_consen 85 IGGGSVMDAAKAVALLLA 102 (366)
T ss_dssp EESHHHHHHHHHHHHHHT
T ss_pred cCCCCcCcHHHHHHhhcc
Confidence 87764 44444444433
No 207
>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=78.21 E-value=14 Score=34.13 Aligned_cols=79 Identities=8% Similarity=0.054 Sum_probs=54.4
Q ss_pred EEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh-hhHHHHHH
Q psy17441 119 VIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK-QDAEIIFK 195 (458)
Q Consensus 119 v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~-~~~~~il~ 195 (458)
|+++.. ++.|.......+++.+++.|. .+.....-..+.....+.++++.+.++|.|++.... .....+++
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~------~~~~~~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~ 74 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGY------EVEIVFDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLE 74 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTC------EEEEEEESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCC------EEEEeCCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHH
Confidence 455553 355888899999999999873 222221122244555677777777899999987544 46778999
Q ss_pred HHHhcCCc
Q psy17441 196 DAQYLNMT 203 (458)
Q Consensus 196 ~a~~~g~~ 203 (458)
++.+.|+.
T Consensus 75 ~~~~~gIp 82 (257)
T PF13407_consen 75 KAKAAGIP 82 (257)
T ss_dssp HHHHTTSE
T ss_pred HHhhcCce
Confidence 99999974
No 208
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=78.11 E-value=26 Score=32.70 Aligned_cols=100 Identities=14% Similarity=0.115 Sum_probs=54.9
Q ss_pred HHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEe
Q psy17441 106 VWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYA 185 (458)
Q Consensus 106 ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~ 185 (458)
.+.++++.++.+++.++++.+.| .-..+.+++.+++.|+.+ .+........+..+..+...+++..+++.|+-.+
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~-~~~g~~v~~~l~~~g~~v----~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vG 83 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY-KAAGEKVEESLKSAGIEV----AVIEEFVGDADEDEVEKLVEALRPKDADLIIGVG 83 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH-HHHHHHHHHHHHTTT-EE----EEEE-EE---BHHHHHHHHTTS--TT--EEEEEE
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH-HHHHHHHHHHHHHcCCeE----EEEecCCCCCCHHHHHHHHHHhcccCCCEEEEeC
Confidence 35678888888999999988754 345578889999888433 1111111122344455555566667888888887
Q ss_pred ChhhHHHHHH-HHHhcCCcccceEEEeecc
Q psy17441 186 SKQDAEIIFK-DAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 186 ~~~~~~~il~-~a~~~g~~~~~~~wi~t~~ 214 (458)
.+.. ..+.+ .|.++|+. |+-+-|..
T Consensus 84 gG~i-~D~~K~~A~~~~~p---~isVPTa~ 109 (250)
T PF13685_consen 84 GGTI-IDIAKYAAFELGIP---FISVPTAA 109 (250)
T ss_dssp SHHH-HHHHHHHHHHHT-----EEEEES--
T ss_pred CcHH-HHHHHHHHHhcCCC---EEEecccc
Confidence 7753 33333 35566654 66666554
No 209
>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=77.67 E-value=58 Score=29.92 Aligned_cols=175 Identities=8% Similarity=0.040 Sum_probs=96.2
Q ss_pred cCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHh--cCCeEE
Q psy17441 42 SERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKH--FNYMKV 119 (458)
Q Consensus 42 ~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~--~~w~~v 119 (458)
+.+|.++|=.++.. ............++|++..+...+.. ..+++ ....+..-+..+++.+.. .|.+++
T Consensus 50 ~~~vdGvIi~~~~~---~~~~~~~~~~~~~~PvV~i~~~~~~~---~~~~~---V~~D~~~~~~~a~~~L~~~~~G~~~I 120 (247)
T cd06276 50 KGKYSGYVVMPHFK---NEIQYFLLKKIPKEKLLILDHSIPEG---GEYSS---VAQDFEKAIYNALQEGLEKLKKYKKL 120 (247)
T ss_pred hcCCCEEEEecCCC---CcHHHHHHhccCCCCEEEEcCcCCCC---CCCCe---EEEccHHHHHHHHHHHHHHhcCCCEE
Confidence 56777777411211 11224455566789999876532111 11233 334555556677787777 899999
Q ss_pred EEEEecC-cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHH
Q psy17441 120 IFIHSSD-TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQ 198 (458)
Q Consensus 120 ~ii~~~d-~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~ 198 (458)
++|.... ..+....+.+++.+++.|+.. .. .. ...+ .. . ...++ |++.+...+..+++.++
T Consensus 121 a~i~~~~~~~~~~R~~gf~~~l~~~g~~~------~~---~~-~~~~--~~----~-~~~~a-i~~~~d~~A~g~~~~l~ 182 (247)
T cd06276 121 ILVFPNKTAIPKEIKRGFERFCKDYNIET------EI---IN-DYEN--RE----I-EKGDL-YIILSDTDLVFLIKKAR 182 (247)
T ss_pred EEEecCccHhHHHHHHHHHHHHHHcCCCc------cc---cc-ccch--hh----c-cCCcE-EEEeCHHHHHHHHHHHH
Confidence 9997543 345677899999999988432 11 00 0000 00 0 12354 45556778889999999
Q ss_pred hcCCcccceE-EEeeccccccCCCCCeeEEEEecCCCchhHHHHHHHHHH
Q psy17441 199 YLNMTETGYV-WIVTEQALTAKNVPVGIIGLKLVNATNEDAHIRDSIYVL 247 (458)
Q Consensus 199 ~~g~~~~~~~-wi~t~~~~~~~~~~~g~~g~~~~~~~~~~~~~yDAv~~l 247 (458)
+.|+.-++.+ .+.-+..........++..++. .....+..|+.++
T Consensus 183 ~~g~~iP~disvigfd~~~~~~~~~p~lttv~~----~~~~~g~~a~~~L 228 (247)
T cd06276 183 ESGLLLGKDIGIISYNDTPLKEILRNGITTIST----DFENMGKKAAEMV 228 (247)
T ss_pred HcCCcCCceeEEEEecCchhhhccCCCceEEec----CHHHHHHHHHHHH
Confidence 9999755444 3433333222222334444432 2233444455444
No 210
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=76.19 E-value=78 Score=30.64 Aligned_cols=158 Identities=10% Similarity=0.043 Sum_probs=80.7
Q ss_pred HHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCC--CCCCccccceeecCCCchhHHHHHHHHHH
Q psy17441 35 SVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSA--FSDKNIHVSFLRTVPPYSHQADVWVELLK 112 (458)
Q Consensus 35 ~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~--ls~~~~~p~~~r~~p~~~~~~~ai~~ll~ 112 (458)
...+.+...+|.++|=. +..+. ........+...++|+|......+. +.+. +-...+...+..-+..+++.+.
T Consensus 72 ~~i~~l~~~~vdgiIi~-~~~~~-~~~~~l~~l~~~giPvV~vd~~~~~~~~~~~---~~~~~V~~D~~~ag~~a~~~l~ 146 (330)
T PRK15395 72 DQIDVLLAKGVKALAIN-LVDPA-AAPTVIEKARGQDVPVVFFNKEPSRKALDSY---DKAYYVGTDSKESGIIQGDLIA 146 (330)
T ss_pred HHHHHHHHcCCCEEEEe-ccCHH-HHHHHHHHHHHCCCcEEEEcCCccccccccc---cceeEEccChHHHHHHHHHHHH
Confidence 34566767888888851 11111 2233334566789999998763211 1111 1112233444444454445443
Q ss_pred -hc-----------CCeEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc--
Q psy17441 113 -HF-----------NYMKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA-- 176 (458)
Q Consensus 113 -~~-----------~w~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~-- 176 (458)
+. |-.++++|.... .......+.+++.++++|+.+ ..........+..+-.+.++++.+.
T Consensus 147 ~~~~~~~~~~~~~~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g~~~----~~~~~~~~~~~~~~a~~~~~~~l~~~~ 222 (330)
T PRK15395 147 KHWKANPAWDLNKDGKIQYVLLKGEPGHPDAEARTTYVIKELNDKGIKT----EQLQLDTAMWDTAQAKDKMDAWLSGPN 222 (330)
T ss_pred HHHhhccccccCCCCceEEEEEecCCCCchHHHHHHHHHHHHHhcCCCe----eeeecccCCcCHHHHHHHHHHHHhhCc
Confidence 22 333445554322 234567888999998877432 1111001111112223455555433
Q ss_pred --cCeEEEEEeChhhHHHHHHHHHhcCC
Q psy17441 177 --QARVYLMYASKQDAEIIFKDAQYLNM 202 (458)
Q Consensus 177 --~~~viil~~~~~~~~~il~~a~~~g~ 202 (458)
.+++|+ +++...+..+++++++.|+
T Consensus 223 ~~~~~ai~-~~~d~~A~gvl~al~~~Gl 249 (330)
T PRK15395 223 ANKIEVVI-ANNDAMAMGAVEALKAHNK 249 (330)
T ss_pred CCCeeEEE-ECCchHHHHHHHHHHhcCC
Confidence 244444 4455667889999999998
No 211
>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=75.88 E-value=40 Score=30.70 Aligned_cols=114 Identities=15% Similarity=0.088 Sum_probs=66.0
Q ss_pred hcccCCcEEeeecCCC--CCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccC
Q psy17441 67 SGFYHIPVIGISSRDS--AFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQE 144 (458)
Q Consensus 67 ~~~~~iP~Is~~a~~~--~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~g 144 (458)
++..++..|-..||.. .|..+. +.+ -++......++.++.. .++++|....+.-....+..+..-..
T Consensus 83 le~~G~d~illlCTG~F~~l~~~~--~ll----eP~ril~~lV~al~~~---~~vGVivP~~eQ~~~~~~kW~~l~~~-- 151 (221)
T PF07302_consen 83 LEAQGYDVILLLCTGEFPGLTARN--PLL----EPDRILPPLVAALVGG---HQVGVIVPLPEQIAQQAEKWQPLGNP-- 151 (221)
T ss_pred HHHCCCCEEEEeccCCCCCCCCCc--cee----ehHHhHHHHHHHhcCC---CeEEEEecCHHHHHHHHHHHHhcCCC--
Confidence 3345566666666543 333332 322 2444444444444443 79999998876654444444443221
Q ss_pred CcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh--hhHHHHHHHH
Q psy17441 145 DDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK--QDAEIIFKDA 197 (458)
Q Consensus 145 i~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~--~~~~~il~~a 197 (458)
.+++...++..+..++...-+++++.++++|+++|-+ ...+.+++++
T Consensus 152 ------~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r~~~~~~ 200 (221)
T PF07302_consen 152 ------VVVAAASPYEGDEEELAAAARELAEQGADLIVLDCMGYTQEMRDIVQRA 200 (221)
T ss_pred ------eEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHHHHHHHH
Confidence 3333333333356778888889999999999999765 4556666654
No 212
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=73.82 E-value=14 Score=36.64 Aligned_cols=90 Identities=12% Similarity=0.084 Sum_probs=62.9
Q ss_pred HHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEE
Q psy17441 104 ADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLM 183 (458)
Q Consensus 104 ~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil 183 (458)
.+.+.+.++.+|++|+-|+.+..-...+..+.+.+.|+..|+.+ .+-..+.-.+..+.....+..+++.++|.||-
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~----~if~~v~p~P~~~~v~~~~~~~~~~~~D~iIa 92 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEY----EVFDEVEPEPTIETVEAGAEVAREFGPDTIIA 92 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeE----EEecCCCCCCCHHHHHHHHHHHHhcCCCEEEE
Confidence 34667788899999999999887667778999999999987332 11111111234556777888999999999998
Q ss_pred EeChh--hHHHHHHHH
Q psy17441 184 YASKQ--DAEIIFKDA 197 (458)
Q Consensus 184 ~~~~~--~~~~il~~a 197 (458)
.+-+. ++...+.-.
T Consensus 93 lGGGS~~D~AK~i~~~ 108 (377)
T COG1454 93 LGGGSVIDAAKAIALL 108 (377)
T ss_pred eCCccHHHHHHHHHHH
Confidence 75553 444444333
No 213
>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=72.97 E-value=24 Score=32.75 Aligned_cols=79 Identities=10% Similarity=0.011 Sum_probs=52.3
Q ss_pred EEEEEEec--CcchhHHHHHHHHhhhc-cCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChh-hHHHH
Q psy17441 118 KVIFIHSS--DTDGRALLGRFQTTSQN-QEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQ-DAEII 193 (458)
Q Consensus 118 ~v~ii~~~--d~~g~~~~~~l~~~l~~-~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~-~~~~i 193 (458)
+|+++..+ ++|.....+.+.+++++ .|+ .+.... ...+.....+.++++.+.+.+.+++.+... ....+
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~------~~~~~~-~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~ 73 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGV------ELQFED-AKNDVATQLSQVENFIAQGVDAIIVVPVDTAATAPI 73 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCc------EEEEeC-CCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHH
Confidence 46777754 56888888999999998 772 222211 122334456777788888999999876443 34567
Q ss_pred HHHHHhcCCc
Q psy17441 194 FKDAQYLNMT 203 (458)
Q Consensus 194 l~~a~~~g~~ 203 (458)
+.++.+.++.
T Consensus 74 ~~~l~~~~iP 83 (272)
T cd06301 74 VKAANAAGIP 83 (272)
T ss_pred HHHHHHCCCe
Confidence 7777777764
No 214
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=72.88 E-value=19 Score=31.35 Aligned_cols=89 Identities=18% Similarity=0.109 Sum_probs=54.1
Q ss_pred cCCeEEEEEeCCCC-CCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEE-
Q psy17441 42 SERVYAVIVSHPLT-GDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKV- 119 (458)
Q Consensus 42 ~~~V~aiIG~~~~~-s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v- 119 (458)
.++.+.++|.|... . .....+..+++.+++|+++.......|..++..| . ....-.+..++..-+|.-+
T Consensus 34 AKrPlIivG~ga~~~~-ea~e~l~elaEkl~iPVvtT~~~~~~~~~kgv~~-------~-~~~lg~lg~~~~~p~~e~~~ 104 (171)
T PRK00945 34 AKRPLLVVGSLLLDDE-ELLDRAVKIAKKANIPVAATGGSYKGLIDKGVDA-------K-YINLHELTNYLKDPNWKGLD 104 (171)
T ss_pred CCCcEEEECcCccccc-hHHHHHHHHHHHHCCCEEEccccccccccCCccC-------C-cccHHHHHhhccCchhhhhc
Confidence 47888999944433 3 2667799999999999998776666676665322 2 2223345555655555444
Q ss_pred --------EEEEecCcchhHHHHHHHHh
Q psy17441 120 --------IFIHSSDTDGRALLGRFQTT 139 (458)
Q Consensus 120 --------~ii~~~d~~g~~~~~~l~~~ 139 (458)
.++..+-.+....+..++..
T Consensus 105 g~~~~DlvlfvG~~~~~~~~~l~~lk~f 132 (171)
T PRK00945 105 GNGNYDLVIFIGVTYYYASQGLSALKHF 132 (171)
T ss_pred CCCCcCEEEEecCCchhHHHHHHHHhhc
Confidence 34444444554455555443
No 215
>KOG3857|consensus
Probab=72.24 E-value=23 Score=34.19 Aligned_cols=94 Identities=13% Similarity=0.118 Sum_probs=69.4
Q ss_pred cceeecCCCchhHHHHH----HHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccH
Q psy17441 91 VSFLRTVPPYSHQADVW----VELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTF 166 (458)
Q Consensus 91 p~~~r~~p~~~~~~~ai----~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~ 166 (458)
++-|-++|+....++.. .+-++-.|.|++.++.+.+---.......++.|+++||.+ .+-..+...+...++
T Consensus 41 ~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~----~vyD~v~~ePtv~s~ 116 (465)
T KOG3857|consen 41 SVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINV----EVYDKVQPEPTVGSV 116 (465)
T ss_pred eeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCce----EEecCccCCCchhhH
Confidence 56677788888777643 3457889999999999888666677888999999998654 222223344567788
Q ss_pred HHHHHHHHhccCeEEEEEeChh
Q psy17441 167 KDQLYEMKNAQARVYLMYASKQ 188 (458)
Q Consensus 167 ~~~l~~ik~~~~~viil~~~~~ 188 (458)
...++-.|..+.|.++-.+.+.
T Consensus 117 ~~alefak~~~fDs~vaiGGGS 138 (465)
T KOG3857|consen 117 TAALEFAKKKNFDSFVAIGGGS 138 (465)
T ss_pred HHHHHHHHhcccceEEEEcCcc
Confidence 8888888988999888776553
No 216
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=72.15 E-value=24 Score=30.00 Aligned_cols=88 Identities=16% Similarity=0.144 Sum_probs=63.9
Q ss_pred CCeEEEEEeCCCCC-CCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCe----
Q psy17441 43 ERVYAVIVSHPLTG-DLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYM---- 117 (458)
Q Consensus 43 ~~V~aiIG~~~~~s-~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~---- 117 (458)
++-..|+| |..- .+.-..+..+.+.+++|.+..+++...+.+++ .-+......++..+++.-+|.
T Consensus 36 krPLlivG--p~~~dee~~E~~vKi~ekfnipivaTa~~~~~~~~~~--------i~~~~~~lh~it~~l~Dp~w~G~dg 105 (170)
T COG1880 36 KRPLLIVG--PLALDEELLELAVKIIEKFNIPIVATASSMGNLIGRG--------IGSEYINLHAITQYLTDPNWPGFDG 105 (170)
T ss_pred CCceEEec--ccccCHHHHHHHHHHHHhcCCceEecchhhcchhhcc--------cccchhHHHHHHHHhcCCCCCCcCC
Confidence 67889999 6543 22456788999999999998888777777776 335666677888889887774
Q ss_pred -----EEEEEEecCcchhHHHHHHHHhh
Q psy17441 118 -----KVIFIHSSDTDGRALLGRFQTTS 140 (458)
Q Consensus 118 -----~v~ii~~~d~~g~~~~~~l~~~l 140 (458)
-|.++..-..|....++.++...
T Consensus 106 ~g~yDlviflG~~~yy~sq~Ls~lKhFs 133 (170)
T COG1880 106 NGNYDLVIFLGSIYYYLSQVLSGLKHFS 133 (170)
T ss_pred CCCcceEEEEeccHHHHHHHHHHhhhhh
Confidence 36666666667766677766655
No 217
>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=72.13 E-value=13 Score=37.50 Aligned_cols=79 Identities=14% Similarity=0.108 Sum_probs=54.9
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMY 184 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~ 184 (458)
+.+.+.++.++.+++.++++.........+.+.+.+++.|+.+ .+-..+...+..+++.+.++..++.++|.||-.
T Consensus 12 ~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~----~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIai 87 (414)
T cd08190 12 AEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINF----EVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAV 87 (414)
T ss_pred HHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcE----EEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEe
Confidence 4566778899999999998776554456788999998877432 110011122345567778888889999999887
Q ss_pred eCh
Q psy17441 185 ASK 187 (458)
Q Consensus 185 ~~~ 187 (458)
+-+
T Consensus 88 GGG 90 (414)
T cd08190 88 GGG 90 (414)
T ss_pred CCc
Confidence 655
No 218
>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=71.99 E-value=21 Score=33.14 Aligned_cols=79 Identities=10% Similarity=0.057 Sum_probs=51.3
Q ss_pred EEEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh-hhHHHHH
Q psy17441 118 KVIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK-QDAEIIF 194 (458)
Q Consensus 118 ~v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~-~~~~~il 194 (458)
+++++.. ++.|.......+++++++.|.. +.... ...+.....+.++.+.+.+++.|++.... ......+
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~------~~~~~-~~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i 73 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEALGGD------LRVYD-AGGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWV 73 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHcCCE------EEEEC-CCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHH
Confidence 3566664 4667888899999999998832 22211 12233344566777777789999987543 3345667
Q ss_pred HHHHhcCCc
Q psy17441 195 KDAQYLNMT 203 (458)
Q Consensus 195 ~~a~~~g~~ 203 (458)
+++.+.|+.
T Consensus 74 ~~~~~~~ip 82 (273)
T cd06305 74 KRALDAGIP 82 (273)
T ss_pred HHHHHcCCC
Confidence 888887764
No 219
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=71.38 E-value=12 Score=37.27 Aligned_cols=78 Identities=8% Similarity=0.103 Sum_probs=53.8
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEE-EEeCCCcccHHHHHHHHHhccCeEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAV-IEFEPGLTTFKDQLYEMKNAQARVYLM 183 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~-~~~~~~~~d~~~~l~~ik~~~~~viil 183 (458)
..+.+.++.+|.+++.++++..-...+..+.+.+.+++.|+.+ ..+. +.-.+..+++.+.++.+++.++|.||-
T Consensus 20 ~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~-----~~f~~v~~np~~~~v~~~~~~~~~~~~D~Iia 94 (383)
T PRK09860 20 TDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFS-----VIYDGTQPNPTTENVAAGLKLLKENNCDSVIS 94 (383)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeE-----EEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEE
Confidence 4567788999999999998654333456788999999887322 1111 111234566778888899999999997
Q ss_pred EeCh
Q psy17441 184 YASK 187 (458)
Q Consensus 184 ~~~~ 187 (458)
.+-+
T Consensus 95 iGGG 98 (383)
T PRK09860 95 LGGG 98 (383)
T ss_pred eCCc
Confidence 6554
No 220
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=70.75 E-value=12 Score=37.49 Aligned_cols=80 Identities=5% Similarity=0.005 Sum_probs=53.8
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMY 184 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~ 184 (458)
..+.+.++.+|.+++.++.+..-...+..+.+.+.|++.|+.+ .+-..+.-.+..+++.+.++..++.++|.||-.
T Consensus 38 ~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~----~~~~~v~~~P~~~~v~~~~~~~r~~~~D~Iiav 113 (395)
T PRK15454 38 SSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAM----TLWPCPVGEPCITDVCAAVAQLRESGCDGVIAF 113 (395)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeE----EEECCCCCCcCHHHHHHHHHHHHhcCcCEEEEe
Confidence 4567788899988888876544334456788999999888432 111011112344567788888899999999987
Q ss_pred eChh
Q psy17441 185 ASKQ 188 (458)
Q Consensus 185 ~~~~ 188 (458)
+-+.
T Consensus 114 GGGS 117 (395)
T PRK15454 114 GGGS 117 (395)
T ss_pred CChH
Confidence 6653
No 221
>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=70.56 E-value=20 Score=33.68 Aligned_cols=81 Identities=7% Similarity=-0.017 Sum_probs=49.3
Q ss_pred EEEEEEec---CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC-CCcccHHHHHHHHHhccCeEEEEEeChhhHHHH
Q psy17441 118 KVIFIHSS---DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE-PGLTTFKDQLYEMKNAQARVYLMYASKQDAEII 193 (458)
Q Consensus 118 ~v~ii~~~---d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~-~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~i 193 (458)
++++|..+ ++|.......+.+.+++.|..+ .+.....-. .+.......++++.+.++|.||+..........
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~----~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~ 76 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLEELNIPY----ELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKL 76 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHHHcCCcE----EEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHH
Confidence 37788765 4677788899999999988332 111101101 122344566777888899999887543333445
Q ss_pred HHHHHhcCC
Q psy17441 194 FKDAQYLNM 202 (458)
Q Consensus 194 l~~a~~~g~ 202 (458)
++.+.+.+.
T Consensus 77 ~~~l~~~~~ 85 (280)
T cd06303 77 IERVLASGK 85 (280)
T ss_pred HHHHHhCCC
Confidence 666666554
No 222
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=69.75 E-value=19 Score=33.59 Aligned_cols=80 Identities=13% Similarity=-0.016 Sum_probs=50.7
Q ss_pred EEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe-CCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHH
Q psy17441 118 KVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF-EPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIF 194 (458)
Q Consensus 118 ~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~-~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il 194 (458)
+++++..+ +.|.......+++.+++.|. .+.....- ..+..+....++.+.+.+++.|++.....+....+
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~------~~~~~~~~~~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~ 74 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLGV------SLKLLEAGGYPNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEI 74 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcCC------EEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHH
Confidence 46777754 56888888999999998873 22211110 11223344667777788999999876544332256
Q ss_pred HHHHhcCCc
Q psy17441 195 KDAQYLNMT 203 (458)
Q Consensus 195 ~~a~~~g~~ 203 (458)
.++.+.|+.
T Consensus 75 ~~~~~~giP 83 (268)
T cd06306 75 LQQVAASIP 83 (268)
T ss_pred HHHHHCCCC
Confidence 777777764
No 223
>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=69.44 E-value=23 Score=32.96 Aligned_cols=78 Identities=14% Similarity=0.105 Sum_probs=50.5
Q ss_pred EEEEEEec---CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC-CcccHHHHHHHHHhccCeEEEEEeChhh-HHH
Q psy17441 118 KVIFIHSS---DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP-GLTTFKDQLYEMKNAQARVYLMYASKQD-AEI 192 (458)
Q Consensus 118 ~v~ii~~~---d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~-~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~ 192 (458)
+|+++..+ +.|.....+.+.+++++.|.. +... .... +.......++++.+.+++.+++.....+ ...
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g~~------v~~~-~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~ 73 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLGVD------VEYR-GPETFDVADMARLIEAAIAAKPDGIVVTIPDPDALDP 73 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhCCE------EEEE-CCCCCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHH
Confidence 46777643 468888999999999998732 2211 1111 2334556777777889999988754332 345
Q ss_pred HHHHHHhcCC
Q psy17441 193 IFKDAQYLNM 202 (458)
Q Consensus 193 il~~a~~~g~ 202 (458)
.++.+.+.|.
T Consensus 74 ~l~~~~~~~i 83 (271)
T cd06312 74 AIKRAVAAGI 83 (271)
T ss_pred HHHHHHHCCC
Confidence 6777777775
No 224
>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=69.28 E-value=31 Score=31.95 Aligned_cols=80 Identities=10% Similarity=0.026 Sum_probs=50.1
Q ss_pred EEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe-CCCcccHHHHHHHHHhccCeEEEEEeChhh-HHHH
Q psy17441 118 KVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF-EPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEII 193 (458)
Q Consensus 118 ~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~-~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~i 193 (458)
||+++..+ +.|.......+++.+++.|. .+.....- ..+.....+.++++...+.+.+|+...... ....
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~g~------~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~ 74 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKELGV------KVTFQGPASETDVAGQVNLLENAIARGPDAILLAPTDAKALVPP 74 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHcCC------EEEEecCccCCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHH
Confidence 57777654 56788889999999998873 22221110 112233456677777788999988654333 2456
Q ss_pred HHHHHhcCCc
Q psy17441 194 FKDAQYLNMT 203 (458)
Q Consensus 194 l~~a~~~g~~ 203 (458)
++.+.+.|+.
T Consensus 75 l~~~~~~~ip 84 (273)
T cd06310 75 LKEAKDAGIP 84 (273)
T ss_pred HHHHHHCCCC
Confidence 7777776654
No 225
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=69.20 E-value=15 Score=36.59 Aligned_cols=80 Identities=8% Similarity=0.109 Sum_probs=53.6
Q ss_pred HHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEE
Q psy17441 104 ADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLM 183 (458)
Q Consensus 104 ~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil 183 (458)
...+.+.++.+|.+++.++++..-.-.+..+.+.+.+++.|+.+ .+-....-.+..++..+.++.+++.++|.||-
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~----~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIa 93 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAY----EIYDGVKPNPTIEVVKEGVEVFKASGADYLIA 93 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeE----EEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEE
Confidence 34567788889999999998765443346788999998887432 11001111223456777788888999999987
Q ss_pred EeCh
Q psy17441 184 YASK 187 (458)
Q Consensus 184 ~~~~ 187 (458)
.+-+
T Consensus 94 iGGG 97 (382)
T PRK10624 94 IGGG 97 (382)
T ss_pred eCCh
Confidence 6554
No 226
>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=69.18 E-value=46 Score=31.06 Aligned_cols=85 Identities=13% Similarity=-0.029 Sum_probs=51.9
Q ss_pred EEEEEEec----CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHH
Q psy17441 118 KVIFIHSS----DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEII 193 (458)
Q Consensus 118 ~v~ii~~~----d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~i 193 (458)
+|+++++. ..|.....+.+++.-++.| +.+......+ +..++.+.++++.+.+.+.|+..+.. ....+
T Consensus 1 kva~l~~g~~~D~~~n~~~~~G~~~~~~~~g------v~~~~~e~~~-~~~~~~~~i~~~~~~g~dlIi~~g~~-~~~~~ 72 (258)
T cd06353 1 KVAFVYVGPIGDQGWNYAHDEGRKAAEKALG------VEVTYVENVP-EGADAERVLRELAAQGYDLIFGTSFG-FMDAA 72 (258)
T ss_pred CEEEEEeCCCCccchhHHHHHHHHHHHHhcC------CeEEEEecCC-chHhHHHHHHHHHHcCCCEEEECchh-hhHHH
Confidence 47778753 2355555677777776666 3333333322 46788999999988899999984432 23334
Q ss_pred HHHHHhcCCcccceEEEeecc
Q psy17441 194 FKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 194 l~~a~~~g~~~~~~~wi~t~~ 214 (458)
.+.|.+.. +..|+..+.
T Consensus 73 ~~vA~~~p----~~~F~~~d~ 89 (258)
T cd06353 73 LKVAKEYP----DVKFEHCSG 89 (258)
T ss_pred HHHHHHCC----CCEEEECCC
Confidence 55555443 346666554
No 227
>PF01007 IRK: Inward rectifier potassium channel; InterPro: IPR013521 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Inwardly-rectifying potassium channels (Kir) are the principal class of two-TM domain potassium channels. They are characterised by the property of inward-rectification, which is described as the ability to allow large inward currents and smaller outward currents. Inwardly rectifying potassium channels (Kir) are responsible for regulating diverse processes including: cellular excitability, vascular tone, heart rate, renal salt flow, and insulin release []. To date, around twenty members of this superfamily have been cloned, which can be grouped into six families by sequence similarity, and these are designated Kir1.x-6.x [, ]. Cloned Kir channel cDNAs encode proteins of between ~370-500 residues, both N- and C-termini are thought to be cytoplasmic, and the N terminus lacks a signal sequence. Kir channel alpha subunits possess only 2TM domains linked with a P-domain. Thus, Kir channels share similarity with the fifth and sixth domains, and P-domain of the other families. It is thought that four Kir subunits assemble to form a tetrameric channel complex, which may be hetero- or homomeric [].; PDB: 3AT9_A 3AUW_D 3SYA_A 3ATE_A 3SYQ_A 3SYO_A 3ATB_A 3SYC_A 3AT8_A 3ATA_A ....
Probab=68.30 E-value=18 Score=35.25 Aligned_cols=60 Identities=20% Similarity=0.143 Sum_probs=46.0
Q ss_pred ccccchhHHHHHHHhhccCCCC--CCCCchhhHHHHHHHHHHHHHHHhhcccceeEEeeecc
Q psy17441 335 ALNLSSAIWFAWGVLLNSGIGE--GTPRSFSARVLGMVWAGFAMIIVASYTANLAAFLVLER 394 (458)
Q Consensus 335 ~~~~~~~~w~~~~~l~~~g~~~--~~p~s~~~Ri~~~~w~~~~~i~~~~yta~l~s~lt~~~ 394 (458)
..+|..+|+|++.++++-|+|. ..|.+..+-+++.+=.+.++++.+.-|+-+-|-++-++
T Consensus 82 ~~~f~~aF~FSveT~tTIGYG~~~~~~~c~~a~~l~~~q~~~g~l~~a~~~Glvfar~srP~ 143 (336)
T PF01007_consen 82 VNSFTSAFLFSVETQTTIGYGSRYPTPECPYAIFLVTIQSLVGLLLDAFMTGLVFARFSRPK 143 (336)
T ss_dssp -TTHHHHHHHHHHHHTT---SSSEB-CSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCC
T ss_pred ccchhhheeEEEEEEEEeccCCcccCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCcc
Confidence 4579999999999999999987 46888888898888888888888888877766665554
No 228
>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=68.08 E-value=40 Score=31.04 Aligned_cols=78 Identities=4% Similarity=-0.050 Sum_probs=47.8
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcc-cHHHHHHHHHhccCeEEEEEeChhhHHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLT-TFKDQLYEMKNAQARVYLMYASKQDAEIIFK 195 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~-d~~~~l~~ik~~~~~viil~~~~~~~~~il~ 195 (458)
|+++..+ +.|.....+.+++.+++.|. .+... ..+.+.. .....++.+.+.+++.|++..........++
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~------~~~~~-~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~ 74 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGY------QLVIE-PCDSGSPDLAERVRALLQRSRVDGVILTPPLSDNPELLD 74 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCC------eEEEE-eCCCCchHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHH
Confidence 5666644 56888899999999998873 22211 1221222 3445555677788998888644333345667
Q ss_pred HHHhcCCc
Q psy17441 196 DAQYLNMT 203 (458)
Q Consensus 196 ~a~~~g~~ 203 (458)
.+.+.++.
T Consensus 75 ~~~~~~ip 82 (270)
T cd01545 75 LLDEAGVP 82 (270)
T ss_pred HHHhcCCC
Confidence 77776653
No 229
>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=67.13 E-value=18 Score=35.94 Aligned_cols=87 Identities=6% Similarity=0.049 Sum_probs=56.0
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMY 184 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~ 184 (458)
..+.+.++.++.+++.++++.........+.+.+.+++.|+.+ ..+. ...-.+..+++.+.++..++.++|.||-.
T Consensus 13 ~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~---~~~~-~v~~~p~~~~v~~~~~~~~~~~~d~IIai 88 (370)
T cd08192 13 KELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAA---ALFD-EVPPNPTEAAVEAGLAAYRAGGCDGVIAF 88 (370)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeE---EEeC-CCCCCCCHHHHHHHHHHHHhcCCCEEEEe
Confidence 4466788889999999998765433345788999998877432 1111 11112345567788888888999999976
Q ss_pred eCh--hhHHHHHH
Q psy17441 185 ASK--QDAEIIFK 195 (458)
Q Consensus 185 ~~~--~~~~~il~ 195 (458)
+.+ -|+..++.
T Consensus 89 GGGSviD~aK~ia 101 (370)
T cd08192 89 GGGSALDLAKAVA 101 (370)
T ss_pred CCchHHHHHHHHH
Confidence 544 34444443
No 230
>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=67.11 E-value=41 Score=30.58 Aligned_cols=77 Identities=12% Similarity=0.107 Sum_probs=51.7
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
++++... +.|.......+++.+++.|+ .+.. .....+.......++++.+.+++.|++......... ++.
T Consensus 2 i~~v~~~~~~~~~~~~~~g~~~~~~~~g~------~~~~-~~~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~ 73 (264)
T cd06267 2 IGVIVPDISNPFFAELLRGIEEAAREAGY------SVLL-CNSDEDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEE 73 (264)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHcCC------EEEE-EcCCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHH
Confidence 5666655 67888889999999988772 2221 111222334566777788889999998776655555 777
Q ss_pred HHhcCCc
Q psy17441 197 AQYLNMT 203 (458)
Q Consensus 197 a~~~g~~ 203 (458)
+.+.|..
T Consensus 74 ~~~~~ip 80 (264)
T cd06267 74 LAALGIP 80 (264)
T ss_pred HHHcCCC
Confidence 7777764
No 231
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=67.11 E-value=31 Score=33.68 Aligned_cols=82 Identities=13% Similarity=-0.004 Sum_probs=53.5
Q ss_pred CeEEEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHH
Q psy17441 116 YMKVIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEI 192 (458)
Q Consensus 116 w~~v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~ 192 (458)
-.+++++.. +++|.....+.+++..++.|++ +.....-..+.....+.++.+.+.+++.|++.....+ ...
T Consensus 23 ~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~------v~~~~~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~ 96 (336)
T PRK15408 23 AERIAFIPKLVGVGFFTSGGNGAKEAGKELGVD------VTYDGPTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCP 96 (336)
T ss_pred CcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCE------EEEECCCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHH
Confidence 357888875 3578888889999999988832 2211111112222345677778889999988754333 467
Q ss_pred HHHHHHhcCCc
Q psy17441 193 IFKDAQYLNMT 203 (458)
Q Consensus 193 il~~a~~~g~~ 203 (458)
.+++|.+.|+.
T Consensus 97 ~l~~a~~~gIp 107 (336)
T PRK15408 97 ALKRAMQRGVK 107 (336)
T ss_pred HHHHHHHCCCe
Confidence 88889888864
No 232
>PRK07475 hypothetical protein; Provisional
Probab=66.92 E-value=24 Score=32.74 Aligned_cols=50 Identities=18% Similarity=0.110 Sum_probs=36.5
Q ss_pred eeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEe
Q psy17441 23 IQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIG 76 (458)
Q Consensus 23 ~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is 76 (458)
.+++.++......+++.|.+.|+.+|+. + |+. .......+.+..+||+++
T Consensus 57 ~~~~~~~~~~l~~aa~~L~~~G~d~I~~--~-Cgt-~~~~~~~l~~~~~VPv~~ 106 (245)
T PRK07475 57 EGDDPSLLDAFVAAARELEAEGVRAITT--S-CGF-LALFQRELAAALGVPVAT 106 (245)
T ss_pred cCCCccHHHHHHHHHHHHHHcCCCEEEe--c-hHH-HHHHHHHHHHHcCCCEec
Confidence 3345667788888899998899999997 3 552 445556666778899885
No 233
>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=66.70 E-value=20 Score=35.50 Aligned_cols=85 Identities=12% Similarity=0.119 Sum_probs=56.8
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEE-EEeCCCcccHHHHHHHHHhccCeEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAV-IEFEPGLTTFKDQLYEMKNAQARVYLM 183 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~-~~~~~~~~d~~~~l~~ik~~~~~viil 183 (458)
..+.+.++.++.+++.++++.........+.+.+.+++.|+.+ ..+. ..-.+..+++.+.++.+++.++|.||-
T Consensus 12 ~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~-----~~~~~~~~~p~~~~v~~~~~~~~~~~~d~Iia 86 (370)
T cd08551 12 EKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEV-----VIFDGVEPNPTLSNVDAAVAAYREEGCDGVIA 86 (370)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeE-----EEECCCCCCCCHHHHHHHHHHHHhcCCCEEEE
Confidence 4667778888999999998766443466788889998877322 1111 111234566788888888889999987
Q ss_pred EeCh--hhHHHHH
Q psy17441 184 YASK--QDAEIIF 194 (458)
Q Consensus 184 ~~~~--~~~~~il 194 (458)
.+.+ -++..++
T Consensus 87 iGGGs~~D~AK~v 99 (370)
T cd08551 87 VGGGSVLDTAKAI 99 (370)
T ss_pred eCCchHHHHHHHH
Confidence 7554 3444444
No 234
>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=66.19 E-value=49 Score=30.39 Aligned_cols=83 Identities=11% Similarity=0.002 Sum_probs=53.2
Q ss_pred EEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
|+++.. +++|.....+.+.+++++.|+ .+.... ...+.+...+.++.+.+.+.|.||+....... ..+++
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~------~~~~~~-~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~ 73 (265)
T cd06299 2 IGVIVPDIRNPYFASLATAIQDAASAAGY------STIIGN-SDENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLED 73 (265)
T ss_pred EEEEecCCCCccHHHHHHHHHHHHHHcCC------EEEEEe-CCCCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHH
Confidence 566665 356788888999999998873 222111 12233345567778888899999987654343 34788
Q ss_pred HHhcCCcccceEEEee
Q psy17441 197 AQYLNMTETGYVWIVT 212 (458)
Q Consensus 197 a~~~g~~~~~~~wi~t 212 (458)
+.+.|.. .+.+..
T Consensus 74 l~~~~ip---vV~~~~ 86 (265)
T cd06299 74 LLKRGIP---VVFVDR 86 (265)
T ss_pred HHhCCCC---EEEEec
Confidence 8887764 444443
No 235
>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=66.03 E-value=19 Score=35.87 Aligned_cols=86 Identities=14% Similarity=0.145 Sum_probs=56.1
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMY 184 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~ 184 (458)
..+.+.++.++.+++.++++......+..+.+.+.+++.|+.+ .+-....-.+..+++.+.++.+++.++|.||-.
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~----~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIai 90 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEV----TVFDDVEADPPEAVVEAAVEAARAAGADGVIGF 90 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeE----EEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEe
Confidence 4566778888999999988765333445788889998877432 110011112345667888888899999999987
Q ss_pred eChh--hHHHHH
Q psy17441 185 ASKQ--DAEIIF 194 (458)
Q Consensus 185 ~~~~--~~~~il 194 (458)
+-+. |+..++
T Consensus 91 GGGs~iD~aK~i 102 (376)
T cd08193 91 GGGSSMDVAKLV 102 (376)
T ss_pred CCchHHHHHHHH
Confidence 6553 444443
No 236
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=65.44 E-value=1.1e+02 Score=28.42 Aligned_cols=91 Identities=8% Similarity=0.023 Sum_probs=54.1
Q ss_pred chhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCe
Q psy17441 100 YSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQAR 179 (458)
Q Consensus 100 ~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~ 179 (458)
..+....+.+.....+ .++.++..+..-.....+.+++.. | ..++....-.-+.++....+++|.++++|
T Consensus 90 G~dl~~~ll~~~~~~~-~~v~llG~~~~v~~~a~~~l~~~y---~------l~i~g~~~Gyf~~~e~~~i~~~I~~s~~d 159 (243)
T PRK03692 90 GADLWEALMARAGKEG-TPVFLVGGKPEVLAQTEAKLRTQW---N------VNIVGSQDGYFTPEQRQALFERIHASGAK 159 (243)
T ss_pred hHHHHHHHHHHHHhcC-CeEEEECCCHHHHHHHHHHHHHHh---C------CEEEEEeCCCCCHHHHHHHHHHHHhcCCC
Confidence 3445555666666666 678888766654444445454443 2 23332221111334556788999999999
Q ss_pred EEEEEeChhhHHHHHHHHHhc
Q psy17441 180 VYLMYASKQDAEIIFKDAQYL 200 (458)
Q Consensus 180 viil~~~~~~~~~il~~a~~~ 200 (458)
++++....+.-..++....+.
T Consensus 160 il~VglG~PkQE~~~~~~~~~ 180 (243)
T PRK03692 160 IVTVAMGSPKQEIFMRDCRLV 180 (243)
T ss_pred EEEEECCCcHHHHHHHHHHHh
Confidence 999987766656666655443
No 237
>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=64.95 E-value=57 Score=30.07 Aligned_cols=76 Identities=5% Similarity=-0.043 Sum_probs=47.2
Q ss_pred EEEEEec-----CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHH
Q psy17441 119 VIFIHSS-----DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEII 193 (458)
Q Consensus 119 v~ii~~~-----d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~i 193 (458)
|+++..+ +.|.....+.+++.+++.|. .+... ..+.+.......+..+.+.++|.|++...... ..
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~------~~~~~-~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~--~~ 72 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGY------NLILK-FVSDEDEEEFELPSFLEDGKVDGIILLGGIST--EY 72 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCC------EEEEE-eCCCChHHHHHHHHHHHHCCCCEEEEeCCCCh--HH
Confidence 5666655 66888889999999998772 22211 12222223344555677788999998765433 23
Q ss_pred HHHHHhcCCc
Q psy17441 194 FKDAQYLNMT 203 (458)
Q Consensus 194 l~~a~~~g~~ 203 (458)
++.+.+.|..
T Consensus 73 ~~~l~~~~ip 82 (268)
T cd06277 73 IKEIKELGIP 82 (268)
T ss_pred HHHHhhcCCC
Confidence 6677776653
No 238
>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=64.87 E-value=50 Score=30.24 Aligned_cols=78 Identities=4% Similarity=-0.062 Sum_probs=49.4
Q ss_pred EEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
++++.. .++|.......+.+++++.|.. +.... ...+.....+.++++.+.+++.|++..........++.
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~------~~~~~-~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~ 74 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYS------LLLAT-TDYDAEREADAVETLLRQRVDGLILTVADAATSPALDL 74 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCE------EEEee-CCCCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHH
Confidence 456654 3567788889999999988732 22111 12233444567777777889999886433333446778
Q ss_pred HHhcCCc
Q psy17441 197 AQYLNMT 203 (458)
Q Consensus 197 a~~~g~~ 203 (458)
+.+.|..
T Consensus 75 ~~~~~ip 81 (266)
T cd06282 75 LDAERVP 81 (266)
T ss_pred HhhCCCC
Confidence 8887764
No 239
>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=64.41 E-value=54 Score=30.06 Aligned_cols=78 Identities=6% Similarity=-0.004 Sum_probs=50.1
Q ss_pred EEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
++++.. .+.|.......+++.+++.|. .+... .-..+.......++++.+.+++.+++..........+++
T Consensus 2 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~------~~~~~-~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~ 74 (268)
T cd06289 2 IGLVINDLTNPFFAELAAGLEEVLEEAGY------TVFLA-NSGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKR 74 (268)
T ss_pred EEEEecCCCcchHHHHHHHHHHHHHHcCC------eEEEe-cCCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHH
Confidence 456654 356888888999999998772 22111 111123334567777888889999887654444446777
Q ss_pred HHhcCCc
Q psy17441 197 AQYLNMT 203 (458)
Q Consensus 197 a~~~g~~ 203 (458)
+.+.|..
T Consensus 75 ~~~~~ip 81 (268)
T cd06289 75 LAESGIP 81 (268)
T ss_pred HHhcCCC
Confidence 8777764
No 240
>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=64.26 E-value=43 Score=31.06 Aligned_cols=82 Identities=9% Similarity=0.067 Sum_probs=50.4
Q ss_pred EEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHHHH
Q psy17441 118 KVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEIIF 194 (458)
Q Consensus 118 ~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~il 194 (458)
+++++..+ +.|.....+.+.+++++.|..+ ........-..+.....+.++.+.+ ++|.+++...... ....+
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~~---~~~~~~~~~~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~~~i 76 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDAR---IRVRIHFVESFDPAALAAALLRLGA-RSDGVALVAPDHPQVRAAV 76 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhccC---ceEEEEEccCCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHHHHH
Confidence 46777755 4577788899999999876322 1111111111233345567777777 8999988654433 34677
Q ss_pred HHHHhcCCc
Q psy17441 195 KDAQYLNMT 203 (458)
Q Consensus 195 ~~a~~~g~~ 203 (458)
+++.+.|..
T Consensus 77 ~~~~~~~ip 85 (275)
T cd06307 77 ARLAAAGVP 85 (275)
T ss_pred HHHHHCCCc
Confidence 888887754
No 241
>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=64.04 E-value=33 Score=31.23 Aligned_cols=79 Identities=11% Similarity=0.014 Sum_probs=50.5
Q ss_pred EEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHH
Q psy17441 118 KVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFK 195 (458)
Q Consensus 118 ~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~ 195 (458)
+++++... +.++......+++.+++.|+ .+... ....+..+..+.++++.+.+++.+|+..........+.
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~g~------~l~~~-~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~ 73 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAAGY------QVLLA-NSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVK 73 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHcCC------eEEEE-eCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHH
Confidence 36777765 56888889999999998773 22211 11112334567777788778998888765544433566
Q ss_pred HHHhcCCc
Q psy17441 196 DAQYLNMT 203 (458)
Q Consensus 196 ~a~~~g~~ 203 (458)
.+.+.+..
T Consensus 74 ~l~~~~ip 81 (264)
T cd01537 74 LARKAGIP 81 (264)
T ss_pred HhhhcCCC
Confidence 66666653
No 242
>TIGR00315 cdhB CO dehydrogenase/acetyl-CoA synthase complex, epsilon subunit. Nomenclature follows the description for Methanosarcina thermophila. The complex is also found in Archaeoglobus fulgidus, not considered a methanogen, but is otherwise generally associated with methanogenesis.
Probab=63.97 E-value=34 Score=29.56 Aligned_cols=69 Identities=10% Similarity=0.167 Sum_probs=43.4
Q ss_pred cCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEE
Q psy17441 42 SERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKV 119 (458)
Q Consensus 42 ~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v 119 (458)
.++.+.++|.|...+. ....+..+++..++|+++.......+.+++.. .-| ...-.+..++..-+|.-+
T Consensus 27 AKRPvIivG~ga~~~~-a~e~l~~laEklgiPVvtT~~~~~~~~~kgv~-----~~~---~~lg~~g~~~~~p~~e~~ 95 (162)
T TIGR00315 27 AKRPLLIVGPENLEDE-EKELIVKFIEKFDLPVVATADTYRALIEAGIE-----SEE---MNLHEITQFLADPSWEGF 95 (162)
T ss_pred CCCcEEEECCCcCccc-HHHHHHHHHHHHCCCEEEcCccccccccCCee-----cCC---CCHHHHHHhccCchhhhc
Confidence 4788999994443344 77889999999999999866554455555421 112 122355556666556554
No 243
>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=63.93 E-value=34 Score=32.49 Aligned_cols=79 Identities=9% Similarity=0.018 Sum_probs=50.6
Q ss_pred EEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHHHHH
Q psy17441 119 VIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEIIFK 195 (458)
Q Consensus 119 v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~il~ 195 (458)
|+++.. .+.|.......+++.+++.|.. +........+.....+.++.+.+.+++.||+...... ....++
T Consensus 2 I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~------v~~~~~~~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~ 75 (298)
T cd06302 2 IAFVPKVTGIPYFNRMEEGAKEAAKELGVD------AIYVGPTTADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLK 75 (298)
T ss_pred EEEEEcCCCChHHHHHHHHHHHHHHHhCCe------EEEECCCCCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHH
Confidence 565653 4568888899999999998732 2211111123344556777777788999998754332 356778
Q ss_pred HHHhcCCc
Q psy17441 196 DAQYLNMT 203 (458)
Q Consensus 196 ~a~~~g~~ 203 (458)
++.+.++.
