Query 008863
Match_columns 550
No_of_seqs 281 out of 2762
Neff 10.5
Searched_HMMs 46136
Date Thu Mar 28 17:32:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008863.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008863hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1054 Glutamate-gated AMPA-t 100.0 7.3E-61 1.6E-65 451.1 33.9 453 33-547 25-514 (897)
2 KOG4440 NMDA selective glutama 100.0 4.4E-52 9.6E-57 393.8 30.5 438 31-548 32-539 (993)
3 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 4.8E-47 1E-51 370.6 36.9 342 36-407 1-363 (364)
4 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 1.1E-46 2.5E-51 366.7 39.0 343 36-407 1-371 (372)
5 cd06392 PBP1_iGluR_delta_1 N-t 100.0 1.9E-46 4.2E-51 365.9 38.7 348 36-408 1-399 (400)
6 KOG1053 Glutamate-gated NMDA-t 100.0 2.3E-45 4.9E-50 361.0 40.2 396 77-547 80-532 (1258)
7 cd06362 PBP1_mGluR Ligand bind 100.0 2.4E-45 5.1E-50 374.5 38.7 361 34-408 2-451 (452)
8 cd06364 PBP1_CaSR Ligand-bindi 100.0 7E-45 1.5E-49 371.6 41.5 360 31-404 9-494 (510)
9 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 5.4E-45 1.2E-49 358.0 38.8 342 36-408 1-370 (371)
10 cd06393 PBP1_iGluR_Kainate_Glu 100.0 3.7E-45 8.1E-50 364.1 38.2 353 34-408 2-382 (384)
11 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 4.4E-45 9.5E-50 359.7 37.4 348 36-408 1-369 (370)
12 cd06365 PBP1_Pheromone_recepto 100.0 5.8E-45 1.3E-49 370.0 38.6 358 34-404 2-453 (469)
13 cd06374 PBP1_mGluR_groupI Liga 100.0 6.3E-45 1.4E-49 371.6 39.1 358 32-403 7-464 (472)
14 cd06361 PBP1_GPC6A_like Ligand 100.0 1.8E-44 3.9E-49 358.7 39.3 331 47-406 33-396 (403)
15 cd06375 PBP1_mGluR_groupII Lig 100.0 2.3E-44 5E-49 364.1 40.1 354 34-403 2-454 (458)
16 cd06376 PBP1_mGluR_groupIII Li 100.0 2.4E-44 5.2E-49 366.8 39.7 357 34-403 2-452 (463)
17 cd06380 PBP1_iGluR_AMPA N-term 100.0 4E-44 8.7E-49 357.7 39.1 350 36-407 1-381 (382)
18 cd06366 PBP1_GABAb_receptor Li 100.0 5.4E-44 1.2E-48 353.0 38.7 338 36-408 1-347 (350)
19 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 7.7E-44 1.7E-48 354.6 38.4 316 33-403 18-363 (377)
20 cd06367 PBP1_iGluR_NMDA N-term 100.0 6.3E-44 1.4E-48 353.6 34.8 321 34-403 2-351 (362)
21 cd06391 PBP1_iGluR_delta_2 N-t 100.0 3.9E-43 8.5E-48 346.7 39.0 356 36-408 1-399 (400)
22 cd06386 PBP1_NPR_C_like Ligand 100.0 1.4E-42 3.1E-47 345.3 39.6 347 37-403 2-378 (387)
23 cd06394 PBP1_iGluR_Kainate_KA1 100.0 9E-44 2E-48 341.0 28.6 325 36-408 1-332 (333)
24 cd06372 PBP1_GC_G_like Ligand- 100.0 8.7E-42 1.9E-46 341.8 40.1 356 36-403 1-385 (391)
25 cd06363 PBP1_Taste_receptor Li 100.0 1.4E-41 3E-46 341.6 39.1 340 32-404 4-396 (410)
26 cd06370 PBP1_Speract_GC_like L 100.0 9.3E-42 2E-46 342.1 37.2 351 35-398 1-389 (404)
27 cd06352 PBP1_NPR_GC_like Ligan 100.0 2.8E-41 6E-46 338.7 38.4 358 36-406 1-384 (389)
28 cd06373 PBP1_NPR_like Ligand b 100.0 2.9E-41 6.4E-46 338.5 36.4 356 36-403 1-388 (396)
29 cd06385 PBP1_NPR_A Ligand-bind 100.0 6.7E-41 1.5E-45 336.8 38.4 352 36-403 1-390 (405)
30 cd06382 PBP1_iGluR_Kainate N-t 100.0 1.3E-41 2.8E-46 332.6 30.5 319 36-407 1-326 (327)
31 cd06371 PBP1_sensory_GC_DEF_li 100.0 4.9E-40 1.1E-44 326.2 35.9 341 36-399 1-367 (382)
32 cd06384 PBP1_NPR_B Ligand-bind 100.0 3.2E-39 6.9E-44 323.5 38.0 353 36-403 1-391 (399)
33 cd06381 PBP1_iGluR_delta_like 100.0 5.6E-39 1.2E-43 313.7 37.1 337 36-407 1-362 (363)
34 PRK15404 leucine ABC transport 100.0 7.9E-38 1.7E-42 309.0 38.0 334 33-394 24-363 (369)
35 KOG1056 Glutamate-gated metabo 100.0 6.5E-38 1.4E-42 318.7 36.3 382 31-447 28-494 (878)
36 cd06368 PBP1_iGluR_non_NMDA_li 100.0 6.6E-38 1.4E-42 306.4 32.8 319 36-407 1-323 (324)
37 PF01094 ANF_receptor: Recepto 100.0 3.5E-38 7.6E-43 312.2 29.8 329 51-391 2-348 (348)
38 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 3.3E-37 7.2E-42 303.1 35.2 327 36-390 1-334 (334)
39 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 6.8E-37 1.5E-41 298.6 30.9 328 34-408 2-354 (362)
40 cd06338 PBP1_ABC_ligand_bindin 100.0 2.2E-36 4.7E-41 298.4 34.5 325 36-389 1-344 (345)
41 cd06345 PBP1_ABC_ligand_bindin 100.0 2.2E-36 4.7E-41 297.9 33.8 322 36-383 1-339 (344)
42 cd06346 PBP1_ABC_ligand_bindin 100.0 4.6E-36 9.9E-41 291.1 30.3 302 36-386 1-309 (312)
43 cd06348 PBP1_ABC_ligand_bindin 100.0 4.6E-35 1E-39 288.6 35.4 325 36-386 1-342 (344)
44 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 1E-34 2.2E-39 278.1 36.3 320 33-406 17-373 (382)
45 cd06340 PBP1_ABC_ligand_bindin 100.0 1.7E-35 3.7E-40 291.4 31.4 323 36-383 1-342 (347)
46 cd06355 PBP1_FmdD_like Peripla 100.0 1.6E-34 3.4E-39 284.3 35.0 337 36-398 1-345 (348)
47 cd06383 PBP1_iGluR_AMPA_Like N 100.0 1E-35 2.2E-40 291.4 25.3 314 46-385 9-355 (368)
48 cd06350 PBP1_GPCR_family_C_lik 100.0 8.3E-35 1.8E-39 287.6 32.0 306 36-404 1-340 (348)
49 cd06343 PBP1_ABC_ligand_bindin 100.0 4.7E-34 1E-38 283.5 36.0 343 31-395 3-362 (362)
50 TIGR03669 urea_ABC_arch urea A 100.0 6.5E-34 1.4E-38 280.2 34.8 341 35-402 1-349 (374)
51 cd06347 PBP1_ABC_ligand_bindin 100.0 1.6E-33 3.4E-38 277.1 35.9 318 36-381 1-327 (334)
52 cd06344 PBP1_ABC_ligand_bindin 100.0 5.1E-34 1.1E-38 279.5 31.9 318 36-382 1-326 (332)
53 COG0683 LivK ABC-type branched 100.0 9.4E-34 2E-38 279.4 33.8 337 33-393 9-355 (366)
54 cd06331 PBP1_AmiC_like Type I 100.0 8.5E-34 1.9E-38 278.1 32.9 319 36-381 1-326 (333)
55 cd06329 PBP1_SBP_like_3 Peripl 100.0 1.2E-33 2.7E-38 277.7 32.4 314 36-378 1-332 (342)
56 TIGR03407 urea_ABC_UrtA urea A 100.0 3.7E-33 8E-38 275.6 35.0 336 35-396 1-344 (359)
57 PF13458 Peripla_BP_6: Peripla 100.0 1.2E-33 2.7E-38 278.9 31.5 334 34-393 1-342 (343)
58 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 1.8E-33 3.8E-38 276.1 32.2 315 36-403 1-322 (328)
59 cd06349 PBP1_ABC_ligand_bindin 100.0 6E-33 1.3E-37 273.1 35.8 331 36-395 1-340 (340)
60 cd06327 PBP1_SBP_like_1 Peripl 100.0 2.3E-33 5E-38 275.2 31.1 318 36-380 1-327 (334)
61 cd06330 PBP1_Arsenic_SBP_like 100.0 6.1E-33 1.3E-37 273.8 31.2 320 36-380 1-336 (346)
62 cd06357 PBP1_AmiC Periplasmic 100.0 4.3E-32 9.3E-37 268.1 36.6 339 36-399 1-347 (360)
63 cd06336 PBP1_ABC_ligand_bindin 100.0 6.5E-33 1.4E-37 273.0 30.6 321 36-383 1-342 (347)
64 cd06359 PBP1_Nba_like Type I p 100.0 2.2E-32 4.8E-37 267.9 33.9 326 36-388 1-331 (333)
65 cd06328 PBP1_SBP_like_2 Peripl 100.0 4.8E-32 1E-36 265.1 32.7 316 36-379 1-324 (333)
66 cd06360 PBP1_alkylbenzenes_lik 100.0 1.3E-31 2.8E-36 263.6 34.4 325 36-383 1-330 (336)
67 cd06335 PBP1_ABC_ligand_bindin 100.0 1.1E-31 2.4E-36 264.3 32.4 323 36-379 1-337 (347)
68 cd06358 PBP1_NHase Type I peri 100.0 3E-31 6.5E-36 260.0 33.6 316 36-379 1-324 (333)
69 cd06356 PBP1_Amide_Urea_BP_lik 100.0 3E-31 6.4E-36 259.7 33.3 317 36-380 1-326 (334)
70 cd06332 PBP1_aromatic_compound 100.0 2.5E-30 5.3E-35 254.3 33.8 320 36-381 1-325 (333)
71 cd06334 PBP1_ABC_ligand_bindin 100.0 4.5E-31 9.8E-36 259.0 27.4 325 36-380 1-348 (351)
72 cd06337 PBP1_ABC_ligand_bindin 100.0 3.9E-30 8.5E-35 254.0 31.1 329 36-395 1-357 (357)
73 PF13433 Peripla_BP_5: Peripla 100.0 5.4E-30 1.2E-34 239.7 29.1 337 35-398 1-346 (363)
74 cd06326 PBP1_STKc_like Type I 100.0 1.9E-28 4.2E-33 241.0 33.7 320 35-379 1-329 (336)
75 cd06269 PBP1_glutamate_recepto 100.0 2.2E-28 4.8E-33 236.4 27.3 279 36-403 1-291 (298)
76 cd06339 PBP1_YraM_LppC_lipopro 100.0 3E-28 6.6E-33 238.1 25.4 302 36-380 1-329 (336)
77 KOG1055 GABA-B ion channel rec 100.0 1.7E-28 3.8E-33 241.9 19.6 356 30-406 37-432 (865)
78 cd06341 PBP1_ABC_ligand_bindin 100.0 7.5E-27 1.6E-31 230.0 30.9 326 36-388 1-339 (341)
79 TIGR03863 PQQ_ABC_bind ABC tra 100.0 8.5E-27 1.9E-31 226.3 26.7 299 48-390 10-315 (347)
80 cd04509 PBP1_ABC_transporter_G 100.0 1.9E-26 4.2E-31 222.9 27.5 284 36-338 1-290 (299)
81 KOG1052 Glutamate-gated kainat 100.0 1.4E-26 3.1E-31 246.1 26.3 282 224-547 6-310 (656)
82 cd06333 PBP1_ABC-type_HAAT_lik 99.9 6.6E-25 1.4E-29 213.3 30.4 278 36-340 1-293 (312)
83 cd06268 PBP1_ABC_transporter_L 99.9 2.7E-23 5.9E-28 200.8 28.7 279 36-340 1-287 (298)
84 cd06369 PBP1_GC_C_enterotoxin_ 99.9 3E-22 6.6E-27 187.0 29.0 324 48-406 17-367 (380)
85 PF10613 Lig_chan-Glu_bd: Liga 99.8 1.5E-21 3.2E-26 134.7 3.1 57 467-526 1-65 (65)
86 cd01391 Periplasmic_Binding_Pr 99.6 1E-13 2.2E-18 131.3 24.2 216 36-271 1-220 (269)
87 PF04348 LppC: LppC putative l 99.4 1.4E-11 3.1E-16 125.8 21.0 309 33-390 218-533 (536)
88 cd01537 PBP1_Repressors_Sugar_ 98.8 4E-07 8.8E-12 85.9 19.7 198 36-258 1-203 (264)
89 cd06267 PBP1_LacI_sugar_bindin 98.8 8.6E-07 1.9E-11 83.6 19.4 205 36-266 1-210 (264)
90 cd01536 PBP1_ABC_sugar_binding 98.8 3.2E-06 7E-11 79.9 23.3 197 36-258 1-206 (267)
91 COG2984 ABC-type uncharacteriz 98.7 6.8E-06 1.5E-10 75.7 22.5 201 33-257 29-240 (322)
92 COG3107 LppC Putative lipoprot 98.7 1.4E-06 3.1E-11 84.5 18.4 312 33-397 256-602 (604)
93 cd06320 PBP1_allose_binding Pe 98.7 1.1E-05 2.3E-10 76.8 23.5 200 36-258 1-207 (275)
94 cd06300 PBP1_ABC_sugar_binding 98.6 6.2E-06 1.3E-10 78.3 21.3 202 36-259 1-210 (272)
95 cd06325 PBP1_ABC_uncharacteriz 98.6 6.2E-06 1.3E-10 78.7 20.2 201 36-257 1-208 (281)
96 PRK10797 glutamate and asparta 98.5 2.5E-07 5.4E-12 88.8 6.0 82 453-548 40-126 (302)
97 PRK15437 histidine ABC transpo 98.4 4.2E-07 9.2E-12 85.5 6.3 78 453-546 26-103 (259)
98 cd06282 PBP1_GntR_like_2 Ligan 98.4 3.7E-05 8E-10 72.6 19.4 196 36-259 1-202 (266)
99 PF00497 SBP_bac_3: Bacterial 98.4 3.1E-07 6.7E-12 84.4 4.5 77 455-547 1-77 (225)
100 cd06323 PBP1_ribose_binding Pe 98.4 0.00014 3.1E-09 68.7 22.4 196 36-257 1-205 (268)
101 PRK15007 putative ABC transpor 98.3 9.4E-07 2E-11 82.4 6.5 80 452-547 20-99 (243)
102 PRK15010 ABC transporter lysin 98.3 9E-07 1.9E-11 83.4 6.2 80 452-547 25-104 (260)
103 PRK11917 bifunctional adhesin/ 98.3 1.5E-06 3.2E-11 81.7 7.3 83 452-547 37-120 (259)
104 cd06319 PBP1_ABC_sugar_binding 98.3 0.00017 3.8E-09 68.5 21.5 198 36-258 1-210 (277)
105 PF13407 Peripla_BP_4: Peripla 98.3 0.00029 6.3E-09 66.2 22.5 204 37-260 1-209 (257)
106 PRK10653 D-ribose transporter 98.3 0.00097 2.1E-08 64.1 26.2 200 34-257 26-231 (295)
107 cd01545 PBP1_SalR Ligand-bindi 98.3 0.00012 2.5E-09 69.4 19.4 202 36-259 1-205 (270)
108 cd06273 PBP1_GntR_like_1 This 98.2 0.00014 3E-09 68.8 19.5 197 36-260 1-205 (268)
109 cd06310 PBP1_ABC_sugar_binding 98.2 0.00073 1.6E-08 64.1 24.3 208 36-266 1-215 (273)
110 PRK09495 glnH glutamine ABC tr 98.2 1.6E-06 3.6E-11 80.9 5.6 79 452-547 24-102 (247)
111 cd06317 PBP1_ABC_sugar_binding 98.2 0.0003 6.6E-09 66.7 21.1 203 36-258 1-212 (275)
112 TIGR01096 3A0103s03R lysine-ar 98.2 2.3E-06 5.1E-11 80.1 6.3 78 453-546 24-101 (250)
113 cd06301 PBP1_rhizopine_binding 98.2 0.00063 1.4E-08 64.5 22.3 211 36-267 1-217 (272)
114 cd06309 PBP1_YtfQ_like Peripla 98.2 0.00065 1.4E-08 64.5 22.0 210 36-265 1-217 (273)
115 cd06312 PBP1_ABC_sugar_binding 98.1 0.00098 2.1E-08 63.2 22.9 199 36-258 1-208 (271)
116 PRK10936 TMAO reductase system 98.1 0.0049 1.1E-07 60.6 27.3 203 32-258 44-255 (343)
117 cd06289 PBP1_MalI_like Ligand- 98.1 0.00055 1.2E-08 64.6 19.4 200 36-260 1-205 (268)
118 PRK15395 methyl-galactoside AB 98.1 0.0038 8.2E-08 61.0 25.5 209 33-257 23-249 (330)
119 cd06298 PBP1_CcpA_like Ligand- 98.1 0.00078 1.7E-08 63.6 20.3 199 36-260 1-204 (268)
120 cd06305 PBP1_methylthioribose_ 98.0 0.0013 2.8E-08 62.3 21.8 200 36-259 1-209 (273)
121 COG1879 RbsB ABC-type sugar tr 98.0 0.0049 1.1E-07 60.1 26.1 210 34-259 33-245 (322)
122 TIGR02995 ectoine_ehuB ectoine 98.0 5.7E-06 1.2E-10 78.6 4.9 80 452-547 32-111 (275)
123 cd06271 PBP1_AglR_RafR_like Li 98.0 0.0011 2.4E-08 62.5 19.9 200 37-260 2-208 (268)
124 TIGR02285 conserved hypothetic 98.0 1.3E-05 2.9E-10 75.8 6.3 78 452-547 17-95 (268)
125 PF00532 Peripla_BP_1: Peripla 98.0 0.0011 2.3E-08 63.1 19.1 204 36-263 3-211 (279)
126 PRK11260 cystine transporter s 97.9 1.5E-05 3.2E-10 75.4 6.1 79 452-546 40-118 (266)
127 cd06284 PBP1_LacI_like_6 Ligan 97.9 0.0016 3.4E-08 61.5 19.8 196 37-259 2-202 (267)
128 PRK10859 membrane-bound lytic 97.9 1.5E-05 3.2E-10 81.8 6.2 80 451-547 41-120 (482)
129 cd01539 PBP1_GGBP Periplasmic 97.9 0.0062 1.3E-07 58.8 23.8 210 36-260 1-228 (303)
130 cd06275 PBP1_PurR Ligand-bindi 97.9 0.0022 4.7E-08 60.6 20.0 201 36-259 1-204 (269)
131 cd06321 PBP1_ABC_sugar_binding 97.9 0.0078 1.7E-07 56.9 23.8 205 36-267 1-213 (271)
132 cd06303 PBP1_LuxPQ_Quorum_Sens 97.9 0.0054 1.2E-07 58.4 22.7 211 36-266 1-222 (280)
133 cd06288 PBP1_sucrose_transcrip 97.9 0.0013 2.8E-08 62.1 18.3 206 36-266 1-210 (269)
134 cd06311 PBP1_ABC_sugar_binding 97.9 0.0094 2E-07 56.5 24.1 205 36-259 1-211 (274)
135 cd06295 PBP1_CelR Ligand bindi 97.9 0.0027 5.9E-08 60.2 20.2 198 34-258 3-211 (275)
136 cd01575 PBP1_GntR Ligand-bindi 97.8 0.0027 5.8E-08 59.9 19.8 199 36-260 1-204 (268)
137 TIGR03870 ABC_MoxJ methanol ox 97.8 2.2E-05 4.7E-10 73.2 5.1 67 455-542 2-71 (246)
138 cd06322 PBP1_ABC_sugar_binding 97.8 0.009 2E-07 56.3 23.2 194 37-257 2-203 (267)
139 PRK09701 D-allose transporter 97.8 0.036 7.9E-07 53.6 27.6 207 36-258 26-241 (311)
140 cd06270 PBP1_GalS_like Ligand 97.8 0.005 1.1E-07 58.1 21.1 200 36-259 1-203 (268)
141 TIGR01481 ccpA catabolite cont 97.8 0.0036 7.9E-08 61.2 20.6 200 33-260 58-263 (329)
142 cd01542 PBP1_TreR_like Ligand- 97.8 0.0043 9.3E-08 58.2 20.4 200 37-266 2-206 (259)
143 cd06308 PBP1_sensor_kinase_lik 97.8 0.011 2.4E-07 55.9 23.0 209 36-268 1-216 (270)
144 cd06283 PBP1_RegR_EndR_KdgR_li 97.8 0.0062 1.3E-07 57.4 21.1 201 36-260 1-205 (267)
145 cd06294 PBP1_ycjW_transcriptio 97.8 0.0038 8.2E-08 59.0 19.3 201 36-259 1-209 (270)
146 cd01574 PBP1_LacI Ligand-bindi 97.7 0.011 2.4E-07 55.6 22.0 196 36-258 1-199 (264)
147 cd06274 PBP1_FruR Ligand bindi 97.7 0.0095 2.1E-07 56.1 21.6 207 36-265 1-210 (264)
148 cd06306 PBP1_TorT-like TorT-li 97.7 0.011 2.5E-07 55.7 21.9 198 36-257 1-207 (268)
149 cd06292 PBP1_LacI_like_10 Liga 97.7 0.011 2.4E-07 56.0 21.6 201 37-259 2-207 (273)
150 cd06299 PBP1_LacI_like_13 Liga 97.7 0.0073 1.6E-07 56.9 20.2 200 36-259 1-201 (265)
151 cd06293 PBP1_LacI_like_11 Liga 97.7 0.0078 1.7E-07 56.9 20.4 206 36-265 1-209 (269)
152 cd01540 PBP1_arabinose_binding 97.7 0.016 3.4E-07 55.4 22.6 213 36-266 1-227 (289)
153 PRK10355 xylF D-xylose transpo 97.7 0.042 9E-07 53.7 25.5 202 33-258 24-236 (330)
154 cd06324 PBP1_ABC_sugar_binding 97.7 0.014 3.1E-07 56.3 22.1 205 37-259 2-228 (305)
155 PRK10014 DNA-binding transcrip 97.6 0.01 2.2E-07 58.3 21.2 204 33-259 63-269 (342)
156 cd06285 PBP1_LacI_like_7 Ligan 97.6 0.011 2.4E-07 55.6 20.5 202 36-266 1-209 (265)
157 cd06296 PBP1_CatR_like Ligand- 97.6 0.0068 1.5E-07 57.2 19.1 207 36-266 1-212 (270)
158 cd06278 PBP1_LacI_like_2 Ligan 97.6 0.0082 1.8E-07 56.5 19.6 193 37-256 2-197 (266)
159 cd06281 PBP1_LacI_like_5 Ligan 97.6 0.0053 1.1E-07 58.0 18.1 199 36-259 1-202 (269)
160 PRK10703 DNA-binding transcrip 97.6 0.015 3.2E-07 57.2 21.0 202 33-259 58-265 (341)
161 PRK15408 autoinducer 2-binding 97.6 0.058 1.3E-06 52.7 24.7 201 35-258 24-234 (336)
162 PF04392 ABC_sub_bind: ABC tra 97.6 0.0079 1.7E-07 57.6 18.4 185 36-242 1-194 (294)
163 PRK11303 DNA-binding transcrip 97.6 0.025 5.3E-07 55.3 22.4 200 33-260 60-265 (328)
164 cd06316 PBP1_ABC_sugar_binding 97.5 0.041 8.9E-07 52.7 23.3 205 36-257 1-210 (294)
165 smart00062 PBPb Bacterial peri 97.5 0.00017 3.7E-09 65.2 6.4 75 455-545 2-76 (219)
166 cd06290 PBP1_LacI_like_9 Ligan 97.5 0.014 3E-07 55.0 19.3 199 36-259 1-202 (265)
167 PRK10423 transcriptional repre 97.5 0.033 7.2E-07 54.3 22.1 201 33-260 55-262 (327)
168 cd06286 PBP1_CcpB_like Ligand- 97.5 0.018 3.9E-07 54.0 19.4 196 36-259 1-201 (260)
169 cd06277 PBP1_LacI_like_1 Ligan 97.5 0.026 5.6E-07 53.2 20.3 198 36-258 1-202 (268)
170 cd06313 PBP1_ABC_sugar_binding 97.4 0.063 1.4E-06 50.8 22.9 174 68-257 29-207 (272)
171 COG1609 PurR Transcriptional r 97.4 0.034 7.4E-07 54.2 21.3 202 33-261 57-265 (333)
172 cd01538 PBP1_ABC_xylose_bindin 97.4 0.072 1.6E-06 50.9 23.4 202 36-259 1-216 (288)
173 cd01541 PBP1_AraR Ligand-bindi 97.4 0.023 5E-07 53.8 19.7 205 37-266 2-216 (273)
174 PRK09959 hybrid sensory histid 97.4 0.00023 5E-09 82.4 6.8 81 452-546 55-135 (1197)
175 PRK10727 DNA-binding transcrip 97.4 0.04 8.6E-07 54.2 21.8 203 33-260 58-264 (343)
176 cd06272 PBP1_hexuronate_repres 97.4 0.02 4.2E-07 53.8 18.9 196 36-260 1-199 (261)
177 TIGR02955 TMAO_TorT TMAO reduc 97.4 0.075 1.6E-06 51.0 23.0 198 36-258 1-208 (295)
178 COG0834 HisJ ABC-type amino ac 97.4 0.00025 5.4E-09 67.4 5.6 60 486-547 57-116 (275)
179 TIGR02417 fruct_sucro_rep D-fr 97.3 0.046 9.9E-07 53.3 21.2 208 33-266 59-271 (327)
180 cd06297 PBP1_LacI_like_12 Liga 97.3 0.029 6.3E-07 53.0 18.8 201 36-265 1-212 (269)
181 cd06280 PBP1_LacI_like_4 Ligan 97.3 0.043 9.4E-07 51.5 19.9 199 36-265 1-204 (263)
182 cd06314 PBP1_tmGBP Periplasmic 97.3 0.17 3.8E-06 47.7 24.0 198 36-258 1-204 (271)
183 cd06318 PBP1_ABC_sugar_binding 97.3 0.14 3.1E-06 48.5 23.2 200 36-258 1-215 (282)
184 cd00134 PBPb Bacterial peripla 97.3 0.00045 9.8E-09 62.5 5.6 68 464-545 8-75 (218)
185 PRK09526 lacI lac repressor; R 97.3 0.1 2.3E-06 51.2 22.7 202 33-261 62-268 (342)
186 cd06291 PBP1_Qymf_like Ligand 97.2 0.059 1.3E-06 50.7 19.9 193 36-258 1-198 (265)
187 cd06279 PBP1_LacI_like_3 Ligan 97.2 0.042 9.1E-07 52.3 19.0 195 37-259 2-221 (283)
188 cd06307 PBP1_uncharacterized_s 97.2 0.21 4.6E-06 47.1 23.4 210 36-266 1-217 (275)
189 cd06302 PBP1_LsrB_Quorum_Sensi 97.2 0.24 5.2E-06 47.6 24.0 203 36-258 1-210 (298)
190 PRK09959 hybrid sensory histid 97.1 0.00083 1.8E-08 77.9 7.0 78 454-547 303-380 (1197)
191 cd06304 PBP1_BmpA_like Peripla 97.1 0.065 1.4E-06 50.3 18.5 199 36-256 1-202 (260)
192 PRK14987 gluconate operon tran 97.1 0.11 2.3E-06 50.9 20.7 206 33-265 62-271 (331)
193 PRK10401 DNA-binding transcrip 97.1 0.12 2.7E-06 50.8 21.3 201 33-260 58-264 (346)
194 cd01543 PBP1_XylR Ligand-bindi 97.0 0.064 1.4E-06 50.5 18.2 203 36-267 1-206 (265)
195 PRK09492 treR trehalose repres 97.0 0.19 4.2E-06 48.6 21.7 191 33-257 61-256 (315)
196 TIGR03871 ABC_peri_MoxJ_2 quin 97.0 0.0013 2.8E-08 60.7 6.0 52 488-545 19-70 (232)
197 PRK11041 DNA-binding transcrip 96.9 0.15 3.2E-06 49.2 20.2 209 33-266 34-246 (309)
198 cd06354 PBP1_BmpA_PnrA_like Pe 96.8 0.33 7.2E-06 45.6 20.7 196 36-256 1-206 (265)
199 cd01544 PBP1_GalR Ligand-bindi 96.6 0.44 9.6E-06 44.9 19.8 192 36-260 1-206 (270)
200 TIGR02634 xylF D-xylose ABC tr 96.5 0.62 1.3E-05 44.8 20.4 199 37-258 1-209 (302)
201 TIGR02405 trehalos_R_Ecol treh 96.3 0.9 1.9E-05 43.9 20.8 191 33-257 58-253 (311)
202 COG1744 Med Uncharacterized AB 96.2 1.3 2.8E-05 43.3 20.8 206 33-259 34-246 (345)
203 cd06353 PBP1_BmpA_Med_like Per 96.2 0.38 8.2E-06 45.0 16.7 193 36-257 1-201 (258)
204 cd06315 PBP1_ABC_sugar_binding 95.9 1.7 3.6E-05 41.2 21.3 205 36-259 2-215 (280)
205 TIGR02637 RhaS rhamnose ABC tr 95.6 2.3 4.9E-05 40.8 24.1 201 37-259 1-211 (302)
206 PF12683 DUF3798: Protein of u 94.1 4.6 0.0001 37.0 17.7 212 34-257 2-224 (275)
207 TIGR02990 ectoine_eutA ectoine 94.0 0.66 1.4E-05 42.5 10.6 97 154-257 107-207 (239)
208 PRK10339 DNA-binding transcrip 94.0 6.5 0.00014 38.2 19.2 146 96-260 113-261 (327)
209 cd06287 PBP1_LacI_like_8 Ligan 93.6 6.6 0.00014 36.9 19.8 149 95-261 54-206 (269)
210 COG3473 Maleate cis-trans isom 93.3 5.1 0.00011 35.1 13.8 95 156-257 107-205 (238)
211 cd06353 PBP1_BmpA_Med_like Per 92.7 2.2 4.7E-05 39.9 12.2 89 35-130 121-209 (258)
212 TIGR00035 asp_race aspartate r 91.2 3.2 6.9E-05 38.0 11.3 46 81-127 59-104 (229)
213 PF02608 Bmp: Basic membrane p 90.4 17 0.00038 34.9 17.4 199 35-258 2-213 (306)
214 PRK10200 putative racemase; Pr 90.0 4.4 9.5E-05 37.0 10.9 47 79-126 57-103 (230)
215 COG1464 NlpA ABC-type metal io 89.4 1.8 4E-05 39.6 7.7 74 1-87 1-75 (268)
216 PF13377 Peripla_BP_3: Peripla 88.7 2.9 6.3E-05 35.5 8.5 92 159-258 1-93 (160)
217 PF03808 Glyco_tran_WecB: Glyc 88.3 13 0.00028 32.2 12.2 100 153-270 35-136 (172)
218 cd06276 PBP1_FucR_like Ligand- 87.2 24 0.00053 32.5 19.2 185 37-260 2-189 (247)
219 PF02608 Bmp: Basic membrane p 86.8 4 8.8E-05 39.2 9.1 91 35-130 127-222 (306)
220 COG1454 EutG Alcohol dehydroge 86.7 5 0.00011 39.4 9.5 94 154-254 16-110 (377)
221 COG4213 XylF ABC-type xylose t 86.2 30 0.00066 32.6 18.6 205 33-260 24-244 (341)
222 PRK09860 putative alcohol dehy 85.9 7.1 0.00015 38.9 10.5 91 154-251 18-109 (383)
223 cd06533 Glyco_transf_WecG_TagA 85.2 10 0.00023 32.7 9.9 102 152-269 32-133 (171)
224 PRK11063 metQ DL-methionine tr 85.1 3.1 6.7E-05 39.1 7.1 81 1-102 5-85 (271)
225 TIGR01098 3A0109s03R phosphate 84.3 1.1 2.4E-05 41.7 3.8 51 486-539 46-96 (254)
226 PRK15454 ethanol dehydrogenase 84.2 9.3 0.0002 38.2 10.4 81 154-242 36-116 (395)
227 PF13685 Fe-ADH_2: Iron-contai 83.4 9.2 0.0002 35.4 9.2 100 156-267 8-107 (250)
228 COG1744 Med Uncharacterized AB 83.1 23 0.0005 34.6 12.3 92 34-130 161-252 (345)
229 cd08192 Fe-ADH7 Iron-containin 83.0 12 0.00025 37.2 10.6 91 155-252 12-103 (370)
230 cd08189 Fe-ADH5 Iron-containin 83.0 12 0.00025 37.3 10.5 92 154-252 13-105 (374)
231 cd08190 HOT Hydroxyacid-oxoaci 82.4 7.8 0.00017 39.1 9.1 76 155-237 11-86 (414)
232 PRK10624 L-1,2-propanediol oxi 82.2 8.5 0.00018 38.4 9.3 90 154-250 17-107 (382)
233 PF01177 Asp_Glu_race: Asp/Glu 81.5 39 0.00085 30.3 14.9 126 91-255 59-199 (216)
234 cd08551 Fe-ADH iron-containing 81.4 15 0.00034 36.4 10.8 91 155-252 11-102 (370)
235 cd08194 Fe-ADH6 Iron-containin 79.9 18 0.00039 36.0 10.6 77 154-237 10-86 (375)
236 cd08193 HVD 5-hydroxyvalerate 79.9 11 0.00024 37.5 9.1 89 155-251 14-104 (376)
237 KOG3857 Alcohol dehydrogenase, 78.6 16 0.00035 34.8 8.8 92 139-237 38-133 (465)
238 TIGR02638 lactal_redase lactal 78.6 12 0.00027 37.2 9.0 77 154-237 16-92 (379)
239 cd08185 Fe-ADH1 Iron-containin 77.7 24 0.00051 35.2 10.7 90 155-252 14-105 (380)
240 PF00465 Fe-ADH: Iron-containi 75.5 9.8 0.00021 37.7 7.4 90 155-254 11-102 (366)
241 TIGR03431 PhnD phosphonate ABC 75.4 18 0.00039 34.3 9.0 87 1-104 1-87 (288)
242 cd08181 PPD-like 1,3-propanedi 75.3 29 0.00062 34.3 10.5 76 155-237 14-89 (357)
243 cd08188 Fe-ADH4 Iron-containin 75.0 31 0.00068 34.3 10.8 77 154-237 15-91 (377)
244 TIGR00696 wecB_tagA_cpsF bacte 75.0 41 0.00089 29.2 10.1 87 152-254 34-122 (177)
245 KOG3307 Molybdopterin converti 74.8 1.4 3E-05 34.4 0.8 31 488-522 113-143 (150)
246 PRK00856 pyrB aspartate carbam 74.4 57 0.0012 31.3 11.8 136 35-203 46-187 (305)
247 TIGR02122 TRAP_TAXI TRAP trans 73.9 11 0.00024 36.3 7.3 38 1-44 1-41 (320)
248 TIGR03850 bind_CPR_0540 carboh 73.8 12 0.00027 38.0 7.8 24 53-76 48-71 (437)
249 cd08176 LPO Lactadehyde:propan 73.5 29 0.00062 34.6 10.1 77 154-237 15-91 (377)
250 PF13407 Peripla_BP_4: Peripla 73.0 10 0.00022 35.1 6.6 79 170-257 1-81 (257)
251 TIGR01098 3A0109s03R phosphate 72.9 11 0.00024 34.9 6.7 18 220-237 183-200 (254)
252 cd08191 HHD 6-hydroxyhexanoate 72.6 40 0.00087 33.6 10.9 87 156-251 12-100 (386)
253 COG1794 RacX Aspartate racemas 72.2 75 0.0016 28.6 14.4 131 80-258 58-190 (230)
254 PRK15424 propionate catabolism 72.0 92 0.002 32.6 13.5 134 81-267 48-181 (538)
255 PF06506 PrpR_N: Propionate ca 71.8 67 0.0014 27.9 12.1 128 81-258 18-145 (176)
256 COG0426 FpaA Uncharacterized f 70.4 1.2E+02 0.0025 30.1 16.1 150 34-204 212-363 (388)
257 cd08171 GlyDH-like2 Glycerol d 70.4 33 0.00072 33.6 9.6 74 155-237 11-84 (345)
258 TIGR02329 propionate_PrpR prop 69.7 1.1E+02 0.0025 31.9 13.6 135 80-267 37-171 (526)
259 PRK15116 sulfur acceptor prote 69.2 1E+02 0.0022 28.9 12.1 114 48-177 82-208 (268)
260 cd08187 BDH Butanol dehydrogen 68.1 47 0.001 33.1 10.2 76 155-237 17-92 (382)
261 PRK15395 methyl-galactoside AB 67.9 1.1E+02 0.0023 29.8 12.6 124 33-164 161-293 (330)
262 PRK00489 hisG ATP phosphoribos 66.4 2.8 6E-05 39.9 1.1 32 515-546 51-82 (287)
263 cd08170 GlyDH Glycerol dehydro 66.0 43 0.00093 32.9 9.4 72 156-237 12-83 (351)
264 PRK09423 gldA glycerol dehydro 65.9 56 0.0012 32.3 10.3 73 155-237 18-90 (366)
265 cd08186 Fe-ADH8 Iron-containin 64.9 36 0.00079 33.9 8.7 91 155-251 11-105 (383)
266 PRK03692 putative UDP-N-acetyl 64.7 63 0.0014 29.8 9.5 88 153-255 92-180 (243)
267 PRK07475 hypothetical protein; 63.8 61 0.0013 30.0 9.4 58 68-126 39-106 (245)
268 cd06354 PBP1_BmpA_PnrA_like Pe 63.8 1.3E+02 0.0027 28.0 13.9 121 34-160 121-241 (265)
269 cd06301 PBP1_rhizopine_binding 63.1 36 0.00077 31.7 8.1 79 169-257 1-82 (272)
270 COG4143 TbpA ABC-type thiamine 62.9 1.5E+02 0.0032 28.5 12.2 148 1-194 1-153 (336)
271 PRK15408 autoinducer 2-binding 62.7 48 0.001 32.3 9.0 83 166-257 22-106 (336)
272 COG0563 Adk Adenylate kinase a 62.4 15 0.00033 32.0 4.9 30 99-128 3-32 (178)
273 TIGR02136 ptsS_2 phosphate bin 61.8 25 0.00054 33.4 6.7 66 1-75 1-70 (287)
274 cd06312 PBP1_ABC_sugar_binding 61.8 38 0.00081 31.6 8.0 80 169-257 1-83 (271)
275 cd08182 HEPD Hydroxyethylphosp 61.4 54 0.0012 32.5 9.2 88 155-252 11-99 (367)
276 TIGR00670 asp_carb_tr aspartat 61.4 1.2E+02 0.0026 29.1 11.0 134 35-203 40-181 (301)
277 PRK00779 ornithine carbamoyltr 61.1 1.5E+02 0.0033 28.4 11.8 131 35-204 44-182 (304)
278 PF02602 HEM4: Uroporphyrinoge 59.8 33 0.00071 31.2 7.0 93 148-255 97-190 (231)
279 COG4623 Predicted soluble lyti 59.7 15 0.00032 35.6 4.5 56 488-546 44-99 (473)
280 cd06305 PBP1_methylthioribose_ 59.4 54 0.0012 30.4 8.6 77 170-257 2-81 (273)
281 TIGR00363 lipoprotein, YaeC fa 59.0 28 0.0006 32.5 6.2 55 33-102 18-72 (258)
282 COG1609 PurR Transcriptional r 58.7 1.5E+02 0.0032 28.9 11.6 121 35-163 176-304 (333)
283 cd08550 GlyDH-like Glycerol_de 58.5 85 0.0018 30.8 10.0 73 155-237 11-83 (349)
284 TIGR00658 orni_carb_tr ornithi 57.8 1.7E+02 0.0037 28.1 11.5 131 36-204 41-178 (304)
285 PF13377 Peripla_BP_3: Peripla 57.6 1.1E+02 0.0024 25.4 10.1 119 36-164 11-136 (160)
286 cd02071 MM_CoA_mut_B12_BD meth 57.3 1E+02 0.0022 24.8 9.1 64 183-258 13-80 (122)
287 TIGR00854 pts-sorbose PTS syst 56.4 1E+02 0.0022 26.0 8.6 81 154-250 13-93 (151)
288 PF04392 ABC_sub_bind: ABC tra 55.9 38 0.00082 32.3 6.9 113 35-164 132-247 (294)
289 PRK14174 bifunctional 5,10-met 55.7 1.9E+02 0.0041 27.6 14.5 153 35-203 32-192 (295)
290 PRK14805 ornithine carbamoyltr 55.7 1.9E+02 0.0042 27.6 14.6 132 35-204 39-177 (302)
291 cd01538 PBP1_ABC_xylose_bindin 55.5 80 0.0017 29.8 9.1 78 170-257 2-81 (288)
292 PRK00002 aroB 3-dehydroquinate 55.4 2E+02 0.0043 28.3 12.0 114 142-268 9-127 (358)
293 TIGR03431 PhnD phosphonate ABC 55.2 15 0.00033 34.8 4.1 41 493-536 48-88 (288)
294 PRK09756 PTS system N-acetylga 55.2 1.2E+02 0.0025 25.9 8.8 80 154-250 17-97 (158)
295 PF13380 CoA_binding_2: CoA bi 54.9 20 0.00044 28.6 4.1 87 168-269 1-89 (116)
296 COG1179 Dinucleotide-utilizing 54.9 70 0.0015 29.2 7.6 88 46-149 80-168 (263)
297 PRK00865 glutamate racemase; P 54.5 1.2E+02 0.0027 28.2 9.9 36 91-126 61-96 (261)
298 cd06310 PBP1_ABC_sugar_binding 54.5 64 0.0014 30.0 8.2 80 169-257 1-83 (273)
299 PRK10386 curli assembly protei 54.4 46 0.00099 27.0 5.8 27 34-60 25-53 (130)
300 cd06304 PBP1_BmpA_like Peripla 54.1 1.8E+02 0.0039 26.8 13.1 130 35-173 121-250 (260)
301 cd00001 PTS_IIB_man PTS_IIB, P 54.1 1.2E+02 0.0025 25.6 8.6 81 154-250 12-92 (151)
302 PF02601 Exonuc_VII_L: Exonucl 53.8 1.2E+02 0.0026 29.3 10.0 93 31-130 11-116 (319)
303 PRK14804 ornithine carbamoyltr 53.8 2.1E+02 0.0046 27.5 12.3 129 36-203 45-182 (311)
304 COG3221 PhnD ABC-type phosphat 53.4 54 0.0012 31.3 7.3 200 1-237 1-203 (299)
305 TIGR02370 pyl_corrinoid methyl 52.0 1.6E+02 0.0035 26.0 9.7 89 168-270 85-177 (197)
306 PF07287 DUF1446: Protein of u 51.9 2.5E+02 0.0054 27.7 13.7 105 45-178 6-111 (362)
307 cd01536 PBP1_ABC_sugar_binding 51.8 83 0.0018 28.9 8.5 79 169-257 1-81 (267)
308 PRK03515 ornithine carbamoyltr 51.8 2.4E+02 0.0052 27.5 14.8 132 35-203 46-186 (336)
309 cd06302 PBP1_LsrB_Quorum_Sensi 51.8 81 0.0018 30.0 8.5 79 170-257 2-82 (298)
310 cd06291 PBP1_Qymf_like Ligand 51.7 1.9E+02 0.004 26.6 10.9 118 36-163 114-240 (265)
311 COG0078 ArgF Ornithine carbamo 51.7 2.2E+02 0.0048 27.1 14.9 162 34-237 44-212 (310)
312 PRK11425 PTS system N-acetylga 51.7 1.4E+02 0.0031 25.3 8.8 80 154-250 15-94 (157)
313 cd06324 PBP1_ABC_sugar_binding 51.6 2.2E+02 0.0048 27.0 11.8 83 33-121 141-225 (305)
314 PLN02342 ornithine carbamoyltr 51.0 2.3E+02 0.0049 27.8 11.2 130 36-203 87-223 (348)
315 cd08197 DOIS 2-deoxy-scyllo-in 51.0 2.5E+02 0.0055 27.6 12.2 104 155-268 11-119 (355)
316 cd08183 Fe-ADH2 Iron-containin 50.8 1E+02 0.0022 30.7 9.2 82 156-250 12-95 (374)
317 cd06300 PBP1_ABC_sugar_binding 50.8 98 0.0021 28.7 8.8 80 169-257 1-86 (272)
318 cd06303 PBP1_LuxPQ_Quorum_Sens 50.6 63 0.0014 30.3 7.5 80 170-256 2-84 (280)
319 COG2984 ABC-type uncharacteriz 50.6 1.3E+02 0.0027 28.9 9.0 84 35-128 160-246 (322)
320 cd08177 MAR Maleylacetate redu 49.5 85 0.0018 30.6 8.3 73 155-237 11-83 (337)
321 cd00755 YgdL_like Family of ac 49.5 2.1E+02 0.0045 26.2 12.1 116 46-177 61-182 (231)
322 cd03364 TOPRIM_DnaG_primases T 48.9 45 0.00098 24.3 4.8 41 158-202 35-75 (79)
323 cd06322 PBP1_ABC_sugar_binding 48.9 96 0.0021 28.6 8.4 78 170-257 2-81 (267)
324 cd06320 PBP1_allose_binding Pe 48.9 89 0.0019 29.1 8.2 80 169-257 1-83 (275)
325 PRK10936 TMAO reductase system 48.9 1.1E+02 0.0024 29.9 9.1 82 167-257 46-129 (343)
326 cd06306 PBP1_TorT-like TorT-li 48.9 80 0.0017 29.4 7.8 80 169-257 1-82 (268)
327 cd01539 PBP1_GGBP Periplasmic 48.8 1E+02 0.0022 29.3 8.8 79 169-257 1-83 (303)
328 cd08175 G1PDH Glycerol-1-phosp 48.7 1E+02 0.0023 30.2 8.8 88 155-250 11-100 (348)
329 PRK01713 ornithine carbamoyltr 48.3 2.7E+02 0.0059 27.1 15.0 133 35-203 47-186 (334)
330 COG1707 ACT domain-containing 48.0 92 0.002 26.3 6.7 81 49-130 93-177 (218)
331 PRK00945 acetyl-CoA decarbonyl 47.5 1.9E+02 0.004 25.0 9.7 36 95-130 34-72 (171)
332 cd01537 PBP1_Repressors_Sugar_ 47.5 67 0.0015 29.3 7.1 77 170-257 2-80 (264)
333 cd06318 PBP1_ABC_sugar_binding 47.4 93 0.002 29.0 8.1 78 170-257 2-81 (282)
334 cd08549 G1PDH_related Glycerol 47.1 1.6E+02 0.0035 28.6 9.8 86 155-250 11-100 (332)
335 PRK09189 uroporphyrinogen-III 47.1 1E+02 0.0022 28.3 8.0 88 153-254 102-191 (240)
336 cd06267 PBP1_LacI_sugar_bindin 46.8 78 0.0017 28.9 7.4 76 170-257 2-79 (264)
337 PRK09861 cytoplasmic membrane 46.7 93 0.002 29.3 7.7 55 33-102 32-86 (272)
338 PRK13805 bifunctional acetalde 46.2 2.9E+02 0.0064 31.1 12.7 78 166-250 479-559 (862)
339 PF00448 SRP54: SRP54-type pro 46.1 1.3E+02 0.0028 26.7 8.1 75 155-241 18-92 (196)
340 PF11965 DUF3479: Domain of un 45.7 1.9E+02 0.0042 24.7 9.4 78 50-130 11-94 (164)
341 cd01994 Alpha_ANH_like_IV This 45.7 2.2E+02 0.0047 25.2 11.0 102 109-242 46-147 (194)
342 PRK09701 D-allose transporter 45.6 1.4E+02 0.0029 28.7 9.0 85 165-257 22-108 (311)
343 TIGR00640 acid_CoA_mut_C methy 45.2 1.7E+02 0.0037 23.9 8.1 66 181-258 14-83 (132)
344 cd06316 PBP1_ABC_sugar_binding 44.8 1.1E+02 0.0023 29.0 8.1 80 169-257 1-82 (294)
345 PF07172 GRP: Glycine rich pro 44.4 16 0.00035 27.9 1.9 21 1-21 1-22 (95)
346 cd01540 PBP1_arabinose_binding 44.4 80 0.0017 29.6 7.2 76 170-257 2-80 (289)
347 PRK14529 adenylate kinase; Pro 43.5 99 0.0021 28.1 7.0 30 99-128 3-32 (223)
348 cd08179 NADPH_BDH NADPH-depend 43.2 70 0.0015 31.8 6.7 79 165-250 21-101 (375)
349 cd08178 AAD_C C-terminal alcoh 43.1 86 0.0019 31.5 7.4 79 165-250 19-98 (398)
350 cd06289 PBP1_MalI_like Ligand- 42.9 1.1E+02 0.0023 28.2 7.8 77 170-257 2-80 (268)
351 cd06317 PBP1_ABC_sugar_binding 42.9 1.2E+02 0.0025 28.1 8.0 78 170-257 2-82 (275)
352 PF00205 TPP_enzyme_M: Thiamin 42.8 28 0.0006 28.7 3.2 55 89-146 4-61 (137)
353 PRK01066 porphobilinogen deami 42.8 42 0.00092 30.3 4.4 18 519-536 77-94 (231)
354 COG3340 PepE Peptidase E [Amin 42.7 2.5E+02 0.0055 25.2 9.2 88 154-257 20-107 (224)
355 cd06315 PBP1_ABC_sugar_binding 42.0 1.9E+02 0.0042 26.9 9.4 79 168-257 1-82 (280)
356 cd01391 Periplasmic_Binding_Pr 41.6 1.3E+02 0.0027 27.3 8.0 78 169-257 1-83 (269)
357 PRK14187 bifunctional 5,10-met 41.5 3.2E+02 0.0069 26.0 15.1 173 35-242 33-213 (294)
358 PRK00286 xseA exodeoxyribonucl 41.5 2.3E+02 0.0049 28.9 10.2 93 31-130 132-233 (438)
359 cd06325 PBP1_ABC_uncharacteriz 41.3 2.9E+02 0.0064 25.5 11.7 115 33-164 130-247 (281)
360 cd06287 PBP1_LacI_like_8 Ligan 40.8 3E+02 0.0065 25.5 11.3 120 36-163 120-245 (269)
361 PRK05452 anaerobic nitric oxid 40.7 4.3E+02 0.0094 27.3 13.0 103 155-271 239-349 (479)
362 PLN02821 1-hydroxy-2-methyl-2- 40.4 1.6E+02 0.0034 29.9 8.3 91 35-127 299-394 (460)
363 PF03830 PTSIIB_sorb: PTS syst 40.4 67 0.0015 27.1 5.2 84 154-253 13-96 (151)
364 cd07766 DHQ_Fe-ADH Dehydroquin 40.2 3.5E+02 0.0077 26.2 13.0 89 156-253 12-101 (332)
365 PLN02691 porphobilinogen deami 39.9 37 0.00079 32.9 3.8 48 489-536 59-124 (351)
366 cd06277 PBP1_LacI_like_1 Ligan 39.9 1.8E+02 0.0038 26.9 8.7 75 170-257 2-81 (268)
367 cd00494 HMBS Hydroxymethylbila 39.7 48 0.001 31.3 4.5 22 515-536 55-77 (292)
368 cd06307 PBP1_uncharacterized_s 39.6 1.4E+02 0.003 27.7 8.0 82 169-257 1-84 (275)
369 PRK02102 ornithine carbamoyltr 39.6 3.7E+02 0.008 26.2 15.4 133 35-203 47-185 (331)
370 COG1638 DctP TRAP-type C4-dica 39.5 1.3E+02 0.0027 29.4 7.5 40 34-78 29-68 (332)
371 cd06282 PBP1_GntR_like_2 Ligan 39.5 1.3E+02 0.0029 27.5 7.8 78 170-258 2-81 (266)
372 TIGR00212 hemC porphobilinogen 39.4 49 0.0011 31.3 4.5 22 515-536 55-77 (292)
373 cd06299 PBP1_LacI_like_13 Liga 39.2 1.7E+02 0.0036 26.9 8.4 76 170-257 2-79 (265)
374 cd08172 GlyDH-like1 Glycerol d 39.0 2.1E+02 0.0046 28.0 9.3 71 155-237 12-82 (347)
375 PRK00072 hemC porphobilinogen 38.8 51 0.0011 31.2 4.6 22 515-536 59-81 (295)
376 PRK11303 DNA-binding transcrip 38.8 1.9E+02 0.0042 27.7 9.1 81 166-257 60-142 (328)
377 PRK10481 hypothetical protein; 38.7 1.9E+02 0.0041 26.2 8.0 82 36-127 131-212 (224)
378 cd06314 PBP1_tmGBP Periplasmic 38.6 1.2E+02 0.0026 28.1 7.4 78 170-257 2-80 (271)
379 COG2082 CobH Precorrin isomera 38.6 55 0.0012 29.1 4.4 72 50-130 114-188 (210)
380 PRK10653 D-ribose transporter 38.0 1.9E+02 0.0041 27.3 8.7 81 167-257 26-108 (295)
381 COG0426 FpaA Uncharacterized f 37.9 4.2E+02 0.0091 26.4 10.7 106 152-271 231-342 (388)
382 PRK10355 xylF D-xylose transpo 37.6 2.5E+02 0.0055 27.2 9.6 79 168-257 26-107 (330)
383 cd06319 PBP1_ABC_sugar_binding 37.5 1.6E+02 0.0034 27.3 8.0 78 170-257 2-81 (277)
384 cd01545 PBP1_SalR Ligand-bindi 37.5 1.5E+02 0.0032 27.4 7.7 78 170-257 2-81 (270)
385 PF01745 IPT: Isopentenyl tran 37.3 26 0.00057 31.3 2.3 34 97-130 2-35 (233)
386 PRK09810 entericidin A; Provis 37.2 35 0.00076 21.3 2.1 20 1-21 2-21 (41)
387 PRK10014 DNA-binding transcrip 36.9 2E+02 0.0042 27.9 8.8 80 167-257 64-145 (342)
388 PF02402 Lysis_col: Lysis prot 36.8 19 0.0004 22.6 0.9 21 1-21 1-21 (46)