T Consensus 76 ~~~~~~iP 83 (298)
T cd06302 76 KAREAGIK 83 (298)
T ss_pred HHHHCCCe
Confidence 88777764
No 244
>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=63.53 E-value=43 Score=31.35 Aligned_cols=78 Identities=12% Similarity=0.094 Sum_probs=51.6
Q ss_pred EEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh-hhHHHHH
Q psy17441 118 KVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK-QDAEIIF 194 (458)
Q Consensus 118 ~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~-~~~~~il 194 (458)
+|+++..+ +.|.....+.+.+.+++.|. .+... ... +.+.....++++.+.+++.|++.... .....++
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~------~~~~~-~~~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~ 72 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEKGF------TVVKI-DVP-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIV 72 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHcCC------EEEEc-cCC-CHHHHHHHHHHHHHcCCCEEEEccCchhhhHHHH
Confidence 35666643 56788888999999998872 22211 111 33344567777888889999987543 3456678
Q ss_pred HHHHhcCCc
Q psy17441 195 KDAQYLNMT 203 (458)
Q Consensus 195 ~~a~~~g~~ 203 (458)
+++.+.|..
T Consensus 73 ~~~~~~~iP 81 (289)
T cd01540 73 AKAKAYNMK 81 (289)
T ss_pred HHHHhCCCe
Confidence 888888864
No 245
>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=63.51 E-value=23 Score=35.17 Aligned_cols=85 Identities=9% Similarity=0.091 Sum_probs=56.0
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe--CCCcccHHHHHHHHHhccCeEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF--EPGLTTFKDQLYEMKNAQARVYL 182 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~--~~~~~d~~~~l~~ik~~~~~vii 182 (458)
+.+.+.++.+|-+++.++++......+..+.+.+.+++.|+.+ .....+ .+..+++.+.++.+++.++|.||
T Consensus 15 ~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~------~~~~~v~~~p~~~~v~~~~~~~~~~~~d~II 88 (374)
T cd08189 15 AQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEY------AVYDGVPPDPTIENVEAGLALYRENGCDAIL 88 (374)
T ss_pred HHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeE------EEeCCCCCCcCHHHHHHHHHHHHhcCCCEEE
Confidence 4566778888889999998765443345788999998877322 111112 23455677888888999999999
Q ss_pred EEeCh--hhHHHHHH
Q psy17441 183 MYASK--QDAEIIFK 195 (458)
Q Consensus 183 l~~~~--~~~~~il~ 195 (458)
-.+-+ -|+..++.
T Consensus 89 aiGGGS~~D~aK~ia 103 (374)
T cd08189 89 AVGGGSVIDCAKAIA 103 (374)
T ss_pred EeCCccHHHHHHHHH
Confidence 76544 34444443
No 246
>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=63.45 E-value=36 Score=33.43 Aligned_cols=77 Identities=13% Similarity=0.058 Sum_probs=52.2
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMY 184 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~ 184 (458)
..+.+.++.++ +++.++++...+. ...+.+.+.+++.|+.+ .+. ...-.+..+++.+.++..++.++|.||-.
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~~-~~~~~v~~~L~~~~i~~----~~~-~~~~~p~~~~v~~~~~~~~~~~~D~IIav 84 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVLD-LVGAKIEESLAAAGIDA----RFE-VFGGECTRAEIERLAEIARDNGADVVIGI 84 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHHH-HHHHHHHHHHHhCCCeE----EEE-EeCCcCCHHHHHHHHHHHhhcCCCEEEEe
Confidence 34566777776 8998988655444 77889999999887432 111 11112345667788888888999999887
Q ss_pred eChh
Q psy17441 185 ASKQ 188 (458)
Q Consensus 185 ~~~~ 188 (458)
+-+.
T Consensus 85 GGGS 88 (351)
T cd08170 85 GGGK 88 (351)
T ss_pred cCch
Confidence 6553
No 247
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=63.06 E-value=51 Score=30.07 Aligned_cols=78 Identities=8% Similarity=0.058 Sum_probs=49.6
Q ss_pred EEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh-hhHHHHH
Q psy17441 118 KVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK-QDAEIIF 194 (458)
Q Consensus 118 ~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~-~~~~~il 194 (458)
+|++|..+ +.|.....+.+++++++.|+ .+.. .....+.......++++...+.+.+|+.... ......+
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~------~~~~-~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~ 73 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGV------ELIV-LDAQNDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPAL 73 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCc------eEEE-ECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHH
Confidence 46778754 56888899999999998772 2221 1111233344567777777789988876543 3333466
Q ss_pred HHHHhcCC
Q psy17441 195 KDAQYLNM 202 (458)
Q Consensus 195 ~~a~~~g~ 202 (458)
..+.+.+.
T Consensus 74 ~~l~~~~i 81 (267)
T cd01536 74 KKANAAGI 81 (267)
T ss_pred HHHHHCCC
Confidence 66666664
No 248
>KOG1420|consensus
Probab=62.97 E-value=2.7 Score=42.79 Aligned_cols=58 Identities=14% Similarity=0.245 Sum_probs=51.7
Q ss_pred cccccccchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHHHHHHhhcccceeEE
Q psy17441 332 EEDALNLSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAF 389 (458)
Q Consensus 332 ~~~~~~~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~~i~~~~yta~l~s~ 389 (458)
+..+.+.+++.++.+.+|.+.|+++.--++..||+..+++.++++-+.++|...++-.
T Consensus 283 n~hrltyw~cvyfl~vtmstvgygdvyc~t~lgrlfmvffil~glamfasyvpeiiel 340 (1103)
T KOG1420|consen 283 NNHRLTYWECVYFLMVTMSTVGYGDVYCKTTLGRLFMVFFILGGLAMFASYVPEIIEL 340 (1103)
T ss_pred CcccchhhheeeeeEEEeeeccccceeehhhhhHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence 4456788999999999999999999999999999999999999999999998776543
No 249
>PF00520 Ion_trans: Ion transport protein calcium channel signature potassium channel signature sodium channel signature; InterPro: IPR005821 This group of proteins is found in sodium, potassium, and calcium ion channels proteins. The proteins have 6 transmembrane helices in which the last two helices flank a loop which determines ion selectivity. In some Na channels proteins the domain is repeated four times, whereas in others (e.g. K channels) the protein forms a tetramer in the membrane. A bacterial structure of the protein is known for the last two helices but is not included in the Pfam family due to it lacking the first four helices. ; GO: 0005216 ion channel activity, 0006811 ion transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 3VMX_B 1QG9_A 1UJL_A 2LE7_A 2LCM_A 3A2A_A 3RW0_A 4EKW_A 3RVY_B 3RVZ_B ....
Probab=62.57 E-value=20 Score=31.21 Aligned_cols=54 Identities=13% Similarity=0.285 Sum_probs=39.1
Q ss_pred cccccccchhHHHHHHHhhccCCCCCCCC-----chhhHHHHHHHHHH-HHHHHhhcccc
Q psy17441 332 EEDALNLSSAIWFAWGVLLNSGIGEGTPR-----SFSARVLGMVWAGF-AMIIVASYTAN 385 (458)
Q Consensus 332 ~~~~~~~~~~~w~~~~~l~~~g~~~~~p~-----s~~~Ri~~~~w~~~-~~i~~~~yta~ 385 (458)
.+...++..++++.+.++++.|.++..|. +..+.+....+.+. ++++.+...|.
T Consensus 140 ~~~f~~~~~s~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~l~nlliav 199 (200)
T PF00520_consen 140 YENFDSFGESLYWLFQTMTGEGWGDVMPSCMSARSWLAVIFFISFIIIVSILLLNLLIAV 199 (200)
T ss_dssp HHHHSSHHHHHHHHHHHHTTTTCCCCHHHHHHTTSTTHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccccccccccccccccccccCCccccccccccccchhHhHHhhhhhhhHHHHHHHHHHhc
Confidence 34455689999999999999998777776 66777777444444 46777766554
No 250
>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=62.56 E-value=78 Score=29.27 Aligned_cols=78 Identities=9% Similarity=0.018 Sum_probs=47.9
Q ss_pred CeEEEEEEe---------cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeC
Q psy17441 116 YMKVIFIHS---------SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYAS 186 (458)
Q Consensus 116 w~~v~ii~~---------~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~ 186 (458)
.+.|++|.. ++.|.....+.+++.+++.|. .+... . .+..+.....+.+.+.+++.|++...
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~------~~~v~--~-~~~~~~~~~~~~l~~~~~dgiii~~~ 73 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGY------DLLLS--F-VSSPDRDWLARYLASGRADGVILIGQ 73 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCC------EEEEE--e-CCchhHHHHHHHHHhCCCCEEEEeCC
Confidence 467888885 334677788889999998772 22211 1 11113344455566678999988654
Q ss_pred hhhHHHHHHHHHhcCCc
Q psy17441 187 KQDAEIIFKDAQYLNMT 203 (458)
Q Consensus 187 ~~~~~~il~~a~~~g~~ 203 (458)
... ...++++.+.|..
T Consensus 74 ~~~-~~~~~~~~~~~ip 89 (275)
T cd06295 74 HDQ-DPLPERLAETGLP 89 (275)
T ss_pred CCC-hHHHHHHHhCCCC
Confidence 322 2447777777764
No 251
>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=62.40 E-value=23 Score=35.32 Aligned_cols=79 Identities=11% Similarity=0.101 Sum_probs=53.0
Q ss_pred HHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEE-EEeCCCcccHHHHHHHHHhccCeEEE
Q psy17441 104 ADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAV-IEFEPGLTTFKDQLYEMKNAQARVYL 182 (458)
Q Consensus 104 ~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~-~~~~~~~~d~~~~l~~ik~~~~~vii 182 (458)
...+.+.++.+|-+++.++++....-.+..+.+.+.+++.|+.+ . .+. ..-.+..+++.+..+.+++.++|.||
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~----~-~~~~v~~~p~~~~v~~~~~~~~~~~~D~Ii 91 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAY----E-LFDEVKPNPTITVVKAGVAAFKASGADYLI 91 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeE----E-EECCCCCCcCHHHHHHHHHHHHhcCCCEEE
Confidence 34566778889999999998665333346788899998877432 1 111 11122355677788888889999999
Q ss_pred EEeCh
Q psy17441 183 MYASK 187 (458)
Q Consensus 183 l~~~~ 187 (458)
-.+-+
T Consensus 92 aiGGG 96 (379)
T TIGR02638 92 AIGGG 96 (379)
T ss_pred EeCCh
Confidence 77654
No 252
>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=62.08 E-value=31 Score=34.28 Aligned_cols=77 Identities=9% Similarity=0.098 Sum_probs=53.2
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe--CCCcccHHHHHHHHHhccCeEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF--EPGLTTFKDQLYEMKNAQARVYL 182 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~--~~~~~d~~~~l~~ik~~~~~vii 182 (458)
..+.+.++.++-+|+.++++...+..+..+.+.+.+++.|+.+ .....+ .+..+++.+.+..+++.++|.||
T Consensus 12 ~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~------~~~~~v~~~p~~~~v~~~~~~~~~~~~D~II 85 (375)
T cd08194 12 DETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIES------AIFDDVVSEPTDESVEEGVKLAKEGGCDVII 85 (375)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeE------EEECCCCCCcCHHHHHHHHHHHHhcCCCEEE
Confidence 4456677777889999999665554446788999999887432 111112 23455677888888899999999
Q ss_pred EEeCh
Q psy17441 183 MYASK 187 (458)
Q Consensus 183 l~~~~ 187 (458)
-.+.+
T Consensus 86 aiGGG 90 (375)
T cd08194 86 ALGGG 90 (375)
T ss_pred EeCCc
Confidence 77655
No 253
>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=62.05 E-value=1.1e+02 Score=26.80 Aligned_cols=88 Identities=8% Similarity=0.050 Sum_probs=52.1
Q ss_pred hhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeE
Q psy17441 101 SHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARV 180 (458)
Q Consensus 101 ~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~v 180 (458)
.+....+.+....-+ .++.++....+--....+.+++... +..++.... .-+.++-...+++|.++++|+
T Consensus 34 ~dl~~~l~~~~~~~~-~~vfllG~~~~v~~~~~~~l~~~yP--------~l~i~g~~g-~f~~~~~~~i~~~I~~s~~di 103 (177)
T TIGR00696 34 PDLMEELCQRAGKEK-LPIFLYGGKPDVLQQLKVKLIKEYP--------KLKIVGAFG-PLEPEERKAALAKIARSGAGI 103 (177)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHHHHHHHHHHHHHHCC--------CCEEEEECC-CCChHHHHHHHHHHHHcCCCE
Confidence 345555555555556 5788887665544344444444433 233333211 113344567889999999999
Q ss_pred EEEEeChhhHHHHHHHHH
Q psy17441 181 YLMYASKQDAEIIFKDAQ 198 (458)
Q Consensus 181 iil~~~~~~~~~il~~a~ 198 (458)
+++....+.-..++.+.+
T Consensus 104 l~VglG~PkQE~~~~~~~ 121 (177)
T TIGR00696 104 VFVGLGCPKQEIWMRNHR 121 (177)
T ss_pred EEEEcCCcHhHHHHHHhH
Confidence 999877766566665543
No 254
>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=61.91 E-value=46 Score=31.34 Aligned_cols=80 Identities=6% Similarity=-0.005 Sum_probs=48.5
Q ss_pred EEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHHHH
Q psy17441 118 KVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEIIF 194 (458)
Q Consensus 118 ~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~il 194 (458)
||++|..+ +.|.......+++.+++.|. .+.....-..+.....+.++.+.+.+++.|++...... ....+
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~g~------~~~~~~~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i 74 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKLGI------EVVATTDAQFDPAKQVADIETTISQKPDIIISIPVDPVSTAAAY 74 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHcCC------EEEEecCCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHH
Confidence 46666643 45666788888999998872 22211111112233446666777778998888644322 35677
Q ss_pred HHHHhcCCc
Q psy17441 195 KDAQYLNMT 203 (458)
Q Consensus 195 ~~a~~~g~~ 203 (458)
+++.+.|..
T Consensus 75 ~~~~~~~iP 83 (294)
T cd06316 75 KKVAEAGIK 83 (294)
T ss_pred HHHHHcCCc
Confidence 888887764
No 255
>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=61.43 E-value=34 Score=34.10 Aligned_cols=77 Identities=12% Similarity=0.046 Sum_probs=52.2
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcc-hhHHHHHHHHhhhccCCcceeeEEEEE-EEEeCCCcccHHHHHHHHHhccCeEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTD-GRALLGRFQTTSQNQEDDVEIKVQVEA-VIEFEPGLTTFKDQLYEMKNAQARVYL 182 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~-g~~~~~~l~~~l~~~gi~v~~~~~v~~-~~~~~~~~~d~~~~l~~ik~~~~~vii 182 (458)
..+.+.++.++ +|+.|+++.... .....+.+.+.+++.|+.+ . .+ .+.-.+..++..+.+..+++.++|.||
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~----~-~~~~v~~~p~~~~v~~~~~~~~~~~~D~Ii 88 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKKTGYLDRVIELLKQAGVEV----V-VFDKVEPNPTTTTVMEGAALAREEGCDFVV 88 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhhccHHHHHHHHHHHcCCeE----E-EeCCccCCCCHHHHHHHHHHHHHcCCCEEE
Confidence 44566778788 999999876542 4567788999998877332 1 11 111123455677888888899999999
Q ss_pred EEeCh
Q psy17441 183 MYASK 187 (458)
Q Consensus 183 l~~~~ 187 (458)
-.+-+
T Consensus 89 avGGG 93 (380)
T cd08185 89 GLGGG 93 (380)
T ss_pred EeCCc
Confidence 76554
No 256
>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=61.18 E-value=53 Score=31.00 Aligned_cols=74 Identities=7% Similarity=0.003 Sum_probs=49.7
Q ss_pred eEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHH
Q psy17441 117 MKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIF 194 (458)
Q Consensus 117 ~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il 194 (458)
+.+++|..+ +.|....+..+.+.+++.|. .+.. .... +..+-.+.++.+.+.++|.+|+.+...+-..+.
T Consensus 2 ~~IGvivp~~~npff~~ii~gIe~~a~~~Gy------~l~l-~~t~-~~~~~e~~i~~l~~~~vDGiI~~s~~~~~~~l~ 73 (279)
T PF00532_consen 2 KTIGVIVPDISNPFFAEIIRGIEQEAREHGY------QLLL-CNTG-DDEEKEEYIELLLQRRVDGIILASSENDDEELR 73 (279)
T ss_dssp CEEEEEESSSTSHHHHHHHHHHHHHHHHTTC------EEEE-EEET-TTHHHHHHHHHHHHTTSSEEEEESSSCTCHHHH
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHHcCC------EEEE-ecCC-CchHHHHHHHHHHhcCCCEEEEecccCChHHHH
Confidence 467888766 46888999999999999883 2211 1122 233334888889999999999987666634444
Q ss_pred HHHH
Q psy17441 195 KDAQ 198 (458)
Q Consensus 195 ~~a~ 198 (458)
....
T Consensus 74 ~~~~ 77 (279)
T PF00532_consen 74 RLIK 77 (279)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 3333
No 257
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=60.71 E-value=42 Score=33.22 Aligned_cols=83 Identities=11% Similarity=-0.007 Sum_probs=54.0
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEE-EEeCCCcccHHHHHHHHHhccCeEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAV-IEFEPGLTTFKDQLYEMKNAQARVYLM 183 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~-~~~~~~~~d~~~~l~~ik~~~~~viil 183 (458)
..+.+.++.+| +++.+|++...+ ....+.+.+.+++.|+.+ ... ..-.+..+++.+.++.+++.++|.||-
T Consensus 19 ~~l~~~l~~~g-~~~livtd~~~~-~~~~~~v~~~l~~~~~~~------~~~~~~~ep~~~~v~~~~~~~~~~~~d~IIa 90 (366)
T PRK09423 19 ARLGEYLKPLG-KRALVIADEFVL-GIVGDRVEASLKEAGLTV------VFEVFNGECSDNEIDRLVAIAEENGCDVVIG 90 (366)
T ss_pred HHHHHHHHHcC-CEEEEEEChhHH-HHHHHHHHHHHHhCCCeE------EEEEeCCCCCHHHHHHHHHHHHhcCCCEEEE
Confidence 44566778888 999998865544 346788888998877322 111 111234456777778888889999998
Q ss_pred EeChh--hHHHHHH
Q psy17441 184 YASKQ--DAEIIFK 195 (458)
Q Consensus 184 ~~~~~--~~~~il~ 195 (458)
.+.+. ++..++.
T Consensus 91 vGGGsv~D~aK~iA 104 (366)
T PRK09423 91 IGGGKTLDTAKAVA 104 (366)
T ss_pred ecChHHHHHHHHHH
Confidence 76553 4444443
No 258
>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=60.10 E-value=72 Score=29.19 Aligned_cols=76 Identities=7% Similarity=0.039 Sum_probs=48.6
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
|+++..+ +.|.....+.+.+.+++.|. .+... ..+.+. +..+.++++.+.+++.|++....... ..++.
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~g~------~~~~~-~~~~~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~~~~ 72 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQARGY------QPLLI-NTDDDE-DLDAALRQLLQYRVDGVIVTSGTLSS-ELAEE 72 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHCCC------eEEEE-cCCCCH-HHHHHHHHHHHcCCCEEEEecCCCCH-HHHHH
Confidence 4555543 56888888999999998872 22211 112222 56677788888899988887543332 34777
Q ss_pred HHhcCCc
Q psy17441 197 AQYLNMT 203 (458)
Q Consensus 197 a~~~g~~ 203 (458)
+.+.|..
T Consensus 73 ~~~~~ip 79 (266)
T cd06278 73 CRRNGIP 79 (266)
T ss_pred HhhcCCC
Confidence 7777764
No 259
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=59.80 E-value=51 Score=30.35 Aligned_cols=78 Identities=5% Similarity=-0.010 Sum_probs=50.2
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEIIFK 195 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~il~ 195 (458)
|+++..+ +.|.....+.+++.+++.|.. +... ....+.....+.++++.+.+++.+++...... ....++
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~------~~i~-~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~ 74 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVN------LIVS-IANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIA 74 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCE------EEEe-cCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHH
Confidence 4566554 568888899999999988732 2111 11123334556777777889999998654332 355677
Q ss_pred HHHhcCCc
Q psy17441 196 DAQYLNMT 203 (458)
Q Consensus 196 ~a~~~g~~ 203 (458)
++.+.|+.
T Consensus 75 ~~~~~~ip 82 (267)
T cd06322 75 KAKKAGIP 82 (267)
T ss_pred HHHHCCCC
Confidence 77777754
No 260
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=59.63 E-value=93 Score=29.98 Aligned_cols=80 Identities=8% Similarity=-0.037 Sum_probs=52.7
Q ss_pred eEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHH
Q psy17441 117 MKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIF 194 (458)
Q Consensus 117 ~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il 194 (458)
+.++++..+ +.|.......+.+.+++.|. .+.. .....+.......++.+.+.+++.||+..........+
T Consensus 65 ~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~------~~~~-~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~ 137 (342)
T PRK10014 65 GVIGLIVRDLSAPFYAELTAGLTEALEAQGR------MVFL-LQGGKDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLR 137 (342)
T ss_pred CEEEEEeCCCccchHHHHHHHHHHHHHHcCC------EEEE-EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHH
Confidence 468888864 56888888999999998872 2111 11122333456677788888999999875443334567
Q ss_pred HHHHhcCCc
Q psy17441 195 KDAQYLNMT 203 (458)
Q Consensus 195 ~~a~~~g~~ 203 (458)
..+.+.+..
T Consensus 138 ~~l~~~~iP 146 (342)
T PRK10014 138 EMAEEKGIP 146 (342)
T ss_pred HHHhhcCCC
Confidence 777776653
No 261
>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=59.26 E-value=31 Score=33.68 Aligned_cols=76 Identities=7% Similarity=0.050 Sum_probs=50.1
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMY 184 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~ 184 (458)
+.+.+.++.++.+++.++++...+.. ..+.+.+.+++.+ ..+-....-.+..+++.+.++..++.++|.||-.
T Consensus 12 ~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~------~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIai 84 (337)
T cd08177 12 AALAAELERLGASRALVLTTPSLATK-LAERVASALGDRV------AGTFDGAVMHTPVEVTEAAVAAAREAGADGIVAI 84 (337)
T ss_pred HHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCC------cEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEe
Confidence 45677889999999999986654443 6777888887654 1111111112234566777777888899999977
Q ss_pred eCh
Q psy17441 185 ASK 187 (458)
Q Consensus 185 ~~~ 187 (458)
+.+
T Consensus 85 GGG 87 (337)
T cd08177 85 GGG 87 (337)
T ss_pred CCc
Confidence 655
No 262
>PF01177 Asp_Glu_race: Asp/Glu/Hydantoin racemase; InterPro: IPR015942 This entry represents a group of related proteins that includes aspartate racemase, glutamate racemase, hydantoin racemase and arylmalonate decarboxylase. Aspartate racemase (5.1.1.13 from EC) and glutamate racemase (5.1.1.3 from EC) are two evolutionary related bacterial enzymes that do not seem to require a cofactor for their activity []. Glutamate racemase, which interconverts L-glutamate into D-glutamate, is required for the biosynthesis of peptidoglycan and some peptide-based antibiotics such as gramicidin S. In addition to characterised aspartate and glutamate racemases, this family also includes a hypothetical protein from Erwinia carotovora and one from Escherichia coli (ygeA). Two conserved cysteines are present in the sequence of these enzymes. They are expected to play a role in catalytic activity by acting as bases in proton abstraction from the substrate.; PDB: 3S7Z_A 3S81_C 3OUT_A 3EIS_B 3IXL_A 3IP8_A 2VLB_D 3DTV_A 3IXM_A 3DG9_A ....
Probab=58.53 E-value=1.2e+02 Score=27.04 Aligned_cols=129 Identities=14% Similarity=0.079 Sum_probs=70.4
Q ss_pred HHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhh-cccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHH
Q psy17441 33 ALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTS-GFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELL 111 (458)
Q Consensus 33 ~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~-~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll 111 (458)
....++.+.+.++.+|+- .|.+ ....+..+- ...++|+++... +.++-+
T Consensus 54 ~~~~~~~l~~~g~d~i~i---~C~s-~~~~~~~~~~~~~~iPv~~~~~--------------------------a~~~~~ 103 (216)
T PF01177_consen 54 LIEAAEKLEKAGVDAIVI---ACNS-AHPFVDELRKERVGIPVVGIVE--------------------------AALEAA 103 (216)
T ss_dssp HHHHHHHHHHTTESEEEE---SSHH-HHHHHHHHHHHHHSSEEEESHH--------------------------HHHHHH
T ss_pred HHHHHHHHHhCCCCEEEE---cCCc-hhhhHHHHhhhcCceEEEeccH--------------------------HHHHHH
Confidence 334456666789999885 3542 223444555 566888776321 113334
Q ss_pred HhcCCeEEEEEEecCcchhHHHHHHHHhhhcc-CCcceeeEEEEEEE--EeC----CC--cc----cHHHHHHHH-Hhcc
Q psy17441 112 KHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQ-EDDVEIKVQVEAVI--EFE----PG--LT----TFKDQLYEM-KNAQ 177 (458)
Q Consensus 112 ~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~-gi~v~~~~~v~~~~--~~~----~~--~~----d~~~~l~~i-k~~~ 177 (458)
+. +-++++++.. ++......+.+.+++. |+ .-.+.... ... .+ .. .+.+.++++ ++.+
T Consensus 104 ~~-~~~ri~vl~t---~~~~~~~~~~~~~~~~~gi----~~~~~~~i~~~~~~~~e~~~~~~~~~~~~~~~~~~l~~~~~ 175 (216)
T PF01177_consen 104 KA-GGKRIGVLTT---YTTEKSPLYEEFIEEAAGI----DDEVVAGIHNAIYDVIELGDIPPEQIEILAEAARELIKEDG 175 (216)
T ss_dssp HH-TSSEEEEEES---HHHHHHTHHHHHHHHCTTE----ECEEEEEEEEEHTHHHHTTCTTHHHHHHHHHHHHHHHHCTT
T ss_pred Hh-cCCEEEEEec---CcccchHHHHHHHHHhcCC----cHHHHHHHHhhcHHHHhhhcCCHHHHHHHHHHHHHHhccCC
Confidence 44 8899999986 3444456666666665 63 00111111 111 11 11 234444444 3789
Q ss_pred CeEEEEEeChhhHH-HHHHHHHh
Q psy17441 178 ARVYLMYASKQDAE-IIFKDAQY 199 (458)
Q Consensus 178 ~~viil~~~~~~~~-~il~~a~~ 199 (458)
+++|++.|..-... ...+...+
T Consensus 176 ~d~iiLgCt~l~~~~~~~~~l~~ 198 (216)
T PF01177_consen 176 ADAIILGCTHLPLLLGAIEALEE 198 (216)
T ss_dssp SSEEEEESTTGGGGHHHHHHHHH
T ss_pred CCEEEECCCchHHHHHHHHhhcc
Confidence 99999998775433 55555443
No 263
>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=58.50 E-value=14 Score=32.92 Aligned_cols=66 Identities=18% Similarity=0.361 Sum_probs=41.7
Q ss_pred cccceeEEeeecc---CCCCCCChhhhhhcCCCCceEEEEeCCChHHHHHhhchhhHHHHHHHHHcCCCCHHHHHHHhhC
Q psy17441 382 YTANLAAFLVLER---PKTKLTGINDARLRNTMENLTCATVKGSAVDMYFRRQVELSNMYRTMEANNYDTAEDAIADVKI 458 (458)
Q Consensus 382 yta~l~s~lt~~~---~~~~i~~~~dL~~~~~~~~~~~g~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~~v~~ 458 (458)
|--.-.++++.++ ....+++++||. +.++|+..++....++++.. .+ .++...+.+.++++++|++
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~dl~------~~~i~~~~g~~~~~~l~~~~--~~---~~~~~~~~~~~~~~~~l~~ 150 (225)
T PF00497_consen 82 YYSSPYVLVVRKGDAPPIKTIKSLDDLK------GKRIGVVRGSSYADYLKQQY--PS---NINIVEVDSPEEALEALLS 150 (225)
T ss_dssp SEEEEEEEEEETTSTCSTSSHSSGGGGT------TSEEEEETTSHHHHHHHHHT--HH---TSEEEEESSHHHHHHHHHT
T ss_pred ccchhheeeeccccccccccccchhhhc------CcccccccchhHHHHhhhhc--cc---hhhhcccccHHHHHHHHhc
Confidence 3333344444433 234566777886 67999999999888888631 11 2222347888888888763
No 264
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=58.25 E-value=50 Score=30.72 Aligned_cols=78 Identities=9% Similarity=0.037 Sum_probs=49.4
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEIIFK 195 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~il~ 195 (458)
|+++..+ +.|.......+++.+++.|.. +... ....+.....+.++.+.+.++|.|++.....+ ....++
T Consensus 2 igv~~~~~~~~~~~~~~~~i~~~~~~~g~~------v~~~-~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~ 74 (282)
T cd06318 2 IGFSQYTLNSPFFAALTEAAKAHAKALGYE------LIST-DAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVA 74 (282)
T ss_pred eeEEeccccCHHHHHHHHHHHHHHHHcCCE------EEEE-cCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHH
Confidence 5666543 567888889999999998832 2111 11112333456777888889999988654332 245677
Q ss_pred HHHhcCCc
Q psy17441 196 DAQYLNMT 203 (458)
Q Consensus 196 ~a~~~g~~ 203 (458)
.+.+.|..
T Consensus 75 ~~~~~~iP 82 (282)
T cd06318 75 AAKAAGVP 82 (282)
T ss_pred HHHHCCCC
Confidence 77777754
No 265
>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=58.08 E-value=57 Score=30.65 Aligned_cols=78 Identities=8% Similarity=-0.021 Sum_probs=51.9
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh-hhHHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK-QDAEIIFK 195 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~-~~~~~il~ 195 (458)
|+++..+ +.|.....+.+++.+++.|.. +.... ...+.......++++.+.+++.|++.... ......++
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~a~~~g~~------~~~~~-~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~ 74 (288)
T cd01538 2 IGLSLPTKTEERWIRDRPNFEAALKELGAE------VIVQN-ANGDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVE 74 (288)
T ss_pred eEEEEeCCCcHHHHHHHHHHHHHHHHcCCE------EEEEC-CCCCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHH
Confidence 5677654 567888899999999998832 22111 11233445677778888899999887543 33466788
Q ss_pred HHHhcCCc
Q psy17441 196 DAQYLNMT 203 (458)
Q Consensus 196 ~a~~~g~~ 203 (458)
++.+.|..
T Consensus 75 ~l~~~~ip 82 (288)
T cd01538 75 KAADAGIP 82 (288)
T ss_pred HHHHCCCC
Confidence 88877753
No 266
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=57.93 E-value=1e+02 Score=25.09 Aligned_cols=83 Identities=18% Similarity=0.117 Sum_probs=41.5
Q ss_pred CchhHHHHHHHHHHhcCCeEEEEEEecCcch-----hHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHH
Q psy17441 99 PYSHQADVWVELLKHFNYMKVIFIHSSDTDG-----RALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEM 173 (458)
Q Consensus 99 ~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g-----~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~i 173 (458)
+-..|-..+-+++...||.-+.++.+....+ +.....+.+.++...+.+ +-+.....+..+..+....+..+
T Consensus 15 s~~~Q~~~~~~~a~~~g~~i~~~~~d~~~s~~~~~~R~~~~~ll~~~~~~~~d~---ivv~~~~Rl~R~~~~~~~~~~~l 91 (137)
T cd00338 15 SLERQREALREYAARNGLEVVGEYEDAGSSATSLVDRPGLQRLLADVKAGKIDV---VLVEKLDRLSRNLVDLLELLELL 91 (137)
T ss_pred CHHHHHHHHHHHHHHCCCEEEEEEEeCCCCcccccCCHHHHHHHHHHHcCCCCE---EEEEecchhhCCHHHHHHHHHHH
Confidence 4445667777777777887666555443222 233444444444322111 12222223333444555566666
Q ss_pred HhccCeEEEEE
Q psy17441 174 KNAQARVYLMY 184 (458)
Q Consensus 174 k~~~~~viil~ 184 (458)
...+.+++++.
T Consensus 92 ~~~gi~l~~~~ 102 (137)
T cd00338 92 EAHGVRVVTAD 102 (137)
T ss_pred HHCCCEEEEec
Confidence 66666665554
No 267
>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=57.89 E-value=21 Score=33.51 Aligned_cols=63 Identities=14% Similarity=0.110 Sum_probs=42.2
Q ss_pred eEEeeeccCCCCCCChhhhhhcCCCCceEEEEeCCChHHHHHhhchhhHHHHHHHHHcCCCCHHHHHHHhh
Q psy17441 387 AAFLVLERPKTKLTGINDARLRNTMENLTCATVKGSAVDMYFRRQVELSNMYRTMEANNYDTAEDAIADVK 457 (458)
Q Consensus 387 ~s~lt~~~~~~~i~~~~dL~~~~~~~~~~~g~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~~v~ 457 (458)
.++++...-...+++++||. ...+.++|+..|+...+++++.. +. ..+...+++.+++++.|.
T Consensus 121 ~~~~~~~~~~~~i~~~~dl~---~~~g~~Igv~~g~~~~~~l~~~~-~~----~~~i~~~~~~~~~i~~L~ 183 (275)
T TIGR02995 121 EALLVKKGNPKGLKSYKDIA---KNPDAKIAAPGGGTEEKLAREAG-VK----REQIIVVPDGQSGLKMVQ 183 (275)
T ss_pred eeEEEECCCCCCCCCHHHhc---cCCCceEEEeCCcHHHHHHHHcC-CC----hhhEEEeCCHHHHHHHHH
Confidence 45667666555689999995 23478999999999988888641 11 111223567777777665
No 268
>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=57.64 E-value=55 Score=29.42 Aligned_cols=79 Identities=11% Similarity=0.052 Sum_probs=51.5
Q ss_pred EEEEEEec---CcchhHHHHHHHHhhhc--cCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHH
Q psy17441 118 KVIFIHSS---DTDGRALLGRFQTTSQN--QEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEI 192 (458)
Q Consensus 118 ~v~ii~~~---d~~g~~~~~~l~~~l~~--~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~ 192 (458)
+|+++... +.++......+++.+++ .+ +.+.... ...+..+....++++.+.+++.+++.........
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~g~~------~~~~~~~-~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~ 73 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEIGRG------LEVILAD-SQSDPERALEALRDLIQQGVDGIIGPPSSSSALA 73 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHhCCc------eEEEEec-CCCCHHHHHHHHHHHHHcCCCEEEecCCCHHHHH
Confidence 46777754 46788888889888888 44 3322211 1122335677778888888999988766655554
Q ss_pred HHHHHHhcCCc
Q psy17441 193 IFKDAQYLNMT 203 (458)
Q Consensus 193 il~~a~~~g~~ 203 (458)
+...+.+.+..
T Consensus 74 ~~~~~~~~~ip 84 (269)
T cd01391 74 VVELAAAAGIP 84 (269)
T ss_pred HHHHHHHcCCc
Confidence 67777777653
No 269
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=56.90 E-value=2.5e+02 Score=29.46 Aligned_cols=131 Identities=20% Similarity=0.188 Sum_probs=75.9
Q ss_pred HHHHHHH-HHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHH
Q psy17441 31 LTALSVC-KFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVE 109 (458)
Q Consensus 31 ~~~~~~~-~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ 109 (458)
+.+...+ +.+..+++.+||. - .+ + ++.+-+...||+|...- +..+..+++.
T Consensus 50 ~~~v~~~~~~~~~~~~dviIs--r-G~--t---a~~i~~~~~iPVv~i~~-------------------s~~Dil~al~- 101 (538)
T PRK15424 50 EKAVTYIRKRLATERCDAIIA--A-GS--N---GAYLKSRLSVPVILIKP-------------------SGFDVMQALA- 101 (538)
T ss_pred HHHHHHHHHHHhhCCCcEEEE--C-ch--H---HHHHHhhCCCCEEEecC-------------------CHhHHHHHHH-
Confidence 3344444 4454568888886 2 11 2 23333456788886533 2222334443
Q ss_pred HHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh
Q psy17441 110 LLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD 189 (458)
Q Consensus 110 ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~ 189 (458)
..+.++ .++++|.-.+.. .....+.+.+.- .+.. ..+ .+.+|....++++|+.+.++||..+
T Consensus 102 ~a~~~~-~~iavv~~~~~~--~~~~~~~~~l~~---------~i~~-~~~-~~~~e~~~~v~~lk~~G~~~vvG~~---- 163 (538)
T PRK15424 102 RARKLT-SSIGVVTYQETI--PALVAFQKTFNL---------RIEQ-RSY-VTEEDARGQINELKANGIEAVVGAG---- 163 (538)
T ss_pred HHHhcC-CcEEEEecCccc--HHHHHHHHHhCC---------ceEE-EEe-cCHHHHHHHHHHHHHCCCCEEEcCc----
Confidence 335555 577877655432 236677777752 2221 222 2567899999999999999998643
Q ss_pred HHHHHHHHHhcCCcccceEEEee
Q psy17441 190 AEIIFKDAQYLNMTETGYVWIVT 212 (458)
Q Consensus 190 ~~~il~~a~~~g~~~~~~~wi~t 212 (458)
.....|.+.|+.+ +++.+
T Consensus 164 --~~~~~A~~~g~~g---~~~~s 181 (538)
T PRK15424 164 --LITDLAEEAGMTG---IFIYS 181 (538)
T ss_pred --hHHHHHHHhCCce---EEecC
Confidence 2356677778774 55543
No 270
>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=56.72 E-value=1e+02 Score=28.36 Aligned_cols=77 Identities=4% Similarity=-0.019 Sum_probs=48.8
Q ss_pred EEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
++++.. ++.|.....+.+.+.+++.|..+ .... ...+.+.....++.+.+.++|.|++........ .+++
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~------~~~~-~~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~~-~~~~ 73 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHL------IITA-GHHSAEKEREAIEFLLERRCDALILHSKALSDD-ELIE 73 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEE------EEEe-CCCchHHHHHHHHHHHHcCCCEEEEecCCCCHH-HHHH
Confidence 455553 35688888999999999988322 2111 122333455677778888999999876543322 3777
Q ss_pred HHhcCCc
Q psy17441 197 AQYLNMT 203 (458)
Q Consensus 197 a~~~g~~ 203 (458)
+.+.|..
T Consensus 74 ~~~~~ip 80 (268)
T cd06270 74 LAAQVPP 80 (268)
T ss_pred HhhCCCC
Confidence 7777754
No 271
>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=56.72 E-value=37 Score=33.80 Aligned_cols=79 Identities=6% Similarity=-0.013 Sum_probs=52.3
Q ss_pred HHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEE-EEeCCCcccHHHHHHHHHhccCeEEE
Q psy17441 104 ADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAV-IEFEPGLTTFKDQLYEMKNAQARVYL 182 (458)
Q Consensus 104 ~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~-~~~~~~~~d~~~~l~~ik~~~~~vii 182 (458)
...+.+.++.++-+++.++++.........+.+.+.+++.|+.+ . .+. ..-.+..++..+.+...++.++|.||
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~----~-~~~~v~~~p~~~~v~~~~~~~~~~~~d~II 90 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEY----V-VFSDVSPNPRDEEVMAGAELYLENGCDVII 90 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeE----E-EeCCCCCCCCHHHHHHHHHHHHhcCCCEEE
Confidence 34566778888989999998755333345678888888877322 1 111 11122445577778888889999999
Q ss_pred EEeCh
Q psy17441 183 MYASK 187 (458)
Q Consensus 183 l~~~~ 187 (458)
-.+-+
T Consensus 91 aiGGG 95 (377)
T cd08188 91 AVGGG 95 (377)
T ss_pred EeCCc
Confidence 77655
No 272
>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=56.57 E-value=90 Score=28.79 Aligned_cols=79 Identities=9% Similarity=0.136 Sum_probs=49.7
Q ss_pred EEEEEEec--CcchhHHHHHHHHhhhcc---CCcceeeEEEEEEEE-eCCCcccHHHHHHHHHhccCeEEEEEeChhh-H
Q psy17441 118 KVIFIHSS--DTDGRALLGRFQTTSQNQ---EDDVEIKVQVEAVIE-FEPGLTTFKDQLYEMKNAQARVYLMYASKQD-A 190 (458)
Q Consensus 118 ~v~ii~~~--d~~g~~~~~~l~~~l~~~---gi~v~~~~~v~~~~~-~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~ 190 (458)
||+++..+ +.|.....+.+.+.+++. | ..+..... ...+.+...+.++++...+++.||+...... .
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g------~~~~l~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~ 74 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAG------LISEFIVTSADGDVAQQIADIRNLIAQGVDAIIINPASPTAL 74 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccC------CeeEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhh
Confidence 46666633 457777888898989887 6 21111121 1123344667778888889999999765433 3
Q ss_pred HHHHHHHHhcCC
Q psy17441 191 EIIFKDAQYLNM 202 (458)
Q Consensus 191 ~~il~~a~~~g~ 202 (458)
...+..+.+.|.
T Consensus 75 ~~~l~~~~~~~i 86 (272)
T cd06300 75 NPVIEEACEAGI 86 (272)
T ss_pred HHHHHHHHHCCC
Confidence 446777777765
No 273
>PRK09701 D-allose transporter subunit; Provisional
Probab=55.82 E-value=67 Score=30.72 Aligned_cols=84 Identities=6% Similarity=-0.035 Sum_probs=53.6
Q ss_pred cCCeEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEE-EeCCCcccHHHHHHHHHhccCeEEEEEeChhh-
Q psy17441 114 FNYMKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVI-EFEPGLTTFKDQLYEMKNAQARVYLMYASKQD- 189 (458)
Q Consensus 114 ~~w~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~-~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~- 189 (458)
+--..++++..+ +.|.....+.+++.+++.|+. +.... ....+..+....++.+.+.+++.|++......
T Consensus 22 ~~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~------v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~ 95 (311)
T PRK09701 22 FAAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVS------VDIFASPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVN 95 (311)
T ss_pred ccCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCe------EEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHH
Confidence 444689999854 668888999999999998732 22111 11112233456677777788999988764432
Q ss_pred HHHHHHHHHhcCCc
Q psy17441 190 AEIIFKDAQYLNMT 203 (458)
Q Consensus 190 ~~~il~~a~~~g~~ 203 (458)
....+.++.+.|+.
T Consensus 96 ~~~~l~~~~~~giP 109 (311)
T PRK09701 96 LVMPVARAWKKGIY 109 (311)
T ss_pred HHHHHHHHHHCCCc
Confidence 33446667777753
No 274
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=55.52 E-value=1.1e+02 Score=25.54 Aligned_cols=82 Identities=11% Similarity=0.048 Sum_probs=40.1
Q ss_pred chhHHHHHHHHHHhcCCeEEEEEEecCcc----hhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHh
Q psy17441 100 YSHQADVWVELLKHFNYMKVIFIHSSDTD----GRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKN 175 (458)
Q Consensus 100 ~~~~~~ai~~ll~~~~w~~v~ii~~~d~~----g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~ 175 (458)
-..|-..+-+..+..||.-+.++.++... .+...+.+.+.+++..+.+ +.+.....+..+..+....++.+.+
T Consensus 20 le~Q~~~l~~~a~~~g~~i~~~~~D~~~SG~~~~Rp~l~~ll~~~~~g~vd~---vvv~~ldRl~R~~~d~~~~~~~l~~ 96 (140)
T cd03770 20 IENQKAILEEYAKENGLENIRHYIDDGFSGTTFDRPGFNRMIEDIEAGKIDI---VIVKDMSRLGRNYLKVGLYMEILFP 96 (140)
T ss_pred HHHHHHHHHHHHHHCCCEEEEEEEcCCCcCCcCCCHHHHHHHHHHHcCCCCE---EEEeccchhccCHHHHHHHHHHHHh
Confidence 34555666667777888765543333222 2344555555554432111 2222222333344455555666655
Q ss_pred c-cCeEEEEE
Q psy17441 176 A-QARVYLMY 184 (458)
Q Consensus 176 ~-~~~viil~ 184 (458)
. +.+++.+.
T Consensus 97 ~~gv~l~~~~ 106 (140)
T cd03770 97 KKGVRFIAIN 106 (140)
T ss_pred hcCcEEEEec
Confidence 4 66666654
No 275
>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=55.34 E-value=47 Score=33.00 Aligned_cols=81 Identities=15% Similarity=0.174 Sum_probs=52.4
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMY 184 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~ 184 (458)
..+.+.++.++ +|+.|+++.... ..+.+.+.+++.|+.+ . .+...-.+..+++.+.++..++.++|.||-.
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~~---~~~~v~~~L~~~g~~~----~-~~~~~~~p~~~~v~~~~~~~~~~~~D~IIai 82 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASSL---RAAWLIEALRAAGIEV----T-HVVVAGEPSVELVDAAVAEARNAGCDVVIAI 82 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCchH---HHHHHHHHHHHcCCeE----E-EecCCCCcCHHHHHHHHHHHHhcCCCEEEEe
Confidence 34566777775 899999866543 6778888898887432 1 1111112344567778888888999999987
Q ss_pred eChh--hHHHHH
Q psy17441 185 ASKQ--DAEIIF 194 (458)
Q Consensus 185 ~~~~--~~~~il 194 (458)
+.+. |+..++
T Consensus 83 GGGS~~D~aK~i 94 (374)
T cd08183 83 GGGSVIDAGKAI 94 (374)
T ss_pred cCchHHHHHHHH
Confidence 6553 444443
No 276
>KOG4404|consensus
Probab=55.27 E-value=2.9 Score=39.67 Aligned_cols=56 Identities=21% Similarity=0.370 Sum_probs=48.1
Q ss_pred ccccccccchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHH----HHHHhhcccce
Q psy17441 331 TEEDALNLSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWAGFA----MIIVASYTANL 386 (458)
Q Consensus 331 ~~~~~~~~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~----~i~~~~yta~l 386 (458)
..++++.|.-+|+|+...+.+-|+|.-.|.+.+||+..+++.+++ +|+.+++---|
T Consensus 74 ~ag~qWkF~GaFYFa~TVItTIGyGhstP~T~~GK~Fcm~Yal~Gipl~lvmFqs~gERl 133 (350)
T KOG4404|consen 74 KAGPQWKFAGAFYFATTVITTIGYGHSTPSTDGGKAFCMFYALVGIPLTLVMFQSIGERL 133 (350)
T ss_pred ccccccccCcceEEEEEEEeeeccCCCCCCCcCceehhhhHHHhcCchHHHHHHHHHHHH
Confidence 456788899999999999999999999999999999999999987 67777654433
No 277
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=54.92 E-value=12 Score=36.07 Aligned_cols=70 Identities=9% Similarity=0.124 Sum_probs=44.1
Q ss_pred HHhhcccceeEEeeeccCCCCCCChhhhhhcCCCCceEEEEeCCChHHHHHhhchhhHHHHHHHHHcCCCCHHHHHHHhh
Q psy17441 378 IVASYTANLAAFLVLERPKTKLTGINDARLRNTMENLTCATVKGSAVDMYFRRQVELSNMYRTMEANNYDTAEDAIADVK 457 (458)
Q Consensus 378 ~~~~yta~l~s~lt~~~~~~~i~~~~dL~~~~~~~~~~~g~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~~v~ 457 (458)
+...|--+-.++++-+. ..|++++||. +.++|+..|+....+++.... +-...++...+++.+++++.|.
T Consensus 126 fS~Py~~~~~~lv~r~~--~~i~sl~dL~------Gk~V~v~~gs~~~~~l~~~~~--~~~~~~~i~~~~~~~~~l~~L~ 195 (302)
T PRK10797 126 FSDTIFVVGTRLLTKKG--GDIKDFADLK------GKAVVVTSGTTSEVLLNKLNE--EQKMNMRIISAKDHGDSFRTLE 195 (302)
T ss_pred ecccEeeccEEEEEECC--CCCCChHHcC------CCEEEEeCCCcHHHHHHHHhh--hcCCceEEEEeCCHHHHHHHHH
Confidence 33345444456665443 4689999997 789999999999888865210 0000122334677778887765
No 278
>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=54.70 E-value=90 Score=28.67 Aligned_cols=77 Identities=3% Similarity=-0.036 Sum_probs=48.9
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
++++..+ +.|.......+.+.+++.|. .+.... ...+.....+.++.+.+.+++.|++....... ..++.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~g~------~~~~~~-~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~ 73 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAAGY------DVVLSE-SGRRTSPERQWVERLSARRTDGVILVTPELTS-AQRAA 73 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHcCC------eEEEec-CCCchHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHH
Confidence 4566543 57888899999999998873 222111 12223345567778888889988876544333 34677
Q ss_pred HHhcCCc
Q psy17441 197 AQYLNMT 203 (458)
Q Consensus 197 a~~~g~~ 203 (458)
+.+.+..