389 PF02401 LYTB: LytB protein; 36.7 1.8E+02 0.0038 27.5 7.8 87 36-129 156-243 (281)
390 cd01569 PBEF_like pre-B-cell c 36.5 4.6E+02 0.0099 26.4 11.2 146 103-264 197-359 (407)
391 PRK02255 putrescine carbamoylt 36.4 4.2E+02 0.0091 25.9 15.4 131 35-204 43-184 (338)
392 COG1922 WecG Teichoic acid bio 36.4 2.3E+02 0.005 26.2 8.2 100 152-269 94-195 (253)
393 PRK13814 pyrB aspartate carbam 35.8 4.1E+02 0.0088 25.6 11.4 135 35-203 46-189 (310)
394 cd08468 PBP2_Pa0477 The C-term 35.7 1.1E+02 0.0023 26.5 6.2 43 489-534 13-55 (202)
395 cd06295 PBP1_CelR Ligand bindi 35.6 1.9E+02 0.0042 26.7 8.2 78 166-257 2-88 (275)
396 cd06323 PBP1_ribose_binding Pe 35.3 1.8E+02 0.004 26.6 8.0 77 170-257 2-81 (268)
397 PRK12562 ornithine carbamoyltr 35.1 4.4E+02 0.0095 25.7 15.2 131 36-203 47-186 (334)
398 COG1587 HemD Uroporphyrinogen- 35.0 3.1E+02 0.0067 25.3 9.2 92 152-257 106-199 (248)
399 TIGR00237 xseA exodeoxyribonuc 35.0 3.1E+02 0.0068 27.9 9.9 94 30-130 125-228 (432)
400 TIGR02637 RhaS rhamnose ABC tr 35.0 2.1E+02 0.0046 27.0 8.6 69 183-257 14-82 (302)
401 PRK07239 bifunctional uroporph 34.6 3.9E+02 0.0085 26.5 10.5 99 152-257 125-225 (381)
402 TIGR03884 sel_bind_Methan sele 34.5 1.1E+02 0.0024 21.9 4.5 38 67-104 10-49 (74)
403 PRK05752 uroporphyrinogen-III 34.4 2.1E+02 0.0045 26.6 8.0 90 149-252 107-201 (255)
404 TIGR02667 moaB_proteo molybden 34.3 3E+02 0.0064 23.5 8.7 66 167-240 4-71 (163)
405 PRK11891 aspartate carbamoyltr 34.3 5.1E+02 0.011 26.3 11.3 135 35-203 127-273 (429)
406 TIGR00315 cdhB CO dehydrogenas 34.2 3E+02 0.0065 23.5 10.9 35 95-129 27-63 (162)
407 PRK13792 lysozyme inhibitor; P 34.1 25 0.00054 28.5 1.5 22 1-22 1-22 (127)
408 PRK11553 alkanesulfonate trans 34.0 1.1E+02 0.0024 29.3 6.4 43 185-237 140-182 (314)
409 cd06281 PBP1_LacI_like_5 Ligan 34.0 2E+02 0.0044 26.5 8.1 77 170-257 2-80 (269)
410 cd02067 B12-binding B12 bindin 33.9 2.4E+02 0.0051 22.3 7.6 63 183-257 13-79 (119)
411 COG3470 Tpd Uncharacterized pr 33.9 31 0.00068 28.6 2.0 21 1-21 1-21 (179)
412 COG1880 CdhB CO dehydrogenase/ 33.7 2.9E+02 0.0064 23.3 9.8 125 89-228 28-168 (170)
413 COG0371 GldA Glycerol dehydrog 33.6 3.1E+02 0.0066 27.0 9.0 90 157-257 20-109 (360)
414 PRK01045 ispH 4-hydroxy-3-meth 33.4 1.7E+02 0.0036 28.0 7.1 71 54-126 170-241 (298)
415 COG1653 UgpB ABC-type sugar tr 33.4 3E+02 0.0064 27.5 9.8 27 52-78 45-71 (433)
416 cd07372 2A5CPDO_B The beta sub 33.4 4.3E+02 0.0093 25.2 9.9 89 79-178 95-191 (294)
417 cd01543 PBP1_XylR Ligand-bindi 32.9 3.9E+02 0.0084 24.5 10.7 120 36-164 111-240 (265)
418 PRK05928 hemD uroporphyrinogen 32.9 2.4E+02 0.0051 25.7 8.2 87 156-256 112-200 (249)
419 cd00578 L-fuc_L-ara-isomerases 32.9 5.5E+02 0.012 26.2 13.7 90 36-130 2-97 (452)
420 PF13207 AAA_17: AAA domain; P 32.5 38 0.00083 26.9 2.5 32 98-129 1-32 (121)
421 cd06280 PBP1_LacI_like_4 Ligan 32.1 4E+02 0.0086 24.4 9.7 118 35-164 116-240 (263)
422 COG0547 TrpD Anthranilate phos 32.0 2.8E+02 0.0061 27.0 8.4 87 87-177 138-224 (338)
423 PRK05575 cbiC precorrin-8X met 32.0 82 0.0018 28.0 4.4 70 50-130 114-186 (204)
424 TIGR02634 xylF D-xylose ABC tr 32.0 2.3E+02 0.005 26.9 8.2 71 177-257 10-80 (302)
425 KOG2387 CTP synthase (UTP-ammo 31.5 3.6E+02 0.0078 27.1 8.9 91 33-130 297-401 (585)
426 PF04244 DPRP: Deoxyribodipyri 31.5 1.1E+02 0.0023 27.9 5.3 75 51-128 47-124 (224)
427 PRK05954 precorrin-8X methylmu 31.4 92 0.002 27.7 4.6 72 49-130 107-181 (203)
428 COG0181 HemC Porphobilinogen d 31.3 36 0.00078 32.1 2.3 44 489-536 19-80 (307)
429 COG2332 CcmE Cytochrome c-type 31.2 1.4E+02 0.0031 24.8 5.4 33 31-79 50-82 (153)
430 TIGR00288 conserved hypothetic 31.1 3.3E+02 0.0073 23.2 8.8 85 155-257 43-130 (160)
431 PF08357 SEFIR: SEFIR domain; 31.1 94 0.002 25.9 4.7 36 168-205 1-37 (150)
432 PRK10586 putative oxidoreducta 30.9 3.6E+02 0.0079 26.6 9.4 76 154-242 21-96 (362)
433 TIGR01359 UMP_CMP_kin_fam UMP- 30.7 52 0.0011 28.5 3.2 31 98-128 1-31 (183)
434 PF02729 OTCace_N: Aspartate/o 30.6 75 0.0016 26.5 3.9 82 34-129 39-124 (142)
435 PRK08286 cbiC cobalt-precorrin 30.5 90 0.0019 28.0 4.5 72 49-130 118-192 (214)
436 cd06278 PBP1_LacI_like_2 Ligan 30.5 2.3E+02 0.005 25.9 7.8 75 170-257 2-78 (266)
437 PF13617 Lipoprotein_19: YnbE- 30.4 73 0.0016 21.8 3.0 30 8-40 5-34 (59)
438 cd08469 PBP2_PnbR The C-termin 30.3 1E+02 0.0022 27.2 5.2 44 489-535 13-56 (221)
439 PRK14167 bifunctional 5,10-met 30.3 4.9E+02 0.011 24.9 14.4 139 35-190 32-178 (297)
440 cd08440 PBP2_LTTR_like_4 TThe 30.0 1.4E+02 0.0031 25.2 6.0 45 489-536 13-57 (197)
441 PRK09492 treR trehalose repres 30.0 4.8E+02 0.01 24.7 10.3 115 36-163 177-296 (315)
442 PTZ00088 adenylate kinase 1; P 29.9 54 0.0012 29.9 3.2 31 99-129 9-39 (229)
443 TIGR02417 fruct_sucro_rep D-fr 29.7 3.6E+02 0.0078 25.8 9.3 81 166-257 59-141 (327)
444 PRK14171 bifunctional 5,10-met 29.6 5E+02 0.011 24.7 15.5 147 35-202 33-187 (288)
445 cd08173 Gro1PDH Sn-glycerol-1- 29.6 4.7E+02 0.01 25.5 9.9 84 155-250 12-98 (339)
446 PRK11041 DNA-binding transcrip 29.6 4.8E+02 0.01 24.5 10.6 119 35-163 153-280 (309)
447 PRK14189 bifunctional 5,10-met 29.6 5E+02 0.011 24.7 16.4 172 34-242 32-211 (285)
448 TIGR01729 taurine_ABC_bnd taur 29.6 60 0.0013 30.9 3.7 37 498-537 21-57 (300)
449 cd06296 PBP1_CatR_like Ligand- 29.5 2.4E+02 0.0053 25.9 7.8 76 170-257 2-79 (270)
450 PRK13733 conjugal transfer pro 29.2 40 0.00087 28.7 2.0 21 1-21 1-21 (171)
451 PF08194 DIM: DIM protein; In 29.2 1E+02 0.0022 18.6 3.1 7 33-39 24-30 (36)
452 PRK15088 PTS system mannose-sp 29.2 3.8E+02 0.0083 25.9 8.9 81 154-250 176-256 (322)
453 KOG0259 Tyrosine aminotransfer 29.1 2.3E+02 0.005 27.9 7.1 76 50-126 134-237 (447)
454 PF13671 AAA_33: AAA domain; P 29.0 62 0.0014 26.5 3.3 31 98-128 1-31 (143)
455 cd02070 corrinoid_protein_B12- 29.0 4.1E+02 0.0089 23.5 10.0 88 168-269 83-174 (201)
456 PRK08811 uroporphyrinogen-III 28.9 4.9E+02 0.011 24.4 10.1 91 148-254 119-211 (266)
457 cd06308 PBP1_sensor_kinase_lik 28.8 3E+02 0.0066 25.3 8.4 78 170-257 2-82 (270)
458 PRK12360 4-hydroxy-3-methylbut 28.7 2.2E+02 0.0049 26.9 7.0 52 75-126 188-240 (281)
459 COG1419 FlhF Flagellar GTP-bin 28.7 3.3E+02 0.0071 27.3 8.3 73 154-243 220-292 (407)
460 COG3017 LolB Outer membrane li 28.5 54 0.0012 28.9 2.7 23 1-23 4-26 (206)
461 PF13362 Toprim_3: Toprim doma 28.4 2.1E+02 0.0046 21.5 5.9 51 166-226 40-92 (96)
462 cd08446 PBP2_Chlorocatechol Th 28.3 1.6E+02 0.0034 25.2 6.0 43 490-535 15-57 (198)
463 PRK13602 putative ribosomal pr 28.2 1.9E+02 0.0041 21.4 5.2 43 86-128 16-60 (82)
464 PRK13054 lipid kinase; Reviewe 28.2 3.5E+02 0.0075 25.8 8.6 76 168-255 4-79 (300)
465 COG1058 CinA Predicted nucleot 28.2 2E+02 0.0043 26.7 6.4 45 185-237 22-66 (255)
466 PRK04284 ornithine carbamoyltr 28.1 5.7E+02 0.012 24.9 15.4 133 36-204 47-186 (332)
467 cd01574 PBP1_LacI Ligand-bindi 28.1 4.6E+02 0.01 23.8 11.5 117 35-162 117-240 (264)
468 TIGR00249 sixA phosphohistidin 28.0 2.6E+02 0.0056 23.5 6.8 98 147-253 23-120 (152)
469 COG3439 Uncharacterized conser 27.9 2.3E+02 0.005 23.4 6.2 68 183-265 22-91 (137)
470 cd06268 PBP1_ABC_transporter_L 27.8 4E+02 0.0086 24.6 9.1 79 170-257 2-91 (298)
471 TIGR00216 ispH_lytB (E)-4-hydr 27.7 2.6E+02 0.0057 26.4 7.3 53 75-127 187-240 (280)
472 PF02570 CbiC: Precorrin-8X me 27.6 1.1E+02 0.0024 27.1 4.5 71 50-130 106-179 (198)
473 PRK00040 rpsP 30S ribosomal pr 27.5 1.1E+02 0.0023 22.3 3.6 34 372-405 4-43 (75)
474 cd08169 DHQ-like Dehydroquinat 27.4 6E+02 0.013 24.9 12.2 102 155-268 11-118 (344)
475 cd08465 PBP2_ToxR The C-termin 27.3 71 0.0015 27.7 3.5 43 490-535 14-56 (200)
476 PF13662 Toprim_4: Toprim doma 27.2 1.4E+02 0.003 21.8 4.5 32 167-201 46-77 (81)
477 cd06309 PBP1_YtfQ_like Peripla 27.2 1.9E+02 0.0041 26.7 6.6 71 177-257 11-81 (273)
478 PRK00843 egsA NAD(P)-dependent 27.1 5.7E+02 0.012 25.1 10.1 95 142-250 11-107 (350)
479 PF12974 Phosphonate-bd: ABC t 27.1 77 0.0017 29.0 3.8 41 492-535 17-57 (243)
480 cd06270 PBP1_GalS_like Ligand 27.1 3.4E+02 0.0074 24.9 8.4 76 170-257 2-79 (268)
481 TIGR00290 MJ0570_dom MJ0570-re 26.9 4.8E+02 0.01 23.7 8.9 97 111-242 48-144 (223)
482 PRK06264 cbiC precorrin-8X met 26.8 1.2E+02 0.0026 27.1 4.6 72 49-130 113-187 (210)
483 PRK09973 putative outer membra 26.7 65 0.0014 23.9 2.4 21 1-21 1-22 (85)
484 PF13155 Toprim_2: Toprim-like 26.7 1.5E+02 0.0032 22.3 4.8 42 154-197 34-75 (96)
485 cd06274 PBP1_FruR Ligand bindi 26.6 3.5E+02 0.0075 24.8 8.3 76 170-257 2-79 (264)
486 PRK05953 precorrin-8X methylmu 26.5 1.1E+02 0.0025 27.2 4.4 72 49-130 105-179 (208)
487 PF00448 SRP54: SRP54-type pro 26.4 2.8E+02 0.006 24.6 7.0 23 97-119 2-24 (196)
488 COG3919 Predicted ATP-grasp en 26.3 3.2E+02 0.0069 25.9 7.2 90 100-196 7-98 (415)
489 PRK05583 ribosomal protein L7A 26.2 3.1E+02 0.0067 21.4 6.4 72 89-163 25-99 (104)
490 PLN02527 aspartate carbamoyltr 26.2 5.9E+02 0.013 24.5 11.5 134 35-203 40-183 (306)
491 cd06313 PBP1_ABC_sugar_binding 26.2 2.9E+02 0.0063 25.6 7.7 66 183-257 15-81 (272)
492 cd08184 Fe-ADH3 Iron-containin 26.1 4.3E+02 0.0093 25.9 8.9 85 155-251 11-102 (347)
493 cd06285 PBP1_LacI_like_7 Ligan 26.0 3.5E+02 0.0076 24.7 8.2 76 170-257 2-79 (265)
494 PF08139 LPAM_1: Prokaryotic m 25.9 53 0.0012 18.0 1.4 7 14-20 18-24 (25)
495 PRK15240 resistance to complem 25.8 73 0.0016 28.0 3.1 36 1-42 1-36 (185)
496 COG1102 Cmk Cytidylate kinase 25.8 68 0.0015 27.4 2.7 31 98-128 2-32 (179)
497 TIGR00002 S16 ribosomal protei 25.8 1.6E+02 0.0034 21.6 4.3 34 372-405 3-42 (78)
498 COG5510 Predicted small secret 25.7 22 0.00048 22.3 -0.1 21 1-21 2-24 (44)
499 PRK15138 aldehyde reductase; P 25.5 5E+02 0.011 25.9 9.4 73 155-237 19-91 (387)
500 PF02514 CobN-Mg_chel: CobN/Ma 25.4 1.1E+03 0.024 27.4 15.2 91 33-128 70-166 (1098)
No 1
>KOG1054 consensus Glutamate-gated AMPA-type ion channel receptor subunit GluR2 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=7.3e-61 Score=451.07 Aligned_cols=453 Identities=15% Similarity=0.250 Sum_probs=368.1
Q ss_pred CcEEEEEEEecCCccchhHHHHHHHHHHHHhcCC----CCcEEEEEEec-CCCCHHHHHHHHHHhhhcCCeEEEEcCCCh
Q 008863 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDS----RNHKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIAGMETW 107 (550)
Q Consensus 33 ~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~----~~~~l~~~~~d-~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 107 (550)
.+|.||.+||.+. .+...||++|+...|... ..+++.+++.. ...+++....++|+..+ .||.||+|....
T Consensus 25 ~tiqigglF~~n~---~qe~~Afr~~~~~~~~~~~~~~~pf~L~~~~d~~e~a~Sf~~tnafCsq~s-~Gv~Aifg~yd~ 100 (897)
T KOG1054|consen 25 NTIQIGGLFPRNT---DQEHSAFRFAVQLYNTNQNTTEKPFKLNPHVDNLESANSFAVTNAFCSQFS-RGVYAIFGFYDK 100 (897)
T ss_pred CceeeccccCCcc---hHHHHHHHHHHHHhhcCCCCCCCCcccccccchhhhhhhHHHHHHHHHHHh-hhHhhheecccc
Confidence 5899999999984 467789999999888754 13556555542 33788899999999998 699999999999
Q ss_pred HHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHH
Q 008863 108 EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLA 187 (550)
Q Consensus 108 ~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~ 187 (550)
.....+.++|+.+++|+|+++.. .....++++++.|+ +..++++++.||+|.+++++|+.+. | ...++
T Consensus 101 ks~~~ltsfc~aLh~~~vtpsfp------~~~~~~Fviq~RP~---l~~al~s~i~hy~W~~fv~lyD~~r-g--~s~Lq 168 (897)
T KOG1054|consen 101 KSVNTLTSFCGALHVSFVTPSFP------TDGDNQFVIQMRPA---LKGALLSLIDHYKWEKFVYLYDTDR-G--LSILQ 168 (897)
T ss_pred cchhhhhhhccceeeeeecccCC------cCCCceEEEEeCch---HHHHHHHHHHhcccceEEEEEcccc-h--HHHHH
Confidence 99999999999999999998875 12344789999998 8899999999999999999998765 5 66788
Q ss_pred HHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEe
Q 008863 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (550)
Q Consensus 188 ~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (550)
.+-+.+.+++ ..|.....-.. . +...++.+++.+.....+.|++ +|..+....++.++-+.+-..++|||++.
T Consensus 169 ai~~~a~~~n-w~VtA~~v~~~-~----d~~~yr~~f~~l~~r~e~rv~i-Dce~~~~~~il~q~i~~~k~~~~YHYvla 241 (897)
T KOG1054|consen 169 AIMEAAAQNN-WQVTAINVGNI-N----DVKEYRMLFEMLDRRQENRVLI-DCESERRNRILLQVIELGKHVKGYHYVLA 241 (897)
T ss_pred HHHHHHHhcC-ceEEEEEcCCc-c----cHHHHHHHHHHHhccccceEEE-EcccHHHHHHHHHHHHHhhhccceEEEEe
Confidence 8888888888 88887653332 2 4456999999999888888999 99999999999999999988899999998
Q ss_pred ccchhhcccCChhHHhhcCc---eEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHH
Q 008863 268 NTVANALDSLNTTVISSMEG---TLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIG 344 (550)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g---~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~ 344 (550)
+..... .+...+.+| +.+|... +.++|..++|+++|++.-...++...+.++...++++|||+.++++|++
T Consensus 242 Nl~f~d-----~dl~~f~~g~aNitgFqiv-n~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~ 315 (897)
T KOG1054|consen 242 NLGFTD-----IDLERFQHGGANITGFQIV-NKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFR 315 (897)
T ss_pred eCCCch-----hhHHHHhcCCcceeEEEEe-cCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHH
Confidence 863322 223344443 4566654 4445899999999987766666666667788899999999999999999
Q ss_pred hhccC--------------------CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCCeeeEEEEEeCC
Q 008863 345 RLNYN--------------------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPN 404 (550)
Q Consensus 345 ~~~~~--------------------~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~ 404 (550)
.+... |..|..+.++++++.++|+||+|+||..|.|.|++.+|++++.++.+++|.|+..
T Consensus 316 ~~~~q~~~~~rRG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~rk~~~W~e~ 395 (897)
T KOG1054|consen 316 SLRRQRIDISRRGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGSRKVGYWNEG 395 (897)
T ss_pred HHHHhhhchhccCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCcceeeeeccc
Confidence 87542 6788999999999999999999999999999999999999999999999999999
Q ss_pred CCCccccCCCCcCCcCCCccccCCCCccccCCCCCCCCCCccccCCCCCCeEecccCcccccccEEEecCCCCCCCCCCC
Q 008863 405 FGFSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKN 484 (550)
Q Consensus 405 ~g~~~~~~~~~~~~~~~~~~~~~~~~~i~wp~~~~~~~p~~~~~~~~~~~~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~ 484 (550)
.++....+.... ..+. . . .++++++++| .++ .||||.|++.+. ++ ||
T Consensus 396 ~~fv~~~t~a~~-------~~d~-~---------~-~~n~tvvvtt-----iL~-------spyvm~kkn~~~-~e--gn 442 (897)
T KOG1054|consen 396 EGFVPGSTVAQS-------RNDQ-A---------S-KENRTVVVTT-----ILE-------SPYVMLKKNHEQ-LE--GN 442 (897)
T ss_pred Cceeeccccccc-------cccc-c---------c-cccceEEEEE-----ecC-------CchhHHHhhHHH-hc--CC
Confidence 998766543210 0110 0 1 4567777777 333 579999998632 33 79
Q ss_pred cccccchHHHHHHHHHhCCCCCCeEEEec--------CCC-hHHHHHhhhcccccEEeeceeeeeeeeeEEE
Q 008863 485 LRYDGFSIELFRLVVDHLNYDLPYEFVPH--------DGV-YDDLINGVYDKVNYFNYHDKLLFKKKKRLCL 547 (550)
Q Consensus 485 ~~~~GfciDll~~la~~l~f~~~~~~~~~--------~g~-w~Gmi~el~~~~ad~a~~~~ti~~~r~~~~~ 547 (550)
++||||||||+.+||++++++|+..++.+ ||+ ||||||||++|+||+||+|||||.+||||+.
T Consensus 443 ~ryEGyCvdLa~~iAkhi~~~Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REeviD 514 (897)
T KOG1054|consen 443 ERYEGYCVDLAAEIAKHIGIKYKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREEVID 514 (897)
T ss_pred cccceeHHHHHHHHHHhcCceEEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhhhhc
Confidence 99999999999999999999966556544 566 9999999999999999999999999999975
No 2
>KOG4440 consensus NMDA selective glutamate-gated ion channel receptor subunit GRIN1 [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=4.4e-52 Score=393.78 Aligned_cols=438 Identities=19% Similarity=0.295 Sum_probs=339.3
Q ss_pred CCCcEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEec--CCCCHHHHHHHHHHhhhcCCeEEEEc-C-CC
Q 008863 31 IEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRD--HNRDPFQAATAAQELINKEKVKVIAG-M-ET 106 (550)
Q Consensus 31 ~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d--~~~~~~~a~~~~~~li~~~~v~aiiG-~-~~ 106 (550)
.+++++||+++... ..++-|.-++.++|++....++.+.... ...++......+|+.+-...|.+|+- + .+
T Consensus 32 np~t~nig~Vlst~-----~~ee~F~~t~~hln~~~~s~k~~~~aksv~~d~n~i~t~~~VC~~li~~~vyav~vSh~~T 106 (993)
T KOG4440|consen 32 NPKTVNIGAVLSTR-----KHEEMFRETVNHLNKRHGSWKIQLNAKSVTHDPNAIQTALSVCEDLISSQVYAVLVSHPPT 106 (993)
T ss_pred Cccceeeeeeeech-----hHHHHHHHHHHHhhccccceEEEEccccccCCCcHHHHHHHHHHHHHhhheeEEEecCCCC
Confidence 44799999999654 6678899999999988655666654332 44566666666665443467777763 2 22
Q ss_pred hH---HHHHHHHhhccCCccEEeccCCCCCCc-ccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCc
Q 008863 107 WE---ETAVVAEIASRVQVPILSFAAPAVTPL-SMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGD 182 (550)
Q Consensus 107 s~---~~~~v~~~~~~~~iP~is~~~~~~~~~-~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~ 182 (550)
|. ...++...++-+.||++..... +.. ++++-++.|+|+.|++.+++....++|.+|.|++|.++.++|.-|
T Consensus 107 s~d~f~p~~vSYT~gFY~iPV~G~~~R--da~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~y~~vi~l~s~d~~g-- 182 (993)
T KOG4440|consen 107 SNDHFTPTPVSYTAGFYRIPVLGLTTR--DAIFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYSYNHVILLVSDDHEG-- 182 (993)
T ss_pred CCcccccccceeeccceeeeeeeeeeh--hhhhccCceeeeEeecCCCccchhHHHHHHHHHhhcceEEEEEcccccc--
Confidence 22 2334666788899999999887 666 678889999999999999999999999999999999999998777
Q ss_pred chhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCE
Q 008863 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDS 262 (550)
Q Consensus 183 ~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~ 262 (550)
+.....++..+++.. -++.....+.+.. .++++.|-++|...+|++++ ..+.+++..+++.|..++|+|++|
T Consensus 183 ra~~~r~qt~~e~~~-~~~e~v~~f~p~~------~~~t~~l~~~k~~~~rv~~~-~as~dDA~~ifr~Ag~lnmTG~G~ 254 (993)
T KOG4440|consen 183 RAAQKRLQTLLEERE-SKAEKVLQFDPGT------KNVTALLMEAKELEARVIIL-SASEDDAATIFRAAGMLNMTGSGY 254 (993)
T ss_pred hhHHhHHHHHHHHHh-hhhhhheecCccc------chHHHHHhhhhhhhheeEEe-ecccchHHHHHHhhhhhcccCceE
Confidence 777677777777655 5555556666643 78999999999999999999 999999999999999999999999
Q ss_pred EEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHH
Q 008863 263 VWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEA 342 (550)
Q Consensus 263 ~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~A 342 (550)
+||++..-.+. ....+|+++++..... ...+..-|+|.+++.|
T Consensus 255 VWiV~E~a~~~--------nn~PdG~LGlqL~~~~-----------------------------~~~~hirDsv~vlasA 297 (993)
T KOG4440|consen 255 VWIVGERAISG--------NNLPDGILGLQLINGK-----------------------------NESAHIRDSVGVLASA 297 (993)
T ss_pred EEEEecccccc--------CCCCCceeeeEeecCc-----------------------------cccceehhhHHHHHHH
Confidence 99998764422 1346788888763221 1245678999999999
Q ss_pred HHhhccC----------------CCCHHHHHHHHHhCcc-cccceeEEEeCCCCCCCCceEEEEee-CCeeeEEEEEeCC
Q 008863 343 IGRLNYN----------------ISSPEMLLRQMLSSDF-SGLSGKIRFKDGELLNADTLRIVNVV-GKKYKELDFWLPN 404 (550)
Q Consensus 343 l~~~~~~----------------~~~~~~l~~~l~~~~~-~G~tG~i~f~~~g~~~~~~~~i~~~~-~~~~~~vG~w~~~ 404 (550)
++++... |..+..+.+.+...++ .|.||++.||++|+|....|+|+|+. +...+.+|.|+..
T Consensus 298 v~e~~~~e~I~~~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~~yd~~ 377 (993)
T KOG4440|consen 298 VHELLEKENITDPPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVGIYDGT 377 (993)
T ss_pred HHHHHhhccCCCCCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhccccce
Confidence 9998653 6788889888887555 79999999999999999999999994 5555656665531
Q ss_pred CCCccccCCCCcCCcCCCccccCCCCccccCCCCCCCCCCccccCCCCCCeEecccCcccccccEEEecCCCC-----C-
Q 008863 405 FGFSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGWAMPSNQEPMRIGVPTRTFFEKFVVIKDDPLN-----G- 478 (550)
Q Consensus 405 ~g~~~~~~~~~~~~~~~~~~~~~~~~~i~wp~~~~~~~p~~~~~~~~~~~~~i~~~~~~~~~pfv~~~~~~~~-----~- 478 (550)
.- ...++.|+|||+.+ .+|+++.+|++-|.++|.. +|||..++.... +
T Consensus 378 r~-------------------~~nd~~IiWpGg~~-~KP~gi~~pthLrivTi~~------~PFVYv~p~~sd~~c~eef 431 (993)
T KOG4440|consen 378 RV-------------------IPNDRKIIWPGGET-EKPRGIQMPTHLRIVTIHQ------EPFVYVKPTLSDGTCKEEF 431 (993)
T ss_pred ee-------------------ccCCceeecCCCCc-CCCccccccceeEEEEecc------CCeEEEecCCCCcchhhhc
Confidence 11 12235699999999 9999999999666666654 689988731110 0
Q ss_pred ----------------------CCCCCCcccccchHHHHHHHHHhCCCCCCeEEEec----------------CCChHHH
Q 008863 479 ----------------------NSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPH----------------DGVYDDL 520 (550)
Q Consensus 479 ----------------------~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~----------------~g~w~Gm 520 (550)
+...-..||.|||||||-+|++.++|+|..-++++ ..+||||
T Consensus 432 ~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nftyd~~l~~dg~fg~~~~vnnsseT~~kew~G~ 511 (993)
T KOG4440|consen 432 TVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFTYDVHLVADGKFGTQERVNNSSETNKKEWNGM 511 (993)
T ss_pred cccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcceEEEEEeecccccceeeeecccccccceehhh
Confidence 00002569999999999999999999954445444 1479999
Q ss_pred HHhhhcccccEEeeceeeeeeeeeEEEe
Q 008863 521 INGVYDKVNYFNYHDKLLFKKKKRLCLV 548 (550)
Q Consensus 521 i~el~~~~ad~a~~~~ti~~~r~~~~~~ 548 (550)
||||+.++|||+|+|+|||+||++.+..
T Consensus 512 iGEL~~~~ADMivaplTINpERa~yieF 539 (993)
T KOG4440|consen 512 IGELLSGQADMIVAPLTINPERAQYIEF 539 (993)
T ss_pred hhhhhCCccceEeeceeeChhhhhheec
Confidence 9999999999999999999999998764
No 3
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=4.8e-47 Score=370.63 Aligned_cols=342 Identities=15% Similarity=0.276 Sum_probs=289.4
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEe-cCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIR-DHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~-d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
+||+||+.+. ...+.||++|++++|.+. +|...+. -+..|++.+.+.+|++++ +||.|||||.++.++..++
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~---~l~~~~~~~~~~dsf~~~~~~C~~~~-~gV~AI~Gp~s~~~a~~v~ 73 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPP---KLLPQIDIVNISDSFEMTYTFCSQFS-KGVYAIFGFYDRKTVNMLT 73 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCc---ccccceEEeccccHHHHHHHHHHHhh-cCceEEEccCChhHHHHHH
Confidence 4899998763 467899999999999863 5544444 456799999999999998 6999999999999999999
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHh
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (550)
++|+..+||+|++++. .. ...+|++++.|+ +.+|+++++++|+|++|++||+++ || ...++.+.+.+.
T Consensus 74 sic~~~~vP~i~~~~~----~~--~~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g--~~~lq~l~~~~~ 141 (364)
T cd06390 74 SFCGALHVCFITPSFP----VD--TSNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RG--LSVLQKVLDTAA 141 (364)
T ss_pred HhhcCCCCCceecCCC----CC--CCCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-cc--HHHHHHHHHhhh
Confidence 9999999999997543 22 233679999998 899999999999999999999755 88 999999999999
Q ss_pred cCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccchhhc
Q 008863 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANAL 274 (550)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 274 (550)
+.+ ++|......+. ...+++..|+++++.++++||+ +|+.+.+..+|+++.+.+|++.+|+||+++......
T Consensus 142 ~~~-~~I~~~~~~~~------~~~d~~~~L~~ik~~~~rvIVl-~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~ 213 (364)
T cd06390 142 EKN-WQVTAVNILTT------TEEGYRKLFQDLDKKKERLIVV-DCESERLNAILNQIIKLEKNGIGYHYILANLGFMDI 213 (364)
T ss_pred ccC-ceeeEEEeecC------ChHHHHHHHHhccccCCeEEEE-ECCHHHHHHHHHHHHHhhccCCceEEEecCCCcccc
Confidence 999 99987665543 3468999999999999999999 999999999999999999989999999998433222
Q ss_pred ccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhc-------
Q 008863 275 DSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN------- 347 (550)
Q Consensus 275 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~------- 347 (550)
+. ........|+++++.+.+.. +.+++|..+|++.....++......+..+++++||||+++|+|++++.
T Consensus 214 ~~--~~~~~~~~nitg~r~~~~~~-~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~ 290 (364)
T cd06390 214 DL--TKFRESGANVTGFQLVNYTD-TTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDIS 290 (364)
T ss_pred cH--HHHhcCCcCceEEEEecCCC-HHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCcc
Confidence 22 23345677899999987655 889999999988766555544444678899999999999999999642
Q ss_pred ------cC-------CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCCeeeEEEEEeCCCCC
Q 008863 348 ------YN-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (550)
Q Consensus 348 ------~~-------~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~g~ 407 (550)
.| |..|..|.++|++++|+|+||+|+|+++|+|.++.|+|+++.+.++++||+|++..|+
T Consensus 291 ~~~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~~~vG~W~~~~g~ 363 (364)
T cd06390 291 RRGNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGIRKIGYWNEDEKL 363 (364)
T ss_pred cCCCCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcceEEEEECCCCCc
Confidence 12 6779999999999999999999999999999999999999999999999999998775
No 4
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=1.1e-46 Score=366.69 Aligned_cols=343 Identities=17% Similarity=0.270 Sum_probs=288.2
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCC---C-CcEEEEEEe-cCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---R-NHKLSLQIR-DHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~---~-~~~l~~~~~-d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
.||+||+.+. .+.+.||++|++.+|.+. + ..+|.+.+. -...|++.+.+.+|++++ .||.||+||.++.++
T Consensus 1 ~iG~iF~~~~---~~~~~aF~~Av~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~~-~GV~AIfGp~~~~s~ 76 (372)
T cd06387 1 SIGGLFMRNT---VQEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQFS-RGVYAIFGFYDQMSM 76 (372)
T ss_pred CcceeecCCc---HHHHHHHHHHHHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHhh-cccEEEEecCCHhHH
Confidence 3899998664 467899999999999875 2 257777555 346899999999999998 699999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
..++++|+..+||+|.+... .+ ...++.+++.|+ +.+|+++++++|+|++|++|| |+++| ...++.+.
T Consensus 77 ~~v~s~c~~~~iP~i~~~~~--~~----~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY-d~d~g--l~~Lq~L~ 144 (372)
T cd06387 77 NTLTSFCGALHTSFITPSFP--TD----ADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY-DTERG--FSILQAIM 144 (372)
T ss_pred HHHHHhhccccCCeeeeCCC--CC----CCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-cCchh--HHHHHHHH
Confidence 99999999999999998654 11 344788999998 799999999999999999999 45667 77888888
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccc
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (550)
+.+...+ ..|......+. . ...+++..++++++.+.++||+ +|+++.+..+|++|.++||++++|+||+++..
T Consensus 145 ~~~~~~~-~~V~~~~v~~~-~----~~~~~~~~l~el~~~~~r~iIl-d~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld 217 (372)
T cd06387 145 EAAVQNN-WQVTARSVGNI-K----DVQEFRRIIEEMDRRQEKRYLI-DCEVERINTILEQVVILGKHSRGYHYMLANLG 217 (372)
T ss_pred HhhccCC-ceEEEEEeccC-C----chHHHHHHHHHhccccceEEEE-ECCHHHHHHHHHHHHHcCccccceEEEEecCC
Confidence 8888888 88766543332 1 3468899999999999999999 99999999999999999999999999999864
Q ss_pred hhhcccCChhHHhhcCc---eEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhc
Q 008863 271 ANALDSLNTTVISSMEG---TLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (550)
Q Consensus 271 ~~~~~~~~~~~~~~~~g---~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~ 347 (550)
....+ ..++..| +++++.+.+.. +.+++|.++|++.....++.....++..+++++||||+++|+|++++.
T Consensus 218 ~~~~d-----l~~~~~g~~NItg~rl~~~~~-~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~ 291 (372)
T cd06387 218 FTDIS-----LERVMHGGANITGFQIVNNEN-PMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLR 291 (372)
T ss_pred ccccc-----HHHhccCCcceeEEEEecCCC-chHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHH
Confidence 43333 2344555 88999876655 889999999988776666554444567899999999999999999652
Q ss_pred -------------cC-------CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCCeeeEEEEEeCCCCC
Q 008863 348 -------------YN-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (550)
Q Consensus 348 -------------~~-------~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~g~ 407 (550)
.| |..|..|.++|++++|+|+||+++|+++|+|.++.|+|+++.+.++++||+|++..|+
T Consensus 292 ~~~~~~~~~~~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~~kIG~W~~~~g~ 371 (372)
T cd06387 292 RQRVDVSRRGSAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGSRKAGYWNEYERF 371 (372)
T ss_pred hcCCCcccCCCCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCceeEEEECCCCCc
Confidence 22 6789999999999999999999999999999999999999999999999999998875
No 5
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=100.00 E-value=1.9e-46 Score=365.92 Aligned_cols=348 Identities=16% Similarity=0.270 Sum_probs=272.5
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCC---CCcEEEEEE-ecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQI-RDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~-~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
.||+||+..+ ...+.||++|++++|.+. ++.+|.+.+ +++.+|++.+...+|++++ ++|.|||||.++..+.
T Consensus 1 ~iG~if~~~~---~~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~~-~gV~AI~Gp~s~~~a~ 76 (400)
T cd06392 1 HIGAIFEENA---AKDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLMT-QGILALVTSTGCASAN 76 (400)
T ss_pred CeeeccCCCc---hHHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHHh-cCeEEEECCCchhHHH
Confidence 4899999764 457899999999999776 678999999 7999999999999999996 6999999999999999
Q ss_pred HHHHhhccCCccEEeccCCC---------CCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCc
Q 008863 112 VVAEIASRVQVPILSFAAPA---------VTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGD 182 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~---------~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~ 182 (550)
.++++|+.++||+|++++.+ .+|... ..+|.+.+.|+ ..+.+|+++++.+|+|++|++|| |+++|
T Consensus 77 ~v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~--~~~~~~~lrp~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~g-- 150 (400)
T cd06392 77 ALQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPE--GEEYTLAARPP-VRLNDVMLKLVTELRWQKFIVFY-DSEYD-- 150 (400)
T ss_pred HHHHHhccCcCCcEeecccccccccccccCCCCcC--cCceeEEecCc-hHHHHHHHHHHHhCCCcEEEEEE-ECccc--
Confidence 99999999999999986520 023222 33566777787 67889999999999999999999 67788
Q ss_pred chhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC-------CeEEEEEcCCHHHHHHHHHHHHHc
Q 008863 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ-------SRVFIVLQASLDMTIHLFTEANRM 255 (550)
Q Consensus 183 ~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~-------~~~ii~~~~~~~~~~~il~~a~~~ 255 (550)
...++.+.+.+.+.+ .+|.... +... ...++.+.++.++... -++||+ +|+++.+..++++|.++
T Consensus 151 l~~lq~L~~~~~~~~-~~I~~~~-v~~~-----~~~~~~~~l~~~~~~~L~~~~~~~r~iVv-~~s~~~~~~il~qA~~l 222 (400)
T cd06392 151 IRGLQSFLDQASRLG-LDVSLQK-VDRN-----ISRVFTNLFTTMKTEELNRYRDTLRRAIL-LLSPRGAQTFINEAVET 222 (400)
T ss_pred HHHHHHHHHHHhhcC-ceEEEEE-cccC-----cchhhhhHHHHHHHhhhhhccccceEEEE-EcCcHHHHHHHHHHHHh
Confidence 888999999999988 8887554 2211 0113444444443333 488888 99999999999999999
Q ss_pred CCCCCCEEEEEeccchhhcccCChhHHhhcCceEE----EEeecCCCChhHHHHH----HHHHHHhhccCCCCCCCCCCc
Q 008863 256 GLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLG----IKSYYSDDSSPYKEFS----ALFRRNFTSEYPEEDHFHPSI 327 (550)
Q Consensus 256 g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~----~~~~~~~~~~~~~~f~----~~~~~~~~~~~~~~~~~~~~~ 327 (550)
||++.+|+||+++......+ ..++.+|.++ ++.+.+.. .....|. .+|++....... .....+..
T Consensus 223 gM~~~~y~wI~t~~~~~~~d-----l~~~~~g~~~niT~~r~~~~~~-~~~~~~~~~~~~r~~~~~~~~~~-~~~~~l~~ 295 (400)
T cd06392 223 NLASKDSHWVFVNEEISDTE-----ILELVHSALGRMTVIRQIFPLS-KDNNQRCIRNNHRISSLLCDPQE-GYLQMLQV 295 (400)
T ss_pred CcccCCeEEEEecCCccccc-----HHHHhcccccceeeEEEecCCc-HHHHHHHHHHHHHHHhhhccccc-ccccccch
Confidence 99999999999998665433 3355666654 77665543 3344443 444332221100 11124678
Q ss_pred hhhHHhHHHHHHHHHHHhhc-----------cC-------CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEE
Q 008863 328 HALRAHDSIKIITEAIGRLN-----------YN-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVN 389 (550)
Q Consensus 328 ~~~~~yDav~~~a~Al~~~~-----------~~-------~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~ 389 (550)
+++++||||+++|+|++.+. .| |..|..|+++|++++|+|+||+|+|+++|+|.++.|+|++
T Consensus 296 ~aalayDaV~~~A~Al~~ll~~~~~~~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldIi~ 375 (400)
T cd06392 296 SNLYLYDSVLMLANAFHRKLEDRKWHSMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEILG 375 (400)
T ss_pred hHHHHHHHHHHHHHHHHHHhhccccCCCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEEEe
Confidence 99999999999999999742 12 6789999999999999999999999999999999999999
Q ss_pred ee-----CCeeeEEEEEeCCCCCc
Q 008863 390 VV-----GKKYKELDFWLPNFGFS 408 (550)
Q Consensus 390 ~~-----~~~~~~vG~w~~~~g~~ 408 (550)
++ +.++++||+|++..|++
T Consensus 376 l~~~~~~g~g~~~iG~W~~~~gl~ 399 (400)
T cd06392 376 TSYSETFGKDVRRLATWDSEKGLN 399 (400)
T ss_pred ccccccCCCCceEeEEecCCCCCC
Confidence 65 56699999999988864
No 6
>KOG1053 consensus Glutamate-gated NMDA-type ion channel receptor subunit GRIN2A and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=2.3e-45 Score=361.00 Aligned_cols=396 Identities=16% Similarity=0.302 Sum_probs=292.2
Q ss_pred cCCCCHHHHHHHHHHhhhcCCeEEEEcCCChH---HHHHHHHhhccCCccEEeccCCCCCCc--ccCCCCCeEEEEecCc
Q 008863 77 DHNRDPFQAATAAQELINKEKVKVIAGMETWE---ETAVVAEIASRVQVPILSFAAPAVTPL--SMSRRWPYLIRMASND 151 (550)
Q Consensus 77 d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~---~~~~v~~~~~~~~iP~is~~~~~~~~~--~~~~~~~~~~~~~p~~ 151 (550)
-...||...+..+|.+++..+|.+|+-...+. .+..+--+....+||+|+.... ... ..+.....++++.|+.
T Consensus 80 ~N~tdPkSll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg--~a~~~~~kd~gs~flQlg~Si 157 (1258)
T KOG1053|consen 80 MNTTDPKSLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGG--AAMVLTPKDLGSTFLQLGPSI 157 (1258)
T ss_pred cCCCCHHHHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecC--ccceecCCCCcceEEEeCCcH
Confidence 34589999999999999999999887544333 2223334667899999999877 333 3444556899999999
Q ss_pred HHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCC-CeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC
Q 008863 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVS-SSEIQSRLVLPPISSISDPKEAVRGELKKVQDK 230 (550)
Q Consensus 152 ~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g-~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~ 230 (550)
++|++++.++|+.|+|..|++|....+. ++.+...++...+..- ++++.......+.. ++.......++++.