T Consensus 74 ~~~~~ip 80 (270)
T cd06296 74 LRRTGIP 80 (270)
T ss_pred HhcCCCC
Confidence 7776654
No 279
>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=54.61 E-value=48 Score=33.09 Aligned_cols=84 Identities=10% Similarity=0.064 Sum_probs=52.5
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe-CCCcccHHHHHHHHHhccCeEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF-EPGLTTFKDQLYEMKNAQARVYLM 183 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~-~~~~~d~~~~l~~ik~~~~~viil 183 (458)
..+.+.++.+| +++.++++.........+.+.+.+++.|+.+ . .+.... .+...+..+.+...++.++|.||-
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~~~~~~~v~~~L~~~~~~~----~-~f~~v~~~~~~~~v~~~~~~~~~~~~D~IIa 85 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAGTPVFAELVQALAAAGVEV----E-VFDGVLPDLPRSELCDAASAAARAGPDVIIG 85 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhhcchHHHHHHHHHHcCCeE----E-EECCCCCCcCHHHHHHHHHHHHhcCCCEEEE
Confidence 34567788889 8998888654433467788999998877432 1 111111 112334556667778889999987
Q ss_pred EeChh--hHHHHH
Q psy17441 184 YASKQ--DAEIIF 194 (458)
Q Consensus 184 ~~~~~--~~~~il 194 (458)
.+.+. |+..++
T Consensus 86 iGGGS~iD~aK~i 98 (386)
T cd08191 86 LGGGSCIDLAKIA 98 (386)
T ss_pred eCCchHHHHHHHH
Confidence 76553 444444
No 280
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=54.50 E-value=1.1e+02 Score=24.64 Aligned_cols=70 Identities=6% Similarity=-0.146 Sum_probs=35.9
Q ss_pred EecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh----hhHHHHHHHHH
Q psy17441 123 HSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK----QDAEIIFKDAQ 198 (458)
Q Consensus 123 ~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~----~~~~~il~~a~ 198 (458)
...++...-...-+...++.+| ..+.. .. ......+.+..+++.++++|.+.+.. +.+..++++.+
T Consensus 6 ~~~gd~H~lG~~~~~~~l~~~G------~~vi~---lG-~~vp~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~ 75 (122)
T cd02071 6 KPGLDGHDRGAKVIARALRDAG------FEVIY---TG-LRQTPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLR 75 (122)
T ss_pred ecCCChhHHHHHHHHHHHHHCC------CEEEE---CC-CCCCHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHH
Confidence 3333333344555555666666 22211 11 12334456666677777777776543 23455556666
Q ss_pred hcCC
Q psy17441 199 YLNM 202 (458)
Q Consensus 199 ~~g~ 202 (458)
+.+.
T Consensus 76 ~~~~ 79 (122)
T cd02071 76 ELGA 79 (122)
T ss_pred hcCC
Confidence 6655
No 281
>PF02608 Bmp: Basic membrane protein; InterPro: IPR003760 This is a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. All of these proteins are outer membrane proteins and are thus antigenic in nature when possessed by the pathogenic members of the family []. The Bacillus subtilis degR, a positive regulator of the production of degradative enzymes, is also a member of this group [].; GO: 0005886 plasma membrane; PDB: 2HQB_A 3S99_A 2FQW_A 2FQY_A 2FQX_A.
Probab=54.20 E-value=1.8e+02 Score=27.90 Aligned_cols=101 Identities=7% Similarity=0.140 Sum_probs=58.3
Q ss_pred eEEEEEEec----CcchhHHHHHHHHhhhcc-CCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHH
Q psy17441 117 MKVIFIHSS----DTDGRALLGRFQTTSQNQ-EDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAE 191 (458)
Q Consensus 117 ~~v~ii~~~----d~~g~~~~~~l~~~l~~~-gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~ 191 (458)
++++++... ..|.+...+.+++.-++. | +.+......+....++.+.++++.+.+.++|++.+..- ..
T Consensus 2 ~~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~~~------i~~~~~e~~~~~~~~~~~~~~~~~~~g~dlIi~~g~~~-~~ 74 (306)
T PF02608_consen 2 KKVALLDPGGINDKGFNQSAYEGLKRAEKELDG------IEIIYVENVPETDADYEEAIRQLADQGYDLIIGHGFEY-SD 74 (306)
T ss_dssp EEEEEESSS-CCCSSHHHHHHHHHHHHHHHCTT------EEEEEEES-S-TCHHHHHHHHHHHHTT-SEEEEESGGG-HH
T ss_pred eEEEEEECCCCCCccHHHHHHHHHHHHHHHcCC------ceEEEEecCCccHHHHHHHHHHHHHcCCCEEEEccHHH-HH
Confidence 466666533 346667777777777776 5 44444443322467899999999999999999976543 33
Q ss_pred HHHHHHHhcCCcccceEEEeeccccccCCCCCeeEEEEe
Q psy17441 192 IIFKDAQYLNMTETGYVWIVTEQALTAKNVPVGIIGLKL 230 (458)
Q Consensus 192 ~il~~a~~~g~~~~~~~wi~t~~~~~~~~~~~g~~g~~~ 230 (458)
.+..-|.+. ++..|+..+....... .++.++.+
T Consensus 75 ~~~~vA~~y----Pd~~F~~~d~~~~~~~--~Nv~~~~f 107 (306)
T PF02608_consen 75 ALQEVAKEY----PDTKFIIIDGYIDAPE--PNVISITF 107 (306)
T ss_dssp HHHHHHTC-----TTSEEEEESS---ST---TTEEEEEE
T ss_pred HHHHHHHHC----CCCEEEEEecCcCCCC--CcEEEEEc
Confidence 444445444 3356777665433321 35555543
No 282
>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=53.95 E-value=1.1e+02 Score=28.15 Aligned_cols=77 Identities=5% Similarity=-0.029 Sum_probs=48.1
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
|+++..+ +.|.......+.+.+++.|.. +... ....+.......++.+.+.+.+.+++.........++++
T Consensus 2 Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~------~~~~-~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~ 74 (269)
T cd06281 2 IGCLVSDITNPLLAQLFSGAEDRLRAAGYS------LLIA-NSLNDPERELEILRSFEQRRMDGIIIAPGDERDPELVDA 74 (269)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCE------EEEE-eCCCChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHH
Confidence 5666643 567778888999999987722 1111 112223345567777888889988886543333456666
Q ss_pred HHhcCC
Q psy17441 197 AQYLNM 202 (458)
Q Consensus 197 a~~~g~ 202 (458)
+++.+.
T Consensus 75 ~~~~~i 80 (269)
T cd06281 75 LASLDL 80 (269)
T ss_pred HHhCCC
Confidence 666664
No 283
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=53.83 E-value=1.3e+02 Score=29.15 Aligned_cols=83 Identities=8% Similarity=0.036 Sum_probs=51.9
Q ss_pred CCeEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEe-ChhhHH
Q psy17441 115 NYMKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYA-SKQDAE 191 (458)
Q Consensus 115 ~w~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~-~~~~~~ 191 (458)
+-+.|+++..+ +.|.....+.+++.+++.| +..+.. .....+.+.....+..+...+++.||+.. +.....
T Consensus 23 ~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~g-----~~~~~~-~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 96 (330)
T PRK15395 23 ADTRIGVTIYKYDDNFMSVVRKAIEKDAKAAP-----DVQLLM-NDSQNDQSKQNDQIDVLLAKGVKALAINLVDPAAAP 96 (330)
T ss_pred CCceEEEEEecCcchHHHHHHHHHHHHHHhcC-----CeEEEE-ecCCCCHHHHHHHHHHHHHcCCCEEEEeccCHHHHH
Confidence 44778888754 4577788889999998875 122211 11111222334567778888999999874 333345
Q ss_pred HHHHHHHhcCCc
Q psy17441 192 IIFKDAQYLNMT 203 (458)
Q Consensus 192 ~il~~a~~~g~~ 203 (458)
..++++.+.|+.
T Consensus 97 ~~l~~l~~~giP 108 (330)
T PRK15395 97 TVIEKARGQDVP 108 (330)
T ss_pred HHHHHHHHCCCc
Confidence 567888777764
No 284
>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=53.82 E-value=42 Score=33.08 Aligned_cols=79 Identities=11% Similarity=0.120 Sum_probs=51.5
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcch-hHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDG-RALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLM 183 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g-~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil 183 (458)
..+.++++.+| +++.++++...+- .+..+.+.+.+++.|+.+ .+-....-.+..++..+.++.+++.++|.||-
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~----~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIa 89 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEY----EIFDEVEENPSLETIMEAVEIAKKFNADFVIG 89 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeE----EEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEE
Confidence 34566778888 8988888765433 234678888898877322 11001111234556778888889999999998
Q ss_pred EeChh
Q psy17441 184 YASKQ 188 (458)
Q Consensus 184 ~~~~~ 188 (458)
.+-+.
T Consensus 90 vGGGS 94 (357)
T cd08181 90 IGGGS 94 (357)
T ss_pred eCCch
Confidence 76653
No 285
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=53.48 E-value=60 Score=30.07 Aligned_cols=79 Identities=13% Similarity=-0.006 Sum_probs=47.9
Q ss_pred EEEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe-CCCcccHHHHHHHHHhccCeEEEEEeCh-hhHHHH
Q psy17441 118 KVIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF-EPGLTTFKDQLYEMKNAQARVYLMYASK-QDAEII 193 (458)
Q Consensus 118 ~v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~-~~~~~d~~~~l~~ik~~~~~viil~~~~-~~~~~i 193 (458)
+++++.. ++.|.....+.+.+++++.|.. +...... ..+.....+.++++.+.+++.|++.... ......
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~g~~------~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~ 74 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKLGVS------VDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLVPA 74 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHhCCe------EEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHH
Confidence 3566664 3567778889999999988732 2211111 1122234566777777889998876533 223455
Q ss_pred HHHHHhcCC
Q psy17441 194 FKDAQYLNM 202 (458)
Q Consensus 194 l~~a~~~g~ 202 (458)
++++.+.|.
T Consensus 75 ~~~~~~~~i 83 (275)
T cd06320 75 VERAKKKGI 83 (275)
T ss_pred HHHHHHCCC
Confidence 677777665
No 286
>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=52.91 E-value=58 Score=32.23 Aligned_cols=84 Identities=12% Similarity=0.118 Sum_probs=52.7
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMY 184 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~ 184 (458)
..+.+.++.++.+++.++++...+ ....+++.+++.|+.+ .+-....-.+..+++.+.++.+++.++|.||-.
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~---~~~~~~~~l~~~~~~~----~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIav 84 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA---IASGLTDILKPLGTLV----VVFDDVQPNPDLEDLAAGIRLLREFGPDAVLAV 84 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH---HHHHHHHHHHHcCCeE----EEEcCcCCCcCHHHHHHHHHHHHhcCcCEEEEe
Confidence 445677888888999999876654 3466777787766221 111011112234567778888888899999877
Q ss_pred eCh--hhHHHHHH
Q psy17441 185 ASK--QDAEIIFK 195 (458)
Q Consensus 185 ~~~--~~~~~il~ 195 (458)
+.+ -|+..++.
T Consensus 85 GGGs~~D~aK~ia 97 (367)
T cd08182 85 GGGSVLDTAKALA 97 (367)
T ss_pred CCcHHHHHHHHHH
Confidence 554 34444443
No 287
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=52.83 E-value=1.3e+02 Score=28.73 Aligned_cols=81 Identities=7% Similarity=-0.005 Sum_probs=49.6
Q ss_pred CeEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHH
Q psy17441 116 YMKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEII 193 (458)
Q Consensus 116 w~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~i 193 (458)
-+.|+++..+ +.|.......+.+.+++.|. .+.... ...+.......++.+.+.+.+.||+..........
T Consensus 61 ~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~------~~~~~~-~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~ 133 (328)
T PRK11303 61 TRSIGLIIPDLENTSYARIAKYLERQARQRGY------QLLIAC-SDDQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPF 133 (328)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHHHcCC------EEEEEe-CCCCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHH
Confidence 3568888753 56777888999999998873 222111 11122333456677777889999886543222345
Q ss_pred HHHHHhcCCc
Q psy17441 194 FKDAQYLNMT 203 (458)
Q Consensus 194 l~~a~~~g~~ 203 (458)
++++.+.|..
T Consensus 134 ~~~l~~~~iP 143 (328)
T PRK11303 134 YQRLQNDGLP 143 (328)
T ss_pred HHHHHhcCCC
Confidence 6666666653
No 288
>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=52.71 E-value=83 Score=29.87 Aligned_cols=79 Identities=11% Similarity=0.082 Sum_probs=49.7
Q ss_pred EEEEEEec--CcchhHHHHHHHHhhhc--cCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh-hhHHH
Q psy17441 118 KVIFIHSS--DTDGRALLGRFQTTSQN--QEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK-QDAEI 192 (458)
Q Consensus 118 ~v~ii~~~--d~~g~~~~~~l~~~l~~--~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~-~~~~~ 192 (458)
+|+++..+ +.|.......+++.+++ .| ..+... ....+.......++++.+.+++.|++.... .....
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g------~~~~~~-~~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~ 73 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGK------VEFTFY-DAKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQT 73 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCC------eeEEEe-cCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHHH
Confidence 46666654 45777888899999988 55 222211 111123334567778888899998886433 33456
Q ss_pred HHHHHHhcCCc
Q psy17441 193 IFKDAQYLNMT 203 (458)
Q Consensus 193 il~~a~~~g~~ 203 (458)
.++++.+.|+.
T Consensus 74 ~~~~~~~~giP 84 (303)
T cd01539 74 VINKAKQKNIP 84 (303)
T ss_pred HHHHHHHCCCC
Confidence 77888777763
No 289
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=52.13 E-value=74 Score=31.00 Aligned_cols=81 Identities=14% Similarity=-0.004 Sum_probs=50.9
Q ss_pred CeEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe-CCCcccHHHHHHHHHhccCeEEEEEeChhhH-H
Q psy17441 116 YMKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF-EPGLTTFKDQLYEMKNAQARVYLMYASKQDA-E 191 (458)
Q Consensus 116 w~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~-~~~~~d~~~~l~~ik~~~~~viil~~~~~~~-~ 191 (458)
-++|+++..+ +.|.....+.+++++++.|. .+...... ..+.......++.+.+.+++.||+.+...+. .
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~------~l~i~~~~~~~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~ 119 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGV------DLKVLEAGGYYNLAKQQQQLEQCVAWGADAILLGAVTPDGLN 119 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCC------EEEEEcCCCCCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhH
Confidence 3788888855 56777888999999998872 22221111 1122334566777778889999987644333 2
Q ss_pred HHHHHHHhcCCc
Q psy17441 192 IIFKDAQYLNMT 203 (458)
Q Consensus 192 ~il~~a~~~g~~ 203 (458)
..+ ++.+.|..
T Consensus 120 ~~l-~~~~~giP 130 (343)
T PRK10936 120 PDL-ELQAANIP 130 (343)
T ss_pred HHH-HHHHCCCC
Confidence 344 67777753
No 290
>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=52.05 E-value=1.3e+02 Score=27.50 Aligned_cols=77 Identities=4% Similarity=0.022 Sum_probs=49.2
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
|+++..+ ++|.......+.+.+++.|. .+.. .....+.....+.++.+.+.+++.|++....... ..+++
T Consensus 2 igvi~p~~~~~~~~~~~~gi~~~~~~~~~------~~~~-~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~ 73 (265)
T cd06285 2 IGVLVPRLTDTVMATMYEGIEEAAAERGY------STFV-ANTGDNPDAQRRAIEMLLDRRVDGLILGDARSDD-HFLDE 73 (265)
T ss_pred EEEEeCCCCCccHHHHHHHHHHHHHHCCC------EEEE-EeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHH
Confidence 5666654 56888889999999999873 2211 1111223345567777888899998887544333 34677
Q ss_pred HHhcCCc
Q psy17441 197 AQYLNMT 203 (458)
Q Consensus 197 a~~~g~~ 203 (458)
+.+.+..
T Consensus 74 ~~~~~iP 80 (265)
T cd06285 74 LTRRGVP 80 (265)
T ss_pred HHHcCCC
Confidence 7777653
No 291
>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=51.75 E-value=72 Score=31.33 Aligned_cols=74 Identities=15% Similarity=0.122 Sum_probs=48.7
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC--CCcccHHHHHHHHHhccCeEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE--PGLTTFKDQLYEMKNAQARVYL 182 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~--~~~~d~~~~l~~ik~~~~~vii 182 (458)
..+.++++.+| +++.++++...+- ...+.+.+.+++.|+.+ ... .++ +..+++.+.++..++.++|.||
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~~-~~~~~v~~~l~~~~i~~------~~~-~~~~~p~~~~v~~~~~~~~~~~~d~II 82 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVLK-KSRPRFEAALAKSIIVV------DVI-VFGGECSTEEVVKALCGAEEQEADVII 82 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHHH-HHHHHHHHHHHhcCCee------EEE-EcCCCCCHHHHHHHHHHHHhcCCCEEE
Confidence 44567788888 8888887655433 55688888898876321 111 122 2334566777778888999998
Q ss_pred EEeCh
Q psy17441 183 MYASK 187 (458)
Q Consensus 183 l~~~~ 187 (458)
-.+.+
T Consensus 83 avGGG 87 (349)
T cd08550 83 GVGGG 87 (349)
T ss_pred EecCc
Confidence 77655
No 292
>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=51.41 E-value=1.1e+02 Score=28.95 Aligned_cols=78 Identities=12% Similarity=0.108 Sum_probs=49.0
Q ss_pred EEEEEe---cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc--cCeEEEEEeChhhHHHH
Q psy17441 119 VIFIHS---SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA--QARVYLMYASKQDAEII 193 (458)
Q Consensus 119 v~ii~~---~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~--~~~viil~~~~~~~~~i 193 (458)
|+++.. ++.|.......+++.+++.|.. +... ....+.+.....++.+.+. ++|.||+..........
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~g~~------v~~~-~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~ 74 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDLGIE------LEVL-YAERDRFLMLQQARTILQRPDKPDALIFTNEKSVAPEL 74 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhcCCe------EEEE-eCCCCHHHHHHHHHHHHHhccCCCEEEEcCCccchHHH
Confidence 555653 3567788889999999988732 2211 1122333345667777777 89999986543334556
Q ss_pred HHHHHhcCCc
Q psy17441 194 FKDAQYLNMT 203 (458)
Q Consensus 194 l~~a~~~g~~ 203 (458)
++.+.+.|+.
T Consensus 75 ~~~~~~~giP 84 (305)
T cd06324 75 LRLAEGAGVK 84 (305)
T ss_pred HHHHHhCCCe
Confidence 7777777763
No 293
>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=51.31 E-value=76 Score=31.12 Aligned_cols=82 Identities=11% Similarity=0.134 Sum_probs=52.0
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe--CCCcccHHHHHHHHHhccCeEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF--EPGLTTFKDQLYEMKNAQARVYL 182 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~--~~~~~d~~~~l~~ik~~~~~vii 182 (458)
..+.+.++.++ +|+.++++...+ ....+.+.+.++++|+.+ .....+ .+..++..+..+..++.++|.||
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~-~~~~~~v~~~l~~~~~~~------~~~~~~~~~p~~~~v~~~~~~~~~~~~d~ii 83 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL-AAAKDKIKAALEQSGIEI------TDFIWYGGESTYENVERLKKNPAVQEADMIF 83 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH-HHHHHHHHHHHHHCCCeE------EEEEecCCCCCHHHHHHHHHHHhhcCCCEEE
Confidence 44566777777 888888876544 345788888898877432 111112 22445566777777888999999
Q ss_pred EEeChh--hHHHHH
Q psy17441 183 MYASKQ--DAEIIF 194 (458)
Q Consensus 183 l~~~~~--~~~~il 194 (458)
-.+-+. |+..++
T Consensus 84 avGGGs~~D~aK~i 97 (345)
T cd08171 84 AVGGGKAIDTVKVL 97 (345)
T ss_pred EeCCcHHHHHHHHH
Confidence 776553 444444
No 294
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=50.91 E-value=1.8e+02 Score=25.87 Aligned_cols=86 Identities=8% Similarity=-0.096 Sum_probs=40.3
Q ss_pred EEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh----hhHHHH
Q psy17441 118 KVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK----QDAEII 193 (458)
Q Consensus 118 ~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~----~~~~~i 193 (458)
+|.+.+..++...-...-+...++.+| ..+.+ + ..+....+.++.+++.++++|-+.+.. .....+
T Consensus 86 ~vv~~t~~gd~H~lG~~~v~~~l~~~G------~~vi~---L-G~~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~ 155 (197)
T TIGR02370 86 KVVCGVAEGDVHDIGKNIVVTMLRANG------FDVID---L-GRDVPIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDI 155 (197)
T ss_pred eEEEEeCCCchhHHHHHHHHHHHHhCC------cEEEE---C-CCCCCHHHHHHHHHHcCCCEEEEccccccCHHHHHHH
Confidence 444444444444444555555555555 22111 1 112234455555666666666554322 345555
Q ss_pred HHHHHhcCCcccceEEEeec
Q psy17441 194 FKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 194 l~~a~~~g~~~~~~~wi~t~ 213 (458)
+++.++.|...+-.+|+...
T Consensus 156 i~~l~~~~~~~~v~i~vGG~ 175 (197)
T TIGR02370 156 NDKLKEEGYRDSVKFMVGGA 175 (197)
T ss_pred HHHHHHcCCCCCCEEEEECh
Confidence 56666665543224444443
No 295
>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=50.80 E-value=1.6e+02 Score=28.95 Aligned_cols=97 Identities=15% Similarity=0.147 Sum_probs=59.6
Q ss_pred HHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC-----CCcccHHHHHHHHHhccCe-
Q psy17441 106 VWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE-----PGLTTFKDQLYEMKNAQAR- 179 (458)
Q Consensus 106 ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~-----~~~~d~~~~l~~ik~~~~~- 179 (458)
.+.+.++.++-+++.++++.+.+ ....+.+.+.+++.|+.+ .. ..++ +..+.+.+.+..+++.+++
T Consensus 13 ~l~~~l~~~g~~rvlvVtd~~v~-~~~~~~l~~~L~~~g~~~------~~-~~~~~~e~~k~~~~v~~~~~~~~~~~~dr 84 (355)
T cd08197 13 SVLGYLPELNADKYLLVTDSNVE-DLYGHRLLEYLREAGAPV------EL-LSVPSGEEHKTLSTLSDLVERALALGATR 84 (355)
T ss_pred HHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhcCCce------EE-EEeCCCCCCCCHHHHHHHHHHHHHcCCCC
Confidence 34566777777899999876654 346788889998877432 11 1122 1334577778888888887
Q ss_pred --EEEEEeCh--hhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 180 --VYLMYASK--QDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 180 --viil~~~~--~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
.|+..+.+ -++..++......|+ .++-|-|.
T Consensus 85 ~~~IIAvGGGsv~D~ak~~A~~~~rgi---p~I~IPTT 119 (355)
T cd08197 85 RSVIVALGGGVVGNIAGLLAALLFRGI---RLVHIPTT 119 (355)
T ss_pred CcEEEEECCcHHHHHHHHHHHHhccCC---CEEEecCc
Confidence 77766554 345555544333343 26666664
No 296
>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=50.31 E-value=59 Score=32.38 Aligned_cols=78 Identities=18% Similarity=0.230 Sum_probs=50.5
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcc-hhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTD-GRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLM 183 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~-g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil 183 (458)
..+.++++.++ +|+.++.....+ ..+..+.+.+.+++.|+.+ ..+. ...-.+..++..+.++..++.++|.||-
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~---~~~~-~v~~~p~~~~v~~~~~~~~~~~~D~IIa 92 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKKNGLYDRVIASLKEAGIEV---VELG-GVEPNPRLETVREGIELCKEEKVDFILA 92 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeE---EEEC-CccCCCCHHHHHHHHHHHHHcCCCEEEE
Confidence 34566777775 898888765433 2345688999998877332 1010 1111223556778888899999999997
Q ss_pred EeCh
Q psy17441 184 YASK 187 (458)
Q Consensus 184 ~~~~ 187 (458)
.+-+
T Consensus 93 iGGG 96 (382)
T cd08187 93 VGGG 96 (382)
T ss_pred eCCh
Confidence 7654
No 297
>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=49.93 E-value=72 Score=30.95 Aligned_cols=86 Identities=8% Similarity=0.077 Sum_probs=53.6
Q ss_pred HHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEe
Q psy17441 106 VWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYA 185 (458)
Q Consensus 106 ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~ 185 (458)
.+.+.++.++.+++.++++..... ...+.+.+.+++. +.+ ..+.. ..-.+..+++.+.+..+++.++|.||-.+
T Consensus 13 ~l~~~~~~~g~~~~liv~~~~~~~-~~~~~v~~~l~~~-~~~---~~~~~-~~~~p~~~~v~~~~~~~~~~~~d~IIaiG 86 (332)
T cd07766 13 KIGEEIKRGGFDRALVVSDEGVVK-GVGEKVADSLKKL-IAV---HIFDG-VGPNPTFEEVKEAVERARAAEVDAVIAVG 86 (332)
T ss_pred HHHHHHHhcCCCeEEEEeCCchhh-hHHHHHHHHHHhc-CcE---EEeCC-cCCCcCHHHHHHHHHHHHhcCcCEEEEeC
Confidence 456677888989999998655433 6677788888763 322 11111 11113455677888888888999999775
Q ss_pred Ch--hhHHHHHHHH
Q psy17441 186 SK--QDAEIIFKDA 197 (458)
Q Consensus 186 ~~--~~~~~il~~a 197 (458)
.+ -|+..++...
T Consensus 87 GGs~~D~aK~ia~~ 100 (332)
T cd07766 87 GGSTLDTAKAVAAL 100 (332)
T ss_pred CchHHHHHHHHHHH
Confidence 54 3444444433
No 298
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=49.80 E-value=3.3e+02 Score=28.54 Aligned_cols=124 Identities=15% Similarity=0.144 Sum_probs=72.6
Q ss_pred HHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCe
Q psy17441 38 KFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYM 117 (458)
Q Consensus 38 ~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~ 117 (458)
+.+..+++.+||. - .+ ++ .-+-+...||+|...- +..+.-+++ ...+.++ .
T Consensus 48 ~~~~~~~~dviIs--r-G~--ta---~~i~~~~~iPVv~i~~-------------------s~~Dil~al-~~a~~~~-~ 98 (526)
T TIGR02329 48 QRLGAERCDVVVA--G-GS--NG---AYLKSRLSLPVIVIKP-------------------TGFDVMQAL-ARARRIA-S 98 (526)
T ss_pred HHHHhCCCcEEEE--C-ch--HH---HHHHHhCCCCEEEecC-------------------ChhhHHHHH-HHHHhcC-C
Confidence 3344567788885 1 11 22 2233345688876432 222233444 3345555 5
Q ss_pred EEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHH
Q psy17441 118 KVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDA 197 (458)
Q Consensus 118 ~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a 197 (458)
+++++.-.+.. .....+.+.+.- .+.. ..+ .+..+....++++|+.+.++||... .....|
T Consensus 99 ~ia~vg~~~~~--~~~~~~~~ll~~---------~i~~-~~~-~~~~e~~~~~~~l~~~G~~~viG~~------~~~~~A 159 (526)
T TIGR02329 99 SIGVVTHQDTP--PALRRFQAAFNL---------DIVQ-RSY-VTEEDARSCVNDLRARGIGAVVGAG------LITDLA 159 (526)
T ss_pred cEEEEecCccc--HHHHHHHHHhCC---------ceEE-EEe-cCHHHHHHHHHHHHHCCCCEEECCh------HHHHHH
Confidence 78877655431 236667777752 1221 222 2567899999999999999998543 345778
Q ss_pred HhcCCcccceEEEee
Q psy17441 198 QYLNMTETGYVWIVT 212 (458)
Q Consensus 198 ~~~g~~~~~~~wi~t 212 (458)
+++||. .+.|.+
T Consensus 160 ~~~gl~---~ili~s 171 (526)
T TIGR02329 160 EQAGLH---GVFLYS 171 (526)
T ss_pred HHcCCc---eEEEec
Confidence 889987 366654
No 299
>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=49.56 E-value=47 Score=33.06 Aligned_cols=78 Identities=13% Similarity=0.136 Sum_probs=51.6
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEE-EEeCCCcccHHHHHHHHHhccCeEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAV-IEFEPGLTTFKDQLYEMKNAQARVYLM 183 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~-~~~~~~~~d~~~~l~~ik~~~~~viil 183 (458)
..+.+.++.++-+++.++++.........+.+.+.+++.|+.+ . .+. +.-.+..+++.+.++.+++.++|.||-
T Consensus 17 ~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~----~-~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIa 91 (377)
T cd08176 17 KEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDY----V-IYDGVKPNPTITNVKDGLAVFKKEGCDFIIS 91 (377)
T ss_pred HHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeE----E-EeCCCCCCCCHHHHHHHHHHHHhcCCCEEEE
Confidence 4566778888888888887654333356788899998877322 1 111 111234556778888888899999997
Q ss_pred EeCh
Q psy17441 184 YASK 187 (458)
Q Consensus 184 ~~~~ 187 (458)
.+.+
T Consensus 92 vGGG 95 (377)
T cd08176 92 IGGG 95 (377)
T ss_pred eCCc
Confidence 7655
No 300
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=49.21 E-value=81 Score=29.81 Aligned_cols=72 Identities=7% Similarity=-0.089 Sum_probs=43.6
Q ss_pred CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh-hhHHHHHHHHHhcCC
Q psy17441 126 DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK-QDAEIIFKDAQYLNM 202 (458)
Q Consensus 126 d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~-~~~~~il~~a~~~g~ 202 (458)
+.|.......+++.+++.|. ..+........+.....+.++.+.+.+++.|++.... ......++++.+.|.
T Consensus 10 ~~f~~~~~~gi~~~a~~~g~-----~~~i~~~~~~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~gi 82 (302)
T TIGR02637 10 NPFFEAANKGAEEAAKELGS-----VYIIYTGPTGTTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRGI 82 (302)
T ss_pred CHHHHHHHHHHHHHHHHhCC-----eeEEEECCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCC
Confidence 56777788888898888761 1111110111233344566777777889988886543 233456777777775
No 301
>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=49.16 E-value=1.5e+02 Score=26.96 Aligned_cols=76 Identities=8% Similarity=0.073 Sum_probs=45.5
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC-CcccHHHHHHHHHhccCeEEEEEeChhhHHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP-GLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFK 195 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~-~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~ 195 (458)
|++|..+ +.+.......+++.+++.|.. +... .... +..+..+.++.+.+.+++.+++........ .+.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~~~~------~~~~-~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~-~~~ 73 (264)
T cd01574 2 IGVVTTDLALHGPSSTLAAIESAAREAGYA------VTLS-MLAEADEEALRAAVRRLLAQRVDGVIVNAPLDDAD-AAL 73 (264)
T ss_pred EEEEeCCCCcccHHHHHHHHHHHHHHCCCe------EEEE-eCCCCchHHHHHHHHHHHhcCCCEEEEeCCCCChH-HHH
Confidence 4556533 457778889999999987732 2111 1111 124456677788888899998875543333 234
Q ss_pred HHHhcCC
Q psy17441 196 DAQYLNM 202 (458)
Q Consensus 196 ~a~~~g~ 202 (458)
++.+.|.
T Consensus 74 ~~~~~~i 80 (264)
T cd01574 74 AAAPADV 80 (264)
T ss_pred HHHhcCC
Confidence 4455554
No 302
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=48.58 E-value=1.6e+02 Score=28.96 Aligned_cols=102 Identities=14% Similarity=0.078 Sum_probs=59.3
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEE-EEeCCCcccHHHHHHHHHhccC---eE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAV-IEFEPGLTTFKDQLYEMKNAQA---RV 180 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~-~~~~~~~~d~~~~l~~ik~~~~---~v 180 (458)
..+.+.++.++.+++.++++... .....+.+.+.+++.|+.+ ..+... ..-.+..+++.+.++.+++.++ +.
T Consensus 20 ~~l~~~l~~~~~~~~livtd~~~-~~~~~~~v~~~L~~~gi~~---~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~ 95 (358)
T PRK00002 20 SELGELLAPLKGKKVAIVTDETV-APLYLEKLRASLEAAGFEV---DVVVLPDGEQYKSLETLEKIYDALLEAGLDRSDT 95 (358)
T ss_pred HHHHHHHHhcCCCeEEEEECCch-HHHHHHHHHHHHHhcCCce---EEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCE
Confidence 34566677778899999986654 3457788889998877432 101100 0011234556777777777655 88
Q ss_pred EEEEeCh--hhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 181 YLMYASK--QDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 181 iil~~~~--~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
||-.+.+ -++..++......|+. ++-|-|.
T Consensus 96 IIavGGGsv~D~aK~iA~~~~~gip---~i~IPTT 127 (358)
T PRK00002 96 LIALGGGVIGDLAGFAAATYMRGIR---FIQVPTT 127 (358)
T ss_pred EEEEcCcHHHHHHHHHHHHhcCCCC---EEEcCch
Confidence 8876554 3455554433344432 4444454
No 303
>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=48.26 E-value=1.6e+02 Score=27.07 Aligned_cols=78 Identities=12% Similarity=0.002 Sum_probs=48.8
Q ss_pred EEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh-hh---HHH
Q psy17441 119 VIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK-QD---AEI 192 (458)
Q Consensus 119 v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~-~~---~~~ 192 (458)
++++.. ++.|.....+.+.+.+++.|. .+.. .....+.+...+.++.+.+.++|.+|+.... .+ ...
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~~g~------~~~~-~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~ 74 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQYGY------TVLL-CNTYRGGVSEADYVEDLLARGVRGVVFISSLHADTHADHS 74 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHHCCC------EEEE-EeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCcccchhH
Confidence 455654 356788889999999999872 2221 1112234455677888888899998886432 21 233
Q ss_pred HHHHHHhcCCc
Q psy17441 193 IFKDAQYLNMT 203 (458)
Q Consensus 193 il~~a~~~g~~ 203 (458)
.+.++.+.|+.
T Consensus 75 ~i~~~~~~~ip 85 (273)
T cd06292 75 HYERLAERGLP 85 (273)
T ss_pred HHHHHHhCCCC
Confidence 45666666654
No 304
>PRK00865 glutamate racemase; Provisional
Probab=48.20 E-value=86 Score=29.36 Aligned_cols=43 Identities=26% Similarity=0.422 Sum_probs=28.4
Q ss_pred HHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEe
Q psy17441 31 LTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIG 76 (458)
Q Consensus 31 ~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is 76 (458)
..+...++.|.+.++.+|+= .|-+..+.++..+-+..++|+|+
T Consensus 54 ~~~~~~~~~L~~~g~d~iVI---aCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 54 ERTLEIVEFLLEYGVKMLVI---ACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHHHHHHHHHHhCCCCEEEE---eCchHHHHHHHHHHHhCCCCEEe
Confidence 44556677777788888775 24321233556777778999997
No 305
>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=48.03 E-value=76 Score=29.35 Aligned_cols=77 Identities=6% Similarity=0.003 Sum_probs=48.0
Q ss_pred EEEEEe-cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHHHHHH
Q psy17441 119 VIFIHS-SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEIIFKD 196 (458)
Q Consensus 119 v~ii~~-~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~il~~ 196 (458)
|+++.. .++|.......+.+.+++.|. .+.....-..+.....+.++.+.+.++|.+|+...... ....+++
T Consensus 2 i~~v~~~~~~~~~~~~~gi~~~~~~~g~------~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~ 75 (271)
T cd06314 2 IAVVTNGASPFWKIAEAGVKAAGKELGV------DVEFVVPQQGTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIPALNK 75 (271)
T ss_pred eEEEcCCCcHHHHHHHHHHHHHHHHcCC------eEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEecCChhHhHHHHHH
Confidence 555553 356788889999999999873 22211101112333556777788889999998754432 3566777
Q ss_pred HHhcCC
Q psy17441 197 AQYLNM 202 (458)
Q Consensus 197 a~~~g~ 202 (458)
+.+ +.
T Consensus 76 ~~~-~i 80 (271)
T cd06314 76 AAA-GI 80 (271)
T ss_pred Hhc-CC
Confidence 766 64
No 306
>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=48.01 E-value=90 Score=28.80 Aligned_cols=79 Identities=9% Similarity=0.034 Sum_probs=49.0
Q ss_pred EEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHHHH
Q psy17441 118 KVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEIIF 194 (458)
Q Consensus 118 ~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~il 194 (458)
+++++..+ +.|.......+.+.+++.|+ .+.. .....+.....+.++++.+.+++.|++...... ....+
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~g~------~~~~-~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l 73 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKALGY------DAVE-LSAENSAKKELENLRTAIDKGVSGIIISPTNSSAAVTLL 73 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhcCC------eEEE-ecCCCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHHHH
Confidence 35666643 56888888999999998873 2221 111112333456677777788999987654332 34566
Q ss_pred HHHHhcCCc
Q psy17441 195 KDAQYLNMT 203 (458)
Q Consensus 195 ~~a~~~g~~ 203 (458)
..+.+.|..
T Consensus 74 ~~~~~~~ip 82 (277)
T cd06319 74 KLAAQAKIP 82 (277)
T ss_pred HHHHHCCCC
Confidence 777777754
No 307
>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=47.95 E-value=89 Score=29.29 Aligned_cols=102 Identities=10% Similarity=0.155 Sum_probs=53.8
Q ss_pred CCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhh---ccCCcceeeEEEEEEEEeCCCcccHHHHHHHHH
Q psy17441 98 PPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQ---NQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMK 174 (458)
Q Consensus 98 p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~---~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik 174 (458)
....+..++.-++++.||-..|.-++--|+|..+....+.+.+. +.. ++ ..+ +....+-....++++|
T Consensus 13 Sq~ed~~r~Ae~l~~~Yg~~~I~h~tyPdnf~~e~EttIskI~~lAdDp~------mK--aIV-v~q~vpGt~~af~kIk 83 (275)
T PF12683_consen 13 SQSEDEYRGAEELIKKYGDVMIKHVTYPDNFMSEQETTISKIVSLADDPD------MK--AIV-VSQAVPGTAEAFRKIK 83 (275)
T ss_dssp TT-HHHHHHHHHHHHHHHHHEEEEEE--TTGGGCHHHHHHHHHGGGG-TT------EE--EEE-EE-SS---HHHHHHHH
T ss_pred ccChHHHHHHHHHHHHhCcceEEEEeCCCcccchHHHHHHHHHHhccCCC------cc--EEE-EeCCCcchHHHHHHHH
Confidence 34445556667788888875555444444465554444444443 332 22 112 2334556778899999
Q ss_pred hccCeEEEEEeChhh--------------------HHHHHHHHHhcCCcccceEEE
Q psy17441 175 NAQARVYLMYASKQD--------------------AEIIFKDAQYLNMTETGYVWI 210 (458)
Q Consensus 175 ~~~~~viil~~~~~~--------------------~~~il~~a~~~g~~~~~~~wi 210 (458)
+.++|++++.+.+.+ ...+...|+++|-.. ++.+
T Consensus 84 ekRpDIl~ia~~~~EDp~~i~~~aDi~~~~D~~~~G~~i~~~Ak~mGAkt--FVh~ 137 (275)
T PF12683_consen 84 EKRPDILLIAGEPHEDPEVISSAADIVVNPDEISRGYTIVWAAKKMGAKT--FVHY 137 (275)
T ss_dssp HH-TTSEEEESS--S-HHHHHHHSSEEEE--HHHHHHHHHHHHHHTT-S---EEEE
T ss_pred hcCCCeEEEcCCCcCCHHHHhhccCeEeccchhhccHHHHHHHHHcCCce--EEEE
Confidence 999999998877643 345556666666553 5444
No 308
>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=47.78 E-value=1.2e+02 Score=27.75 Aligned_cols=76 Identities=8% Similarity=-0.048 Sum_probs=47.6
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
+++|..+ +.|.......+.+++++.|. .+.. .....+..+..+.++++.+.+++.|++...... ...++.
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~------~~~~-~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~ 73 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAAGY------QLLL-GNTGYSPEREEELLRTLLSRRPAGLILTGLEHT-ERTRQL 73 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHcCC------EEEE-ecCCCCchhHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHH
Confidence 4666644 45677778899999998872 2211 111223445567788888889999988764433 345555
Q ss_pred HHhcCC
Q psy17441 197 AQYLNM 202 (458)
Q Consensus 197 a~~~g~ 202 (458)
+.+.|+
T Consensus 74 ~~~~~i 79 (268)
T cd01575 74 LRAAGI 79 (268)
T ss_pred HHhcCC
Confidence 666665
No 309
>KOG2792|consensus
Probab=47.67 E-value=12 Score=34.45 Aligned_cols=60 Identities=7% Similarity=0.071 Sum_probs=42.1
Q ss_pred cccccccccccccceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCc
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIP 73 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP 73 (458)
|++|++.++ + +-+. .+++||.+.|+.+.....++++ ..++.++-| +...+..+|..+.|=
T Consensus 166 Vd~i~~~~~-~-~~~P-lFIsvDPeRD~~~~~~eY~~eF-~pkllGLTG--------T~eqvk~vak~yRVY 225 (280)
T KOG2792|consen 166 VDEIEAKPG-L-PPVP-LFISVDPERDSVEVVAEYVSEF-HPKLLGLTG--------TTEQVKQVAKKYRVY 225 (280)
T ss_pred HHHHhccCC-C-Cccc-eEEEeCcccCCHHHHHHHHHhc-ChhhhcccC--------CHHHHHHHHHHhEEe
Confidence 567774443 3 3442 4779999999888888878777 566666655 457788888888874
No 310
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=47.56 E-value=2.2e+02 Score=27.11 Aligned_cols=80 Identities=4% Similarity=-0.003 Sum_probs=49.9
Q ss_pred CeEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHH
Q psy17441 116 YMKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEII 193 (458)
Q Consensus 116 w~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~i 193 (458)
-+.++++..+ +.|.......+.+.+++.|..+ .. .....+.......++.+.+.+.+.+|+..........
T Consensus 60 ~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~------~i-~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~ 132 (327)
T TIGR02417 60 SRTIGLVIPDLENYSYARIAKELEQQCREAGYQL------LI-ACSDDNPDQEKVVIENLLARQVDALIVASCMPPEDAY 132 (327)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEE------EE-EeCCCCHHHHHHHHHHHHHcCCCEEEEeCCCCCChHH
Confidence 3578888754 5677888899999999887322 11 1112222334566777778889998887543312345
Q ss_pred HHHHHhcCC
Q psy17441 194 FKDAQYLNM 202 (458)
Q Consensus 194 l~~a~~~g~ 202 (458)
+.++.+.+.
T Consensus 133 ~~~l~~~~i 141 (327)
T TIGR02417 133 YQKLQNEGL 141 (327)
T ss_pred HHHHHhcCC
Confidence 566666664
No 311
>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=47.42 E-value=1.6e+02 Score=27.13 Aligned_cols=75 Identities=13% Similarity=0.022 Sum_probs=46.7
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHH-HHHhccCeEEEEEeChhhHHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLY-EMKNAQARVYLMYASKQDAEIIFK 195 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~-~ik~~~~~viil~~~~~~~~~il~ 195 (458)
++++..+ ++|.......+.+.+++.|..+ ... ... +..+....+. .+...++|.|++.+...+ ...++
T Consensus 2 Igvi~p~~~~~~~~~~~~~i~~~~~~~gy~~------~~~-~~~-~~~~~~~~~~~~l~~~~vdgvi~~~~~~~-~~~~~ 72 (269)
T cd06297 2 ISVLLPVVATEFYRRLLEGIEGALLEQRYDL------ALF-PLL-SLARLKRYLESTTLAYLTDGLLLASYDLT-ERLAE 72 (269)
T ss_pred EEEEeCCCcChhHHHHHHHHHHHHHHCCCEE------EEE-eCC-CcHHHHHHHHHHHHhcCCCEEEEecCccC-hHHHH
Confidence 5667654 5678888999999999988322 211 111 2334445554 467778999998765433 34556
Q ss_pred HHHhcCC
Q psy17441 196 DAQYLNM 202 (458)
Q Consensus 196 ~a~~~g~ 202 (458)
.+.+.|.
T Consensus 73 ~l~~~~i 79 (269)
T cd06297 73 RRLPTER 79 (269)
T ss_pred HHhhcCC
Confidence 6666665
No 312
>PRK13054 lipid kinase; Reviewed
Probab=47.14 E-value=1.4e+02 Score=28.58 Aligned_cols=75 Identities=7% Similarity=-0.025 Sum_probs=47.1
Q ss_pred eEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 117 MKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 117 ~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
+++.+|+....-+......+.+.+++.|+ .+. ........+.....++..+.+.++|++.+-......+++.
T Consensus 4 ~~~~~i~N~~~~~~~~~~~~~~~l~~~g~------~~~--v~~t~~~~~a~~~a~~~~~~~~d~vvv~GGDGTl~evv~~ 75 (300)
T PRK13054 4 PKSLLILNGKSAGNEELREAVGLLREEGH------TLH--VRVTWEKGDAARYVEEALALGVATVIAGGGDGTINEVATA 75 (300)
T ss_pred ceEEEEECCCccchHHHHHHHHHHHHcCC------EEE--EEEecCCCcHHHHHHHHHHcCCCEEEEECCccHHHHHHHH
Confidence 56777776543344445566677877762 222 1222234556677777766778888888777777777777
Q ss_pred HHh
Q psy17441 197 AQY 199 (458)
Q Consensus 197 a~~ 199 (458)
..+
T Consensus 76 l~~ 78 (300)
T PRK13054 76 LAQ 78 (300)
T ss_pred HHh
Confidence 654
No 313
>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=47.04 E-value=91 Score=28.70 Aligned_cols=60 Identities=8% Similarity=0.088 Sum_probs=40.6
Q ss_pred EEEEEEec----CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEe
Q psy17441 118 KVIFIHSS----DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYA 185 (458)
Q Consensus 118 ~v~ii~~~----d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~ 185 (458)
||++|..+ ++|.....+.+++.+++.|. .+.... ..+.++..+.++.+...+++.|++..
T Consensus 1 ~Igvi~~~~~~~~~f~~~l~~gi~~~~~~~gy------~~~~~~--~~~~~~~~~~~~~l~~~~vdgiii~~ 64 (260)
T cd06304 1 KVALVYDGGGGDKSFNQSAYEGLEKAEKELGV------EVKYVE--SVEDADYEPNLRQLAAQGYDLIFGVG 64 (260)
T ss_pred CEEEEecCCCCcchHHHHHHHHHHHHHHhcCc------eEEEEe--cCCHHHHHHHHHHHHHcCCCEEEECC
Confidence 57777764 56777888999999998772 222211 11334456778888888899888854
No 314
>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=46.91 E-value=86 Score=28.68 Aligned_cols=78 Identities=8% Similarity=0.037 Sum_probs=48.7
Q ss_pred EEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHHHHH
Q psy17441 119 VIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEIIFK 195 (458)
Q Consensus 119 v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~il~ 195 (458)
++++.. ++.|.......+++.+++.|. .+... ....+..+..+.++++.+.+++.+++...... ....++
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~g~------~v~~~-~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~ 74 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKELGY------ELTVL-DAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVK 74 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHcCc------eEEec-CCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHH
Confidence 455553 456888889999999998872 22211 11223344567778888888999888643322 245677
Q ss_pred HHHhcCCc
Q psy17441 196 DAQYLNMT 203 (458)
Q Consensus 196 ~a~~~g~~ 203 (458)
++.+.+..
T Consensus 75 ~l~~~~ip 82 (268)
T cd06323 75 AANEAGIP 82 (268)
T ss_pred HHHHCCCc
Confidence 77776653
No 315
>PF09651 Cas_APE2256: CRISPR-associated protein (Cas_APE2256); InterPro: IPR013442 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a conserved region of about 150 amino acids found in a family of Cas proteins in at least five archaeal and three bacterial species. In six of eight species, the protein is encoded the vicinity of a CRISPR/Cas locus.; PDB: 3QYF_A.
Probab=46.79 E-value=1.4e+02 Score=24.86 Aligned_cols=44 Identities=20% Similarity=0.272 Sum_probs=33.4
Q ss_pred HHHHHHHHHHhcCCe---EEEEEEecCcchhHHHHHHHHhhhccCCc
Q psy17441 103 QADVWVELLKHFNYM---KVIFIHSSDTDGRALLGRFQTTSQNQEDD 146 (458)
Q Consensus 103 ~~~ai~~ll~~~~w~---~v~ii~~~d~~g~~~~~~l~~~l~~~gi~ 146 (458)
+...+..+++..... .+.++++|+.-|+-..+.+++.+++.|+.
T Consensus 6 Elnsl~~~~~~~~~~~~~~~~Ll~SDT~~G~~~a~il~~~l~~~g~~ 52 (136)
T PF09651_consen 6 ELNSLVRLLEKGKDDDKDEVVLLHSDTPDGRLCAEILKEYLEEKGIN 52 (136)
T ss_dssp HHHHHHHHHHHHT--GGGEEEEEEESSHHHHHHHHHHHHHHHHTT-E
T ss_pred hHHHHHHHHHhCccccCcEEEEEeCCCHHHHHHHHHHHHHHHHcCCe
Confidence 445666666655442 89999999999999999999999998843
No 316
>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=46.78 E-value=1.3e+02 Score=28.10 Aligned_cols=80 Identities=8% Similarity=0.005 Sum_probs=50.8
Q ss_pred eEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHHH
Q psy17441 117 MKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEII 193 (458)
Q Consensus 117 ~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~i 193 (458)
++|+++..+ +.|.......+.+.+++.| ..+... ....+.....+.++.+.+.+.+.||+.....+ ....
T Consensus 1 ~~ig~i~~~~~~~~~~~~~~gi~~~a~~~g------y~~~~~-~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~ 73 (280)
T cd06315 1 KNIIFVASDLKNGGILGVGEGVREAAKAIG------WNLRIL-DGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQAE 73 (280)
T ss_pred CeEEEEecccCCcHHHHHHHHHHHHHHHcC------cEEEEE-CCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHH
Confidence 467777754 4577788899999999887 222111 11223344567788888899999999754332 2344
Q ss_pred HHHHHhcCCc
Q psy17441 194 FKDAQYLNMT 203 (458)
Q Consensus 194 l~~a~~~g~~ 203 (458)
++.+.+.+..
T Consensus 74 ~~~~~~~~iP 83 (280)
T cd06315 74 LELAQKAGIP 83 (280)
T ss_pred HHHHHHCCCC
Confidence 5666666653
No 317
>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=46.75 E-value=1.2e+02 Score=27.67 Aligned_cols=76 Identities=8% Similarity=-0.023 Sum_probs=47.4
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
|+++..+ +.|.....+.+++++++.|. .+.... ...+.......++++.+.+++.+++...... ..++..
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~------~~~~~~-~~~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~ 73 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYENGY------QMLLMN-TNFSIEKEIEALELLARQKVDGIILLATTIT-DEHREA 73 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHCCC------EEEEEe-CCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHH
Confidence 4566644 45677888999999998872 222111 1223344556777788889999998755432 345566
Q ss_pred HHhcCC
Q psy17441 197 AQYLNM 202 (458)
Q Consensus 197 a~~~g~ 202 (458)
+.+.|.
T Consensus 74 ~~~~~i 79 (259)
T cd01542 74 IKKLNV 79 (259)
T ss_pred HhcCCC
Confidence 666654
No 318
>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=46.44 E-value=1.1e+02 Score=28.09 Aligned_cols=77 Identities=17% Similarity=0.096 Sum_probs=48.1
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhc--cCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQN--QEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEII 193 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~--~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~i 193 (458)
|+++..+ +.|.......+++++++ .| ..+... ....+.......++.+.+.+++.||+...... ....
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~~~~------~~~~~~-~~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~ 74 (271)
T cd06321 2 IGVSVGDLGNPFFVALAKGAEAAAKKLNPG------VKVTVV-SADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIAPA 74 (271)
T ss_pred eEEEecccCCHHHHHHHHHHHHHHHHhCCC------eEEEEc-cCCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhHHH
Confidence 5666644 56888889999999998 44 232211 11122334456677777788999988654332 3556
Q ss_pred HHHHHhcCC
Q psy17441 194 FKDAQYLNM 202 (458)
Q Consensus 194 l~~a~~~g~ 202 (458)
++++.+.|.
T Consensus 75 i~~~~~~~i 83 (271)
T cd06321 75 VKRAQAAGI 83 (271)
T ss_pred HHHHHHCCC
Confidence 677777664
No 319
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=46.41 E-value=20 Score=32.78 Aligned_cols=28 Identities=11% Similarity=0.285 Sum_probs=23.8
Q ss_pred CCCChhhhhhcCCCCceEEEEeCCChHHHHHhhc
Q psy17441 398 KLTGINDARLRNTMENLTCATVKGSAVDMYFRRQ 431 (458)
Q Consensus 398 ~i~~~~dL~~~~~~~~~~~g~~~~s~~~~~~~~~ 431 (458)
.+++++||. +.++|+..|+....++++.
T Consensus 117 ~~~~~~dL~------g~~Igv~~g~~~~~~l~~~ 144 (243)
T PRK15007 117 KYTSVDQLK------GKKVGVQNGTTHQKFIMDK 144 (243)
T ss_pred CCCCHHHhC------CCeEEEecCcHHHHHHHHh
Confidence 478999996 7899999999998888763
No 320
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=46.40 E-value=1.2e+02 Score=28.56 Aligned_cols=80 Identities=10% Similarity=0.068 Sum_probs=51.0
Q ss_pred CeEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHH
Q psy17441 116 YMKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEI 192 (458)
Q Consensus 116 w~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~ 192 (458)
-+.++++..+ +.|.......+++.+++.|+.+ ... ....+.......++++.+.+++++++.....+ ...
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~------~~~-~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~ 98 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNL------VVL-DSQNNPAKELANVQDLTVRGTKILLINPTDSDAVGN 98 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeE------EEe-cCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHH
Confidence 4678888753 5678888999999999988322 111 11123334456677777778998887654333 235
Q ss_pred HHHHHHhcCC
Q psy17441 193 IFKDAQYLNM 202 (458)
Q Consensus 193 il~~a~~~g~ 202 (458)
.++.+.+.|.
T Consensus 99 ~l~~~~~~~i 108 (295)
T PRK10653 99 AVKMANQANI 108 (295)
T ss_pred HHHHHHHCCC
Confidence 6677777665
No 321
>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=45.99 E-value=2e+02 Score=24.96 Aligned_cols=130 Identities=7% Similarity=0.073 Sum_probs=59.6
Q ss_pred CCeEEEEEeCCCCCCCchHHHHHhhcccC--CcE-EeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEE
Q psy17441 43 ERVYAVIVSHPLTGDLSPAAVSYTSGFYH--IPV-IGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKV 119 (458)
Q Consensus 43 ~~V~aiIG~~~~~s~~~~~~~~~i~~~~~--iP~-Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v 119 (458)
.+++.++| |++++ -...+..+++.+. ++. +++....|.....+.-.|.| +..+ .+-+.++.-..=..
T Consensus 2 ~r~ivl~G--psg~G-K~~l~~~L~~~~~~~~~~~v~~TTR~~r~~E~~g~~y~f--vs~~-----~f~~~~~~~~fie~ 71 (183)
T PF00625_consen 2 RRPIVLVG--PSGSG-KSTLAKRLIQEFPDKFGRVVSHTTRPPRPGEVDGVDYHF--VSKE-----EFERMIKAGEFIEY 71 (183)
T ss_dssp SSEEEEES--STTSS-HHHHHHHHHHHSTTTEEEEEEEESS-GGTTS-TTTSEEE----HH-----HHHHHHHTTHEEEE
T ss_pred CCEEEEEC--CCCCC-HHHHHHHHHHhcccccccceeecccCCcccccCCcceEE--Eeec-----hhhhhhccccEEEE
Confidence 46889999 98887 5555666666543 333 33333332222222223444 2111 12222222222122
Q ss_pred EEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHh
Q psy17441 120 IFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQY 199 (458)
Q Consensus 120 ~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~ 199 (458)
+- |.++.||.. .+.+.+.+++.. .++.. .+ ...+.++++...+.++++..++....+-+..++
T Consensus 72 ~~-~~g~~YGt~-~~~i~~~~~~gk------~~il~---~~------~~g~~~L~~~~~~~~~IfI~~~s~~~l~~~l~~ 134 (183)
T PF00625_consen 72 GE-YDGNYYGTS-KSAIDKVLEEGK------HCILD---VD------PEGVKQLKKAGFNPIVIFIKPPSPEVLKRRLRR 134 (183)
T ss_dssp EE-ETTEEEEEE-HHHHHHHHHTTT------EEEEE---ET------HHHHHHHHHCTTTEEEEEEEESSHHHHHHHHHT
T ss_pred ee-ecchhhhhc-cchhhHhhhcCC------cEEEE---cc------HHHHHHHHhcccCceEEEEEccchHHHHHHHhc
Confidence 22 556678865 366677776543 33221 21 233456666566655555444333334333333
No 322
>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=45.87 E-value=2e+02 Score=24.82 Aligned_cols=26 Identities=8% Similarity=-0.005 Sum_probs=12.6
Q ss_pred cCeEEEEEeChhhHHHHHHHHHhcCC
Q psy17441 177 QARVYLMYASKQDAEIIFKDAQYLNM 202 (458)
Q Consensus 177 ~~~viil~~~~~~~~~il~~a~~~g~ 202 (458)
+.|.+++.+...+...++..+++.|.
T Consensus 105 ~iD~~vLvSgD~DF~~Lv~~lre~G~ 130 (160)
T TIGR00288 105 NIDAVALVTRDADFLPVINKAKENGK 130 (160)
T ss_pred CCCEEEEEeccHhHHHHHHHHHHCCC
Confidence 44445444444444555555554443
No 323
>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=45.71 E-value=70 Score=31.90 Aligned_cols=78 Identities=9% Similarity=0.093 Sum_probs=50.4
Q ss_pred HHHHHHHHhc---CCeEEEEEEecCcch-hHHHHHHHHhhhccCCcceeeEEEEEE-EEeCCCcccHHHHHHHHHhccCe
Q psy17441 105 DVWVELLKHF---NYMKVIFIHSSDTDG-RALLGRFQTTSQNQEDDVEIKVQVEAV-IEFEPGLTTFKDQLYEMKNAQAR 179 (458)
Q Consensus 105 ~ai~~ll~~~---~w~~v~ii~~~d~~g-~~~~~~l~~~l~~~gi~v~~~~~v~~~-~~~~~~~~d~~~~l~~ik~~~~~ 179 (458)
..+.+.++.+ |.+++.++++..... .+..+.+.+.+++.|+.+ . .+. ..-.+..+++.+.++.+++.++|
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~----~-~f~~v~~~p~~~~v~~~~~~~~~~~~D 86 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEY----V-LYNKVTPNPTVDQVDEAAKLGREFGAQ 86 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeE----E-EeCCCCCCCCHHHHHHHHHHHHHcCCC
Confidence 3455667766 788999998665433 244678888898877322 1 111 11122455677888888899999
Q ss_pred EEEEEeCh
Q psy17441 180 VYLMYASK 187 (458)
Q Consensus 180 viil~~~~ 187 (458)
.||-.+-+
T Consensus 87 ~IIaiGGG 94 (383)
T cd08186 87 AVIAIGGG 94 (383)
T ss_pred EEEEeCCc
Confidence 99877554
No 324
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=45.46 E-value=1.7e+02 Score=26.67 Aligned_cols=77 Identities=8% Similarity=-0.050 Sum_probs=47.8
Q ss_pred EEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
|+++.. .+.|.......+.+.+++.|. .+... .-..+.......++++.+.+++.+++.+.... ...++.
T Consensus 2 i~vv~p~~~~~~~~~~~~~i~~~~~~~g~------~~~~~-~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~ 73 (268)
T cd06273 2 IGAIVPTLDNAIFARVIQAFQETLAAHGY------TLLVA-SSGYDLDREYAQARKLLERGVDGLALIGLDHS-PALLDL 73 (268)
T ss_pred eEEEeCCCCCchHHHHHHHHHHHHHHCCC------EEEEe-cCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHH
Confidence 566765 356788888999999998872 22211 11112333456777788888998887654322 345566
Q ss_pred HHhcCCc
Q psy17441 197 AQYLNMT 203 (458)
Q Consensus 197 a~~~g~~ 203 (458)
+.+.|..
T Consensus 74 l~~~~iP 80 (268)
T cd06273 74 LARRGVP 80 (268)
T ss_pred HHhCCCC
Confidence 6666653
No 325
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=45.11 E-value=1.3e+02 Score=29.03 Aligned_cols=80 Identities=13% Similarity=0.025 Sum_probs=52.1
Q ss_pred CeEEEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHH
Q psy17441 116 YMKVIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEI 192 (458)
Q Consensus 116 w~~v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~ 192 (458)
-.+|+++.. +++|.......+++++++.|..+ ... ....+..+..+.++.+.+.++|.+|+...... ...
T Consensus 25 ~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l------~i~-~~~~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~ 97 (330)
T PRK10355 25 EVKIGMAIDDLRLERWQKDRDIFVKKAESLGAKV------FVQ-SANGNEETQMSQIENMINRGVDVLVIIPYNGQVLSN 97 (330)
T ss_pred CceEEEEecCCCchHHHHHHHHHHHHHHHcCCEE------EEE-CCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHH
Confidence 356777764 35688899999999999988322 211 11223344567778888889999998764322 234
Q ss_pred HHHHHHhcCC
Q psy17441 193 IFKDAQYLNM 202 (458)
Q Consensus 193 il~~a~~~g~ 202 (458)
.++.+.+.+.
T Consensus 98 ~l~~~~~~~i 107 (330)
T PRK10355 98 VIKEAKQEGI 107 (330)
T ss_pred HHHHHHHCCC
Confidence 5666666664
No 326
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=44.81 E-value=55 Score=24.10 Aligned_cols=37 Identities=24% Similarity=0.180 Sum_probs=30.6
Q ss_pred HHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCC
Q psy17441 108 VELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQED 145 (458)
Q Consensus 108 ~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi 145 (458)
.++++.+ -++|.+.+++|.-|+.....+.+.+.+.|.
T Consensus 36 ~~~L~~~-~~~vii~~D~D~aG~~a~~~~~~~l~~~g~ 72 (79)
T cd03364 36 AELLKRL-AKEVILAFDGDEAGQKAALRALELLLKLGL 72 (79)
T ss_pred HHHHHhc-CCeEEEEECCCHHHHHHHHHHHHHHHHCCC
Confidence 5555555 588999999999999999999999998873
No 327
>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=44.70 E-value=1.2e+02 Score=27.78 Aligned_cols=78 Identities=8% Similarity=0.122 Sum_probs=49.1
Q ss_pred EEEEEe---cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHHHH
Q psy17441 119 VIFIHS---SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEIIF 194 (458)
Q Consensus 119 v~ii~~---~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~il 194 (458)
|++|.. ++.|+....+.+++.+++.|+.+ ... ....+.+...+.++.+.+.+++.|++.....+ ....+
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~~------~~~-~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l 74 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVEV------IVL-DANGDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGL 74 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCEE------EEE-cCCcCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHH
Confidence 556654 35688888999999999887322 211 11223334456667777788999988754332 34566
Q ss_pred HHHHhcCCc
Q psy17441 195 KDAQYLNMT 203 (458)
Q Consensus 195 ~~a~~~g~~ 203 (458)
+++.+.+..
T Consensus 75 ~~~~~~~iP 83 (275)
T cd06317 75 RKAKQAGIP 83 (275)
T ss_pred HHHHHCCCc
Confidence 777777654
No 328
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=44.25 E-value=27 Score=28.87 Aligned_cols=59 Identities=14% Similarity=0.148 Sum_probs=38.7
Q ss_pred HHHHhh-cCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecC
Q psy17441 36 VCKFLI-SERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTV 97 (458)
Q Consensus 36 ~~~~l~-~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~ 97 (458)
+++.+. .++.+.++|.|...+. ....+..++++.++|+++....-..+... .|.+.-..
T Consensus 4 ~~~~L~~A~rP~il~G~g~~~~~-a~~~l~~lae~~~~Pv~~t~~~kg~i~~~--hp~~~G~~ 63 (137)
T PF00205_consen 4 AADLLSSAKRPVILAGRGARRSG-AAEELRELAEKLGIPVATTPMGKGVIPED--HPLFLGYL 63 (137)
T ss_dssp HHHHHHH-SSEEEEE-HHHHHTT-CHHHHHHHHHHHTSEEEEEGGGTTSSTTT--STTEEEES
T ss_pred HHHHHHhCCCEEEEEcCCcChhh-HHHHHHHHHHHHCCCEEecCccccccCCC--CchhcccC
Confidence 344443 4889999995444344 77899999999999999876654455432 37666533
No 329
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=44.25 E-value=2e+02 Score=26.27 Aligned_cols=84 Identities=17% Similarity=0.128 Sum_probs=49.6
Q ss_pred CCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHH-hhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHH
Q psy17441 27 PNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSY-TSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQAD 105 (458)
Q Consensus 27 ~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~-i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ 105 (458)
.++.+.....++.|.+-|...|+- | |. ++..+++ +-..-+||+|+. .+
T Consensus 58 ~~~~~~L~~~a~~Le~~GAd~i~l--~-~N--T~H~~~d~iq~~~~iPllhI--------------------------id 106 (230)
T COG1794 58 DEAGEILIDAAKKLERAGADFIVL--P-TN--TMHKVADDIQKAVGIPLLHI--------------------------ID 106 (230)
T ss_pred ccHHHHHHHHHHHHHhcCCCEEEE--e-CC--cHHHHHHHHHHhcCCCeehH--------------------------HH
Confidence 455566666777787778888886 4 32 4455554 444788998853 23
Q ss_pred HHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccC
Q psy17441 106 VWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQE 144 (458)
Q Consensus 106 ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~g 144 (458)
+-++-+++-|-+||+++.....-- ....++.++++|
T Consensus 107 aTa~~ik~~g~kkvgLLgT~~Tm~---~~fY~~~l~~~g 142 (230)
T COG1794 107 ATAKAIKAAGAKKVGLLGTRFTME---QGFYRKRLEEKG 142 (230)
T ss_pred HHHHHHHhcCCceeEEeeccchHH---hHHHHHHHHHCC
Confidence 445555666777777776543221 123355566655
No 330
>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=43.89 E-value=1.9e+02 Score=26.42 Aligned_cols=77 Identities=9% Similarity=-0.053 Sum_probs=47.3
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
++++..+ +.|.....+.+++.+++.|. .+... ....+.....+.++++.+.+++.+++..... ...++..
T Consensus 2 i~vi~~~~~~~~~~~~~~~~~~~~~~~g~------~~~~~-~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~~~~~ 73 (268)
T cd06298 2 VGVIIPDITNSYFAELARGIDDIATMYKY------NIILS-NSDNDKEKELKVLNNLLAKQVDGIIFMGGKI-SEEHREE 73 (268)
T ss_pred EEEEECCCcchHHHHHHHHHHHHHHHcCC------eEEEE-eCCCCHHHHHHHHHHHHHhcCCEEEEeCCCC-cHHHHHH
Confidence 5666643 56788888999999998872 22111 1122334456677777788999999864332 2345566
Q ss_pred HHhcCCc
Q psy17441 197 AQYLNMT 203 (458)
Q Consensus 197 a~~~g~~ 203 (458)
+.+.++.
T Consensus 74 l~~~~ip 80 (268)
T cd06298 74 FKRSPTP 80 (268)
T ss_pred HhcCCCC
Confidence 6555543
No 331
>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=43.69 E-value=1.8e+02 Score=26.57 Aligned_cols=76 Identities=9% Similarity=0.056 Sum_probs=47.3
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
|+++..+ +.|.......+++.+++.|. .+.. .....+.+...+.++.+...+++.|++.....+... +++
T Consensus 2 igvi~~~~~~~~~~~~~~~~~~~~~~~g~------~~~~-~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~-~~~ 73 (264)
T cd06274 2 IGLIIPDLENRSFARIAKRLEALARERGY------QLLI-ACSDDDPETERETVETLIARQVDALIVAGSLPPDDP-YYL 73 (264)
T ss_pred EEEEeccccCchHHHHHHHHHHHHHHCCC------EEEE-EeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCchHH-HHH
Confidence 4555533 56777888899999988872 2211 111223344556777888889999988755433322 666
Q ss_pred HHhcCC
Q psy17441 197 AQYLNM 202 (458)
Q Consensus 197 a~~~g~ 202 (458)
+.+.|.
T Consensus 74 ~~~~~i 79 (264)
T cd06274 74 CQKAGL 79 (264)
T ss_pred HHhcCC
Confidence 666665
No 332
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=43.52 E-value=3.1e+02 Score=26.45 Aligned_cols=164 Identities=12% Similarity=0.007 Sum_probs=86.4
Q ss_pred HHhhcCCeE-EEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceee--cCCCchhHHHHHHHHHHhc
Q psy17441 38 KFLISERVY-AVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLR--TVPPYSHQADVWVELLKHF 114 (458)
Q Consensus 38 ~~l~~~~V~-aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r--~~p~~~~~~~ai~~ll~~~ 114 (458)
+.++.+|+. .||+ +..+. +...+.+.+...+||+|+|.- ...+ .++.|+.. .----..|+.++.+-++.-
T Consensus 75 en~i~qg~~vlvi~--a~d~~-~l~~~i~~A~~~gikViaYDR---lI~n-~dvd~YvsFDN~~VG~lQa~~l~~~lk~k 147 (341)
T COG4213 75 ENMINQGVKVLVIG--AIDGG-VLSNAVEKAKSEGIKVIAYDR---LINN-ADVDFYVSFDNEKVGELQAKALVKGLKLK 147 (341)
T ss_pred HHHHhcCCCEEEEE--eccch-hHHHHHHHHHHcCCeEEEeec---cccc-CCccEEEEecchhHHHHHHHHHHHHhccC
Confidence 456677774 4556 77775 777888889999999999854 3333 33333321 1122334666666655543
Q ss_pred C---CeEEEEEE--ecCc----chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC-CcccHHHHHHHHH-hccCeEE-E
Q psy17441 115 N---YMKVIFIH--SSDT----DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP-GLTTFKDQLYEMK-NAQARVY-L 182 (458)
Q Consensus 115 ~---w~~v~ii~--~~d~----~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~-~~~d~~~~l~~ik-~~~~~vi-i 182 (458)
. -..+.++. .+|+ +-.+.++.|+..+.. | .+.+......+. ..+.-...+..+- +...++- +
T Consensus 148 ~~~~~gn~~l~~GSp~DnNA~lf~~G~m~VLkp~ids-G-----kik~~Ge~~~d~W~ps~Aq~~men~lta~~~~vdaV 221 (341)
T COG4213 148 PLTSEGNYVLLGGSPDDNNAKLFFAGAMKVLKPLIDS-G-----KIKVVGEQWTDGWLPSNAQQIMENLLTANYNDIDAV 221 (341)
T ss_pred CCCCCCCEEEecCCCCCcchHHHHhcHHHHHHHHhhC-C-----ceEEeeeccccccCHHHHHHHHHHHHhcccCceeEE
Confidence 3 33455553 2222 122335555655543 4 233322222222 2223333333332 2233322 3
Q ss_pred EEeChhhHHHHHHHHHhcCCcccceEEEeeccccc
Q psy17441 183 MYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALT 217 (458)
Q Consensus 183 l~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~ 217 (458)
+..+...+...+.+....|+.+ .+. +|....+
T Consensus 222 vA~nDgtagGaI~aL~a~Gl~g--~vp-VsGQDAd 253 (341)
T COG4213 222 VAPNDGTAGGAIAALKAQGLAG--KVP-VSGQDAD 253 (341)
T ss_pred EcCCCchhHHHHHHHHhcccCC--CCc-ccCcccc
Confidence 4455567888899999999985 454 4444443
No 333
>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=43.47 E-value=1.2e+02 Score=28.18 Aligned_cols=71 Identities=7% Similarity=-0.210 Sum_probs=46.7
Q ss_pred CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh-hhHHHHHHHHHhcCCc
Q psy17441 126 DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK-QDAEIIFKDAQYLNMT 203 (458)
Q Consensus 126 d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~-~~~~~il~~a~~~g~~ 203 (458)
+.|.......+++.+++.|.. +.... ...+.......++++.+.+++.|++.... ......++++.+.|..
T Consensus 11 ~~f~~~~~~gi~~~~~~~G~~------~~~~~-~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~iP 82 (272)
T cd06313 11 ATWCAQGKQAADEAGKLLGVD------VTWYG-GALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGIP 82 (272)
T ss_pred ChHHHHHHHHHHHHHHHcCCE------EEEec-CCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCCc
Confidence 467778889999999988732 22211 11233445567777888889999986543 3345667888877764
No 334
>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=42.68 E-value=32 Score=27.73 Aligned_cols=35 Identities=14% Similarity=0.276 Sum_probs=26.3
Q ss_pred ccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 176 AQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 176 ~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
..+|.++++........+++++.++|.. .+|+.++
T Consensus 54 ~~iDlavv~~~~~~~~~~v~~~~~~g~~---~v~~~~g 88 (116)
T PF13380_consen 54 EPIDLAVVCVPPDKVPEIVDEAAALGVK---AVWLQPG 88 (116)
T ss_dssp ST-SEEEE-S-HHHHHHHHHHHHHHT-S---EEEE-TT
T ss_pred CCCCEEEEEcCHHHHHHHHHHHHHcCCC---EEEEEcc
Confidence 5789999999999999999999999865 6888877
No 335
>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=42.57 E-value=99 Score=30.12 Aligned_cols=98 Identities=10% Similarity=0.064 Sum_probs=56.7
Q ss_pred HHHHHHHHhcCC-eEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEE-EEEeCCCcccHHHHHHHHHhccCeEEE
Q psy17441 105 DVWVELLKHFNY-MKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEA-VIEFEPGLTTFKDQLYEMKNAQARVYL 182 (458)
Q Consensus 105 ~ai~~ll~~~~w-~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~-~~~~~~~~~d~~~~l~~ik~~~~~vii 182 (458)
..+.++++.++. +++.++++...+... .+.+.+.+++.|+.+ .+.. ...-.+..+.+.+.+..+++ +++.||
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~~~-~~~i~~~L~~~~~~~----~i~~~~~~~~p~~~~v~~~~~~~~~-~~d~II 85 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYKVA-GKEIIERLESNNFTK----EVLERDSLLIPDEYELGEVLIKLDK-DTEFLL 85 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHHHH-HHHHHHHHHHcCCeE----EEEecCCCCCCCHHHHHHHHHHhhc-CCCEEE
Confidence 345667777776 788888876654333 488888888877322 1111 11111234556677777777 889988
Q ss_pred EEeCh--hhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 183 MYASK--QDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 183 l~~~~--~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
-.+-+ -|+..++. ...|+. ++-|-|.
T Consensus 86 aiGGGsv~D~aK~iA--~~~gip---~I~VPTT 113 (332)
T cd08549 86 GIGSGTIIDLVKFVS--FKVGKP---FISVPTA 113 (332)
T ss_pred EECCcHHHHHHHHHH--HHcCCC---EEEeCCC
Confidence 77655 34454443 223432 5555554
No 336
>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=42.13 E-value=1.3e+02 Score=27.77 Aligned_cols=61 Identities=8% Similarity=0.084 Sum_probs=41.7
Q ss_pred EEEEEEec-----CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeC
Q psy17441 118 KVIFIHSS-----DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYAS 186 (458)
Q Consensus 118 ~v~ii~~~-----d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~ 186 (458)
+|+++..+ +.|.....+.+++.+++.|..+ .... ..+..+..+.++.+.+.+++.||+...
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~~gy~~------~i~~--~~~~~~~~~~i~~l~~~~vdgiI~~~~ 66 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKELGIEY------KYVE--SKSDADYEPNLEQLADAGYDLIVGVGF 66 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHHcCCeE------EEEe--cCCHHHHHHHHHHHHhCCCCEEEEcCc
Confidence 46777743 4578888999999999988332 1111 113344567788888899999998754
No 337
>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=42.10 E-value=1.7e+02 Score=26.58 Aligned_cols=76 Identities=4% Similarity=-0.051 Sum_probs=42.9
Q ss_pred EEEEEec------CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHH-HhccCeEEEEEeChhhHH
Q psy17441 119 VIFIHSS------DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEM-KNAQARVYLMYASKQDAE 191 (458)
Q Consensus 119 v~ii~~~------d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~i-k~~~~~viil~~~~~~~~ 191 (458)
|+++..+ +.|.......+.+.+++.|+ .+.... .. +..+-.+.+.++ .+.+++.|++.+.....
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~~g~------~~~~~~-~~-~~~~~~~~~~~~~~~~~vdgiii~~~~~~~- 72 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAEHGY------DLVLLP-VD-PDEDPLEVYRRLVESGLVDGVIISRTRPDD- 72 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHHCCc------eEEEec-CC-CcHHHHHHHHHHHHcCCCCEEEEecCCCCC-
Confidence 4556544 67888889999999998873 222111 11 222333344443 45678988886543222
Q ss_pred HHHHHHHhcCCc
Q psy17441 192 IIFKDAQYLNMT 203 (458)
Q Consensus 192 ~il~~a~~~g~~ 203 (458)
..++.+.+.+..
T Consensus 73 ~~~~~~~~~~ip 84 (268)
T cd06271 73 PRVALLLERGFP 84 (268)
T ss_pred hHHHHHHhcCCC
Confidence 234556666653
No 338
>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=42.06 E-value=1.5e+02 Score=27.21 Aligned_cols=78 Identities=8% Similarity=0.081 Sum_probs=46.4
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhcc-CCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQ-EDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEIIF 194 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~-gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~il 194 (458)
|+++..+ +.|.......+.+.+++. |. .+... ....+..+..+.++++.+.+++.|++.....+ ....+
T Consensus 2 ig~~~~~~~~~~~~~~~~~i~~~~~~~~g~------~~~~~-~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~ 74 (270)
T cd06308 2 IGFSQCNLADPWRAAMNDEIQREASNYPDV------ELIIA-DAADDNSKQVADIENFIRQGVDLLIISPNEAAPLTPVV 74 (270)
T ss_pred EEEEeeCCCCHHHHHHHHHHHHHHHhcCCc------EEEEE-cCCCCHHHHHHHHHHHHHhCCCEEEEecCchhhchHHH
Confidence 5666643 456777888888888875 62 22211 11223334456667777778999888754332 24456
Q ss_pred HHHHhcCCc
Q psy17441 195 KDAQYLNMT 203 (458)
Q Consensus 195 ~~a~~~g~~ 203 (458)
..+.+.|+.
T Consensus 75 ~~~~~~~ip 83 (270)
T cd06308 75 EEAYRAGIP 83 (270)
T ss_pred HHHHHCCCC
Confidence 667676653
No 339
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=41.92 E-value=32 Score=31.56 Aligned_cols=30 Identities=13% Similarity=0.238 Sum_probs=24.8
Q ss_pred CCCCCChhhhhhcCCCCceEEEEeCCChHHHHHhhc
Q psy17441 396 KTKLTGINDARLRNTMENLTCATVKGSAVDMYFRRQ 431 (458)
Q Consensus 396 ~~~i~~~~dL~~~~~~~~~~~g~~~~s~~~~~~~~~ 431 (458)
..++++++||. +.++|+..|++...+++..
T Consensus 120 ~~~~~~~~dL~------g~~I~v~~g~~~~~~l~~~ 149 (247)
T PRK09495 120 NNDIKSVKDLD------GKVVAVKSGTGSVDYAKAN 149 (247)
T ss_pred CCCCCChHHhC------CCEEEEecCchHHHHHHhc
Confidence 44699999997 6789999999988888753
No 340
>smart00857 Resolvase Resolvase, N terminal domain. The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.
Probab=41.27 E-value=2e+02 Score=23.69 Aligned_cols=24 Identities=13% Similarity=0.051 Sum_probs=15.1
Q ss_pred hhHHHHHHHHHHhcCCeEEEEEEe
Q psy17441 101 SHQADVWVELLKHFNYMKVIFIHS 124 (458)
Q Consensus 101 ~~~~~ai~~ll~~~~w~~v~ii~~ 124 (458)
..|...+-+++...||.-+.+..+
T Consensus 18 ~~Q~~~~~~~a~~~g~~i~~~~~d 41 (148)
T smart00857 18 ERQLEALRAYAKANGWEVVRIYED 41 (148)
T ss_pred HHHHHHHHHHHHHCCCEEEEEEEe
Confidence 456666677777778876554333
No 341
>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=41.06 E-value=1.2e+02 Score=27.90 Aligned_cols=72 Identities=7% Similarity=0.051 Sum_probs=47.7
Q ss_pred cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh-HHHHHHHHHhcCCc
Q psy17441 125 SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD-AEIIFKDAQYLNMT 203 (458)
Q Consensus 125 ~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~-~~~il~~a~~~g~~ 203 (458)
++.|.....+.+.+.+++.|+.+ ... ....+.....+.++.+.+.+++.||+.....+ ....++++.+.++.
T Consensus 10 ~~~~~~~~~~~~~~~a~~~g~~~------~~~-~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~iP 82 (273)
T cd06309 10 ESPWRTAETKSIKDAAEKRGFDL------KFA-DAQQKQENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAGIP 82 (273)
T ss_pred CCHHHHHHHHHHHHHHHhcCCEE------EEe-CCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCCCC
Confidence 46688889999999999988322 211 11113334456778888889999988654433 24567888887764
No 342
>PRK11914 diacylglycerol kinase; Reviewed
Probab=41.02 E-value=1.5e+02 Score=28.39 Aligned_cols=79 Identities=5% Similarity=-0.054 Sum_probs=49.3
Q ss_pred HhcCCeEEEEEEecCcc---hhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChh
Q psy17441 112 KHFNYMKVIFIHSSDTD---GRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQ 188 (458)
Q Consensus 112 ~~~~w~~v~ii~~~d~~---g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~ 188 (458)
++..-+++.+|+.-..- +....+.+.+.+++.|+ .+. ........+.....++..+.+.|.|++.+-..
T Consensus 4 ~~~~~~~~~iI~NP~sG~g~~~~~~~~~~~~l~~~g~------~~~--~~~t~~~~~~~~~a~~~~~~~~d~vvv~GGDG 75 (306)
T PRK11914 4 RRHEIGKVTVLTNPLSGHGAAPHAAERAIARLHHRGV------DVV--EIVGTDAHDARHLVAAALAKGTDALVVVGGDG 75 (306)
T ss_pred CcCCCceEEEEECCCCCCCcHHHHHHHHHHHHHHcCC------eEE--EEEeCCHHHHHHHHHHHHhcCCCEEEEECCch
Confidence 34455788888865431 22445677788888762 221 11222345667777777777788888887777
Q ss_pred hHHHHHHHHH
Q psy17441 189 DAEIIFKDAQ 198 (458)
Q Consensus 189 ~~~~il~~a~ 198 (458)
....++..+.
T Consensus 76 Ti~evv~~l~ 85 (306)
T PRK11914 76 VISNALQVLA 85 (306)
T ss_pred HHHHHhHHhc
Confidence 7777776653
No 343
>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=40.94 E-value=43 Score=22.36 Aligned_cols=24 Identities=13% Similarity=0.354 Sum_probs=20.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhc
Q psy17441 294 NTLWILVMVSVHVVALVLYLLDRF 317 (458)
Q Consensus 294 ~~vW~~i~~~~~~~~~~~~~~~~~ 317 (458)
.++|..+...++++|+++|.+...
T Consensus 11 a~~~~l~~~~~~Figiv~wa~~p~ 34 (48)
T cd01324 11 ADSWGLLYLALFFLGVVVWAFRPG 34 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCC
Confidence 357888888899999999998864
No 344
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=40.90 E-value=24 Score=29.14 Aligned_cols=23 Identities=17% Similarity=0.509 Sum_probs=14.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhh
Q psy17441 294 NTLWILVMVSVHVVALVLYLLDR 316 (458)
Q Consensus 294 ~~vW~~i~~~~~~~~~~~~~~~~ 316 (458)
|.+|++++++++++.++++++.|
T Consensus 2 W~l~~iii~~i~l~~~~~~~~~r 24 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCHNR 24 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHHHH
Confidence 56777776666665555555554
No 345
>KOG0500|consensus
Probab=40.69 E-value=81 Score=32.12 Aligned_cols=90 Identities=13% Similarity=0.209 Sum_probs=60.6
Q ss_pred HHHHHHHHHHHHHHhhcCCCC---C--CCCCCCCCcc----ccccccchhHHHHHHHhhccCCCCCCCCchhhHHHHHHH
Q psy17441 301 MVSVHVVALVLYLLDRFSPFG---R--FRLSNSDNTE----EDALNLSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVW 371 (458)
Q Consensus 301 ~~~~~~~~~~~~~~~~~~~~~---~--~~~~~~~~~~----~~~~~~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w 371 (458)
++.+.--|++.+++....-|+ | .+...+.... .-.....-|++|+.-+|++-| -...|.+.+--...++=
T Consensus 138 ~ilfHWNaClYf~iS~~~g~~~d~wvY~~i~d~~~~~c~~~n~~ReY~~S~YWStLTlTTiG-e~P~P~t~~ey~F~I~d 216 (536)
T KOG0500|consen 138 LILFHWNACLYFLISKAIGFTTDDWVYPKINDPEFATCDAGNLTREYLYSLYWSTLTLTTIG-EQPPPVTSSEYAFVIVD 216 (536)
T ss_pred HHHHHHhhHHHHhhhHhcCccccccccCCccCccccccchhHHHHHHHHHHHHHhhhhhhcc-CCCCCCcCchhhHHHHH
Confidence 344556677888887643222 1 1121221111 122345689999999999999 57788888888888888
Q ss_pred HHHHHHHHhhcccceeEEee
Q psy17441 372 AGFAMIIVASYTANLAAFLV 391 (458)
Q Consensus 372 ~~~~~i~~~~yta~l~s~lt 391 (458)
.++++++.++-.+|+.++.|
T Consensus 217 ~LiGvliFAtIvG~VGsmVt 236 (536)
T KOG0500|consen 217 TLIGVLIFATIVGNVGSMVT 236 (536)
T ss_pred HHHHHHHHhhhhccHhHHHH
Confidence 88999999999888877654
No 346
>KOG4404|consensus
Probab=40.55 E-value=34 Score=32.71 Aligned_cols=47 Identities=9% Similarity=0.178 Sum_probs=34.8
Q ss_pred cccchhHHHHHHHhhccCCCCCCCCc--------hhhHHHHHHHHHHHHHHHhhc
Q psy17441 336 LNLSSAIWFAWGVLLNSGIGEGTPRS--------FSARVLGMVWAGFAMIIVASY 382 (458)
Q Consensus 336 ~~~~~~~w~~~~~l~~~g~~~~~p~s--------~~~Ri~~~~w~~~~~i~~~~y 382 (458)
+++.++++|++.+|.+-|+||..+-- ..-|+...++.++++-++.+.
T Consensus 185 Wsyfds~YyCFITltTIGFGDyValQ~~~alq~qplYv~~sf~fIL~Gl~vi~a~ 239 (350)
T KOG4404|consen 185 WSYFDSYYYCFITLTTIGFGDYVALQQDAALQSQPLYVFFSFVFILLGLCVIYAL 239 (350)
T ss_pred cchhhhhheeeeeeeeccccchhhhcchhhhhCCCceehHhHHHHHHHHHHHHHH
Confidence 37889999999999999999886542 235667777777776555544
No 347
>PRK11260 cystine transporter subunit; Provisional
Probab=40.50 E-value=28 Score=32.42 Aligned_cols=37 Identities=14% Similarity=0.221 Sum_probs=27.7
Q ss_pred EeeeccCCCCCCChhhhhhcCCCCceEEEEeCCChHHHHHhhc
Q psy17441 389 FLVLERPKTKLTGINDARLRNTMENLTCATVKGSAVDMYFRRQ 431 (458)
Q Consensus 389 ~lt~~~~~~~i~~~~dL~~~~~~~~~~~g~~~~s~~~~~~~~~ 431 (458)
+++......++++++||. +.++|+..|+....++++.
T Consensus 131 ~~~~~~~~~~~~~~~dL~------g~~Igv~~G~~~~~~l~~~ 167 (266)
T PRK11260 131 ALVKKGNEGTIKTAADLK------GKKVGVGLGTNYEQWLRQN 167 (266)
T ss_pred EEEEcCCcCCCCCHHHcC------CCEEEEecCCcHHHHHHHh
Confidence 344433345789999996 6789999999988888764
No 348
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=40.22 E-value=80 Score=28.14 Aligned_cols=64 Identities=13% Similarity=0.089 Sum_probs=38.5
Q ss_pred CeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcc-cHHHHHHHHHhccCeEEEEEeCh
Q psy17441 116 YMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLT-TFKDQLYEMKNAQARVYLMYASK 187 (458)
Q Consensus 116 w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~-d~~~~l~~ik~~~~~viil~~~~ 187 (458)
=++|+++..|+ |-.+..+.++...+..| +.+.. .....+.. ...+.+++.+..+.|+|+++..+
T Consensus 29 ~~~v~lis~D~-~R~ga~eQL~~~a~~l~------vp~~~-~~~~~~~~~~~~~~l~~~~~~~~D~vlIDT~G 93 (196)
T PF00448_consen 29 GKKVALISADT-YRIGAVEQLKTYAEILG------VPFYV-ARTESDPAEIAREALEKFRKKGYDLVLIDTAG 93 (196)
T ss_dssp T--EEEEEEST-SSTHHHHHHHHHHHHHT------EEEEE-SSTTSCHHHHHHHHHHHHHHTTSSEEEEEE-S
T ss_pred cccceeecCCC-CCccHHHHHHHHHHHhc------cccch-hhcchhhHHHHHHHHHHHhhcCCCEEEEecCC
Confidence 57899998765 66677888888888766 22111 11111111 23456666777789999999775
No 349
>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=40.17 E-value=1.7e+02 Score=28.48 Aligned_cols=82 Identities=10% Similarity=0.071 Sum_probs=52.9
Q ss_pred HHHHHHH-hcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEE
Q psy17441 106 VWVELLK-HFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMY 184 (458)
Q Consensus 106 ai~~ll~-~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~ 184 (458)
.+.++++ ..+.+++.++++...+ ....+.+++.++++| .+ .+ . ..-.+..+.+.+.++.+++.++++||-.
T Consensus 14 ~l~~~l~~~~~~~~~liv~d~~~~-~~~~~~v~~~l~~~~-~~----~~-~-~~~~~~~~~v~~~~~~~~~~~~d~iIai 85 (339)
T cd08173 14 KIPNVLRDLLLGGRVLVVTGPTTK-SIAGKKVEALLEDEG-EV----DV-V-IVEDATYEEVEKVESSARDIGADFVIGV 85 (339)
T ss_pred HHHHHHHHhCCCCeEEEEECCchH-HHHHHHHHHHHHhcC-Ce----EE-E-EeCCCCHHHHHHHHHHhhhcCCCEEEEe
Confidence 3456666 4567899999865543 366788888888765 32 11 1 1123355667788888888899999877
Q ss_pred eCh--hhHHHHHH
Q psy17441 185 ASK--QDAEIIFK 195 (458)
Q Consensus 185 ~~~--~~~~~il~ 195 (458)
+.+ -|+..++.
T Consensus 86 GGGs~~D~aK~~a 98 (339)
T cd08173 86 GGGRVIDVAKVAA 98 (339)
T ss_pred CCchHHHHHHHHH
Confidence 654 34444443
No 350
>COG4905 Predicted membrane protein [Function unknown]
Probab=39.87 E-value=72 Score=28.00 Aligned_cols=62 Identities=18% Similarity=0.310 Sum_probs=37.8
Q ss_pred eeeecCChhHHHHHHHHHHHHHHH----HHHHhhcCCCCCCCCCCCCCccccccccchhHHHHHHH
Q psy17441 287 SFLQPFSNTLWILVMVSVHVVALV----LYLLDRFSPFGRFRLSNSDNTEEDALNLSSAIWFAWGV 348 (458)
Q Consensus 287 ~fl~pf~~~vW~~i~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~ 348 (458)
-...||...+|-.++.++++++++ -|++|.+..-.|...++.+..-+.+--+.-|+.|..+.
T Consensus 55 m~~lpf~nnl~sL~ifsi~ivTv~Eyvt~~ILEa~Fn~kwWDYsn~p~Ni~Griclp~SlfWG~~c 120 (243)
T COG4905 55 MVGLPFKNNLISLIIFSIFIVTVLEYVTGFILEAIFNCKWWDYSNDPANIHGRICLPYSLFWGMLC 120 (243)
T ss_pred EEEecCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccccCCCccccceEEEeehHHHHHHHH
Confidence 345699999999999888887765 45667665555655544443323333344444444443
No 351
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=39.32 E-value=2e+02 Score=22.92 Aligned_cols=37 Identities=5% Similarity=-0.022 Sum_probs=20.0
Q ss_pred HHHHHHHHHhccCeEEEEEeCh----hhHHHHHHHHHhcCC
Q psy17441 166 FKDQLYEMKNAQARVYLMYASK----QDAEIIFKDAQYLNM 202 (458)
Q Consensus 166 ~~~~l~~ik~~~~~viil~~~~----~~~~~il~~a~~~g~ 202 (458)
..+.++.+.+.++++|.+.+.. ..+..++++.++.+.
T Consensus 39 ~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~~ 79 (119)
T cd02067 39 PEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAGL 79 (119)
T ss_pred HHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcCC
Confidence 4455555666666666665442 234555555555543
No 352
>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=39.20 E-value=1.3e+02 Score=28.62 Aligned_cols=72 Identities=7% Similarity=-0.054 Sum_probs=46.6
Q ss_pred ecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChh-hHHHHHHHHHhcCC
Q psy17441 124 SSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQ-DAEIIFKDAQYLNM 202 (458)
Q Consensus 124 ~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~-~~~~il~~a~~~g~ 202 (458)
.+++|.....+.+++.+++.|. .+.. .....+.....+.++.+.+.++|.|++..... .....++++.+.|+
T Consensus 8 ~~~~~~~~~~~~i~~~a~~~g~------~v~~-~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~i 80 (302)
T TIGR02634 8 LRLERWQKDRDIFVAAAESLGA------KVFV-QSANGNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGI 80 (302)
T ss_pred cchhhHHHHHHHHHHHHHhcCC------EEEE-EeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCC
Confidence 3456788888999999998873 2221 11122333445677778888899988875432 34566777777765
No 353
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=38.53 E-value=2.5e+02 Score=25.50 Aligned_cols=76 Identities=9% Similarity=0.065 Sum_probs=46.8
Q ss_pred EEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
|+++.. ++.|.......+++++++.|.. +.. .....+.......++++.+.+.|.|++........ .+++
T Consensus 2 igvi~~~~~~~~~~~~~~~i~~~a~~~g~~------~~~-~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~-~l~~ 73 (267)
T cd06283 2 IGVIVADITNPFSSLVLKGIEDVCRAHGYQ------VLV-CNSDNDPEKEKEYLESLLAYQVDGLIVNPTGNNKE-LYQR 73 (267)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCE------EEE-EcCCCCHHHHHHHHHHHHHcCcCEEEEeCCCCChH-HHHH
Confidence 455553 3567788899999999988732 211 11111233445667778888899998875543332 3566
Q ss_pred HHhcCC
Q psy17441 197 AQYLNM 202 (458)
Q Consensus 197 a~~~g~ 202 (458)
+.+.|.
T Consensus 74 ~~~~~i 79 (267)
T cd06283 74 LAKNGK 79 (267)
T ss_pred HhcCCC
Confidence 666665
No 354
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=38.28 E-value=1.5e+02 Score=21.61 Aligned_cols=51 Identities=16% Similarity=0.133 Sum_probs=36.2
Q ss_pred HHHHHHHHHhcCCeEEEEEEecCcc----hhHHHHHHHHhhhccCCcceeeEEEEE
Q psy17441 104 ADVWVELLKHFNYMKVIFIHSSDTD----GRALLGRFQTTSQNQEDDVEIKVQVEA 155 (458)
Q Consensus 104 ~~ai~~ll~~~~w~~v~ii~~~d~~----g~~~~~~l~~~l~~~gi~v~~~~~v~~ 155 (458)
+--++..+.+++ .+|.++...+.. .......+++.+++.|+.+..+..+..
T Consensus 11 g~E~A~~l~~~g-~~vtli~~~~~~~~~~~~~~~~~~~~~l~~~gV~v~~~~~v~~ 65 (80)
T PF00070_consen 11 GIELAEALAELG-KEVTLIERSDRLLPGFDPDAAKILEEYLRKRGVEVHTNTKVKE 65 (80)
T ss_dssp HHHHHHHHHHTT-SEEEEEESSSSSSTTSSHHHHHHHHHHHHHTTEEEEESEEEEE
T ss_pred HHHHHHHHHHhC-cEEEEEeccchhhhhcCHHHHHHHHHHHHHCCCEEEeCCEEEE
Confidence 345666777777 788888877644 467788899999999976655544433
No 355
>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=37.90 E-value=2.7e+02 Score=25.51 Aligned_cols=77 Identities=8% Similarity=0.014 Sum_probs=46.1
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh----HHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD----AEI 192 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~----~~~ 192 (458)
|+++..+ +.|.....+.+.+.+++.|.. +.. .....+...-.+.++++.+.+++.+++...... ...
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~------~~~-~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~ 74 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSEKGYS------LLL-ASTNNDPERERKCLENMLSQGIDGLIIEPTKSALPNPNID 74 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHHcCCE------EEE-EeCCCCHHHHHHHHHHHHHcCCCEEEEeccccccccccHH
Confidence 4555533 557778888999999988732 211 111222333456777788889999988643321 224
Q ss_pred HHHHHHhcCC
Q psy17441 193 IFKDAQYLNM 202 (458)
Q Consensus 193 il~~a~~~g~ 202 (458)
.++++.+.+.