T Consensus 158 eqqa~Vml~iL~~ydW~~Fs~vtt~~pg--~~~f~~~ir~~~d~s~vgwe~i~v~~l~~s~-----~d~~a~~q~qLkki 230 (1258)
T KOG1053|consen 158 EQQAQVMLKILEEYDWYNFSLVTTQFPG--NRTFVSLIRQTNDNSHVGWEMINVLTLDPST-----DDLLAKLQAQLKKI 230 (1258)
T ss_pred HHHHHHHHHHHHHcCcceeEEEEeecCc--hHHHHHHHHHhhhhccccceeeeeeecCCCC-----CchHHHHHHHHHhc
Confidence 9999999999999999999999998873 4888888888777643 03444444444332 12233344456666
Q ss_pred CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHH
Q 008863 231 QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFR 310 (550)
Q Consensus 231 ~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~ 310 (550)
++.+|++ .|+.+++..|+..|.++|+++++|.||++...... + +....+.-|.+.+... .|+
T Consensus 231 ~a~Vill-yC~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~-~---~~pa~~P~GLisv~~~-------------~w~ 292 (1258)
T KOG1053|consen 231 QAPVILL-YCSREEAERIFEEAEQAGLTGPGYVWIVPQLVEGL-E---PRPAEFPLGLISVSYD-------------TWR 292 (1258)
T ss_pred CCcEEEE-EecHHHHHHHHHHHHhcCCcCCceEEEeehhccCC-C---CCCccCccceeeeecc-------------chh
Confidence 7899999 99999999999999999999999999997665432 1 1112445566654421 111
Q ss_pred HHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhccC------------------CCCHHHHHHHHHhCcccccceeE
Q 008863 311 RNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN------------------ISSPEMLLRQMLSSDFSGLSGKI 372 (550)
Q Consensus 311 ~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~------------------~~~~~~l~~~l~~~~~~G~tG~i 372 (550)
. ...+.+-|++-+++.|...+... ...+..+..+|.++.|+| +.+
T Consensus 293 ~---------------~l~~rVrdgvaiva~aa~s~~~~~~~lp~~~~~C~~~~~~~~~~~~~l~r~l~NvT~~g--~~l 355 (1258)
T KOG1053|consen 293 Y---------------SLEARVRDGVAIVARAASSMLRIHGFLPEPKMDCREQEETRLTSGETLHRFLANVTWDG--RDL 355 (1258)
T ss_pred h---------------hHHHHHhhhHHHHHHHHHHHHhhcccCCCcccccccccCccccchhhhhhhhheeeecc--cce
Confidence 1 22456789999999998877542 236788999999999998 889
Q ss_pred EEeCCCCCCCCceEEEEee-CCeeeEEEEEeCCCCCccccCCCCcCCcCCCccccCCCCccccCCCCCCCCCCccccCCC
Q 008863 373 RFKDGELLNADTLRIVNVV-GKKYKELDFWLPNFGFSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGWAMPSN 451 (550)
Q Consensus 373 ~f~~~g~~~~~~~~i~~~~-~~~~~~vG~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~i~wp~~~~~~~p~~~~~~~~ 451 (550)
+|+++|...+++.-++.+. +..|.+||.|.... +.+. -.+||.-. +....++.
T Consensus 356 sf~~~g~~v~p~lvvI~l~~~r~We~VG~We~~~-L~M~--------------------y~vWPr~~----~~~q~~~d- 409 (1258)
T KOG1053|consen 356 SFNEDGYLVHPNLVVIDLNRDRTWERVGSWENGT-LVMK--------------------YPVWPRYH----KFLQPVPD- 409 (1258)
T ss_pred eecCCceeeccceEEEecCCCcchheeceecCCe-EEEe--------------------cccccccc----CccCCCCC-
Confidence 9999998888888877664 57899999998622 1111 16788321 22222332
Q ss_pred CCCeEecccCcccccccEEEec-CCCCC--------------------CCC-C-CCcccccchHHHHHHHHHhCCCCCCe
Q 008863 452 QEPMRIGVPTRTFFEKFVVIKD-DPLNG--------------------NSN-D-KNLRYDGFSIELFRLVVDHLNYDLPY 508 (550)
Q Consensus 452 ~~~~~i~~~~~~~~~pfv~~~~-~~~~~--------------------~~~-~-~~~~~~GfciDll~~la~~l~f~~~~ 508 (550)
..||+|++-+| +|||..++ |+.++ .+. + -..||+|||||+|++||+.++|+ |
T Consensus 410 ~~HL~VvTLeE---~PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~Ft--Y 484 (1258)
T KOG1053|consen 410 KLHLTVVTLEE---RPFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFT--Y 484 (1258)
T ss_pred cceeEEEEecc---CCeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcc--e
Confidence 45888888767 89998875 22222 000 0 15699999999999999999999 8
Q ss_pred EEEec---------CCChHHHHHhhhcccccEEeeceeeeeeeeeEEE
Q 008863 509 EFVPH---------DGVYDDLINGVYDKVNYFNYHDKLLFKKKKRLCL 547 (550)
Q Consensus 509 ~~~~~---------~g~w~Gmi~el~~~~ad~a~~~~ti~~~r~~~~~ 547 (550)
+|+.| ||.||||||||++++|||||++||||+||.+||.
T Consensus 485 DLYlVtnGKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSevVD 532 (1258)
T KOG1053|consen 485 DLYLVTNGKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSEVVD 532 (1258)
T ss_pred EEEEecCCcccceecCcchhhHHHHHhhhhheeeeeeEechhhhcccc
Confidence 88877 6899999999999999999999999999999985
No 7
>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=2.4e-45 Score=374.52 Aligned_cols=361 Identities=19% Similarity=0.281 Sum_probs=299.4
Q ss_pred cEEEEEEEecCC-------------ccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHhhhc--
Q 008863 34 VTKIGAIVDANS-------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINK-- 95 (550)
Q Consensus 34 ~i~IG~i~~~~~-------------~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~~~~li~~-- 95 (550)
++.||++||.+. ..|.....|+++|+++||+++ +|++|+++++|+++++..+++.+.+++.+
T Consensus 2 d~~igglfp~h~~~~~~~~c~~~~~~~G~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~a~~~a~~li~~~~ 81 (452)
T cd06362 2 DIILGGLFPVHSKGTGGEPCGEIKEQRGIQRLEAMLFALDEINNDPTLLPGITLGAHILDTCSRDTYALEQSLEFVRASL 81 (452)
T ss_pred CeEEEEEEecccCCCCCCCCcCccccchHHHHHHHHHHHHHhhCCCCCCCCCeeCcEEEEeCCCchHHHHHHHHHHhhhh
Confidence 589999999882 367778999999999999998 69999999999999999999999888853
Q ss_pred --------------------CCeEEEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCcc-cCCCCCeEEEEecCcHHh
Q 008863 96 --------------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDSEQ 154 (550)
Q Consensus 96 --------------------~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~-~~~~~~~~~~~~p~~~~~ 154 (550)
++|.+||||.+|..+.++++++..+++|+|+++++ ++.+ ++..|||+||+.|++..+
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~st--s~~ls~~~~~~~~fR~~p~d~~~ 159 (452)
T cd06362 82 TKIDDCVYCDGGSPPPNNSPKPVAGVIGASYSSVSIQVANLLRLFKIPQISYAST--SPELSDKTRYDYFSRTVPPDSFQ 159 (452)
T ss_pred hcCCccccccCCCcccccCCCCeEEEECCCCCchHHHHHHHhccccCcccccccC--chhhccccccCCEEEecCChHHH
Confidence 58999999999999999999999999999999988 6664 456889999999999999
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhc-CCCe
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQSR 233 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~-~~~~ 233 (550)
+.++++++++++|++|++|+++++|| ....+.+.+.+++.| ++|+....++... ...|+.+++++|++ .+++
T Consensus 160 ~~a~~~~l~~~~w~~vaii~~~~~~G--~~~~~~~~~~~~~~g-i~i~~~~~~~~~~----~~~d~~~~l~~l~~~~~a~ 232 (452)
T cd06362 160 AQAMVDIVKAFNWTYVSTVASEGNYG--EKGIEAFEKLAAERG-ICIAGSEKIPSSA----TEEEFDNIIRKLLSKPNAR 232 (452)
T ss_pred HHHHHHHHHHCCCcEEEEEEeCCHHH--HHHHHHHHHHHHHCC-eeEEEEEEcCCCC----CHHHHHHHHHHHhhcCCCe
Confidence 99999999999999999999999999 999999999999999 9999887776533 45799999999987 4899
Q ss_pred EEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHH-----
Q 008863 234 VFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSAL----- 308 (550)
Q Consensus 234 ~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~----- 308 (550)
+||+ .+....+..++++++++|+. ..+.||.++.|....... .......+|++++....... +.+++|++.
T Consensus 233 viil-~~~~~~~~~~~~~a~~~g~~-~~~~~i~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~i-~~f~~~l~~l~~~~ 308 (452)
T cd06362 233 VVVL-FCREDDIRGLLAAAKRLNAE-GHFQWIASDGWGARNSVV-EGLEDVAEGAITIELQSAEV-PGFDEYFLSLTPEN 308 (452)
T ss_pred EEEE-EcChHHHHHHHHHHHHcCCc-CceEEEEeccccccchhh-cccccccceEEEEEeccccc-ccHHHHhhhCCcCc
Confidence 9999 99999999999999999998 457999998886532211 22335678888877665443 456555432
Q ss_pred -----HHHHhhccCCCCC--------------C-------CCCCchhhHHhHHHHHHHHHHHhhcc---------C----
Q 008863 309 -----FRRNFTSEYPEED--------------H-------FHPSIHALRAHDSIKIITEAIGRLNY---------N---- 349 (550)
Q Consensus 309 -----~~~~~~~~~~~~~--------------~-------~~~~~~~~~~yDav~~~a~Al~~~~~---------~---- 349 (550)
|.+.||+..+.|. . .....+++++||||+++|+||+++.. |
T Consensus 309 ~~~~~~~~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~~~~c~~~~ 388 (452)
T cd06362 309 NSRNPWFREFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGTTGLCDAMK 388 (452)
T ss_pred CCCChHHHHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCCCCCCcCcc
Confidence 3444444333221 0 01234778899999999999998852 1
Q ss_pred CCCHHHHHHHHHhCcccccce-eEEEeCCCCCCCCceEEEEeeC----CeeeEEEEEeCCCCCc
Q 008863 350 ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVG----KKYKELDFWLPNFGFS 408 (550)
Q Consensus 350 ~~~~~~l~~~l~~~~~~G~tG-~i~f~~~g~~~~~~~~i~~~~~----~~~~~vG~w~~~~g~~ 408 (550)
+.++.+|.++|++++|.|++| +|+||++|++. ..|+|++++. .++++||.|++..|++
T Consensus 389 ~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~~-~~y~I~~~~~~~~~~~~~~VG~w~~~~~~~ 451 (452)
T cd06362 389 PIDGRKLLFYLRNVSFSGLAGGPVRFDANGDGP-GRYDIFNYQRTNGKYDYVKVGSWKGELSLN 451 (452)
T ss_pred CCCHHHHHHHHHhCCcCCCCCceEEECCCCCCC-CceEEEEEEEcCCceEEEEEEEEecccccC
Confidence 468899999999999999998 89999999996 6999999983 4689999999877753
No 8
>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=7e-45 Score=371.57 Aligned_cols=360 Identities=19% Similarity=0.263 Sum_probs=300.6
Q ss_pred CCCcEEEEEEEecCC----------------------ccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHH
Q 008863 31 IEEVTKIGAIVDANS----------------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQA 85 (550)
Q Consensus 31 ~~~~i~IG~i~~~~~----------------------~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a 85 (550)
.++.|.||++||.+. ..|.+...|+.+|+++||+++ |+++|+++++|+++++..+
T Consensus 9 ~~Gd~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~~a 88 (510)
T cd06364 9 KKGDIILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVSKA 88 (510)
T ss_pred ecCCEEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchHHH
Confidence 457899999999973 467788999999999999998 7899999999999999999
Q ss_pred HHHHHHhhhcCC------------------eEEEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCc-ccCCCCCeEEE
Q 008863 86 ATAAQELINKEK------------------VKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPL-SMSRRWPYLIR 146 (550)
Q Consensus 86 ~~~~~~li~~~~------------------v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~-~~~~~~~~~~~ 146 (550)
++.+.+++.+++ +.+||||.+|..+.++++++..++||+|+++++ ++. .++..||++||
T Consensus 89 ~~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~ss--s~~ls~~~~yp~ffR 166 (510)
T cd06364 89 LEATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASS--SRLLSNKNQFKSFLR 166 (510)
T ss_pred HHHHHHHHhcccccccccccccccCCCCCceEEEECCCchhHHHHHHHHhccccccccccccC--CcccCCccccCCeeE
Confidence 999999986543 469999999999999999999999999999988 666 44568999999
Q ss_pred EecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHH
Q 008863 147 MASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKK 226 (550)
Q Consensus 147 ~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~ 226 (550)
+.|++..+++++++++++|+|++|++|+++++|| +...+.+++.+++.| +||+..+.++... ...++.+++.+
T Consensus 167 t~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG--~~~~~~~~~~~~~~G-i~I~~~~~i~~~~----~~~d~~~~l~k 239 (510)
T cd06364 167 TIPNDEHQATAMADIIEYFRWNWVGTIAADDDYG--RPGIEKFREEAEERD-ICIDFSELISQYS----DEEEIQRVVEV 239 (510)
T ss_pred cCCChHHHHHHHHHHHHHcCCeEEEEEEecCcch--HHHHHHHHHHHHHCC-cEEEEEEEeCCCC----CHHHHHHHHHH
Confidence 9999999999999999999999999999999999 999999999999999 9999887776532 45789999999
Q ss_pred hhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHH
Q 008863 227 VQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFS 306 (550)
Q Consensus 227 i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~ 306 (550)
++++++|+||+ .+....+..++++++++|+.+ .+||+++.|............+.+.|++++.+..... +.+++|+
T Consensus 240 lk~~~a~vVvl-~~~~~~~~~ll~qa~~~g~~~--~iwI~s~~w~~~~~~~~~~~~~~~gg~lg~~~~~~~i-~~f~~~l 315 (510)
T cd06364 240 IQNSTAKVIVV-FSSGPDLEPLIKEIVRRNITG--KIWLASEAWASSSLIAMPEYFDVMGGTIGFALKAGQI-PGFREFL 315 (510)
T ss_pred HHhcCCeEEEE-EeCcHHHHHHHHHHHHhCCCC--cEEEEEchhhcccccccCCccceeeEEEEEEECCCcC-ccHHHHH
Confidence 99999999999 999999999999999999986 5999999887543333333446778899888765544 6777777
Q ss_pred HH----------HHHHhhccCCCCC---------------------------------CCC----------------CCc
Q 008863 307 AL----------FRRNFTSEYPEED---------------------------------HFH----------------PSI 327 (550)
Q Consensus 307 ~~----------~~~~~~~~~~~~~---------------------------------~~~----------------~~~ 327 (550)
+. |.+.||+..+.|. .|. ...
T Consensus 316 ~~l~p~~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~ 395 (510)
T cd06364 316 QKVHPKKSSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLR 395 (510)
T ss_pred HhCCcccCCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchh
Confidence 65 3444554333321 111 112
Q ss_pred hhhHHhHHHHHHHHHHHhhccC----------------CCCHHHHHHHHHhCcccccce-eEEEeCCCCCCCCceEEEEe
Q 008863 328 HALRAHDSIKIITEAIGRLNYN----------------ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNV 390 (550)
Q Consensus 328 ~~~~~yDav~~~a~Al~~~~~~----------------~~~~~~l~~~l~~~~~~G~tG-~i~f~~~g~~~~~~~~i~~~ 390 (550)
.+..+||||+++|+||+++..| ..++++|+++|++++|.|.+| ++.||++|+.. ..|+|+++
T Consensus 396 ~~~~v~~AVyAvAhaLh~~~~c~~~~~~~~~~~c~~~~~~~~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~~-~~YdI~n~ 474 (510)
T cd06364 396 ISYNVYLAVYSIAHALQDIYTCTPGKGLFTNGSCADIKKVEAWQVLKHLRHLNFTDNMGEQVRFDEGGDLV-GNYSIINW 474 (510)
T ss_pred hHHHHHHHHHHHHHHHHHHhcCCCCCCCccCCCCCCCCCCCHHHHHHHHHhcEEecCCCCEEEEecCCCCc-cceeEEEe
Confidence 3567999999999999998643 145889999999999999998 89999999974 79999999
Q ss_pred eC----C--eeeEEEEEeCC
Q 008863 391 VG----K--KYKELDFWLPN 404 (550)
Q Consensus 391 ~~----~--~~~~vG~w~~~ 404 (550)
+. + .+++||.|++.
T Consensus 475 q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 475 HLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred eecCCCCcEEEEEEEEEcCC
Confidence 83 1 37899999864
No 9
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=5.4e-45 Score=358.02 Aligned_cols=342 Identities=15% Similarity=0.252 Sum_probs=281.4
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCC----CCcEEEEEEe-cCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS----RNHKLSLQIR-DHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~----~~~~l~~~~~-d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
+||+||+.++ .+.+.||++|++.+|.+. .+.+|...+. -...|++.+.+.+|++++ +||.|||||.+|..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~a~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~~-~gV~AI~Gp~ss~~~ 76 (371)
T cd06388 1 QIGGLFIRNT---DQEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQYS-RGVFAIFGLYDKRSV 76 (371)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHHh-CCceEEEecCCHHHH
Confidence 4899998664 456799999999999764 2357776655 356799999999999998 699999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
.+++++|+..+||+|+++++ . ...+.|.+++.|+ +..++++++++++|++|++||++++ | ...++.|.
T Consensus 77 ~~v~~i~~~~~IP~I~~~~~--~----~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiYd~~~-~--~~~lq~l~ 144 (371)
T cd06388 77 HTLTSFCSALHISLITPSFP--T----EGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLYDTDR-G--YSILQAIM 144 (371)
T ss_pred HHHHHHhhCCCCCeeecCcc--c----cCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEecCCc-c--HHHHHHHH
Confidence 99999999999999998754 1 2345667777777 5788999999999999999997443 4 45788999
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccc
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (550)
+.+++.| ++|+.....+. .+.|++.+|++|++.++++||+ .|+.+.+..+++||+++||.+++||||+++..
T Consensus 145 ~~~~~~g-~~v~~~~~~~~------~~~d~~~~L~~ik~~~~~~iil-~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~ 216 (371)
T cd06388 145 EKAGQNG-WQVSAICVENF------NDASYRRLLEDLDRRQEKKFVI-DCEIERLQNILEQIVSVGKHVKGYHYIIANLG 216 (371)
T ss_pred HhhHhcC-CeeeeEEeccC------CcHHHHHHHHHhcccccEEEEE-ECCHHHHHHHHHHHHhcCccccceEEEEccCc
Confidence 9999999 88877553332 2369999999999999999999 99999999999999999999999999998763
Q ss_pred hhhcccCChhHHhhcCc---eEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhc
Q 008863 271 ANALDSLNTTVISSMEG---TLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (550)
Q Consensus 271 ~~~~~~~~~~~~~~~~g---~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~ 347 (550)
.... +..++..| +.++...... ++.+++|.++|.+.+...+++. ++.|...++++||||+++++|++++.
T Consensus 217 ~~~~-----~l~~~~~g~~nitg~~~~~~~-~~~v~~~~~~~~~~~~~~~~~~-~~~~~~~aAl~YDaV~l~a~A~~~l~ 289 (371)
T cd06388 217 FKDI-----SLERFMHGGANVTGFQLVDFN-TPMVTKLMQRWKKLDQREYPGS-ESPPKYTSALTYDGVLVMAEAFRNLR 289 (371)
T ss_pred cccc-----cHHHHhccCCceEEEEeecCC-ChhHHHHHHHHHhcCccccCCC-CCCccchHHHHHHHHHHHHHHHHHHH
Confidence 3222 22333343 6677765433 4789999999988776666432 24678899999999999999999753
Q ss_pred -------------cC-------CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCCeeeEEEEEeCCCCC
Q 008863 348 -------------YN-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (550)
Q Consensus 348 -------------~~-------~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~g~ 407 (550)
.| |..|..|+++|++++|+|+||+++||++|+|.++.++|++++..++++||+|++..|+
T Consensus 290 ~~~~~~~~~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~~kvG~W~~~~g~ 369 (371)
T cd06388 290 RQKIDISRRGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGPRKIGYWNDMDKL 369 (371)
T ss_pred hcCCCcccCCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCceEEEEEcCCCCc
Confidence 22 5677899999999999999999999999999989999999999999999999998886
Q ss_pred c
Q 008863 408 S 408 (550)
Q Consensus 408 ~ 408 (550)
+
T Consensus 370 ~ 370 (371)
T cd06388 370 V 370 (371)
T ss_pred c
Confidence 4
No 10
>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=3.7e-45 Score=364.11 Aligned_cols=353 Identities=20% Similarity=0.273 Sum_probs=287.0
Q ss_pred cEEEEEEEe-cC---CccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCC-CHHHHHHHHHHhhhcCCeEEEEcCC
Q 008863 34 VTKIGAIVD-AN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNR-DPFQAATAAQELINKEKVKVIAGME 105 (550)
Q Consensus 34 ~i~IG~i~~-~~---~~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~-~~~~a~~~~~~li~~~~v~aiiG~~ 105 (550)
.|+||+++| .+ +..|...+.|+++|+++||+++ ++..|.+.+.+.+. ++..+...+|+++. ++|.|||||.
T Consensus 2 ~i~IG~i~~~~tg~~~~~g~~~~~a~~~Av~~IN~~~~il~~~~l~~~~~~~~~~d~~~~~~~~~~~l~-~~V~AiiGp~ 80 (384)
T cd06393 2 VIRIGGIFEYLDGPNNQVMSAEELAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLA-LGVVAIFGPS 80 (384)
T ss_pred eeeEEEeecCCcccccccCcHHHHHHHHHHHHhcCCCccCCCceEEEEEEecccccchhHHHHhhcccc-cCcEEEECCC
Confidence 589999999 55 4567788999999999999988 67889998887544 67688899999886 6999999999
Q ss_pred ChHHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchh
Q 008863 106 TWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (550)
Q Consensus 106 ~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~ 185 (550)
+|..+.+++++|+.++||+|+++++ ++..+.. .+|++|+.|++..+..++++++++|+|++|++||+++. | ...
T Consensus 81 ~S~~~~av~~i~~~~~iP~Is~~~t--~~~lt~~-~~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~~-g--~~~ 154 (384)
T cd06393 81 QGSCTNAVQSICNALEVPHIQLRWK--HHPLDNK-DTFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDST-G--LIR 154 (384)
T ss_pred ChHHHHHHHHHHhccCCCeEeccCC--CcccCcc-ceeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCch-h--HHH
Confidence 9999999999999999999999988 6665433 36788888999899999999999999999999998765 5 555
Q ss_pred HHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEE
Q 008863 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (550)
Q Consensus 186 ~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (550)
++.+.+.+++.| ++|... .++. .+.|++.+|++|+..++++||+ .++.+.+..+++||+++||..+.|+|+
T Consensus 155 l~~~~~~~~~~g-~~v~~~-~~~~------~~~d~~~~L~~ik~~~~~~iil-~~~~~~~~~il~qa~~~gm~~~~~~~~ 225 (384)
T cd06393 155 LQELIMAPSRYN-IRLKIR-QLPT------DSDDARPLLKEMKRGREFRIIF-DCSHQMAAQILKQAMAMGMMTEYYHFI 225 (384)
T ss_pred HHHHHHhhhccC-ceEEEE-ECCC------CchHHHHHHHHHhhcCceEEEE-ECCHHHHHHHHHHHHHhccccCceEEE
Confidence 567888888889 998763 3543 3479999999999999999999 999999999999999999999999999
Q ss_pred EeccchhhcccCChhHHhh-cCc--eEEEEeecCCCChhHHHHHHHHHHH-hhccCCCCCC---CCCCchhhHHhHHHHH
Q 008863 266 VTNTVANALDSLNTTVISS-MEG--TLGIKSYYSDDSSPYKEFSALFRRN-FTSEYPEEDH---FHPSIHALRAHDSIKI 338 (550)
Q Consensus 266 ~~~~~~~~~~~~~~~~~~~-~~g--~~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~~~~~~---~~~~~~~~~~yDav~~ 338 (550)
+++......+.. .+ ..| ..++...... ++.+++|.++|+++ +......... ..+...++++||||++
T Consensus 226 ~~~~~~~~~~~~-----~~~~~~~~it~~~~~~~~-~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~ 299 (384)
T cd06393 226 FTTLDLYALDLE-----PYRYSGVNLTGFRILNVD-NPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHM 299 (384)
T ss_pred EccCccccccch-----hhhcCcceEEEEEecCCC-cHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHH
Confidence 887644332221 11 233 3455554333 48899999999754 5332111001 1235689999999999
Q ss_pred HHHHHHhhcc-------C-----CCCHHHHHHHHHhCcccccceeEEEeC-CCCCCCCceEEEEeeCCeeeEEEEEeCCC
Q 008863 339 ITEAIGRLNY-------N-----ISSPEMLLRQMLSSDFSGLSGKIRFKD-GELLNADTLRIVNVVGKKYKELDFWLPNF 405 (550)
Q Consensus 339 ~a~Al~~~~~-------~-----~~~~~~l~~~l~~~~~~G~tG~i~f~~-~g~~~~~~~~i~~~~~~~~~~vG~w~~~~ 405 (550)
+++|++++.. | |..|..|+++|++++|+|+||+++||+ +|.|.++.++|+++.+.++++||+|++..
T Consensus 300 ~a~A~~~~~~~~~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~~~vg~W~~~~ 379 (384)
T cd06393 300 VSVCYQRAPQMTVNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGLEKVGVWNPNT 379 (384)
T ss_pred HHHHHhhhhhcCCCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcceeeEEEcCCC
Confidence 9999996532 2 667899999999999999999999996 78999999999999999999999999998
Q ss_pred CCc
Q 008863 406 GFS 408 (550)
Q Consensus 406 g~~ 408 (550)
|++
T Consensus 380 g~~ 382 (384)
T cd06393 380 GLN 382 (384)
T ss_pred CcC
Confidence 875
No 11
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=4.4e-45 Score=359.71 Aligned_cols=348 Identities=16% Similarity=0.251 Sum_probs=284.7
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEe-cCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIR-DHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~-d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
+||+||+... .+.+.||++|++.+|.. +.+|.+.+. -...|++.+.+.+|++++ +||.||+||.++..+.+++
T Consensus 1 ~ig~if~~~~---~~~~~af~~a~~~~n~~--~~~l~~~~~~~~~~dsf~~~~~~C~~~~-~GV~AI~Gp~ss~~~~~v~ 74 (370)
T cd06389 1 QIGGLFPRGA---DQEYSAFRVGMVQFSTS--EFRLTPHIDNLEVANSFAVTNAFCSQFS-RGVYAIFGFYDKKSVNTIT 74 (370)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhccc--CceeeeeeEEecccchHHHHHHHHHHhh-cCcEEEEecCCHHHHHHHH
Confidence 4899998764 46789999999999986 577777554 466799999999999998 6999999999999999999
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHh
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (550)
++|+.++||+|+++++ . ...++|.+++.|+ ...++++++++|+|++|++||+ ++|| ...++.+.+.++
T Consensus 75 ~i~~~~~IP~I~~~~~--~----~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailYd-sd~g--l~~lq~l~~~~~ 142 (370)
T cd06389 75 SFCGTLHVSFITPSFP--T----DGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYLYD-SDRG--LSTLQAVLDSAA 142 (370)
T ss_pred HhhccCCCCeeeecCC--C----CCCCceEEEecch---hhhHHHHHHHhcCCcEEEEEec-CchH--HHHHHHHHHhhc
Confidence 9999999999998765 2 2356889999998 6899999999999999999998 5688 889999999999
Q ss_pred cCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccchhhc
Q 008863 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANAL 274 (550)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 274 (550)
+.| ++|.......... .....|++.+|++|++.++++||+ .|+.+.+..++++|+++||.++.|+||+++......
T Consensus 143 ~~g-~~V~~~~~~~i~~--~~~~~d~~~~L~~ik~~~~~~Iil-~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~ 218 (370)
T cd06389 143 EKK-WQVTAINVGNINN--DRKDEAYRSLFQDLENKKERRVIL-DCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDG 218 (370)
T ss_pred cCC-ceEEEEEeecCCC--ccchHHHHHHHHHhccccceEEEE-ECCHHHHHHHHHHHHHhCccccceEEEEccCCcccc
Confidence 999 8877543211110 113469999999999999999999 999999999999999999999999999987633222
Q ss_pred ccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhc-------
Q 008863 275 DSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN------- 347 (550)
Q Consensus 275 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~------- 347 (550)
++.. ......++.+++..... ++..++|.++|++....+++...+..+...++++||||+++++|++++.
T Consensus 219 ~l~~--~~~~~~nitg~~~~~~~-~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~ 295 (370)
T cd06389 219 DLSK--IQFGGANVSGFQIVDYD-DPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEIS 295 (370)
T ss_pred chhh--hccCCcceEEEEEecCC-CchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCcc
Confidence 2211 00112245666654443 4889999999987444445433335678899999999999999999763
Q ss_pred ------cC-------CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCCeeeEEEEEeCCCCCc
Q 008863 348 ------YN-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFS 408 (550)
Q Consensus 348 ------~~-------~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~g~~ 408 (550)
.| |.+|..|.++|++++|+|+||+|+||++|+|.++.++|++++..++++||+|++..|++
T Consensus 296 ~~~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~~kvG~W~~~~~~~ 369 (370)
T cd06389 296 RRGNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGPRKIGYWSEVDKMV 369 (370)
T ss_pred cCCCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcceEEEEEcCCCCcc
Confidence 22 56899999999999999999999999999999889999999999999999999988864
No 12
>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=5.8e-45 Score=370.01 Aligned_cols=358 Identities=18% Similarity=0.226 Sum_probs=296.1
Q ss_pred cEEEEEEEecCC----------------------ccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHH
Q 008863 34 VTKIGAIVDANS----------------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATA 88 (550)
Q Consensus 34 ~i~IG~i~~~~~----------------------~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~ 88 (550)
.|.||++||.+. ..|.+...|+.+|+++||++. ||++|++.++|+++++..+++.
T Consensus 2 di~igglf~vh~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~Am~~Ai~~IN~~~~lLp~~~Lg~~i~dtc~~~~~a~~~ 81 (469)
T cd06365 2 DLVIGGFFPLYTLSGPFETDDWHPFSADLDFRLLLKNYQHVLALLFAIEEINKNPHLLPNISLGFHIYNVLHSDRKALES 81 (469)
T ss_pred CeeEeceEEEEEeccccccccccCccccccccccchhhHHHHHHHHHHHHHhCCCCCCCCceEEEEEECCCCccHHHHHH
Confidence 588999998761 346788899999999999887 8999999999999999999999
Q ss_pred HHHhhhc-------------CCeEEEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCc-ccCCCCCeEEEEecCcHHh
Q 008863 89 AQELINK-------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPL-SMSRRWPYLIRMASNDSEQ 154 (550)
Q Consensus 89 ~~~li~~-------------~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~-~~~~~~~~~~~~~p~~~~~ 154 (550)
+.+++.. +++++||||.+|..+.+++++++.++||+|+++++ ++. .++..|||+||+.|++..+
T Consensus 82 ~~~~~~~~~~~~~~~~C~~~~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~st--s~~lsd~~~yp~ffRt~psd~~q 159 (469)
T cd06365 82 SLMWLSGEGETIPNYSCRRQRKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPF--DPLLSDRVQFPSLYQMAPKDTSL 159 (469)
T ss_pred HHHHHhCCCcccCCccCCCCCceEEEEcCCccHHHHHHHHHhhhhcccceeeccC--CccccchhhCCcceEecCCchhH
Confidence 9999853 57999999999999999999999999999999988 666 4567889999999999999
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
+.|+++++++|+|++|++|+++++|| ....+.+.+.+++.| +||...+.++... .....++..++++++++++|+
T Consensus 160 ~~ai~~li~~f~W~~Vaiv~~d~~yg--~~~~~~~~~~~~~~g-i~I~~~~~i~~~~--~~~~~~~~~~l~~i~~~~arv 234 (469)
T cd06365 160 PLGMVSLMLHFSWTWVGLVISDDDRG--EQFLSDLREEMQRNG-ICLAFVEKIPVNM--QLYLTRAEKYYNQIMTSSAKV 234 (469)
T ss_pred HHHHHHHHHhcCCeEEEEEEecChhH--HHHHHHHHHHHHHCC-eEEEEEEEecCCc--hhhHHHHHHHHHHhhcCCCeE
Confidence 99999999999999999999999999 999999999999999 9999988887643 011247889999999999999
Q ss_pred EEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHH------
Q 008863 235 FIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSAL------ 308 (550)
Q Consensus 235 ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~------ 308 (550)
||+ ++..+.+..++.++.+.+..+ ++||+++.|....... ....+.++|++++.++.... |.+++|+++
T Consensus 235 Ivl-~~~~~~~~~l~~~~~~~~~~~--~~wi~s~~w~~~~~~~-~~~~~~~~G~lg~~~~~~~~-~~f~~fl~~l~~~~~ 309 (469)
T cd06365 235 III-YGDTDSLLEVSFRLWQYLLIG--KVWITTSQWDVTTSPK-DFTLNSFHGTLIFSHHHSEI-PGFKDFLQTVNPSKY 309 (469)
T ss_pred EEE-EcCcHHHHHHHHHHHHhccCc--eEEEeecccccccccc-ccccceeeEEEEEEeccCcC-cchHHHhhccCcccC
Confidence 999 898888877766666655544 7999999886543221 22346789999999876665 889998876
Q ss_pred ----HHHHhhccCCCCC----------CCC----------------CCchhhHHhHHHHHHHHHHHhhccC---------
Q 008863 309 ----FRRNFTSEYPEED----------HFH----------------PSIHALRAHDSIKIITEAIGRLNYN--------- 349 (550)
Q Consensus 309 ----~~~~~~~~~~~~~----------~~~----------------~~~~~~~~yDav~~~a~Al~~~~~~--------- 349 (550)
|-..||+..+.|. .|. ....+.++||||+++|+||+++..|
T Consensus 310 ~~npw~~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~~~~~~ 389 (469)
T cd06365 310 PEDIFLEKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVETQSENN 389 (469)
T ss_pred CCccHHHhhHhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccCCCcCC
Confidence 3445665544432 111 1224577999999999999999754
Q ss_pred ----CCCHHHHHHHHHhCcccccce-eEEEeCCCCCCCCceEEEEeeC-----CeeeEEEEEeCC
Q 008863 350 ----ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVG-----KKYKELDFWLPN 404 (550)
Q Consensus 350 ----~~~~~~l~~~l~~~~~~G~tG-~i~f~~~g~~~~~~~~i~~~~~-----~~~~~vG~w~~~ 404 (550)
..++++|+++|++++|.|.+| .+.||++|+.. ..|+|++++. ..+++||.|++.
T Consensus 390 ~~~~~~~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~~-~~YdI~n~q~~~~~~~~~~~VG~~~~~ 453 (469)
T cd06365 390 GKRLIFLPWQLHSFLKNIQFKNPAGDEVNLNQKRKLD-TEYDILNYWNFPQGLGLKVKVGEFSPQ 453 (469)
T ss_pred CCCCCccHHHHHHHHHhccccCCCCCEEEecCCCCcC-ceeeEEEEEECCCCCEEEEEEEEEeCC
Confidence 146889999999999999999 79999999984 7999999972 247999999863
No 13
>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=6.3e-45 Score=371.60 Aligned_cols=358 Identities=19% Similarity=0.261 Sum_probs=295.3
Q ss_pred CCcEEEEEEEecCC-----------------ccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHH
Q 008863 32 EEVTKIGAIVDANS-----------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQE 91 (550)
Q Consensus 32 ~~~i~IG~i~~~~~-----------------~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~~~~ 91 (550)
+++|.||++||.+. ..|.+...|+.+|+++||+++ ||++|++.++|+|+++..|++.+.+
T Consensus 7 ~Gd~~igglfpvh~~~~~~~~~~~~c~~~~~~~g~~~~~Am~~Aie~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~~ 86 (472)
T cd06374 7 DGDIIIGALFSVHHQPAAEKVPERKCGEIREQYGIQRVEAMFHTLDRINADPVLLPNITLGCEIRDSCWHSSVALEQSIE 86 (472)
T ss_pred cCCEEEEEEEecccccccCCCCCCCccccCcchhHHHHHHHHHHHHHHhCCcccCCCceeccEEEEcCCCchHHHHHHHH
Confidence 46899999999872 257788899999999999998 8999999999999999999999999
Q ss_pred hhh-------------------------cCCeEEEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCcc-cCCCCCeEE
Q 008863 92 LIN-------------------------KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLI 145 (550)
Q Consensus 92 li~-------------------------~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~-~~~~~~~~~ 145 (550)
++. +++|.+||||.+|..+.++++++..++||+|+++++ ++.+ ++..|||+|
T Consensus 87 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~at--s~~ls~~~~~p~~f 164 (472)
T cd06374 87 FIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSAT--SIDLSDKTLFKYFL 164 (472)
T ss_pred HHhhcccccccccccccccCCCcccccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccC--chhhcccccCCceE
Confidence 885 248999999999999999999999999999999988 6664 456899999
Q ss_pred EEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHH
Q 008863 146 RMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELK 225 (550)
Q Consensus 146 ~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~ 225 (550)
|+.|++..++.++++++++|+|++|++|+++++|| ....+.+.+.+++.| +||+....++... ...+++.++.
T Consensus 165 Rt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg--~~~~~~~~~~~~~~g-i~i~~~~~i~~~~----~~~d~~~~l~ 237 (472)
T cd06374 165 RVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYG--ESGMEAFKELAAHEG-LCIAHSDKIYSNA----GEQSFDRLLR 237 (472)
T ss_pred EcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHH--HHHHHHHHHHHHHCC-eeEEEEEEecCCC----chHHHHHHHH
Confidence 99999999999999999999999999999999999 999999999999999 9999887775432 4579999999
Q ss_pred HhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHH
Q 008863 226 KVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYK 303 (550)
Q Consensus 226 ~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 303 (550)
+|++. ++++|++ .+....+..++++++++|+. ..++||.++.|........ ...+..+|++++....... +.++
T Consensus 238 ~lk~~~~da~vvv~-~~~~~~~~~~l~~a~~~g~~-~~~~wi~s~~~~~~~~~~~-~~~~~~~G~l~~~~~~~~~-~~F~ 313 (472)
T cd06374 238 KLRSRLPKARVVVC-FCEGMTVRGLLMAMRRLGVG-GEFQLIGSDGWADRDDVVE-GYEEEAEGGITIKLQSPEV-PSFD 313 (472)
T ss_pred HHHhcCCCcEEEEE-EechHHHHHHHHHHHHhcCC-CceEEEEecccccchHhhh-cchhhhheeEEEEecCCCC-ccHH
Confidence 99975 5556666 67888899999999999997 4479999998875322221 2345678999998765554 6777
Q ss_pred HHHHH----------HHHHhhccCCCCC-------------CCC----------CCchhhHHhHHHHHHHHHHHhhcc--
Q 008863 304 EFSAL----------FRRNFTSEYPEED-------------HFH----------PSIHALRAHDSIKIITEAIGRLNY-- 348 (550)
Q Consensus 304 ~f~~~----------~~~~~~~~~~~~~-------------~~~----------~~~~~~~~yDav~~~a~Al~~~~~-- 348 (550)
+|++. |...||+..+.|. .|. ...+++++||||+++|+||+++..
T Consensus 314 ~~l~~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~ 393 (472)
T cd06374 314 DYYLKLRPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDL 393 (472)
T ss_pred HHHHhCCcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhh
Confidence 76653 2233443333221 011 124566899999999999999852
Q ss_pred -------C----CCCHHHHHHHHHhCcccccce-eEEEeCCCCCCCCceEEEEeeC-----CeeeEEEEEeC
Q 008863 349 -------N----ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVG-----KKYKELDFWLP 403 (550)
Q Consensus 349 -------~----~~~~~~l~~~l~~~~~~G~tG-~i~f~~~g~~~~~~~~i~~~~~-----~~~~~vG~w~~ 403 (550)
| +.+|..|.++|++++|.|++| +|.||++|++. ..|+|++++. .++++||.|++
T Consensus 394 ~~~~~~~c~~~~~~~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w~~ 464 (472)
T cd06374 394 CPGHVGLCDAMKPIDGRKLLEYLLKTSFSGVSGEEVYFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSWHE 464 (472)
T ss_pred CCCCCCCCcCCCCCCHHHHHHHHHhCcccCCCCCeEEEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEEeC
Confidence 1 246889999999999999999 89999999986 6999999984 36899999974
No 14
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=100.00 E-value=1.8e-44 Score=358.75 Aligned_cols=331 Identities=20% Similarity=0.244 Sum_probs=279.1
Q ss_pred cchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhc------------------CCeEEEEcCCC
Q 008863 47 MGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINK------------------EKVKVIAGMET 106 (550)
Q Consensus 47 ~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~------------------~~v~aiiG~~~ 106 (550)
.|.+...|+.+|+|+||+++ +|++|+++++|+++++..+++.+.+++++ ++|.+||||.+
T Consensus 33 ~g~~~~~am~~AieeIN~~~~Lpg~~L~~~i~Dt~~~~~~a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~ 112 (403)
T cd06361 33 KGFLQTLAMIHAIEMINNSTLLLGVTLGYEIYDTCSEVTTAMAAVLRFLSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGY 112 (403)
T ss_pred hHHHHHHHHHHHHHHHhCCCCCCCCEEceEEEeCCCChHHHHHHHHHHHhhcccccccccccccCCCCCCCeEEEECCCc
Confidence 47788999999999999998 89999999999999999999999999974 58999999999
Q ss_pred hHHHHHHHHhhccCCccEEeccCCCCCCccc-CCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchh
Q 008863 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (550)
Q Consensus 107 s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~ 185 (550)
|..+.+++++++.++||+|+++++ ++.++ +.+|||+||+.|++..+++++++++++|+|++|++|+++++|| +..
T Consensus 113 S~~s~ava~v~~~~~IP~IS~~at--s~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~d~yG--~~~ 188 (403)
T cd06361 113 SEISMAVSRMLNLQLIPQVSYAST--AEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITDDDYG--RSA 188 (403)
T ss_pred chHHHHHHHHhccCCcceEecCcC--CcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEecCchH--HHH
Confidence 999999999999999999999999 77754 6788999999999999999999999999999999999999999 999
Q ss_pred HHHHHHHHhcCCCeEEEEEeecCCCCCCCC-ChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEE
Q 008863 186 LALLAEALQNVSSSEIQSRLVLPPISSISD-PKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (550)
Q Consensus 186 ~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~-~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~ 264 (550)
.+.|++.+++.| +||...+.++....... ...++..+++.++++++|+||+ .+....+..++++|+++|+ +++|
T Consensus 189 ~~~f~~~~~~~G-icIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv-~~~~~~~~~l~~~a~~~g~---~~~w 263 (403)
T cd06361 189 LETFIIQAEANG-VCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVV-FARQFHVFLLFNKAIERNI---NKVW 263 (403)
T ss_pred HHHHHHHHHHCC-eEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEE-EeChHHHHHHHHHHHHhCC---CeEE
Confidence 999999999999 99999888876421000 1145666777788899999999 9999999999999999999 3799
Q ss_pred EEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHH
Q 008863 265 IVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIG 344 (550)
Q Consensus 265 i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~ 344 (550)
|+++.|................|.+++.+... ...+|.+.|++.+ ...+||||+++|+||+
T Consensus 264 igs~~w~~~~~~~~~~~~~~~~g~ig~~~~~~----~~~~F~~~~~~~~---------------~~~v~~AVyaiA~Al~ 324 (403)
T cd06361 264 IASDNWSTAKKILTDPNVKKIGKVVGFTFKSG----NISSFHQFLKNLL---------------IHSIQLAVFALAHAIR 324 (403)
T ss_pred EEECcccCccccccCCcccccceEEEEEecCC----ccchHHHHHHHhh---------------HHHHHHHHHHHHHHHH
Confidence 99999976444333223355678888877543 3344444444432 3357999999999999
Q ss_pred hhccC-------CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCC----eeeEEEEEeCCCC
Q 008863 345 RLNYN-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGK----KYKELDFWLPNFG 406 (550)
Q Consensus 345 ~~~~~-------~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~----~~~~vG~w~~~~g 406 (550)
++..+ ..++++|+++|++++|.|.+|++.||++|+. ...|+|++++++ .+++||.|++...
T Consensus 325 ~~~~~~~c~~~~~~~~~~l~~~L~~~~f~g~~~~v~Fd~~gd~-~~~y~I~~~~~~~~~~~~~~vg~~~~~~~ 396 (403)
T cd06361 325 DLCQERQCQNPNAFQPWELLGQLKNVTFEDGGNMYHFDANGDL-NLGYDVVLWKEDNGHMTVTIMAEYDPQND 396 (403)
T ss_pred HhccCCCCCCCCCcCHHHHHHHHheeEEecCCceEEECCCCCC-CcceEEEEeEecCCcEEEEEEEEEeCCCC
Confidence 98631 2489999999999999999889999999987 579999999863 3799999998544
No 15
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=100.00 E-value=2.3e-44 Score=364.12 Aligned_cols=354 Identities=16% Similarity=0.241 Sum_probs=297.4
Q ss_pred cEEEEEEEecCC-------------ccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHhhh---
Q 008863 34 VTKIGAIVDANS-------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELIN--- 94 (550)
Q Consensus 34 ~i~IG~i~~~~~-------------~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~~~~li~--- 94 (550)
++.||++||.+. ..|.+...|+.+|+++||+++ ||++|++.++|+++++..+++.+.+++.
T Consensus 2 d~~igglFp~h~~~~~~~~C~~~~~~~g~~~~~Am~~AIe~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~~~i~~~~ 81 (458)
T cd06375 2 DLVLGGLFPVHEKGEGTEECGRINEDRGIQRLEAMLFAIDRINNDPRILPGIKLGVHILDTCSRDTYALEQSLEFVRASL 81 (458)
T ss_pred CEEEEEEEEeeeCCCCCCCCcCccccchHHHHHHHHHHHHHHhCCCCCCCCceeccEEEecCCCcHHHHHHHHHHHhhhh
Confidence 689999999972 358889999999999999998 7999999999999999999999887772
Q ss_pred ---------------------cCCeEEEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCcc-cCCCCCeEEEEecCcH
Q 008863 95 ---------------------KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDS 152 (550)
Q Consensus 95 ---------------------~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~-~~~~~~~~~~~~p~~~ 152 (550)
.++|.|||||.+|..+.++++++..++||+|+++++ ++.+ ++..|||+||+.|++.
T Consensus 82 ~~~~~~~~~C~~~~~~~~~~~~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~st--s~~Ls~~~~~~~ffRt~psd~ 159 (458)
T cd06375 82 TKVDTSEYECPDGSYAVQENSPLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYAST--SAKLSDKSRYDYFARTVPPDF 159 (458)
T ss_pred hcccccccccccCCccccccCCCCeEEEEcCCCchHHHHHHHHhhhccccceeeccC--ChhhcccccCCCeEEecCCcH
Confidence 247999999999999999999999999999999988 6764 5667899999999999
Q ss_pred HhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhc-CC
Q 008863 153 EQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQ 231 (550)
Q Consensus 153 ~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~-~~ 231 (550)
.+++|+++++++|+|++|++||++++|| ....+.+.+.+++.| +||+..+.++... ...|+..+++++++ .+
T Consensus 160 ~qa~ai~~ll~~~~W~~Vaii~~~~~yG--~~~~~~~~~~~~~~g-i~i~~~~~i~~~~----~~~d~~~~l~~l~~~~~ 232 (458)
T cd06375 160 YQAKAMAEILRFFNWTYVSTVASEGDYG--ETGIEAFEQEARLRN-ICIATSEKVGRSA----DRKSYDSVIRKLLQKPN 232 (458)
T ss_pred HHHHHHHHHHHHCCCeEEEEEEeCchHH--HHHHHHHHHHHHHCC-eeEEEEEEecCCC----CHHHHHHHHHHHhccCC
Confidence 9999999999999999999999999999 999999999999999 9999888776543 45799999999875 59
Q ss_pred CeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHH---
Q 008863 232 SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSAL--- 308 (550)
Q Consensus 232 ~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~--- 308 (550)
+|+||+ .+..+++..++++|.++|+. +.||+++.|....... .......+|++++.+..... +.+++|+++
T Consensus 233 a~vVvl-~~~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~~~-~~~~~~~~G~i~~~~~~~~i-~~f~~yl~~l~p 306 (458)
T cd06375 233 ARVVVL-FTRSEDARELLAAAKRLNAS---FTWVASDGWGAQESIV-KGSEDVAEGAITIELASHPI-PDFDRYFQSLTP 306 (458)
T ss_pred CEEEEE-ecChHHHHHHHHHHHHcCCc---EEEEEeccccccchhh-hccchhhceEEEEEeccccc-hhHHHHHHhCCc
Confidence 999999 99999999999999999986 6999999986432211 11235678999998876555 888888876
Q ss_pred -------HHHHhhccCCCCC---------CC------------CCCchhhHHhHHHHHHHHHHHhhcc--C---------
Q 008863 309 -------FRRNFTSEYPEED---------HF------------HPSIHALRAHDSIKIITEAIGRLNY--N--------- 349 (550)
Q Consensus 309 -------~~~~~~~~~~~~~---------~~------------~~~~~~~~~yDav~~~a~Al~~~~~--~--------- 349 (550)
|-..||+..+.|. .| .......++||||+++|+||+++.. |
T Consensus 307 ~~~~~n~w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~~~~~c~~ 386 (458)
T cd06375 307 ETNTRNPWFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPNTTKLCDA 386 (458)
T ss_pred CcCCCCcHHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence 4455665554432 11 1134677899999999999999863 2
Q ss_pred --CCCHHHHH-HHHHhCccc-----ccce-eEEEeCCCCCCCCceEEEEeeC--C----eeeEEEEEeC
Q 008863 350 --ISSPEMLL-RQMLSSDFS-----GLSG-KIRFKDGELLNADTLRIVNVVG--K----KYKELDFWLP 403 (550)
Q Consensus 350 --~~~~~~l~-~~l~~~~~~-----G~tG-~i~f~~~g~~~~~~~~i~~~~~--~----~~~~vG~w~~ 403 (550)
..++++|. .+|++++|. |.+| ++.||++|+.. ..|+|++++. + .+++||.|+.