T Consensus 75 ~~~~~~~~~i 84 (273)
T cd01541 75 LYLKLEKLGI 84 (273)
T ss_pred HHHHHHHCCC
Confidence 5666766665
No 356
>PLN02834 3-dehydroquinate synthase
Probab=37.66 E-value=4.6e+02 Score=26.70 Aligned_cols=90 Identities=9% Similarity=0.095 Sum_probs=53.3
Q ss_pred CeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC-----CcccHHHHHHHHHhccCe---EEEEEeCh
Q psy17441 116 YMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP-----GLTTFKDQLYEMKNAQAR---VYLMYASK 187 (458)
Q Consensus 116 w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~-----~~~d~~~~l~~ik~~~~~---viil~~~~ 187 (458)
-+++.+|++...+.. ..+.+.+.+++.|+.+ .+ ....++. ..+.+...+..+++.+++ .||..+.+
T Consensus 100 g~rvlIVtD~~v~~~-~~~~v~~~L~~~g~~~----~v-~~~v~~~gE~~ksl~~v~~~~~~l~~~~~dr~~~VIAiGGG 173 (433)
T PLN02834 100 GKRVLVVTNETVAPL-YLEKVVEALTAKGPEL----TV-ESVILPDGEKYKDMETLMKVFDKALESRLDRRCTFVALGGG 173 (433)
T ss_pred CCEEEEEECccHHHH-HHHHHHHHHHhcCCce----EE-EEEEecCCcCCCCHHHHHHHHHHHHhcCCCcCcEEEEECCh
Confidence 389999986665443 7788899998877432 11 1112222 344556666777776666 77766554
Q ss_pred --hhHHHHHHHHHhcCCcccceEEEeecc
Q psy17441 188 --QDAEIIFKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 188 --~~~~~il~~a~~~g~~~~~~~wi~t~~ 214 (458)
-+...++..+...|+. ++-|-|..
T Consensus 174 sv~D~ak~~A~~y~rgip---lI~VPTTl 199 (433)
T PLN02834 174 VIGDMCGFAAASYQRGVN---FVQIPTTV 199 (433)
T ss_pred HHHHHHHHHHHHhcCCCC---EEEECCcC
Confidence 3555555545555542 56555653
No 357
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=37.50 E-value=2.7e+02 Score=24.83 Aligned_cols=48 Identities=8% Similarity=0.027 Sum_probs=33.1
Q ss_pred cHHHHHHHHHhccCeEEEEE----eChhhHHHHHHHHHhcCCcccceEEEeecc
Q psy17441 165 TFKDQLYEMKNAQARVYLMY----ASKQDAEIIFKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 165 d~~~~l~~ik~~~~~viil~----~~~~~~~~il~~a~~~g~~~~~~~wi~t~~ 214 (458)
+....+..+.+..+|+++++ ....+...++++.++..... ++.+++..
T Consensus 35 ~~~~~~~~~~~~~pDlvLlDl~~~l~~~~g~~~i~~i~~~~p~~--~iivlt~~ 86 (207)
T PRK15411 35 TVDDLAIACDSLRPSVVFINEDCFIHDASNSQRIKQIINQHPNT--LFIVFMAI 86 (207)
T ss_pred CHHHHHHHHhccCCCEEEEeCcccCCCCChHHHHHHHHHHCCCC--eEEEEECC
Confidence 44555566667789999999 55566677888887766532 66776654
No 358
>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=37.27 E-value=3.8e+02 Score=25.62 Aligned_cols=175 Identities=15% Similarity=0.043 Sum_probs=86.1
Q ss_pred cceEEEEeeeeeCCCHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhccc-CCcEEeeecCCCCCCCCccccc
Q psy17441 14 KGVTFSATGIQMDPNPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFY-HIPVIGISSRDSAFSDKNIHVS 92 (458)
Q Consensus 14 ~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~-~iP~Is~~a~~~~ls~~~~~p~ 92 (458)
+|+++.+...... .........+.+.+++...||+ +.. .-..++..++..+ ++-.+......+.-. ++...+
T Consensus 33 ~~i~~~~~e~~~~--~~~~~~~~~~~~~~~g~dlIi~--~g~--~~~~~~~~vA~~yPd~~F~~~d~~~~~~~-~Nv~~~ 105 (306)
T PF02608_consen 33 DGIEIIYVENVPE--TDADYEEAIRQLADQGYDLIIG--HGF--EYSDALQEVAKEYPDTKFIIIDGYIDAPE-PNVISI 105 (306)
T ss_dssp TTEEEEEEES-S---TCHHHHHHHHHHHHTT-SEEEE--ESG--GGHHHHHHHHTC-TTSEEEEESS---ST--TTEEEE
T ss_pred CCceEEEEecCCc--cHHHHHHHHHHHHHcCCCEEEE--ccH--HHHHHHHHHHHHCCCCEEEEEecCcCCCC-CcEEEE
Confidence 3555555532221 1233444556677789999998 322 2556788888887 344444333221110 122233
Q ss_pred eeecCCCchhHHHHHHHHHHhcCCeEEEEEE---ecC-cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC-CcccHH
Q psy17441 93 FLRTVPPYSHQADVWVELLKHFNYMKVIFIH---SSD-TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP-GLTTFK 167 (458)
Q Consensus 93 ~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~---~~d-~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~-~~~d~~ 167 (458)
.||.-- ....+-+++.++.. -.+++++. -.+ +.-......|..-.+..+.. +.+.....-+- +...-+
T Consensus 106 ~f~~~e-~~fLaG~~Aa~~tk--t~~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~np~----i~v~~~~~gs~~D~~~~~ 178 (306)
T PF02608_consen 106 TFREEE-ASFLAGYLAALMTK--TGKVGFIGDIGGMDIPPVNRFINGFIAGAKYVNPD----IKVNVSYTGSFNDPAKAK 178 (306)
T ss_dssp EE-HHH-HHHHHHHHHHHHHS--STEEEEEEEEES--SCTTHHHHHHHHHHHHHTTTT-----EEEEEE-SSSS-HHHHH
T ss_pred Eccccc-hhHHHHHHHHHHhc--cCcccccccccCCCcHhHHHHHHHHHHHHHHhCcC----ceEEEEEcCCcCchHHHH
Confidence 443321 22233344444443 35788887 333 33334556666666654422 33322211111 233345
Q ss_pred HHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCc
Q psy17441 168 DQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMT 203 (458)
Q Consensus 168 ~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~ 203 (458)
..-+.+...++|+|.-.+.. ....++++|++.|..
T Consensus 179 ~~a~~li~~GaDvI~~~ag~-~~~gv~~aa~e~g~~ 213 (306)
T PF02608_consen 179 EAAEALIDQGADVIFPVAGG-SGQGVIQAAKEAGVY 213 (306)
T ss_dssp HHHHHHHHTT-SEEEEE-CC-CHHHHHHHHHHHTHE
T ss_pred HHHHHHhhcCCeEEEECCCC-CchHHHHHHHHcCCc
Confidence 55566777899999986554 456789999999864
No 359
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=37.23 E-value=3e+02 Score=25.59 Aligned_cols=39 Identities=21% Similarity=0.265 Sum_probs=31.7
Q ss_pred hhcCCeEEEEEe-CCCCCCCchHHHHHhhcccCCcEEeeec
Q psy17441 40 LISERVYAVIVS-HPLTGDLSPAAVSYTSGFYHIPVIGISS 79 (458)
Q Consensus 40 l~~~~V~aiIG~-~~~~s~~~~~~~~~i~~~~~iP~Is~~a 79 (458)
+.++++.+||=. ||.... .+..+...|...+||.+-+-=
T Consensus 62 l~~~~i~~vIDATHPfA~~-is~na~~a~~~~~ipylR~eR 101 (249)
T PF02571_consen 62 LRENGIDAVIDATHPFAAE-ISQNAIEACRELGIPYLRFER 101 (249)
T ss_pred HHhCCCcEEEECCCchHHH-HHHHHHHHHhhcCcceEEEEc
Confidence 446899999974 777664 788899999999999997754
No 360
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=37.12 E-value=42 Score=31.24 Aligned_cols=53 Identities=4% Similarity=0.088 Sum_probs=33.3
Q ss_pred CCCCChhhhhhcCCCCceEEEEeCCChHHHHHhhchhhHHHHHHHHHcCCCCHHHHHHHhh
Q psy17441 397 TKLTGINDARLRNTMENLTCATVKGSAVDMYFRRQVELSNMYRTMEANNYDTAEDAIADVK 457 (458)
Q Consensus 397 ~~i~~~~dL~~~~~~~~~~~g~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~~v~ 457 (458)
.++++++||. +.++|+..||..+..+.+.. ++....++...+++..++++.+.
T Consensus 138 ~~~~s~~dL~------g~~V~v~~gs~~~~~l~~~~--~~~~~~~~~~~~~~~~~~~~~l~ 190 (259)
T PRK11917 138 KNYKSLADMK------GANIGVAQAATTKKAIGEAA--KKIGIDVKFSEFPDYPSIKAALD 190 (259)
T ss_pred CCCCCHHHhC------CCeEEEecCCcHHHHHHHhh--HhcCCceeEEecCCHHHHHHHHH
Confidence 3689999997 78899999999887776421 10000111113566777776654
No 361
>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=36.79 E-value=2.1e+02 Score=26.03 Aligned_cols=74 Identities=8% Similarity=0.003 Sum_probs=45.3
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
|+++..+ +.|.....+.+++.+++.|.. +... ....+.....+.++.+.+.+++.|++....... ..++.
T Consensus 2 i~~i~~~~~~~~~~~i~~gi~~~~~~~g~~------~~~~-~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~-~~~~~ 73 (260)
T cd06286 2 IGVVLPYINHPYFSQLVDGIEKAALKHGYK------VVLL-QTNYDKEKELEYLELLKTKQVDGLILCSRENDW-EVIEP 73 (260)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHcCCE------EEEE-eCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCH-HHHHH
Confidence 5666654 568888899999999988732 2211 112233344567777888889988886543232 33455
Q ss_pred HHhc
Q psy17441 197 AQYL 200 (458)
Q Consensus 197 a~~~ 200 (458)
+.+.
T Consensus 74 ~~~~ 77 (260)
T cd06286 74 YTKY 77 (260)
T ss_pred HhcC
Confidence 5444
No 362
>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=36.75 E-value=1.5e+02 Score=29.09 Aligned_cols=85 Identities=15% Similarity=0.164 Sum_probs=50.9
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC--CCcccHHHHHHHHHhccCeEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE--PGLTTFKDQLYEMKNAQARVYL 182 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~--~~~~d~~~~l~~ik~~~~~vii 182 (458)
..+.++++.++-+++.++++....... .+.+.+.+++.|+.+ .+.....-+ +..+.+.+.++.+++ ++|.||
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~~~~-~~~v~~~l~~~~i~~----~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~II 85 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTYAAA-GKKVEALLKRAGVVV----LLIVLPAGDLIADEKAVGRVLKELER-DTDLII 85 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHHHHH-HHHHHHHHHHCCCee----EEeecCCCcccCCHHHHHHHHHHhhc-cCCEEE
Confidence 346677888888999999865543323 588889998887432 111001111 234445566666666 899998
Q ss_pred EEeCh--hhHHHHHH
Q psy17441 183 MYASK--QDAEIIFK 195 (458)
Q Consensus 183 l~~~~--~~~~~il~ 195 (458)
-.+-+ -|+..++.
T Consensus 86 aIGGGs~~D~aK~vA 100 (348)
T cd08175 86 AVGSGTINDITKYVS 100 (348)
T ss_pred EECCcHHHHHHHHHH
Confidence 77554 34444443
No 363
>cd00755 YgdL_like Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of the substrate. The exact function of this family is unknown.
Probab=35.96 E-value=1.4e+02 Score=27.52 Aligned_cols=78 Identities=14% Similarity=0.045 Sum_probs=43.8
Q ss_pred cCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchh----HHHHHHHHHHhcCCe
Q psy17441 42 SERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSH----QADVWVELLKHFNYM 117 (458)
Q Consensus 42 ~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~----~~~ai~~ll~~~~w~ 117 (458)
..+...||. ...+...-..+...+...++|+|+.+.....+. |+-+|...-... .++.+=+-|+.-+-.
T Consensus 100 ~~~~D~Vvd--aiD~~~~k~~L~~~c~~~~ip~I~s~g~g~~~d-----p~~i~i~di~~t~~~pla~~~R~~Lrk~~~~ 172 (231)
T cd00755 100 GGDPDFVVD--AIDSIRAKVALIAYCRKRKIPVISSMGAGGKLD-----PTRIRVADISKTSGDPLARKVRKRLRKRGIF 172 (231)
T ss_pred cCCCCEEEE--cCCCHHHHHHHHHHHHHhCCCEEEEeCCcCCCC-----CCeEEEccEeccccCcHHHHHHHHHHHcCCC
Confidence 445666776 444322445678889999999999776554331 444554432222 333333444444443
Q ss_pred -EEEEEEecC
Q psy17441 118 -KVIFIHSSD 126 (458)
Q Consensus 118 -~v~ii~~~d 126 (458)
.+-++|+..
T Consensus 173 ~~~~~v~S~E 182 (231)
T cd00755 173 FGVPVVYSTE 182 (231)
T ss_pred CCeEEEeCCC
Confidence 577777665
No 364
>PF13362 Toprim_3: Toprim domain
Probab=35.75 E-value=1.3e+02 Score=23.03 Aligned_cols=52 Identities=17% Similarity=0.118 Sum_probs=35.7
Q ss_pred cCCeEEEEEEecCcc--hhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHH
Q psy17441 114 FNYMKVIFIHSSDTD--GRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYE 172 (458)
Q Consensus 114 ~~w~~v~ii~~~d~~--g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ 172 (458)
...++|.|..++|.- |+.....+.+.+.+.|+ .+..... +....|+.+.+++
T Consensus 39 ~~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~------~~~~~~p-~~~g~D~ND~l~~ 92 (96)
T PF13362_consen 39 EPGRRVIIAADNDKANEGQKAAEKAAERLEAAGI------AVSIVEP-GPEGKDWNDLLQA 92 (96)
T ss_pred CCCCeEEEEECCCCchhhHHHHHHHHHHHHhCCC------eEEEECC-CCCCchHHHHHHh
Confidence 367888777777877 89999999999998873 2222111 2445688777654
No 365
>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=35.69 E-value=2.7e+02 Score=25.37 Aligned_cols=69 Identities=6% Similarity=0.098 Sum_probs=39.7
Q ss_pred CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHH-HHhccCeEEEEEeChhhHHHHHHHHHhcCCc
Q psy17441 126 DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYE-MKNAQARVYLMYASKQDAEIIFKDAQYLNMT 203 (458)
Q Consensus 126 d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~-ik~~~~~viil~~~~~~~~~il~~a~~~g~~ 203 (458)
+.|.....+.+++.+++.|. .+.. ....+..+....+.+ +.+.+++.||+...... ...++.+.+.|..
T Consensus 16 ~~~~~~~~~~~~~~~~~~g~------~~~~--~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~-~~~~~~~~~~~ip 85 (270)
T cd06294 16 NPFFIEVLRGISAVANENGY------DISL--ATGKNEEELLEEVKKMIQQKRVDGFILLYSRED-DPIIDYLKEEKFP 85 (270)
T ss_pred CCCHHHHHHHHHHHHHHCCC------EEEE--ecCCCcHHHHHHHHHHHHHcCcCEEEEecCcCC-cHHHHHHHhcCCC
Confidence 56777888899999988773 2221 111122223334444 44556898888753322 3456677777754
No 366
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=35.55 E-value=1.6e+02 Score=21.71 Aligned_cols=31 Identities=13% Similarity=0.087 Sum_probs=23.7
Q ss_pred CeEEEEEEecCcchhHHHHHHHHhhhccCCc
Q psy17441 116 YMKVIFIHSSDTDGRALLGRFQTTSQNQEDD 146 (458)
Q Consensus 116 w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~ 146 (458)
-++|.+.+++|.-|+.....+.+.+...|+.
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi~ 76 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPLGIR 76 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG-----
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhhccc
Confidence 5999999999999999999999999877743
No 367
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=35.14 E-value=2.5e+02 Score=23.72 Aligned_cols=95 Identities=9% Similarity=0.005 Sum_probs=56.1
Q ss_pred CCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC--CcccHHHHHHHHH
Q psy17441 97 VPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP--GLTTFKDQLYEMK 174 (458)
Q Consensus 97 ~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~--~~~d~~~~l~~ik 174 (458)
.+....|++.+++.++..+..--.|+++.-.-.+..++.+.+.+... ..+.....+.+ +..++...++++.
T Consensus 24 t~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l~~~~~~~-------~~~~~~~~l~p~~~~~~~~~~l~~~~ 96 (152)
T TIGR00249 24 TTNGCDESRLVAQWLKGQGVEIERILVSPFVRAEQTAEIVGDCLNLP-------SSAEVLEGLTPCGDIGLVSDYLEALT 96 (152)
T ss_pred CHHHHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHHcCCC-------cceEEccCcCCCCCHHHHHHHHHHHH
Confidence 44556788888988887665444555555444555566665554321 11111122221 2334556666665
Q ss_pred hccCeEEEEEeChhhHHHHHHHHH
Q psy17441 175 NAQARVYLMYASKQDAEIIFKDAQ 198 (458)
Q Consensus 175 ~~~~~viil~~~~~~~~~il~~a~ 198 (458)
+...+.+++.+..+....++.+.-
T Consensus 97 ~~~~~~vliVgH~P~i~~l~~~l~ 120 (152)
T TIGR00249 97 NEGVASVLLVSHLPLVGYLVAELC 120 (152)
T ss_pred hcCCCEEEEEeCCCCHHHHHHHHh
Confidence 545667888899998888888774
No 368
>cd08172 GlyDH-like1 Glycerol dehydrogenases-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=35.00 E-value=1.6e+02 Score=28.88 Aligned_cols=82 Identities=16% Similarity=0.056 Sum_probs=50.8
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMY 184 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~ 184 (458)
..+.++++.++ +++.++++...+ ....+.+.+.+++.+ +.+...... +..+++.+.+...++.++|.||-.
T Consensus 13 ~~l~~~~~~~~-~~~liv~d~~~~-~~~~~~l~~~L~~~~------~~~~~~~~~-p~~~~v~~~~~~~~~~~~D~iIav 83 (347)
T cd08172 13 DELGELLKRFG-KRPLIVTGPRSW-AAAKPYLPESLAAGE------AFVLRYDGE-CSEENIERLAAQAKENGADVIIGI 83 (347)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHH-HHHHHHHHHHHhcCe------EEEEEeCCC-CCHHHHHHHHHHHHhcCCCEEEEe
Confidence 34556677775 888888876653 356677777775443 221110111 456667788888888899999877
Q ss_pred eChh--hHHHHHH
Q psy17441 185 ASKQ--DAEIIFK 195 (458)
Q Consensus 185 ~~~~--~~~~il~ 195 (458)
+.+. +...++.
T Consensus 84 GGGs~~D~aK~ia 96 (347)
T cd08172 84 GGGKVLDTAKAVA 96 (347)
T ss_pred CCcHHHHHHHHHH
Confidence 6553 4444443
No 369
>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=34.35 E-value=4.1e+02 Score=25.20 Aligned_cols=81 Identities=7% Similarity=-0.042 Sum_probs=49.1
Q ss_pred CCeEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHH
Q psy17441 115 NYMKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEI 192 (458)
Q Consensus 115 ~w~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~ 192 (458)
.-+.|+++..+ +.|.......+++.+++.|.. +.. .....+.......++.+.+.+.+.+|+...... ..
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~~g~~------~~i-~~~~~~~~~~~~~~~~l~~~~vdGiIi~~~~~~-~~ 129 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATMYKYN------IIL-SNSDEDPEKEVQVLNTLLSKQVDGIIFMGGTIT-EK 129 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHHcCCE------EEE-EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCC-hH
Confidence 34578888864 567778888999999988722 211 111222333455667777888999998754322 23
Q ss_pred HHHHHHhcCCc
Q psy17441 193 IFKDAQYLNMT 203 (458)
Q Consensus 193 il~~a~~~g~~ 203 (458)
+.+.+.+.++.
T Consensus 130 ~~~~l~~~~iP 140 (329)
T TIGR01481 130 LREEFSRSPVP 140 (329)
T ss_pred HHHHHHhcCCC
Confidence 44555555643
No 370
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=34.29 E-value=2.1e+02 Score=21.80 Aligned_cols=37 Identities=11% Similarity=0.171 Sum_probs=22.3
Q ss_pred cHHHHHHHHHhccCeEEEEEe--ChhhHHHHHHHHHhcC
Q psy17441 165 TFKDQLYEMKNAQARVYLMYA--SKQDAEIIFKDAQYLN 201 (458)
Q Consensus 165 d~~~~l~~ik~~~~~viil~~--~~~~~~~il~~a~~~g 201 (458)
+..+.+..+++..++++++.. ...++..++++.++.+
T Consensus 31 ~~~~~~~~~~~~~~d~iiid~~~~~~~~~~~~~~i~~~~ 69 (112)
T PF00072_consen 31 SGEEALELLKKHPPDLIIIDLELPDGDGLELLEQIRQIN 69 (112)
T ss_dssp SHHHHHHHHHHSTESEEEEESSSSSSBHHHHHHHHHHHT
T ss_pred CHHHHHHHhcccCceEEEEEeeecccccccccccccccc
Confidence 445555666666677777663 3345666666666665
No 371
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=33.94 E-value=3.5e+02 Score=25.75 Aligned_cols=79 Identities=8% Similarity=0.010 Sum_probs=49.3
Q ss_pred eEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHH
Q psy17441 117 MKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIF 194 (458)
Q Consensus 117 ~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il 194 (458)
+.++++..+ +.|.....+.+.+.+++.|. .+.. .....+.......++.+.+.+.+.||+...... ...+
T Consensus 64 ~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~------~~~~-~~~~~~~~~~~~~~~~~~~~~vdgiI~~~~~~~-~~~~ 135 (331)
T PRK14987 64 RAIGVLLPSLTNQVFAEVLRGIESVTDAHGY------QTML-AHYGYKPEMEQERLESMLSWNIDGLILTERTHT-PRTL 135 (331)
T ss_pred CEEEEEeCCCcchhHHHHHHHHHHHHHHCCC------EEEE-ecCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCC-HHHH
Confidence 478888754 45777888999999998872 2221 111112223345667777889999998643222 3456
Q ss_pred HHHHhcCCc
Q psy17441 195 KDAQYLNMT 203 (458)
Q Consensus 195 ~~a~~~g~~ 203 (458)
+.+.+.|+.
T Consensus 136 ~~l~~~~iP 144 (331)
T PRK14987 136 KMIEVAGIP 144 (331)
T ss_pred HHHHhCCCC
Confidence 666666653
No 372
>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=33.65 E-value=3.1e+02 Score=27.11 Aligned_cols=50 Identities=18% Similarity=0.141 Sum_probs=32.4
Q ss_pred HHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCC-eEEEEEEecCcc
Q psy17441 62 AVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNY-MKVIFIHSSDTD 128 (458)
Q Consensus 62 ~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w-~~v~ii~~~d~~ 128 (458)
.+.+.+.+.+||+|+-+.... ....++.+.++++..|. -||+.|+.|+..
T Consensus 62 ~~L~~~~~~gIkvI~NaGg~n-----------------p~~~a~~v~eia~e~Gl~lkvA~V~gDd~~ 112 (362)
T PF07287_consen 62 PLLPAAAEKGIKVITNAGGLN-----------------PAGCADIVREIARELGLSLKVAVVYGDDLK 112 (362)
T ss_pred HHHHHHHhCCCCEEEeCCCCC-----------------HHHHHHHHHHHHHhcCCCeeEEEEECccch
Confidence 344556667788776544221 11266777888888777 489999887753
No 373
>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=33.34 E-value=2.8e+02 Score=22.92 Aligned_cols=75 Identities=11% Similarity=0.028 Sum_probs=45.0
Q ss_pred EEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChh----hHHHHH
Q psy17441 119 VIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQ----DAEIIF 194 (458)
Q Consensus 119 v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~----~~~~il 194 (458)
+.+-....|-..-...-+...|+..| ..+.. ..........++..++.++++|.+++... ....++
T Consensus 5 v~~a~~g~D~Hd~g~~iv~~~l~~~G------feVi~----lg~~~s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~ 74 (132)
T TIGR00640 5 ILVAKMGQDGHDRGAKVIATAYADLG------FDVDV----GPLFQTPEEIARQAVEADVHVVGVSSLAGGHLTLVPALR 74 (132)
T ss_pred EEEEeeCCCccHHHHHHHHHHHHhCC------cEEEE----CCCCCCHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHH
Confidence 33333333334444666677777777 33222 11234556778888889999998876553 456666
Q ss_pred HHHHhcCCc
Q psy17441 195 KDAQYLNMT 203 (458)
Q Consensus 195 ~~a~~~g~~ 203 (458)
++.++.|..
T Consensus 75 ~~L~~~g~~ 83 (132)
T TIGR00640 75 KELDKLGRP 83 (132)
T ss_pred HHHHhcCCC
Confidence 667777753
No 374
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=32.93 E-value=53 Score=29.95 Aligned_cols=49 Identities=18% Similarity=0.335 Sum_probs=33.2
Q ss_pred CCCChhhhhhcCCCCceEEEEeCCChHHHHHhhchhhHHHHHHHHHcCCCCHHHHHHHhh
Q psy17441 398 KLTGINDARLRNTMENLTCATVKGSAVDMYFRRQVELSNMYRTMEANNYDTAEDAIADVK 457 (458)
Q Consensus 398 ~i~~~~dL~~~~~~~~~~~g~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~~v~ 457 (458)
.+.+++||. +.++|+..++....++++. ++. .++...+.+.++++++|.
T Consensus 122 ~~~~~~dl~------g~~i~~~~g~~~~~~l~~~--~~~---~~~~~~~~s~~~~~~~L~ 170 (250)
T TIGR01096 122 LAKTLEDLD------GKTVGVQSGTTHEQYLKDY--FKP---GVDIVEYDSYDNANMDLK 170 (250)
T ss_pred cCCChHHcC------CCEEEEecCchHHHHHHHh--ccC---CcEEEEcCCHHHHHHHHH
Confidence 357899986 6789999999998888763 110 112223667777777765
No 375
>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=32.89 E-value=2.5e+02 Score=25.65 Aligned_cols=62 Identities=3% Similarity=-0.058 Sum_probs=41.6
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK 187 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~ 187 (458)
|+++..+ +.|.....+.+.+.+++.|.. +... ....+.......++.+.+.+++.||+....
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~gy~------v~~~-~~~~~~~~~~~~i~~~~~~~~dgiii~~~~ 65 (269)
T cd06293 2 IGLVVPDIANPFFAELADAVEEEADARGLS------LVLC-ATRNRPERELTYLRWLDTNHVDGLIFVTNR 65 (269)
T ss_pred EEEEeCCCCCCcHHHHHHHHHHHHHHCCCE------EEEE-eCCCCHHHHHHHHHHHHHCCCCEEEEeCCC
Confidence 6777754 567888899999999998732 2111 112233345667778888899999987543
No 376
>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=32.86 E-value=1.7e+02 Score=25.14 Aligned_cols=65 Identities=9% Similarity=0.082 Sum_probs=38.1
Q ss_pred CeEEEEEEecCcchh---HHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHh-ccCeEEEEEeC
Q psy17441 116 YMKVIFIHSSDTDGR---ALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKN-AQARVYLMYAS 186 (458)
Q Consensus 116 w~~v~ii~~~d~~g~---~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~-~~~~viil~~~ 186 (458)
.-++++|...|.-+. .....+...+++.| ..+.....++.+...+.+.+++..+ .++|+|+..+.
T Consensus 4 ~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G------~~v~~~~iv~Dd~~~i~~~l~~~~~~~~~DlVIttGG 72 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTSGQYLVERLTEAG------HRLADRAIVKDDIYQIRAQVSAWIADPDVQVILITGG 72 (163)
T ss_pred ccEEEEEEEeCcCCccCCCcHHHHHHHHHHCC------CeEEEEEEcCCCHHHHHHHHHHHHhcCCCCEEEECCC
Confidence 456777765553221 12456677778777 3334444455566667777777643 46888887643
No 377
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=32.82 E-value=55 Score=27.66 Aligned_cols=27 Identities=19% Similarity=0.273 Sum_probs=20.4
Q ss_pred ecCChhHHHHHHHHHHHHHHHHHHHhh
Q psy17441 290 QPFSNTLWILVMVSVHVVALVLYLLDR 316 (458)
Q Consensus 290 ~pf~~~vW~~i~~~~~~~~~~~~~~~~ 316 (458)
.|.++.+|+.|+.+++++++.++.+-|
T Consensus 115 ~~~~~~i~~~i~g~ll~i~~giy~~~r 141 (145)
T PF10661_consen 115 KPISPTILLSIGGILLAICGGIYVVLR 141 (145)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677777787787877888887776
No 378
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=32.76 E-value=1.3e+02 Score=27.16 Aligned_cols=154 Identities=12% Similarity=0.096 Sum_probs=80.3
Q ss_pred CHHHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhh--------cccCCcEEeeecCC-CCCCCCccccceeecCC
Q psy17441 28 NPILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTS--------GFYHIPVIGISSRD-SAFSDKNIHVSFLRTVP 98 (458)
Q Consensus 28 ~~~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~--------~~~~iP~Is~~a~~-~~ls~~~~~p~~~r~~p 98 (458)
..........+.+...+...||= . |..........+ ...+++++..+..+ ..+...+ ++-.+ +|
T Consensus 26 ~~~~~l~~~l~~l~~~~~d~vif--t--S~~av~~~~~~l~~~~~~~~~~~~~~i~avG~~Ta~~l~~~G-~~~~~--~~ 98 (231)
T PF02602_consen 26 PDLASLEAALEQLPPGNYDWVIF--T--SPNAVRAFFKALQSAGADLRLLKNIKIFAVGPKTAEALREYG-FQPDF--VP 98 (231)
T ss_dssp CHHHHHHHHHHHHTGCCSSEEEE--S--SHHHHHHHHHHHHHTTHHHHHHHHSEEEESSHHHHHHHHHTT--EECE--E-
T ss_pred CCHHHHHHHHHhcccCCCCEEEE--E--CHHHHHHHHHHHhhhhhhhhhccCCeEEEEcHHHHHHHHHcC-CCccc--cC
Confidence 33344555555564346666664 2 210222222222 13456777665432 2333222 12111 56
Q ss_pred CchhHHHHHHHHHHh-cCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC-CcccHHHHHHHHHhc
Q psy17441 99 PYSHQADVWVELLKH-FNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP-GLTTFKDQLYEMKNA 176 (458)
Q Consensus 99 ~~~~~~~ai~~ll~~-~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~-~~~d~~~~l~~ik~~ 176 (458)
+....++.+++.+.. ..-+++.++..+.. ...|.+.+++.|..| .....+.. .........+.++..
T Consensus 99 ~~~~~s~~L~~~l~~~~~~~~vl~~~g~~~-----~~~l~~~L~~~g~~v------~~~~vY~~~~~~~~~~~~~~l~~~ 167 (231)
T PF02602_consen 99 SSEGSSEGLAELLKEQLRGKRVLILRGEGG-----RPDLPEKLREAGIEV------TEVIVYETPPEELSPELKEALDRG 167 (231)
T ss_dssp TTSSSHHHHHGGHHHCCTTEEEEEEESSSS-----CHHHHHHHHHTTEEE------EEEECEEEEEHHHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHhhCCCCeEEEEcCCCc-----cHHHHHHHHHCCCeE------EEEEEeecccccchHHHHHHHHcC
Confidence 656677888887774 44488888876653 366778888887433 22221211 122334455556665
Q ss_pred cCeEEEEEeChhhHHHHHHHHHhc
Q psy17441 177 QARVYLMYASKQDAEIIFKDAQYL 200 (458)
Q Consensus 177 ~~~viil~~~~~~~~~il~~a~~~ 200 (458)
+.++|+ +.++..+..+++...+.
T Consensus 168 ~~~~v~-ftS~~~~~~~~~~~~~~ 190 (231)
T PF02602_consen 168 EIDAVV-FTSPSAVRAFLELLKKN 190 (231)
T ss_dssp TTSEEE-ESSHHHHHHHHHHSSGH
T ss_pred CCCEEE-ECCHHHHHHHHHHhHhh
Confidence 665555 56667778888777654
No 379
>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=32.72 E-value=1.6e+02 Score=24.82 Aligned_cols=62 Identities=15% Similarity=0.101 Sum_probs=34.5
Q ss_pred EEEEEEecCc--chh---HHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHh-ccCeEEEEEe
Q psy17441 118 KVIFIHSSDT--DGR---ALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKN-AQARVYLMYA 185 (458)
Q Consensus 118 ~v~ii~~~d~--~g~---~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~-~~~~viil~~ 185 (458)
++++|...|+ .|+ .....+.+.+++.| ..+......+.+.+++.+.+++..+ +++|+|+..+
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G------~~v~~~~~v~Dd~~~i~~~l~~~~~~~~~DlVittG 69 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAG------HEVVAYEIVPDDKDEIREALIEWADEDGVDLILTTG 69 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcC------CeeeeEEEcCCCHHHHHHHHHHHHhcCCCCEEEECC
Confidence 4666655542 222 22345677777776 3333344445555566666666544 3678887763
No 380
>KOG0501|consensus
Probab=32.69 E-value=67 Score=33.38 Aligned_cols=53 Identities=13% Similarity=0.357 Sum_probs=47.1
Q ss_pred cchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHHHHHHhhcccceeEEe
Q psy17441 338 LSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIVASYTANLAAFL 390 (458)
Q Consensus 338 ~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~~i~~~~yta~l~s~l 390 (458)
+..+++|+...|+..|++...|.+---++..+.-++.+-++.++.-++++..+
T Consensus 424 YissLYfTMt~mttvGFGNiA~~TD~EKiF~v~mMii~aLLYAtIFG~vTTI~ 476 (971)
T KOG0501|consen 424 YISSLYFTMTCMTTVGFGNIAPNTDNEKIFGVCMMIIGALLYATIFGHVTTII 476 (971)
T ss_pred ehhhhhhhhhhhhcccccccCCCccHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 46899999999999999999999999999999999998888888888876653
No 381
>cd08195 DHQS Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway, which involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds, is found in bacteria, microbial eukaryotes, and plants, but not in mammals. Therefore, enzymes of this pathway are attractive targets for the development of non-toxic antimicrobial compounds, herbicides and anti-parasitic agents. The activity of DHQS requires nicotinamide adenine dinucleotide (NAD) as cofactor. A single active site in DHQS catalyzes five sequential reactions involving alcohol oxidation, phosphate elimination, carbonyl reduction, ring opening, and intramolecular aldol
Probab=32.68 E-value=4.4e+02 Score=25.71 Aligned_cols=96 Identities=15% Similarity=0.167 Sum_probs=57.1
Q ss_pred HHHHHHh-cCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC-----CCcccHHHHHHHHHhccC--
Q psy17441 107 WVELLKH-FNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE-----PGLTTFKDQLYEMKNAQA-- 178 (458)
Q Consensus 107 i~~ll~~-~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~-----~~~~d~~~~l~~ik~~~~-- 178 (458)
+.+++.. .+.+++.++++...+ ....+.+.+.+++.|+.+ .. ..++ +..+.+.+.++.+++.++
T Consensus 14 l~~~~~~~~~~~~~livtd~~~~-~~~~~~l~~~L~~~g~~~------~~-~~~~~~e~~~~~~~v~~~~~~~~~~~~~r 85 (345)
T cd08195 14 LGELLAKLPKGSKILIVTDENVA-PLYLEKLKAALEAAGFEV------EV-IVIPAGEASKSLETLEKLYDALLEAGLDR 85 (345)
T ss_pred HHHHHHhccCCCeEEEEECCchH-HHHHHHHHHHHHhcCCce------EE-EEeCCCCCcCCHHHHHHHHHHHHHcCCCC
Confidence 3344433 456889888865544 367788999998877432 11 1122 234566777777877665
Q ss_pred -eEEEEEeCh--hhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 179 -RVYLMYASK--QDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 179 -~viil~~~~--~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
+.|+-.+.+ -+...++......|+. ++-|-|.
T Consensus 86 ~d~IIaiGGGsv~D~ak~vA~~~~rgip---~i~VPTT 120 (345)
T cd08195 86 KSLIIALGGGVVGDLAGFVAATYMRGID---FIQIPTT 120 (345)
T ss_pred CCeEEEECChHHHhHHHHHHHHHhcCCC---eEEcchh
Confidence 788776555 3555555544455542 5555554
No 382
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=32.67 E-value=4.6e+02 Score=25.22 Aligned_cols=63 Identities=14% Similarity=0.293 Sum_probs=40.7
Q ss_pred HHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHH---HhcC-CeEEEEEEecCcchhHHHHHH
Q psy17441 61 AAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELL---KHFN-YMKVIFIHSSDTDGRALLGRF 136 (458)
Q Consensus 61 ~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll---~~~~-w~~v~ii~~~d~~g~~~~~~l 136 (458)
..+..++...+||+|. .|+|..+ ..+++++++ .++| .+-.-+.|..| |.+....+
T Consensus 111 ~~ve~lA~~s~VPViN------gLtD~~H-------------P~Q~LADl~Ti~E~~g~l~g~k~a~vGD--gNNv~nSl 169 (310)
T COG0078 111 ETLEELAKYSGVPVIN------GLTDEFH-------------PCQALADLMTIKEHFGSLKGLKLAYVGD--GNNVANSL 169 (310)
T ss_pred HHHHHHHHhCCCceEc------ccccccC-------------cHHHHHHHHHHHHhcCcccCcEEEEEcC--cchHHHHH
Confidence 4677888889999883 3555542 236667765 6676 34444555554 25667777
Q ss_pred HHhhhccC
Q psy17441 137 QTTSQNQE 144 (458)
Q Consensus 137 ~~~l~~~g 144 (458)
-......|
T Consensus 170 ~~~~a~~G 177 (310)
T COG0078 170 LLAAAKLG 177 (310)
T ss_pred HHHHHHhC
Confidence 77788877
No 383
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=32.63 E-value=4.6e+02 Score=25.39 Aligned_cols=81 Identities=2% Similarity=0.016 Sum_probs=51.5
Q ss_pred CCeEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHH
Q psy17441 115 NYMKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEI 192 (458)
Q Consensus 115 ~w~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~ 192 (458)
.-+-++++..+ +.|....+..+.+.++++|..+ .. .....+.+.-...++.+.+.++|.||+.+. ..-..
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~~gy~~------~l-~~~~~~~~~e~~~~~~l~~~~vdGiIi~~~-~~~~~ 128 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAAREAGYSL------LL-ANTDDDPEKEREYLETLLQKRVDGLILLGE-RPNDS 128 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHHcCCEE------EE-ECCCCCHHHHHHHHHHHHHcCCCEEEEecC-CCCHH
Confidence 33468888754 3577788999999999988221 11 111223455677788889999999999872 22233
Q ss_pred HHHHHHhcCCc
Q psy17441 193 IFKDAQYLNMT 203 (458)
Q Consensus 193 il~~a~~~g~~ 203 (458)
..+.+.+.++.
T Consensus 129 ~~~~l~~~~~P 139 (333)
T COG1609 129 LLELLAAAGIP 139 (333)
T ss_pred HHHHHHhcCCC
Confidence 44444555543
No 384
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=32.27 E-value=1.1e+02 Score=28.47 Aligned_cols=44 Identities=20% Similarity=0.327 Sum_probs=30.2
Q ss_pred HHHHHHHHHhh-cCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEee
Q psy17441 31 LTALSVCKFLI-SERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGI 77 (458)
Q Consensus 31 ~~~~~~~~~l~-~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~ 77 (458)
+.+...++.|. +.|+.+++= .|.++.+.+...+-+..++|+|+.
T Consensus 47 ~~~~~~~~~L~~~~g~d~ivI---aCNTA~a~~~~~l~~~~~iPii~i 91 (251)
T TIGR00067 47 EYVLELLTFLKERHNIKLLVV---ACNTASALALEDLQRNFDFPVVGV 91 (251)
T ss_pred HHHHHHHHHHHHhCCCCEEEE---eCchHHHHHHHHHHHHCCCCEEee
Confidence 44556677887 788987775 344223355777888889999984
No 385
>PF10568 Tom37: Outer mitochondrial membrane transport complex protein; InterPro: IPR019564 Tom37 is one of the outer membrane proteins that make up the TOM complex for guiding cytosolic mitochondrial beta-barrel proteins from the cytosol across the outer mitochondrial membrane into the intramembrane space. In conjunction with Tom70, it guides peptides without an mitochondrial targeting sequence (MTS) into Tom40, the protein that forms the passage through the outer membrane []. It has homology with metaxin, also part of the outer mitochondrial membrane beta-barrel protein transport complex []. This entry represents outer mitochondrial membrane transport complex proteins Tom37 and metaxin.; GO: 0006626 protein targeting to mitochondrion, 0005741 mitochondrial outer membrane
Probab=32.11 E-value=1.2e+02 Score=22.04 Aligned_cols=54 Identities=17% Similarity=0.042 Sum_probs=34.4
Q ss_pred CchHHHHHhhcccCCc---EEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHH
Q psy17441 58 LSPAAVSYTSGFYHIP---VIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELL 111 (458)
Q Consensus 58 ~~~~~~~~i~~~~~iP---~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll 111 (458)
..|+++...++..+.| .--..+.++.++..+..|.+......-......|++.+
T Consensus 15 ~ecLa~~~yl~~~~~~~~~~~vv~s~n~~~Sptg~LP~L~~~~~~~vsg~~~Iv~yL 71 (72)
T PF10568_consen 15 PECLAVIAYLKFAGAPEQQFKVVPSNNPWLSPTGELPALIDSGGTWVSGFRNIVEYL 71 (72)
T ss_pred HHHHHHHHHHHhCCCCCceEEEEEcCCCCcCCCCCCCEEEECCCcEEECHHHHHHhh
Confidence 3889999999999999 33334445678877777887652333333334444443
No 386
>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=31.84 E-value=2.6e+02 Score=22.07 Aligned_cols=15 Identities=13% Similarity=0.073 Sum_probs=7.3
Q ss_pred cHHHHHHHHHhccCe
Q psy17441 165 TFKDQLYEMKNAQAR 179 (458)
Q Consensus 165 d~~~~l~~ik~~~~~ 179 (458)
...+.++.+|+..++
T Consensus 67 ~~~~l~~~~k~~~p~ 81 (121)
T PF02310_consen 67 EAKRLARAIKERNPN 81 (121)
T ss_dssp HHHHHHHHHHTTCTT
T ss_pred HHHHHHHHHHhcCCC
Confidence 344444555554444
No 387
>TIGR03702 lip_kinase_YegS lipid kinase YegS. Members of this protein family are designated YegS, an apparent lipid kinase family in the Proteobacteria. Bakali, et al. report phosphatidylglycerol kinase activity for the member from Escherichia coli, but refrain from calling that activity synonymous with its biological role. Note that a broader, subfamily-type model (TIGR00147), includes this family but also multiple paralogs in some species and varied functions.
Probab=31.50 E-value=3.1e+02 Score=25.97 Aligned_cols=73 Identities=4% Similarity=-0.063 Sum_probs=41.6
Q ss_pred EEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHH
Q psy17441 119 VIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQ 198 (458)
Q Consensus 119 v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~ 198 (458)
+.+|+....-+......+.+.+++.|+ .+. ........+.....+++.+.+.++|++.+-......++..+.
T Consensus 2 ~~~I~N~~~~~~~~~~~~~~~l~~~g~------~~~--v~~t~~~~~a~~~a~~~~~~~~d~vv~~GGDGTi~ev~ngl~ 73 (293)
T TIGR03702 2 ALLILNGKQADNEDVREAVGDLRDEGI------QLH--VRVTWEKGDAQRYVAEALALGVSTVIAGGGDGTLREVATALA 73 (293)
T ss_pred EEEEEeCCccchhHHHHHHHHHHHCCC------eEE--EEEecCCCCHHHHHHHHHHcCCCEEEEEcCChHHHHHHHHHH
Confidence 445554332222345566667877762 211 112223345666677776667788888777777777777665
Q ss_pred h
Q psy17441 199 Y 199 (458)
Q Consensus 199 ~ 199 (458)
+
T Consensus 74 ~ 74 (293)
T TIGR03702 74 Q 74 (293)
T ss_pred h
Confidence 4
No 388
>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=31.18 E-value=4.4e+02 Score=24.64 Aligned_cols=89 Identities=13% Similarity=0.069 Sum_probs=53.3
Q ss_pred HHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEE
Q psy17441 103 QADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYL 182 (458)
Q Consensus 103 ~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~vii 182 (458)
....++......|-.-++++++.. |..+..+.++..-+..++ .+-....+- | .-++.+.+..++|.|+
T Consensus 69 d~~~~a~~y~~~GA~aiSVlTe~~-~F~Gs~~dL~~v~~~~~~------PvL~KDFIi----d-~~QI~eA~~~GADaVL 136 (254)
T PF00218_consen 69 DPAEIAKAYEEAGAAAISVLTEPK-FFGGSLEDLRAVRKAVDL------PVLRKDFII----D-PYQIYEARAAGADAVL 136 (254)
T ss_dssp SHHHHHHHHHHTT-SEEEEE--SC-CCHHHHHHHHHHHHHSSS-------EEEES-------S-HHHHHHHHHTT-SEEE
T ss_pred CHHHHHHHHHhcCCCEEEEECCCC-CCCCCHHHHHHHHHHhCC------CcccccCCC----C-HHHHHHHHHcCCCEee
Confidence 335567777888989999998776 444556666665554332 221111110 1 2455667888999999
Q ss_pred EEeCh---hhHHHHHHHHHhcCCc
Q psy17441 183 MYASK---QDAEIIFKDAQYLNMT 203 (458)
Q Consensus 183 l~~~~---~~~~~il~~a~~~g~~ 203 (458)
+.... .....++..|+++||.
T Consensus 137 LI~~~L~~~~l~~l~~~a~~lGle 160 (254)
T PF00218_consen 137 LIAAILSDDQLEELLELAHSLGLE 160 (254)
T ss_dssp EEGGGSGHHHHHHHHHHHHHTT-E
T ss_pred hhHHhCCHHHHHHHHHHHHHcCCC
Confidence 87544 4557899999999996
No 389
>COG3439 Uncharacterized conserved protein [Function unknown]
Probab=30.89 E-value=1.5e+02 Score=24.85 Aligned_cols=72 Identities=8% Similarity=0.134 Sum_probs=53.0
Q ss_pred hhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHH--HhccCeEEEEEeChhhHHHHHHHHHhcCCcccc
Q psy17441 129 GRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEM--KNAQARVYLMYASKQDAEIIFKDAQYLNMTETG 206 (458)
Q Consensus 129 g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~i--k~~~~~viil~~~~~~~~~il~~a~~~g~~~~~ 206 (458)
-.+..+.+.+.++++| ..+.. .+ |..+.+++- +...+-.|+..|.+..+..+|.+-.+.|+.-+.
T Consensus 21 ~~E~i~~l~~~lk~~G------~~V~~--~i-----d~~e~l~~~g~~~~~p~~Il~~cnP~~g~~ll~~~p~~gl~lPc 87 (137)
T COG3439 21 FDETIERLEEKLKKNG------FKVFT--EI-----DHAEALKNAGVLDIPPYTILVFCNPKAGTPLLSKNPEFGLLLPC 87 (137)
T ss_pred HHHHHHHHHHHHHhCC------CeEEE--Ee-----cHHHHHHhcCcCCCCCeEEEEEcCCcccchhhccChhhhccCCe
Confidence 3467899999999998 22222 12 445555542 445677889999999999999999999998887
Q ss_pred eEEEeec
Q psy17441 207 YVWIVTE 213 (458)
Q Consensus 207 ~~wi~t~ 213 (458)
++.+-.+
T Consensus 88 rv~V~e~ 94 (137)
T COG3439 88 RVLVYED 94 (137)
T ss_pred EEEEEEc
Confidence 7776553
No 390
>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=30.74 E-value=3.7e+02 Score=24.40 Aligned_cols=62 Identities=10% Similarity=-0.037 Sum_probs=39.8
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK 187 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~ 187 (458)
|+++..+ +.|.....+.+.+.+++.|. .+.. .....+.......++.+.+.+++.+|+....
T Consensus 2 Ig~i~p~~~~~~~~~~~~~i~~~~~~~g~------~~~~-~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~ 65 (263)
T cd06280 2 VGLIVADIRNPFFTAVSRAVEDAAYRAGL------RVIL-CNTDEDPEKEAMYLELMEEERVTGVIFAPTR 65 (263)
T ss_pred EEEEecccccccHHHHHHHHHHHHHHCCC------EEEE-EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCC
Confidence 4556544 45777888999999998872 2221 1112233344566778888889988887643
No 391
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=30.66 E-value=2.7e+02 Score=26.52 Aligned_cols=82 Identities=6% Similarity=0.013 Sum_probs=51.6
Q ss_pred eEEEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEE-eChhhHHHH
Q psy17441 117 MKVIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMY-ASKQDAEII 193 (458)
Q Consensus 117 ~~v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~-~~~~~~~~i 193 (458)
.++++++. +++|.....+.+++..++.|.. .. ........+.......++.+...+++.|++. .+.......
T Consensus 34 ~~i~~~~~~~~~~f~~~~~~g~~~~a~~~g~~----~~-~~~~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~d~~~~~~~ 108 (322)
T COG1879 34 KTIGVVVPTLGNPFFQAVRKGAEAAAKKLGVV----VA-VVIADAQNDVAKQIAQIEDLIAQGVDAIIINPVDPDALTPA 108 (322)
T ss_pred ceEEEEeccCCChHHHHHHHHHHHHHHHcCCc----EE-EEecccccChHHHHHHHHHHHHcCCCEEEEcCCChhhhHHH
Confidence 56777764 3568888888899999887720 11 1111111222333445555566789988876 455567888
Q ss_pred HHHHHhcCCc
Q psy17441 194 FKDAQYLNMT 203 (458)
Q Consensus 194 l~~a~~~g~~ 203 (458)
+++|.+.|..
T Consensus 109 v~~a~~aGIp 118 (322)
T COG1879 109 VKKAKAAGIP 118 (322)
T ss_pred HHHHHHCCCc
Confidence 9999999975
No 392
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=30.58 E-value=3.6e+02 Score=24.00 Aligned_cols=17 Identities=6% Similarity=-0.046 Sum_probs=10.1
Q ss_pred HHHhhcCCeEEEEEeCC
Q psy17441 37 CKFLISERVYAVIVSHP 53 (458)
Q Consensus 37 ~~~l~~~~V~aiIG~~~ 53 (458)
++.+.+.+-+-++|.|.
T Consensus 35 ~~~l~~~~rI~~~G~Gg 51 (196)
T PRK10886 35 VQSLLNGNKILCCGNGT 51 (196)
T ss_pred HHHHHcCCEEEEEECcH
Confidence 33344567788888433
No 393
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=30.56 E-value=57 Score=25.94 Aligned_cols=32 Identities=16% Similarity=0.172 Sum_probs=26.2
Q ss_pred eEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeec
Q psy17441 45 VYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISS 79 (458)
Q Consensus 45 V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a 79 (458)
|++|.| +++|+ =+..+..+++.+++|+|+...
T Consensus 1 vI~I~G--~~gsG-KST~a~~La~~~~~~~i~~d~ 32 (121)
T PF13207_consen 1 VIIISG--PPGSG-KSTLAKELAERLGFPVISMDD 32 (121)
T ss_dssp EEEEEE--STTSS-HHHHHHHHHHHHTCEEEEEHH
T ss_pred CEEEEC--CCCCC-HHHHHHHHHHHHCCeEEEecc
Confidence 568888 88887 667788889989999997665
No 394
>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=30.45 E-value=2.3e+02 Score=22.37 Aligned_cols=74 Identities=8% Similarity=0.025 Sum_probs=44.0
Q ss_pred EEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEe-Chh---hHHHHH
Q psy17441 119 VIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYA-SKQ---DAEIIF 194 (458)
Q Consensus 119 v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~-~~~---~~~~il 194 (458)
+.+.....++-.-....+...++++| ..+.. ++. ..+.....+.+++.++|+|.+.+ ... ....+.
T Consensus 3 v~~~~~~~~~~~lGl~~la~~l~~~G------~~v~~---~d~-~~~~~~l~~~~~~~~pd~V~iS~~~~~~~~~~~~l~ 72 (121)
T PF02310_consen 3 VVLACVPGEVHPLGLLYLAAYLRKAG------HEVDI---LDA-NVPPEELVEALRAERPDVVGISVSMTPNLPEAKRLA 72 (121)
T ss_dssp EEEEEBTTSSTSHHHHHHHHHHHHTT------BEEEE---EES-SB-HHHHHHHHHHTTCSEEEEEESSSTHHHHHHHHH
T ss_pred EEEEeeCCcchhHHHHHHHHHHHHCC------CeEEE---ECC-CCCHHHHHHHHhcCCCcEEEEEccCcCcHHHHHHHH
Confidence 44444444444455788888888888 22222 222 12336777788889999999987 443 455556
Q ss_pred HHHHhcCC
Q psy17441 195 KDAQYLNM 202 (458)
Q Consensus 195 ~~a~~~g~ 202 (458)
+.+++.+.
T Consensus 73 ~~~k~~~p 80 (121)
T PF02310_consen 73 RAIKERNP 80 (121)
T ss_dssp HHHHTTCT
T ss_pred HHHHhcCC
Confidence 55555543
No 395
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=30.23 E-value=62 Score=33.42 Aligned_cols=58 Identities=12% Similarity=0.204 Sum_probs=37.1
Q ss_pred eccCCCCCCChhhhhhcCCCCceEEEEeCCChHHHHHhhchh-hHHHHHHHHHcCCCCHHHHHHHhh
Q psy17441 392 LERPKTKLTGINDARLRNTMENLTCATVKGSAVDMYFRRQVE-LSNMYRTMEANNYDTAEDAIADVK 457 (458)
Q Consensus 392 ~~~~~~~i~~~~dL~~~~~~~~~~~g~~~~s~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~gi~~v~ 457 (458)
+.+-...+++++||. +.++|+..||+.++.++.-.. +..+ .+....+.+.++++++|.
T Consensus 134 ~r~~~~~i~~l~dL~------Gk~I~V~~gS~~~~~L~~l~~~~p~i--~~~~~~~~s~~e~l~aL~ 192 (482)
T PRK10859 134 YRKGQPRPRSLGDLK------GGTLTVAAGSSHVETLQELKKKYPEL--SWEESDDKDSEELLEQVA 192 (482)
T ss_pred EeCCCCCCCCHHHhC------CCeEEEECCCcHHHHHHHHHHhCCCc--eEEecCCCCHHHHHHHHH
Confidence 333346789999997 789999999999888765210 1000 001113467888888775
No 396
>TIGR03884 sel_bind_Methan selenium-binding protein. This model describes a homopentameric selenium-binding protein with a suggested role in selenium transport and delivery to selenophosphate synthase, the SelD protein. This protein family is closely related to pfam01906, but is shorter because of several deleted regions. It is restricted to the archaeal genus Methanococcus.
Probab=30.21 E-value=1.7e+02 Score=21.43 Aligned_cols=37 Identities=8% Similarity=-0.074 Sum_probs=22.5
Q ss_pred cceEEEEe--eeeeCCCHHHHHHHHHHHhhcCCeEEEEE
Q psy17441 14 KGVTFSAT--GIQMDPNPILTALSVCKFLISERVYAVIV 50 (458)
Q Consensus 14 ~~~~l~~~--~~~~~~~~~~~~~~~~~~l~~~~V~aiIG 50 (458)
||++|.|. ......|+-++.....++-.+.|..||||
T Consensus 10 ~G~ei~yl~iv~~~~~d~d~Al~eM~e~A~~lGAnAVVG 48 (74)
T TIGR03884 10 PGLQLYYLGIVSTESDNVDEIVENLREKVKAKGGMGLIA 48 (74)
T ss_pred CCeEEEEEEEEEEecCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 89999666 11112255455555555444568899999
No 397
>KOG1418|consensus
Probab=30.16 E-value=11 Score=37.83 Aligned_cols=48 Identities=25% Similarity=0.438 Sum_probs=40.8
Q ss_pred cccchhHHHHHHHhhccCCCCCCCCchhhH--------HHHHHHHHHHHHHHhhcc
Q psy17441 336 LNLSSAIWFAWGVLLNSGIGEGTPRSFSAR--------VLGMVWAGFAMIIVASYT 383 (458)
Q Consensus 336 ~~~~~~~w~~~~~l~~~g~~~~~p~s~~~R--------i~~~~w~~~~~i~~~~yt 383 (458)
.++.++++|++.++++.|++|..|++..++ .....|++.++..++..-
T Consensus 241 w~f~~~~Yf~fisltTIG~GD~vp~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 296 (433)
T KOG1418|consen 241 WSFIEAFYFSFISLTTIGFGDIVPRTLLGRFRREELVDPLASVWILSGLALLALVL 296 (433)
T ss_pred eeeEeeeeEEEEEeeeecCCccccCCCcceeeccccccchhHHHHHhhhhHHHHHh
Confidence 689999999999999999999999999877 578888888866655443
No 398
>TIGR00147 lipid kinase, YegS/Rv2252/BmrU family. The E. coli member of this family, YegS has been purified and shown to have phosphatidylglycerol kinase activity. The member from M. tuberculosis, Rv2252, has diacylglycerol kinase activity. BmrU from B. subtilis is in an operon with multidrug efflux transporter Bmr, but is uncharacterized.
Probab=30.12 E-value=3.3e+02 Score=25.68 Aligned_cols=75 Identities=4% Similarity=-0.060 Sum_probs=44.0
Q ss_pred eEEEEEEecCc---chhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHH
Q psy17441 117 MKVIFIHSSDT---DGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEII 193 (458)
Q Consensus 117 ~~v~ii~~~d~---~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~i 193 (458)
+++.+|+.-.. .+......+.+.+++.|+ .+..... ....+....+++..+.+++.+++.+-..+...+
T Consensus 2 ~~~~ii~Np~sg~~~~~~~~~~i~~~l~~~~~------~~~~~~t--~~~~~~~~~~~~~~~~~~d~ivv~GGDGTl~~v 73 (293)
T TIGR00147 2 AEAPAILNPTAGKSNDNKPLREVIMLLREEGM------EIHVRVT--WEKGDAARYVEEARKFGVDTVIAGGGDGTINEV 73 (293)
T ss_pred ceEEEEECCCccchhhHHHHHHHHHHHHHCCC------EEEEEEe--cCcccHHHHHHHHHhcCCCEEEEECCCChHHHH
Confidence 57778775532 223456678888888773 2221111 122244444555555668888888777777777
Q ss_pred HHHHHh
Q psy17441 194 FKDAQY 199 (458)
Q Consensus 194 l~~a~~ 199 (458)
++...+
T Consensus 74 ~~~l~~ 79 (293)
T TIGR00147 74 VNALIQ 79 (293)
T ss_pred HHHHhc
Confidence 777654
No 399
>TIGR00646 MG010 DNA primase-related protein. The DNA primase DnaG of E. coli and its apparent orthologs in other eubacterial species are approximately 600 residues in length. Within this set, a conspicuous outlier in percent identity, as seen in a UPGMA difference tree, is the branch containing the Mycoplasmas. This lineage is also unique in containing the small, DNA primase-related protein modelled by this alignment, which is homologous to the central third of DNA primase. Several small regions of sequence similarity specifically to Mycoplasma sequences rather than to all DnaG homologs suggests that the divergence of this protein from DnaG post-dated the separation of bacterial lineages. The function of this DNA primase-related protein is unknown.
Probab=30.05 E-value=2.6e+02 Score=25.46 Aligned_cols=58 Identities=14% Similarity=0.226 Sum_probs=40.0
Q ss_pred HHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHH
Q psy17441 108 VELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYE 172 (458)
Q Consensus 108 ~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ 172 (458)
+.+++++.-++|.+.+++|.-|+.......+.+.+.|. .+ .+...+....|+.+.+.+
T Consensus 146 ~~lLkr~~~~~Iil~~D~D~AG~~Aa~r~~~~L~~~G~------~v-~vv~lP~~~KDwNEllk~ 203 (218)
T TIGR00646 146 MKFFKQKKIEKIFICFDNDFAGKNAAANLEEILKKAGF------IT-KVIEIKAAAKDWNDLFLL 203 (218)
T ss_pred HHHHhccCCCEEEEEeCCCHHHHHHHHHHHHHHHHCCC------eE-EEEeCCCcCCChhHHHHH
Confidence 45666655578999898898899998888888888772 21 123345455677666643
No 400
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=29.88 E-value=5.4e+02 Score=25.22 Aligned_cols=169 Identities=16% Similarity=0.131 Sum_probs=88.9
Q ss_pred HHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCC-ccccceeecCCCchhHHHHHHHH
Q psy17441 32 TALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDK-NIHVSFLRTVPPYSHQADVWVEL 110 (458)
Q Consensus 32 ~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~-~~~p~~~r~~p~~~~~~~ai~~l 110 (458)
......+.+.+++...|+| .... ...++..++..+ |-+.+.-.+...... +-..+.||.--..-..+.+.+..
T Consensus 85 ~~~~~~~~~a~~g~~lI~~--~gf~--~~d~~~~va~~~--Pd~~F~iid~~~~~~~Nv~s~~f~~~egayL~G~~AA~~ 158 (345)
T COG1744 85 DYERALRALAEDGYDLIFG--TGFA--FSDALEKVAAEY--PDVKFVIIDGVVKKEDNVASYVFREYEGAYLAGVAAAKM 158 (345)
T ss_pred HHHHHHHHHHhcCCCEEEE--eccc--hhhHHHHHHHHC--CCCEEEEecCccCCCCceEEEEeccccHHHHHHHHHHHh
Confidence 3444556676777788888 3332 556777888777 444333333322222 33356666533322222233333
Q ss_pred HHhcCCeEEEEEEecC-cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhh
Q psy17441 111 LKHFNYMKVIFIHSSD-TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQD 189 (458)
Q Consensus 111 l~~~~w~~v~ii~~~d-~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~ 189 (458)
.+ -.+++.+..-+ +--......|..-.+..+-.+ .+.+...-.+. +...-......+.+.++|||+-.+.+..
T Consensus 159 sk---~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np~i--~v~v~~~gsf~-D~~k~k~~a~~li~~GaDVI~~~ag~~~ 232 (345)
T COG1744 159 SK---SGKVGFVGGMDIPEVNRFINGFLAGAKSVNPDI--KVKVVYVGSFS-DPAKGKEAANALIDQGADVIYPAAGGTG 232 (345)
T ss_pred hc---CCceeEEecccchhhHHHHHHHHHHHHhhCCCc--cEEEEEecCcc-ChHHHHHHHHHHHhcCCCEEEecCCCCc
Confidence 34 34455554322 234455667777776654222 12222222222 2233345777888999999998876654
Q ss_pred HHHHHHHHHhcCCcccceEEEeecccc
Q psy17441 190 AEIIFKDAQYLNMTETGYVWIVTEQAL 216 (458)
Q Consensus 190 ~~~il~~a~~~g~~~~~~~wi~t~~~~ 216 (458)
.. .+.+|++.|... +.+.+|...
T Consensus 233 ~g-v~~~A~~~~~~~---iGvdsDQ~~ 255 (345)
T COG1744 233 VG-VFQAAKELGAYA---IGVDSDQSY 255 (345)
T ss_pred ch-HHHHHHHhCCCe---EEEeccccc
Confidence 33 344788888763 555555443
No 401
>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=29.69 E-value=2.7e+02 Score=25.54 Aligned_cols=83 Identities=10% Similarity=0.002 Sum_probs=43.1
Q ss_pred EEEEEecC----cchhHHHHHHHHhhhccCC--cceeeEEEEEEEEeCC-CcccHHHHHHHHHhccCeEEEEEeChhhHH
Q psy17441 119 VIFIHSSD----TDGRALLGRFQTTSQNQED--DVEIKVQVEAVIEFEP-GLTTFKDQLYEMKNAQARVYLMYASKQDAE 191 (458)
Q Consensus 119 v~ii~~~d----~~g~~~~~~l~~~l~~~gi--~v~~~~~v~~~~~~~~-~~~d~~~~l~~ik~~~~~viil~~~~~~~~ 191 (458)
|+++...+ .+|......++..+++.+- .+ .+..+.....-.. +.....+.++++.+.++++|+.......+.
T Consensus 2 ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~-~g~~v~~~~~d~~~~~~~~~~~~~~l~~~~v~~iig~~~~~~~~ 80 (298)
T cd06268 2 IGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGI-LGRKIELVVEDTQGDPEAAAAAARELVDDGVDAVIGPLSSGVAL 80 (298)
T ss_pred eeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCCHHHHHHHHHHHHhCCceEEEcCCcchhHH
Confidence 56665443 4666666666666654210 00 1233333322111 233445666777777788776655445555
Q ss_pred HHHHHHHhcCC
Q psy17441 192 IIFKDAQYLNM 202 (458)
Q Consensus 192 ~il~~a~~~g~ 202 (458)
.+...+.+.++
T Consensus 81 ~~~~~~~~~~i 91 (298)
T cd06268 81 AAAPVAEEAGV 91 (298)
T ss_pred hhHHHHHhCCC
Confidence 56666666664
No 402
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=29.64 E-value=4.4e+02 Score=26.26 Aligned_cols=88 Identities=11% Similarity=0.084 Sum_probs=46.7
Q ss_pred CeEEEEEEecCcchh--HHHHHHHHhhh--ccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChh---
Q psy17441 116 YMKVIFIHSSDTDGR--ALLGRFQTTSQ--NQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQ--- 188 (458)
Q Consensus 116 w~~v~ii~~~d~~g~--~~~~~l~~~l~--~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~--- 188 (458)
-+++.|+|... ||. ..++.+.+.++ ..| ..+. .. +....+...++..+.+ ++.+++.++.-
T Consensus 247 ~~kv~IvY~S~-~GnTe~mA~~ia~g~~~~~~g------~~v~-~~--~~~~~~~~~i~~~~~~--~d~ii~GspT~~~~ 314 (394)
T PRK11921 247 ENQVTILYDTM-WNSTRRMAEAIAEGIKKANKD------VTVK-LY--NSAKSDKNDIITEVFK--SKAILVGSSTINRG 314 (394)
T ss_pred cCcEEEEEECC-chHHHHHHHHHHHHHhhcCCC------CeEE-EE--ECCCCCHHHHHHHHHh--CCEEEEECCCcCcc
Confidence 36788888654 443 56777777776 444 2221 11 2223344455555543 67788776652
Q ss_pred ---hHHHHHHHHHhcCCcccceEEEeeccc
Q psy17441 189 ---DAEIIFKDAQYLNMTETGYVWIVTEQA 215 (458)
Q Consensus 189 ---~~~~il~~a~~~g~~~~~~~wi~t~~~ 215 (458)
....++.....+++.++...-+.+-+|
T Consensus 315 ~~~~~~~~l~~l~~~~~~~K~~a~FGsygw 344 (394)
T PRK11921 315 ILSSTAAILEEIKGLGFKNKKAAAFGSYGW 344 (394)
T ss_pred ccHHHHHHHHHhhccCcCCCEEEEEecCCC
Confidence 245566666666655533333333333
No 403
>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=29.58 E-value=46 Score=30.25 Aligned_cols=32 Identities=22% Similarity=0.287 Sum_probs=24.3
Q ss_pred CeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeee
Q psy17441 44 RVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGIS 78 (458)
Q Consensus 44 ~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~ 78 (458)
+|.+|+| |.|++ =+..+..+++.++.|+|+..
T Consensus 2 ~v~~i~G--pT~tG-Kt~~ai~lA~~~g~pvI~~D 33 (233)
T PF01745_consen 2 KVYLIVG--PTGTG-KTALAIALAQKTGAPVISLD 33 (233)
T ss_dssp EEEEEE---STTSS-HHHHHHHHHHHH--EEEEE-
T ss_pred cEEEEEC--CCCCC-hhHHHHHHHHHhCCCEEEec
Confidence 5889999 99987 77778889999999999864
No 404
>PF13155 Toprim_2: Toprim-like
Probab=29.30 E-value=1.2e+02 Score=23.04 Aligned_cols=41 Identities=20% Similarity=0.368 Sum_probs=33.6
Q ss_pred HHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccC
Q psy17441 104 ADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQE 144 (458)
Q Consensus 104 ~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~g 144 (458)
...+.++++..+-++|.+..++|.-|+...+.+.+.++..+
T Consensus 35 ~~~~~~~l~~~~~~~i~l~~DnD~aG~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 35 EKQQIKFLKENPYKKIVLAFDNDEAGRKAAEKLQKELKEEG 75 (96)
T ss_pred HHHHHHHHHhCCCCcEEEEeCCCHHHHHHHHHHHHHHHhhC
Confidence 34677888766668888888999999999999999998754
No 405
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=29.25 E-value=1.9e+02 Score=27.02 Aligned_cols=60 Identities=15% Similarity=0.127 Sum_probs=41.0
Q ss_pred EEEEEEecCc--chh---HHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEE
Q psy17441 118 KVIFIHSSDT--DGR---ALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMY 184 (458)
Q Consensus 118 ~v~ii~~~d~--~g~---~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~ 184 (458)
++++|...|+ .|+ .....|.+.|.+.|+ .+.....+..+..++.+.++.+.+. +|+||+.
T Consensus 3 ~a~iI~vG~ElL~G~ivdtNa~~la~~L~~~G~------~v~~~~~VgD~~~~I~~~l~~a~~r-~D~vI~t 67 (255)
T COG1058 3 KAEIIAVGDELLSGRIVDTNAAFLADELTELGV------DLARITTVGDNPDRIVEALREASER-ADVVITT 67 (255)
T ss_pred eEEEEEEccceecCceecchHHHHHHHHHhcCc------eEEEEEecCCCHHHHHHHHHHHHhC-CCEEEEC
Confidence 4556655554 233 347888899999884 4455555666677788888887776 9999986
No 406
>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=29.17 E-value=3.5e+02 Score=24.50 Aligned_cols=73 Identities=7% Similarity=0.019 Sum_probs=44.7
Q ss_pred EEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
|+++.. ++.|.....+.+++.+++.|.. +... ....+.......++.+.+.+++.+|+...... .++
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~------~~~~-~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~----~~~ 70 (265)
T cd06291 2 IGLIVPTISNPFFSELARAVEKELYKKGYK------LILC-NSDNDPEKEREYLEMLRQNQVDGIIAGTHNLG----IEE 70 (265)
T ss_pred EEEEECCCCChhHHHHHHHHHHHHHHCCCe------EEEe-cCCccHHHHHHHHHHHHHcCCCEEEEecCCcC----HHH
Confidence 455553 4567888889999999988732 2211 11112333456777788889999988765433 235
Q ss_pred HHhcCC
Q psy17441 197 AQYLNM 202 (458)
Q Consensus 197 a~~~g~ 202 (458)
+.+.|.
T Consensus 71 ~~~~gi 76 (265)
T cd06291 71 YENIDL 76 (265)
T ss_pred HhcCCC
Confidence 555564
No 407
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=29.13 E-value=3.7e+02 Score=26.61 Aligned_cols=100 Identities=11% Similarity=0.027 Sum_probs=53.6
Q ss_pred chhHHHHHHHHHHhc--CCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhcc
Q psy17441 100 YSHQADVWVELLKHF--NYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQ 177 (458)
Q Consensus 100 ~~~~~~ai~~ll~~~--~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~ 177 (458)
....+..+++.+... .=++|.+...+..-|+.....+.+.+++.|..|. ....+....+...+.....+..+.+..
T Consensus 124 ~~~~~e~L~~~l~~~~~~g~~vli~~~~~~~~~~~~~~L~~~L~~~G~~V~--~~~vY~~~~~~~~~~~~~~~~~l~~~~ 201 (381)
T PRK07239 124 ASESSAEVLEYLLEEGVAGKRIAVQLHGATDEWEPLPEFLEALRAAGAEVV--PVPVYRWVPPPDPGPLDRLVDAIASRG 201 (381)
T ss_pred CCCccHHHHHHHhcCCCCCCEEEEEcCCCccccCchHHHHHHHHHCCCEEE--EeCcEEEcCCCChhHHHHHHHHHHcCC
Confidence 444567777776543 2356665443311222224678889999885541 111222111111222344555666555
Q ss_pred CeEEEEEeChhhHHHHHHHHHhcCC
Q psy17441 178 ARVYLMYASKQDAEIIFKDAQYLNM 202 (458)
Q Consensus 178 ~~viil~~~~~~~~~il~~a~~~g~ 202 (458)
.++|++ .++..+..|+..+.+.++
T Consensus 202 ~d~v~F-tS~stv~~f~~~l~~~~~ 225 (381)
T PRK07239 202 LDAVTF-TSAPAVAALLERAREMGL 225 (381)
T ss_pred ccEEEE-cCHHHHHHHHHHHHHcCC
Confidence 665554 567778888888776654
No 408
>TIGR02467 CbiE precorrin-6y C5,15-methyltransferase (decarboxylating), CbiE subunit. This model recognizes the CbiE methylase which is responsible, in part (along with CbiT), for methylating precorrin-6y (or cobalt-precorrin-6y) at both the 5 and 15 positions as well as the concomitant decarbozylation at C-12. In many organisms, this protein is fused to the CbiT subunit. The fused protein, when found in organisms catalyzing the oxidative version of the cobalamin biosynthesis pathway, is called CobL.
Probab=29.08 E-value=4e+02 Score=23.59 Aligned_cols=44 Identities=9% Similarity=0.091 Sum_probs=26.1
Q ss_pred HHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecc
Q psy17441 170 LYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 170 l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~ 214 (458)
+..++. ...++++.........+.+...+.|+.....+|+.-+.
T Consensus 133 ~~~l~~-~~~~vvl~~~~~~~~~i~~~L~~~g~~~~~~v~v~~~l 176 (204)
T TIGR02467 133 LALLRG-HRKVAVLTDPRNGPAEIARELIELGIGGSYELTVGENL 176 (204)
T ss_pred HHHHhc-CCcEEEEeCCCCCHHHHHHHHHHCCCCCCeEEEEEccc
Confidence 344443 44566665544566777777777786543257776554
No 409
>KOG0025|consensus
Probab=28.90 E-value=2.5e+02 Score=26.86 Aligned_cols=95 Identities=9% Similarity=0.069 Sum_probs=57.1
Q ss_pred cceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHH
Q psy17441 91 VSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQL 170 (458)
Q Consensus 91 p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l 170 (458)
.++.+.. ..+.-+++.+++.+++|.+.+.++-+.++ .+.+.+.|+..| .. ..+.. .+-..+..
T Consensus 162 D~vIQNg-anS~VG~~ViQlaka~GiktinvVRdR~~-----ieel~~~Lk~lG------A~----~ViTe-eel~~~~~ 224 (354)
T KOG0025|consen 162 DSVIQNG-ANSGVGQAVIQLAKALGIKTINVVRDRPN-----IEELKKQLKSLG------AT----EVITE-EELRDRKM 224 (354)
T ss_pred CeeeecC-cccHHHHHHHHHHHHhCcceEEEeecCcc-----HHHHHHHHHHcC------Cc----eEecH-HHhcchhh
Confidence 3555443 33456789999999999999999988775 588888888876 21 11211 11111112
Q ss_pred HHH--HhccCeEEEEEeChhhHHHHHHHHHhcCC
Q psy17441 171 YEM--KNAQARVYLMYASKQDAEIIFKDAQYLNM 202 (458)
Q Consensus 171 ~~i--k~~~~~viil~~~~~~~~~il~~a~~~g~ 202 (458)
.+. ...++|.-+=+..+..+..+.+...+-|.
T Consensus 225 ~k~~~~~~~prLalNcVGGksa~~iar~L~~Ggt 258 (354)
T KOG0025|consen 225 KKFKGDNPRPRLALNCVGGKSATEIARYLERGGT 258 (354)
T ss_pred hhhhccCCCceEEEeccCchhHHHHHHHHhcCce
Confidence 222 23345555555556677777777765554
No 410
>COG2241 CobL Precorrin-6B methylase 1 [Coenzyme metabolism]
Probab=28.74 E-value=4.4e+02 Score=23.83 Aligned_cols=109 Identities=12% Similarity=0.023 Sum_probs=59.0
Q ss_pred chhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHH------------------HHHhhhccCCcceeeEEEEEEEEeCC
Q psy17441 100 YSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGR------------------FQTTSQNQEDDVEIKVQVEAVIEFEP 161 (458)
Q Consensus 100 ~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~------------------l~~~l~~~gi~v~~~~~v~~~~~~~~ 161 (458)
.......+..+++...=++++++.+.|+.-.+.... ++-++.+.|.+++. .. .++.
T Consensus 52 ~~~~~~~l~~i~~~~~g~~v~VLasGDP~f~G~g~~l~~~~~~~~v~iIPgiSS~q~a~ARlg~~~~~-~~-----~isl 125 (210)
T COG2241 52 YPFDAESLEEILAERKGRDVVVLASGDPLFSGVGRLLRRKFSCEEVEIIPGISSVQLAAARLGWPLQD-TE-----VISL 125 (210)
T ss_pred cccchHHHHHHHHHhCCCCeEEEecCCcchhhhHHHHHHhcCccceEEecChhHHHHHHHHhCCChHH-eE-----EEEe
Confidence 333455666777766568999999999743333222 33333333322211 11 1111
Q ss_pred CcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccc
Q psy17441 162 GLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQAL 216 (458)
Q Consensus 162 ~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~ 216 (458)
. ..-.+.++.+...+.+++++.-+...-..+.+...+.|+. +..+|+.-....
T Consensus 126 H-gr~~~~l~~~~~~~~~~vil~~~~~~P~~IA~~L~~~G~~-~~~~~VlE~L~~ 178 (210)
T COG2241 126 H-GRPVELLRPLLENGRRLVILTPDDFGPAEIAKLLTENGIG-DSRVTVLENLGY 178 (210)
T ss_pred c-CCCHHHHHHHHhCCceEEEeCCCCCCHHHHHHHHHhCCCC-CceEEEEcccCC
Confidence 1 1122344444455667777766555556677777888876 346777655543
No 411
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=28.74 E-value=3.2e+02 Score=27.78 Aligned_cols=87 Identities=6% Similarity=0.061 Sum_probs=48.2
Q ss_pred HHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCccc-HHHHHHHHHhccCeEEE
Q psy17441 104 ADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTT-FKDQLYEMKNAQARVYL 182 (458)
Q Consensus 104 ~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d-~~~~l~~ik~~~~~vii 182 (458)
+..++..++.-| ++|+++..|. |.....+.++...+..++ .+.. .....+..+ ..+.++++++.+.|+|+
T Consensus 117 aaKLA~~l~~~G-~kV~lV~~D~-~R~aA~eQLk~~a~~~~v------p~~~-~~~~~dp~~i~~~~l~~~~~~~~DvVi 187 (429)
T TIGR01425 117 CTKLAYYYQRKG-FKPCLVCADT-FRAGAFDQLKQNATKARI------PFYG-SYTESDPVKIASEGVEKFKKENFDIII 187 (429)
T ss_pred HHHHHHHHHHCC-CCEEEEcCcc-cchhHHHHHHHHhhccCC------eEEe-ecCCCCHHHHHHHHHHHHHhCCCCEEE
Confidence 334555555556 4888887654 555666777666666542 1111 111111111 23466677777899999
Q ss_pred EEeChhhH--HHHHHHHHh
Q psy17441 183 MYASKQDA--EIIFKDAQY 199 (458)
Q Consensus 183 l~~~~~~~--~~il~~a~~ 199 (458)
+++.+... ..++.+..+
T Consensus 188 IDTaGr~~~d~~lm~El~~ 206 (429)
T TIGR01425 188 VDTSGRHKQEDSLFEEMLQ 206 (429)
T ss_pred EECCCCCcchHHHHHHHHH
Confidence 99887432 245555544
No 412
>TIGR01357 aroB 3-dehydroquinate synthase. This model represents 3-dehydroquinate synthase, the enzyme catalyzing the second of seven steps in the shikimate pathway of chorismate biosynthesis. Chorismate is the last common intermediate in the biosynthesis of all three aromatic amino acids.
Probab=28.65 E-value=5.1e+02 Score=25.19 Aligned_cols=94 Identities=13% Similarity=0.114 Sum_probs=54.6
Q ss_pred HHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC-----CCcccHHHHHHHHHhccC---
Q psy17441 107 WVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE-----PGLTTFKDQLYEMKNAQA--- 178 (458)
Q Consensus 107 i~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~-----~~~~d~~~~l~~ik~~~~--- 178 (458)
+.+.++. .+++.++++...+ ....+.+.+.+++.|+.+ .. ..++ +..+.+.+.++.+++.++
T Consensus 13 l~~~l~~--~~~~livtd~~~~-~~~~~~v~~~L~~~g~~~------~~-~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~ 82 (344)
T TIGR01357 13 LVEELAE--PSKLVIITDETVA-DLYADKLLEALQALGYNV------LK-LTVPDGEESKSLETVQRLYDQLLEAGLDRS 82 (344)
T ss_pred HHHHhhc--CCeEEEEECCchH-HHHHHHHHHHHHhcCCce------eE-EEeCCCCCCCCHHHHHHHHHHHHHcCCCCC
Confidence 3455555 3889899865544 346788888898877432 11 1122 234456777777877654
Q ss_pred eEEEEEeCh--hhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 179 RVYLMYASK--QDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 179 ~viil~~~~--~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
+.||..+.+ -++..++......|+. ++-|-|.
T Consensus 83 d~IIavGGGsv~D~aK~iA~~~~~~~p---~i~VPTT 116 (344)
T TIGR01357 83 STIIALGGGVVGDLAGFVAATYMRGIR---FIQVPTT 116 (344)
T ss_pred CEEEEEcChHHHHHHHHHHHHHccCCC---EEEecCc
Confidence 788776555 3455555544444432 4555454
No 413
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=28.40 E-value=4.5e+02 Score=23.75 Aligned_cols=87 Identities=8% Similarity=-0.023 Sum_probs=55.3
Q ss_pred eEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh----hhHHH
Q psy17441 117 MKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK----QDAEI 192 (458)
Q Consensus 117 ~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~----~~~~~ 192 (458)
.++.+-+...+...-+..-+...++.+| ..+.+ +. .+......+..+++.++++|-+.+.. .....
T Consensus 89 ~~vvl~t~~gd~HdiG~~iv~~~l~~~G------~~Vi~---LG-~~vp~e~~v~~~~~~~~~~V~lS~~~~~~~~~~~~ 158 (213)
T cd02069 89 GKIVLATVKGDVHDIGKNLVGVILSNNG------YEVID---LG-VMVPIEKILEAAKEHKADIIGLSGLLVPSLDEMVE 158 (213)
T ss_pred CeEEEEeCCCchhHHHHHHHHHHHHhCC------CEEEE---CC-CCCCHHHHHHHHHHcCCCEEEEccchhccHHHHHH
Confidence 4666666665555555677777888877 32221 21 23345677777888889988876443 45677
Q ss_pred HHHHHHhcCCcccceEEEeeccc
Q psy17441 193 IFKDAQYLNMTETGYVWIVTEQA 215 (458)
Q Consensus 193 il~~a~~~g~~~~~~~wi~t~~~ 215 (458)
++++.++.+.. -.+|+.....
T Consensus 159 ~i~~L~~~~~~--~~i~vGG~~~ 179 (213)
T cd02069 159 VAEEMNRRGIK--IPLLIGGAAT 179 (213)
T ss_pred HHHHHHhcCCC--CeEEEEChhc
Confidence 77777777763 3677766553
No 414
>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=28.35 E-value=1.8e+02 Score=23.91 Aligned_cols=46 Identities=11% Similarity=0.029 Sum_probs=25.7
Q ss_pred HHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEe
Q psy17441 133 LGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYA 185 (458)
Q Consensus 133 ~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~ 185 (458)
...+.+.+++.| ..+......+.+...+.+.+++..+. +|+|+..+
T Consensus 21 ~~~l~~~l~~~G------~~v~~~~~v~Dd~~~i~~~i~~~~~~-~DlvittG 66 (133)
T cd00758 21 GPALEALLEDLG------CEVIYAGVVPDDADSIRAALIEASRE-ADLVLTTG 66 (133)
T ss_pred HHHHHHHHHHCC------CEEEEeeecCCCHHHHHHHHHHHHhc-CCEEEECC
Confidence 455666666665 33333333444555566666666543 77777653
No 415
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=28.29 E-value=4.2e+02 Score=23.46 Aligned_cols=101 Identities=13% Similarity=0.058 Sum_probs=60.2
Q ss_pred hHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHh
Q psy17441 60 PAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTT 139 (458)
Q Consensus 60 ~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~ 139 (458)
...+..+++..+||++-..... + . ....+.+.+.++...-+.+-.+...+.+...-...+.+.
T Consensus 47 ~e~~~~~A~~lgipl~~i~~~~---~-~-------------e~~~~~l~~~l~~~~~~g~~~vv~G~i~sd~~~~~~e~~ 109 (194)
T cd01994 47 HELLELQAEAMGIPLIRIEISG---E-E-------------EDEVEDLKELLRKLKEEGVDAVVFGAILSEYQRTRVERV 109 (194)
T ss_pred HHHHHHHHHHcCCcEEEEeCCC---C-c-------------hHHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHHH
Confidence 3566788999999987554311 1 1 122244444444432112334444554455556777777
Q ss_pred hhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh
Q psy17441 140 SQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK 187 (458)
Q Consensus 140 l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~ 187 (458)
.++.| +. ...|--..+...+++++.+.+-+++|+....
T Consensus 110 ~~~~g------l~----~~~PLW~~~~~~ll~e~~~~g~~~~iv~v~~ 147 (194)
T cd01994 110 CERLG------LE----PLAPLWGRDQEELLREMIEAGFKAIIIKVAA 147 (194)
T ss_pred HHHcC------CE----EEecccCCCHHHHHHHHHHcCCeEEEEEecc
Confidence 77766 22 1234456677889999999999988876543
No 416
>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=28.28 E-value=3.4e+02 Score=24.57 Aligned_cols=61 Identities=8% Similarity=0.056 Sum_probs=37.9
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeC
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYAS 186 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~ 186 (458)
|+++..+ +.|.....+.+++++++.|. .+... ....+.......++.+.+.+++.+++...
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~~g~------~~~~~-~~~~~~~~~~~~~~~~~~~~vdgiii~~~ 64 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEAREAGY------GVLLG-DTRSDPEREQEYLDLLRRKQADGIILLDG 64 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHHcCC------eEEEe-cCCCChHHHHHHHHHHHHcCCCEEEEecC
Confidence 4555544 56888889999999998872 22111 11112223445667778888998888543
No 417
>PF13292 DXP_synthase_N: 1-deoxy-D-xylulose-5-phosphate synthase; PDB: 2O1X_C 2O1S_B.
Probab=28.02 E-value=2.1e+02 Score=26.88 Aligned_cols=77 Identities=27% Similarity=0.264 Sum_probs=21.1
Q ss_pred HHHHHhh--cCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeee-----cCCCCCCCCccccceeecCCCchhHHHHH
Q psy17441 35 SVCKFLI--SERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGIS-----SRDSAFSDKNIHVSFLRTVPPYSHQADVW 107 (458)
Q Consensus 35 ~~~~~l~--~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~-----a~~~~ls~~~~~p~~~r~~p~~~~~~~ai 107 (458)
+.++++. +.+|+||||-|..+.+ .+.-+..-+...+-++|-.- +.+|..-.-..|=.=+|+.|.....-+.+
T Consensus 124 a~ar~l~~~~~~vVaVIGDGalt~G-ma~EALN~~g~~~~~liVILNDN~mSIs~nvGals~~L~~l~~~~~y~~~k~~~ 202 (270)
T PF13292_consen 124 AVARDLKGEDRKVVAVIGDGALTGG-MAFEALNNAGHLKSNLIVILNDNEMSISPNVGALSKYLSKLRSSPTYNKLKEDV 202 (270)
T ss_dssp HHHHHHHTS---EEEEEETTGGGSH-HHHHHHHHHHHHT-SEEEEEEE-SBSSSB--SSHCCC-----------------
T ss_pred HHHHHhcCCCCcEEEEECCcchhHH-HHHHHHHHHHhcCCCEEEEEeCCCcccCCCcchHHHHHHhccchhHHHHHHHHH
Confidence 4455564 3679999994344333 33333333344444444321 22222111111112255556655555555
Q ss_pred HHHHH
Q psy17441 108 VELLK 112 (458)
Q Consensus 108 ~~ll~ 112 (458)
-++++
T Consensus 203 ~~~l~ 207 (270)
T PF13292_consen 203 KSLLK 207 (270)
T ss_dssp -----
T ss_pred HHHHH
Confidence 55555
No 418
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=27.93 E-value=5e+02 Score=24.14 Aligned_cols=41 Identities=22% Similarity=0.328 Sum_probs=32.8
Q ss_pred HHhhcCCeEEEEEe-CCCCCCCchHHHHHhhcccCCcEEeeec
Q psy17441 38 KFLISERVYAVIVS-HPLTGDLSPAAVSYTSGFYHIPVIGISS 79 (458)
Q Consensus 38 ~~l~~~~V~aiIG~-~~~~s~~~~~~~~~i~~~~~iP~Is~~a 79 (458)
+.+.++++.+||=. ||.... .+..+...|...+||.+-+-=
T Consensus 59 ~~l~~~~i~~VIDATHPfA~~-is~~a~~ac~~~~ipyiR~eR 100 (248)
T PRK08057 59 AYLREEGIDLVIDATHPYAAQ-ISANAAAACRALGIPYLRLER 100 (248)
T ss_pred HHHHHCCCCEEEECCCccHHH-HHHHHHHHHHHhCCcEEEEeC
Confidence 33447899999975 777764 788899999999999998754
No 419
>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional
Probab=27.77 E-value=7.3e+02 Score=26.06 Aligned_cols=96 Identities=15% Similarity=0.092 Sum_probs=57.5
Q ss_pred HHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCC-----cccHHHHHHHHHhc---c
Q psy17441 106 VWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPG-----LTTFKDQLYEMKNA---Q 177 (458)
Q Consensus 106 ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~-----~~d~~~~l~~ik~~---~ 177 (458)
.+.++++.++ .++.+|.++... ...+.+.+.+++.|+.+ . ...++.. .+.....++.+.+. +
T Consensus 200 ~l~~~l~~~g-~k~~iV~d~~v~--~~~~~l~~~L~~~g~~v------~-~~v~p~~E~~ksl~~v~~~~~~l~~~~~~r 269 (542)
T PRK14021 200 HLPQVLGPKP-VKVALIHTQPVQ--RHSDRARTLLRQGGYEV------S-DIVIPDAEAGKTIEVANGIWQRLGNEGFTR 269 (542)
T ss_pred HHHHHHHhcC-CeEEEEECccHH--HHHHHHHHHHHhCCCce------E-EEEeCCCcccCCHHHHHHHHHHHHhcCCCC
Confidence 3455566666 567777655432 35678888888877432 1 1122222 23344555666665 5
Q ss_pred CeEEEEEeCh--hhHHHHHHHHHhcCCcccceEEEeecc
Q psy17441 178 ARVYLMYASK--QDAEIIFKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 178 ~~viil~~~~--~~~~~il~~a~~~g~~~~~~~wi~t~~ 214 (458)
.++||..+.+ -|...++......|+. ++-|-|..
T Consensus 270 ~D~IIAIGGGsv~D~AKfvA~~y~rGi~---~i~vPTTl 305 (542)
T PRK14021 270 SDAIVGLGGGAATDLAGFVAATWMRGIR---YVNCPTSL 305 (542)
T ss_pred CcEEEEEcChHHHHHHHHHHHHHHcCCC---EEEeCChH
Confidence 8888866554 5677777776777775 77777754
No 420
>PF09600 Cyd_oper_YbgE: Cyd operon protein YbgE (Cyd_oper_YbgE); InterPro: IPR011846 This entry describes a small protein of unknown function, about 100 amino acids in length, essentially always found in an operon with CydAB, subunits of the cytochrome d terminal oxidase. It appears to be an integral membrane protein. It is found so far only in the Proteobacteria [].
Probab=27.63 E-value=2.2e+02 Score=21.49 Aligned_cols=73 Identities=19% Similarity=0.193 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCccccccccchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHHHHH
Q psy17441 299 LVMVSVHVVALVLYLLDRFSPFGRFRLSNSDNTEEDALNLSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMII 378 (458)
Q Consensus 299 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~~i~ 378 (458)
..++++..+++++|--+++... .++......--+.+..++.+--|. ...||+.--|.+..-|.-..+++
T Consensus 6 SlilAl~la~~v~~~P~~fA~~----------~g~~~~~~~~ll~wavc~~~IhGv-GF~Pr~~~Wr~lFsP~~a~~il~ 74 (82)
T PF09600_consen 6 SLILALALAACVFWDPNRFAAA----------TGGFSHWLAPLLIWAVCAGWIHGV-GFRPRSWIWRLLFSPLIAWIILI 74 (82)
T ss_pred HHHHHHHHHHHHHcCHHHHHHH----------cCCCcHHHHHHHHHHHHHHHhhcc-ccchhHHHHHHHHhHHHHHHHHH
Confidence 4556777888888888876521 011111234445555566666674 57899999999988876666555
Q ss_pred Hhhc
Q psy17441 379 VASY 382 (458)
Q Consensus 379 ~~~y 382 (458)
...|
T Consensus 75 ~~l~ 78 (82)
T PF09600_consen 75 YGLI 78 (82)
T ss_pred HHHH
Confidence 5443
No 421
>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=27.58 E-value=4.7e+02 Score=24.11 Aligned_cols=66 Identities=8% Similarity=0.063 Sum_probs=41.2
Q ss_pred CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCc
Q psy17441 126 DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMT 203 (458)
Q Consensus 126 d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~ 203 (458)
++|.......+++.+++.|..+ ... .... -.+.++.+.+.+++.+++...... ...++.+++.|..
T Consensus 16 ~~~~~~~~~gi~~~a~~~g~~~------~~~---~~~~--~~~~~~~~~~~~~dgiii~~~~~~-~~~~~~~~~~~ip 81 (283)
T cd06279 16 DPVASQFLAGVAEVLDAAGVNL------LLL---PASS--EDSDSALVVSALVDGFIVYGVPRD-DPLVAALLRRGLP 81 (283)
T ss_pred CccHHHHHHHHHHHHHHCCCEE------EEe---cCcc--HHHHHHHHHhcCCCEEEEeCCCCC-hHHHHHHHHcCCC
Confidence 5577778888999999887322 111 1111 235666777888998888754322 2456777777753
No 422
>cd02008 TPP_IOR_alpha Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as indolepyruvate or phenylpyruvate, which are generated by the transamination of aromatic amino acids, to the corresponding aryl acetyl-CoA.
Probab=27.32 E-value=3.6e+02 Score=23.32 Aligned_cols=98 Identities=9% Similarity=-0.035 Sum_probs=46.9
Q ss_pred cCCeEEEEEeCCCCCCCch-HHHHHhhcccCCcEEeeecCCCCCCCCccccce-eecCCCchhHHHHHHHHHHhcCCeEE
Q psy17441 42 SERVYAVIVSHPLTGDLSP-AAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSF-LRTVPPYSHQADVWVELLKHFNYMKV 119 (458)
Q Consensus 42 ~~~V~aiIG~~~~~s~~~~-~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~-~r~~p~~~~~~~ai~~ll~~~~w~~v 119 (458)
+.+|++|+| +.+-. .. ......+.++++|++-.--.+..+.-....+.. .+....+......++++.+.|||+.+
T Consensus 69 ~~~Vv~i~G--DG~f~-~~g~~eL~ta~~~~l~i~vvV~nN~~~g~~~~~~~~~~~~~~~~~~~~~d~~~~a~a~G~~~~ 145 (178)
T cd02008 69 DKKVVAVIG--DSTFF-HSGILGLINAVYNKANITVVILDNRTTAMTGGQPHPGTGKTLTEPTTVIDIEALVRAIGVKRV 145 (178)
T ss_pred CCCEEEEec--ChHHh-hccHHHHHHHHHcCCCEEEEEECCcceeccCCCCCCCCcccccCCCCccCHHHHHHHCCCCEE
Confidence 468999999 54321 11 233444667888877554333222100000000 00000011112346778888898877
Q ss_pred EEEEecCcchhHHHHHHHHhhhccC
Q psy17441 120 IFIHSSDTDGRALLGRFQTTSQNQE 144 (458)
Q Consensus 120 ~ii~~~d~~g~~~~~~l~~~l~~~g 144 (458)
.+-..++ -....+.++++++..|
T Consensus 146 ~v~~~~~--l~~~~~al~~a~~~~g 168 (178)
T cd02008 146 VVVDPYD--LKAIREELKEALAVPG 168 (178)
T ss_pred EecCccC--HHHHHHHHHHHHhCCC
Confidence 7654333 2223356666665544
No 423
>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=27.21 E-value=82 Score=28.01 Aligned_cols=42 Identities=19% Similarity=0.379 Sum_probs=28.0
Q ss_pred hcccceeEEeeeccCCCCCCChhhhhhcCCCCceEEEEeCCChHHHHHhh
Q psy17441 381 SYTANLAAFLVLERPKTKLTGINDARLRNTMENLTCATVKGSAVDMYFRR 430 (458)
Q Consensus 381 ~yta~l~s~lt~~~~~~~i~~~~dL~~~~~~~~~~~g~~~~s~~~~~~~~ 430 (458)
.+......+++.+ .+.|+++.||+ +.++|+..+|..+.+++.
T Consensus 69 ~~~~~~~~l~~~~--~s~i~~~~DLk------GK~i~v~~~s~~~~~~~~ 110 (216)
T PF09084_consen 69 SYQSSPNALVVRK--DSGIKSPADLK------GKKIGVSRGSSSEYFLRA 110 (216)
T ss_dssp EEEECCEEEEEET--TTS-SSGGGGT------TSEEEESTTSHHHHHHHH
T ss_pred ecCCCceEEEEec--cCCCCCHHHhC------CCEEEEecCcchhHHHHH
Confidence 3444455555544 34599999997 789999997776666654
No 424
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=27.18 E-value=4.5e+02 Score=23.35 Aligned_cols=86 Identities=8% Similarity=-0.019 Sum_probs=39.7
Q ss_pred EEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh----hhHHHH
Q psy17441 118 KVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK----QDAEII 193 (458)
Q Consensus 118 ~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~----~~~~~i 193 (458)
++.+.....+...-+..-+...++.+| ..+. .+. .+....+.++.+++.++++|-+.+.. .....+
T Consensus 84 ~vl~~~~~gd~H~lG~~~v~~~l~~~G------~~vi---~lG-~~~p~~~l~~~~~~~~~d~v~lS~~~~~~~~~~~~~ 153 (201)
T cd02070 84 KVVIGTVEGDIHDIGKNLVATMLEANG------FEVI---DLG-RDVPPEEFVEAVKEHKPDILGLSALMTTTMGGMKEV 153 (201)
T ss_pred eEEEEecCCccchHHHHHHHHHHHHCC------CEEE---ECC-CCCCHHHHHHHHHHcCCCEEEEeccccccHHHHHHH
Confidence 444444443333333455555666655 2211 111 12234455555666666666655422 345555
Q ss_pred HHHHHhcCCcccceEEEeec
Q psy17441 194 FKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 194 l~~a~~~g~~~~~~~wi~t~ 213 (458)
+++.++.+...+-.+++...