T Consensus 387 ~~~~~~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd~~-~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 387 MKPLDGKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGDGL-GRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred CCCCCHHHHHHHHHHhccccccccCCCCCCeeEECCCCCCC-cceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 24678999 599999999 9988 89999999974 7999999983 2 2789999964
No 16
>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=2.4e-44 Score=366.76 Aligned_cols=357 Identities=19% Similarity=0.286 Sum_probs=287.0
Q ss_pred cEEEEEEEecC--C-----------ccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHH----Hhh
Q 008863 34 VTKIGAIVDAN--S-----------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQ----ELI 93 (550)
Q Consensus 34 ~i~IG~i~~~~--~-----------~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~~~----~li 93 (550)
+|+||++||.+ . ..|.+...|+++|+++||+++ ||++|+++++|+++++..+.+.+. +++
T Consensus 2 di~igglfp~h~~~~~~~~c~~~~~~~g~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~~~~~a~~~~~~l~ 81 (463)
T cd06376 2 DITLGGLFPVHARGPAGVPCGDIKKENGIHRLEAMLYALDQINSDPDLLPNVTLGARILDTCSRDTYALEQSLTFVQALI 81 (463)
T ss_pred CeEEEEEEeeeeCCCCCCCccccccchhHHHHHHHHHHHHHhhCCCCCCCCceEccEEEeccCCcHHHHHHHHHHHhhhh
Confidence 69999999988 1 266778899999999999998 789999999999988765554444 333
Q ss_pred hc------------------CCeEEEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCcc-cCCCCCeEEEEecCcHHh
Q 008863 94 NK------------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDSEQ 154 (550)
Q Consensus 94 ~~------------------~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~-~~~~~~~~~~~~p~~~~~ 154 (550)
.+ ++|.|||||.+|..+.+++++++.++||+|+++++ ++.+ ++..|||+||+.|++..+
T Consensus 82 ~~~~~~~~C~~~~~~~~~~~~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~at--s~~ls~~~~~~~ffR~~p~d~~~ 159 (463)
T cd06376 82 QKDTSDVRCTNGEPPVFVKPEKVVGVIGASASSVSIMVANILRLFQIPQISYAST--APELSDDRRYDFFSRVVPPDSFQ 159 (463)
T ss_pred hcccccCcCCCCCccccCCCCCeEEEECCCCchHHHHHHHHhccccCcccccccC--ChhhcccccCCceEEccCCHHHH
Confidence 21 58999999999999999999999999999999988 6664 456789999999999999
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhc-CCCe
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQSR 233 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~-~~~~ 233 (550)
+.++++++++|+|++|++|+++++|| ....+.+.+.+++.|.++|.....++... ...|+..++++|++ .+++
T Consensus 160 ~~ai~~~i~~~~w~~Vaii~~~~~yg--~~~~~~~~~~~~~~g~~~v~~~~~i~~~~----~~~d~~~~l~~ik~~~~~~ 233 (463)
T cd06376 160 AQAMVDIVKALGWNYVSTLASEGNYG--ESGVEAFTQISREAGGVCIAQSIKIPREP----RPGEFDKIIKRLLETPNAR 233 (463)
T ss_pred HHHHHHHHHHcCCeEEEEEEeCChHH--HHHHHHHHHHHHHcCCceEEEEEecCCCC----CHHHHHHHHHHHhccCCCe
Confidence 99999999999999999999999999 99999999999887416776655554332 45799999999987 6999
Q ss_pred EEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHH-----
Q 008863 234 VFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSAL----- 308 (550)
Q Consensus 234 ~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~----- 308 (550)
+||+ .+..+++..++++|+++|+.+ .|+||+++.|........ .....+.|++++.+..... +.+++|...
T Consensus 234 vIvl-~~~~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~~-~~~~~~~G~~~~~~~~~~~-~~F~~~~~~l~~~~ 309 (463)
T cd06376 234 AVII-FANEDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPIL-QQEDVAEGAITILPKRASI-EGFDAYFTSRTLEN 309 (463)
T ss_pred EEEE-ecChHHHHHHHHHHHhcCCcC-ceEEEEeccccccccccc-cCcceeeeEEEEEeccccc-hhHHHHHHhCCccc
Confidence 9999 999999999999999999986 489999999875432221 1234678999988765544 777777663
Q ss_pred -----HHHHhhccCCCCC----------------CCC---------CCchhhHHhHHHHHHHHHHHhhcc---------C
Q 008863 309 -----FRRNFTSEYPEED----------------HFH---------PSIHALRAHDSIKIITEAIGRLNY---------N 349 (550)
Q Consensus 309 -----~~~~~~~~~~~~~----------------~~~---------~~~~~~~~yDav~~~a~Al~~~~~---------~ 349 (550)
|...+|+..+.|. +.. ....++++||||+++|+||+++.. |
T Consensus 310 ~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~~~~~C 389 (463)
T cd06376 310 NRRNVWFAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPGYTGVC 389 (463)
T ss_pred CCCCcHHHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCCCCCCC
Confidence 2233443322221 110 122677899999999999999852 2
Q ss_pred ----CCCHHHHHHHHHhCcccccce-eEEEeCCCCCCCCceEEEEeeC-----CeeeEEEEEeC
Q 008863 350 ----ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVG-----KKYKELDFWLP 403 (550)
Q Consensus 350 ----~~~~~~l~~~l~~~~~~G~tG-~i~f~~~g~~~~~~~~i~~~~~-----~~~~~vG~w~~ 403 (550)
+.+|++|.++|++++|+|++| +|.||++|++. ..|+|++++. .++++||.|++
T Consensus 390 ~~~~~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~~-~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 390 PEMEPADGKKLLKYIRAVNFNGSAGTPVMFNENGDAP-GRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred ccCCCCCHHHHHHHHHhCCccCCCCCeEEeCCCCCCC-CceEEEEEEecCCCceeEEEEEEECC
Confidence 457899999999999999999 89999999985 6899999872 46899999975
No 17
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=100.00 E-value=4e-44 Score=357.72 Aligned_cols=350 Identities=17% Similarity=0.297 Sum_probs=280.6
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecC-CCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDH-NRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~-~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
+||+||+.+ +...+.|+++|++++|.+. ++++|.+.+.++ .+|+..+.+.+|++++ ++|.|||||.+|..+.
T Consensus 1 ~iG~if~~~---~~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~-~~V~aiiGp~~s~~~~ 76 (382)
T cd06380 1 PIGGLFDVD---EDQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLS-RGVFAIFGSYDKSSVN 76 (382)
T ss_pred CceeEECCC---ChHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHh-cCcEEEEecCcHHHHH
Confidence 489999998 4788999999999999874 456777667754 5899999999999997 5999999999999999
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
+++++|+.++||+|+++++ .+.+ ...++|+||+.|+ ...++++++++++|++|++||++++ | ....+.+.+
T Consensus 77 ~~~~~~~~~~iP~i~~~~~--~~~l-~~~~~~~fr~~p~---~~~a~~~~~~~~~wk~vaii~~~~~-~--~~~~~~~~~ 147 (382)
T cd06380 77 TLTSYSDALHVPFITPSFP--TNDL-DDGNQFVLQMRPS---LIQALVDLIEHYGWRKVVYLYDSDR-G--LLRLQQLLD 147 (382)
T ss_pred HHHHHHhcCCCCeEecCCC--cccC-CCCCcEEEEeccc---hhHHHHHHHHhcCCeEEEEEECCCc-c--hHHHHHHHH
Confidence 9999999999999999988 5555 3467899999986 3468999999999999999998775 4 556677778
Q ss_pred HHhcCCCeEEEEE-eecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccc
Q 008863 192 ALQNVSSSEIQSR-LVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (550)
Q Consensus 192 ~l~~~g~~~v~~~-~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (550)
.+++.| .++... ..+.... ...|++.+|++|++.++|+||+ .++.+++..++++|+++||.+++|+||+++..
T Consensus 148 ~~~~~g-~~i~v~~~~~~~~~----~~~d~~~~L~~ik~~~~~~iil-~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~ 221 (382)
T cd06380 148 YLREKD-NKWQVTARRVDNVT----DEEEFLRLLEDLDRRKEKRIVL-DCESERLNKILEQIVDVGKNRKGYHYILANLG 221 (382)
T ss_pred HHhccC-CceEEEEEEecCCC----cHHHHHHHHHHhhcccceEEEE-ECCHHHHHHHHHHHHHhhhcccceEEEEccCC
Confidence 888777 433322 2222211 3479999999999999999999 99999999999999999999999999998764
Q ss_pred hhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhcc--
Q 008863 271 ANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY-- 348 (550)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~-- 348 (550)
....++. .......+..++..... .++..++|.++|++.+...++......+..+++++||||+++++|++++..
T Consensus 222 ~~~~~~~--~~~~~~~~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~ 298 (382)
T cd06380 222 FDDIDLS--KFLFGGVNITGFQLVDN-TNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQR 298 (382)
T ss_pred cccccHH--HhccCceeeEEEeccCC-CCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4332221 01111123445544333 347899999999887754433222345677899999999999999998752
Q ss_pred -----------------C-------CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCCeeeEEEEEeCC
Q 008863 349 -----------------N-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPN 404 (550)
Q Consensus 349 -----------------~-------~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~ 404 (550)
| |.+|..|+++|++++|+|+||+++||++|+|.+..++|++++++++++||+|++.
T Consensus 299 ~~~~~~~~~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~~~vg~w~~~ 378 (382)
T cd06380 299 GSGRHRIDISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGLRKVGYWNED 378 (382)
T ss_pred cccccccccccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCceEEEEECCC
Confidence 1 4579999999999999999999999999999889999999999999999999998
Q ss_pred CCC
Q 008863 405 FGF 407 (550)
Q Consensus 405 ~g~ 407 (550)
.|+
T Consensus 379 ~g~ 381 (382)
T cd06380 379 DGL 381 (382)
T ss_pred cCc
Confidence 775
No 18
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=100.00 E-value=5.4e-44 Score=353.04 Aligned_cols=338 Identities=39% Similarity=0.691 Sum_probs=296.2
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
|||+++|++ +..|.....|+++|+++||+++ +|++|+++++|+++++..+++.+++|+.+++|.+||||.+|..+.
T Consensus 1 ~IG~~~p~sGa~~G~~~~~~~~lAv~~iN~~gg~~~g~~i~~~~~D~~~~~~~a~~~a~~l~~~~~v~~viG~~~s~~~~ 80 (350)
T cd06366 1 RIGAIFDLSGSWIGKAALPAIEMALEDVNADNSILPGYRLVLHVRDSKCDPVQAASAALDLLENKPVVAIIGPQCSSVAE 80 (350)
T ss_pred CEEEEEecCCCcccHHHHHHHHHHHHHHhcCCCcCCCcEEEEEecCCCCCHHHHHHHHHHHhccCCceEEECCCcHHHHH
Confidence 699999999 7789999999999999999997 589999999999999999999999999878999999999999999
Q ss_pred HHHHhhccCCccEEeccCCCCCCcc-cCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~-~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
+++++++.+++|+|+++++ ++.+ ++..+||+||+.|++..++.++++++++++|+++++|+++++|| ....+.++
T Consensus 81 a~~~~~~~~~ip~i~~~~~--~~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~~~~~v~ii~~~~~~g--~~~~~~~~ 156 (350)
T cd06366 81 FVAEVANEWNVPVLSFAAT--SPSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKFGWRRVATIYEDDDYG--SGGLPDLV 156 (350)
T ss_pred HHHHHhhcCCeeEEeccCC--CccccccccCCceEEcccchHhHHHHHHHHHHHCCCcEEEEEEEcCccc--chhHHHHH
Confidence 9999999999999999988 6665 56778999999999999999999999999999999999999999 99999999
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccc
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (550)
+.+++.| ++|+....++... ...|+.++++++++.++|+|++ ++...++..++++++++|+.++.|+|+.++.+
T Consensus 157 ~~~~~~g-~~v~~~~~~~~~~----~~~d~~~~l~~i~~~~~dvvi~-~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~ 230 (350)
T cd06366 157 DALQEAG-IEISYRAAFPPSA----NDDDITDALKKLKEKDSRVIVV-HFSPDLARRVFCEAYKLGMMGKGYVWILTDWL 230 (350)
T ss_pred HHHHHcC-CEEEEEeccCCCC----ChhHHHHHHHHHhcCCCeEEEE-ECChHHHHHHHHHHHHcCCcCCCEEEEECcch
Confidence 9999999 9999888777642 2479999999999999999999 99999999999999999999888999998765
Q ss_pred hhhc----ccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhh
Q 008863 271 ANAL----DSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (550)
Q Consensus 271 ~~~~----~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 346 (550)
.... ...........+|++++..+.+..++..++|.++|++++....+. ...|+.+++++||++++
T Consensus 231 ~~~~~~~~~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~p~~~a~~~YDav~~-------- 300 (350)
T cd06366 231 SSNWWSSSDCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPE--LTEPSIYALYAYDAVWA-------- 300 (350)
T ss_pred hhhhccCCCCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcC--cCCCCcccchhhhheee--------
Confidence 5432 112223446678988888776553578999999999988532111 12577889999999998
Q ss_pred ccCCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCCeeeEEEEEeCCCCCc
Q 008863 347 NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFS 408 (550)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~g~~ 408 (550)
+.+|+|++|+++||++|++.+..|+++++.++++++||.|++..|+.
T Consensus 301 ---------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~~~vg~~~~~~~~~ 347 (350)
T cd06366 301 ---------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGYRKIGFWSSESGLS 347 (350)
T ss_pred ---------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCceEEEEEEeCCCCcc
Confidence 45899999999999999998899999999999999999999887765
No 19
>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=7.7e-44 Score=354.55 Aligned_cols=316 Identities=20% Similarity=0.341 Sum_probs=262.3
Q ss_pred CcEEEEEEEecCCccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHH-HhhhcCCeEEEEc-CC-C
Q 008863 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQ-ELINKEKVKVIAG-ME-T 106 (550)
Q Consensus 33 ~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~~~-~li~~~~v~aiiG-~~-~ 106 (550)
.+|+||+++|.+ ..+.|+++|++++|++. ++.++.....+...++..+...+| +|++ ++|.+|+| +. +
T Consensus 18 ~~i~IG~i~~~~-----~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~~~~~~~~a~~~~~~Li~-~~V~aii~~~~~s 91 (377)
T cd06379 18 KTVNIGAVLSNK-----KHEQEFKEAVNAANVERHGSRKIKLNATTITHDPNPIQTALSVCEQLIS-NQVYAVIVSHPPT 91 (377)
T ss_pred cEEEEeEEecch-----hHHHHHHHHHHHHhhhhcCCcceeeccceEeecCChhhHHHHHHHHHhh-cceEEEEEeCCCC
Confidence 579999999843 67899999999999954 233343332222356777666666 4666 69999974 33 3
Q ss_pred hH---HHHHHHHhhccCCccEEeccCCCCCCcc-cCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCc
Q 008863 107 WE---ETAVVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGD 182 (550)
Q Consensus 107 s~---~~~~v~~~~~~~~iP~is~~~~~~~~~~-~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~ 182 (550)
+. .+.+++.+|+.++||+|+++++ ++.+ ++..+||+||+.|++..++.++++++++++|++|++||++++||
T Consensus 92 s~~~~~~~~v~~~~~~~~iP~Is~~a~--~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~~g-- 167 (377)
T cd06379 92 SNDHLTPTSVSYTAGFYRIPVVGISTR--DSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDHEG-- 167 (377)
T ss_pred CcccccHHHHHHHhhCCCCcEEecccC--CccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCcch--
Confidence 32 4667888999999999999887 6654 44568999999999999999999999999999999999999999
Q ss_pred chhHHHHHHHHhcCCCe----EEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 183 SGKLALLAEALQNVSSS----EIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 183 ~~~~~~l~~~l~~~g~~----~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
....+.+++.+++.| + ++...+.++. ...|+...++++++.++|+|++ .++.+++..++++++++||+
T Consensus 168 ~~~~~~~~~~~~~~g-~~~~~~v~~~~~~~~------~~~d~~~~l~~ik~~~~~vIvl-~~~~~~~~~l~~qa~~~g~~ 239 (377)
T cd06379 168 RAAQKRFETLLEERE-IEFKIKVEKVVEFEP------GEKNVTSLLQEAKELTSRVILL-SASEDDAAVIYRNAGMLNMT 239 (377)
T ss_pred hHHHHHHHHHHHhcC-CccceeeeEEEecCC------chhhHHHHHHHHhhcCCeEEEE-EcCHHHHHHHHHHHHHcCCC
Confidence 999999999999999 9 8877766655 3478999999999999999999 99999999999999999999
Q ss_pred CCCEEEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHH
Q 008863 259 GKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKI 338 (550)
Q Consensus 259 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~ 338 (550)
+++|+||.++.+... .....|+++++.... ..+++++||||++
T Consensus 240 ~~~~~wi~t~~~~~~--------~~~~~g~~g~~~~~~-----------------------------~~~~~~~yDAV~~ 282 (377)
T cd06379 240 GEGYVWIVSEQAGAA--------RNAPDGVLGLQLING-----------------------------KNESSHIRDAVAV 282 (377)
T ss_pred CCCEEEEEecccccc--------ccCCCceEEEEECCC-----------------------------CCHHHHHHHHHHH
Confidence 999999999987432 134578888875321 1246789999999
Q ss_pred HHHHHHhhccC----------------CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCCeeeEEEEEe
Q 008863 339 ITEAIGRLNYN----------------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWL 402 (550)
Q Consensus 339 ~a~Al~~~~~~----------------~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~~~~vG~w~ 402 (550)
+++|++++..+ |..|..+.++|++++|+|+||+|.||++|+|.++.|+|+++++.++++||.|+
T Consensus 283 ~A~Al~~~~~~~~~~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~~~VG~w~ 362 (377)
T cd06379 283 LASAIQELFEKENITEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKLVQVGLYN 362 (377)
T ss_pred HHHHHHHHHcCCCCCCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCceEeeEEc
Confidence 99999987421 45789999999999999999999999999998889999999999999999998
Q ss_pred C
Q 008863 403 P 403 (550)
Q Consensus 403 ~ 403 (550)
+
T Consensus 363 ~ 363 (377)
T cd06379 363 G 363 (377)
T ss_pred C
Confidence 6
No 20
>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-44 Score=353.64 Aligned_cols=321 Identities=18% Similarity=0.280 Sum_probs=278.0
Q ss_pred cEEEEEEEecCCccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHH-
Q 008863 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE- 109 (550)
Q Consensus 34 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~- 109 (550)
.|+||+++|.++ .+.+++.|+..+|.+. .+.+++++..|+.+||..+..++|+++.+++|.+|+||.+|..
T Consensus 2 ~~~ig~~~~~~~-----~~~~~~~a~~~~~~~~~~~~~~~~~l~~~d~~~d~~~~~~~~~~~l~~~~v~~iig~~~s~~~ 76 (362)
T cd06367 2 TVNIGVVLSGSS-----SEPAFRDAVTAANFRHNLPYNLSLEAVAVSNDTDPISLLLSVCDLLVVQVVAGVVFSDPTDEE 76 (362)
T ss_pred ceEEEEEecCCc-----chhhHHHHhhhccccccCCcccceEEEEEecCCCHHHHHHHHHHHhcccceEEEEecCCCCcc
Confidence 589999999882 3488888888888765 5899999999999999999999999998789999999999988
Q ss_pred --HHHHHHhhccCCccEEeccCCCCCCcc--cCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchh
Q 008863 110 --TAVVAEIASRVQVPILSFAAPAVTPLS--MSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (550)
Q Consensus 110 --~~~v~~~~~~~~iP~is~~~~~~~~~~--~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~ 185 (550)
+.+++.+|+.++||+|+++++ ++.+ ++..+||+||+.|++..+++++++++++|+|++|++||+++++| +..
T Consensus 77 ~~~~~~~~v~~~~~iP~Is~~~~--~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w~~vaii~~~~~~g--~~~ 152 (362)
T cd06367 77 AVAQILDFTSAQTRIPVVGISGR--ESIFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDWHQFSVVTSRDPGY--RDF 152 (362)
T ss_pred chhhhhhhhhhhhcCcEEEeecc--ccccccCCCcccceEeecCcHHHHHHHHHHHHHHcCCeEEEEEEEcCccc--HHH
Confidence 899999999999999999888 5554 45688999999999999999999999999999999999999999 999
Q ss_pred HHHHHHHHhcCCCeE--EEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEE
Q 008863 186 LALLAEALQNVSSSE--IQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (550)
Q Consensus 186 ~~~l~~~l~~~g~~~--v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~ 263 (550)
.+.+++.+++.| ++ +.....++... ..++...+.++++.++++|++ .|+...+..++++|.++||++++|+
T Consensus 153 ~~~l~~~l~~~g-~~~~i~~~~~~~~~~-----~~~~~~~l~~l~~~~~~vivl-~~~~~~~~~il~~a~~~g~~~~~~~ 225 (362)
T cd06367 153 LDRVETTLEESF-VGWEFQLVLTLDLSD-----DDGDARLLRQLKKLESRVILL-YCSKEEAERIFEAAASLGLTGPGYV 225 (362)
T ss_pred HHHHHHHHHhcc-cceeeeeeEEeccCC-----CcchHHHHHHHHhcCCcEEEE-eCCHHHHHHHHHHHHHcCCCCCCcE
Confidence 999999999999 88 66655555432 227888899999999999999 9999999999999999999999999
Q ss_pred EEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHH
Q 008863 264 WIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (550)
Q Consensus 264 ~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al 343 (550)
||+++.+..... .......|++++++... ..+.+++||||+++++|+
T Consensus 226 wI~~~~~~~~~~----~~~~~~~G~~g~~~~~~-----------------------------~~~~~~~~Dav~~~a~Al 272 (362)
T cd06367 226 WIVGELALGSGL----APEGLPVGLLGVGLDTW-----------------------------YSLEARVRDAVAIVARAA 272 (362)
T ss_pred EEECcccccccC----CccCCCCeeEEEEeccc-----------------------------ccHHHHHHHHHHHHHHHH
Confidence 999999864211 12255678888875311 234778999999999999
Q ss_pred HhhccC------------------CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEee-CCeeeEEEEEeC
Q 008863 344 GRLNYN------------------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKELDFWLP 403 (550)
Q Consensus 344 ~~~~~~------------------~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~-~~~~~~vG~w~~ 403 (550)
+++..+ |.+|..|.++|++++|.|++|+|.||++|+|.++.|+|++++ +.+|++||.|++
T Consensus 273 ~~~~~~~~~~~~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~~~VG~W~~ 351 (362)
T cd06367 273 ESLLRDKGALPEPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKWERVGSWEN 351 (362)
T ss_pred HHHHHhcCCCCCCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcceEEEEEcC
Confidence 987431 467889999999999999999999999999988999999999 889999999985
No 21
>cd06391 PBP1_iGluR_delta_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are closer related to non-NMDA receptors. GluRdelta2 was shown to function as a
Probab=100.00 E-value=3.9e-43 Score=346.71 Aligned_cols=356 Identities=17% Similarity=0.271 Sum_probs=274.1
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCC---CCcEEE--EEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLS--LQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~---~~~~l~--~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
+||+||+.++. ..+.||++|++++|++. ++++|. +...|+ +|++.+...+|++++ .+|.|||||.++..+
T Consensus 1 ~IGaif~~~s~---~~~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~-~d~f~a~~~~c~l~~-~gv~ai~Gp~~~~~~ 75 (400)
T cd06391 1 HIGAIFDESAK---KDDEVFRMAVADLNQNNEILQTEKITVSVTFVDG-NNPFQAVQEACELMN-QGILALVSSIGCTSA 75 (400)
T ss_pred CcceeeccCCc---hHHHHHHHHHHHhcCCccccCCCcceEEEEEeeC-CCcHHHHHHHHHHHh-CCeEEEECCCcchHH
Confidence 48999999863 44579999999999876 677555 477788 499999999999996 699999999888888
Q ss_pred HHHHHhhccCCccEEec----cCCC-CC--Cccc--CCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCC
Q 008863 111 AVVAEIASRVQVPILSF----AAPA-VT--PLSM--SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGG 181 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~----~~~~-~~--~~~~--~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~ 181 (550)
..++++|+.++||+|++ +++. ++ +... +..||+++| |+ ..+.+|+++++++|+|++++++++ +++|
T Consensus 76 ~~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~li~~f~W~~v~i~~d-~~~~- 150 (400)
T cd06391 76 GSLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRVVTEYAWQKFIIFYD-TDYD- 150 (400)
T ss_pred HHHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHHHHHcCCcEEEEEEe-CCcc-
Confidence 99999999999999984 3320 00 2222 445666655 65 678899999999999999998765 5567
Q ss_pred cchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHH-HHHHhhc--CCCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 182 DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRG-ELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 182 ~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~-~l~~i~~--~~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
...++.+.+.+.+.+ +||.... +.... ...-...++. .+++|++ .+.++||+ +|+.+.+..++++|.++||+
T Consensus 151 -~~~l~~l~~~~~~~~-i~I~~~~-~~~~~-~~~~~~~~~~~~~~~l~~~~~~~rviVl-~~~~~~~~~ll~~a~~~gm~ 225 (400)
T cd06391 151 -IRGIQEFLDKVSQQG-MDVALQK-VENNI-NKMITGLFRTMRIEELNRYRDTLRRAIL-VMNPATAKSFITEVVETNLV 225 (400)
T ss_pred -HHHHHHHHHHHHHcC-CeEEEEe-cCcch-hhhhHHHHHHHHHHHHHhhcccccEEEE-ECCcHHHHHHHHHHHHcCCC
Confidence 788899999999999 9998643 22111 0000012222 4566665 56799999 99999999999999999999
Q ss_pred CCCEEEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccC--CCCC-CCCCCchhhHHhHH
Q 008863 259 GKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEY--PEED-HFHPSIHALRAHDS 335 (550)
Q Consensus 259 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~--~~~~-~~~~~~~~~~~yDa 335 (550)
+++|+||++++.....++.+ .....+.|..++.++.+.. ....+|..+|..++.... +... ...+..+++++|||
T Consensus 226 ~~~y~wi~t~~~~~~~dl~~-~~~~~~~~v~~~r~~~~~~-~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~alayDa 303 (400)
T cd06391 226 AFDCHWIIINEEISDMDVQE-LVRRSIGRLTIIRQTFPLP-QNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYIYDT 303 (400)
T ss_pred CCCeEEEEeCccccccccch-HHhcccceEEEeccCCchH-HHHHHHHHHHhhhccccccCccccccccccchhhHHHHH
Confidence 99999999999887777533 2233445566677655443 567777777777653222 1111 12356889999999
Q ss_pred HHHHHHHHHhhcc-----------C-------CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEee-----C
Q 008863 336 IKIITEAIGRLNY-----------N-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-----G 392 (550)
Q Consensus 336 v~~~a~Al~~~~~-----------~-------~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~-----~ 392 (550)
|+++|+|++++.. | |..|..|+++|++++|+|+||+++|+++|+|.++.|+|+++. +
T Consensus 304 V~~~A~A~~~l~~~~~~~~~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~~~dIin~~~~~~~~ 383 (400)
T cd06391 304 VLLLANAFHKKLEDRKWHSMASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNVHFEILGTNYGEDLG 383 (400)
T ss_pred HHHHHHHHHHHHhhccccCCCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCCceEEEEeeccccCC
Confidence 9999999997631 2 678999999999999999999999999999999999999996 7
Q ss_pred CeeeEEEEEeCCCCCc
Q 008863 393 KKYKELDFWLPNFGFS 408 (550)
Q Consensus 393 ~~~~~vG~w~~~~g~~ 408 (550)
.++++||+|++..|++
T Consensus 384 ~g~rkiG~Ws~~~gl~ 399 (400)
T cd06391 384 RGVRKLGCWNPITGLN 399 (400)
T ss_pred CcceEEEEEcCCcCCC
Confidence 8999999999988864
No 22
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=100.00 E-value=1.4e-42 Score=345.29 Aligned_cols=347 Identities=15% Similarity=0.225 Sum_probs=282.6
Q ss_pred EEEEEecC---CccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 37 IGAIVDAN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 37 IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
|=+|+|.+ .........|+++|+++||+++ +|++|+++++|++|++..+...+..++. ++|.|||||.|+..+
T Consensus 2 ~~~l~p~~~~~~~~~~~~~~a~~lAie~IN~~~~ll~g~~l~~~~~d~~~~~~~~~~~~~~l~~-~~v~aiiGp~~s~~~ 80 (387)
T cd06386 2 VLVLLPQNNSYLFSSARVAPAIEYAQRRLEANRLLFPGFRFNVHYEDSDCGNEALFSLVDRSCA-RKPDLILGPVCEYAA 80 (387)
T ss_pred cEEECCCCCCcceehhhhHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCcCCchHHHHHHHHHHh-hCCCEEECCCCccHH
Confidence 34566755 3445788899999999999976 6899999999999998767777777665 699999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcc-c-CCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchh---
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLS-M-SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK--- 185 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~-~-~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~--- 185 (550)
.+++++|+.++||+|+++++ ++.. + +..||++||+.|++..++.++++++++|+|++|++||++++++ +..
T Consensus 81 ~~va~ia~~~~iP~Is~~a~--~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy~~~~~~--~~~~~~ 156 (387)
T cd06386 81 APVARLASHWNIPMISAGAL--AAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVYEDDKQE--RNCYFT 156 (387)
T ss_pred HHHHHHHHhCCCcEEccccC--chhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEEEcCCCC--ccceeh
Confidence 99999999999999999888 5664 3 4568999999999999999999999999999999999998887 765
Q ss_pred HHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEE
Q 008863 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (550)
Q Consensus 186 ~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (550)
.+.+.+.+++.| ++|......+. ...++..+++++++.+ |+||+ +++.+.+..++++|+++||++++|+||
T Consensus 157 ~~~l~~~~~~~g-i~v~~~~~~~~------~~~d~~~~l~~ik~~~-rvii~-~~~~~~~~~ll~~A~~~gm~~~~yv~i 227 (387)
T cd06386 157 LEGVHHVFQEEG-YHMSIYPFDET------KDLDLDEIIRAIQASE-RVVIM-CAGADTIRSIMLAAHRRGLTSGDYIFF 227 (387)
T ss_pred HHHHHHHHHhcC-ceEEEEecCCC------CcccHHHHHHHHHhcC-cEEEE-ecCHHHHHHHHHHHHHcCCCCCCEEEE
Confidence 889999999999 99987554332 2368999999999877 99999 999999999999999999999999999
Q ss_pred Eeccchhh-c--------ccCC---hhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCC-CCCCchhhHH
Q 008863 266 VTNTVANA-L--------DSLN---TTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDH-FHPSIHALRA 332 (550)
Q Consensus 266 ~~~~~~~~-~--------~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~-~~~~~~~~~~ 332 (550)
..+...+. . +..+ ....+.+.|+..+.++ ++.+++|.+++++++... +.+.. ..++.+++++
T Consensus 228 ~~d~~~~~~~~~~~w~~~~~~~~~~~~a~~~~~~v~~~~~~----~~~~~~f~~~~~~~~~~~-~~~~~~~~~~~~aa~~ 302 (387)
T cd06386 228 NIELFNSSSYGDGSWKRGDKHDFEAKQAYSSLNTVTLLRTV----KPEFEKFSMEVKSSVEKA-GDLNDCDYVNMFVEGF 302 (387)
T ss_pred EEecccccccCCCCCccCCCcCHHHHHHHHhheEEeccCCC----ChHHHHHHHHHHHHHHhC-CCCcccccchHHHHHH
Confidence 99765311 0 0011 1122334454443332 378899999998766542 22322 2455889999
Q ss_pred hHHHHHHHHHHHhh---ccCCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeC---CeeeEEEEEeC
Q 008863 333 HDSIKIITEAIGRL---NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG---KKYKELDFWLP 403 (550)
Q Consensus 333 yDav~~~a~Al~~~---~~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~---~~~~~vG~w~~ 403 (550)
|||++++++|++++ +..+.+|..|+++|++++|+|+||+++||++|+|. ..|.++.+++ ++++.||.|..
T Consensus 303 yDav~l~A~Al~~~~~~g~~~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r~-~~~~v~~~~~~~~~~~~~~~~~~~ 378 (387)
T cd06386 303 HDAILLYALALHEVLKNGYSKKDGTKITQRMWNRTFEGIAGQVSIDANGDRY-GDFSVIAMTDVEAGTYEVVGNYFG 378 (387)
T ss_pred HHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHhCCceeeccccEEECCCCCcc-ccEEEEEccCCCCccEEEEeEEcc
Confidence 99999999999998 32246899999999999999999999999999996 6999999964 78999999975
No 23
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=100.00 E-value=9e-44 Score=341.02 Aligned_cols=325 Identities=17% Similarity=0.302 Sum_probs=256.3
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHH-HHHHHHHHhhhcCCeEEEEcCCChHH-H
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPF-QAATAAQELINKEKVKVIAGMETWEE-T 110 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~-~a~~~~~~li~~~~v~aiiG~~~s~~-~ 110 (550)
+||+||+..+..|.....|+++|++++|+++ ++.+|++++.|...++. .+..++|++++ ++|.|||||.+|.. +
T Consensus 1 ~iG~i~d~~s~~G~~~~~a~~lAv~~iN~~~~~~~~~~l~~~~~d~~~d~~f~~~~~~~~~l~-~gV~AIiGp~ss~~~~ 79 (333)
T cd06394 1 RIAAILDDPMECGRGERLALALARERINRAPERLGKARVEVDIFELLRDSQYETTDTMCQILP-KGVVSVLGPSSSPASS 79 (333)
T ss_pred CceeeecCCccccHHHHHHHHHHHHHhccCccccCCceeEEEEeeccccChHHHHHHHHHHHh-cCeEEEECCCCchHHH
Confidence 5899999998899999999999999999986 34699999999888764 88889999996 69999999999975 5
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
.+++++|+..+||+|++++.. +|.....++++ +++.|++..+.+|+++++++|+|++|++||+++++- ..|+
T Consensus 80 ~~v~~i~~~~~VP~Is~~~~~-~~~~~~~~~~~-i~l~P~~~~~~~Ai~dli~~~~W~~v~~iYe~d~~l------~~L~ 151 (333)
T cd06394 80 SIVSHICGEKEIPHFKVGPEE-TPKLQYLRFAS-VNLHPSNEDISVAVAGILNSFNYPTASLICAKAECL------LRLE 151 (333)
T ss_pred HHHHHHhhccCCceEEecccc-CcccccccceE-EEecCCHHHHHHHHHHHHHhcCCCEEEEEEeCcHHH------HHHH
Confidence 699999999999999987651 13233334444 899999999999999999999999999999998853 3344
Q ss_pred HHHhcCCC--eEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEec
Q 008863 191 EALQNVSS--SEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (550)
Q Consensus 191 ~~l~~~g~--~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (550)
+.++.... ..+... .. ..+.|++++|++|++.++++||+ +|+.+.+..++++|+++||+.+.|+|++++
T Consensus 152 ~~l~~~~~~~~~i~~~----~~----~~~~d~~~~L~~ik~~~~~~iVv-~~~~~~a~~il~qa~~lGm~~~~y~~i~T~ 222 (333)
T cd06394 152 ELLRQFLISKETLSVR----ML----DDSRDPTPLLKEIRDDKTATIII-DANASMSHTILLKASELGMTSAFYKYILTT 222 (333)
T ss_pred HHHHhhcccCCceeeE----Ec----cCcccHHHHHHHHHhcCCCEEEE-ECChHHHHHHHHHHHHcCCCCCceEEEEec
Confidence 44443330 222211 11 13468999999999999999999 999999999999999999999999999998
Q ss_pred cchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhcc
Q 008863 269 TVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (550)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (550)
......++... ......+.+|+...+ .++..++|.++|+++|.+......-......++++||||+++
T Consensus 223 l~~~~~~L~~~--~~~~~niTgF~l~d~-~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~--------- 290 (333)
T cd06394 223 MDFPLLRLDSI--VDDRSNILGFSMFNQ-SHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV--------- 290 (333)
T ss_pred CCcccccHHHh--hcCCcceEEEEeecC-CcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE---------
Confidence 86543332211 111223456665433 348999999999887743221111112235789999999998
Q ss_pred CCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCCeeeEEEEEeCCCCCc
Q 008863 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFS 408 (550)
Q Consensus 349 ~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~g~~ 408 (550)
|+||+|+||+.|+|.++.++|++++..+.++||+|++..|++
T Consensus 291 ------------------glTg~i~f~~~g~R~~~~l~v~~l~~~g~~kig~W~~~~gl~ 332 (333)
T cd06394 291 ------------------GLTGRIEFNSKGQRSNYTLKILQKTRSGFRQIGQWHSNETLS 332 (333)
T ss_pred ------------------eeecceecCCCCcCcccEEEEEEecCCcceEEEEEeCCCCcC
Confidence 999999999999999999999999999999999999988865
No 24
>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=8.7e-42 Score=341.79 Aligned_cols=356 Identities=12% Similarity=0.159 Sum_probs=280.2
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (550)
+||++.|.+ ...+.....|+++|+++||+++ +|++|++++.|++|++..++..+++++.+++|.+||||.||..
T Consensus 1 ~vg~~~p~~~~~~~~~~~~~~a~~lAi~~IN~~~~~l~~~~l~~~~~D~~~~~~~a~~~~~~l~~~~~v~aiiGp~~S~~ 80 (391)
T cd06372 1 TVGFQAPWNISHPFSAQRLGAALQIAMDKVNSDPVYLGNYSMEFTYTNSTCSAKESLAGFIDQVQKEHISALFGPACPEA 80 (391)
T ss_pred CceeeccccccCchhhhhHHHHHHHHHHHHhcCCCCCCCceEEEEEecCCCCccHHHHHHHHHHHhcCceEEECCCCCcH
Confidence 589999976 3356677789999999999997 5799999999999999999999999998789999999999999
Q ss_pred HHHHHHhhccCCccEEeccCCCCCCcc-cCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC---CCCcchh
Q 008863 110 TAVVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGK 185 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~~~~~~~-~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~---~g~~~~~ 185 (550)
+.+++++++.+++|+|+++++ ++.+ ++..||+++|+.|++..++.++++++++|+|++|++||++++ ++.....
T Consensus 81 ~~av~~va~~~~iP~is~~s~--s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~vaii~~~~~~~~~~~~~~~ 158 (391)
T cd06372 81 AEVTGLLASQWNIPMFGFVGQ--TAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIGLFGGSSRDSSWDEVDEL 158 (391)
T ss_pred HHHHHHHHhccCccEEEeecC--CccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEEEEEeccccchhhhHHHH
Confidence 999999999999999999887 6664 456789999999999999999999999999999999996542 2200112
Q ss_pred HHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEE
Q 008863 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (550)
Q Consensus 186 ~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (550)
.+.+.+.++ .+ +++...+.+... ..++...+.+.++.++|+||+ +++.+.+..++++|.++||.++.|+||
T Consensus 159 ~~~~~~~~~-~~-~~i~~~~~~~~~------~~d~~~~~l~~~~~~~~vii~-~~~~~~~~~i~~~a~~~g~~~~~y~~i 229 (391)
T cd06372 159 WKAVENQLK-FH-FNITATVRYSSS------NPDLLQEKLRYISSVARVIIL-ICSSEDAKAILQAAEKLGLMKGKFVFF 229 (391)
T ss_pred HHHHHHHHh-hC-EEEEEEEecCCC------ChHHHHHHHHhhhccceEEEE-EcChHHHHHHHHHHHHcCCCCCCEEEE
Confidence 334455554 57 888887766553 256666555555679999999 999999999999999999998889999
Q ss_pred Eecc-----chhhccc-CChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCC---CCCCCchhhHHhHHH
Q 008863 266 VTNT-----VANALDS-LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEED---HFHPSIHALRAHDSI 336 (550)
Q Consensus 266 ~~~~-----~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~---~~~~~~~~~~~yDav 336 (550)
.+.. |...... ......+..+|++++........+...+|.++|++++......+. ......+++++||||
T Consensus 230 ~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav 309 (391)
T cd06372 230 LLQQFEDNFWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAV 309 (391)
T ss_pred EehhhcCccccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHH
Confidence 9532 3211110 011223456787777665433345677898888887753322111 113457899999999
Q ss_pred HHHHHHHHhhccC---CCCHHHHHHHHH---hCcccccceeEEEeCCCCCCCCceEEEEeeC----CeeeEEEEEeC
Q 008863 337 KIITEAIGRLNYN---ISSPEMLLRQML---SSDFSGLSGKIRFKDGELLNADTLRIVNVVG----KKYKELDFWLP 403 (550)
Q Consensus 337 ~~~a~Al~~~~~~---~~~~~~l~~~l~---~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~----~~~~~vG~w~~ 403 (550)
+++++|++++..+ +.+|..+.+.|+ +++|+|+||+|.||++|+|. ..|.|+++++ ..+++||+|+.
T Consensus 310 ~~~A~Al~~~~~~g~~~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r~-~~y~i~~~~~~~~~~~~~~vg~~~~ 385 (391)
T cd06372 310 LLYALAVKEMLKAGKDFRNGRQLVSTLRGANQVELQGITGLVLLDEQGKRQ-MDYSVYALQKSGNSSLFLPFLHYDS 385 (391)
T ss_pred HHHHHHHHHHHhcCCCCCCHHHHHHHHhhccCceEeccceeEEECCCCCcc-eeEEEEeccccCCccceeeEEEecc
Confidence 9999999996543 568999999999 68999999999999999994 8999999975 34899999986
No 25
>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=1.4e-41 Score=341.56 Aligned_cols=340 Identities=20% Similarity=0.292 Sum_probs=281.0
Q ss_pred CCcEEEEEEEecCC---------------------ccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHH
Q 008863 32 EEVTKIGAIVDANS---------------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAAT 87 (550)
Q Consensus 32 ~~~i~IG~i~~~~~---------------------~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~ 87 (550)
++.+.||++||.+. ..|.....|+++|+++||+++ +|++|+++++|+++ +..+.+
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~g~~~~~a~~lAv~~IN~~ggil~g~~l~~~~~D~~~-~~~a~~ 82 (410)
T cd06363 4 PGDYLLGGLFPLHYATSALPHRRPEPLDCSSYRFNLSGYRLFQAMRFAVEEINNSTSLLPGVTLGYEIFDHCS-DSANFP 82 (410)
T ss_pred CCCEEEEEEeECcccccccccCCCCCccCccCccCHHHHHHHHHHHHHHHHHhCCCccCCCCeeceEEEecCC-cHHHHH
Confidence 46799999999872 356677899999999999998 58999999999977 667999
Q ss_pred HHHHhhhc---------------CCeEEEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCccc-CCCCCeEEEEecCc
Q 008863 88 AAQELINK---------------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASND 151 (550)
Q Consensus 88 ~~~~li~~---------------~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~~~~p~~ 151 (550)
.+.+|+.+ ++|.+||||.+|..+.+++++++.+++|+|+++++ ++.++ +..+||+||+.|++
T Consensus 83 ~~~~li~~~~~~~~~~c~~~~~~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~--~~~lt~~~~~~~~fr~~~~~ 160 (410)
T cd06363 83 PTLSLLSVNGSRIEPQCNYTNYQPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGAS--SEVLSNKELYPSFLRTVPSD 160 (410)
T ss_pred HHHHHHhccCcccCcccccccCCCCeEEEECCCccHHHHHHHHHhccccccccccccc--CccccccccCCCeeEecCCc
Confidence 99998854 79999999999999999999999999999999988 66644 45789999999999
Q ss_pred HHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC
Q 008863 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ 231 (550)
Q Consensus 152 ~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~ 231 (550)
..++.++++++++++|++|++|+++++|| ....+.+++.+++.| +++.....++... ....|+..++++|+.++
T Consensus 161 ~~~~~al~~~l~~~~~k~vaii~~~~~~g--~~~~~~~~~~l~~~g-i~i~~~~~~~~~~---~~~~d~~~~l~~i~~~~ 234 (410)
T cd06363 161 KDQIEAMVQLLQEFGWNWVAFLGSDDEYG--RDGLQLFSELIANTG-ICIAYQGLIPLDT---DPETDYQQILKQINQTK 234 (410)
T ss_pred HHHHHHHHHHHHHCCCcEEEEEEeCChhH--HHHHHHHHHHHHHCC-eEEEEEEEecCCC---chHHHHHHHHHHHhcCC
Confidence 99999999999999999999999999999 999999999999999 9999887776431 13579999999999999
Q ss_pred CeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHH
Q 008863 232 SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRR 311 (550)
Q Consensus 232 ~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~ 311 (550)
+|+|++ .+..+.+..++++++++|+.+. .|+.+..|................+.+++...... .+.+++|.++
T Consensus 235 ~dvIil-~~~~~~~~~il~qa~~~g~~~~--~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~f~~~--- 307 (410)
T cd06363 235 VNVIVV-FASRQPAEAFFNSVIQQNLTGK--VWIASEAWSLNDELPSLPGIRNIGTVLGVAQQTVT-IPGFSDFIYS--- 307 (410)
T ss_pred CeEEEE-EcChHHHHHHHHHHHhcCCCCC--EEEEeCcccccccccCCccceeeccEEEEEeCCCC-CccHHHHHHH---
Confidence 999999 9999999999999999999764 88988776532111111111234455665544333 3666666654
Q ss_pred HhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhccC---------CCCHHHHHHHHHhCcccccceeEEEeCCCCCCC
Q 008863 312 NFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN---------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNA 382 (550)
Q Consensus 312 ~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~---------~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~ 382 (550)
+++.+||||+++++|++++..+ ..+++.|+++|++++|.|++|++.||++|++.
T Consensus 308 ----------------~~~~~YDaV~~~a~Al~~a~~~~~~~~~~~~~~~~~~l~~~L~~~~~~g~~g~i~fd~~G~~~- 370 (410)
T cd06363 308 ----------------FAFSVYAAVYAVAHALHNVLQCGSGGCPKRVPVYPWQLLEELKKVNFTLLGQTVRFDENGDPN- 370 (410)
T ss_pred ----------------HHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCHHHHHHHHhccEEecCCcEEEeCCCCCCc-
Confidence 3567999999999999998322 23688999999999999999999999999864
Q ss_pred CceEEEEeeCC----eeeEEEEEeCC
Q 008863 383 DTLRIVNVVGK----KYKELDFWLPN 404 (550)
Q Consensus 383 ~~~~i~~~~~~----~~~~vG~w~~~ 404 (550)
..+.|++++.. ++++||+|++.
T Consensus 371 ~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 371 FGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred cceEEEEEEEcCCceeEEEEEEEECC
Confidence 68999999542 58999999874
No 26
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=100.00 E-value=9.3e-42 Score=342.08 Aligned_cols=351 Identities=15% Similarity=0.217 Sum_probs=283.0
Q ss_pred EEEEEEEecCC----ccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCCh
Q 008863 35 TKIGAIVDANS----QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW 107 (550)
Q Consensus 35 i~IG~i~~~~~----~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 107 (550)
|+||+++|+++ ..|.....|+++|+++||+++ +|++|++++.|+++++..+++.+++++. ++|.+||||.+|
T Consensus 1 i~iG~~~pltG~~~a~~G~~~~~a~~lAv~~IN~~ggil~g~~l~l~~~D~~~~~~~a~~~~~~li~-~~v~aiiGp~~S 79 (404)
T cd06370 1 IKVGYLAEWTTDRTDRLGLPISGALTLAVEDVNADPNLLPGYKLQFEWVDTHGDEVLSIRAVSDWWK-RGVVAFIGPECT 79 (404)
T ss_pred CeeEecccccCCccccccccHHHHHHHHHHHHhCCCCCCCCCEEEEEEEecCCChHHHHHHHHHHHh-cCceEEECCCch
Confidence 68999999985 458889999999999999997 5899999999999999999999999997 599999999987
Q ss_pred HHHHHHHHhhccCCccEEeccCCCCCCcc-cCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhH
Q 008863 108 EETAVVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (550)
Q Consensus 108 ~~~~~v~~~~~~~~iP~is~~~~~~~~~~-~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~ 186 (550)
.. +++.+++.++||+|+++++ ++.+ ++..||++||+.|++..++.++++++++++|+++++|+++++|| ....