T Consensus 154 i~~lr~~~~~~~~~i~vGG~ 173 (201)
T cd02070 154 IEALKEAGLRDKVKVMVGGA 173 (201)
T ss_pred HHHHHHCCCCcCCeEEEECC
Confidence 56666655422223444443
No 425
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=27.13 E-value=3.1e+02 Score=26.84 Aligned_cols=82 Identities=13% Similarity=0.124 Sum_probs=51.9
Q ss_pred HHHHHHHHhcCC-eEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEE
Q psy17441 105 DVWVELLKHFNY-MKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLM 183 (458)
Q Consensus 105 ~ai~~ll~~~~w-~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil 183 (458)
..+.++++.++. +++.+|++...+.. ..+.+++.+++.| .+ .+ . ..-.+..+.+.+.++++++.++++||-
T Consensus 22 ~~l~~~l~~~~~~~~~livtd~~~~~~-~~~~l~~~l~~~~-~~----~~-~-~~~~~t~~~v~~~~~~~~~~~~d~IIa 93 (350)
T PRK00843 22 DDIGDVCSDLKLTGRALIVTGPTTKKI-AGDRVEENLEDAG-DV----EV-V-IVDEATMEEVEKVEEKAKDVNAGFLIG 93 (350)
T ss_pred HHHHHHHHHhCCCCeEEEEECCcHHHH-HHHHHHHHHHhcC-Ce----eE-E-eCCCCCHHHHHHHHHHhhccCCCEEEE
Confidence 345567777776 78888887765433 4577888887665 32 11 1 111234556778888888888999887
Q ss_pred EeCh--hhHHHHH
Q psy17441 184 YASK--QDAEIIF 194 (458)
Q Consensus 184 ~~~~--~~~~~il 194 (458)
.+.+ -|...++
T Consensus 94 iGGGsv~D~ak~v 106 (350)
T PRK00843 94 VGGGKVIDVAKLA 106 (350)
T ss_pred eCCchHHHHHHHH
Confidence 7654 3444444
No 426
>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=27.11 E-value=1.3e+02 Score=30.12 Aligned_cols=78 Identities=13% Similarity=0.115 Sum_probs=47.9
Q ss_pred cCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh--hhHH
Q psy17441 114 FNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK--QDAE 191 (458)
Q Consensus 114 ~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~--~~~~ 191 (458)
.+.+++.++++.........+.+.+.+++.|+.+ .+-....-.+..+.+.+.+..+++.++|+||-.+-+ -|+.
T Consensus 19 ~~~~k~liVtd~~~~~~g~~~~v~~~L~~~gi~~----~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD~A 94 (398)
T cd08178 19 KGKKRAFIVTDRFMVKLGYVDKVIDVLKRRGVET----EVFSDVEPDPSLETVRKGLELMNSFKPDTIIALGGGSPMDAA 94 (398)
T ss_pred cCCCeEEEEcChhHHhCccHHHHHHHHHHCCCeE----EEecCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHH
Confidence 4568988888544333346788899999887432 110011112344567788888899999999976554 3444
Q ss_pred HHHH
Q psy17441 192 IIFK 195 (458)
Q Consensus 192 ~il~ 195 (458)
.++.
T Consensus 95 K~iA 98 (398)
T cd08178 95 KIMW 98 (398)
T ss_pred HHHH
Confidence 4443
No 427
>PF05706 CDKN3: Cyclin-dependent kinase inhibitor 3 (CDKN3); InterPro: IPR022778 This entry represents a domain found in cyclin-dependent kinase inhibitor 3 or kinase associated phosphatase proteins from several mammalian species. The cyclin-dependent kinase (Cdk)-associated protein phosphatase (KAP) is a human dual specificity protein phosphatase that dephosphorylates Cdk2 on threonine 160 in a cyclin-dependent manner [], []. This domain is also found in MAP kinase phosphatase and esterases. This entry contains both eukaryotic and bacterial proteins.; GO: 0004721 phosphoprotein phosphatase activity, 0004725 protein tyrosine phosphatase activity; PDB: 1FQ1_A 1FPZ_F.
Probab=27.05 E-value=56 Score=28.31 Aligned_cols=82 Identities=15% Similarity=0.086 Sum_probs=40.6
Q ss_pred HHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC-CcccH---HHHHHHHHh--ccCeEEE
Q psy17441 109 ELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP-GLTTF---KDQLYEMKN--AQARVYL 182 (458)
Q Consensus 109 ~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~-~~~d~---~~~l~~ik~--~~~~vii 182 (458)
+-++.+|-+-|..+.++++.....+..+.+..++.|+.+ . ..+++. ..+++ ...+.++.+ .+-+.|+
T Consensus 65 ~~Lk~~G~~~Vvtl~~~~EL~~l~Vp~L~~~~~~~Gi~~------~-h~PI~D~~aPd~~~~~~i~~eL~~~L~~g~~V~ 137 (168)
T PF05706_consen 65 ERLKDWGAQDVVTLLTDHELARLGVPDLGEAAQARGIAW------H-HLPIPDGSAPDFAAAWQILEELAARLENGRKVL 137 (168)
T ss_dssp HHHHHTT--EEEE-S-HHHHHHTT-TTHHHHHHHTT-EE------E-E----TTS---HHHHHHHHHHHHHHHHTT--EE
T ss_pred HHHHHCCCCEEEEeCcHHHHHHcCCccHHHHHHHcCCEE------E-ecCccCCCCCCHHHHHHHHHHHHHHHHcCCEEE
Confidence 346788888888888887766656778889999988432 1 233332 22232 233333332 2345777
Q ss_pred EEeChhhHHHHHHHH
Q psy17441 183 MYASKQDAEIIFKDA 197 (458)
Q Consensus 183 l~~~~~~~~~il~~a 197 (458)
++|.+...+.=+-+|
T Consensus 138 vHC~GGlGRtGlvAA 152 (168)
T PF05706_consen 138 VHCRGGLGRTGLVAA 152 (168)
T ss_dssp EE-SSSSSHHHHHHH
T ss_pred EECCCCCCHHHHHHH
Confidence 898887655544444
No 428
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=26.97 E-value=97 Score=20.53 Aligned_cols=22 Identities=14% Similarity=0.128 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhc
Q psy17441 296 LWILVMVSVHVVALVLYLLDRF 317 (458)
Q Consensus 296 vW~~i~~~~~~~~~~~~~~~~~ 317 (458)
.|..+++.++++|+++|...+.
T Consensus 12 ~~~~v~~~~~F~gi~~w~~~~~ 33 (49)
T PF05545_consen 12 SIGTVLFFVFFIGIVIWAYRPR 33 (49)
T ss_pred HHHHHHHHHHHHHHHHHHHccc
Confidence 4666677778889999998753
No 429
>TIGR01744 XPRTase xanthine phosphoribosyltransferase. This model represent a xanthine-specific phosphoribosyltransferase of Bacillus subtilis and closely related proteins from other species, mostly from other Gram-positive bacteria. The adjacent gene is a xanthine transporter; B. subtilis can import xanthine for the purine salvage pathway or for catabolism to obtain nitrogen.
Probab=26.89 E-value=97 Score=27.52 Aligned_cols=72 Identities=11% Similarity=0.076 Sum_probs=40.4
Q ss_pred cccccccccccccceEEEEeeeee-CCCH--H-HHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEee
Q psy17441 2 FQHINFDIQYVNKGVTFSATGIQM-DPNP--I-LTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGI 77 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~~~~-~~~~--~-~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~ 77 (458)
.++||+.+..+ ||--+.....-+ ..++ . ..+..+++.+.+.++.+|+| +...+ . .....++...++|.+-.
T Consensus 5 ~~~~~~~~~~~-~~~~i~~~~~~~~~~~p~~l~~v~~~l~~~~~~~~~d~Vv~--~ea~G-i-~la~~lA~~Lg~p~v~v 79 (191)
T TIGR01744 5 KQKIKEEGVVL-PGGILKVDSFLNHQIDPKLMQEVGEEFARRFADDGITKIVT--IEASG-I-APAIMTGLKLGVPVVFA 79 (191)
T ss_pred HHHHhcCCEEc-CCCEEEEehhhccccCHHHHHHHHHHHHHHhccCCCCEEEE--Ecccc-H-HHHHHHHHHHCCCEEEE
Confidence 46788444444 776666663332 2344 1 22233344443457889999 65543 2 33445677889998865
Q ss_pred e
Q psy17441 78 S 78 (458)
Q Consensus 78 ~ 78 (458)
-
T Consensus 80 R 80 (191)
T TIGR01744 80 R 80 (191)
T ss_pred E
Confidence 4
No 430
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=26.57 E-value=2.2e+02 Score=28.62 Aligned_cols=83 Identities=11% Similarity=0.099 Sum_probs=55.0
Q ss_pred ceeecCCCchhHHHHHHHHHH----hcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHH
Q psy17441 92 SFLRTVPPYSHQADVWVELLK----HFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFK 167 (458)
Q Consensus 92 ~~~r~~p~~~~~~~ai~~ll~----~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~ 167 (458)
.+.=+.|+..--...+|++.. ..+-++|++|..|+ |-.+..+.|+...+-.|+.+ +++ . +..++.
T Consensus 205 vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDt-YRIGA~EQLk~Ya~im~vp~----~vv----~--~~~el~ 273 (407)
T COG1419 205 VIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDT-YRIGAVEQLKTYADIMGVPL----EVV----Y--SPKELA 273 (407)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEecc-chhhHHHHHHHHHHHhCCce----EEe----c--CHHHHH
Confidence 333345554444445555543 34568999998876 88888999999999877432 211 1 345777
Q ss_pred HHHHHHHhccCeEEEEEeCh
Q psy17441 168 DQLYEMKNAQARVYLMYASK 187 (458)
Q Consensus 168 ~~l~~ik~~~~~viil~~~~ 187 (458)
..+..+++ .|+|++++.+
T Consensus 274 ~ai~~l~~--~d~ILVDTaG 291 (407)
T COG1419 274 EAIEALRD--CDVILVDTAG 291 (407)
T ss_pred HHHHHhhc--CCEEEEeCCC
Confidence 77777775 5999998665
No 431
>PRK09219 xanthine phosphoribosyltransferase; Validated
Probab=26.41 E-value=88 Score=27.74 Aligned_cols=73 Identities=11% Similarity=0.109 Sum_probs=42.8
Q ss_pred cccccccccccccceEEEEee-eeeCCCH--H-HHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEee
Q psy17441 2 FQHINFDIQYVNKGVTFSATG-IQMDPNP--I-LTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGI 77 (458)
Q Consensus 2 v~eIN~~~~~l~~~~~l~~~~-~~~~~~~--~-~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~ 77 (458)
.+.||+....| ||--+.+.. .+...+| . ..+..+++.+.+.++.+|+| +...+ -..+..++...++|++-.
T Consensus 5 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~P~~l~~i~~~la~~~~~~~~D~Ivg--~e~~G--iplA~~lA~~Lg~p~v~v 79 (189)
T PRK09219 5 EERILKDGKVL-SGNILKVDSFLNHQVDPKLMNEIGKEFARRFKDEGITKILT--IEASG--IAPAVMAALALGVPVVFA 79 (189)
T ss_pred HHHHhcCCEEc-CCCEEEEhhhhccccCHHHHHHHHHHHHHHhccCCCCEEEE--Ecccc--HHHHHHHHHHHCCCEEEE
Confidence 46788555556 776666662 2233444 1 22233344443567899999 66553 234556788889999865
Q ss_pred ec
Q psy17441 78 SS 79 (458)
Q Consensus 78 ~a 79 (458)
--
T Consensus 80 RK 81 (189)
T PRK09219 80 KK 81 (189)
T ss_pred EE
Confidence 43
No 432
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=26.35 E-value=1.2e+02 Score=28.45 Aligned_cols=46 Identities=22% Similarity=0.403 Sum_probs=33.8
Q ss_pred HHHHHHHHHHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeee
Q psy17441 30 ILTALSVCKFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGIS 78 (458)
Q Consensus 30 ~~~~~~~~~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~ 78 (458)
.+....+|+.|.++++.+++= .|..+++.++..+=+++++|+|..-
T Consensus 53 ~~~~~~i~~~l~~~~ik~lVI---ACNTASa~al~~LR~~~~iPVvGvi 98 (269)
T COG0796 53 RERTLEIVDFLLERGIKALVI---ACNTASAVALEDLREKFDIPVVGVI 98 (269)
T ss_pred HHHHHHHHHHHHHcCCCEEEE---ecchHHHHHHHHHHHhCCCCEEEec
Confidence 355566778887877877664 3544578888889999999999754
No 433
>COG2344 AT-rich DNA-binding protein [General function prediction only]
Probab=26.33 E-value=4.7e+02 Score=23.33 Aligned_cols=102 Identities=17% Similarity=0.215 Sum_probs=66.1
Q ss_pred chhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC----------CcccHHHH
Q psy17441 100 YSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP----------GLTTFKDQ 169 (458)
Q Consensus 100 ~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~----------~~~d~~~~ 169 (458)
-......+.+++..-+-++++++...+ -|+.++.. .-.+++| .++......++ ...+...+
T Consensus 68 V~~L~~ff~~~Lg~~~~tnviiVG~Gn-lG~All~Y--~f~~~~~------~~iv~~FDv~~~~VG~~~~~v~V~~~d~l 138 (211)
T COG2344 68 VKYLRDFFDDLLGQDKTTNVIIVGVGN-LGRALLNY--NFSKKNG------MKIVAAFDVDPDKVGTKIGDVPVYDLDDL 138 (211)
T ss_pred HHHHHHHHHHHhCCCcceeEEEEccCh-HHHHHhcC--cchhhcC------ceEEEEecCCHHHhCcccCCeeeechHHH
Confidence 344555666777666778899998766 56544333 1223343 33332221111 12356666
Q ss_pred HHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeec
Q psy17441 170 LYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 170 l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~ 213 (458)
-+.+++.+.++.+++.+...|........+.|..+ +|=++.
T Consensus 139 e~~v~~~dv~iaiLtVPa~~AQ~vad~Lv~aGVkG---IlNFtP 179 (211)
T COG2344 139 EKFVKKNDVEIAILTVPAEHAQEVADRLVKAGVKG---ILNFTP 179 (211)
T ss_pred HHHHHhcCccEEEEEccHHHHHHHHHHHHHcCCce---EEeccc
Confidence 67788889999999999999999999999999986 554443
No 434
>cd03078 GST_N_Metaxin1_like GST_N family, Metaxin subfamily, Metaxin 1-like proteins; composed of metaxins 1 and 3, and similar proteins including Tom37 from fungi. Mammalian metaxin (or metaxin 1) and the fungal protein Tom37 are components of preprotein import complexes of the mitochondrial outer membrane. Metaxin extends to the cytosol and is anchored to the mitochondrial membrane through its C-terminal domain. In mice, metaxin is required for embryonic development. Like the murine gene, the human metaxin gene is located downstream to the glucocerebrosidase (GBA) pseudogene and is convergently transcribed. Inherited deficiency of GBA results in Gaucher disease, which presents many diverse clinical phenotypes. Alterations in the metaxin gene, in addition to GBA mutations, may be associated with Gaucher disease. Genome sequencing shows that a third metaxin gene also exists in zebrafish, Xenopus, chicken and mammals.
Probab=26.32 E-value=2.2e+02 Score=20.59 Aligned_cols=58 Identities=19% Similarity=0.098 Sum_probs=35.7
Q ss_pred CCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHH
Q psy17441 53 PLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLK 112 (458)
Q Consensus 53 ~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~ 112 (458)
|+.+. .|.++.-.+...++|.--..+.++..+.+++.|++. .....-.-...|+++++
T Consensus 13 ps~sp-~clk~~~~Lr~~~~~~~v~~~~n~~~sp~gkLP~l~-~~~~~i~d~~~Ii~~L~ 70 (73)
T cd03078 13 PSVDP-ECLAVLAYLKFAGAPLKVVPSNNPWRSPTGKLPALL-TSGTKISGPEKIIEYLR 70 (73)
T ss_pred CcCCH-HHHHHHHHHHcCCCCEEEEecCCCCCCCCCccCEEE-ECCEEecChHHHHHHHH
Confidence 44554 788999999999999744444455666677778754 22222223345555554
No 435
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=26.32 E-value=8.7e+02 Score=26.82 Aligned_cols=23 Identities=13% Similarity=0.088 Sum_probs=14.2
Q ss_pred CeEEEEEeCCCCCCCchHHHHHhhcc
Q psy17441 44 RVYAVIVSHPLTGDLSPAAVSYTSGF 69 (458)
Q Consensus 44 ~V~aiIG~~~~~s~~~~~~~~~i~~~ 69 (458)
+|+++|| |..++ =+..++.++..
T Consensus 186 ~Vi~lVG--pnGvG-KTTTiaKLA~~ 208 (767)
T PRK14723 186 GVLALVG--PTGVG-KTTTTAKLAAR 208 (767)
T ss_pred eEEEEEC--CCCCc-HHHHHHHHHhh
Confidence 5888888 66665 44455555543
No 436
>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=26.06 E-value=1.4e+02 Score=29.57 Aligned_cols=70 Identities=10% Similarity=0.119 Sum_probs=44.4
Q ss_pred hcCCeEEEEEEecCcch-hHHHHHHHHhhhccCCcceeeEEEEEE-EEeCCCcccHHHHHHHHHhccCeEEEEEeCh
Q psy17441 113 HFNYMKVIFIHSSDTDG-RALLGRFQTTSQNQEDDVEIKVQVEAV-IEFEPGLTTFKDQLYEMKNAQARVYLMYASK 187 (458)
Q Consensus 113 ~~~w~~v~ii~~~d~~g-~~~~~~l~~~l~~~gi~v~~~~~v~~~-~~~~~~~~d~~~~l~~ik~~~~~viil~~~~ 187 (458)
.++-+++.++++...+- .+..+.+.+.+++.|+.+ . .+. ..-.+..+++.+.++.+++.++|.||-.+-+
T Consensus 20 ~~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~----~-~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGG 91 (375)
T cd08179 20 TLKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEV----E-VFEGVEPDPSVETVLKGAEAMREFEPDWIIALGGG 91 (375)
T ss_pred HhcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeE----E-EeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 33448888887655332 245678888888877322 1 111 1112345567788888899999999987655
No 437
>PF02698 DUF218: DUF218 domain; InterPro: IPR003848 This domain of unknown function is found in several uncharacterised proteins.; PDB: 3CA8_A.
Probab=25.97 E-value=2.6e+02 Score=23.31 Aligned_cols=103 Identities=11% Similarity=-0.012 Sum_probs=48.6
Q ss_pred CCchhHHHHHHHHHHhcCCeEEEEEEecCc-c-hhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHh
Q psy17441 98 PPYSHQADVWVELLKHFNYMKVIFIHSSDT-D-GRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKN 175 (458)
Q Consensus 98 p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~-~-g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~ 175 (458)
|....-....+++.+. |.....++..... . +..-.+.+++.+.+.|+.-. .+.....-....+++....+-+++
T Consensus 20 ~~~~~R~~~a~~L~~~-g~~~~il~SGg~~~~~~~~ea~~~~~~l~~~gvp~~---~I~~e~~s~~T~ena~~~~~~~~~ 95 (155)
T PF02698_consen 20 PESRERLDEAARLYKA-GYAPRILFSGGYGHGDGRSEAEAMRDYLIELGVPEE---RIILEPKSTNTYENARFSKRLLKE 95 (155)
T ss_dssp -S-HHHHHHHHHHHH--HHT--EEEE--SSTTHTS-HHHHHHHHHHHT---GG---GEEEE----SHHHHHHHHHHHHHT
T ss_pred HhHHHHHHHHHHHHhc-CCCCeEEECCCCCCCCCCCHHHHHHHHHHhcccchh---eeEccCCCCCHHHHHHHHHHHHHh
Confidence 3444444566666665 4443444443222 1 45667888888888885421 121111111123445555555666
Q ss_pred ccCeEEEEEeChhhHHHHHHHHHhcCCcc
Q psy17441 176 AQARVYLMYASKQDAEIIFKDAQYLNMTE 204 (458)
Q Consensus 176 ~~~~viil~~~~~~~~~il~~a~~~g~~~ 204 (458)
.+.+-|++.++.....+....+++.+...
T Consensus 96 ~~~~~iilVT~~~H~~Ra~~~~~~~~~~~ 124 (155)
T PF02698_consen 96 RGWQSIILVTSPYHMRRARMIFRKVGPDA 124 (155)
T ss_dssp -SSS-EEEE--CCCHHHHHHHHHHHH--B
T ss_pred hcCCeEEEECCHHHHHHHHHHHHHhCCCC
Confidence 66677777788877777777777777654
No 438
>PRK13337 putative lipid kinase; Reviewed
Probab=25.71 E-value=4.9e+02 Score=24.80 Aligned_cols=74 Identities=5% Similarity=-0.046 Sum_probs=45.5
Q ss_pred eEEEEEEecCcc-hh--HHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHH
Q psy17441 117 MKVIFIHSSDTD-GR--ALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEII 193 (458)
Q Consensus 117 ~~v~ii~~~d~~-g~--~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~i 193 (458)
+++.+|+.-..- +. .....+.+.+++.|+ .+.. .......+.....+++.+.+.|+|++.+-......+
T Consensus 2 ~r~~~I~Np~aG~~~~~~~~~~~~~~l~~~~~------~~~~--~~t~~~~~a~~~a~~~~~~~~d~vvv~GGDGTl~~v 73 (304)
T PRK13337 2 KRARIIYNPTSGRELFKKNLPDVLQKLEQAGY------ETSA--HATTGPGDATLAAERAVERKFDLVIAAGGDGTLNEV 73 (304)
T ss_pred ceEEEEECCcccchhHHHHHHHHHHHHHHcCC------EEEE--EEecCCCCHHHHHHHHHhcCCCEEEEEcCCCHHHHH
Confidence 467777755432 21 234566777887762 2211 112234567777777777778888888777777777
Q ss_pred HHHHH
Q psy17441 194 FKDAQ 198 (458)
Q Consensus 194 l~~a~ 198 (458)
++...
T Consensus 74 v~gl~ 78 (304)
T PRK13337 74 VNGIA 78 (304)
T ss_pred HHHHh
Confidence 77654
No 439
>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=25.61 E-value=2e+02 Score=27.19 Aligned_cols=67 Identities=12% Similarity=0.099 Sum_probs=39.9
Q ss_pred EEEEEEecC-cchhHHHHHHHHhhhccCCcceeeEEEEEEEE-eCCCcccHHHHHHHHHhccCeEEEEEeCh
Q psy17441 118 KVIFIHSSD-TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIE-FEPGLTTFKDQLYEMKNAQARVYLMYASK 187 (458)
Q Consensus 118 ~v~ii~~~d-~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~-~~~~~~d~~~~l~~ik~~~~~viil~~~~ 187 (458)
+|+|+-.-+ +.-.+..+.|++.|++.|+.. .. +..... -..+.......++++++.++|+|+..+..
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~g~~~-~~--~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~~gt~ 69 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKELGYDE-KN--VEIEYKNAEGDPEKLRQIARKLKAQKPDLIIAIGTP 69 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHTT--C-CC--EEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEEESHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHcCCcc-cc--EEEEEecCCCCHHHHHHHHHHHhcCCCCEEEEeCcH
Confidence 467776444 234467899999999988432 11 222221 12345567778888888999988887543
No 440
>PLN02727 NAD kinase
Probab=25.58 E-value=4.1e+02 Score=29.86 Aligned_cols=109 Identities=6% Similarity=0.021 Sum_probs=61.8
Q ss_pred CCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCC
Q psy17441 83 AFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPG 162 (458)
Q Consensus 83 ~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~ 162 (458)
..++... -.++|...++..+-+. +...|.|.|.-+-.+++.+.......+++.++.|+.. +.+.....-.+.
T Consensus 254 ~~~~~~~-~~~~rsgQpspe~la~----LA~~GfKTIINLRpd~E~~q~~~~ee~eAae~~GL~y---VhIPVs~~~apt 325 (986)
T PLN02727 254 IDSKESE-AAFWRGGQVTEEGLKW----LLEKGFKTIVDLRAEIVKDNFYQAAVDDAISSGKIEV---VKIPVEVRTAPS 325 (986)
T ss_pred cccccce-eeEEEeCCCCHHHHHH----HHHCCCeEEEECCCCCcCCCchhHHHHHHHHHcCCeE---EEeecCCCCCCC
Confidence 4444332 3567777666555433 3336999999997776544445677888888888432 111100111123
Q ss_pred cccHHHHHHHHHhccCeEEEEEeChhh-HHHHHHHHHh
Q psy17441 163 LTTFKDQLYEMKNAQARVYLMYASKQD-AEIIFKDAQY 199 (458)
Q Consensus 163 ~~d~~~~l~~ik~~~~~viil~~~~~~-~~~il~~a~~ 199 (458)
.+++.+..+.+++..++-|+++|.... ...++-+.+.
T Consensus 326 ~EqVe~fa~~l~~slpkPVLvHCKSGarRAGamvA~yl 363 (986)
T PLN02727 326 AEQVEKFASLVSDSSKKPIYLHSKEGVWRTSAMVSRWK 363 (986)
T ss_pred HHHHHHHHHHHHhhcCCCEEEECCCCCchHHHHHHHHH
Confidence 455666656665556778888887754 3334444333
No 441
>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=25.33 E-value=2.2e+02 Score=23.82 Aligned_cols=46 Identities=11% Similarity=0.025 Sum_probs=27.5
Q ss_pred HHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEe
Q psy17441 133 LGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYA 185 (458)
Q Consensus 133 ~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~ 185 (458)
...+.+.+++.| ..+......+.+.+++.+.++++.+ ++|+||..+
T Consensus 29 ~~~l~~~l~~~G------~~v~~~~~v~Dd~~~i~~~l~~~~~-~~DliIttG 74 (144)
T TIGR00177 29 GPLLAALLEEAG------FNVSRLGIVPDDPEEIREILRKAVD-EADVVLTTG 74 (144)
T ss_pred HHHHHHHHHHCC------CeEEEEeecCCCHHHHHHHHHHHHh-CCCEEEECC
Confidence 356667777766 3333344445455566666666544 688888764
No 442
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=25.26 E-value=5.5e+02 Score=26.48 Aligned_cols=92 Identities=8% Similarity=0.042 Sum_probs=54.3
Q ss_pred CeEEEEEEecC-cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh------h
Q psy17441 116 YMKVIFIHSSD-TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK------Q 188 (458)
Q Consensus 116 w~~v~ii~~~d-~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~------~ 188 (458)
-+++.|+|..- ...+..++.+.+.+++.|.. +.+. .. +....+...++..+. .++.|++.++. +
T Consensus 251 ~~kv~IvY~S~~GnTe~mA~~ia~gl~~~g~g----v~v~-~~--~v~~~~~~~i~~~~~--~ad~vilGspT~~~~~~p 321 (479)
T PRK05452 251 EDRITIFYDTMSNNTRMMADAIAQGIAEVDPR----VAVK-IF--NVARSDKNEILTNVF--RSKGVLVGSSTMNNVMMP 321 (479)
T ss_pred cCcEEEEEECCccHHHHHHHHHHHHHHhhCCC----ceEE-EE--ECCCCCHHHHHhHHh--hCCEEEEECCccCCcchH
Confidence 36889998643 23446788888888876311 2211 11 223345555555554 46788887655 2
Q ss_pred hHHHHHHHHHhcCCcccceEEEeecccc
Q psy17441 189 DAEIIFKDAQYLNMTETGYVWIVTEQAL 216 (458)
Q Consensus 189 ~~~~il~~a~~~g~~~~~~~wi~t~~~~ 216 (458)
....++.......+.++...-+.+-+|.
T Consensus 322 ~~~~fl~~l~~~~l~gK~~~vFGSygw~ 349 (479)
T PRK05452 322 KIAGLLEEITGLRFRNKRASAFGSHGWS 349 (479)
T ss_pred HHHHHHHHhhccCcCCCEEEEEECCCcC
Confidence 3566777777777766544556666664
No 443
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=25.24 E-value=67 Score=28.15 Aligned_cols=94 Identities=9% Similarity=-0.011 Sum_probs=49.1
Q ss_pred EEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecC-------CCCCCCCccccceeecC-CCchhHHHHHHHHHHhcCCe
Q psy17441 46 YAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSR-------DSAFSDKNIHVSFLRTV-PPYSHQADVWVELLKHFNYM 117 (458)
Q Consensus 46 ~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~-------~~~ls~~~~~p~~~r~~-p~~~~~~~ai~~ll~~~~w~ 117 (458)
+.|+| |+.++ =+..+..+++.+++|+|+.+-- ...+..+.. .++-+-- -++......+-+-+..- +.
T Consensus 3 iiilG--~pGaG-K~T~A~~La~~~~i~hlstgd~~r~~~~~~t~lg~~~k-~~i~~g~lv~d~i~~~~v~~rl~~~-d~ 77 (178)
T COG0563 3 ILILG--PPGAG-KSTLAKKLAKKLGLPHLDTGDILRAAIAERTELGEEIK-KYIDKGELVPDEIVNGLVKERLDEA-DC 77 (178)
T ss_pred EEEEC--CCCCC-HHHHHHHHHHHhCCcEEcHhHHhHhhhccCChHHHHHH-HHHHcCCccchHHHHHHHHHHHHhh-cc
Confidence 57898 77776 5667788999999999984321 011110000 1111110 12222222333333333 32
Q ss_pred EEEEEEecCcchhHHHHHHHHhhhccC
Q psy17441 118 KVIFIHSSDTDGRALLGRFQTTSQNQE 144 (458)
Q Consensus 118 ~v~ii~~~d~~g~~~~~~l~~~l~~~g 144 (458)
.-++|+++-+-....+..+++.+.+.|
T Consensus 78 ~~~~I~dg~PR~~~qa~~l~r~l~~~g 104 (178)
T COG0563 78 KAGFILDGFPRTLCQARALKRLLKELG 104 (178)
T ss_pred cCeEEEeCCCCcHHHHHHHHHHHHHcC
Confidence 226777766655566677777776655
No 444
>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=25.08 E-value=87 Score=28.17 Aligned_cols=48 Identities=13% Similarity=0.283 Sum_probs=34.3
Q ss_pred HHhhcccceeEEeeeccCCCCCCChhh--hhhcCCCCceEEEEeCCChHHHHHhhc
Q psy17441 378 IVASYTANLAAFLVLERPKTKLTGIND--ARLRNTMENLTCATVKGSAVDMYFRRQ 431 (458)
Q Consensus 378 ~~~~yta~l~s~lt~~~~~~~i~~~~d--L~~~~~~~~~~~g~~~~s~~~~~~~~~ 431 (458)
+...|-.+=..+++.+.-..++++++| |. +.++|+..|+..+.+++..
T Consensus 73 fs~py~~~~~~lv~~~~~~~~~~~~~d~~l~------g~~V~v~~g~~~~~~l~~~ 122 (232)
T TIGR03871 73 TTRPYYRSTYVFVTRKDSLLDVKSLDDPRLK------KLRIGVFAGTPPAHWLARH 122 (232)
T ss_pred ccCCcEeeeEEEEEeCCCcccccchhhhhhc------CCeEEEEcCChHHHHHHhc
Confidence 344554444556655554467899998 54 6899999999999998764
No 445
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=24.92 E-value=4.1e+02 Score=24.82 Aligned_cols=69 Identities=14% Similarity=0.036 Sum_probs=44.8
Q ss_pred HHhcCCeEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeC
Q psy17441 111 LKHFNYMKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYAS 186 (458)
Q Consensus 111 l~~~~w~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~ 186 (458)
++.-+-+.|+++..+ +.|.....+.+++.+++.|. .+.. .....+...-.+.++.+.+.+.|.||+...
T Consensus 30 l~~~~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~g~------~~~~-~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~ 100 (309)
T PRK11041 30 LKRNESRTILVIVPDICDPFFSEIIRGIEVTAAEHGY------LVLI-GDCAHQNQQEKTFVNLIITKQIDGMLLLGS 100 (309)
T ss_pred hhcCCCcEEEEEeCCCcCccHHHHHHHHHHHHHHCCC------EEEE-EeCCCChHHHHHHHHHHHHcCCCEEEEecC
Confidence 333344678888764 56788889999999998873 2221 122223333456777778888999988754
No 446
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=24.49 E-value=1.1e+02 Score=20.67 Aligned_cols=28 Identities=14% Similarity=0.104 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhcC-CCCCCC
Q psy17441 297 WILVMVSVHVVALVLYLLDRFS-PFGRFR 324 (458)
Q Consensus 297 W~~i~~~~~~~~~~~~~~~~~~-~~~~~~ 324 (458)
|+++...+++++++...+...+ .|++++
T Consensus 3 ~~~iV~i~iv~~lLg~~I~~~~K~ygYkh 31 (50)
T PF12606_consen 3 AFLIVSIFIVMGLLGLSICTTLKAYGYKH 31 (50)
T ss_pred ehHHHHHHHHHHHHHHHHHHHhhcccccc
Confidence 4444444555555555555554 366544
No 447
>PRK05370 argininosuccinate synthase; Validated
Probab=24.31 E-value=5.1e+02 Score=26.38 Aligned_cols=84 Identities=17% Similarity=0.045 Sum_probs=52.7
Q ss_pred HHHhc-CCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccC-eEEEEEeCh
Q psy17441 110 LLKHF-NYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQA-RVYLMYASK 187 (458)
Q Consensus 110 ll~~~-~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~-~viil~~~~ 187 (458)
++++. +=++|++.|+..-...-.+.-|++ .|..| +|+....- +++.+|+..+-++..+.++ +++++++..
T Consensus 4 ~~~~l~~~~KVvLAYSGGLDTSv~l~wL~e----~~~eV---ia~~aDvG-Q~~~ed~~~i~~kA~~~GA~~~~viDlr~ 75 (447)
T PRK05370 4 ILKHLPVGQRVGIAFSGGLDTSAALLWMRQ----KGAVP---YAYTANLG-QPDEDDYDAIPRRAMEYGAENARLIDCRA 75 (447)
T ss_pred hhhhCCCCCEEEEEecCCchHHHHHHHHHh----cCCeE---EEEEEECC-CCCccchHHHHHHHHHhCCCEEEEeccHH
Confidence 45666 668999999886544333444443 35333 33332221 1124677777777888888 588888888
Q ss_pred hhHHHHHHHHHhcCC
Q psy17441 188 QDAEIIFKDAQYLNM 202 (458)
Q Consensus 188 ~~~~~il~~a~~~g~ 202 (458)
+-+..++ .+.+.+-
T Consensus 76 eF~e~~i-~aI~anA 89 (447)
T PRK05370 76 QLVAEGI-AAIQCGA 89 (447)
T ss_pred HHHHHHH-HHHHcCC
Confidence 8888887 6666665
No 448
>PF10727 Rossmann-like: Rossmann-like domain; InterPro: IPR019665 This entry represents an NAD/NADP-binding domain with a core Rossmann-type fold, found in an uncharacterised protein family thought to be putative NADP oxidoreductase coenzyme F420-dependent proteins and/or NAD-dependent glycerol-3-phosphate dehydrogenase-like proteins. This Rossmann-fold domain consists of 3-layers alpha/beta/alpha, where the six beta strands are parallel in the order 321456.; PDB: 3DFU_A 3C24_A.
Probab=24.28 E-value=2.3e+02 Score=23.25 Aligned_cols=37 Identities=8% Similarity=0.073 Sum_probs=13.2
Q ss_pred CeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecc
Q psy17441 178 ARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 178 ~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~ 214 (458)
+|++++..+.+....+..+..+.+...++.+.+-+++
T Consensus 69 aDlv~iavpDdaI~~va~~La~~~~~~~g~iVvHtSG 105 (127)
T PF10727_consen 69 ADLVFIAVPDDAIAEVAEQLAQYGAWRPGQIVVHTSG 105 (127)
T ss_dssp -SEEEE-S-CCHHHHHHHHHHCC--S-TT-EEEES-S
T ss_pred CCEEEEEechHHHHHHHHHHHHhccCCCCcEEEECCC
Confidence 4444444444444444444444433333444444443
No 449
>PRK10481 hypothetical protein; Provisional
Probab=24.23 E-value=3.4e+02 Score=24.86 Aligned_cols=66 Identities=11% Similarity=-0.022 Sum_probs=39.5
Q ss_pred eEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhH
Q psy17441 117 MKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDA 190 (458)
Q Consensus 117 ~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~ 190 (458)
++++++....+........ +...|..+ +......+...........++++..++|+|++.|..-..
T Consensus 130 ~riGVitP~~~qi~~~~~k----w~~~G~~v----~~~~aspy~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~ 195 (224)
T PRK10481 130 HQVGVIVPVEEQLAQQAQK----WQVLQKPP----VFALASPYHGSEEELIDAGKELLDQGADVIVLDCLGYHQ 195 (224)
T ss_pred CeEEEEEeCHHHHHHHHHH----HHhcCCce----eEeecCCCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcCH
Confidence 8999999876555433333 33335333 211111111223356667778888899999999887654
No 450
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.
Probab=24.21 E-value=4.9e+02 Score=23.63 Aligned_cols=98 Identities=13% Similarity=0.086 Sum_probs=56.1
Q ss_pred hHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHh
Q psy17441 60 PAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTT 139 (458)
Q Consensus 60 ~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~ 139 (458)
...+...++..++|++...... ........+.+.++..+ +-.+...|-+...-...+++.
T Consensus 47 ~~~~~~qA~algipl~~~~~~g-----------------~~~~~~~~l~~~l~~~~---v~~vv~GdI~~~~~r~~~e~v 106 (218)
T PF01902_consen 47 IELIEAQAEALGIPLIEIPTSG-----------------DEEDYVEDLKEALKELK---VEAVVFGDIDSEYQRNWVERV 106 (218)
T ss_dssp GTCHHHHHHHHT--EEEEEE--------------------CCCHHHHHHHHHCTC-----SEEE--TTS-HHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCEEEEEccC-----------------ccchhhHHHHHHHHHcC---CCEEEECcCCcHHHHHHHHHH
Confidence 3455667788889988654421 12234466777777776 444555555555556777777
Q ss_pred hhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh
Q psy17441 140 SQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK 187 (458)
Q Consensus 140 l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~ 187 (458)
..+.| .. ..+|--..|...++.++.+.+-+++|+....
T Consensus 107 c~~lG------l~----~~~PLW~~d~~~ll~e~i~~Gf~aiIv~V~~ 144 (218)
T PF01902_consen 107 CERLG------LE----AVFPLWGRDREELLREFIESGFEAIIVKVDA 144 (218)
T ss_dssp HHHCT-------E----EE-TTTT--HHHHHHHHHHTT-EEEEEEEES
T ss_pred HHHcC------CE----EEecccCCCHHHHHHHHHHCCCeEEEEEEec
Confidence 88777 22 2346677788899999999898888876544
No 451
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=24.16 E-value=5.5e+02 Score=23.42 Aligned_cols=97 Identities=7% Similarity=-0.013 Sum_probs=63.8
Q ss_pred HHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhh
Q psy17441 61 AAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTS 140 (458)
Q Consensus 61 ~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l 140 (458)
..+...++..++|++.... ..+....-..+.+.++..| +-.+...|-+...-...+....
T Consensus 48 ~~~~~qA~algipl~~~~~-----------------~~~~e~~~e~l~~~l~~~g---v~~vv~GdI~s~~qr~~~e~v~ 107 (223)
T TIGR00290 48 HLTDLQAESIGIPLIKLYT-----------------EGTEEDEVEELKGILHTLD---VEAVVFGAIYSEYQKTRIERVC 107 (223)
T ss_pred HHHHHHHHHcCCCeEEeec-----------------CCCccHHHHHHHHHHHHcC---CCEEEECCcccHHHHHHHHHHH
Confidence 4566788889999875221 1122345567777787775 4444555555555677777888
Q ss_pred hccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh
Q psy17441 141 QNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK 187 (458)
Q Consensus 141 ~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~ 187 (458)
++.|+ . ..+|--..|...+++++.+.+-+++|+....
T Consensus 108 ~~lgl------~----~~~PLW~~~~~~ll~e~i~~G~~aiIv~v~a 144 (223)
T TIGR00290 108 RELGL------K----SFAPLWHRDPEKLMEEFVEEKFEARIIAVAA 144 (223)
T ss_pred HhcCC------E----EeccccCCCHHHHHHHHHHcCCeEEEEEEec
Confidence 87772 2 1234455677889999999999999876544
No 452
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=24.08 E-value=4.2e+02 Score=23.66 Aligned_cols=76 Identities=8% Similarity=0.049 Sum_probs=41.9
Q ss_pred HHHHHHHHHHhcCC-eEEEEEEecC--cchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHH-HHHHHHHhccC
Q psy17441 103 QADVWVELLKHFNY-MKVIFIHSSD--TDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFK-DQLYEMKNAQA 178 (458)
Q Consensus 103 ~~~ai~~ll~~~~w-~~v~ii~~~d--~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~-~~l~~ik~~~~ 178 (458)
..+++++-++.-.. -++..+.+|. .|+ .+..++.||.. .+.....++ +..++. .+++.+++.++
T Consensus 13 Nlqaiida~~~~~~~a~i~~Visd~~~A~~-------lerA~~~gIpt----~~~~~k~~~-~r~~~d~~l~~~l~~~~~ 80 (200)
T COG0299 13 NLQAIIDAIKGGKLDAEIVAVISDKADAYA-------LERAAKAGIPT----VVLDRKEFP-SREAFDRALVEALDEYGP 80 (200)
T ss_pred cHHHHHHHHhcCCCCcEEEEEEeCCCCCHH-------HHHHHHcCCCE----EEeccccCC-CHHHHHHHHHHHHHhcCC
Confidence 34677777763222 3455444443 455 34455666321 111112222 344454 45567889999
Q ss_pred eEEEEEeChhhH
Q psy17441 179 RVYLMYASKQDA 190 (458)
Q Consensus 179 ~viil~~~~~~~ 190 (458)
|.|+|.++....
T Consensus 81 dlvvLAGyMrIL 92 (200)
T COG0299 81 DLVVLAGYMRIL 92 (200)
T ss_pred CEEEEcchHHHc
Confidence 999999887643
No 453
>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=23.85 E-value=5.4e+02 Score=23.20 Aligned_cols=73 Identities=10% Similarity=0.088 Sum_probs=44.7
Q ss_pred EEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHHHH
Q psy17441 119 VIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIFKD 196 (458)
Q Consensus 119 v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il~~ 196 (458)
|+++.. ++.|.......+++.+++.|..+ .+. . .. +....++.+...+++.|++........ .+.+
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~----~~~--~-~~----~~~~~~~~l~~~~vdgii~~~~~~~~~-~~~~ 69 (261)
T cd06272 2 IGLIWPSVSRVALTELVTGINQAISKNGYNM----NVS--I-TP----SLAEAEDLFKENRFDGVIIFGESASDV-EYLY 69 (261)
T ss_pred EEEEecCCCchhHHHHHHHHHHHHHHcCCEE----EEE--e-cc----cHHHHHHHHHHcCcCEEEEeCCCCChH-HHHH
Confidence 456654 35688888899999999887322 111 1 11 234566677788899888875433322 3456
Q ss_pred HHhcCCc
Q psy17441 197 AQYLNMT 203 (458)
Q Consensus 197 a~~~g~~ 203 (458)
+.+.+..
T Consensus 70 ~~~~~ip 76 (261)
T cd06272 70 KIKLAIP 76 (261)
T ss_pred HHHcCCC
Confidence 6666643
No 454
>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=23.74 E-value=1e+02 Score=28.24 Aligned_cols=48 Identities=15% Similarity=0.272 Sum_probs=35.1
Q ss_pred HHhhcccceeEEeeeccCCCCCCChhh--hhhcCCCCce-EEEEeCCChHHHHHhhc
Q psy17441 378 IVASYTANLAAFLVLERPKTKLTGIND--ARLRNTMENL-TCATVKGSAVDMYFRRQ 431 (458)
Q Consensus 378 ~~~~yta~l~s~lt~~~~~~~i~~~~d--L~~~~~~~~~-~~g~~~~s~~~~~~~~~ 431 (458)
+...|--+-..+++.+.-...+++++| |. +. ++|+..||..+.++++.
T Consensus 74 fS~PY~~~~~~~v~~k~~~~~~~~~~d~~L~------g~~~vgv~~gs~~~~~l~~~ 124 (246)
T TIGR03870 74 TTKPYYRSSYVFLTRKDRNLDIKSWNDPRLK------KVSKIGVIFGSPAETMLKQI 124 (246)
T ss_pred cccCcEEeeeEEEEeCCCCCCCCCccchhhc------cCceEEEecCChHHHHHHhc
Confidence 356676555666666554456899875 54 66 99999999999998864
No 455
>TIGR02619 putative CRISPR-associated protein, APE2256 family. This model represents a conserved domain of about 150 amino acids found in at least five archaeal species and three bacterial species, exclusively in species with CRISPR (Clustered Regularly Interspaced Short Palidromic Repeats). In six of eight species, the member of this family is in the vicinity of a CRISPR/Cas locus.
Probab=23.74 E-value=4.6e+02 Score=22.28 Aligned_cols=43 Identities=14% Similarity=0.159 Sum_probs=32.6
Q ss_pred HHHHHHHHHHhcC-----CeEEEEEEecCcchhHHHHHHHHhhhccCC
Q psy17441 103 QADVWVELLKHFN-----YMKVIFIHSSDTDGRALLGRFQTTSQNQED 145 (458)
Q Consensus 103 ~~~ai~~ll~~~~-----w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi 145 (458)
+-.++..+....+ -.++.++++|+..|+...+.+++.+++.+.
T Consensus 16 ElNsl~~~~~~~~~~~~~~d~~~Ll~SDT~~G~~~a~ilk~yl~~~~~ 63 (149)
T TIGR02619 16 ELNTVLKAARRSDRLFSGDDKAILYHSDTAQGRFCASILKRFLERELR 63 (149)
T ss_pred hHHHHHHHHhhcccccCCCcEEEEEEcCCHHHHHHHHHHHHHHHHhcc
Confidence 4456666666432 457889999999999999999999988763
No 456
>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=23.65 E-value=3.7e+02 Score=24.36 Aligned_cols=61 Identities=5% Similarity=-0.052 Sum_probs=40.2
Q ss_pred EEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeC
Q psy17441 119 VIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYAS 186 (458)
Q Consensus 119 v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~ 186 (458)
|+++.. ++.|.......+++.+++.|.. +... ....+.......++.+.+.+.+.+++...
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~gy~------~~~~-~~~~~~~~~~~~i~~l~~~~~dgiii~~~ 64 (265)
T cd06290 2 IGVLTQDFASPFYGRILKGMERGLNGSGYS------PIIA-TGHWNQSRELEALELLKSRRVDALILLGG 64 (265)
T ss_pred EEEEECCCCCchHHHHHHHHHHHHHHCCCE------EEEE-eCCCCHHHHHHHHHHHHHCCCCEEEEeCC
Confidence 566665 4568888889999999988732 2211 11223334556777888888999988754
No 457
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=23.58 E-value=5.8e+02 Score=23.48 Aligned_cols=73 Identities=7% Similarity=0.074 Sum_probs=45.6
Q ss_pred EeCCCc-ccHHHHHHHHHhccCeEEEEEeCh----hhHHHHHHHHH-hcCCcccceEEEeeccccccCCCCCeeEEEEec
Q psy17441 158 EFEPGL-TTFKDQLYEMKNAQARVYLMYASK----QDAEIIFKDAQ-YLNMTETGYVWIVTEQALTAKNVPVGIIGLKLV 231 (458)
Q Consensus 158 ~~~~~~-~d~~~~l~~ik~~~~~viil~~~~----~~~~~il~~a~-~~g~~~~~~~wi~t~~~~~~~~~~~g~~g~~~~ 231 (458)
.++++. +...+.++.+.++++|.|++.++. +...+++...+ +.++ .+|+..+.-..-......++..+..
T Consensus 21 liDP~k~~~~~ei~~~~~~~GTDaImIGGS~gvt~~~~~~~v~~ik~~~~l----PvilfP~~~~~is~~aDavff~svL 96 (240)
T COG1646 21 LIDPDKTEEADEIAEAAAEAGTDAIMIGGSDGVTEENVDNVVEAIKERTDL----PVILFPGSPSGISPYADAVFFPSVL 96 (240)
T ss_pred EeCcccccccHHHHHHHHHcCCCEEEECCcccccHHHHHHHHHHHHhhcCC----CEEEecCChhccCccCCeEEEEEEe
Confidence 345544 566777778888889988887766 34566666666 4444 3666666544333445666666555
Q ss_pred CCC
Q psy17441 232 NAT 234 (458)
Q Consensus 232 ~~~ 234 (458)
+..
T Consensus 97 NS~ 99 (240)
T COG1646 97 NSD 99 (240)
T ss_pred cCC
Confidence 543
No 458
>PRK09526 lacI lac repressor; Reviewed
Probab=23.53 E-value=6.5e+02 Score=23.97 Aligned_cols=61 Identities=8% Similarity=0.098 Sum_probs=39.5
Q ss_pred eEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC-CcccHHHHHHHHHhccCeEEEEE
Q psy17441 117 MKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP-GLTTFKDQLYEMKNAQARVYLMY 184 (458)
Q Consensus 117 ~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~-~~~d~~~~l~~ik~~~~~viil~ 184 (458)
+.++++..+ +.+.......+++.+++.|.. +... .... +.......++.+.+.+.|.||+.
T Consensus 64 ~~Igvv~~~~~~~~~~~~~~gi~~~a~~~g~~------~~i~-~~~~~~~~~~~~~l~~l~~~~vdGiii~ 127 (342)
T PRK09526 64 LTIGLATTSLALHAPSQIAAAIKSRADQLGYS------VVIS-MVERSGVEACQAAVNELLAQRVSGVIIN 127 (342)
T ss_pred ceEEEEeCCCCcccHHHHHHHHHHHHHHCCCE------EEEE-eCCCChHHHHHHHHHHHHhcCCCEEEEe
Confidence 468888754 345667888999999988732 2111 1111 12334567778888899999886
No 459
>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=23.40 E-value=4.4e+02 Score=24.06 Aligned_cols=83 Identities=8% Similarity=-0.042 Sum_probs=45.8
Q ss_pred EEEEEe--cCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh-hhHHHHHH
Q psy17441 119 VIFIHS--SDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK-QDAEIIFK 195 (458)
Q Consensus 119 v~ii~~--~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~-~~~~~il~ 195 (458)
++++.. ++.|.....+.+++.+++.|-.- .+..+... ....+.......++.+...++|.|++.... ......++
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~-~g~~~~~~-~~~~~~~~~~~~~~~l~~~~vDgiii~~~~~~~~~~~i~ 79 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAY-PDVEFILV-TASNDTEQQNAQQDLLINRKIDALVILPFESAPLTQPVA 79 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhC-CCeEEEEE-cCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhhHHHHH
Confidence 445543 35577777888888887752000 01222211 111123334455666777789999887543 33345677
Q ss_pred HHHhcCCc
Q psy17441 196 DAQYLNMT 203 (458)
Q Consensus 196 ~a~~~g~~ 203 (458)
.+.+.|..
T Consensus 80 ~~~~~gIp 87 (274)
T cd06311 80 KAKKAGIF 87 (274)
T ss_pred HHHHCCCe
Confidence 78777764
No 460
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=23.34 E-value=1.2e+02 Score=27.99 Aligned_cols=37 Identities=8% Similarity=0.225 Sum_probs=24.7
Q ss_pred eEEeeeccCCCCCCChhhhhhcCCCCceEEEEeCCChHHHHHhh
Q psy17441 387 AAFLVLERPKTKLTGINDARLRNTMENLTCATVKGSAVDMYFRR 430 (458)
Q Consensus 387 ~s~lt~~~~~~~i~~~~dL~~~~~~~~~~~g~~~~s~~~~~~~~ 430 (458)
..+++.+. .+...+++||. +.++|+.+|+..+.++..
T Consensus 114 ~~~~~~~~-~~~~~~~~dl~------g~~Igv~~gs~~~~~~~~ 150 (260)
T PRK15010 114 SRLIAAKG-SPIQPTLDSLK------GKHVGVLQGSTQEAYANE 150 (260)
T ss_pred EEEEEECC-CCCCCChhHcC------CCEEEEecCchHHHHHHH
Confidence 34444333 22234789986 788999999988777654
No 461
>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=23.31 E-value=5.6e+02 Score=23.17 Aligned_cols=62 Identities=8% Similarity=0.003 Sum_probs=40.1
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK 187 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~ 187 (458)
|+++..+ ++|.......+.+.+++.|. .+.. .....+..+..+.++.+.+.+++.|++....
T Consensus 2 igvi~~~~~~~~~~~~~~gi~~~~~~~g~------~~~~-~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~ 65 (269)
T cd06275 2 IGMLVTTSTNPFFAEVVRGVEQYCYRQGY------NLIL-CNTEGDPERQRSYLRMLAQKRVDGLLVMCSE 65 (269)
T ss_pred EEEEeCCCCcchHHHHHHHHHHHHHHcCC------EEEE-EeCCCChHHHHHHHHHHHHcCCCEEEEecCC
Confidence 5666643 56788888999999998772 2211 1112233345567778888889999887644
No 462
>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=23.14 E-value=1.9e+02 Score=28.11 Aligned_cols=72 Identities=8% Similarity=0.177 Sum_probs=42.4
Q ss_pred HHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh
Q psy17441 111 LKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK 187 (458)
Q Consensus 111 l~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~ 187 (458)
++.++.+++.++++..-...+..+.+.+.+++. +.+ .+-....-.+..+++.+.++..++.++|.||-.+-+
T Consensus 17 l~~~~~~~~lvv~~~~~~~~g~~~~v~~~l~~~-~~~----~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IiaiGGG 88 (332)
T cd08180 17 LKELKNKRVLIVTDPFMVKSGMLDKVTDHLDSS-IEV----EIFSDVVPDPPIEVVAKGIKKFLDFKPDIVIALGGG 88 (332)
T ss_pred HHHhCCCeEEEEeCchhhhCccHHHHHHHHHhc-CcE----EEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEECCc
Confidence 355556899988865433333567777777653 221 111011112234556677888888999999976554
No 463
>PF10853 DUF2650: Protein of unknown function (DUF2650); InterPro: IPR022559 This region is found in proteins with unknown function in metazoa.
Probab=22.92 E-value=48 Score=20.92 Aligned_cols=15 Identities=27% Similarity=0.755 Sum_probs=11.1
Q ss_pred CChhHHHHHHHHHHH
Q psy17441 292 FSNTLWILVMVSVHV 306 (458)
Q Consensus 292 f~~~vW~~i~~~~~~ 306 (458)
|..+.|+.++++++.
T Consensus 22 f~lq~Wv~v~l~v~~ 36 (38)
T PF10853_consen 22 FRLQIWVIVLLAVLG 36 (38)
T ss_pred HHHHHHHHHHHHHHh
Confidence 557799988887654
No 464
>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed
Probab=22.82 E-value=6.3e+02 Score=23.57 Aligned_cols=87 Identities=11% Similarity=0.014 Sum_probs=56.7
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMY 184 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~ 184 (458)
..++.-....|-.-+.++++.+.|+.+ .+.++..-+...+.| .....+ .+-. ++.+.+..++|+|.+.
T Consensus 73 ~~~A~~~~~~GA~aisvlte~~~f~g~-~~~l~~v~~~v~iPv------l~kdfi----~~~~-qi~~a~~~GAD~VlLi 140 (260)
T PRK00278 73 VEIAKAYEAGGAACLSVLTDERFFQGS-LEYLRAARAAVSLPV------LRKDFI----IDPY-QIYEARAAGADAILLI 140 (260)
T ss_pred HHHHHHHHhCCCeEEEEecccccCCCC-HHHHHHHHHhcCCCE------Eeeeec----CCHH-HHHHHHHcCCCEEEEE
Confidence 456677777888888888877755443 455555444323222 111111 1222 5778889999999988
Q ss_pred eCh---hhHHHHHHHHHhcCCc
Q psy17441 185 ASK---QDAEIIFKDAQYLNMT 203 (458)
Q Consensus 185 ~~~---~~~~~il~~a~~~g~~ 203 (458)
+.. .+...+++.++++|+.
T Consensus 141 ~~~l~~~~l~~li~~a~~lGl~ 162 (260)
T PRK00278 141 VAALDDEQLKELLDYAHSLGLD 162 (260)
T ss_pred eccCCHHHHHHHHHHHHHcCCe
Confidence 654 5789999999999985
No 465
>PF12270 Cyt_c_ox_IV: Cytochrome c oxidase subunit IV; InterPro: IPR021050 This family of proteins is found in bacteria. Proteins in this family are approximately 140 amino acids in length. This family is the fourth subunit of the cytochrome c oxidase complex. This subunit does not have a catalytic capacity but instead, is required for assembly and/or stability of the complex []. ; GO: 0004129 cytochrome-c oxidase activity, 0055114 oxidation-reduction process, 0016021 integral to membrane
Probab=22.77 E-value=1.5e+02 Score=24.76 Aligned_cols=34 Identities=15% Similarity=0.229 Sum_probs=22.3
Q ss_pred cCCCCcceeeecCC-hhHHHHHHHHHHHHHHHHHH
Q psy17441 280 SRSSTLVSFLQPFS-NTLWILVMVSVHVVALVLYL 313 (458)
Q Consensus 280 ~~~~~~~~fl~pf~-~~vW~~i~~~~~~~~~~~~~ 313 (458)
++.+.-..|+.|-| |.+|++..+++++.|+.++.
T Consensus 75 ~dgAGe~GfFsP~SwWPl~la~~~al~~lGla~g~ 109 (137)
T PF12270_consen 75 ADGAGELGFFSPHSWWPLVLAAAAALVFLGLAFGW 109 (137)
T ss_pred ccCCCCcCcCCCccHhHHHHHHHHHHHHHHHHHHH
Confidence 34455668888888 56777777666666655443
No 466
>COG0134 TrpC Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]
Probab=22.77 E-value=1.4e+02 Score=27.82 Aligned_cols=87 Identities=13% Similarity=0.050 Sum_probs=58.5
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMY 184 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~ 184 (458)
..+++..+++|-.-++++++.. |.++..+.++..-+...+.| -....+- | .-++...+..++|.|++.
T Consensus 69 ~~ia~~Ye~~GAa~iSVLTd~~-~F~Gs~e~L~~v~~~v~~Pv------L~KDFii----D-~yQI~~Ar~~GADavLLI 136 (254)
T COG0134 69 VEIAKAYEEGGAAAISVLTDPK-YFQGSFEDLRAVRAAVDLPV------LRKDFII----D-PYQIYEARAAGADAVLLI 136 (254)
T ss_pred HHHHHHHHHhCCeEEEEecCcc-ccCCCHHHHHHHHHhcCCCe------eeccCCC----C-HHHHHHHHHcCcccHHHH
Confidence 3478888999999999998665 55666777766655533221 1111111 1 234556677899998765
Q ss_pred ---eChhhHHHHHHHHHhcCCc
Q psy17441 185 ---ASKQDAEIIFKDAQYLNMT 203 (458)
Q Consensus 185 ---~~~~~~~~il~~a~~~g~~ 203 (458)
........+...|+++||.
T Consensus 137 ~~~L~~~~l~el~~~A~~LGm~ 158 (254)
T COG0134 137 VAALDDEQLEELVDRAHELGME 158 (254)
T ss_pred HHhcCHHHHHHHHHHHHHcCCe
Confidence 3445689999999999996
No 467
>PRK09193 indolepyruvate ferredoxin oxidoreductase; Validated
Probab=22.51 E-value=4.5e+02 Score=30.48 Aligned_cols=92 Identities=11% Similarity=-0.016 Sum_probs=58.3
Q ss_pred cCCeEEEEEeCCCC---CCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHHHHhcCCeE
Q psy17441 42 SERVYAVIVSHPLT---GDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVELLKHFNYMK 118 (458)
Q Consensus 42 ~~~V~aiIG~~~~~---s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~ll~~~~w~~ 118 (458)
++.|++.|| +.+ |+ .......+++..+|..+-........+.... .|.. .....|.++++.-|-++
T Consensus 499 ~~hv~a~iG--DgTffHSG-~~al~~AV~~~~nit~~IL~N~~vAMTGgQ~-------~~g~-~~~~~i~~~~~a~GV~~ 567 (1165)
T PRK09193 499 EKHVFQNLG--DGTYFHSG-LLAIRAAVAAGVNITYKILYNDAVAMTGGQP-------VDGG-LSVPQITRQLAAEGVKR 567 (1165)
T ss_pred CCcEEEEec--cccchhcC-HHHHHHHHhcCCCeEEEEEeCCcccccCCCC-------CCCC-cchhhHHHHHHhCCCCE
Confidence 367999999 544 33 4456777888888876544433333443321 1222 23567788999999999
Q ss_pred EEEEEecCc-ch-------------hHHHHHHHHhh-hccC
Q psy17441 119 VIFIHSSDT-DG-------------RALLGRFQTTS-QNQE 144 (458)
Q Consensus 119 v~ii~~~d~-~g-------------~~~~~~l~~~l-~~~g 144 (458)
|.++.+|-. |. ++-++.+++++ +..|
T Consensus 568 v~vv~ddp~~~~~~~~~~~~v~~~~R~~l~~vq~~lr~~~G 608 (1165)
T PRK09193 568 IVVVTDEPEKYDGVARLAPGVTVHHRDELDAVQRELREIPG 608 (1165)
T ss_pred EEEeCCChhhhhhccccCcCcccccHHHHHHHHHHHhcCCC
Confidence 999865532 21 22378888888 5555
No 468
>PF00107 ADH_zinc_N: Zinc-binding dehydrogenase; InterPro: IPR013149 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of alcohols to their corresponding acetaldehyde or ketone with the concomitant reduction of NAD: alcohol + NAD = aldehyde or ketone + NADH 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. Zinc-containing ADH's [, ] are dimeric or tetrameric enzymes that bind two atoms of zinc per subunit. One of the zinc atom is essential for catalytic activity while the other is not. Both zinc atoms are coordinated by either cysteine or histidine residues; the catalytic zinc is coordinated by two cysteines and one histidine. Zinc-containing ADH's are found in bacteria, mammals, plants, and in fungi. In many species there is more than one isozyme (for example, humans have at least six isozymes, yeast have three, etc.). A number of other zinc-dependent dehydrogenases are closely related to zinc ADH [] and are included in this family. Sorbitol dehydrogenase (1.1.1.14 from EC) L-threonine 3-dehydrogenase (1.1.1.103 from EC) Glutathione-dependent formaldehyde dehydrogenase (1.1.1.284 from EC) Mannitol dehydrogenase (1.1.1.255 from EC) In addition, this family includes NADP-dependent quinone oxidoreductase (1.6.5.5 from EC), an enzyme found in bacteria (gene qor), in yeast and in mammals where, in some species such as rodents, it has been recruited as an eye lens protein and is known as zeta-crystallin []. The sequence of quinone oxidoreductase is distantly related to that other zinc-containing alcohol dehydrogenases and it lacks the zinc-ligand residues. The torpedo fish and mammalian synaptic vesicle membrane protein vat-1 is related to qor. This entry represents the cofactor-binding domain of these enzymes, which is normally found towards the C terminus. Structural studies indicate that it forms a classical Rossman fold that reversibly binds NAD(H) [, , ].; GO: 0008270 zinc ion binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3PI7_A 3COS_D 1VJ1_A 2ZB3_A 1PIW_B 1Q1N_A 1PS0_A 2EER_B 3KRT_A 1ZSY_A ....
Probab=22.23 E-value=2.3e+02 Score=22.60 Aligned_cols=74 Identities=15% Similarity=0.104 Sum_probs=41.7
Q ss_pred HHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhc-cCeEEE
Q psy17441 104 ADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNA-QARVYL 182 (458)
Q Consensus 104 ~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~-~~~vii 182 (458)
+...+.+++++| .+|.++..++. - .+.+++.| . ...+.....++.+.++++... ++++++
T Consensus 3 G~~a~q~ak~~G-~~vi~~~~~~~-k-------~~~~~~~G------a----~~~~~~~~~~~~~~i~~~~~~~~~d~vi 63 (130)
T PF00107_consen 3 GLMAIQLAKAMG-AKVIATDRSEE-K-------LELAKELG------A----DHVIDYSDDDFVEQIRELTGGRGVDVVI 63 (130)
T ss_dssp HHHHHHHHHHTT-SEEEEEESSHH-H-------HHHHHHTT------E----SEEEETTTSSHHHHHHHHTTTSSEEEEE
T ss_pred HHHHHHHHHHcC-CEEEEEECCHH-H-------HHHHHhhc------c----cccccccccccccccccccccccceEEE
Confidence 456678899999 66666654331 1 23344544 1 112334555688888777664 677777
Q ss_pred EEeC-hhhHHHHHHH
Q psy17441 183 MYAS-KQDAEIIFKD 196 (458)
Q Consensus 183 l~~~-~~~~~~il~~ 196 (458)
-+.. .......+..
T Consensus 64 d~~g~~~~~~~~~~~ 78 (130)
T PF00107_consen 64 DCVGSGDTLQEAIKL 78 (130)
T ss_dssp ESSSSHHHHHHHHHH
T ss_pred EecCcHHHHHHHHHH
Confidence 6655 3333333333
No 469
>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain. Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.
Probab=22.14 E-value=2.8e+02 Score=28.29 Aligned_cols=37 Identities=3% Similarity=-0.001 Sum_probs=24.2
Q ss_pred cCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccc
Q psy17441 177 QARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQAL 216 (458)
Q Consensus 177 ~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~ 216 (458)
.+|..+++.+...+..+++++.+.|.. .+|+.++++.
T Consensus 64 ~~Dlavi~vp~~~~~~~l~e~~~~gv~---~~vi~s~gf~ 100 (447)
T TIGR02717 64 PVDLAVIVVPAKYVPQVVEECGEKGVK---GAVVITAGFK 100 (447)
T ss_pred CCCEEEEecCHHHHHHHHHHHHhcCCC---EEEEECCCcc
Confidence 466777777777777777777776654 4666665543
No 470
>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=22.10 E-value=4e+02 Score=24.93 Aligned_cols=61 Identities=13% Similarity=0.068 Sum_probs=38.1
Q ss_pred EEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC--CCcccHHHHHHHHHhccCeEEEEEeC
Q psy17441 119 VIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE--PGLTTFKDQLYEMKNAQARVYLMYAS 186 (458)
Q Consensus 119 v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~--~~~~d~~~~l~~ik~~~~~viil~~~ 186 (458)
++++..+ +.|.......+++.+++.|. .+... ... .+.......++.+.+.++|.||+...
T Consensus 2 igvvvp~~~n~f~~~~~~gi~~~a~~~g~------~v~~~-~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~ 66 (295)
T TIGR02955 2 LCALYPHLKDSYWLSINYGMVEQAKHLGV------ELKVL-EAGGYPNLDKQLAQIEQCKSWGADAILLGTV 66 (295)
T ss_pred eeEEecCCCcHHHHHHHHHHHHHHHHhCC------EEEEE-cCCCCCCHHHHHHHHHHHHHcCCCEEEEecC
Confidence 5566543 55777888889999998872 22211 111 12223446777778889999988653
No 471
>PRK13957 indole-3-glycerol-phosphate synthase; Provisional
Probab=22.08 E-value=6.5e+02 Score=23.43 Aligned_cols=87 Identities=14% Similarity=0.079 Sum_probs=54.6
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMY 184 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~ 184 (458)
..++......|-.-++++++.+-|| +..+.++..-+... ..+-....+ .|- .++.+.+..++|.|++.
T Consensus 64 ~~~A~~y~~~GA~aISVlTe~~~F~-Gs~~~l~~v~~~v~------~PvL~KDFI----id~-~QI~ea~~~GADavLLI 131 (247)
T PRK13957 64 VQIAKTYETLGASAISVLTDQSYFG-GSLEDLKSVSSELK------IPVLRKDFI----LDE-IQIREARAFGASAILLI 131 (247)
T ss_pred HHHHHHHHHCCCcEEEEEcCCCcCC-CCHHHHHHHHHhcC------CCEEecccc----CCH-HHHHHHHHcCCCEEEeE
Confidence 3566777888888999998776443 33455555444322 111111111 122 34455666899999887
Q ss_pred eCh---hhHHHHHHHHHhcCCc
Q psy17441 185 ASK---QDAEIIFKDAQYLNMT 203 (458)
Q Consensus 185 ~~~---~~~~~il~~a~~~g~~ 203 (458)
... .+...++..|.++||.
T Consensus 132 ~~~L~~~~l~~l~~~a~~lGle 153 (247)
T PRK13957 132 VRILTPSQIKSFLKHASSLGMD 153 (247)
T ss_pred HhhCCHHHHHHHHHHHHHcCCc
Confidence 443 4688899999999996
No 472
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=21.64 E-value=6e+02 Score=27.50 Aligned_cols=93 Identities=6% Similarity=0.030 Sum_probs=50.4
Q ss_pred CchhHHHHHHHHHHh----cCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHH
Q psy17441 99 PYSHQADVWVELLKH----FNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMK 174 (458)
Q Consensus 99 ~~~~~~~ai~~ll~~----~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik 174 (458)
+....++.+++.+.. ..=++|.++..+. | .+.+.+.|++.|..|. ....+....+.........+.++.
T Consensus 118 ~~~~~se~Ll~~l~~~~~~~~g~rVLi~rG~~--g---r~~L~~~L~~~Ga~V~--~v~vY~~~~~~~~~~~~~~~~~~l 190 (656)
T PRK06975 118 EARYDSEALFAEIDAAFGALAGKRVLIVRGDG--G---REWLAERLREAGAEVE--LVEAYRRVVPEPSIGAWERVHALL 190 (656)
T ss_pred CCccchHHHHHhHHHhccCCCCCEEEEEcCCC--C---cHHHHHHHHHCCCEEE--EEeEEEeeCCCcchhHHHHHHHHH
Confidence 344567788887754 2346777776443 3 4667788988885552 122232222211111112333333
Q ss_pred hccCeEEEEEeChhhHHHHHHHHHh
Q psy17441 175 NAQARVYLMYASKQDAEIIFKDAQY 199 (458)
Q Consensus 175 ~~~~~viil~~~~~~~~~il~~a~~ 199 (458)
+.+.++ +++.++..++.++..+.+
T Consensus 191 ~~~ida-v~fTS~s~v~~f~~la~~ 214 (656)
T PRK06975 191 SGAPHA-WLLTSSEAVRNLDELARA 214 (656)
T ss_pred hCCCcE-EEECCHHHHHHHHHHHHh
Confidence 344555 446777888888876543
No 473
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=21.59 E-value=3.3e+02 Score=23.55 Aligned_cols=11 Identities=0% Similarity=-0.139 Sum_probs=4.9
Q ss_pred HHHHHhhhccC
Q psy17441 134 GRFQTTSQNQE 144 (458)
Q Consensus 134 ~~l~~~l~~~g 144 (458)
..+.+.+++.|
T Consensus 22 ~~l~~~L~~~G 32 (170)
T cd00885 22 AFLAKELAELG 32 (170)
T ss_pred HHHHHHHHHCC
Confidence 34444444444
No 474
>PRK09492 treR trehalose repressor; Provisional
Probab=21.55 E-value=6.7e+02 Score=23.48 Aligned_cols=63 Identities=13% Similarity=0.036 Sum_probs=41.1
Q ss_pred eEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeC
Q psy17441 117 MKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYAS 186 (458)
Q Consensus 117 ~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~ 186 (458)
+.|+++..+ +.|.......+.+.+++.|.. +... ....+.......++.+.+.+.+.+|+...
T Consensus 63 ~~Ig~i~~~~~~~~~~~~~~~i~~~~~~~gy~------~~~~-~~~~~~~~~~~~~~~l~~~~vdgiIi~~~ 127 (315)
T PRK09492 63 KVVGIIVSRLDSLSENQAVRTMLPAFYEQGYD------PIIM-ESQFSPEKVNEHLGVLKRRNVDGVILFGF 127 (315)
T ss_pred CeEEEEecCCcCcccHHHHHHHHHHHHHcCCe------EEEE-ecCCChHHHHHHHHHHHhcCCCEEEEeCC
Confidence 468888864 456778889999999998832 2111 11122233446677788888999988753
No 475
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=21.49 E-value=1.3e+02 Score=27.80 Aligned_cols=66 Identities=15% Similarity=0.053 Sum_probs=40.0
Q ss_pred HHhhcCCeEEEEEeCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHHHHH
Q psy17441 38 KFLISERVYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVWVEL 110 (458)
Q Consensus 38 ~~l~~~~V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai~~l 110 (458)
+++...+..-||- ...+-..=.++...|...++|+||.+.+...+. |+-+++.--.......+++.
T Consensus 115 ~~~~~~~~DyvID--aiD~v~~Kv~Li~~c~~~ki~vIss~Gag~k~D-----PTri~v~DiskT~~DPLa~~ 180 (263)
T COG1179 115 EDLLSKGFDYVID--AIDSVRAKVALIAYCRRNKIPVISSMGAGGKLD-----PTRIQVADISKTIQDPLAAK 180 (263)
T ss_pred HHHhcCCCCEEEE--chhhhHHHHHHHHHHHHcCCCEEeeccccCCCC-----CceEEeeechhhccCcHHHH
Confidence 3444567777776 555422334677789999999999888765431 66566554333333333433
No 476
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=21.48 E-value=5.4e+02 Score=24.27 Aligned_cols=66 Identities=6% Similarity=0.036 Sum_probs=42.7
Q ss_pred CCeEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh
Q psy17441 115 NYMKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK 187 (458)
Q Consensus 115 ~w~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~ 187 (458)
.-+.|+++..+ +.|.......+.+.+++.|. .+.. .....+.......++.+.+.++|.+|+....
T Consensus 55 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~------~~~~-~~~~~~~~~~~~~~~~l~~~~vdGiI~~~~~ 122 (327)
T PRK10423 55 QTRTIGMLITASTNPFYSELVRGVERSCFERGY------SLVL-CNTEGDEQRMNRNLETLMQKRVDGLLLLCTE 122 (327)
T ss_pred CCCeEEEEeCCCCCCcHHHHHHHHHHHHHHcCC------EEEE-EeCCCCHHHHHHHHHHHHHcCCCEEEEeCCC
Confidence 34578888754 46778889999999998872 2211 1112223334466777778889999987543
No 477
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=21.36 E-value=49 Score=27.28 Aligned_cols=22 Identities=23% Similarity=0.608 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhcC
Q psy17441 297 WILVMVSVHVVALVLYLLDRFS 318 (458)
Q Consensus 297 W~~i~~~~~~~~~~~~~~~~~~ 318 (458)
|++++++++++.++++++.+++
T Consensus 2 W~l~~iii~~i~l~~~~~~~~~ 23 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCHN 23 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHHH
Confidence 8888888888888888888875
No 478
>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=21.33 E-value=7e+02 Score=23.54 Aligned_cols=122 Identities=11% Similarity=0.002 Sum_probs=68.0
Q ss_pred CCCchhHHHHHHHHHHhcCCeEEEEEEecCcchh----HHHHHHHHhhhccCCcceeeEEEEEEEEe-CCCcccH-----
Q psy17441 97 VPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGR----ALLGRFQTTSQNQEDDVEIKVQVEAVIEF-EPGLTTF----- 166 (458)
Q Consensus 97 ~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~----~~~~~l~~~l~~~gi~v~~~~~v~~~~~~-~~~~~d~----- 166 (458)
.+.....+..++...+.+|-+.++-+....+-.. ...+.+++..++.|+ +......- |.+..+.
T Consensus 112 ~~D~~~~G~~i~~~Ak~mGAktFVh~sfprhms~~~l~~Rr~~M~~~C~~lGi------~fv~~taPDP~sd~gv~gaqq 185 (275)
T PF12683_consen 112 NPDEISRGYTIVWAAKKMGAKTFVHYSFPRHMSYELLARRRDIMEEACKDLGI------KFVEVTAPDPTSDVGVAGAQQ 185 (275)
T ss_dssp E--HHHHHHHHHHHHHHTT-S-EEEEEETTGGGSHHHHHHHHHHHHHHHHCT--------EEEEEE---SSTCHHHHHHH
T ss_pred ccchhhccHHHHHHHHHcCCceEEEEechhhcchHHHHHHHHHHHHHHHHcCC------eEEEEeCCCCCCCCCcHHHHH
Confidence 4667778889999999999999999865554333 335678888888883 33332221 2222221
Q ss_pred ---HHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeeccccccC-CCCCeeEEEEec
Q psy17441 167 ---KDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQALTAK-NVPVGIIGLKLV 231 (458)
Q Consensus 167 ---~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~~~~-~~~~g~~g~~~~ 231 (458)
..+-+.+++-+.++-+.+++...-..+++++.+.|.. +.+....++ ..+-|.+|+...
T Consensus 186 fIlE~vp~~i~kYGkdtaff~TN~a~~epllk~~~~~g~i-------~~e~~~psp~~~yp~alGi~~~ 247 (275)
T PF12683_consen 186 FILEDVPKWIKKYGKDTAFFCTNDAMTEPLLKQALEYGGI-------FPEADLPSPLMGYPGALGIDIS 247 (275)
T ss_dssp HHHHHHHHHHHHH-S--EEEESSHHHHHHHHHHHHHH--B-------B---SS--TTTTHHHHCT----
T ss_pred HHHHHHHHHHHHhCCceeEEecCccccHHHHHHHHHcCCE-------EEeCCCCChhhhhhHHhCcccc
Confidence 2233467788999999999999999999999988743 222222222 235677777765
No 479
>PLN02460 indole-3-glycerol-phosphate synthase
Probab=21.19 E-value=2.3e+02 Score=27.67 Aligned_cols=88 Identities=9% Similarity=0.034 Sum_probs=57.1
Q ss_pred HHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhc-cCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEE
Q psy17441 104 ADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQN-QEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYL 182 (458)
Q Consensus 104 ~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~-~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~vii 182 (458)
...+++.....|-.-++++++.+ |..+..+.|++.-+. .. ..+-....+ -| .-++.+.+..++|.|+
T Consensus 141 p~~iA~~Ye~~GA~aISVLTd~~-~F~Gs~e~L~~vr~~~v~------lPvLrKDFI----ID-~yQI~eAr~~GADAVL 208 (338)
T PLN02460 141 PVEIAQAYEKGGAACLSVLTDEK-YFQGSFENLEAIRNAGVK------CPLLCKEFI----VD-AWQIYYARSKGADAIL 208 (338)
T ss_pred HHHHHHHHHhCCCcEEEEecCcC-cCCCCHHHHHHHHHcCCC------CCEeecccc----CC-HHHHHHHHHcCCCcHH
Confidence 35677778888999999998776 444555666554332 12 111111111 01 2455667788999998
Q ss_pred EE---eChhhHHHHHHHHHhcCCc
Q psy17441 183 MY---ASKQDAEIIFKDAQYLNMT 203 (458)
Q Consensus 183 l~---~~~~~~~~il~~a~~~g~~ 203 (458)
|. .+..+...+++.|+++||.
T Consensus 209 LIaaiL~~~~L~~l~~~A~~LGme 232 (338)
T PLN02460 209 LIAAVLPDLDIKYMLKICKSLGMA 232 (338)
T ss_pred HHHHhCCHHHHHHHHHHHHHcCCe
Confidence 76 3445789999999999996
No 480
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=21.15 E-value=1.3e+02 Score=24.73 Aligned_cols=33 Identities=9% Similarity=0.103 Sum_probs=18.9
Q ss_pred ccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEee
Q psy17441 176 AQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVT 212 (458)
Q Consensus 176 ~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t 212 (458)
...+.+++.+...+...+++.+++.|. .++++.
T Consensus 94 ~~~d~ivLvSgD~Df~~~v~~l~~~g~----~V~v~~ 126 (146)
T PF01936_consen 94 NPPDTIVLVSGDSDFAPLVRKLRERGK----RVIVVG 126 (146)
T ss_dssp GG-SEEEEE---GGGHHHHHHHHHH------EEEEEE
T ss_pred cCCCEEEEEECcHHHHHHHHHHHHcCC----EEEEEE
Confidence 335777777666777788888887775 356655
No 481
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=21.09 E-value=7.2e+02 Score=23.63 Aligned_cols=78 Identities=8% Similarity=0.020 Sum_probs=47.5
Q ss_pred eEEEEEEec--CcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeChhhHHHHH
Q psy17441 117 MKVIFIHSS--DTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASKQDAEIIF 194 (458)
Q Consensus 117 ~~v~ii~~~--d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~~~~~~il 194 (458)
+.++++..+ +.|.......+++.+++.|. .+... ....+.....+.++.+.+.+++.|++.+... ....+
T Consensus 60 ~~i~vi~~~~~~~~~~~~~~gi~~~~~~~g~------~~~~~-~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~~~ 131 (341)
T PRK10703 60 KSIGLLATSSEAPYFAEIIEAVEKNCYQKGY------TLILC-NAWNNLEKQRAYLSMLAQKRVDGLLVMCSEY-PEPLL 131 (341)
T ss_pred CeEEEEeCCCCCchHHHHHHHHHHHHHHCCC------EEEEE-eCCCCHHHHHHHHHHHHHcCCCEEEEecCCC-CHHHH
Confidence 468888754 56888889999999998872 21111 1111233345666777778899998875432 22344
Q ss_pred HHHHh-cCC
Q psy17441 195 KDAQY-LNM 202 (458)
Q Consensus 195 ~~a~~-~g~ 202 (458)
..+.+ .|.
T Consensus 132 ~~l~~~~~i 140 (341)
T PRK10703 132 AMLEEYRHI 140 (341)
T ss_pred HHHHhcCCC
Confidence 55555 454
No 482
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=20.87 E-value=4.9e+02 Score=21.58 Aligned_cols=85 Identities=7% Similarity=-0.040 Sum_probs=46.4
Q ss_pred EEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCCCcccHHHHHHHHHhccCeEEEEEeCh----hhHHHH
Q psy17441 118 KVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEPGLTTFKDQLYEMKNAQARVYLMYASK----QDAEII 193 (458)
Q Consensus 118 ~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~viil~~~~----~~~~~i 193 (458)
+|.+.....+...-...-+...++.+|. .+.+ +- ......+.++.+++.++++|.+.+.. ..+..+
T Consensus 5 ~vl~~~~~gD~H~lG~~iv~~~lr~~G~------eVi~---LG-~~vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~~~ 74 (137)
T PRK02261 5 TVVLGVIGADCHAVGNKILDRALTEAGF------EVIN---LG-VMTSQEEFIDAAIETDADAILVSSLYGHGEIDCRGL 74 (137)
T ss_pred EEEEEeCCCChhHHHHHHHHHHHHHCCC------EEEE---CC-CCCCHHHHHHHHHHcCCCEEEEcCccccCHHHHHHH
Confidence 4444444444444445666667777772 2211 11 12335566667777788888765433 356667
Q ss_pred HHHHHhcCCcccceEEEeec
Q psy17441 194 FKDAQYLNMTETGYVWIVTE 213 (458)
Q Consensus 194 l~~a~~~g~~~~~~~wi~t~ 213 (458)
+.+.++.++.+ -.+|+...
T Consensus 75 ~~~L~~~~~~~-~~i~vGG~ 93 (137)
T PRK02261 75 REKCIEAGLGD-ILLYVGGN 93 (137)
T ss_pred HHHHHhcCCCC-CeEEEECC
Confidence 77777776643 23444443
No 483
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=20.75 E-value=93 Score=26.92 Aligned_cols=31 Identities=6% Similarity=-0.036 Sum_probs=24.2
Q ss_pred eEEEEEeCCCCCCCchHHHHHhhcccCCcEEeee
Q psy17441 45 VYAVIVSHPLTGDLSPAAVSYTSGFYHIPVIGIS 78 (458)
Q Consensus 45 V~aiIG~~~~~s~~~~~~~~~i~~~~~iP~Is~~ 78 (458)
|+.++| +.+|+ =+.....++..+++++|+.+
T Consensus 1 ~i~i~G--~pGsG-Kst~a~~la~~~~~~~is~~ 31 (183)
T TIGR01359 1 VVFVLG--GPGSG-KGTQCAKIVENFGFTHLSAG 31 (183)
T ss_pred CEEEEC--CCCCC-HHHHHHHHHHHcCCeEEECC
Confidence 467888 77776 56667788999999999854
No 484
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=20.61 E-value=7.1e+02 Score=23.34 Aligned_cols=80 Identities=11% Similarity=0.030 Sum_probs=47.5
Q ss_pred HHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeCC---CcccHHHHHHHHHhccCeEE
Q psy17441 105 DVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFEP---GLTTFKDQLYEMKNAQARVY 181 (458)
Q Consensus 105 ~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~~---~~~d~~~~l~~ik~~~~~vi 181 (458)
.++|+.++..|. ++.++..++. ..+.+.+++.| ..+. .++. ..+|....++.+++.+++++
T Consensus 21 l~LA~~l~~~g~-~v~f~~~~~~------~~~~~~i~~~g------~~v~---~~~~~~~~~~d~~~~~~~l~~~~~d~v 84 (279)
T TIGR03590 21 LTLARALHAQGA-EVAFACKPLP------GDLIDLLLSAG------FPVY---ELPDESSRYDDALELINLLEEEKFDIL 84 (279)
T ss_pred HHHHHHHHHCCC-EEEEEeCCCC------HHHHHHHHHcC------CeEE---EecCCCchhhhHHHHHHHHHhcCCCEE
Confidence 477787776674 6666665542 22345566666 2221 1221 23466777778888899999
Q ss_pred EEEeChhhHHHHHHHHHhcC
Q psy17441 182 LMYASKQDAEIIFKDAQYLN 201 (458)
Q Consensus 182 il~~~~~~~~~il~~a~~~g 201 (458)
|++.+.-+.. ..+..++.+
T Consensus 85 V~D~y~~~~~-~~~~~k~~~ 103 (279)
T TIGR03590 85 IVDHYGLDAD-WEKLIKEFG 103 (279)
T ss_pred EEcCCCCCHH-HHHHHHHhC
Confidence 9998754433 455555444
No 485
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=20.58 E-value=7e+02 Score=23.29 Aligned_cols=99 Identities=8% Similarity=0.044 Sum_probs=55.2
Q ss_pred hHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEE--EeCCCcccHHHHHHHHHhccCe
Q psy17441 102 HQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVI--EFEPGLTTFKDQLYEMKNAQAR 179 (458)
Q Consensus 102 ~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~--~~~~~~~d~~~~l~~ik~~~~~ 179 (458)
+...++.+....- -++|.++....+-.....+.++..... ..++... .+++ .+. ..++++|++++++
T Consensus 95 Dl~~~Ll~~a~~~-~~~vfllGgkp~V~~~a~~~l~~~~p~--------l~ivg~h~GYf~~-~e~-~~i~~~I~~s~pd 163 (253)
T COG1922 95 DLVEALLKRAAEE-GKRVFLLGGKPGVAEQAAAKLRAKYPG--------LKIVGSHDGYFDP-EEE-EAIVERIAASGPD 163 (253)
T ss_pred HHHHHHHHHhCcc-CceEEEecCCHHHHHHHHHHHHHHCCC--------ceEEEecCCCCCh-hhH-HHHHHHHHhcCCC
Confidence 3444444444333 256777766554444555555555543 2233222 2332 223 5888999999999
Q ss_pred EEEEEeChhhHHHHHHHHHhcCCcccceEEEeecc
Q psy17441 180 VYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQ 214 (458)
Q Consensus 180 viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~ 214 (458)
++++....+.-...+.+-++.--. -+++...+
T Consensus 164 il~VgmG~P~QE~wi~~~~~~~~~---~v~igVGg 195 (253)
T COG1922 164 ILLVGMGVPRQEIWIARNRQQLPV---AVAIGVGG 195 (253)
T ss_pred EEEEeCCCchhHHHHHHhHHhcCC---ceEEeccc
Confidence 999986665555555544433222 46776654
No 486
>PF03162 Y_phosphatase2: Tyrosine phosphatase family; InterPro: IPR004861 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry represents protein-tyrosine phosphatases predominantly from fungi, plants and bacteria, several of which are putative enzymes. These proteins are closely related to the Y-phosphatase and DSPc families. This entry includes the PTPase SIW14 from Saccharomyces cerevisiae (Baker's yeast), which plays a role in actin filament organisation and endocytosis.; PDB: 2Q47_A 1XRI_A.
Probab=20.38 E-value=3e+02 Score=23.67 Aligned_cols=85 Identities=8% Similarity=0.128 Sum_probs=39.4
Q ss_pred cceeecCCCchhHHHHHHHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe----CCCcccH
Q psy17441 91 VSFLRTVPPYSHQADVWVELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF----EPGLTTF 166 (458)
Q Consensus 91 p~~~r~~p~~~~~~~ai~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~----~~~~~d~ 166 (458)
+-+||...++... ..+++.+|-|.|.-+..++. . ....+.++++||.. ..+.....- +...+.+
T Consensus 12 ~~vYRS~~P~~~n----~~fL~~L~LKTII~L~~e~~-~----~~~~~f~~~~~I~l---~~~~~~~~~~~~~~~~~~~v 79 (164)
T PF03162_consen 12 PGVYRSAQPTPAN----FPFLERLGLKTIINLRPEPP-S----QDFLEFAEENGIKL---IHIPMSSSKDPWVPISEEQV 79 (164)
T ss_dssp TTEEEESS--HHH----HHHHHHHT-SEEEE--SS--------HHHHHHHHHTT-EE---EE-------GGG----HHHH
T ss_pred CCccCCCCCChhh----HHHHHHCCCceEEEecCCCC-C----HHHHHHHhhcCceE---EEeccccccCccccCCHHHH
Confidence 4678887665432 35788899999999986553 2 23344667777433 111111111 1134456
Q ss_pred HHHHHHHHhccCeEEEEEeCh
Q psy17441 167 KDQLYEMKNAQARVYLMYASK 187 (458)
Q Consensus 167 ~~~l~~ik~~~~~viil~~~~ 187 (458)
.+.|+-|.+....-|+++|..
T Consensus 80 ~~aL~~ild~~n~PvLiHC~~ 100 (164)
T PF03162_consen 80 AEALEIILDPRNYPVLIHCNH 100 (164)
T ss_dssp HHHHHHHH-GGG-SEEEE-SS
T ss_pred HHHHHHHhCCCCCCEEEEeCC
Confidence 667766666555556666633
No 487
>COG3946 VirJ Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]
Probab=20.36 E-value=4.2e+02 Score=26.65 Aligned_cols=70 Identities=20% Similarity=0.098 Sum_probs=44.9
Q ss_pred CCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEe-C-CC----cccHHHHHHHHHh-ccCeEEEEEeCh
Q psy17441 115 NYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEF-E-PG----LTTFKDQLYEMKN-AQARVYLMYASK 187 (458)
Q Consensus 115 ~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~-~-~~----~~d~~~~l~~ik~-~~~~viil~~~~ 187 (458)
+-..++++|+.|..++++-+.+.+.|++.|+.| +-+.....| + .. ..|..++++.-.+ -+.+-+++.++.
T Consensus 258 ~sd~~av~~SGDGGWr~lDk~v~~~l~~~gvpV---vGvdsLRYfW~~rtPe~~a~Dl~r~i~~y~~~w~~~~~~liGyS 334 (456)
T COG3946 258 NSDTVAVFYSGDGGWRDLDKEVAEALQKQGVPV---VGVDSLRYFWSERTPEQIAADLSRLIRFYARRWGAKRVLLIGYS 334 (456)
T ss_pred CcceEEEEEecCCchhhhhHHHHHHHHHCCCce---eeeehhhhhhccCCHHHHHHHHHHHHHHHHHhhCcceEEEEeec
Confidence 367899999999888899999999999999665 222222222 1 12 2345555554332 455666666655
No 488
>KOG3193|consensus
Probab=20.23 E-value=26 Score=35.80 Aligned_cols=47 Identities=13% Similarity=0.300 Sum_probs=40.3
Q ss_pred ccccccchhHHHHHHHhhccCCCCCCCCchhhHHHHHHHHHHHHHHH
Q psy17441 333 EDALNLSSAIWFAWGVLLNSGIGEGTPRSFSARVLGMVWAGFAMIIV 379 (458)
Q Consensus 333 ~~~~~~~~~~w~~~~~l~~~g~~~~~p~s~~~Ri~~~~w~~~~~i~~ 379 (458)
+.+..+..+++|+..++.+.|+++..|.-+++.+-.++....+++++
T Consensus 213 ~k~i~lf~s~y~v~vtfstvgygd~~pd~w~sql~~vi~icval~~i 259 (1087)
T KOG3193|consen 213 GKRIDLFTSFYFVMVTFSTVGYGDWYPDYWASQLCVVILICVALGLI 259 (1087)
T ss_pred CceeeeeeeEEEEEEEEeeccccccccccchhhHHHHHHHHHHHhcc
Confidence 44567889999999999999999999999999998877777777764
No 489
>COG0763 LpxB Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]
Probab=20.07 E-value=2.1e+02 Score=28.37 Aligned_cols=50 Identities=6% Similarity=-0.045 Sum_probs=39.7
Q ss_pred HHHHHHHHhccCeEEEEEeChhhHHHHHHHHHhcCCcccceEEEeecccc
Q psy17441 167 KDQLYEMKNAQARVYLMYASKQDAEIIFKDAQYLNMTETGYVWIVTEQAL 216 (458)
Q Consensus 167 ~~~l~~ik~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~wi~t~~~~ 216 (458)
++.++.+.+.++|++|+.-+++--..+.+..++.|...+--+||.++-|.
T Consensus 75 ~~~~~~i~~~kpD~~i~IDsPdFnl~vak~lrk~~p~i~iihYV~PsVWA 124 (381)
T COG0763 75 RELVRYILANKPDVLILIDSPDFNLRVAKKLRKAGPKIKIIHYVSPSVWA 124 (381)
T ss_pred HHHHHHHHhcCCCEEEEeCCCCCchHHHHHHHHhCCCCCeEEEECcceee
Confidence 34445666789999999888877788999999999766667888888775
No 490
>PLN00125 Succinyl-CoA ligase [GDP-forming] subunit alpha
Probab=20.03 E-value=7.8e+02 Score=23.62 Aligned_cols=143 Identities=12% Similarity=0.027 Sum_probs=80.4
Q ss_pred HHHHHHHHHHhhcCCeEEEEE--eCCCCCCCchHHHHHhhcccCCcEEeeecCCCCCCCCccccceeecCCCchhHHHHH
Q psy17441 30 ILTALSVCKFLISERVYAVIV--SHPLTGDLSPAAVSYTSGFYHIPVIGISSRDSAFSDKNIHVSFLRTVPPYSHQADVW 107 (458)
Q Consensus 30 ~~~~~~~~~~l~~~~V~aiIG--~~~~~s~~~~~~~~~i~~~~~iP~Is~~a~~~~ls~~~~~p~~~r~~p~~~~~~~ai 107 (458)
...+..+.++..+.+|-++|- .|-.... .-..+..++..+++.+|.|++..- ++... -+..+.+..
T Consensus 79 a~~v~~al~e~~~~Gvk~~vIisaGf~e~g-~~~~~~~~ar~~girviGPNc~Gi-i~~~~---~~~~~~~~~------- 146 (300)
T PLN00125 79 PPFAAAAILEAMEAELDLVVCITEGIPQHD-MVRVKAALNRQSKTRLIGPNCPGI-IKPGE---CKIGIMPGY------- 146 (300)
T ss_pred HHHHHHHHHHHHHcCCCEEEEECCCCCccc-HHHHHHHHHhhcCCEEECCCCcee-ecccc---cceeecCCC-------
Confidence 344555556666677654432 1221111 123444568889999999988431 11111 111222221
Q ss_pred HHHHHhcCCeEEEEEEecCcchhHHHHHHHHhhhccCCcceeeEEEEEEEEeC-C--CcccHHHHHHHHHh-ccCeEEEE
Q psy17441 108 VELLKHFNYMKVIFIHSSDTDGRALLGRFQTTSQNQEDDVEIKVQVEAVIEFE-P--GLTTFKDQLYEMKN-AQARVYLM 183 (458)
Q Consensus 108 ~~ll~~~~w~~v~ii~~~d~~g~~~~~~l~~~l~~~gi~v~~~~~v~~~~~~~-~--~~~d~~~~l~~ik~-~~~~viil 183 (458)
...--+|++|......+ ..+...+.++|+.+ ...+..- . .+.++.+.|+-+.+ ..+++|++
T Consensus 147 -----~~~~G~ValiSQSG~l~----~~l~~~~~~~giG~------S~~VS~Gn~~~adv~~~d~L~yl~~Dp~T~~I~l 211 (300)
T PLN00125 147 -----IHKPGRIGIVSRSGTLT----YEAVFQTTAVGLGQ------STCVGIGGDPFNGTNFVDCLEKFVKDPQTEGIIL 211 (300)
T ss_pred -----CCCCCcEEEEeCCccHH----HHHHHHHHHcCCCe------EEEEEeCCCCCCCCCHHHHHHHHhhCCCCcEEEE
Confidence 12346799998776554 33445555566332 2222221 1 34567888888754 78999999
Q ss_pred EeCh-----hhHHHHHHHHHh
Q psy17441 184 YASK-----QDAEIIFKDAQY 199 (458)
Q Consensus 184 ~~~~-----~~~~~il~~a~~ 199 (458)
+... .+.+.|+.++++
T Consensus 212 y~E~~G~~~~d~~~f~~aa~~ 232 (300)
T PLN00125 212 IGEIGGTAEEDAAAFIKESGT 232 (300)
T ss_pred EeccCCchHHHHHHHHHHhcC
Confidence 9884 578999988764
Done!