T Consensus 80 ~~--~~a~i~~~~~iP~Is~~a~--~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~g--~~~~ 153 (404)
T cd06370 80 CT--TEARLAAAWNLPMISYKCD--EEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYENDSKY--SSVF 153 (404)
T ss_pred hH--HHHHHHhhcCCcEEecccC--CccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEecCccc--HHHH
Confidence 43 4567999999999999988 6664 45578999999999999999999999999999999999999999 9999
Q ss_pred HHHHHHHhcCCCeEEEEEeecCCCCCCC-CChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCC-CCCEEE
Q 008863 187 ALLAEALQNVSSSEIQSRLVLPPISSIS-DPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVW 264 (550)
Q Consensus 187 ~~l~~~l~~~g~~~v~~~~~~~~~~~~~-~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~-~~~~~~ 264 (550)
+.+++.+++.| ++|+..+.++...... ....++..++++++.. ++++|+ ++....+..++++|.++||. +.+|+|
T Consensus 154 ~~~~~~~~~~g-~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~-~~~~~~~~~~l~qa~~~g~~~~~~y~~ 230 (404)
T cd06370 154 ETLKEEAELRN-ITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVF-IGEANELRQFLMSMLDEGLLESGDYMV 230 (404)
T ss_pred HHHHHHHHHcC-CEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEE-EcCHHHHHHHHHHHHHcCCCCCCcEEE
Confidence 99999999999 9999888776541000 0246888889888764 677777 67778899999999999998 688999
Q ss_pred EEeccchh------h------------cccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCC------
Q 008863 265 IVTNTVAN------A------------LDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEE------ 320 (550)
Q Consensus 265 i~~~~~~~------~------------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~------ 320 (550)
|..+.... . .........+.++|++.+..... ++...+|.+.|++.+....+.+
T Consensus 231 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 308 (404)
T cd06370 231 LGVDIEYYDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV--SPDYDSFSIFVRKYNLEPPFNGDLGESE 308 (404)
T ss_pred EEEchhhccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC--CchHHHHHHHHHHhccCCCCcccccccc
Confidence 98653110 0 00111233456778777654333 4677888888887654322111
Q ss_pred CCCCCCchhhHHhHHHHHHHHHHHhhccC---CCCHHHHHHHHHhCcccccce-eEEEeCCCCCCCCceEEEEeeCCeee
Q 008863 321 DHFHPSIHALRAHDSIKIITEAIGRLNYN---ISSPEMLLRQMLSSDFSGLSG-KIRFKDGELLNADTLRIVNVVGKKYK 396 (550)
Q Consensus 321 ~~~~~~~~~~~~yDav~~~a~Al~~~~~~---~~~~~~l~~~l~~~~~~G~tG-~i~f~~~g~~~~~~~~i~~~~~~~~~ 396 (550)
....++.+++++|||++++++|++++..+ ..+|..|+++|++++|+|+|| ++.||++|+|. ..|.+++++++.|-
T Consensus 309 ~~~~~~~~aa~~yDAv~~~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~~-~~y~v~~~~~~~~~ 387 (404)
T cd06370 309 LVLEIDIEAAYLYDAVMLYAKALDETLLEGGDIYNGTAIVSHILNRTYRSITGFDMYIDENGDAE-GNYSVLALQPIPPG 387 (404)
T ss_pred cccccceeeehhHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHhCcccccccCceEEEcCCCCcc-cceEEEEecccccc
Confidence 23457788999999999999999998322 247999999999999999999 99999999984 89999999887554
Q ss_pred EE
Q 008863 397 EL 398 (550)
Q Consensus 397 ~v 398 (550)
.-
T Consensus 388 ~~ 389 (404)
T cd06370 388 DN 389 (404)
T ss_pred CC
Confidence 33
No 27
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=100.00 E-value=2.8e-41 Score=338.70 Aligned_cols=358 Identities=18% Similarity=0.237 Sum_probs=304.2
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (550)
|||+++|++ +..|.....|+++|+++||+.+ +|++|++++.|+++++..+.+.+.+++.+++|.+||||.+|..
T Consensus 1 kvG~~~~~sG~~~~~g~~~~~a~~lAve~iN~~g~~i~g~~l~~~~~D~~~~~~~a~~~a~~l~~~~~v~aiiG~~~s~~ 80 (389)
T cd06352 1 TVGVLLPWNTDYPFSLARVGPAIQLAVERVNADPNLLPGYDFTFVYLDTECSESVALLAAVDLYWEHNVDAFIGPGCPYA 80 (389)
T ss_pred CeEEEcCCCCCCCchhhcchHHHHHHHHHHhcCCCCCCCceEEEEEecCCCchhhhHHHHHHHHhhcCCcEEECCCChhH
Confidence 699999998 4578889999999999999997 5899999999999999999999999998789999999999999
Q ss_pred HHHHHHhhccCCccEEeccCCCCCCcc-cCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC-CCCcchhHH
Q 008863 110 TAVVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLA 187 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~~~~~~~-~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~ 187 (550)
+.++++++..+++|+|+++++ ++.. ++..+||+||+.|++..++.++++++++++|++++++++++. || ....+
T Consensus 81 ~~a~~~~~~~~~ip~Is~~~~--~~~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~~v~ii~~~~~~~g--~~~~~ 156 (389)
T cd06352 81 CAPVARLAAHWNIPMISWGCV--ALSLSDKSEYPTLTRTLPPARKLGEAVLALLRWFNWHVAVVVYSDDSENC--FFTLE 156 (389)
T ss_pred HHHHHHHHhcCCCCEeccccc--ccccCccccCCceeecCCcHHHHHHHHHHHHHHcCceEEEEEEecCCccH--HHHHH
Confidence 999999999999999999888 5554 345789999999999999999999999999999999999887 88 89999
Q ss_pred HHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEe
Q 008863 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (550)
Q Consensus 188 ~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (550)
.+.+.+++.| ++|.....++... ...|+..+++++++.. |+|++ ++...++..++++++++|+.++.|+|+.+
T Consensus 157 ~~~~~~~~~G-~~v~~~~~~~~~~----~~~d~~~~l~~i~~~~-~vii~-~~~~~~~~~~l~q~~~~g~~~~~~~~i~~ 229 (389)
T cd06352 157 ALEAALREFN-LTVSHVVFMEDNS----GAEDLLEILQDIKRRS-RIIIM-CGSSEDVRELLLAAHDLGLTSGDYVFILI 229 (389)
T ss_pred HHHHHHHhcC-CeEEEEEEecCCc----cchhHHHHHHHhhhcc-eEEEE-ECCHHHHHHHHHHHHHcCCCCCcEEEEEE
Confidence 9999999999 9999888776631 1478999999999877 99998 88899999999999999999888999988
Q ss_pred ccchhhcc-----------cCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCC--CCCCCchhhHHhH
Q 008863 268 NTVANALD-----------SLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEED--HFHPSIHALRAHD 334 (550)
Q Consensus 268 ~~~~~~~~-----------~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~--~~~~~~~~~~~yD 334 (550)
+.+..... .......+..+|++++..+.. .++.+++|.++|++++...++.|. ...++.+++.+||
T Consensus 230 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YD 308 (389)
T cd06352 230 DLFNYSLPYQNSYPWERGDGDDEKAKEAYDAVLTITLRPP-DNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYD 308 (389)
T ss_pred ehhccccccCCCCCcccCCcccHHHHHHHHhheEEEecCC-CCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHH
Confidence 76554321 111223455778887776555 458899999999998865443331 2346788999999
Q ss_pred HHHHHHHHHHhhccC---CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeC--CeeeEEEEEeCCCC
Q 008863 335 SIKIITEAIGRLNYN---ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG--KKYKELDFWLPNFG 406 (550)
Q Consensus 335 av~~~a~Al~~~~~~---~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~--~~~~~vG~w~~~~g 406 (550)
|++++++|++++..+ +.++..+.+.+++++|.|++|+++||++|+|. ..|.|+++++ +++..++.+....+
T Consensus 309 av~~~a~Al~~~~~~~~~~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~~-~~~~v~~~~~~~~~~~~~~~~~~~~~ 384 (389)
T cd06352 309 AVLLYAHALNETLAEGGDYNGGLIITRRMWNRTFSGITGPVTIDENGDRE-GDYSLLDLDSTGGQLEVVYLYDTSSG 384 (389)
T ss_pred HHHHHHHHHHHHHHhCCCCCchHHHHHHhcCcEEEeeeeeEEEcCCCCee-eeEEEEEecCCCceEEEEEeccccce
Confidence 999999999998543 24788999999999999999999999999996 7899999985 67888888776444
No 28
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=100.00 E-value=2.9e-41 Score=338.55 Aligned_cols=356 Identities=18% Similarity=0.234 Sum_probs=285.7
Q ss_pred EEEEEEecCC----ccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCC----CHHHHHHHHHHhhhcCCeEEEEcC
Q 008863 36 KIGAIVDANS----QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNR----DPFQAATAAQELINKEKVKVIAGM 104 (550)
Q Consensus 36 ~IG~i~~~~~----~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~----~~~~a~~~~~~li~~~~v~aiiG~ 104 (550)
+||+++|.++ ..+.....|+++|+++||+++ +|++|+++++|+++ ++..+...+.+++.+++|.+||||
T Consensus 1 ~~g~l~p~~~~~~~~~~~~~~~a~~lAve~IN~~gg~l~G~~l~~~~~D~~~~~~~~~~~a~~~a~~~~~~~~v~aiiGp 80 (396)
T cd06373 1 TLAVLLPKNNTSYPWSLPRVGPAIDIAVERVNADPGLLPGHNITLVFEDSECKCGCSESEAPLVAVDLYFQHKPDAFLGP 80 (396)
T ss_pred CeEEEcCCCCCCcccchhhhhhHHHHHHHHHhcCCCcCCCeEEEEEEecCccccccchhhhHHHHHHHHhccCCeEEECC
Confidence 5899999983 346678899999999999997 58999999999999 889999999998866899999999
Q ss_pred CChHHHHHHHHhhccCCccEEeccCCCCCCccc-CCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCC--
Q 008863 105 ETWEETAVVAEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGG-- 181 (550)
Q Consensus 105 ~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~-- 181 (550)
.+|..+.+++++++.++||+|+++++ ++.++ +..|||+||+.|++..++.++++++++++|+++++|++++++++
T Consensus 81 ~~S~~~~av~~~~~~~~ip~Is~~as--~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~~~~ 158 (396)
T cd06373 81 GCEYAAAPVARFAAHWNVPVLTAGAP--AAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAALLYHDDKNDDRP 158 (396)
T ss_pred CccchhHHHHHHHhcCCCceECccCC--ccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEEEEEECCCCCcch
Confidence 99999999999999999999999988 66654 46789999999999999999999999999999999999876520
Q ss_pred cchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCC
Q 008863 182 DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (550)
Q Consensus 182 ~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~ 261 (550)
-....+.+.+.+++.| +++.... +.... ...|+..+|+++++.. |+||+ ++....+..++++++++|+...+
T Consensus 159 ~~~~~~~~~~~~~~~g-~~v~~~~-~~~~~----~~~d~~~~l~~ik~~~-~vii~-~~~~~~~~~~~~qa~~~g~~~~~ 230 (396)
T cd06373 159 CYFTLEGVYTVLKEEN-ITVSDFP-FDEDK----ELDDYKELLRDISKKG-RVVIM-CASPDTVREIMLAAHRLGLTSGE 230 (396)
T ss_pred HHHHHHHHHHHHhhcC-ceeeEEe-ecCCc----cccCHHHHHHHHHhcC-cEEEE-ecCHHHHHHHHHHHHHcCCCCCc
Confidence 0335688888999889 8887543 33321 1368999999999865 99999 99999999999999999999999
Q ss_pred EEEEEeccchhhc----cc-------CChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCC-CCCCCchh
Q 008863 262 SVWIVTNTVANAL----DS-------LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEED-HFHPSIHA 329 (550)
Q Consensus 262 ~~~i~~~~~~~~~----~~-------~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~-~~~~~~~~ 329 (550)
|+||..+...... .. ......+..++++.+...... .+.+++|.++|++++..++..+. ...+..++
T Consensus 231 yv~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~-~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a 309 (396)
T cd06373 231 YVFFNIDLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPD-NPEYKEFSLEVKERAKKKFNTTSDDSLVNFFA 309 (396)
T ss_pred EEEEEEccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCC-ChHHHHHHHHHHHHhhhcCCCCcchhHHHHHH
Confidence 9999876542210 00 011222345577766654433 47888999999886543332111 12456788
Q ss_pred hHHhHHHHHHHHHHHhhccC---CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEe---eCCeeeEEEEEeC
Q 008863 330 LRAHDSIKIITEAIGRLNYN---ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV---VGKKYKELDFWLP 403 (550)
Q Consensus 330 ~~~yDav~~~a~Al~~~~~~---~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~---~~~~~~~vG~w~~ 403 (550)
+.+|||++++++||+++..+ +.+|+.|+++|++++|+|++|+++||++|++. ..|.++.+ ++++++.+|.+++
T Consensus 310 ~~~YDav~~~a~Al~~~~~~~~~~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~~-~~~~v~~~~~~~~g~~~~~~~~~~ 388 (396)
T cd06373 310 GAFYDAVLLYALALNETLAEGGDPRDGTNITRRMWNRTFEGITGNVSIDENGDRE-SDFSLWDMTDTETGTFEVVANYNG 388 (396)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCChHHHHHHhcCCceecccCceEeecCCccc-ceeeeeeccCCCCceEEEEeeccc
Confidence 99999999999999987321 25899999999999999999999999999985 77888655 5789999999886
No 29
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=100.00 E-value=6.7e-41 Score=336.76 Aligned_cols=352 Identities=15% Similarity=0.186 Sum_probs=276.9
Q ss_pred EEEEEEecCCc---cc-hhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHH-----HHHHHHHhhhcCCeEEEEc
Q 008863 36 KIGAIVDANSQ---MG-KQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQ-----AATAAQELINKEKVKVIAG 103 (550)
Q Consensus 36 ~IG~i~~~~~~---~g-~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~-----a~~~~~~li~~~~v~aiiG 103 (550)
+||+++|++.. .+ .....|+++|+++||+++ +|++|++++.|+++++.. +...+.++...+++.+|||
T Consensus 1 ~~g~l~~~~~~~~~~~~~~~~~a~~lAve~IN~~~gil~g~~l~~~~~D~~~~~~~c~~~~~~~~~~~~~~~~~v~aiiG 80 (405)
T cd06385 1 TLAVILPLTNTSYPWAWPRVGPALERAIDRVNADPDLLPGLHLQYVLGSSENKEGVCSDSAAPLVAVDLKFTHNPWAFIG 80 (405)
T ss_pred CeeEECCCCCCcCccchhhhHHHHHHHHHHHhcCCCCCCCceEEEEEccccccCCCCccccchHHHHHHHHhcCCcEEEC
Confidence 59999998832 44 677789999999999996 589999999998665543 3333344333479999999
Q ss_pred CCChHHHHHHHHhhccCCccEEeccCCCCCCcc-cCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEE-EEEEcCC-CC
Q 008863 104 METWEETAVVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVA-AIYEDNV-YG 180 (550)
Q Consensus 104 ~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~-~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~-ii~~~~~-~g 180 (550)
|.||..+.+++++++.++||+|+++++ ++.. ++..|||+||+.|++..++.++++++++|+|++++ ++|.++. ++
T Consensus 81 p~~S~~~~~va~~a~~~~iP~Is~~a~--~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~~~~~~~~ 158 (405)
T cd06385 81 PGCDYTASPVARFTTHWDVPLVTAGAP--ALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIYSDNKVDD 158 (405)
T ss_pred CCccchHHHHHHHHhccCCcEEccccC--hhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEEecCcccc
Confidence 999999999999999999999999988 6664 45689999999999999999999999999999988 4666543 22
Q ss_pred Ccch---hHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 181 GDSG---KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 181 ~~~~---~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
+. ..+.+.+.+++.| ++|......+. +..|++.+|+++++.. |+||+ +++.+....++++|.++||
T Consensus 159 --~~~~~~~~~l~~~~~~~g-i~v~~~~~~~~------~~~d~~~~l~~ik~~~-~iii~-~~~~~~~~~i~~~a~~~g~ 227 (405)
T cd06385 159 --RPCYFAMEGLYMELKKNN-ITVVDLVFEED------DLINYTTLLQDIKQKG-RVIYV-CCSPDIFRRLMLQFWREGL 227 (405)
T ss_pred --cchHHHHHHHHHHHHhCC-eEEEEeeccCC------chhhHHHHHHHHhhcc-eEEEE-eCCHHHHHHHHHHHHHcCC
Confidence 22 4688889999999 99987653322 3468999999998754 99999 9999999999999999999
Q ss_pred CCCCEEEEEeccchhhccc------------CChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCC--CC
Q 008863 258 VGKDSVWIVTNTVANALDS------------LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEED--HF 323 (550)
Q Consensus 258 ~~~~~~~i~~~~~~~~~~~------------~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~--~~ 323 (550)
.++.|+||+++.+...... .+......+++++....+.+ .++.+++|.++|+++....+ .+. .+
T Consensus 228 ~~~~y~~i~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~-~~~~~~~f~~~~~~~~~~~~-~~~~~~~ 305 (405)
T cd06385 228 PSEDYVFFYIDLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEP-QNPEYKEFLSDLKTDAKEMF-NFTVEDS 305 (405)
T ss_pred CCCcEEEEEeecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCC-CChhHHHHHHHHHHHhhccC-CCccchh
Confidence 9999999998665322110 11223455677776654333 34788999999988643222 111 12
Q ss_pred CCCchhhHHhHHHHHHHHHHHhhcc---CCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEe---eCCeeeE
Q 008863 324 HPSIHALRAHDSIKIITEAIGRLNY---NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV---VGKKYKE 397 (550)
Q Consensus 324 ~~~~~~~~~yDav~~~a~Al~~~~~---~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~---~~~~~~~ 397 (550)
.++.+++++||||+++++||+++.. .+.+|+.|.++|++++|+|++|++.||++|+|. ..|.++.+ ++++++.
T Consensus 306 ~~~~~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r~-~~~~~~~~~~~~~g~~~~ 384 (405)
T cd06385 306 LMNIIAGGFYDGVMLYAHALNETMAKGGTRPPGTAITQRMWNRTFYGVTGFVKIDDNGDRE-TDFALWDMTDTESGDFQV 384 (405)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHhhCceEeeceeEEEEcCCCCEe-ceeEEEEccCCCCCcEEE
Confidence 3668899999999999999999722 134899999999999999999999999999995 78877755 6789999
Q ss_pred EEEEeC
Q 008863 398 LDFWLP 403 (550)
Q Consensus 398 vG~w~~ 403 (550)
||+|+.
T Consensus 385 v~~~~~ 390 (405)
T cd06385 385 VSVYNG 390 (405)
T ss_pred EEEEcc
Confidence 999985
No 30
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=1.3e-41 Score=332.59 Aligned_cols=319 Identities=21% Similarity=0.311 Sum_probs=263.9
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCC-CCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHN-RDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~-~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
+||+||+. ..|....+|+++|+++||+++ +|++|++++.|++ +++..+.+.+|+++++ +|.+|+||.+|..+.
T Consensus 1 ~iG~i~~~--~~g~~~~~a~~lAv~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~~-~V~aiiG~~~S~~~~ 77 (327)
T cd06382 1 RIGAIFDD--DDDSGEELAFRYAIDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQQ-GVAAIFGPSSSEASS 77 (327)
T ss_pred CeEEEecC--CCchHHHHHHHHHHHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhhc-CcEEEECCCChhHHH
Confidence 59999996 447899999999999999997 4899999999998 8999999999999985 999999999999999
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
+++++++.++||+|+++++ ++... .++++||+.|++..++.++++++++++|+++++||++++++ .. +.+
T Consensus 78 av~~~~~~~~vP~Is~~~~--~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~--~~----l~~ 147 (327)
T cd06382 78 IVQSICDAKEIPHIQTRWD--PEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGL--LR----LQE 147 (327)
T ss_pred HHHHHHhccCCCceeccCC--cCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHH--HH----HHH
Confidence 9999999999999998877 55444 45789999999999999999999999999999999988755 43 444
Q ss_pred HHhcCCCe---EEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEec
Q 008863 192 ALQNVSSS---EIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (550)
Q Consensus 192 ~l~~~g~~---~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (550)
.+++.+ . .+.. ..+++ .. |++.+|++|++.++|+|++ .+....+..++++|+++||.++.|+|++++
T Consensus 148 ~~~~~~-~~g~~v~~-~~~~~------~~-d~~~~l~~i~~~~~d~vv~-~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~ 217 (327)
T cd06382 148 LLQAFG-ISGITITV-RQLDD------DL-DYRPLLKEIKNSGDNRIII-DCSADILIELLKQAQQVGMMSEYYHYIITN 217 (327)
T ss_pred HHHhhc-cCCCeEEE-EEccC------Cc-cHHHHHHHHHhcCceEEEE-ECCHHHHHHHHHHHHHhCccccceEEEEec
Confidence 444444 3 3443 33433 23 8999999999999999999 999999999999999999999999999977
Q ss_pred cchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhcc
Q 008863 269 TVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (550)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (550)
......++.. ......+..++..+.+. ++..++|.++|+++|...++......|+.+++.+|||++++
T Consensus 218 ~~~~~~~l~~--~~~~~~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~--------- 285 (327)
T cd06382 218 LDLHTLDLED--YRYSGVNITGFRLVDPD-SPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF--------- 285 (327)
T ss_pred CCccccchhh--hccCceeEEEEEEecCC-chhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe---------
Confidence 7554433211 11122245555555443 48899999999999865433333345778899999999998
Q ss_pred CCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCCeeeEEEEEeCCCCC
Q 008863 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (550)
Q Consensus 349 ~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~g~ 407 (550)
|+||+|+||++|+|.++.++|+++.++++++||.|++..|+
T Consensus 286 ------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~~~vg~w~~~~~~ 326 (327)
T cd06382 286 ------------------GLTGRIEFDSSGQRSNFTLDVIELTESGLRKVGTWNSSEGL 326 (327)
T ss_pred ------------------ecccceeeCCCCCEeeeEEEEEeccccCceEEEEECCCCCc
Confidence 99999999999999999999999999999999999987775
No 31
>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=4.9e-40 Score=326.24 Aligned_cols=341 Identities=18% Similarity=0.172 Sum_probs=270.0
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (550)
|||++.|++ +..|.....|+++|+++||+++ +|++|+++++|++|++..++..+.++ +++|.+||||.+|..
T Consensus 1 ~ig~~~p~sg~~~~~g~~~~~a~~lAie~iN~~g~il~g~~l~~~~~d~~~~~~~a~~~~~~~--~~~V~aviGp~~S~~ 78 (382)
T cd06371 1 KVGVLGPWSCDPIFSKALPDVAARLAVSRINRDPSLSLGYWFDYVLLPEPCETSRALAAFLGY--EGYASAFVGPVNPGY 78 (382)
T ss_pred CceEecCcccCchhhhhhHHHHHHHHHHHHhCCCCCCCCceEEEEEecCCCChhHHHHHHHcc--cCCceEEECCCCchH
Confidence 599999997 4567788899999999999997 57899999999999987666444332 369999999999999
Q ss_pred HHHHHHhhccCCccEEeccCCCCCCccc-CCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHH
Q 008863 110 TAVVAEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~ 188 (550)
+.+++++++.++||+|+++++ ++.++ +..||+++|+.|+. ..++++++++|+|++|++|++++++| ....+.
T Consensus 79 ~~a~a~va~~~~iP~Is~~a~--~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~~~~~~--~~~~~~ 151 (382)
T cd06371 79 CEAAALLAKEWDKALFSWGCV--NYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSSPQDIW--VETAQK 151 (382)
T ss_pred HHHHHHHHHhcCceEEecccC--chhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEecccch--HHHHHH
Confidence 999999999999999999988 66644 56789999999985 56788999999999999999999998 889999
Q ss_pred HHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC-CeEEEEEcCCH-----HHHHHHHHHHHHcCCCCCCE
Q 008863 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ-SRVFIVLQASL-----DMTIHLFTEANRMGLVGKDS 262 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~-~~~ii~~~~~~-----~~~~~il~~a~~~g~~~~~~ 262 (550)
+.+.+++.| ++|+....++. ...|++++|++|++.+ +|+||+ ++.. .....++++|+++||++.+|
T Consensus 152 l~~~l~~~g-i~v~~~~~~~~------~~~d~~~~L~~lk~~~~~~viv~-~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y 223 (382)
T cd06371 152 LASALRAHG-LPVGLVTSMGP------DEKGAREALKKVRSADRVRVVIM-CMHSVLIGGEEQRLLLETALEMGMTDGRY 223 (382)
T ss_pred HHHHHHHCC-CcEEEEEEecC------CHHHHHHHHHHHhcCCCcEEEEE-EeeccccCcHHHHHHHHHHHHcCCcCCcE
Confidence 999999999 99988777765 3479999999999987 699998 7655 67789999999999999999
Q ss_pred EEEEeccchhhc--------cc-CChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhcc-CCCC-CCCCCCchhhH
Q 008863 263 VWIVTNTVANAL--------DS-LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSE-YPEE-DHFHPSIHALR 331 (550)
Q Consensus 263 ~~i~~~~~~~~~--------~~-~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~-~~~~-~~~~~~~~~~~ 331 (550)
+||.++...... .. .+.......++++.+... ... .+|.+.|++.+... .+.. ....+..++++
T Consensus 224 ~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~----~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~ 298 (382)
T cd06371 224 VFIPYDTLLYSLPYRNVSYPALRNNSKLRRAYDAVLTITMD-SGE----QSFYEAFRAAQERGEIPSDLEPEQVSPLFGT 298 (382)
T ss_pred EEEEeccccccCCCCCccccCCCCCHHHHHHhHhhEEEEec-CCC----CcHHHHHHHHHhcCCCCCCCCccccchhHHH
Confidence 999987432111 00 112233566777666543 222 34555555544211 1110 01123456668
Q ss_pred HhHHHHHHHHHHHhhccC--CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCCeeeEEE
Q 008863 332 AHDSIKIITEAIGRLNYN--ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELD 399 (550)
Q Consensus 332 ~yDav~~~a~Al~~~~~~--~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~~~~vG 399 (550)
+|||++++++|++++.+. ..++.+++++|++++|+|++|+++||++|++ ...|.|+++.+.+++-+=
T Consensus 299 ~YDav~~~a~Al~~a~~~g~~~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~~~~~v~~~~~~~~~~~~ 367 (382)
T cd06371 299 IYNSIYLLAHAVENARAAGGGVSGANLAQHTRNLEFQGFNQRLRTDSGGGG-QAPYVVLDTDGKGDQLYP 367 (382)
T ss_pred HHHHHHHHHHHHHHHHHhCCCccHHHHHHHHhCccccccceEEEecCCCCc-ccceEEEecCCCCCeeee
Confidence 999999999999998531 2489999999999999999999999999998 499999999987766543
No 32
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=100.00 E-value=3.2e-39 Score=323.46 Aligned_cols=353 Identities=16% Similarity=0.201 Sum_probs=271.4
Q ss_pred EEEEEEecCC----ccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCH----HHHHHHHHHhhhcCCeEEEEcC
Q 008863 36 KIGAIVDANS----QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDP----FQAATAAQELINKEKVKVIAGM 104 (550)
Q Consensus 36 ~IG~i~~~~~----~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~----~~a~~~~~~li~~~~v~aiiG~ 104 (550)
+||+++|.+. ..-.....|+++|+++||+++ +|++|++.++|+++++ ..+...+..+...+++.+||||
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~a~~lAieeiN~~g~il~g~~l~~~~~D~~~~~~~~~~~~~~~~~~~~~~~~v~aviGp 80 (399)
T cd06384 1 TLAVVLPDNNLKYAWAWPRVGPAIRMAVERIQNKGKLLRGYTITLLNKSSELNGGCSESLAPLHAVDLKLYSDPDVFFGP 80 (399)
T ss_pred CeEEECCCCCCCCeeehhhhHHHHHHHHHHHhccCCcCCCceEEEEEeccCCccccchhhhHHHHHHHHhhcCCCEEECC
Confidence 4788887652 122355679999999999997 5899999999986553 3333233222112578899999
Q ss_pred CChHHHHHHHHhhccCCccEEeccCCCCCCcc-cC-CCCCeEEEEecCcHHhHHHHHHHHHHcCCe-EEEEEEEcCCCC-
Q 008863 105 ETWEETAVVAEIASRVQVPILSFAAPAVTPLS-MS-RRWPYLIRMASNDSEQMKCIADLARKYNWR-RVAAIYEDNVYG- 180 (550)
Q Consensus 105 ~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~-~~-~~~~~~~~~~p~~~~~~~al~~~l~~~~w~-~v~ii~~~~~~g- 180 (550)
.||..+.+++++++.++||+|+++++ ++.+ ++ ..||++||+.|++..++.++..++++|+|+ ++++||+++..+
T Consensus 81 ~~S~~~~av~~i~~~~~iP~Is~~at--~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaiiy~~~~~~~ 158 (399)
T cd06384 81 GCVYPTASVARFATHWRLPLITAGAP--AFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALLYLDLKTDD 158 (399)
T ss_pred CCchHHHHHHHHHhhcCCcEEeeccc--hhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEEEecCCccC
Confidence 99999999999999999999999998 6664 33 478999999999999999988888999999 688998754221
Q ss_pred -CcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 181 -GDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 181 -~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
+.....+.+.+.+++.| ++|+....... ...|++++|+++++ ++|+|++ ++....+..++++++++||.+
T Consensus 159 ~~~~~~~~~~~~~~~~~g-i~v~~~~~~~~------~~~d~~~~l~~ik~-~~~vIi~-~~~~~~~~~i~~qa~~~g~~~ 229 (399)
T cd06384 159 RPHYFISEGVFLALQEEN-ANVSAHPYHIE------KNSDIIEIIQFIKQ-NGRIVYI-CGPLETFLEIMLQAQREGLTP 229 (399)
T ss_pred CcceEehHHHHHHHHhcC-ceEEEEEEecc------chhhHHHHHHHHhh-cccEEEE-eCCchHHHHHHHHHHHcCCCC
Confidence 00113566777788889 99887554433 34799999999997 8999999 999999999999999999999
Q ss_pred CCEEEEEeccchhhcc-----c--------CChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCC-
Q 008863 260 KDSVWIVTNTVANALD-----S--------LNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHP- 325 (550)
Q Consensus 260 ~~~~~i~~~~~~~~~~-----~--------~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~- 325 (550)
+.|+||..+.+..... . ......+.+++++.+..+.+. ++.+++|.++|++++..++. + ...|
T Consensus 230 ~~y~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~-~~~~~~F~~~~~~~~~~~~~-~-~~~p~ 306 (399)
T cd06384 230 GDYVFFYLDVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPE-NPEYKEFQRELHARAKEDFG-V-ELEPS 306 (399)
T ss_pred CcEEEEEehhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCC-CchHHHHHHHHHHHHhhhcC-C-CcCcc
Confidence 9999998765432111 0 012333467788877655444 47789999999886544331 1 1123
Q ss_pred --CchhhHHhHHHHHHHHHHHhhcc---CCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEE---EEeeCCeeeE
Q 008863 326 --SIHALRAHDSIKIITEAIGRLNY---NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRI---VNVVGKKYKE 397 (550)
Q Consensus 326 --~~~~~~~yDav~~~a~Al~~~~~---~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i---~~~~~~~~~~ 397 (550)
+.+++++|||+++++.|++++.. .|.+|..|+++|++++|+|++|+++||++|+|. ..+.+ .++++++++.
T Consensus 307 ~~~~~aa~~YDav~l~a~Al~~~~~~~~~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r~-~~~~~~~~~~~~~g~~~~ 385 (399)
T cd06384 307 LMNFIAGCFYDGVMLYAMALNETLAEGGSQKDGLNITRKMQDRRFWGVTGLVSIDKNNDRD-IDFDLWAMTDHETGKYEV 385 (399)
T ss_pred hHhhhhhhhHHHHHHHHHHHHHHHhcCCCCCCcHhHHHHHhCceeecceeEEEECCCCCcc-cceEEEEeecCCCCeEEE
Confidence 56789999999999999999732 246899999999999999999999999999994 56666 4667899999
Q ss_pred EEEEeC
Q 008863 398 LDFWLP 403 (550)
Q Consensus 398 vG~w~~ 403 (550)
+|+|+.
T Consensus 386 v~~~~~ 391 (399)
T cd06384 386 VAHYNG 391 (399)
T ss_pred EEEEcC
Confidence 999986
No 33
>cd06381 PBP1_iGluR_delta_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. This CD represents the N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are more homologous to non-NMDA receptors. G
Probab=100.00 E-value=5.6e-39 Score=313.73 Aligned_cols=337 Identities=15% Similarity=0.193 Sum_probs=249.8
Q ss_pred EEEEEEecCCccchhHHHHHHHHH--HHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAV--QNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av--~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
+||+||+.++. ....||++|+ +++|+++ ++..++++.+|+.+||.++.+++|+|+++ +|.|||||.++..+.
T Consensus 1 ~IG~if~~~~~---~~~~af~~ala~~~iN~~gg~~~~~i~~v~~dd~~d~~~a~~~~c~Li~~-gV~AI~G~~~s~~~~ 76 (363)
T cd06381 1 HIGAIFSESAL---EDDEVFAVAVIDLNINEQILQTEKITLSISFIDLNNHFDAVQEACDLMNQ-GILALVTSTGCASAI 76 (363)
T ss_pred CeeeeccCCcc---hHHHHHHHHHHHhhccccccCCccceeeeEeecCCChHHHHHHHHHHHhc-CcEEEEecCChhHHH
Confidence 59999998742 3344555555 5566655 35667888899999999999999999986 999999999999999
Q ss_pred HHHHhhccCCccEEeccCCCC-CCcc------cCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcch
Q 008863 112 VVAEIASRVQVPILSFAAPAV-TPLS------MSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSG 184 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~-~~~~------~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~ 184 (550)
+++++|+..+||+|++.+... +|.. +....+|.|++.|+. .+..++++++++++|++|+++|+++++ ..
T Consensus 77 av~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~~~~wkkvavly~~d~g---~~ 152 (363)
T cd06381 77 ALQSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVTEWRWQKFVYFYDNDYD---IR 152 (363)
T ss_pred HHHHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHHhCCCeEEEEEEECCch---HH
Confidence 999999999999999765300 1101 112346778888884 788999999999999999999998874 44
Q ss_pred hHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhh-------cCCCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQ-------DKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 185 ~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~-------~~~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
..+.+.+.+++.| +.+.... .... ....++..++.++ +.+.+.||+ .|+++.+..++++|.++||
T Consensus 153 ~l~~~~~~~~~~g-~~v~~~~-~~~~-----~~~~~~~l~~~~~~~~l~~~~~~~~~vIl-~~~~~~~~~~l~~a~~~gm 224 (363)
T cd06381 153 GLQEFLDQLSRQG-IDVLLQK-VDLN-----ISKMATALFTTMRCEELNRYRDTLRRALL-LLSPNGAYTFIDASVETNL 224 (363)
T ss_pred HHHHHHHHHHhcC-ceEEEEe-cccc-----cchhhhhhhhHHHHHHHHhhcccceEEEE-EcCcHHHHHHHHHHHHcCC
Confidence 5577778888888 7665432 2211 1123344444332 445668888 9999999999999999999
Q ss_pred CCCCEEEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccC-C-CCCCCCCCchhhHHhHH
Q 008863 258 VGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEY-P-EEDHFHPSIHALRAHDS 335 (550)
Q Consensus 258 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~-~-~~~~~~~~~~~~~~yDa 335 (550)
++.+|+|++++.|....... ........|+++|+...+.. +..+.|.+.+.+.+...+ + ....+.+...++++|||
T Consensus 225 ~~~~~~wi~~~~l~~~~~~l-~~~~~~~~nitgfrl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~yDa 302 (363)
T cd06381 225 AIKDSHWFLINEEISDTEID-ELVRYAHGRMTVIRQTFSKE-KTNQRCLRNNHRISSLLCDPKDGYLQMLEISNLYIYDS 302 (363)
T ss_pred CcCceEEEEeccccccchhh-HHHhhcCccEEEEEEecCCc-CchHHHHHHHHHHHHhhcCCCCCCCCChhHHHHHHHHH
Confidence 99999999888776532211 23345567889999876544 456655443333322111 0 11123566789999999
Q ss_pred HHHHHHHHHhhccCCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCCe-----eeEEEEEeCCCCC
Q 008863 336 IKIITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKK-----YKELDFWLPNFGF 407 (550)
Q Consensus 336 v~~~a~Al~~~~~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~-----~~~vG~w~~~~g~ 407 (550)
|+++ .++|+++.|+|+||+|+||++|.|.++.++|+++...+ .+++|+|++..|+
T Consensus 303 V~~~-----------------~~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~~~~~~~~~~~~~w~~~~~~ 362 (363)
T cd06381 303 VLLL-----------------LETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYSETLGKDGRWLATWNPSKGL 362 (363)
T ss_pred HHHH-----------------HHHHHhcCccCcceeEEeCCCCCccccEEEEEEeccCCccccceEEeeeccCCCCC
Confidence 9999 78889999999999999999999999999999998555 7889999987775
No 34
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=7.9e-38 Score=308.97 Aligned_cols=334 Identities=16% Similarity=0.212 Sum_probs=282.7
Q ss_pred CcEEEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCCh
Q 008863 33 EVTKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW 107 (550)
Q Consensus 33 ~~i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 107 (550)
++|+||++.|++ +..|.....++++|++++|+.+ .|++|++++.|++++|..+.+.+.+|+. ++|.+|+|+.++
T Consensus 24 ~~I~IG~l~plSG~~a~~G~~~~~g~~~av~~iNa~GGi~G~~ielv~~D~~~~p~~a~~~~~~Li~-~~V~~iiG~~~s 102 (369)
T PRK15404 24 DDIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGIKGDKLEGVEYDDACDPKQAVAVANKVVN-DGIKYVIGHLCS 102 (369)
T ss_pred CceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCCCCeEEEEEeecCCCCHHHHHHHHHHHHh-CCceEEEcCCCc
Confidence 589999999999 4578889999999999999987 5899999999999999999999999996 799999999999
Q ss_pred HHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH-HHcCCeEEEEEEEcCCCCCcchhH
Q 008863 108 EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKL 186 (550)
Q Consensus 108 ~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l-~~~~w~~v~ii~~~~~~g~~~~~~ 186 (550)
..+.+++++++..++|+|++.++ ++.+....++|+||+.|.+..+..++++++ ++++|+++++|++++.|| +...
T Consensus 103 ~~~~a~~~~~~~~~ip~i~~~s~--~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g--~~~~ 178 (369)
T PRK15404 103 SSTQPASDIYEDEGILMITPAAT--APELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYG--EGLA 178 (369)
T ss_pred hhHHHhHHHHHHCCCeEEecCCC--CHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchh--HHHH
Confidence 99999999999999999999887 666555668999999999999999999987 457999999999999999 9999
Q ss_pred HHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEE
Q 008863 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (550)
Q Consensus 187 ~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (550)
+.+++.+++.| ++++....++.. ..|+..++.++++.++|+|++ .........++++++++|+.. .|+.
T Consensus 179 ~~~~~~~~~~G-~~v~~~~~~~~g------~~D~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~k~~~~~G~~~---~~i~ 247 (369)
T PRK15404 179 RSVKDGLKKAG-ANVVFFEGITAG------DKDFSALIAKLKKENVDFVYY-GGYHPEMGQILRQAREAGLKT---QFMG 247 (369)
T ss_pred HHHHHHHHHcC-CEEEEEEeeCCC------CCchHHHHHHHHhcCCCEEEE-CCCchHHHHHHHHHHHCCCCC---eEEe
Confidence 99999999999 999887777764 378999999999999999998 888888899999999999864 5666
Q ss_pred eccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhh
Q 008863 267 TNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (550)
Q Consensus 267 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 346 (550)
+..+... .+ .....+..+|+++..++....+|..++|.+.|++.+ +..++.++..+||++++++.|++++
T Consensus 248 ~~~~~~~-~~-~~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~~~~~~~~~Y~~~~~l~~Al~~a 317 (369)
T PRK15404 248 PEGVGNK-SL-SNIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKK--------QDPSGPFVWTTYAAVQSLAAGINRA 317 (369)
T ss_pred cCcCCCH-HH-HHhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhc--------CCCCccchHHHHHHHHHHHHHHHhh
Confidence 5433211 11 011124567877655443444577888988888765 2344566788999999999999999
Q ss_pred ccCCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCCe
Q 008863 347 NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKK 394 (550)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~ 394 (550)
+.. +++.|+++|++.+|+|++|+++|+.+|+.....|.|++|++.+
T Consensus 318 G~~--~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~ 363 (369)
T PRK15404 318 GSD--DPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADG 363 (369)
T ss_pred CCC--CHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCC
Confidence 876 8999999999999999999999999998877899999988654
No 35
>KOG1056 consensus Glutamate-gated metabotropic ion channel receptor subunit GRM2 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=6.5e-38 Score=318.69 Aligned_cols=382 Identities=20% Similarity=0.299 Sum_probs=319.9
Q ss_pred CCCcEEEEEEEecCC-------------ccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhh-
Q 008863 31 IEEVTKIGAIVDANS-------------QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELIN- 94 (550)
Q Consensus 31 ~~~~i~IG~i~~~~~-------------~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~- 94 (550)
.+++|.||++||.+. ..|.+...|+.+|+++||+.. ||+++.+.++|+|+.+..|+++..+++.
T Consensus 28 ~~gdi~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~~~lLp~~kLG~~i~DTCs~~t~aleqsl~Fv~~ 107 (878)
T KOG1056|consen 28 IPGDIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINNPDLLPNIKLGARILDTCSRSTYALEQSLSFVRA 107 (878)
T ss_pred CCCCeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcCcccCCCceeeeeEeeccCCcHHHHHhhHHHHHh
Confidence 457899999999871 457788899999999999833 8999999999999999999999988774
Q ss_pred ---------------cCCeEEEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCc-ccCCCCCeEEEEecCcHHhHHHH
Q 008863 95 ---------------KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPL-SMSRRWPYLIRMASNDSEQMKCI 158 (550)
Q Consensus 95 ---------------~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~-~~~~~~~~~~~~~p~~~~~~~al 158 (550)
...|.++||+..|..+.+++.+..-++||+|+++++ ++. +++.+|+||.|+.|+|..|++||
T Consensus 108 ~~~~~~~e~~c~~g~sp~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSt--s~~LSdk~ry~~F~RtVP~D~~Qa~Am 185 (878)
T KOG1056|consen 108 SLTSDDSEVRCPDGYSPPVVAVIGPSYSSVSIAVANLLRLFLIPQISYAST--SPDLSDKTRYDYFLRTVPSDVFQAQAM 185 (878)
T ss_pred cccCCCcceecCCCCCCceeEEeCCCCchHHHHHHHHHHhhcCceeccccC--CcccccchhhhceeeecCChHHHHHHH
Confidence 145899999999999999999999999999999999 777 78999999999999999999999
Q ss_pred HHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhc-CCCeEEEE
Q 008863 159 ADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQSRVFIV 237 (550)
Q Consensus 159 ~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~-~~~~~ii~ 237 (550)
++++++|+|++|..++++++|| +...+.|++..+..| +||...+.++... .+..+...++++.+ .++++||+
T Consensus 186 ~~il~~f~W~yVstv~s~~dYG--E~Gieaf~~~a~~~~-iCIa~s~ki~~~~----~~~~~~~~l~kl~~~~~a~vvV~ 258 (878)
T KOG1056|consen 186 VDILKKFNWNYVSTVASEGDYG--ESGIEAFKEEAAERG-ICIAFSEKIYQLS----IEQEFDCVLRKLLETPNARVVVV 258 (878)
T ss_pred HHHHHHhCeeEeeehhcCccch--hhhHHHHHHhHHhcC-ceEEehhhccccc----chhHHHHHHHHHhhcCCCeEEEE
Confidence 9999999999999999999999 999999999999999 9999988777654 66788999999887 69999999
Q ss_pred EcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHH--------
Q 008863 238 LQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALF-------- 309 (550)
Q Consensus 238 ~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~-------- 309 (550)
.+..++++.++++|+.+++.+ .++||.++.|....+.... ......|.+++....... +.+++|.+..
T Consensus 259 -F~~~~~~r~~~~aa~~~n~~g-~~~wiaSd~W~~~~~~~~~-~e~~a~g~i~i~l~~~~v-~~F~~y~~s~~p~nn~~n 334 (878)
T KOG1056|consen 259 -FCRGEDARRLLKAARRANLTG-EFLWIASDGWASQNSPTEA-PEREAEGAITIKLASPQV-PGFDRYFQSLHPENNRRN 334 (878)
T ss_pred -ecCcchHHHHHHHHHHhCCCc-ceEEEecchhhccCChhhh-hhhhhceeEEEEecCCcc-hhHHHHHHhcCccccccC
Confidence 999999999999999999988 4799999999975444322 234678999998876554 7788877653
Q ss_pred --HHHhhccCCCCCCC-------------C------------CCchhhHHhHHHHHHHHHHHhhccC-------------
Q 008863 310 --RRNFTSEYPEEDHF-------------H------------PSIHALRAHDSIKIITEAIGRLNYN------------- 349 (550)
Q Consensus 310 --~~~~~~~~~~~~~~-------------~------------~~~~~~~~yDav~~~a~Al~~~~~~------------- 349 (550)
-+.||++.+.|... . -......++|||+.+|+||+.+..+
T Consensus 335 ~w~~e~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~~~~~~C~~m~ 414 (878)
T KOG1056|consen 335 PWFAEFWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCPGTSGLCSAMK 414 (878)
T ss_pred cccchhhhhcccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcCCccccCcCcc
Confidence 33455544444211 0 0124556899999999999998653
Q ss_pred CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeC----CeeeEEEEEeCCCCCccccCCCCcCCcCCCccc
Q 008863 350 ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG----KKYKELDFWLPNFGFSKTSSKHNVGDISSNIAA 425 (550)
Q Consensus 350 ~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~----~~~~~vG~w~~~~g~~~~~~~~~~~~~~~~~~~ 425 (550)
..+|+.|.+.+++++|.+..|.+.||++|+.. ..|+|++++. ..+..+|+|+....++.
T Consensus 415 ~~dg~~L~~~l~~vnF~~~~~~v~Fd~~gD~~-~~y~I~~~~~~~~~~~y~~vg~w~~~~~l~i---------------- 477 (878)
T KOG1056|consen 415 AIDGSLLLKYLLNVNFTGPAGSVRFDENGDGP-GRYDILNYQLTNGSYTYKEVGYWSEGLSLNI---------------- 477 (878)
T ss_pred ccCHHHHHhhhheeEEecCCCceeecCCCCCc-cceeEEEeeccCCCccceeeeeecccccccc----------------
Confidence 35899999999999999999999999999985 9999999984 26899999997555321
Q ss_pred cCCCCccccCCCCCCCCCCccc
Q 008863 426 EGFTGPVIWPGNLINRNPKGWA 447 (550)
Q Consensus 426 ~~~~~~i~wp~~~~~~~p~~~~ 447 (550)
..+.|.++.. ..|++.+
T Consensus 478 ----~~~~w~~~~~-~v~~S~C 494 (878)
T KOG1056|consen 478 ----EDLDWTTKPS-GVPKSVC 494 (878)
T ss_pred ----eeeeeccCCC-CCccccc
Confidence 2377888877 7777765
No 36
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=100.00 E-value=6.6e-38 Score=306.42 Aligned_cols=319 Identities=19% Similarity=0.297 Sum_probs=259.0
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecC-CCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDH-NRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~-~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
+||+|++.++ .....|+++|+++||+++ ++.++++.+.|+ .+++..+.+.+|+|+. ++|.+||||.+|..+.
T Consensus 1 ~iG~i~~~~~---~~~~~a~~lAv~~iN~~ggil~~~~l~~~~~d~~~~~~~~a~~~a~~li~-~~V~aiiG~~~S~~~~ 76 (324)
T cd06368 1 RIGAIFDEDA---RQEELAFRFAIDRINTNEEILAKFTLVPDIDELNTNDSFELTNKACDLLS-QGVAAIFGPSSSSSAN 76 (324)
T ss_pred CEEEEeCCCC---hHHHHHHHHHHHHhcccccccCCceeeeEEEEecCCChHHHHHHHHHHHh-cCcEEEECCCCHHHHH
Confidence 5999999986 788899999999999997 356888888887 5999999999999998 7999999999999999
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
+++++++.++||+|+++++ ++... .++.+++.|+...++.++++++++++|+++++||++++++ . ..+.+.+
T Consensus 77 av~~i~~~~~ip~is~~~~--~~~~~---~~~~~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~--~-~l~~~~~ 148 (324)
T cd06368 77 TVQSICDALEIPHITTSWS--PNPKP---RQFTINLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDEGL--L-RLQELLD 148 (324)
T ss_pred HHHHHHhccCCCcEEecCC--cCCCC---CcceEEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcHhH--H-HHHHHHH
Confidence 9999999999999999987 55543 2345566688889999999999999999999999877643 4 4566666
Q ss_pred HHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccch
Q 008863 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (550)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 271 (550)
.+.+.| +++...... +. . +|++.++.++++.++++||+ .+...++..+++++.++||.++.|+||+++...
T Consensus 149 ~~~~~g-~~v~~~~~~-~~-----~-~d~~~~l~~i~~~~~d~Vi~-~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~ 219 (324)
T cd06368 149 ALSPKG-IQVTVRRLD-DD-----T-DMYRPLLKEIKREKERRIIL-DCSPERLKEFLEQAVEVGMMSEYYHYILTNLDF 219 (324)
T ss_pred hhccCC-ceEEEEEec-CC-----c-hHHHHHHHHHhhccCceEEE-ECCHHHHHHHHHHHHHhccccCCcEEEEccCCc
Confidence 777778 888866533 22 2 38999999999999999999 999999999999999999998899999977643
Q ss_pred hhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhccCCC
Q 008863 272 NALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNIS 351 (550)
Q Consensus 272 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~ 351 (550)
...+.. .......++.++..... .+|..++|.++|++.+...++......|..+++.+|||++++
T Consensus 220 ~~~~~~--~~~~~~~~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~------------ 284 (324)
T cd06368 220 HTLDLE--LFRYGGVNITGFRLVDP-DNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF------------ 284 (324)
T ss_pred cccchh--hhhcCCceEEEEEEecC-CChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe------------
Confidence 322111 11112223444444333 358899999999998865333222336788999999999988
Q ss_pred CHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCCeeeEEEEEeCCCCC
Q 008863 352 SPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGF 407 (550)
Q Consensus 352 ~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~g~ 407 (550)
||+++||++|+|.++.++|+++.+.+++++|.|++..++
T Consensus 285 -----------------tg~~~f~~~g~~~~~~~~i~~~~~~~~~~~g~W~~~~~~ 323 (324)
T cd06368 285 -----------------TGRIQFDENGQRSNFTLDILELKEGGLRKVGTWNPEDGL 323 (324)
T ss_pred -----------------eeeeEeCCCCcCcceEEEEEEEcCCCceEEEEECCCCCC
Confidence 999999999999999999999999999999999987664
No 37
>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure [].; PDB: 3SAJ_D 3Q41_B 3QEM_C 3QEK_A 3QEL_C 3MQ4_A 3QLV_G 3OM1_A 3QLU_A 3OM0_A ....
Probab=100.00 E-value=3.5e-38 Score=312.19 Aligned_cols=329 Identities=23% Similarity=0.363 Sum_probs=264.2
Q ss_pred HHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHHhhccCCccEEec
Q 008863 51 AITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSF 127 (550)
Q Consensus 51 ~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~ 127 (550)
...|+++|+++||+++ ++++|++.+.|+++++......+...+..+++.+||||.++..+.+++.+++.++||+|++
T Consensus 2 ~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is~ 81 (348)
T PF01094_consen 2 VLAAVQLAIDEINNNPDLLPNITLEVQVFDTCSDDSFALQAAICSLNKQGVVAVIGPSCSSSAEAVASLASEWNIPQISP 81 (348)
T ss_dssp HHHHHHHHHHHHHHSSTSSTTSEEEEEEEEETTTTHHHHHHHHHHHHHHTECEEEETSSHHHHHHHHHHHHHTT-EEEES
T ss_pred HHHHHHHHHHHHHcCCCCCCCeEEEEEEEeeccCCcccccchhhhccCCCcEEEECCCcccccchhheeecccccceeec
Confidence 5689999999999986 6899999999998544445554444444479999999999999999999999999999999
Q ss_pred cCCCCCCc-cc-CCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEe
Q 008863 128 AAPAVTPL-SM-SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRL 205 (550)
Q Consensus 128 ~~~~~~~~-~~-~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~ 205 (550)
+++ ++. .+ +..+|+++|+.|++..+++++++++++|+|++|++||+++++| ....+.+.+.+++.+..++....
T Consensus 82 ~~~--~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~ 157 (348)
T PF01094_consen 82 GST--SPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYSDDDYG--NSLADSFQDLLRERGGICVAFIS 157 (348)
T ss_dssp SGG--SGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEESSHHH--HHHHHHHHHHHHHHTTCEEEEEE
T ss_pred ccc--ccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeeccccccc--cccchhhhhhhcccccceecccc
Confidence 988 666 45 6799999999999999999999999999999999999999988 88899999999995414554412
Q ss_pred ecCCCCCCCCChHHHHHHHHHhhc--CCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccchhhcccCChhHHh
Q 008863 206 VLPPISSISDPKEAVRGELKKVQD--KQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVIS 283 (550)
Q Consensus 206 ~~~~~~~~~~~~~d~~~~l~~i~~--~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~ 283 (550)
..... ..+....++.+++ .++++||+ +++...+..++++|.++||.+++|+||.++.+.............
T Consensus 158 ~~~~~------~~~~~~~~~~l~~~~~~~rvvil-~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~ 230 (348)
T PF01094_consen 158 VVISS------DSDAEELLKKLKEIKSGARVVIL-CSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQNNEDFRE 230 (348)
T ss_dssp EEETT------TSHHHHHHHHHHHHTTTTSEEEE-ESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTSTHCHHHC
T ss_pred ccccc------ccchhhhhhhhhhccccceeeee-ecccccccccccchhhhhccccceeEEeecccccccccccccccc
Confidence 22221 2344445555554 89999999 999999999999999999999999999999876543222334556
Q ss_pred hcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhccC----------CCCH
Q 008863 284 SMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN----------ISSP 353 (550)
Q Consensus 284 ~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~----------~~~~ 353 (550)
...|++++...... .+.+.+|.++|+..............+..+++++|||++++++|++++... |.+|
T Consensus 231 ~~~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~~~~~~~~~g 309 (348)
T PF01094_consen 231 AFQGVLGFTPPPPS-SPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVTNGRNPWQNG 309 (348)
T ss_dssp CHTTEEEEEESTTT-SHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTTSSSGTSTTH
T ss_pred cccceeeeeeeccc-ccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCCCCccccccH
Confidence 77889988875444 478999998888754322222224567889999999999999999998642 4478
Q ss_pred HHHHHHHHhCcccccceeEEEeC-CCCCCCCceEEEEee
Q 008863 354 EMLLRQMLSSDFSGLSGKIRFKD-GELLNADTLRIVNVV 391 (550)
Q Consensus 354 ~~l~~~l~~~~~~G~tG~i~f~~-~g~~~~~~~~i~~~~ 391 (550)
..+.++|++++|.|++|++.|++ +|+|.+..|+|++++
T Consensus 310 ~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~~~~ 348 (348)
T PF01094_consen 310 SQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDILNMQ 348 (348)
T ss_dssp HHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEEEE-
T ss_pred HHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEEECC
Confidence 89999999999999999999999 899988999999875
No 38
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=100.00 E-value=3.3e-37 Score=303.13 Aligned_cols=327 Identities=22% Similarity=0.286 Sum_probs=279.6
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
+||++.|++ +..|.....|+++|++++|+++ +|++|+++++|+++++..+.+.+.+++.+ +|.+|+||.++..+
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~i~~~~~D~~~~~~~~~~~~~~li~~-~v~aiiG~~~s~~~ 79 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGGKGVKLELVVEDDQADPKQAVAVAQKLVDD-GVVGVVGHLNSGVT 79 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCChHHHHHHHHHHHhC-CceEEECCCccHhH
Confidence 599999999 4678889999999999999996 68999999999999999999999999986 99999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH-HHcCCeEEEEEEEcCCCCCcchhHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLALL 189 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l-~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (550)
.+++.+++..+||+|+++++ ++......+|++||+.|++..++.++++++ ++++|++|++++++++|| ....+.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g--~~~~~~~ 155 (334)
T cd06342 80 IPASPIYADAGIVMISPAAT--NPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYG--QGLADEF 155 (334)
T ss_pred HHhHHHHHhCCCeEEecCCC--CchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchh--hHHHHHH
Confidence 99999999999999999877 555555578999999999999999999987 578999999999999999 9999999
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEecc
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (550)
++.+++.| ++|.....++.. ..|+...++++++.++++|++ .+....+..+++++.+.|+.. .|+.+..
T Consensus 156 ~~~~~~~g-~~v~~~~~~~~~------~~d~~~~l~~i~~~~~~~vi~-~~~~~~~~~~~~~~~~~g~~~---~~~~~~~ 224 (334)
T cd06342 156 KKALKAAG-GKVVAREGTTDG------ATDFSAILTKIKAANPDAVFF-GGYYPEAGPLVRQMRQLGLKA---PFMGGDG 224 (334)
T ss_pred HHHHHHcC-CEEEEEecCCCC------CccHHHHHHHHHhcCCCEEEE-cCcchhHHHHHHHHHHcCCCC---cEEecCc
Confidence 99999999 999988877653 378999999999999999999 889999999999999999853 5666554
Q ss_pred chhhcccCChhHHhhcCceEEEEeecCC-CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhcc
Q 008863 270 VANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (550)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (550)
+... .. ........+|++....+.+. .++..++|.++|.++|. ..++.++..+||+++++++|++++..
T Consensus 225 ~~~~-~~-~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~~~~~~~~~yda~~~~~~al~~~~~ 294 (334)
T cd06342 225 LCDP-EF-IKIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKFG--------DPPGAYAPYAYDAANVLAEAIKKAGS 294 (334)
T ss_pred cCCH-HH-HHHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHhC--------CCCchhHHHHHHHHHHHHHHHHHhCC
Confidence 3211 11 01112446777766555433 45788888888888763 34567889999999999999999865
Q ss_pred CCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEe
Q 008863 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV 390 (550)
Q Consensus 349 ~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~ 390 (550)
. ++..+.++|++.+|+|++|+++|+++|++.+..|+|++|
T Consensus 295 ~--~~~~v~~~l~~~~~~g~~g~i~f~~~g~~~~~~~~~~~~ 334 (334)
T cd06342 295 T--DPAKVADALRKVDFDGVTGKISFDAKGDLKGAAVTVYQV 334 (334)
T ss_pred C--CHHHHHHHHHhCCCCCcceeeEECCCCCcccCcEEEEeC
Confidence 4 899999999999999999999999999999999999875
No 39
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=6.8e-37 Score=298.62 Aligned_cols=328 Identities=15% Similarity=0.210 Sum_probs=245.4
Q ss_pred cEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEe-cCCCCHHHHHHHHHHhhhcCCeEEEE-cCCChH--H
Q 008863 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIR-DHNRDPFQAATAAQELINKEKVKVIA-GMETWE--E 109 (550)
Q Consensus 34 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~-d~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~--~ 109 (550)
.+.|+++++.+. .....++-+...-+..++..++.+++. -...||....+.+|+++...+|.|+| ||.++. .
T Consensus 2 ~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~vC~ll~~~~V~aiIfgp~~~~~~~ 77 (362)
T cd06378 2 GLNIAVVLSGTN----SSTAFLRGRLTKEDFLDLPLDVNVVTLLVNETDPKSILTQLCDLLSTTKVHGVVFEDDTDQEAV 77 (362)
T ss_pred CceEEEEecCCC----cchhhhccccccccccCCCCCccceeeecCCCCHHHHHHHHHHHhcccceEEEEecCCCCcccc
Confidence 478999998762 122222222221121113344444433 36689999999999999866799755 999887 3
Q ss_pred HHHHHHhhccCCccEEeccCCCCCCc--ccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHH
Q 008863 110 TAVVAEIASRVQVPILSFAAPAVTPL--SMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLA 187 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~~~~~~--~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~ 187 (550)
+..++.++++++||+|++++. ++. .++..+||++|+.|++..+++|+++++++|+|++|++||++++.+ ..+.+
T Consensus 78 a~~~s~~~~~~~vP~is~~~~--s~~~ls~~~~~p~flr~~Psd~~q~~Ai~~Ii~~f~W~~v~iV~~~~~g~--~~~~~ 153 (362)
T cd06378 78 AQILDFISAQTFLPILGIHGG--SSMIMAAKDSGSTFLQFGPSIEQQAAVMLKIMEEYDWHAFSVVTSRFPGY--DDFVS 153 (362)
T ss_pred chhhhhhhhceeccEEEeccc--ccccccCCCCCceEEEeCCCHHHHHHHHHHHHHHCCCeEEEEEEEcCCCH--HHHHH
Confidence 345666777799999999876 442 355788999999999999999999999999999999999998755 77788
Q ss_pred HHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEe
Q 008863 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (550)
Q Consensus 188 ~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (550)
.+++.+...+ +++.....++... ..+.+....++++++.++++||+ +|+.+.+..++++|.++||++++|+||++
T Consensus 154 ~l~~~~~~~~-~~~~i~~~~~~~~---~~~~~~~~~l~~lk~~~arViVl-~~s~~~a~~if~~A~~~gm~g~~yvWI~t 228 (362)
T cd06378 154 AVRTTVDNSF-VGWELQSVLTLDM---SDDDGDARTQRQLKKLESQVILL-YCSKEEAEYIFRAARSAGLTGPGYVWIVP 228 (362)
T ss_pred HHHHHHhhcc-cceeEEEEEeecc---CCCcchHHHHHHHHhcCCCEEEE-ECCHHHHHHHHHHHHHcCCcCCCeEEEec
Confidence 8888877766 6655443333221 02234678889999999999999 99999999999999999999999999999
Q ss_pred ccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhc
Q 008863 268 NTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (550)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~ 347 (550)
+......+. ...++..|.+++.. ++|+. ...+..||||+++++|++.+.
T Consensus 229 ~~~~~~~~~---~~~~~~~G~i~v~~-------------~~w~~---------------~~~a~~~DaV~vva~Al~~l~ 277 (362)
T cd06378 229 SLVLGNTDL---GPSEFPVGLISVSY-------------DGWRY---------------SLRARVRDGVAIIATGASAML 277 (362)
T ss_pred ccccCCCcc---ccccCCcceEeecc-------------ccccc---------------cHHHHHHHHHHHHHHHHHHHH
Confidence 986654221 11244567665432 11110 125678999999999998653
Q ss_pred c-----------C-------CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeC-CeeeEEEEEeCCCCCc
Q 008863 348 Y-----------N-------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG-KKYKELDFWLPNFGFS 408 (550)
Q Consensus 348 ~-----------~-------~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~-~~~~~vG~w~~~~g~~ 408 (550)
. | |..|..|.++|++++|+|+ +|+|+++|.|.++.|+|++++. .+|++||.|+. .++.
T Consensus 278 ~~~~~~~~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~~~G~r~~~~ldIinl~~~~g~~kVG~W~~-~~L~ 354 (362)
T cd06378 278 RQHGFIPEAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFTEDGYLVNPKLVVISLNKERVWEEVGKWEN-GSLR 354 (362)
T ss_pred hccCCCCCCCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeECCCCeEccceEEEEEecCCCCceEEEEEcC-CeEE
Confidence 1 1 5678999999999999996 9999999999999999999996 69999999993 4544
No 40
>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.2e-36 Score=298.43 Aligned_cols=325 Identities=19% Similarity=0.296 Sum_probs=273.4
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC------CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCC
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS------RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET 106 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~------~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~ 106 (550)
|||+++|++ +..|.....|+++|++++|.++ .|++|+++++|+++++..+.+.+.+|+.+++|.+|+||.+
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~la~~~iN~~ggi~~g~~g~~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG~~~ 80 (345)
T cd06338 1 RIGASLSLTGPLAGGGQLTQRGYELWVEDVNAAGGIKGGGKGYPVELIYYDDQSNPARAARAYERLITQDKVDFLLGPYS 80 (345)
T ss_pred CeeEEEeCCCccccccHHHHHHHHHHHHHHHhcCCcccCCCCceEEEEEecCCCCHHHHHHHHHHHHhhcCccEEecCCc
Confidence 699999999 5668889999999999999964 3689999999999999999999999998779999999999
Q ss_pred hHHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcC--CeEEEEEEEcCCCCCcch
Q 008863 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN--WRRVAAIYEDNVYGGDSG 184 (550)
Q Consensus 107 s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~--w~~v~ii~~~~~~g~~~~ 184 (550)
+..+.+++++++..+||+|+++++ ++......+|++||+.|++..+..++++++.+++ |+++++++.+++|| ..
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~--~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g--~~ 156 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGA--SDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFS--QD 156 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCC--CchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCccc--HH
Confidence 999999999999999999999887 5655556789999999999999999999999887 99999999999999 99
Q ss_pred hHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEE
Q 008863 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (550)
Q Consensus 185 ~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~ 264 (550)
..+.+.+.+++.| ++|.....++.. .+|++.++++|++.++|+|++ .+.......+++++++.|+..+ ..+
T Consensus 157 ~~~~~~~~~~~~g-~~v~~~~~~~~~------~~d~~~~v~~l~~~~~d~i~~-~~~~~~~~~~~~~~~~~g~~~~-~~~ 227 (345)
T cd06338 157 VAEGAREKAEAAG-LEVVYDETYPPG------TADLSPLISKAKAAGPDAVVV-AGHFPDAVLLVRQMKELGYNPK-ALY 227 (345)
T ss_pred HHHHHHHHHHHcC-CEEEEEeccCCC------ccchHHHHHHHHhcCCCEEEE-CCcchhHHHHHHHHHHcCCCCC-EEE
Confidence 9999999999999 999887767653 368999999999999999999 9999999999999999999764 222
Q ss_pred EEeccch-h-hcccCChhHHhhcCceEEEEeecCCC------ChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHH
Q 008863 265 IVTNTVA-N-ALDSLNTTVISSMEGTLGIKSYYSDD------SSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSI 336 (550)
Q Consensus 265 i~~~~~~-~-~~~~~~~~~~~~~~g~~~~~~~~~~~------~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav 336 (550)
. +..+. . ... ......+|++....+.+.. .|..++|.++|+++|. ..|+.++..+||++
T Consensus 228 ~-~~~~~~~~~~~----~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~p~~~~~~~y~a~ 294 (345)
T cd06338 228 M-TVGPAFPAFVK----ALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYG--------KAPDYHAAGAYAAG 294 (345)
T ss_pred E-ecCCCcHHHHH----HHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHhC--------CCCCcccHHHHHHH
Confidence 2 22211 1 111 1123356777655544332 3778999999988873 34667788999999
Q ss_pred HHHHHHHHhhccCCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEE
Q 008863 337 KIITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVN 389 (550)
Q Consensus 337 ~~~a~Al~~~~~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~ 389 (550)
+++++|+++++.. +++.+.++|++++|+|++|++.|+++|++. ..+.+++
T Consensus 295 ~~~~~a~~~ag~~--~~~~v~~al~~~~~~~~~G~~~f~~~~~~~-~~~~~~~ 344 (345)
T cd06338 295 QVLQEAVERAGSL--DPAAVRDALASNDFDTFYGPIKFDETGQNN-HPMTVVQ 344 (345)
T ss_pred HHHHHHHHHhCCC--CHHHHHHHHHhCCCcccccCeeECCCCCcC-CCceeee
Confidence 9999999999876 899999999999999999999999988875 3555554
No 41
>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.2e-36 Score=297.89 Aligned_cols=322 Identities=20% Similarity=0.263 Sum_probs=269.5
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
|||+++|++ +..|.....|+++|++++|+++ +|++|+++++|++++|..+.+.+++|+.+++|.+|+||.++..+
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~~A~~~iN~~ggi~g~~v~l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 80 (344)
T cd06345 1 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGILGRKVELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYSSEVV 80 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEECCcchHHH
Confidence 599999999 5678999999999999999987 58999999999999999999999999987799999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCccc----CCCCCeEEEEecCcHHhHHHHHHHHHH-----cCCeEEEEEEEcCCCCC
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSM----SRRWPYLIRMASNDSEQMKCIADLARK-----YNWRRVAAIYEDNVYGG 181 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~----~~~~~~~~~~~p~~~~~~~al~~~l~~-----~~w~~v~ii~~~~~~g~ 181 (550)
.+++++++..++|+|+++++ ++... ...+|++||+.|++..+..++++++.+ ++|++|++++++++||
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~--~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g- 157 (344)
T cd06345 81 LALQDVAAENKVPFIVTGAA--SPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWG- 157 (344)
T ss_pred HHHHHHHHHcCCcEEeccCC--CCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhh-
Confidence 99999999999999998877 55533 457899999999999999999999876 8999999999999999
Q ss_pred cchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCC
Q 008863 182 DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (550)
Q Consensus 182 ~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~ 261 (550)
....+.+++.+++.| ++|+....++.. ..|++.++.+|++.++++|++ .+.......+++++.++|+..+
T Consensus 158 -~~~~~~~~~~~~~~G-~~vv~~~~~~~~------~~d~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~- 227 (344)
T cd06345 158 -KGIDAGIKALLPEAG-LEVVSVERFSPD------TTDFTPILQQIKAADPDVIIA-GFSGNVGVLFTQQWAEQKVPIP- 227 (344)
T ss_pred -hHHHHHHHHHHHHcC-CeEEEEEecCCC------CCchHHHHHHHHhcCCCEEEE-eecCchHHHHHHHHHHcCCCCc-
Confidence 999999999999999 999987777663 368999999999999999999 9898899999999999998542
Q ss_pred EEEEEeccchhhcccCChhHHhhcCceEEEEeecC---CCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHH
Q 008863 262 SVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYS---DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKI 338 (550)
Q Consensus 262 ~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~ 338 (550)
++....+....... .......++.+....+.+ ..++..++|.++|+++| +..|+.+++.+||++++
T Consensus 228 --~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~--------g~~p~~~~~~~yda~~~ 296 (344)
T cd06345 228 --TIGISVEGNSPAFW-KATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKF--------GGPPNYMGASTYDSIYI 296 (344)
T ss_pred --eEEecCCcCCHHHH-HhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHh--------CCCCcccchHHHHHHHH
Confidence 33322221110000 111233455554433332 23577888988888887 34577888999999999
Q ss_pred HHHHHHhhccCCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCC
Q 008863 339 ITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNAD 383 (550)
Q Consensus 339 ~a~Al~~~~~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~ 383 (550)
+++|+++++.. +++.+.++|++.+|+|++|+++||++|++...
T Consensus 297 l~~A~~~ag~~--~~~~i~~al~~~~~~g~~G~i~f~~~g~~~~~ 339 (344)
T cd06345 297 LAEAIERAGST--DGDALVEALEKTDFVGTAGRIQFYGDDSAFAH 339 (344)
T ss_pred HHHHHHHhcCC--CHHHHHHHHHhCCCcCCceeEEECCCCCcCcC
Confidence 99999999876 89999999999999999999999999998643
No 42
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=4.6e-36 Score=291.05 Aligned_cols=302 Identities=20% Similarity=0.285 Sum_probs=256.4
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
|||+++|++ +..|.....|+++|+++||+.+ .|++|+++++|++++|..+.+.+.+|+.+++|.+|+||.+|..+
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~lA~~~iN~~ggi~G~~iel~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~~ 80 (312)
T cd06346 1 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGVLGEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGVT 80 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCCCCceEEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchhh
Confidence 699999999 4567889999999999999988 58999999999999999999999999987899999999999999
Q ss_pred HHH-HHhhccCCccEEeccCCCCCCccc-CCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHH
Q 008863 111 AVV-AEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (550)
Q Consensus 111 ~~v-~~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~ 188 (550)
.++ ++++.+.++|+|+++++ ++.+. +..++|+||+.|++..++.++++++.+++|+++++|+++++|| +...+.
T Consensus 81 ~a~~~~~~~~~~vp~i~~~~~--~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~vail~~~~~~g--~~~~~~ 156 (312)
T cd06346 81 IAALTSVAVPNGVVMISPSST--SPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSVATTYINNDYG--VGLADA 156 (312)
T ss_pred HhhhhhhhccCCcEEEecCCC--CccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeEEEEEccCchh--hHHHHH
Confidence 999 89999999999999888 66644 4557899999999999999999999999999999999999999 999999
Q ss_pred HHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEec
Q 008863 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (550)
+++.+++.| ++|+....++.. ..|+.++++++++.++|+|++ .+.+..+..++++++++|+.. .|+.++
T Consensus 157 ~~~~~~~~G-~~vv~~~~~~~~------~~d~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~---~~~~~~ 225 (312)
T cd06346 157 FTKAFEALG-GTVTNVVAHEEG------KSSYSSEVAAAAAGGPDALVV-IGYPETGSGILRSAYEQGLFD---KFLLTD 225 (312)
T ss_pred HHHHHHHcC-CEEEEEEeeCCC------CCCHHHHHHHHHhcCCCEEEE-ecccchHHHHHHHHHHcCCCC---ceEeec
Confidence 999999999 999988877764 379999999999999999999 888889999999999999954 466655
Q ss_pred cchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhcc
Q 008863 269 TVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (550)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (550)
.+... ...........+|+++..++.+ .+..++|.++|+++| +..|+.+++.+||+++++++|
T Consensus 226 ~~~~~-~~~~~~~~~~~~g~~~~~~~~~--~~~~~~f~~~~~~~~--------g~~p~~~~~~~Yd~~~~l~~A------ 288 (312)
T cd06346 226 GMKSD-SFLPADGGYILAGSYGTSPGAG--GPGLEAFTSAYKAAY--------GESPSAFADQSYDAAALLALA------ 288 (312)
T ss_pred cccCh-HHHHhhhHHHhCCcEEccCCCC--chhHHHHHHHHHHHh--------CCCCCccchhhHHHHHHHHHH------
Confidence 43321 1111111245677776554322 277889999999887 345778889999999999988
Q ss_pred CCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceE
Q 008863 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLR 386 (550)
Q Consensus 349 ~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~ 386 (550)
|.|++|+++|+++|++. ..|+
T Consensus 289 ----------------~~g~~g~~~f~~~g~~~-~~~~ 309 (312)
T cd06346 289 ----------------YQGASGVVDFDENGDVA-GSYD 309 (312)
T ss_pred ----------------hCCCccceeeCCCCCcc-ccee
Confidence 89999999999999875 3554
No 43
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=4.6e-35 Score=288.58 Aligned_cols=325 Identities=18% Similarity=0.316 Sum_probs=265.6
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
|||+++|++ +..|.....|+++|++++|+.+ .|++|++++.|++++|..+.+.+++|+.+++|.+|+||.++..+
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~~a~~~iNa~ggi~G~~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~~ 80 (344)
T cd06348 1 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGVNGRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQA 80 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCcCCcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHHH
Confidence 699999999 5678999999999999999988 58999999999999999999999999987799999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHH-HHHHHHc-CCeEEEEEEEcCC-CCCcchhHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCI-ADLARKY-NWRRVAAIYEDNV-YGGDSGKLA 187 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al-~~~l~~~-~w~~v~ii~~~~~-~g~~~~~~~ 187 (550)
.++.++++..+||+|+++++ ++.. ...++|+||+.|++..+...+ ..+++++ +|+++++||++++ || ....+
T Consensus 81 ~a~~~~~~~~~ip~i~~~~~--~~~~-~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~g--~~~~~ 155 (344)
T cd06348 81 FAADPIAERAGVPVVGPSNT--AKGI-PEIGPYVFRVSAPEAVVAPAAIAAALKLNPGIKRVAVFYAQDDAFS--VSETE 155 (344)
T ss_pred HhhhHHHHhCCCCEEeccCC--CCCc-CCCCCeEEEccCcHHHHHHHHHHHHHHHhcCCeEEEEEEeCCchHH--HHHHH
Confidence 99999999999999998876 4443 345689999987776655444 4556777 9999999998655 99 99999
Q ss_pred HHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEe
Q 008863 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (550)
Q Consensus 188 ~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (550)
.+++.+++.| ++++....++.. ..|+..++.+++++++++|++ .+....+..+++++++.|+.. .|+.+
T Consensus 156 ~~~~~~~~~g-~~v~~~~~~~~~------~~d~~~~v~~i~~~~~d~vi~-~~~~~~~~~~~~~~~~~g~~~---~~~~~ 224 (344)
T cd06348 156 IFQKALRDQG-LNLVTVQTFQTG------DTDFQAQITAVLNSKPDLIVI-SALAADGGNLVRQLRELGYNG---LIVGG 224 (344)
T ss_pred HHHHHHHHcC-CEEEEEEeeCCC------CCCHHHHHHHHHhcCCCEEEE-CCcchhHHHHHHHHHHcCCCC---ceecc
Confidence 9999999999 999988777763 379999999999999999999 999999999999999999975 34544
Q ss_pred ccchhhcccCChhHHhhcCceEEEEeecCC-CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhh
Q 008863 268 NTVANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (550)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 346 (550)
..+... .. .....+..+|++....+.+. ..+..++|.+.|+++|. ..++.++..+||+++++++|++++
T Consensus 225 ~~~~~~-~~-~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g--------~~p~~~~~~~yda~~~~~~A~~~a 294 (344)
T cd06348 225 NGFNTP-NV-FPVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKYG--------KAPPQFSAQAFDAVQVVAEALKRL 294 (344)
T ss_pred ccccCH-HH-HHhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHHC--------CCccHHHHHHHHHHHHHHHHHHHh
Confidence 433211 11 11122456777766655432 33668888888888773 356677889999999999999999
Q ss_pred ccCC-CC-------HHHHHHHHHhCcccccceeEEEeCCCCCCCCceE
Q 008863 347 NYNI-SS-------PEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLR 386 (550)
Q Consensus 347 ~~~~-~~-------~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~ 386 (550)
+.+. .+ +..|.++|++.+|.|++|++.|+++|++.+..|-
T Consensus 295 ~~~~~~~~~~~~~~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~ 342 (344)
T cd06348 295 NQKQKLAELPLPELRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFY 342 (344)
T ss_pred cCCCccccchhhhHHHHHHHHHhccCCccceeeeEECCCCCcccCcee
Confidence 7531 11 5688999999999999999999999998766554
No 44
>cd06377 PBP1_iGluR_NMDA_NR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=1e-34 Score=278.06 Aligned_cols=320 Identities=14% Similarity=0.205 Sum_probs=233.1
Q ss_pred CcEEEEEEEecCCccchhHHHHHHHHHHHHhcCC---CCcEEEEEEec-CCCCHHHHHHHHHHhh-hcCCeEEEEcC-CC
Q 008863 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRD-HNRDPFQAATAAQELI-NKEKVKVIAGM-ET 106 (550)
Q Consensus 33 ~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d-~~~~~~~a~~~~~~li-~~~~v~aiiG~-~~ 106 (550)
..|+||+||+.. ...+.||++|++.+|.+. .+++|++++.. ...|++.+.+.+|+++ + .||.||+|+ .+
T Consensus 17 ~~i~iG~if~~~----~~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~-~GV~AIfg~p~s 91 (382)
T cd06377 17 HTVRLGALLVRA----PAPRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLRSVCQTVVV-QGVSALLAFPQT 91 (382)
T ss_pred CceeeeEEecCC----chHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHHHHHHhHhh-CCeEEEEecCCC
Confidence 469999999865 457899999999999886 46899888874 5679999999999995 6 699999994 77
Q ss_pred hHHHHHHHHhhccCCccEEeccCCCCCCcc-cCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchh
Q 008863 107 WEETAVVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (550)
Q Consensus 107 s~~~~~v~~~~~~~~iP~is~~~~~~~~~~-~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~ 185 (550)
+..+..+.++|+.++||+|+++.. ++.. +...+.+.+++.|+..+++.|+++++++|+|++|++||+.+... ..+
T Consensus 92 ~~~~~~v~sic~~l~IP~I~~~~~--~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~gl--~~l 167 (382)
T cd06377 92 RPELVQLDFVSAALEIPVVSIVRR--EFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRERDP--TGL 167 (382)
T ss_pred HHHHHHHHHHhcCCCCCEEEecCC--cccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCcCH--HHH
Confidence 778889999999999999999654 2222 22333334466999999999999999999999999999988733 443
Q ss_pred HHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHH-HHHHHHhhcCC-CeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEE
Q 008863 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAV-RGELKKVQDKQ-SRVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (550)
Q Consensus 186 ~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~-~~~l~~i~~~~-~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~ 263 (550)
.+.++..... .+.....+......+.+..++ +.+|+++++.. +++|++ +|+.+.+..+|+++.+. |+
T Consensus 168 q~l~~~~~~~----~~~~~i~v~~~~~~~~d~~~~~~~~L~~i~~~~~~~~ill-~cs~e~~~~il~~~~~~------y~ 236 (382)
T cd06377 168 LLLWTNHARF----HLGSVLNLSRNDPSTADLLDFLRAQLELLKDPPGPAVVLF-GCDVARARRVLELTPPG------PH 236 (382)
T ss_pred HHHHHHhccc----ccCceEEEEeccCccCChhHHHHHHHHHhhcccCceEEEE-ECCHHHHHHHHHhhccc------eE
Confidence 3333332221 111112221110000123455 99999999998 999999 99999999999887763 99
Q ss_pred EEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHH
Q 008863 264 WIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (550)
Q Consensus 264 ~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al 343 (550)
||+++.. +........+.-|.+.. .. . ......+++||||+++++|+
T Consensus 237 wIv~~~~----~le~~~~~g~nigLl~~---~~-~-------------------------~~~~l~ali~DAV~lvA~a~ 283 (382)
T cd06377 237 WILGDPL----PPEALRTEGLPPGLLAH---GE-T-------------------------TQPPLEAYVQDALELVARAV 283 (382)
T ss_pred EEEcCCc----ChhhccCCCCCceEEEE---ee-c-------------------------ccccHHHHHHHHHHHHHHHH
Confidence 9998721 11100001112232211 00 0 01123789999999999999
Q ss_pred Hhhc-------------c--------CCCCHHHHHHHHHhCcccccceeEEEeCCCCC--CCCceEEEEee--CC---ee
Q 008863 344 GRLN-------------Y--------NISSPEMLLRQMLSSDFSGLSGKIRFKDGELL--NADTLRIVNVV--GK---KY 395 (550)
Q Consensus 344 ~~~~-------------~--------~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~--~~~~~~i~~~~--~~---~~ 395 (550)
+.+. . .|..|..|.++|++++|+|+||+|.|+ +|.| .++.++|++++ .. .|
T Consensus 284 ~~l~~~~~~~~l~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F~-~g~R~~~~~~l~I~~L~~~~~G~~~W 362 (382)
T cd06377 284 GSATLVQPELALIPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWVT-GSSQVHSSRHFKVWSLRRDPVGQPTW 362 (382)
T ss_pred HHhhhcccccccCCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEEc-cCeeecccceEEEEEeccccCCCccc
Confidence 9751 1 155889999999999999999999994 6788 78999999998 43 35
Q ss_pred eEEEEEeCCCC
Q 008863 396 KELDFWLPNFG 406 (550)
Q Consensus 396 ~~vG~w~~~~g 406 (550)
++||+|++...
T Consensus 363 ~kVG~W~~~~~ 373 (382)
T cd06377 363 TTVGSWQGGRK 373 (382)
T ss_pred eEEEEecCCCc
Confidence 99999998633
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=100.00 E-value=1.7e-35 Score=291.39 Aligned_cols=323 Identities=20% Similarity=0.274 Sum_probs=270.3
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC-----CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCCh
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS-----RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW 107 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~-----~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 107 (550)
|||+++|++ +..|.....|+++|++++|+.+ +|++|+++++|+++++..+.+.+++++.+++|.+|+||.++
T Consensus 1 ~IG~~~p~sG~~a~~g~~~~~g~~lA~~~iN~~GGi~~i~G~~v~lv~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 80 (347)
T cd06340 1 KIGVLLPLSGGLAAIGQQCKAGAELAVEEINAAGGIKSLGGAKLELVFGDSQGNPDIGATEAERLITEEGVVALVGAYQS 80 (347)
T ss_pred CceeEecCCchhhhhCHHHHHHHHHHHHHHHhcCCccCCCCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEecccch
Confidence 699999999 4678899999999999999986 47999999999999999999999999987799999999999
Q ss_pred HHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc------CCeEEEEEEEcCCCCC
Q 008863 108 EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY------NWRRVAAIYEDNVYGG 181 (550)
Q Consensus 108 ~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~------~w~~v~ii~~~~~~g~ 181 (550)
..+.+++++++..++|+|+++++ ++......+||+||+.|++..+..++++++.++ +|+++++|+++++||
T Consensus 81 ~~~~a~~~~~~~~~ip~i~~~~~--~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~~~~~~~v~~l~~~~~~g- 157 (347)
T cd06340 81 AVTLAASQVAERYGVPFVVDGAV--SDSITERGFKYTFRITPHDGMFTRDMFDFLKDLNEKTGKPLKTVALVHEDTEFG- 157 (347)
T ss_pred HhHHHHHHHHHHhCCCEEecccc--chHHhhcCCceEEecCCChHHHHHHHHHHHHHhhHhcCCCCceEEEEecCchHh-
Confidence 99999999999999999999887 566556678999999999999999999999876 469999999999999
Q ss_pred cchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCC
Q 008863 182 DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (550)
Q Consensus 182 ~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~ 261 (550)
....+.+++.+++.| ++|+....++.. ..|+..+++++++.++|+|++ .+....+..+++++++.|+..+
T Consensus 158 -~~~~~~~~~~~~~~G-~~vv~~~~~~~~------~~d~~~~i~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~G~~~~- 227 (347)
T cd06340 158 -TSVAEAIKKFAKERG-FEIVEDISYPAN------ARDLTSEVLKLKAANPDAILP-ASYTNDAILLVRTMKEQRVEPK- 227 (347)
T ss_pred -HHHHHHHHHHHHHcC-CEEEEeeccCCC------CcchHHHHHHHHhcCCCEEEE-cccchhHHHHHHHHHHcCCCCc-
Confidence 999999999999999 999988777753 369999999999999999999 9999999999999999999764
Q ss_pred EEEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHH
Q 008863 262 SVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITE 341 (550)
Q Consensus 262 ~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~ 341 (550)
.++......... .+ .....+..+|.+...++.....+..++|.++|+++|. ..++.++..+||+++++++
T Consensus 228 ~~~~~~~~~~~~-~~-~~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~--------~~~~~~~~~~Y~a~~~l~~ 297 (347)
T cd06340 228 AVYSVGGGAEDP-SF-VKALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARFG--------VDLSGNSARAYTAVLVIAD 297 (347)
T ss_pred EEEecCCCcCcH-HH-HHHhhHhhheEEeccccCCCCChHHHHHHHHHHHHhC--------CCCChHHHHHHHHHHHHHH
Confidence 222222211110 00 0112245678887766555445788899999988873 3467788999999999999
Q ss_pred HHHhhccCCCCHHHHH--HHHHhCccc---ccceeEEEeCCCCCCCC
Q 008863 342 AIGRLNYNISSPEMLL--RQMLSSDFS---GLSGKIRFKDGELLNAD 383 (550)
Q Consensus 342 Al~~~~~~~~~~~~l~--~~l~~~~~~---G~tG~i~f~~~g~~~~~ 383 (550)
|++++++. ++..+. .+|++..+. +.+|+++||++|+..+.
T Consensus 298 A~~~ag~~--~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 298 ALERAGSA--DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred HHHHhcCC--CHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 99999876 899999 488877765 56889999999987654
No 46
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=100.00 E-value=1.6e-34 Score=284.28 Aligned_cols=337 Identities=15% Similarity=0.183 Sum_probs=274.0
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
+||++.|++ +..|.....|+++|+++||+.+ .|++|+++++|++++|..+.+.+.+|+.+++|.+|+|+.+|..+
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iN~~GGi~G~~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~~ 80 (348)
T cd06355 1 KVGILHSLSGTMAISETTLKDAELLAIEEINAAGGVLGRKIEAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWTSASR 80 (348)
T ss_pred CeEEEEcCCCcccccchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccchhhH
Confidence 699999999 4668889999999999999998 58999999999999999999999999988899999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHH-cCCeEEEEEEEcCCCCCcchhHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLALL 189 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~-~~w~~v~ii~~~~~~g~~~~~~~~l 189 (550)
.++.+++.+.++|++++... .. ...+||+||+.+.+..+...+++++.. .+++++++|+.|++|| ....+.+
T Consensus 81 ~a~~~~~~~~~~~~i~~~~~--~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~d~~~g--~~~~~~~ 153 (348)
T cd06355 81 KAVLPVFERHNGLLFYPVQY--EG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGSDYVYP--RTANKIL 153 (348)
T ss_pred HHHHHHHhccCCceecCCCc--cC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECCcchHH--HHHHHHH
Confidence 99999999999999986543 21 235689999999999999999999865 5799999999999999 9999999
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEecc
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (550)
++.+++.| ++++....++.. ..|+..++.++++.++|+|++ ...+..+..+++++++.|+.+....++....
T Consensus 154 ~~~~~~~G-~~vv~~~~~~~~------~~D~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~ 225 (348)
T cd06355 154 KAQLESLG-GEVVGEEYLPLG------HTDFQSIINKIKAAKPDVVVS-TVNGDSNVAFFKQLKAAGITASKVPVLSFSV 225 (348)
T ss_pred HHHHHHcC-CeEEeeEEecCC------hhhHHHHHHHHHHhCCCEEEE-eccCCchHHHHHHHHHcCCCccCCeeEEccc
Confidence 99999999 999988877763 489999999999999999999 8888899999999999999765444554332
Q ss_pred chhhcccCChhHHhhcCceEEEEeec-CCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhcc
Q 008863 270 VANALDSLNTTVISSMEGTLGIKSYY-SDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (550)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (550)
....+.... .....|.+....+. ....|..++|.++|+++|... ..++..++.+||+++++++|+++++.
T Consensus 226 ~~~~~~~~g---~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~------~~~~~~a~~~Y~a~~~~~~Al~~ag~ 296 (348)
T cd06355 226 AEEELRGIG---PENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQD------RVTNDPMEAAYIGVYLWKQAVEKAGS 296 (348)
T ss_pred cHHHHhhcC---hHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCCC------CCCCcHHHHHHHHHHHHHHHHHHhCC
Confidence 221111111 13456665443332 224477888988888887421 12345677899999999999999987
Q ss_pred CCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEee-CCeeeEE
Q 008863 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKEL 398 (550)
Q Consensus 349 ~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~-~~~~~~v 398 (550)
. +++.++++|++.+|.+..|.++|++.++.....+.+.+++ +++++.|
T Consensus 297 ~--~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~~v 345 (348)
T cd06355 297 F--DVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFEIV 345 (348)
T ss_pred C--CHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEEEE
Confidence 6 9999999999999999999999998555444566677775 5665544
No 47
>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=100.00 E-value=1e-35 Score=291.44 Aligned_cols=314 Identities=14% Similarity=0.185 Sum_probs=229.8
Q ss_pred ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecC-------CCCHHHHHHHHHHhhhcCCe--EEEEcCCChHHHHHHHHh
Q 008863 46 QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDH-------NRDPFQAATAAQELINKEKV--KVIAGMETWEETAVVAEI 116 (550)
Q Consensus 46 ~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~-------~~~~~~a~~~~~~li~~~~v--~aiiG~~~s~~~~~v~~~ 116 (550)
..|...+.||++|++++|++. +.++.+.+.+. +.|...+.+++|++++ +++ .|||||.++..+..++++
T Consensus 9 ~~~~~~~~A~~~Av~~~N~~~-~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~~-~gv~~~AIiGp~ss~~a~~V~si 86 (368)
T cd06383 9 DDNDVYKQIIDDALSYINRNI-GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKAD-SAIVPHLVLDTTTCGDASEIKSV 86 (368)
T ss_pred cchHHHHHHHHHHHHHHhcCC-CCceEEEEecccccccccCCcHHHHHHHHHHHHH-ccCCcEEEECCCcchhHHHHHHH
Confidence 357889999999999999884 77777777765 4577788888999997 577 899999999999999999
Q ss_pred hccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcc-hhHHHHHHHHhc
Q 008863 117 ASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDS-GKLALLAEALQN 195 (550)
Q Consensus 117 ~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~-~~~~~l~~~l~~ 195 (550)
|+.++||+|++++. .. ...++||++|+.|++..+.+|+++++++|+|++|++||++++.. . ...+.+++...+
T Consensus 87 ~~~~~IP~Is~s~~--~~--~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl--~~~l~~~l~~~~~~ 160 (368)
T cd06383 87 TGALGIPTFSASYG--QE--GDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVM--DHKYKSLLQNWPTR 160 (368)
T ss_pred HhccCCCEEEccCC--Cc--CcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchh--hHHHHHHHHhHHhc
Confidence 99999999998654 21 22478999999999999999999999999999999999776632 3 233334333444
Q ss_pred CCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccchhhcc
Q 008863 196 VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALD 275 (550)
Q Consensus 196 ~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 275 (550)
.+ .++. +. ...+++..+++|++.+.+.||+.++.++.+..++++|.++||++++|+||+++......+
T Consensus 161 ~~-~~v~-----~~------~~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~d 228 (368)
T cd06383 161 HV-ITII-----NS------IIDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIYD 228 (368)
T ss_pred CC-EEEE-----ec------cchhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhhh
Confidence 44 4442 11 125688999999998885665514446999999999999999999999999998665433
Q ss_pred cCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhcc------C
Q 008863 276 SLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY------N 349 (550)
Q Consensus 276 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~------~ 349 (550)
+... .....++.+++...+.. ...+++..++.+. ..+.....+....++++||||+++++|++.+.. |
T Consensus 229 l~~~--~~~~~Nitgfrl~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~~~ 302 (368)
T cd06383 229 DLSC--QLRNASIFVTRPMMDYQ-SSVRGALLRTDEP---TLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVEDGS 302 (368)
T ss_pred hhhh--ccccCcEEEeeccccch-hhhccceeeccCC---ccCchhHHHHHHHHHHHHHHHHHhccccchhheeeccCCC
Confidence 3211 11123466777643333 3335555543110 001111123446799999999999999996421 1
Q ss_pred ------CCC-----------HHHHHHHHHhCcccccceeEEEeCCCCCCCCce
Q 008863 350 ------ISS-----------PEMLLRQMLSSDFSGLSGKIRFKDGELLNADTL 385 (550)
Q Consensus 350 ------~~~-----------~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~ 385 (550)
|.. |..+.++|++++|+|+||+|+||++|.|.++.+
T Consensus 303 ~~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~~~l 355 (368)
T cd06383 303 TGTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVSTKTI 355 (368)
T ss_pred cCccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeeeeee
Confidence 222 338999999999999999999999999865433
No 48
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=100.00 E-value=8.3e-35 Score=287.62 Aligned_cols=306 Identities=26% Similarity=0.428 Sum_probs=254.8
Q ss_pred EEEEEEecCC-------------ccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHhhhc----
Q 008863 36 KIGAIVDANS-------------QMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINK---- 95 (550)
Q Consensus 36 ~IG~i~~~~~-------------~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~~~~li~~---- 95 (550)
.||++||.+. ..|.....++.+|++++|+++ +|++|++++.|+++++..+.+.+++++.+
T Consensus 1 ~ig~lf~~~~~~~~~~~~c~~~~~~~~~~~~~~~~Av~~iN~~~~~l~g~~l~l~~~D~~~~~~~a~~~a~~li~~~~~~ 80 (348)
T cd06350 1 IIGGLFPLHSGSESVSLKCGRFGKKGLQAAEAMLFAVEEINNDPDLLPNITLGYHIYDSCCSPAVALRAALDLLLSGEGT 80 (348)
T ss_pred CeEEEEeCcccccCCCcccceechHHHHHHHHHHHHHHHHcCCCccCCCCceeEEEEecCCcchHHHHHHHHHHhcCCCC
Confidence 3788998884 345677789999999999985 68999999999999999999999999987
Q ss_pred ---------CCeEEEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCcc-cCCCCCeEEEEecCcHHhHHHHHHHHHHc
Q 008863 96 ---------EKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDSEQMKCIADLARKY 165 (550)
Q Consensus 96 ---------~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~-~~~~~~~~~~~~p~~~~~~~al~~~l~~~ 165 (550)
+++.+|+||.+|..+.+++++++.+++|+|+++++ ++.+ ++..+||+||+.|++..++.+++++++++
T Consensus 81 ~~~~~~~~~~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~--~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~ 158 (348)
T cd06350 81 TPPYSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGAT--SPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHF 158 (348)
T ss_pred CCCCcCCCCCceEEEECCCccHHHHHHHHHHhcCcCceecccCC--ChhhccccccCCeeEecCCcHHHHHHHHHHHHHC
Confidence 79999999999999999999999999999999988 6664 56678999999999999999999999999
Q ss_pred CCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHH
Q 008863 166 NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (550)
Q Consensus 166 ~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~ 245 (550)
+|+++++|+++++|| ....+.+++.+++.| +++...+.++... ...|+..+++++++.++|+|++ .+....+
T Consensus 159 ~~~~v~~l~~~~~~g--~~~~~~~~~~~~~~g-i~v~~~~~~~~~~----~~~d~~~~l~~l~~~~~~vvv~-~~~~~~~ 230 (348)
T cd06350 159 GWTWVGLVYSDDDYG--RSGLSDLEEELEKNG-ICIAFVEAIPPSS----TEEDIKRILKKLKSSTARVIVV-FGDEDDA 230 (348)
T ss_pred CCeEEEEEEecchhH--HHHHHHHHHHHHHCC-CcEEEEEEccCCC----cHHHHHHHHHHHHhCCCcEEEE-EeCcHHH
Confidence 999999999999999 999999999999999 9999888887642 2579999999999999999999 9999999
Q ss_pred HHHHHHHHHcCCCCCCEEEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCC
Q 008863 246 IHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHP 325 (550)
Q Consensus 246 ~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~ 325 (550)
..++++++++|+ +.. .|+.++.|....... ....+..+|++++..+.+.. ....+|.+.+++
T Consensus 231 ~~~~~~a~~~g~-~~~-~~i~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~-~~~~~f~~~~~~-------------- 292 (348)
T cd06350 231 LRLFCEAYKLGM-TGK-YWIISTDWDTSTCLL-LFTLDAFQGVLGFSGHAPRS-GEIPGFKDFLRK-------------- 292 (348)
T ss_pred HHHHHHHHHhCC-CCe-EEEEEccccCccccc-cCCcceeeeEEEEEEEeecC-CcCCChHHHHHH--------------
Confidence 999999999999 443 555655554331111 11225577888777665432 223334443333
Q ss_pred CchhhHHhHHHHHHHHHHHhhccCCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeC----CeeeEEEEE
Q 008863 326 SIHALRAHDSIKIITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVG----KKYKELDFW 401 (550)
Q Consensus 326 ~~~~~~~yDav~~~a~Al~~~~~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~----~~~~~vG~w 401 (550)
+++.+|||+++ .+.|+++|++. ..+.|.+++. ..+++||.|
T Consensus 293 --~~~~~YDav~~--------------------------------~v~f~~~gd~~-~~~~i~~~~~~~~~~~~~~vg~~ 337 (348)
T cd06350 293 --YAYNVYDAVYA--------------------------------EVKFDENGDRL-ASYDIINWQIFPGGGGFVKVGFW 337 (348)
T ss_pred --HHHHHHhheeE--------------------------------EEEecCCCCcc-cceeEEEEEEcCCcEEEEEEEEE
Confidence 47889999998 89999999995 7899998876 689999999
Q ss_pred eCC
Q 008863 402 LPN 404 (550)
Q Consensus 402 ~~~ 404 (550)
++.
T Consensus 338 ~~~ 340 (348)
T cd06350 338 DPQ 340 (348)
T ss_pred cCC
Confidence 974
No 49
>cd06343 PBP1_ABC_ligand_binding_like_8 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=4.7e-34 Score=283.47 Aligned_cols=343 Identities=15% Similarity=0.233 Sum_probs=278.8
Q ss_pred CCCcEEEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCC
Q 008863 31 IEEVTKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGME 105 (550)
Q Consensus 31 ~~~~i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~ 105 (550)
..++|+||+++|++ +..|.....++++|++++|+.+ .|++|+++++|+++++..+.+.+.+|+.+++|.+|+|+.
T Consensus 3 ~~~~i~iG~~~~~sG~~a~~g~~~~~g~~~a~~~~Na~gGi~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~~ 82 (362)
T cd06343 3 TDTEIKIGNTMPLSGPASAYGVIGRTGAAYFFMINNDQGGINGRKIELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGL 82 (362)
T ss_pred CCceEEEeeccCCCCchhhhcHHHHHHHHHHHHHHHhcCCcCCeEEEEEEecCCCChHHHHHHHHHHHhhcCeEEEEecC
Confidence 34689999999999 4578899999999999999987 589999999999999999999999999878999999999
Q ss_pred ChHHHHHHHHhhccCCccEEeccCCCCCCccc-CCCCCeEEEEecCcHHhHHHHHHHH-HHcCCeEEEEEEEcCCCCCcc
Q 008863 106 TWEETAVVAEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDS 183 (550)
Q Consensus 106 ~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~~~~p~~~~~~~al~~~l-~~~~w~~v~ii~~~~~~g~~~ 183 (550)
++..+.++.++++..+||+|++.++ ++... ...+||+||+.|++..++.++++++ ++++|+++++|++++.|| .
T Consensus 83 ~s~~~~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g--~ 158 (362)
T cd06343 83 GTPTNLAVQKYLNEKKVPQLFPASG--ASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFG--K 158 (362)
T ss_pred CcHHHHHhHHHHHhcCCceEecccc--cHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHH--H
Confidence 9999999999999999999998776 45543 3478999999999999999999986 567999999999999999 9
Q ss_pred hhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEE
Q 008863 184 GKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSV 263 (550)
Q Consensus 184 ~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~ 263 (550)
...+.+++.+++.| ++++....++.. ..|+++++.++++.++++|++ .+.......+++++++.|+...
T Consensus 159 ~~~~~~~~~~~~~G-~~vv~~~~~~~~------~~d~~~~v~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~--- 227 (362)
T cd06343 159 DYLKGLKDGLGDAG-LEIVAETSYEVT------EPDFDSQVAKLKAAGADVVVL-ATTPKFAAQAIRKAAELGWKPT--- 227 (362)
T ss_pred HHHHHHHHHHHHcC-CeEEEEeeecCC------CccHHHHHHHHHhcCCCEEEE-EcCcHHHHHHHHHHHHcCCCce---
Confidence 99999999999999 999988877764 379999999999999999999 8889899999999999999763
Q ss_pred EEEeccchhhcccCChhHHhhcCceEEEEeecC------CCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHH
Q 008863 264 WIVTNTVANALDSLNTTVISSMEGTLGIKSYYS------DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIK 337 (550)
Q Consensus 264 ~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~ 337 (550)
++.+..+............+..+|.+....+.. ..++..++|.+.|++.+... ..++.++..+||++.
T Consensus 228 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~y~a~~ 301 (362)
T cd06343 228 FLLSSVSASVASVLKPAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPEG------DPPDTYAVYGYAAAE 301 (362)
T ss_pred EEEEecccccHHHHHHhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCCC------CCCchhhhHHHHHHH
Confidence 444443322111011111244677766554321 23467788888887776321 146778889999999
Q ss_pred HHHHHHHhhccCCCCHHHHHHHHHhCcc---ccc-ceeEEEeCCCCCCCCceEEEEeeCCee
Q 008863 338 IITEAIGRLNYNISSPEMLLRQMLSSDF---SGL-SGKIRFKDGELLNADTLRIVNVVGKKY 395 (550)
Q Consensus 338 ~~a~Al~~~~~~~~~~~~l~~~l~~~~~---~G~-tG~i~f~~~g~~~~~~~~i~~~~~~~~ 395 (550)
++++|+++++.. .+++.++++|+++++ .+. .|+++|+..+++....+.|.++++++|
T Consensus 302 ~~~~a~~~ag~~-~~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~~ 362 (362)
T cd06343 302 TLVKVLKQAGDD-LTRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEGGRW 362 (362)
T ss_pred HHHHHHHHhCCC-CCHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEecCcC
Confidence 999999998753 489999999999987 333 359999876666556788888877654
No 50
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=100.00 E-value=6.5e-34 Score=280.23 Aligned_cols=341 Identities=12% Similarity=0.125 Sum_probs=271.1
Q ss_pred EEEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHH
Q 008863 35 TKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (550)
Q Consensus 35 i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (550)
|+||++.|++ +..|....+|+++|++++|+++ .|++|++++.|++++|..+.+.+.+|+.+++|.+|+|+.+|..
T Consensus 1 IkIG~~~plSG~~a~~G~~~~~G~~lAv~~iNa~GGi~Gr~ielv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~~ 80 (374)
T TIGR03669 1 IKLGVLEDRSGNFALVGTPKWHASQLAIEEINKSGGILGRQIELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSAT 80 (374)
T ss_pred CEEEEEeCCCCCchhccHHHHHHHHHHHHHHHhcCCCCCceeEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchHH
Confidence 6999999999 5678899999999999999987 5899999999999999999999999998889999999999999
Q ss_pred HHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHH
Q 008863 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (550)
+.++.+++.+.++|+|..... . .....+|+||+.|++..+..++++++....-+++++|+++++|| +...+.+
T Consensus 81 ~~A~~~~~~~~~~~~i~~~~~--~---~~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va~l~~d~~~g--~~~~~~~ 153 (374)
T TIGR03669 81 REAIRPIIDRNEQLYFYTNQY--E---GGVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIYTIAADYNFG--QLSADWV 153 (374)
T ss_pred HHHHHHHHHhcCceEEcCccc--c---cccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEEEEcCCcHHH--HHHHHHH
Confidence 999999999999999974422 1 12235899999999999999999998654336899999999999 9889999
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEecc
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (550)
++.+++.| ++++....++.. ..||..++.+|++.++|+|++ .....+...++++++++|+..+ ++....
T Consensus 154 ~~~~~~~G-~~vv~~~~~~~g------~~Df~~~l~~i~~~~pD~V~~-~~~g~~~~~~~kq~~~~G~~~~---~~~~~~ 222 (374)
T TIGR03669 154 RVIAKENG-AEVVGEEFIPLS------VSQFSSTIQNIQKADPDFVMS-MLVGANHASFYEQAASANLNLP---MGTSTA 222 (374)
T ss_pred HHHHHHcC-CeEEeEEecCCC------cchHHHHHHHHHHcCCCEEEE-cCcCCcHHHHHHHHHHcCCCCc---ccchhh
Confidence 99999999 999888877764 489999999999999999999 8888888899999999999643 222111
Q ss_pred chhhcccCChhHHhhcCceEEEEeecCC-CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhcc
Q 008863 270 VANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (550)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (550)
........ ........|++....+... ..|..++|.++|+++|... ..++.+++.+||+++++++|++++++
T Consensus 223 ~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~~------p~~~~~a~~~Yda~~~l~~Ai~~AGs 295 (374)
T TIGR03669 223 MAQGYEHK-RFEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPDA------PYINQEAENNYFSVYMYKQAVEEAGT 295 (374)
T ss_pred hhhhhhhh-hcCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCCC------CCCChHHHHHHHHHHHHHHHHHHhCC
Confidence 11100000 0001234566554444332 3477889999999887421 12355678899999999999999988
Q ss_pred CCCCHHHHHHHHHh-CcccccceeEEEeCCCCCCCCceEEEEeeC-CeeeEEEEEe
Q 008863 349 NISSPEMLLRQMLS-SDFSGLSGKIRFKDGELLNADTLRIVNVVG-KKYKELDFWL 402 (550)
Q Consensus 349 ~~~~~~~l~~~l~~-~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~-~~~~~vG~w~ 402 (550)
. +++.++++|++ .++.|++|+++|++.++.....+.|.+++. +++..+..|.
T Consensus 296 ~--d~~av~~aL~~~~~~~~~~G~i~fd~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 349 (374)
T TIGR03669 296 T--DQDAVRDVLESGVEMDAPEGKVCIDGATHHMSHTMRLARADADHNITFVKEQE 349 (374)
T ss_pred C--CHHHHHHHHHcCCeEECCCccEEEcCCCCeeeeeeEEEEEcCCCCEEEEEecC
Confidence 6 99999999997 678999999999977665545666777764 4455555555
No 51
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.6e-33 Score=277.07 Aligned_cols=318 Identities=22% Similarity=0.316 Sum_probs=265.9
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
+||+++|++ +..|.....|+++|++++|+++ +|++|++++.|+++++..+.+.+++++.+++|.+|+||.++..+
T Consensus 1 ~iG~~~~~sG~~~~~g~~~~~g~~~a~~~iN~~ggi~g~~l~~~~~D~~~~~~~~~~~~~~li~~~~v~aiiG~~~s~~~ 80 (334)
T cd06347 1 KIGVNLPLTGDVAAYGQSEKNGAKLAVKEINAAGGVLGKKIELVVEDNKSDKEEAANAATRLIDQDKVVAIIGPVTSGAT 80 (334)
T ss_pred CeeEEecCCchhhhcCHhHHHHHHHHHHHHHhcCCCCCeeEEEEEecCCCChHHHHHHHHHHhcccCeEEEEcCCccHhH
Confidence 699999999 4567889999999999999987 68999999999999999999999999987799999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH-HHcCCeEEEEEEEcC-CCCCcchhHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDN-VYGGDSGKLAL 188 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l-~~~~w~~v~ii~~~~-~~g~~~~~~~~ 188 (550)
.+++++++..+||+|+++++ .+..... .+++||+.|++..++.++++++ ++++|+++++|+.++ +|+ ....+.
T Consensus 81 ~~v~~~~~~~~ip~i~~~~~--~~~~~~~-~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~--~~~~~~ 155 (334)
T cd06347 81 LAAGPIAEDAKVPMITPSAT--NPKVTQG-KDYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYS--KGLAKA 155 (334)
T ss_pred HHhHHHHHHCCCeEEcCCCC--CCCcccC-CCeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchh--HHHHHH
Confidence 99999999999999999887 4543322 3589999999999999999997 568999999999886 788 888899
Q ss_pred HHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEec
Q 008863 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (550)
+++.+++.| +++.....++.. ..++...++++++.++++|++ .+.......+++++++.|+.. .|+.++
T Consensus 156 ~~~~~~~~g-~~v~~~~~~~~~------~~d~~~~~~~~~~~~~d~i~~-~~~~~~~~~~~~~~~~~g~~~---~i~~~~ 224 (334)
T cd06347 156 FKEAFKKLG-GEIVAEETFNAG------DTDFSAQLTKIKAKNPDVIFL-PGYYTEVGLIAKQARELGIKV---PILGGD 224 (334)
T ss_pred HHHHHHHcC-CEEEEEEEecCC------CCcHHHHHHHHHhcCCCEEEE-cCchhhHHHHHHHHHHcCCCC---cEEecc
Confidence 999999999 999887777653 368999999999999999999 999999999999999999853 567666
Q ss_pred cchhhcccCChhHHhhcCceEEEEeecCC-CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhc
Q 008863 269 TVANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (550)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~ 347 (550)
.|.... . ........+|.+....+... .++..+.|.+.|++++. ..+..++..+||+++++++|+++++
T Consensus 225 ~~~~~~-~-~~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~~~~~~~~~yda~~~~~~Al~~ag 294 (334)
T cd06347 225 GWDSPK-L-EEAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKYG--------KEPDAFAALGYDAYYLLADAIERAG 294 (334)
T ss_pred cccCHH-H-HHHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC--------CCcchhHHHHHHHHHHHHHHHHHhC
Confidence 654321 1 11123456777666555443 34778888888887763 3567788899999999999999988
Q ss_pred cCCCCHHHHHHHHHhC-cccccceeEEEeCCCCCC
Q 008863 348 YNISSPEMLLRQMLSS-DFSGLSGKIRFKDGELLN 381 (550)
Q Consensus 348 ~~~~~~~~l~~~l~~~-~~~G~tG~i~f~~~g~~~ 381 (550)
.. ++..+.+.|.+. +|+|++|+++|+++|+..
T Consensus 295 ~~--~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~ 327 (334)
T cd06347 295 ST--DPEAIRDALAKTKDFDGVTGKITIDENGNPV 327 (334)
T ss_pred CC--CHHHHHHHHHhCCCcccceeeeEECCCCCcC
Confidence 75 889999998765 799999999999888765
No 52
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=5.1e-34 Score=279.45 Aligned_cols=318 Identities=16% Similarity=0.200 Sum_probs=262.9
Q ss_pred EEEEEEecC--CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 36 ~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
+||++.|++ +..|....+|+++|+++||..+ +|++|+++++|++++|..+.+.+.+|+.+++|.+|+|+.+|..+.
T Consensus 1 ~iG~~~p~sG~a~~G~~~~~g~~lA~~~iNa~ggi~G~~ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~~ 80 (332)
T cd06344 1 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGINGKLLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDATL 80 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCCCCCeEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHHH
Confidence 489999999 5678889999999999999887 689999999999999999999999999888999999999999999
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcC-CeEEEEEEEcCC-CCCcchhHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNV-YGGDSGKLALL 189 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~-w~~v~ii~~~~~-~g~~~~~~~~l 189 (550)
+++++++..++|+|+++++ ++.+. ..+||+||+.|++..+.+++++++.+++ |+++++|++++. || +...+.+
T Consensus 81 a~~~~~~~~~ip~i~~~a~--~~~lt-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g--~~~~~~~ 155 (332)
T cd06344 81 AALDIYQKAKLVLISPTST--SVKLS-NPGPYFFRTVPSNAVAARALAKYLKKKNKIKKVAIFYNSTSPYS--QSLKQEF 155 (332)
T ss_pred HHHHHHhhcCceEEccCcC--chhhc-CCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEEEEeCCCchHh--HHHHHHH
Confidence 9999999999999998876 55554 4679999999999999999999998875 999999999876 99 9999999
Q ss_pred HHHHhc-CCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEec
Q 008863 190 AEALQN-VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (550)
Q Consensus 190 ~~~l~~-~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (550)
.+.+++ .| .++.....+.. .+.++..++.++++.++++|++ .+.......+++++++.+.. ..++.+.
T Consensus 156 ~~~~~~~~g-~~v~~~~~~~~------~~~~~~~~v~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~~~~---~~i~~~~ 224 (332)
T cd06344 156 TSALLERGG-GIVVTPCDLSS------PDFNANTAVSQAINNGATVLVL-FPDTDTLDKALEVAKANKGR---LTLLGGD 224 (332)
T ss_pred HHHHHHhcC-CeeeeeccCCC------CCCCHHHHHHHHHhcCCCEEEE-eCChhHHHHHHHHHHhcCCC---ceEEecc
Confidence 999999 58 88775544432 2357888999999999999999 88888888999999987752 2344444
Q ss_pred cchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhcc
Q 008863 269 TVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (550)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (550)
.+... .+.. ......+|.+...++.+. ++..++|.+.|+++|. ..++.+++.+||+++++++|++++++
T Consensus 225 ~~~~~-~~~~-~~~~~~~G~~~~~~~~~~-~~~~~~f~~~~~~~~~--------~~~~~~a~~~Yda~~~l~~A~~~ag~ 293 (332)
T cd06344 225 SLYTP-DTLL-DGGKDLEGLVLAVPWHPL-ASPNSPFAKLAQQLWG--------GDVSWRTATAYDATKALIAALSQGPT 293 (332)
T ss_pred cccCH-HHHH-hchhhhcCeEEEEecccc-cccchHHHHHHHHHhc--------CCchHHHHhHHHHHHHHHHHHHhCCC
Confidence 43221 1110 112456788777776554 4678899999988874 35678899999999999999999887
Q ss_pred CCCCHHHHH-HHHHhCcccccceeEEEeCCCCCCC
Q 008863 349 NISSPEMLL-RQMLSSDFSGLSGKIRFKDGELLNA 382 (550)
Q Consensus 349 ~~~~~~~l~-~~l~~~~~~G~tG~i~f~~~g~~~~ 382 (550)
. ++..+. ..++...|.|..|+++|+++|++..
T Consensus 294 ~--~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~ 326 (332)
T cd06344 294 R--EGVQQVELSLRNFSVQGATGKIKFLPSGDRNG 326 (332)
T ss_pred h--hhhhhhhhhcccccccCCCceeEeCCCCcccC
Confidence 5 677776 6788888999999999999998864
No 53
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=9.4e-34 Score=279.38 Aligned_cols=337 Identities=22% Similarity=0.287 Sum_probs=276.2
Q ss_pred CcEEEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCCh
Q 008863 33 EVTKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW 107 (550)
Q Consensus 33 ~~i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 107 (550)
++|+||++.|++ +..|.....|+++|+++||..+ .|.+|++++.|+.+||..+.+.+.+|+.+++|.+|+|+.+|
T Consensus 9 ~~IkIGv~~plsG~~A~~G~~~~~ga~lAv~~iNa~Ggi~G~~velv~~D~~~dp~~a~~~A~~li~~~~V~~vvG~~~S 88 (366)
T COG0683 9 DTIKIGVVLPLSGPAAAYGQQIKNGAELAVEEINAAGGILGRKVELVVEDDASDPATAAAVARKLITQDGVDAVVGPTTS 88 (366)
T ss_pred CceEEEEEecCCchhhhhChHHHHHHHHHHHHHhhhCCcCCceEEEEEecCCCChHHHHHHHHHHHhhcCceEEEEeccC
Confidence 479999999998 6789999999999999999998 47779999999999999999999999998999999999999
Q ss_pred HHHHHHHHhhccCCccEEeccCCCCCCccc-CCCCCeEEEEecCcHHhHHHHHHHHHH-cCCeEEEEEEEcCCCCCcchh
Q 008863 108 EETAVVAEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGK 185 (550)
Q Consensus 108 ~~~~~v~~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~~~~p~~~~~~~al~~~l~~-~~w~~v~ii~~~~~~g~~~~~ 185 (550)
..+.++.+++++.++|+|+++++ ++... ....+++||+.|++..++.++++++.. .+.+++++|++++.|| +.+
T Consensus 89 ~~~~a~~~v~~~~~i~~i~p~st--~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v~ii~~~~~yg--~~~ 164 (366)
T COG0683 89 GVALAASPVAEEAGVPLISPSAT--APQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRVAIIGDDYAYG--EGL 164 (366)
T ss_pred cccccchhhHhhcCceEEeecCC--CCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcEEEEEeCCCCcc--hhH
Confidence 99999999999999999999998 67644 344456999999999999999999965 5556999999999999 999
Q ss_pred HHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEE
Q 008863 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (550)
Q Consensus 186 ~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (550)
.+.+++.+++.| +++.....+.+.. .++..++.+++..++++|++ .+...+...+++++++.|+.... .++
T Consensus 165 ~~~~~~~l~~~G-~~~~~~~~~~~~~------~~~~~~v~~i~~~~~d~v~~-~~~~~~~~~~~r~~~~~G~~~~~-~~~ 235 (366)
T COG0683 165 ADAFKAALKALG-GEVVVEEVYAPGD------TDFSALVAKIKAAGPDAVLV-GGYGPDAALFLRQAREQGLKAKL-IGG 235 (366)
T ss_pred HHHHHHHHHhCC-CeEEEEEeeCCCC------CChHHHHHHHHhcCCCEEEE-CCCCccchHHHHHHHHcCCCCcc-ccc
Confidence 999999999999 8765555565543 45999999999999999999 99999999999999999998752 222
Q ss_pred EeccchhhcccCChhHHhhcCc-e-EEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHH
Q 008863 266 VTNTVANALDSLNTTVISSMEG-T-LGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (550)
Q Consensus 266 ~~~~~~~~~~~~~~~~~~~~~g-~-~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al 343 (550)
............ .....+ . +......+...|..+.|.++|++++.. ...++.++..+||+++++++|+
T Consensus 236 ~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~------~~~~~~~~~~~y~a~~~~~~ai 305 (366)
T COG0683 236 DGAGTAEFEEIA----GAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGD------PAAPSYFAAAAYDAVKLLAKAI 305 (366)
T ss_pred cccCchhhhhhc----ccCccccEEEEecccccccCcchHHHHHHHHHHhCC------CCCcccchHHHHHHHHHHHHHH
Confidence 211111111111 111222 2 222222334456777899999998851 2355668899999999999999
Q ss_pred HhhccCCCCHHHHHHHHHhCc-ccccceeEEEeCCCCCCCCceEEEEeeCC
Q 008863 344 GRLNYNISSPEMLLRQMLSSD-FSGLSGKIRFKDGELLNADTLRIVNVVGK 393 (550)
Q Consensus 344 ~~~~~~~~~~~~l~~~l~~~~-~~G~tG~i~f~~~g~~~~~~~~i~~~~~~ 393 (550)
+++.. ..+++.+.++|+... +.+.+|.+.|+++|++....+.|.+++..
T Consensus 306 ~~a~~-~~d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~~ 355 (366)
T COG0683 306 EKAGK-SSDREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQKG 355 (366)
T ss_pred HHHhc-CCCHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEec
Confidence 99983 237889999999887 68999999999999998899999998843
No 54
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=100.00 E-value=8.5e-34 Score=278.11 Aligned_cols=319 Identities=18% Similarity=0.237 Sum_probs=265.6
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
+||+++|++ +..|.....|+++|++++|+.+ .|++|+++++|+++||..+.+++++|+.+++|.+|+|+.+|..+
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~gGi~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~ 80 (333)
T cd06331 1 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGILGRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSASR 80 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHHH
Confidence 599999999 4578899999999999999997 58999999999999999999999999987799999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
.++.++++..++|+|++... .. ....|++||+.|+...+..++++++...+|+++++|+.++.|| ......++
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~--~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g--~~~~~~~~ 153 (333)
T cd06331 81 KAVLPVVERGRGLLFYPTQY--EG---GECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFYLIGSDYVWP--RESNRIAR 153 (333)
T ss_pred HHHHHHHHhcCceEEeCCCC--CC---CcCCCCeEEccCChHHhHHHHHHHHHHhcCCeEEEECCCchhH--HHHHHHHH
Confidence 99999999999999997654 22 1235899999999999999999998766699999999999999 99999999
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccc
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (550)
+.+++.| .+++....++.. ..|+.+++.++++.++++|++ .+.......+++++++.|+...... +.+..+
T Consensus 154 ~~~~~~G-~~vv~~~~~~~~------~~d~~~~v~~~~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~~ 224 (333)
T cd06331 154 ALLEELG-GEVVGEEYLPLG------TSDFGSVIEKIKAAGPDVVLS-TLVGDSNVAFYRQFAAAGLDADRIP-ILSLTL 224 (333)
T ss_pred HHHHHcC-CEEEEEEEecCC------cccHHHHHHHHHHcCCCEEEE-ecCCCChHHHHHHHHHcCCCcCCCe-eEEccc
Confidence 9999999 999888777764 379999999999999999999 8898999999999999999743333 333322
Q ss_pred h-hhcccCChhHHhhcCceEEEEeecCC-CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhcc
Q 008863 271 A-NALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (550)
Q Consensus 271 ~-~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (550)
. ..+.... ....+|++...++.+. ..+..++|.++|++++... ..++.+++.+||+++++++|+++++.
T Consensus 225 ~~~~~~~~~---~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~yda~~~~~~A~~~ag~ 295 (333)
T cd06331 225 DENELAAIG---AEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDD------AVINSPAEAAYEAVYLWAAAVEKAGS 295 (333)
T ss_pred chhhhhccC---hhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCC------cCCCchhHHHHHHHHHHHHHHHHcCC
Confidence 2 1111111 1345677766555332 3467888888888776321 14677889999999999999999987
Q ss_pred CCCCHHHHHHHHHhCcccccceeEEEeCCCCCC
Q 008863 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLN 381 (550)
Q Consensus 349 ~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~ 381 (550)
. +++.|+++|++++|+|++|.+.|++.+++.
T Consensus 296 ~--~~~~l~~al~~~~~~~~~G~i~f~~~~~~~ 326 (333)
T cd06331 296 T--DPEAVRAALEGVSFDAPQGPVRIDPDNHHT 326 (333)
T ss_pred C--CHHHHHHHhhcCcccCCCCceEecCCCCcc
Confidence 6 899999999999999999999999887775
No 55
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=1.2e-33 Score=277.73 Aligned_cols=314 Identities=17% Similarity=0.236 Sum_probs=262.8
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
+||++.|++ +..|.....|+++|++++|+.+ .|++|+++++|++++|..+.+.+++|+.+ +|.+|+||.++..+
T Consensus 1 ~IG~l~p~sG~~a~~G~~~~~g~~~a~~~iN~~GGi~G~~i~l~~~D~~~~p~~a~~~a~~lv~~-~v~aiiG~~~s~~~ 79 (342)
T cd06329 1 KIGVIDPLSGPFASLGELVRRGLQLAADEINAKGGVDGRPIELVEEDNKGSPQEALRKAQKAIDD-GVRLVVQGNSSSVA 79 (342)
T ss_pred CeeeeccCCCCcccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCChHHHHHHHHHHHHh-CCeEEEcccchHHH
Confidence 599999998 4578899999999999999987 58999999999999999999999999986 99999999999998
Q ss_pred HHH-------HHhhccCCccEEeccCCCCCCccc-CCCCCeEEEEecCcHHhHHHHHHHHHHcC-CeEEEEEEEcCCCCC
Q 008863 111 AVV-------AEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNVYGG 181 (550)
Q Consensus 111 ~~v-------~~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~~~~p~~~~~~~al~~~l~~~~-w~~v~ii~~~~~~g~ 181 (550)
.++ ++++...++|+|+++++ ++.+. ...+||+||+.|++..++.++++++...+ |+++++++.++.||
T Consensus 80 ~~~~~~~~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g- 156 (342)
T cd06329 80 LALTEAVRKHNQRNPGKEVLYLNYASV--APALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWG- 156 (342)
T ss_pred HHhhhhhhhhhhhhccCCeEEEecCCC--CchhhhccCcceEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHH-
Confidence 888 78888999999999877 55543 34578999999999999999999998775 99999999999999
Q ss_pred cchhHHHHHHHHhc--CCCeEEEEEeecCCCCCCCCCh-HHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 182 DSGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPK-EAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 182 ~~~~~~~l~~~l~~--~g~~~v~~~~~~~~~~~~~~~~-~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
....+.+++.+++ .| ++|+....++. .. +|+..++.++++.++++|++ .........+++++++.|+.
T Consensus 157 -~~~~~~~~~~~~~~~~G-~~vv~~~~~~~------~~~~d~~~~i~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~ 227 (342)
T cd06329 157 -QDVAAAFKAMLAAKRPD-IQIVGEDLHPL------GKVKDFSPYVAKIKASGADTVIT-GNWGNDLLLLVKQAADAGLK 227 (342)
T ss_pred -HHHHHHHHHHHHhhcCC-cEEeceeccCC------CCCCchHHHHHHHHHcCCCEEEE-cccCchHHHHHHHHHHcCCC
Confidence 9999999999999 99 99987766654 34 68999999999999999999 88788899999999999996
Q ss_pred CCCEEEEEeccchhhcccCChhHHhhcCceEEEEeecC-CCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHH
Q 008863 259 GKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIK 337 (550)
Q Consensus 259 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~ 337 (550)
. .++........ ......+..+|.+....+.. ..++..++|.++|+++|. ..++.++..+||+++
T Consensus 228 ~---~~~~~~~~~~~---~~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~~~~~~~~~y~~~~ 293 (342)
T cd06329 228 L---PFYTPYLDQPG---NPAALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKYG--------RVPDYYEGQAYNGIQ 293 (342)
T ss_pred c---eEEeccccchh---HHHhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHhC--------CCCCchHHHHHHHHH
Confidence 4 34443332211 11112244567776655433 235778889888888773 356677889999999
Q ss_pred HHHHHHHhhccCCCCHHHHHHHHHhCcccccceeEEEeCCC
Q 008863 338 IITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGE 378 (550)
Q Consensus 338 ~~a~Al~~~~~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g 378 (550)
++++|+++++.. +++.+.++|++++|+|.+|+++|+..+
T Consensus 294 ~~~~a~~~ag~~--~~~~v~~al~~~~~~~~~g~~~~~~~~ 332 (342)
T cd06329 294 MLADAIEKAGST--DPEAVAKALEGMEVDTPVGPVTMRASD 332 (342)
T ss_pred HHHHHHHHhCCC--CHHHHHHHHhCCccccCCCCeEEcccC
Confidence 999999998876 899999999999999999999998533
No 56
>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane.
Probab=100.00 E-value=3.7e-33 Score=275.58 Aligned_cols=336 Identities=14% Similarity=0.167 Sum_probs=267.7
Q ss_pred EEEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHH
Q 008863 35 TKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (550)
Q Consensus 35 i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (550)
|+||++.|++ +..|.....|+++|++++|+++ .|++|+++++|++++|..+.+.+.+|+.+++|.+|+|+.+|..
T Consensus 1 I~IG~l~plsG~~a~~g~~~~~g~~lav~~iN~~GGi~G~~i~l~~~Dd~~~p~~a~~~a~~Lv~~~~V~~iiG~~~S~~ 80 (359)
T TIGR03407 1 IKVGILHSLSGTMAISETTLKDAELMAIEEINASGGVLGKKIEPVVEDGASDWPTFAEKARKLITQDKVAAVFGCWTSAS 80 (359)
T ss_pred CeEEEEeCCCCchhhcchhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCCcHHH
Confidence 6899999999 4667888999999999999998 5899999999999999999999999998889999999999999
Q ss_pred HHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHH-cCCeEEEEEEEcCCCCCcchhHHH
Q 008863 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLAL 188 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~-~~w~~v~ii~~~~~~g~~~~~~~~ 188 (550)
+.++.+++...++|++.+... . .....|++||+.+++..+..++++++.. .+.+++++++.+++|| ....+.
T Consensus 81 ~~a~~~~~~~~~~~~i~~~~~--~---~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l~~d~~~g--~~~~~~ 153 (359)
T TIGR03407 81 RKAVLPVFEENNGLLFYPVQY--E---GEECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLLGSDYVFP--RTANKI 153 (359)
T ss_pred HHHHHHHHhccCCceEeCCcc--c---CcccCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEecCccHHH--HHHHHH
Confidence 999999999999999976533 1 1235689999999999999999999876 5999999999999999 888899
Q ss_pred HHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEec
Q 008863 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (550)
+++.+++.| ++++....++.. ..|+..++.+|++.++|+|++ .........+++++++.|+......++.+.
T Consensus 154 ~~~~~~~~G-~~vv~~~~~~~~------~~D~s~~v~~l~~~~pDav~~-~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~ 225 (359)
T TIGR03407 154 IKAYLKSLG-GTVVGEDYTPLG------HTDFQTIINKIKAFKPDVVFN-TLNGDSNVAFFKQLKNAGITAKDVPVVSFS 225 (359)
T ss_pred HHHHHHHcC-CEEEeeEEecCC------hHhHHHHHHHHHHhCCCEEEE-eccCCCHHHHHHHHHHcCCCccCCcEEEee
Confidence 999999999 999888777763 489999999999999999998 777777889999999999976433334433
Q ss_pred cchhhcccCChhHHhhcCceEEEEee-cCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhc
Q 008863 269 TVANALDSLNTTVISSMEGTLGIKSY-YSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (550)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~ 347 (550)
.......... .+..+|++....+ .....+..++|.++|++.|... ..+...++.+||++.++++|+++++
T Consensus 226 ~~~~~~~~~g---~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~y~a~~~~~~A~~~ag 296 (359)
T TIGR03407 226 VAEEEIRGIG---PENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDD------RVTNDPMEAAYLGVYLWKAAVEKAG 296 (359)
T ss_pred cCHHHHhhcC---hHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCC------CCCCcHHHHHHHHHHHHHHHHHHhC
Confidence 2221111111 1345676543222 2234477888888888877421 1233446678999999999999998
Q ss_pred cCCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEee-CCeee
Q 008863 348 YNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYK 396 (550)
Q Consensus 348 ~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~-~~~~~ 396 (550)
.. ++..++++|++++|.++.|+++|+++++.....+.+.+++ +++|.
T Consensus 297 ~~--~~~~i~~al~~~~~~~~~G~i~f~~~~~~~~~~~~~~~~~~~g~~~ 344 (359)
T TIGR03407 297 SF--DVDAVRDAAIGIEFDAPEGKVKVDGKNHHLTKTVRIGEIRADGQFD 344 (359)
T ss_pred CC--CHHHHHHHhcCCcccCCCccEEEeCCCCeeeeeeEEEEEccCCCEE
Confidence 76 9999999999999999999999997444433455555664 44443
No 57
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=100.00 E-value=1.2e-33 Score=278.90 Aligned_cols=334 Identities=23% Similarity=0.363 Sum_probs=277.8
Q ss_pred cEEEEEEEecCC---ccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChH
Q 008863 34 VTKIGAIVDANS---QMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWE 108 (550)
Q Consensus 34 ~i~IG~i~~~~~---~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~ 108 (550)
+|+||+++|+++ ..|.....|+++|++++|+++ +|++|+++++|+.+++..+.+.+.+++.+++|.+|+|+.++.
T Consensus 1 ~i~IG~~~~~sG~~a~~g~~~~~g~~~a~~~~N~~ggi~G~~i~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s~ 80 (343)
T PF13458_consen 1 PIKIGVLVPLSGPFAPYGQDFLRGAELAVDEINAAGGINGRKIELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSSA 80 (343)
T ss_dssp SEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEETTEEEEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSHH
T ss_pred CEEEEEEECCCChhhhhhHHHHHHHHHHHHHHHHhCCcCCccceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCcH
Confidence 599999999993 567789999999999999997 699999999999999999999999999888999999999999
Q ss_pred HHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHH-HcCCeEEEEEEEcCCCCCcchhHH
Q 008863 109 ETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR-KYNWRRVAAIYEDNVYGGDSGKLA 187 (550)
Q Consensus 109 ~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~-~~~w~~v~ii~~~~~~g~~~~~~~ 187 (550)
.+.++++++...++|+|++++. + ....++|+|++.|++..++.++++++. +++.+++++|+.++++| ....+
T Consensus 81 ~~~~~~~~~~~~~ip~i~~~~~--~---~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~~~~~g--~~~~~ 153 (343)
T PF13458_consen 81 QAEAVAPIAEEAGIPYISPSAS--S---PSPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYPDDPYG--RSLAE 153 (343)
T ss_dssp HHHHHHHHHHHHT-EEEESSGG--G---GTTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEESSHHH--HHHHH
T ss_pred HHHHHHHHHHhcCcEEEEeecc--C---CCCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEecCchhh--hHHHH
Confidence 9999999999999999996654 2 235668999999999999999999974 58999999999999999 99999
Q ss_pred HHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEe
Q 008863 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (550)
Q Consensus 188 ~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (550)
.+++.+++.| ++++....++.. ..|+..+++++++.++++|++ .+.+..+..+++++.+.|+..+.+....+
T Consensus 154 ~~~~~~~~~G-~~vv~~~~~~~~------~~d~~~~~~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 225 (343)
T PF13458_consen 154 AFRKALEAAG-GKVVGEIRYPPG------DTDFSALVQQLKSAGPDVVVL-AGDPADAAAFLRQLRQLGLKPPRIPLFGT 225 (343)
T ss_dssp HHHHHHHHTT-CEEEEEEEE-TT------SSHHHHHHHHHHHTTTSEEEE-ESTHHHHHHHHHHHHHTTGCSCTEEEEEG
T ss_pred HHHHHHhhcC-ceeccceecccc------cccchHHHHHHhhcCCCEEEE-eccchhHHHHHHHHHhhccccccceeecc
Confidence 9999999999 998877777764 379999999999999999998 99999999999999999988754444433
Q ss_pred ccchhhcccCChhHHhhcCceEEEEeecCC-CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhh
Q 008863 268 NTVANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (550)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 346 (550)
..+...+. .......+|.+....+.+. .+|..++|.++|++.|... ..++..+..+||++.++++|++++
T Consensus 226 ~~~~~~l~---~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~yda~~~~~~al~~~ 296 (343)
T PF13458_consen 226 SLDDASLQ---QLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEE------PPPSLYAAQGYDAARLLAQALERA 296 (343)
T ss_dssp GGSSHHHH---HHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSST------GGTCHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCcHHHH---HhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCC------CCCchhHHHHHHHHHHHHHHHHHh
Confidence 33332221 1122457788877776553 3578899999999988531 137889999999999999999999
Q ss_pred ccCCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEee-CC
Q 008863 347 NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GK 393 (550)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~-~~ 393 (550)
+.. +++.++++|++.+|+|+.|++.|+..++.....+.|++++ +|
T Consensus 297 g~~--~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~~~G 342 (343)
T PF13458_consen 297 GSL--DREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVKSDG 342 (343)
T ss_dssp TSH--HHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEETTT
T ss_pred CCC--CHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEecCC
Confidence 754 9999999999999999999999987666667888999998 54
No 58
>cd06351 PBP1_iGluR_N_LIVBP_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors characterized by their response to glutamate agonists: N-methyl-aspartate (NMDA) and non-NMDA receptors
Probab=100.00 E-value=1.8e-33 Score=276.09 Aligned_cols=315 Identities=21% Similarity=0.324 Sum_probs=248.0
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCC---CcEEEEEEecC-CCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSR---NHKLSLQIRDH-NRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~---~~~l~~~~~d~-~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
+||++++... .....|+++|++++|..++ +..+.+.+.+. .+++..+.+.+|+++..++|.+|+||.++..+.
T Consensus 1 ~iG~i~~~~~---~~~~~a~~~Ai~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~l~~~~~v~ai~G~~~s~~~~ 77 (328)
T cd06351 1 NIGAIFDRDA---RKEELAFRAAIDALNTENLNALPTKLSVEVVEVNTNDPFSLLRAVCDLLVSQGVAAIFGPTSSESAS 77 (328)
T ss_pred CeeeecCCCc---HHHHHHHHHHHHHhccCccccCCeeEEEEEEEeCCCChHHHHHHHHHHHhccCcEEEECCCCHHHHH
Confidence 4899998764 6788999999999999872 45565555543 489999999999999557999999999999999
Q ss_pred HHHHhhccCCccEEeccCCCCCCc-ccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPL-SMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~-~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
+++++|+.++||+|+++++ .+. .++..++++||+.|+...+++++++++.+++|++|++||+++++. ..+ +.+.
T Consensus 78 ~v~~~~~~~~iP~is~~~~--~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~--~~l-~~~~ 152 (328)
T cd06351 78 AVQSICDALEIPHISISGG--SEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGL--SRL-QELL 152 (328)
T ss_pred HHHHHhccCCCCeEEeecC--cccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHH--HHH-HHHH
Confidence 9999999999999999887 454 334578999999999999999999999999999999999998854 333 3333
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCC-eEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEecc
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS-RVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~-~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (550)
+.....+ ..+... .+... .++++..++++++.++ ++|++ ++..+.+..++++|.++||++++|+||+++.
T Consensus 153 ~~~~~~~-~~v~~~-~~~~~------~~~~~~~l~~l~~~~~~~vil~-~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~ 223 (328)
T cd06351 153 DESGIKG-IQVTVR-RLDLD------DDNYRQLLKELKRSESRRIILD-CSSEEEAKEILEQAVELGMMGYGYHWILTNL 223 (328)
T ss_pred HhhcccC-ceEEEE-EecCC------chhHHHHHHHHhhcccceEEEE-CCcHHHHHHHHHHHHHhccccCCcEEEEecC
Confidence 3333334 344433 34432 2379999999999988 66655 6666999999999999999999999999998
Q ss_pred chhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhccC
Q 008863 270 VANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYN 349 (550)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~ 349 (550)
.....+. ........|++++....... +...+|..+|.. .++......+...++++||+++++
T Consensus 224 ~~~~~d~--~~~~~~~~~i~g~~~~~~~~-~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~d~~~~~---------- 286 (328)
T cd06351 224 DLSDIDL--EPFQYGPANITGFRLVDPDS-PDVSQFLQRWLE----ESPGVNLRAPIYDAALLYDAVLLL---------- 286 (328)
T ss_pred Cccccch--hhhccCCcceEEEEEeCCCc-hHHHHHHHhhhh----ccCCCCcCccchhhHhhhcEEEEE----------
Confidence 6654332 22334567888888865544 677778887722 222222445667788889887766
Q ss_pred CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEee-CCeeeEEEEEeC
Q 008863 350 ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKELDFWLP 403 (550)
Q Consensus 350 ~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~-~~~~~~vG~w~~ 403 (550)
||++.|+++|.|.++.++|++++ +.++++||.|++
T Consensus 287 -------------------tg~i~f~~~g~r~~~~l~i~~l~~~~~~~~vg~W~~ 322 (328)
T cd06351 287 -------------------TGTVSFDEDGVRSNFTLDIIELNRSRGWRKVGTWNG 322 (328)
T ss_pred -------------------EeeEEECCCCcccceEEEEEEecCCCCceEEEEecC
Confidence 99999999999999999999999 899999999994
No 59
>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=6e-33 Score=273.06 Aligned_cols=331 Identities=17% Similarity=0.259 Sum_probs=270.3
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
|||++.|++ +..|.....|+++|++++|+++ +|++|+++++|+++++..+.+.+.+|+.+++|.+|+|+.+|..+
T Consensus 1 ~IG~~~plsG~~a~~G~~~~~g~~~a~~~iN~~ggi~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~V~~i~G~~~s~~~ 80 (340)
T cd06349 1 LIGVAGPLTGDNAQYGTQWKRAFDLALDEINAAGGVGGRPLNIVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDFSSGVS 80 (340)
T ss_pred CeeEEecCCCcchhcCccHHHHHHHHHHHHHhhCCcCCeEEEEEEeCCCCChHHHHHHHHHHhccCCeEEEECCCccHhH
Confidence 699999999 5678999999999999999987 68999999999999999999999999998899999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH-HHcCCeEEEEEEEcCCCCCcchhHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLALL 189 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l-~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (550)
.+++++++..++|+|+++++ .+.+. ...+|+||+.|++..+..++++++ ++++|+++++++.+++|| ....+.+
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~--~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~g--~~~~~~~ 155 (340)
T cd06349 81 MAASPIYQRAGLVQLSPTNS--HPDFT-KGGDFIFRNSTSQAIEAPLLADYAVKDLGFKKVAILSVNTDWG--RTSADIF 155 (340)
T ss_pred HHhHHHHHhCCCeEEecCCC--CCccc-cCCCeEEEccCCcHHHHHHHHHHHHHHcCCcEEEEEecCChHh--HHHHHHH
Confidence 99999999999999998876 45443 246899999999999999999997 678999999999999999 9999999
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEecc
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (550)
++.+++.| ++++....+++. ..|++.++.++++.++|+|++ .+.......+++++++.|+.. .++.+..
T Consensus 156 ~~~~~~~g-~~v~~~~~~~~~------~~d~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~---~~~~~~~ 224 (340)
T cd06349 156 VKAAEKLG-GQVVAHEEYVPG------EKDFRPTITRLRDANPDAIIL-ISYYNDGAPIARQARAVGLDI---PVVASSS 224 (340)
T ss_pred HHHHHHcC-CEEEEEEEeCCC------CCcHHHHHHHHHhcCCCEEEE-ccccchHHHHHHHHHHcCCCC---cEEccCC
Confidence 99999999 999987777653 368999999999999999999 889999999999999999875 3344332
Q ss_pred chhhcccCChhHHhhcCceEEEEeecCC-CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhcc
Q 008863 270 VANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (550)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (550)
+... .... ......+|++....+.+. ..+..++|.++|+++|. ..|+.++..+||++.++++|+++++.
T Consensus 225 ~~~~-~~~~-~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~p~~~~~~~y~~~~~~~~a~~~ag~ 294 (340)
T cd06349 225 VYSP-KFIE-LGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKYG--------AQPDAFAAQAYDAVGILAAAVRRAGT 294 (340)
T ss_pred cCCH-HHHH-HhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC--------CCcchhhhhHHHHHHHHHHHHHHhCC
Confidence 2111 1110 112346777766555443 34778899999988773 34677889999999999999999876
Q ss_pred CCCCHHHHHHH-HHhCcccccceeEEEeCC-CCCCCCceEEEEeeCCee
Q 008863 349 NISSPEMLLRQ-MLSSDFSGLSGKIRFKDG-ELLNADTLRIVNVVGKKY 395 (550)
Q Consensus 349 ~~~~~~~l~~~-l~~~~~~G~tG~i~f~~~-g~~~~~~~~i~~~~~~~~ 395 (550)
. +...+... +.+..+.+.+|+++|+.+ ++.. ..+.++.+++++|
T Consensus 295 ~--~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~~-~~~~~~~~~~g~~ 340 (340)
T cd06349 295 D--RRAARDGFAKAEDVYSGVTGSTKFDPNTRRVI-KRFVPLVVRNGKF 340 (340)
T ss_pred C--CHHHHHHHHHhccCcccceEeEEECCCCCCcc-CceEEEEEeCCcC
Confidence 4 44444343 245567899999999986 5554 5888888877653
No 60
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=100.00 E-value=2.3e-33 Score=275.17 Aligned_cols=318 Identities=17% Similarity=0.202 Sum_probs=265.3
Q ss_pred EEEEEEecCC----ccchhHHHHHHHHHHHHhcCC-CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDANS----QMGKQAITAMKIAVQNFNSDS-RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~~----~~g~~~~~a~~~Av~~iN~~~-~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
+||+++|+++ ..|.....|+++|++++| .+ .|++|+++++|++++|..+.+.+.+|+.+++|.+|+|+.++..+
T Consensus 1 ~IG~l~plsG~~~a~~g~~~~~g~~la~~~iN-ggi~G~~v~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~~~ 79 (334)
T cd06327 1 KIGVLTDMSGVYADAEGKGSVEAAELAVEDFG-GGVLGRPIELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSAVA 79 (334)
T ss_pred CcccccCCCCcCccccCHHHHHHHHHHHHHhc-CCccCeEEEEEEecCCCCchHHHHHHHHHHhhcCceEEECCccHHHH
Confidence 5899999984 347788999999999999 44 68999999999999999999999999987799999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCccc-CCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (550)
.++++++++.++|+|+++++ ++... ...+||+||+.|++..++.++++++...+++++++++.++.|| +...+.+
T Consensus 80 ~a~~~~~~~~~vp~i~~~s~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g--~~~~~~~ 155 (334)
T cd06327 80 LAVQEVAREKKKIYIVTGAG--SDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFG--HSLERDA 155 (334)
T ss_pred HHHHHHHHHhCceEEecCCC--ccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHh--HHHHHHH
Confidence 99999999999999999877 55543 3457999999999999999999998877799999999999999 9999999
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEecc
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (550)
++.+++.| ++++....++.. .+|+..++.++++.++|+|++ .+.......+++++++.|+.... .++....
T Consensus 156 ~~~~~~~G-~~vv~~~~~~~~------~~d~~~~v~~l~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~~-~~~~~~~ 226 (334)
T cd06327 156 RKVVKANG-GKVVGSVRHPLG------TSDFSSYLLQAQASGADVLVL-ANAGADTVNAIKQAAEFGLTKGQ-KLAGLLL 226 (334)
T ss_pred HHHHHhcC-CEEcCcccCCCC------CccHHHHHHHHHhCCCCEEEE-eccchhHHHHHHHHHHhCCccCC-cEEEecc
Confidence 99999999 999887777653 379999999999999999999 88999999999999999997432 2333322
Q ss_pred chhhcccCChhHHhhcCceEEEEeecCC-CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhcc
Q 008863 270 VANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (550)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (550)
+....... ..+..+|++...++... ..+..++|.++|+++|. ..|+.+++.+||+++++++|+++++.
T Consensus 227 ~~~~~~~~---~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g--------~~p~~~~~~~Y~~~~~~~~A~~~ag~ 295 (334)
T cd06327 227 FLTDVHSL---GLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKYG--------KMPSMVQAGAYSAVLHYLKAVEAAGT 295 (334)
T ss_pred cHHHHHhh---chhhhcCeEEeeeccccCCCHHHHHHHHHHHHHHC--------cCCCcHHHHHHHHHHHHHHHHHHHCC
Confidence 22111111 12356787776665433 25788899999988873 34677888999999999999999988
Q ss_pred CCCCHHHHHHHHHhCc-ccccceeEEEeC-CCCC
Q 008863 349 NISSPEMLLRQMLSSD-FSGLSGKIRFKD-GELL 380 (550)
Q Consensus 349 ~~~~~~~l~~~l~~~~-~~G~tG~i~f~~-~g~~ 380 (550)
. ++..+.++|++++ +++..|+++|++ +++.
T Consensus 296 ~--~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~ 327 (334)
T cd06327 296 D--DADKVVAKMKETPIYDLFAGNGYIRACDHQM 327 (334)
T ss_pred C--ChHHHHHhccccceeccCCCCceeeccccch
Confidence 7 8888999999975 578899999987 5544
No 61
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=100.00 E-value=6.1e-33 Score=273.83 Aligned_cols=320 Identities=20% Similarity=0.231 Sum_probs=260.2
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
+||+++|++ +..|.....|+++|++++|+++ +|++|++++.|+++++..+.+.+++|+.+++|.+|+||.++..+
T Consensus 1 ~iG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~ggi~G~~v~~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~s~~~ 80 (346)
T cd06330 1 KIGVITFLSGRAAIFGEPARNGAELAVEEINAAGGIGGRKIELVVRDEAGKPDEAIREARELVENEGVDMLIGLISSGVA 80 (346)
T ss_pred CeeEEeecCCchhhhcHHHHHHHHHHHHHHhhcCCcCCeEEEEEEecCCCCHHHHHHHHHHHHhccCCcEEEcccchHHH
Confidence 699999999 3567889999999999999998 68999999999999999999999999987799999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcc-cCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCCCCCcchhHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLA 187 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~-~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~ 187 (550)
.+++++++..++|+|++.+. ++.. ....++++||+.|++..+..+++++++++ +|+++++|+.++.+| ....+
T Consensus 81 ~~~~~~~~~~~ip~i~~~s~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g--~~~~~ 156 (346)
T cd06330 81 LAVAPVAEELKVFFIATDPG--TPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYG--QDAWA 156 (346)
T ss_pred HHHHHHHHHcCCeEEEcCCC--CcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHH--HHHHH
Confidence 99999999999999998876 5543 34568999999999999999999999876 499999999999999 88999
Q ss_pred HHHHHHhcCC-CeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEE
Q 008863 188 LLAEALQNVS-SSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (550)
Q Consensus 188 ~l~~~l~~~g-~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (550)
.+++.+++.| +++++....++. ..+|+..++.+|++.++++|++ .+...+...+++++++.|+.+ +..|+.
T Consensus 157 ~~~~~~~~~g~~~~~v~~~~~~~------~~~d~~~~v~~i~~~~~d~ii~-~~~~~~~~~~~~~~~~~g~~~-~~~~~~ 228 (346)
T cd06330 157 DFKAALKRLRPDVEVVSEQWPKL------GAPDYGSEITALLAAKPDAIFS-SLWGGDLVTFVRQANARGLFD-GTTVVL 228 (346)
T ss_pred HHHHHHHHhCCCCeecccccCCC------CCcccHHHHHHHHhcCCCEEEE-ecccccHHHHHHHHHhcCccc-CceEEe
Confidence 9999999884 044544333332 3478999999999999999999 888889999999999999965 456776
Q ss_pred eccchhhcccCChhHHhhcCceEEEEee--cCC-CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHH
Q 008863 267 TNTVANALDSLNTTVISSMEGTLGIKSY--YSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (550)
Q Consensus 267 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~--~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al 343 (550)
+......+. .......+|.+....+ ... .++..++|.++|+++|. ..|+.++..+||+++++++|+
T Consensus 229 ~~~~~~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~g--------~~p~~~~~~~y~a~~~l~~a~ 297 (346)
T cd06330 229 TLTGAPELA---PLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKYG--------DYPTYGAYGAYQAVMALAAAV 297 (346)
T ss_pred eccchhhhh---hhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHHC--------CCCChHHHHHHHHHHHHHHHH
Confidence 555332211 1112345565543321 111 35778899999988873 356677889999999999999
Q ss_pred HhhccCCCCH----HHHHHHHHhCcccccceeEEEeCCCCC
Q 008863 344 GRLNYNISSP----EMLLRQMLSSDFSGLSGKIRFKDGELL 380 (550)
Q Consensus 344 ~~~~~~~~~~----~~l~~~l~~~~~~G~tG~i~f~~~g~~ 380 (550)
++++.. ++ +.+.++|+++++.|++|++.|+.+.++
T Consensus 298 ~~a~~~--~~~~~~~~v~~al~~~~~~~~~G~~~f~~~~~~ 336 (346)
T cd06330 298 EKAGAT--DGGAPPEQIAAALEGLSFETPGGPITMRAADHQ 336 (346)
T ss_pred HHhcCC--CCCCcHHHHHHHHcCCCccCCCCceeeecCCCc
Confidence 999865 32 469999999999999999999975444
No 62
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=100.00 E-value=4.3e-32 Score=268.09 Aligned_cols=339 Identities=16% Similarity=0.209 Sum_probs=272.3
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
|||+++|++ +..|.....|+++|++++|+++ .|++|+++++|++++|..+...+.+|+++++|.+|+|+.++..+
T Consensus 1 kIG~~~plSG~~a~~g~~~~~g~~la~~~iN~~GGi~G~~ielv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~~ 80 (360)
T cd06357 1 RVGVLFSRTGVTAAIERSQRNGALLAIEEINAAGGVLGRELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSSR 80 (360)
T ss_pred CeEEEEcCCCCchhccHHHHHHHHHHHHHHhhcCCCCCeEEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHHH
Confidence 699999999 5688999999999999999998 58999999999999999999999999988899999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
.++.++++..++|++.+++. .. . ...+++|++.++...+..++++++...+-+++++|+.|++|| ....+.+.
T Consensus 81 ~a~~~~~~~~~~~~~~~~~~--~~-~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~d~~~g--~~~~~~~~ 153 (360)
T cd06357 81 KAVLPVVERHDALLWYPTLY--EG-F--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVFLVGSNYIYP--YESNRIMR 153 (360)
T ss_pred HHHHHHHHhcCceEEeCCCc--cC-C--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEEEECCCCcch--HHHHHHHH
Confidence 99999999999999987654 22 1 123678888888777788899998765568999999999999 99999999
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEecc-
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT- 269 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~- 269 (550)
+.+++.| ++++....++... ...|+..++.++++.++|+|++ .+....+..++++++++|+.+.. ..+.+..
T Consensus 154 ~~~~~~G-~~vv~~~~~~~~~----~~~d~s~~v~~l~~~~pd~V~~-~~~~~~~~~~~~~~~~~G~~~~~-~~~~~~~~ 226 (360)
T cd06357 154 DLLEQRG-GEVLGERYLPLGA----SDEDFARIVEEIREAQPDFIFS-TLVGQSSYAFYRAYAAAGFDPAR-MPIASLTT 226 (360)
T ss_pred HHHHHcC-CEEEEEEEecCCC----chhhHHHHHHHHHHcCCCEEEE-eCCCCChHHHHHHHHHcCCCccC-ceeEEeec
Confidence 9999999 9988765555431 3589999999999999999999 88999999999999999997643 2222322
Q ss_pred chhhcccCChhHHhhcCceEEEEeecCC-CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhcc
Q 008863 270 VANALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY 348 (550)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 348 (550)
....... ...+..+|++....+... ..|..+.|.++|+++|... ..++.+++.+||+++++++|+++++.
T Consensus 227 ~~~~~~~---~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~------~~~~~~~~~~yda~~~l~~Al~~ag~ 297 (360)
T cd06357 227 SEAEVAA---MGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGED------APVSACAEAAYFQVHLFARALQRAGS 297 (360)
T ss_pred cHHHHhh---cchHhhCCcEEecccccccCChhHHHHHHHHHHHcCCC------CCCCcHHHHHHHHHHHHHHHHHHcCC
Confidence 1111110 112456787776655332 3477889999998887421 13566788999999999999999987
Q ss_pred CCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEe-eCCeeeEEE
Q 008863 349 NISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV-VGKKYKELD 399 (550)
Q Consensus 349 ~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~-~~~~~~~vG 399 (550)
. +++.++++|++.+|.|..|.+.|+..++.......+.++ ++++|..+.
T Consensus 298 ~--~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~~~~G~~~~~~ 347 (360)
T cd06357 298 D--DPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARVNADGQFDIVR 347 (360)
T ss_pred C--CHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEEcCCCCEEEEE
Confidence 6 899999999999999999999999765543345556677 566666554
No 63
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=6.5e-33 Score=273.02 Aligned_cols=321 Identities=18% Similarity=0.180 Sum_probs=265.4
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--C--C--cEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCC
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--R--N--HKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET 106 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~--~--~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~ 106 (550)
+||++.|++ +..|.....++++|++++|+.+ . | ++|+++++|++++|..+.+.+.+|+.+++|.+|+|+.+
T Consensus 1 ~IG~l~plsG~~a~~g~~~~~g~~lA~~~iN~~GGi~~~G~~~~iel~~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~ 80 (347)
T cd06336 1 KIGFSGPLSGPAAAWGLPGLRGVQLAAEEINAAGGIKVGGKKYKVEIVSYDDKYDPAEAAANARRLVQQDGVKFILGPIG 80 (347)
T ss_pred CcceeccCcCcccccChhhHHHHHHHHHHHHhcCCcccCCceeeEEEEEecCCCCHHHHHHHHHHHHhhcCceEEEeCCC
Confidence 699999999 4578889999999999999886 2 4 48999999999999999999999998779999999999
Q ss_pred hHHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhH
Q 008863 107 WEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKL 186 (550)
Q Consensus 107 s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~ 186 (550)
+..+.. ++++++.++|+|++.+. ++..+...++|+||+.|++..+..++++++.+.+|+++++|+.|+.|| +...
T Consensus 81 s~~~~~-~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g--~~~~ 155 (347)
T cd06336 81 GGITAA-QQITERNKVLLLTAYSS--DLSIDTAGNPLTFRVPPIYNVYGVPFLAYAKKPGGKKVALLGPNDAYG--QPWV 155 (347)
T ss_pred Cchhhh-hhhhhhcCceEEeccCC--cccccccCCceEEEecCCchhHHHHHHHHHhhcCCceEEEEccCCchh--HHHH
Confidence 988888 99999999999999987 666655567999999999999999999999889999999999999999 9999
Q ss_pred HHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHH-HHHHHHHHHHHcCCCCCCEEEE
Q 008863 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD-MTIHLFTEANRMGLVGKDSVWI 265 (550)
Q Consensus 187 ~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~-~~~~il~~a~~~g~~~~~~~~i 265 (550)
+.+++.+++.| ++++....++.. ..|+..++.++++.++++|++ .+... ....++++++++|+... ..++
T Consensus 156 ~~~~~~l~~~G-~~vv~~~~~~~~------~~D~s~~i~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~~g~~~~-~~~~ 226 (347)
T cd06336 156 AAYKAAWEAAG-GKVVSEEPYDPG------TTDFSPIVTKLLAEKPDVIFL-GGPSPAPAALVIKQARELGFKGG-FLSC 226 (347)
T ss_pred HHHHHHHHHcC-CEEeeecccCCC------CcchHHHHHHHHhcCCCEEEE-cCCCchHHHHHHHHHHHcCCCcc-EEec
Confidence 99999999999 999887777763 379999999999999999999 88888 99999999999999763 2222
Q ss_pred EeccchhhcccCChhHHhhcCceEEEEeecCC---CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHH
Q 008863 266 VTNTVANALDSLNTTVISSMEGTLGIKSYYSD---DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEA 342 (550)
Q Consensus 266 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~A 342 (550)
.......... ....+..+|++...++... .+|..++|.++|+++|. ..++.++..+||+++++++|
T Consensus 227 ~~~~~~~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~p~~~~~~~y~~~~~~~~A 295 (347)
T cd06336 227 TGDKYDELLV---ATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYG--------EPPNSEAAVSYDAVYILKAA 295 (347)
T ss_pred cCCCchHHHH---HhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHHC--------CCCcHHHHHHHHHHHHHHHH
Confidence 2221111111 1112456788777665443 45778899999988873 34677889999999999999
Q ss_pred HHhhccCCCCHHHHHHHHHh--------CcccccceeEEEeCCCCCCCC
Q 008863 343 IGRLNYNISSPEMLLRQMLS--------SDFSGLSGKIRFKDGELLNAD 383 (550)
Q Consensus 343 l~~~~~~~~~~~~l~~~l~~--------~~~~G~tG~i~f~~~g~~~~~ 383 (550)
+++++.. ++..+.+.+.. ..|.+..|.+.||++|+...+
T Consensus 296 l~~ag~~--~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 342 (347)
T cd06336 296 MEAAGSV--DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGP 342 (347)
T ss_pred HHhcCCC--CcHHHHHHHhhccCCCcCccccccccccccccCCCccccC
Confidence 9999876 56566665543 467788999999999998643
No 64
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=100.00 E-value=2.2e-32 Score=267.95 Aligned_cols=326 Identities=18% Similarity=0.264 Sum_probs=261.3
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (550)
+||+++|++ +..|.....|+++|++++|...+|++|+++++|++++|..+.+.+.+|+.+++|.+|+|+.++..+.+
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~lAv~~inggi~G~~i~l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~~~a 80 (333)
T cd06359 1 KIGFITTLSGPAAALGQDMRDGFQLALKQLGGKLGGLPVEVVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNVLLA 80 (333)
T ss_pred CeEEEEecccchhhhhHHHHHHHHHHHHHhCCccCCEEEEEEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHHHHH
Confidence 699999999 45677889999999999984337899999999999999999999999998779999999999999999
Q ss_pred HHHhhccCCccEEeccCCCCCCccc-CCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 113 VAEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 113 v~~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
+++++...++|+|++++. .+... ...+||+||+.|++..+..++++++...+|+++++++++++|| +...+.+++
T Consensus 81 ~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g--~~~~~~~~~ 156 (333)
T cd06359 81 VVPPVLESGTFYISTNAG--PSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAG--KDALAGFKR 156 (333)
T ss_pred HHHHHHHcCCeEEecCCC--ccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhh--HHHHHHHHH
Confidence 999999999999998765 34433 3457999999999999999999999989999999999999999 888888877
Q ss_pred HHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccch
Q 008863 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (550)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 271 (550)
.+. .++.....++. ..+|+..++.++++.++|+|++ ......+..++++++++|+... ..++.+....
T Consensus 157 ~~~----~~v~~~~~~~~------~~~d~~~~i~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~ 224 (333)
T cd06359 157 TFK----GEVVGEVYTKL------GQLDFSAELAQIRAAKPDAVFV-FLPGGMGVNFVKQYRQAGLKKD-IPLYSPGFSD 224 (333)
T ss_pred HhC----ceeeeeecCCC------CCcchHHHHHHHHhCCCCEEEE-EccCccHHHHHHHHHHcCcccC-CeeeccCccc
Confidence 764 24554444443 3479999999999999999999 7788889999999999998643 2444433322
Q ss_pred hhcccCChhHHhhcCceEEEEeecCC-CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhccCC
Q 008863 272 NALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNI 350 (550)
Q Consensus 272 ~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~ 350 (550)
.. ... ....+..+|++....+.+. .++..++|.++|+++| +..++.++..+||+++++++|+++++...
T Consensus 225 ~~-~~~-~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~--------~~~~~~~~~~~yda~~~~~~A~~~ag~~~ 294 (333)
T cd06359 225 EE-DTL-PAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKY--------GRLPTLYAAQAYDAAQLLDSAVRKVGGNL 294 (333)
T ss_pred CH-HHH-HhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHh--------CCCCcHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 11 011 1122446777766555432 3578889999998887 33577888999999999999999997642
Q ss_pred CCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEE
Q 008863 351 SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIV 388 (550)
Q Consensus 351 ~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~ 388 (550)
.+++.+.++|++..|+|++|+++|+.+|+.. ..+.++
T Consensus 295 ~~~~~v~~al~~~~~~~~~G~~~~~~~~~~~-~~~~~~ 331 (333)
T cd06359 295 SDKDALRAALRAADFKSVRGAFRFGTNHFPI-QDFYLR 331 (333)
T ss_pred CCHHHHHHHHhcCccccCccceEECCCCCcc-eeEEEE
Confidence 3789999999999999999999999876653 344444
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=100.00 E-value=4.8e-32 Score=265.09 Aligned_cols=316 Identities=17% Similarity=0.218 Sum_probs=255.8
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcC-C--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSD-S--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~-~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (550)
+||++.|++ +..|.....|+++|++++|+. + +|++|++++.|++++|..+...+.+|+.+++|.+|+|+.+|..
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~lav~~inn~~ggi~G~~i~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~~ 80 (333)
T cd06328 1 KIGLITDLSGPLAAYGKQTLTGFMLGLEYATGGTMQVDGRPIEVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSGV 80 (333)
T ss_pred CeEEEEecCCchhhhhHHHHHHHHHHHHHHHhcCCCcCCEEEEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcHH
Confidence 699999999 467889999999999999654 3 5899999999999999999999999999889999999999999
Q ss_pred HHHHHHhhccCCccEEeccCCCCCCcccC-CCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHH
Q 008863 110 TAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~~~~~~~~~-~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~ 188 (550)
+.++.+++++.++|+|+++++ ++..+. ..++|+||+.+++..+...+++++... ++++++|+.+++|| +...+.
T Consensus 81 ~~a~~~~~~~~~ip~i~~~~~--~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v~~i~~~~~~g--~~~~~~ 155 (333)
T cd06328 81 ALAVLPVAEENKKILIVEPAA--ADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKIATLAQDYAFG--RDGVAA 155 (333)
T ss_pred HHHHHHHHHHhCCcEEecCCC--CchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeEEEEecCcccc--HHHHHH
Confidence 999999999999999998877 566543 345899999998888888888888666 89999999999999 999999
Q ss_pred HHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHH-HHHHHHHHHHHcCCCCCCEEEEEe
Q 008863 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD-MTIHLFTEANRMGLVGKDSVWIVT 267 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~-~~~~il~~a~~~g~~~~~~~~i~~ 267 (550)
+++.+++.| ++++....+++. ..|+..++.++++.++|+|++ ..... ....+++++.+.|+... ....
T Consensus 156 ~~~~~~~~G-~~vv~~~~~~~~------~~d~~~~v~~l~~~~pd~V~~-~~~~~~~~~~~~~~~~~~g~~~~---~~~~ 224 (333)
T cd06328 156 FKAALEKLG-AAIVTEEYAPTD------TTDFTPYAQRLLDALKKVLFV-IWAGAGGPWPKLQQMGVLGYGIE---ITLA 224 (333)
T ss_pred HHHHHHhCC-CEEeeeeeCCCC------CcchHHHHHHHHhcCCCEEEE-EecCchhHHHHHHHhhhhcCCCe---EEec
Confidence 999999999 999988877764 379999999999999999988 54444 56677888887776532 2222
Q ss_pred ccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhc
Q 008863 268 NTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (550)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~ 347 (550)
..+..... ........+|......+....+|..+.|.++|+++| +..|+.+++.+||++.++++|+++++
T Consensus 225 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~--------g~~p~~~~~~~y~a~~~l~~Ai~~ag 294 (333)
T cd06328 225 GDILANLT--MYKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARF--------GSPPDLFTAGGMSAAIAVVEALEETG 294 (333)
T ss_pred ccccCccc--cccccccccceeeeecCCCCCCHHHHHHHHHHHHHh--------CCCcchhhHHHHHHHHHHHHHHHHhC
Confidence 22211111 011123345555444443244577888989998887 34577788999999999999999998
Q ss_pred cCCCCHHHHHHHHHhCcccccceeEEEeCCCC
Q 008863 348 YNISSPEMLLRQMLSSDFSGLSGKIRFKDGEL 379 (550)
Q Consensus 348 ~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~ 379 (550)
.. +++.+.++|++.+|+++.|+++|+..++
T Consensus 295 ~~--~~~~v~~aL~~~~~~~~~g~~~f~~~~~ 324 (333)
T cd06328 295 DT--DTEALIAAMEGMSFETPKGTMTFRKEDH 324 (333)
T ss_pred CC--CHHHHHHHHhCCeeecCCCceEECcccc
Confidence 54 8999999999999999999999995433
No 66
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=100.00 E-value=1.3e-31 Score=263.61 Aligned_cols=325 Identities=16% Similarity=0.238 Sum_probs=268.8
Q ss_pred EEEEEEecCC---ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHH
Q 008863 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (550)
Q Consensus 36 ~IG~i~~~~~---~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (550)
+||+++|+++ ..|.....|+++|++++|..-+|++|+++++|+++++..+.+.+.+|+.+++|.+|+|+.++..+.+
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~~~~~i~G~~i~l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~s~~~~~ 80 (336)
T cd06360 1 KVGLLLPYSGTYAALGEDITRGFELALQEAGGKLGGREVEFVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVHSGEALA 80 (336)
T ss_pred CeEEEEecccchHhhcHhHHHHHHHHHHHhCCCcCCEEEEEEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCccHhHHH
Confidence 6999999984 4567899999999999974336899999999999999999999999998779999999998888888
Q ss_pred HHHhhccCCccEEeccCCCCCCccc-CCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 113 VAEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 113 v~~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
+.+++...++|+|++++. ++... ...+|++||+.|++..++..+++++...+|+++++++.++.|| +...+.+++
T Consensus 81 ~~~~~~~~~ip~v~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g--~~~~~~~~~ 156 (336)
T cd06360 81 MVKVLREPGTPLINPNAG--ADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFG--YEVVEGFKE 156 (336)
T ss_pred HHHHHHhcCceEEecCCC--CccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhh--HHHHHHHHH
Confidence 889999999999999876 55533 3447899999999999999999999988999999999998998 888999999
Q ss_pred HHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccch
Q 008863 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (550)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 271 (550)
.+++.| +++.....++.. ..|+.+++.++++.++|+|++ ......+..+++++++.|+.+. ..|+.++.+.
T Consensus 157 ~~~~~G-~~v~~~~~~~~~------~~d~~~~v~~~~~~~pd~v~~-~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~ 227 (336)
T cd06360 157 AFTEAG-GKIVKELWVPFG------TSDFASYLAQIPDDVPDAVFV-FFAGGDAIKFVKQYDAAGLKAK-IPLIGSGFLT 227 (336)
T ss_pred HHHHcC-CEEEEEEecCCC------CcchHHHHHHHHhcCCCEEEE-ecccccHHHHHHHHHHcCCccC-CeEEeccccc
Confidence 999999 999877666653 379999999999999999999 8888899999999999999643 2455544432
Q ss_pred hhcccCChhHHhhcCceEEEEeecCC-CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhccCC
Q 008863 272 NALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNI 350 (550)
Q Consensus 272 ~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~ 350 (550)
.. .. .....+..+|++...++... .++..+.|.++|+++|. ..|+.++..+||+++++++|+++++...
T Consensus 228 ~~-~~-~~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~~--------~~~~~~~~~~yda~~~~~~A~~~a~~~~ 297 (336)
T cd06360 228 DG-TT-LGAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAYP--------DTPSVYAVQGYDAGQALILALEAVGGDL 297 (336)
T ss_pred CH-HH-HHhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHhC--------CCccHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 11 01 11123456777766554332 45788899999888873 3577889999999999999999997643
Q ss_pred CCHHHHHHHHHhCcccccceeEEEeCCCCCCCC
Q 008863 351 SSPEMLLRQMLSSDFSGLSGKIRFKDGELLNAD 383 (550)
Q Consensus 351 ~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~ 383 (550)
.+++.+.++|++.+|.|..|+++|+++|++...
T Consensus 298 ~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~ 330 (336)
T cd06360 298 SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQD 330 (336)
T ss_pred CCHHHHHHHHhcCCccCCCcceEECCCCCcccc
Confidence 368899999999999999999999998887643
No 67
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.1e-31 Score=264.32 Aligned_cols=323 Identities=17% Similarity=0.219 Sum_probs=258.2
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
+||+++|++ +..|.....|+++|++++|..+ .|++|+++++|++++|..+.+.+.+|+.+++|.+|+|+.++..+
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~G~~i~lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~ 80 (347)
T cd06335 1 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGVLGRKLELVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPVA 80 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHHH
Confidence 699999999 4678899999999999999997 58999999999999999999999999987799999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCccc--CCCCCeEEEEecCcHHhHHHHHHHHH-HcCCeEEEEEEEcCCCCCcchhHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSM--SRRWPYLIRMASNDSEQMKCIADLAR-KYNWRRVAAIYEDNVYGGDSGKLA 187 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~--~~~~~~~~~~~p~~~~~~~al~~~l~-~~~w~~v~ii~~~~~~g~~~~~~~ 187 (550)
.+++++++..+||+|++.++ .+.+. ...++|+||+.|++..++.++++++. +.+|++|+++|++++|| +...+
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~--~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~v~ii~~~~~~g--~~~~~ 156 (347)
T cd06335 81 LANLEFIQQNKIPLIGPWAA--GTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKKVALLLDNTGWG--RSNRK 156 (347)
T ss_pred HhhhHHHHhcCCcEEecCCC--CcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCeEEEEeccCchh--hhHHH
Confidence 99999999999999998876 44432 24568999999999999999999874 56799999999999999 99999
Q ss_pred HHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEe
Q 008863 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (550)
Q Consensus 188 ~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (550)
.+++.+++.| +++.....++.. ..|+...+++|++.++++|++ .+.......+++++++.|+..+ ++..
T Consensus 157 ~~~~~~~~~G-~~v~~~~~~~~~------~~d~s~~i~~i~~~~~d~v~~-~~~~~~~~~~~~~~~~~g~~~~---~~~~ 225 (347)
T cd06335 157 DLTAALAARG-LKPVAVEWFNWG------DKDMTAQLLRAKAAGADAIII-VGNGPEGAQIANGMAKLGWKVP---IISH 225 (347)
T ss_pred HHHHHHHHcC-CeeEEEeeecCC------CccHHHHHHHHHhCCCCEEEE-EecChHHHHHHHHHHHcCCCCc---Eecc
Confidence 9999999999 999888877764 379999999999999999999 8899999999999999998542 2221
Q ss_pred ccchhhcccCChhHHhhcCceEEEEeecCC--CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHh
Q 008863 268 NTVANALDSLNTTVISSMEGTLGIKSYYSD--DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGR 345 (550)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~ 345 (550)
.... ...... ......+|++....+... .++..++|.++|+++|...... ...++.+++.+||+++++++|+++
T Consensus 226 ~~~~-~~~~~~-~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~--~~~~~~~~~~aYd~~~~l~~A~~~ 301 (347)
T cd06335 226 WGLS-GGNFIE-GAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPA--DIPAPVGAAHAYDAVHLLAAAIKQ 301 (347)
T ss_pred cCCc-Cchhhh-ccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCccc--ccCcchhHHHHHHHHHHHHHHHHH
Confidence 1111 111110 112345676655443322 4588899999999987532100 113455678899999999999999
Q ss_pred hccCCCCHHHHHHHHHhC--ccccccee--EEEeCCCC
Q 008863 346 LNYNISSPEMLLRQMLSS--DFSGLSGK--IRFKDGEL 379 (550)
Q Consensus 346 ~~~~~~~~~~l~~~l~~~--~~~G~tG~--i~f~~~g~ 379 (550)
++.. +++.++++|+++ .+.|+.|. +.|+...+
T Consensus 302 ag~~--~~~~v~~al~~~~~~~~G~~~~~~~~~~~~~h 337 (347)
T cd06335 302 AGST--DGRAIKRALENLKKPVEGLVKTYDKPFSKEDH 337 (347)
T ss_pred hcCC--CHHHHHHHHHhccCCceeeecccCCCCChhhc
Confidence 9875 668999999876 45677773 45765443
No 68
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=100.00 E-value=3e-31 Score=259.97 Aligned_cols=316 Identities=17% Similarity=0.221 Sum_probs=258.8
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
|||++.|++ +..|.....|+++|++++|+.+ .|++|++.++|++++|..+.+++.+|+.+++|.+|+|+.++..+
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~a 80 (333)
T cd06358 1 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGILGREVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAVR 80 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCcCCcEEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHHH
Confidence 699999998 4578899999999999999888 58999999999999999999999999987899999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH-HHcCCeEEEEEEEcCCCCCcchhHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLALL 189 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l-~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (550)
.++.++++ .++|+|++.+. +.. ...+|+||+.+++..+..++++++ +..+|++|+++++++.|| +...+.+
T Consensus 81 ~a~~~~~~-~~vp~i~~~~~--~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g--~~~~~~~ 152 (333)
T cd06358 81 NAVAPVVA-GRVPYVYTSLY--EGG---ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWP--RGSLAAA 152 (333)
T ss_pred HHHHHHHh-cCceEEeCCCc--CCC---CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhh--HHHHHHH
Confidence 99999999 99999997654 222 245899999999999988888887 457999999999999999 8889999
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEecc
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (550)
++.+++.| ++|+....++. ...|+.+++.++++.++|+|++ .........+++++++.|+..+. ...+..
T Consensus 153 ~~~~~~~G-~~v~~~~~~~~------~~~d~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~~~~~--~~~~~~ 222 (333)
T cd06358 153 KRYIAELG-GEVVGEEYVPL------GTTDFTSVLERIAASGADAVLS-TLVGQDAVAFNRQFAAAGLRDRI--LRLSPL 222 (333)
T ss_pred HHHHHHcC-CEEeeeeeecC------ChHHHHHHHHHHHHcCCCEEEE-eCCCCchHHHHHHHHHcCCCccC--ceeecc
Confidence 99999999 99988777776 3489999999999999999998 77877888999999999997642 112222
Q ss_pred chhh-cccCChhHHhhcCceEEEEeecC-CCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhc
Q 008863 270 VANA-LDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (550)
Q Consensus 270 ~~~~-~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~ 347 (550)
+... .... .....+|.+....+.+ ...+..++|.++|+++|... ...++.++..+||+++++++|+++++
T Consensus 223 ~~~~~~~~~---~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~-----~~~~~~~~~~~yda~~~~~~A~~~ag 294 (333)
T cd06358 223 MDENMLLAS---GAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDD-----APPLNSLSESCYEAVHALAAAAERAG 294 (333)
T ss_pred cCHHHHHhc---ChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCC-----CCCCChHHHHHHHHHHHHHHHHHHhC
Confidence 2221 1101 1134567665544332 24478889988888887431 12356678889999999999999988
Q ss_pred cCCCCHHHHHHHHHhCcccccceeEEEeCCCC
Q 008863 348 YNISSPEMLLRQMLSSDFSGLSGKIRFKDGEL 379 (550)
Q Consensus 348 ~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~ 379 (550)
.. ++..|.++|++.+|+|.+|.+.|++++.
T Consensus 295 ~~--~~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 295 SL--DPEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred CC--CHHHHHHHhccCeeeCCCcceEEccccc
Confidence 75 8999999999999999999999997754
No 69
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=100.00 E-value=3e-31 Score=259.66 Aligned_cols=317 Identities=15% Similarity=0.183 Sum_probs=257.7
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
+||++.|++ +..|.....++++|++++|+.+ .|++|+++.+|++++|..+...+.+|+.+++|.+|+|+.+|..+
T Consensus 1 ~IG~~~~lSG~~a~~G~~~~~g~~la~~~iNa~gGi~Gr~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~~ 80 (334)
T cd06356 1 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGILGREVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSASR 80 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCCCCceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHHH
Confidence 699999999 5678999999999999999987 58999999999999999999999999988899999999999999
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
.++.+++++.++|+|.+... .. ....+|+||+.+++..+..++++++...+-+++++|+.+++|| ......++
T Consensus 81 ~a~~~~~~~~~vp~i~~~~~--~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d~~~g--~~~~~~~~ 153 (334)
T cd06356 81 EAIRPIMDRTKQLYFYTTQY--EG---GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAADYNFG--QISAEWVR 153 (334)
T ss_pred HHHHHHHHhcCceEEeCCCc--cC---CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCCchhh--HHHHHHHH
Confidence 99999999999999986543 22 1234899999999999999999999775558899999999999 99999999
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccc
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (550)
+.+++.| ++++....++.. ..|++.+++++++.++|+|++ .........+++++++.|+ .. ...+.....
T Consensus 154 ~~~~~~G-~~vv~~~~~~~~------~~d~~~~v~~l~~~~pd~v~~-~~~~~~~~~~~~~~~~~G~-~~-~~~~~~~~~ 223 (334)
T cd06356 154 KIVEENG-GEVVGEEFIPLD------VSDFGSTIQKIQAAKPDFVMS-ILVGANHLSFYRQWAAAGL-GN-IPMASSTLG 223 (334)
T ss_pred HHHHHcC-CEEEeeeecCCC------chhHHHHHHHHHhcCCCEEEE-eccCCcHHHHHHHHHHcCC-cc-Cceeeeecc
Confidence 9999999 999988878764 379999999999999999999 8778888899999999999 21 112221111
Q ss_pred hhh--cccCChhHHhhcCceEEEEeecCC-CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhc
Q 008863 271 ANA--LDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLN 347 (550)
Q Consensus 271 ~~~--~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~ 347 (550)
... ..... ....+|++....+... ..|..++|.++|+++|... ..++..++.+||+++++++|+++++
T Consensus 224 ~~~~~~~~~~---~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~------p~~~~~~~~~y~a~~~~~~A~~~ag 294 (334)
T cd06356 224 AQGYEHKRLK---PPALKDMYATANYIEELDTPANKAFVERFRAKFPDA------PYINEEAENNYEAIYLYKEAVEKAG 294 (334)
T ss_pred cchhHHhccC---chhcCCeEEecchhhhcCCHHHHHHHHHHHHHcCCC------CCCCchhHHHHHHHHHHHHHHHHHC
Confidence 000 00111 1345677655544332 3467888988888887421 1124678899999999999999998
Q ss_pred cCCCCHHHHHHHHHh-CcccccceeEEEeCCCCC
Q 008863 348 YNISSPEMLLRQMLS-SDFSGLSGKIRFKDGELL 380 (550)
Q Consensus 348 ~~~~~~~~l~~~l~~-~~~~G~tG~i~f~~~g~~ 380 (550)
.. +++.|+++|++ ..++|+.|++.|+..++.
T Consensus 295 ~~--~~~~v~~aL~~~~~~~~~~g~~~~~~~~h~ 326 (334)
T cd06356 295 TT--DRDAVIEALESGLVCDGPEGKVCIDGKTHH 326 (334)
T ss_pred CC--CHHHHHHHHHhCCceeCCCceEEEecCCCc
Confidence 75 89999999997 578999999999975554
No 70
>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=100.00 E-value=2.5e-30 Score=254.27 Aligned_cols=320 Identities=18% Similarity=0.255 Sum_probs=257.9
Q ss_pred EEEEEEecCC---ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHH
Q 008863 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (550)
Q Consensus 36 ~IG~i~~~~~---~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (550)
+||+++|+++ ..|.....|+++|++++|..-+|++|+++++|+.+++..+.+.+.+++.+++|.+|||+.++....+
T Consensus 1 ~IG~~~~~sg~~~~~g~~~~~g~~~a~~~~~~~i~G~~i~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~~~~ 80 (333)
T cd06332 1 KIGLLTTLSGPYAALGQDIRDGFELALKQLGGKLGGRPVEVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNVALA 80 (333)
T ss_pred CeEEEeeccCchHhhhHHHHHHHHHHHHHhCCCcCCeEEEEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHHHHH
Confidence 6999999994 4567899999999999984337899999999999999999999999998669999999988888888
Q ss_pred HHHhhccCCccEEeccCCCCCCcc-cCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 113 VAEIASRVQVPILSFAAPAVTPLS-MSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 113 v~~~~~~~~iP~is~~~~~~~~~~-~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
+...+...++|+|++++. .+.. +...+|++||+.|++..+...+++++...+|+++++|+.++.+| ....+.+++
T Consensus 81 ~~~~~~~~~ip~v~~~~~--~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~--~~~~~~~~~ 156 (333)
T cd06332 81 VVPSLTESGTFLISPNAG--PSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAG--KDAVAGFKR 156 (333)
T ss_pred HHHHHhhcCCeEEecCCC--CccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchh--HHHHHHHHH
Confidence 888999999999999876 4443 33347999999999999999999999999999999999988888 888888888
Q ss_pred HHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccch
Q 008863 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (550)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 271 (550)
.++ + .+.....++.. ..|+.++++++++.++++|++ .........+++++++.|+.+. ..++.+..+.
T Consensus 157 ~~~--~--~~~~~~~~~~~------~~d~~~~i~~l~~~~~d~i~~-~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~ 224 (333)
T cd06332 157 TFK--G--EVVEEVYTPLG------QLDFSAELAQIRAAKPDAVFV-FLPGGMAVNFVKQYDQAGLKKK-IPLYGPGFLT 224 (333)
T ss_pred hhc--E--EEeeEEecCCC------CcchHHHHHHHHhcCCCEEEE-ecccchHHHHHHHHHHcCcccC-CceeccCCCC
Confidence 887 4 34444444442 357888999999999999999 8887889999999999999542 3456554433
Q ss_pred hhcccCChhHHhhcCceEEEEeecCC-CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhccCC
Q 008863 272 NALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNI 350 (550)
Q Consensus 272 ~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~ 350 (550)
.. ... .......+|++...++.+. .++..++|.++|.++|. ..+..++..+||+++++++|+++++...
T Consensus 225 ~~-~~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--------~~~~~~~~~~yda~~~~~~a~~~ag~~~ 294 (333)
T cd06332 225 DQ-DTL-PAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAYG--------RVPSVYAAQGYDAAQLLDAALRAVGGDL 294 (333)
T ss_pred CH-HHH-HhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHhC--------CCCcHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 21 010 1122456777766655432 34778889999888873 3467788999999999999999987643
Q ss_pred CCHHHHHHHHHhCcccccceeEEEeCCCCCC
Q 008863 351 SSPEMLLRQMLSSDFSGLSGKIRFKDGELLN 381 (550)
Q Consensus 351 ~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~ 381 (550)
.++..+.++|++.+|+|++|+++|+++|+..
T Consensus 295 ~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~ 325 (333)
T cd06332 295 SDKDALRAALRAADFDSPRGPFKFNPNHNPI 325 (333)
T ss_pred CCHHHHHHHHhcCceecCccceeECCCCCcc
Confidence 4678999999999999999999999887764
No 71
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=4.5e-31 Score=259.01 Aligned_cols=325 Identities=16% Similarity=0.155 Sum_probs=256.0
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
|||++.|++ +..|.....|+++|+++||+.+ +|++|+++++|++++|..+.+.+.+|+.+++|.+|+ +.+|..+
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iNa~GGI~Gr~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~-~~~S~~~ 79 (351)
T cd06334 1 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGINGVKLEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWSTGIT 79 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCcCCeEEEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCcHHHH
Confidence 689999999 5678899999999999999998 689999999999999999999999999877888876 5778888
Q ss_pred HHHHHhhccCCccEEeccCCCCCCccc-CCCCCeEEEEecCcHHhHHHHHHHHHHcC-----CeEEEEEEEcCCCCCcch
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARKYN-----WRRVAAIYEDNVYGGDSG 184 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~-~~~~~~~~~~~p~~~~~~~al~~~l~~~~-----w~~v~ii~~~~~~g~~~~ 184 (550)
.++.+++.+.+||+|+++++ ++... ...++|+||+.|++..+..++++++...+ .+++++|+.++.|| +.
T Consensus 80 ~a~~~~~~~~~vp~i~~~~~--~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g--~~ 155 (351)
T cd06334 80 EALIPKIAADKIPLMSGSYG--ATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFG--KE 155 (351)
T ss_pred HHhhHHHhhcCCcEEecccc--hhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccc--hh
Confidence 89999999999999998876 44443 45689999999999999999999997654 79999999999999 99
Q ss_pred hHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEE
Q 008863 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (550)
Q Consensus 185 ~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~ 264 (550)
..+.+++.+++.| ++++....++.. ..|+..++.++++.++|+|++ .....+...++++++++|+.. .|
T Consensus 156 ~~~~~~~~~~~~G-~~vv~~~~~~~~------~~D~~~~v~~i~~~~pd~V~~-~~~~~~~~~~~~~~~~~G~~~---~~ 224 (351)
T cd06334 156 PIEALKALAEKLG-FEVVLEPVPPPG------PNDQKAQWLQIRRSGPDYVIL-WGWGVMNPVAIKEAKRVGLDD---KF 224 (351)
T ss_pred hHHHHHHHHHHcC-CeeeeeccCCCC------cccHHHHHHHHHHcCCCEEEE-ecccchHHHHHHHHHHcCCCc---eE
Confidence 9999999999999 999988777764 379999999999999999999 888889999999999999954 34
Q ss_pred EEeccchhhcccCChhHHhhcCceEEEEeecC-CCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHH
Q 008863 265 IVTNTVANALDSLNTTVISSMEGTLGIKSYYS-DDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAI 343 (550)
Q Consensus 265 i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al 343 (550)
+.+..... .... .......+|++....+.. ..+|..++|.+.|++++.... . ....++.++..+||+++++++|+
T Consensus 225 ~~~~~~~~-~~~~-~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~-~-~~~~~~~~~~~gy~a~~~l~~Al 300 (351)
T cd06334 225 IGNWWSGD-EEDV-KPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSG-N-DKEIGSVYYNRGVVNAMIMVEAI 300 (351)
T ss_pred EEeeccCc-HHHH-HHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCC-C-cccccccHHHHHHHHHHHHHHHH
Confidence 44322111 1111 112245677776655433 245888888888888763211 0 00234678889999999999999
Q ss_pred HhhccCC----CCHH-------HHHHHHHhCcccccceeEEEeCCCCC
Q 008863 344 GRLNYNI----SSPE-------MLLRQMLSSDFSGLSGKIRFKDGELL 380 (550)
Q Consensus 344 ~~~~~~~----~~~~-------~l~~~l~~~~~~G~tG~i~f~~~g~~ 380 (550)
+++++.. ..+. ...+.+.+....|+.|+++|....++
T Consensus 301 ~~ag~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~d~~ 348 (351)
T cd06334 301 RRAQEKGGETTIAGEEQLENLKLDAARLEELGAEGLGPPVSVSCDDHR 348 (351)
T ss_pred HHHHHhcCCCCCcHHHHHHhhhhhhhhhhhcCcccccCCceeccccCC
Confidence 9997651 1111 22234455667789999999864443
No 72
>cd06337 PBP1_ABC_ligand_binding_like_4 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.98 E-value=3.9e-30 Score=253.99 Aligned_cols=329 Identities=14% Similarity=0.190 Sum_probs=256.3
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CC--cEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RN--HKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWE 108 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~--~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~ 108 (550)
|||++.|++ +..|.....+++++++++|..+ +| ++|+++++|++++|..+.+.+.+|+.+++|.+|+|+.+|.
T Consensus 1 kIG~~~~lSG~~a~~G~~~~~~~~~~~~~in~g~~i~G~~~~i~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s~ 80 (357)
T cd06337 1 KIGYVSPRTGPLAAFGEADPWVLETMRSALADGLVVGGSTYEVEIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTPD 80 (357)
T ss_pred CcceeccCcCcccccccchHHHHHHHHHHhcCCeeECCceeEEEEEEecCCCCHHHHHHHHHHHHhccCccEEEecCCcc
Confidence 599999999 4668888899999999999654 34 5899999999999999999999999988999999999999
Q ss_pred HHHHHHHhhccCCccEEeccCCCCCCc------cc-CCCCCeEEEEecCcHHhHHHHHHHHHHcC-CeEEEEEEEcCCCC
Q 008863 109 ETAVVAEIASRVQVPILSFAAPAVTPL------SM-SRRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNVYG 180 (550)
Q Consensus 109 ~~~~v~~~~~~~~iP~is~~~~~~~~~------~~-~~~~~~~~~~~p~~~~~~~al~~~l~~~~-w~~v~ii~~~~~~g 180 (550)
.+.++++++++.+||+|++.+. .+. .. ...++|+|+..+++..+..+++++++..+ ++++++++.++.||
T Consensus 81 ~~~a~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g 158 (357)
T cd06337 81 TTNPVSDQCEANGVPCISTMAP--WQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDG 158 (357)
T ss_pred hhhHHHHHHHHhCCCeEEeccc--hhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchh
Confidence 9999999999999999997543 111 11 22468999999999888899999888877 99999999999998
Q ss_pred CcchhHHHHH---HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 181 GDSGKLALLA---EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 181 ~~~~~~~~l~---~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
....+.+. +.+++.| ++++..+.++... .|+.+++.+|+++++|+|++ .+....+..++++++++|+
T Consensus 159 --~~~~~~~~~~~~~~~~~G-~~vv~~~~~~~~~------~D~~~~v~~ik~a~pD~v~~-~~~~~~~~~~~~~~~~~G~ 228 (357)
T cd06337 159 --NAFADPVIGLPAALADAG-YKLVDPGRFEPGT------DDFSSQINAFKREGVDIVTG-FAIPPDFATFWRQAAQAGF 228 (357)
T ss_pred --HHHHHhhhcccHHHHhCC-cEEecccccCCCC------CcHHHHHHHHHhcCCCEEEe-CCCccHHHHHHHHHHHCCC
Confidence 76666554 5667789 9998888777643 79999999999999999999 8899999999999999999
Q ss_pred CCCCEEEEE-eccc--hhhcccCChhHHhhcCceEEEEeecCC-------CChhHHHHHHHHHHHhhccCCCCCCCCCCc
Q 008863 258 VGKDSVWIV-TNTV--ANALDSLNTTVISSMEGTLGIKSYYSD-------DSSPYKEFSALFRRNFTSEYPEEDHFHPSI 327 (550)
Q Consensus 258 ~~~~~~~i~-~~~~--~~~~~~~~~~~~~~~~g~~~~~~~~~~-------~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~ 327 (550)
..+ ++. .... ........ +..+|++....+.+. .++..++|.++|+++|. ..+..
T Consensus 229 ~~~---~~~~~~~~~~~~~~~~~g----~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g--------~~~~~ 293 (357)
T cd06337 229 KPK---IVTIAKALLFPEDVEALG----DRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATG--------RQWTQ 293 (357)
T ss_pred CCC---eEEEeccccCHHHHHHhh----hhhcCccccceeccCCCcccccCCccHHHHHHHHHHHhC--------CCccC
Confidence 764 222 1111 11111111 223555543322221 12457888888888874 23445
Q ss_pred hhhHHhHHHHHHHHHHHhhccCCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEeeCCee
Q 008863 328 HALRAHDSIKIITEAIGRLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVVGKKY 395 (550)
Q Consensus 328 ~~~~~yDav~~~a~Al~~~~~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~~ 395 (550)
...++|+++.++++|++++++. .+++.|+++|++++++++.|+++|+++ . ..+..|+.+.+++|
T Consensus 294 ~~~~~~~~~~~l~~Ai~~Ags~-~d~~~v~~aL~~~~~~~~~G~~~f~~~--~-~~~~~~~~~~~~~~ 357 (357)
T cd06337 294 PLGYAHALFEVGVKALVRADDP-DDPAAVADAIATLKLDTVVGPVDFGNS--P-IKNVAKTPLVGGQW 357 (357)
T ss_pred cchHHHHHHHHHHHHHHHcCCC-CCHHHHHHHHHcCCcccceeeeecCCC--C-CccccccccccCCC
Confidence 5677999999999999999763 378899999999999999999999865 2 34566666666543
No 73
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.98 E-value=5.4e-30 Score=239.68 Aligned_cols=337 Identities=16% Similarity=0.221 Sum_probs=239.4
Q ss_pred EEEEEEEecCC---ccchhHHHHHHHHHHHHhcCCC--CcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHH
Q 008863 35 TKIGAIVDANS---QMGKQAITAMKIAVQNFNSDSR--NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (550)
Q Consensus 35 i~IG~i~~~~~---~~g~~~~~a~~~Av~~iN~~~~--~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (550)
||||+|+.+++ ..+.....|..+|+++||++|+ |++|+.+++|.++|+..-.+.+.+|+.+++|.+|||+.+|.+
T Consensus 1 ikVGiL~S~tG~~a~~e~~~~~~~~lAI~eINa~GGvlG~~le~v~~Dp~Sd~~~ya~~A~~Li~~d~V~~ifGc~TSas 80 (363)
T PF13433_consen 1 IKVGILHSLTGTMAISERSLLDGALLAIEEINAAGGVLGRQLEPVIYDPASDPSTYAEKAEKLIREDGVRAIFGCYTSAS 80 (363)
T ss_dssp --EEEE--SSSTTHHHHHHHHHHHHHHHHHHHCTTTBTTB--EEEEE--TT-HHHHHHHHHHHHHHS---EEEE--SHHH
T ss_pred CeEEEEEeCCCchHhhhHHHHHHHHHHHHHHHhcCCcCCeEEEEEEECCCCCHHHHHHHHHHHHHhCCccEEEecchhhh
Confidence 79999999994 4566888999999999999994 899999999999999999999999998899999999999999
Q ss_pred HHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH-HHcCCeEEEEEEEcCCCCCcchhHHH
Q 008863 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA-RKYNWRRVAAIYEDNVYGGDSGKLAL 188 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l-~~~~w~~v~ii~~~~~~g~~~~~~~~ 188 (550)
-.++.++.++++-+++.+... ......|++|-+.....++...+++++ .++|.+++.+|.+|+.|+ +...+.
T Consensus 81 RKaVlPvvE~~~~LL~Yp~~Y-----EG~E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~p--re~Nri 153 (363)
T PF13433_consen 81 RKAVLPVVERHNALLFYPTQY-----EGFECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYP--RESNRI 153 (363)
T ss_dssp HHHHHHHHHHCT-EEEE-S-------------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHH--HHHHHH
T ss_pred HHHHHHHHHhcCceEEecccc-----ccccCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccch--HHHHHH
Confidence 999999999999999976644 122345789999999999999999998 678999999999999999 999999
Q ss_pred HHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEec
Q 008863 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (550)
+++.+.+.| +++.....++. ..+|+..++.+|++.++|+|+- ...++....|+++.++.|+..+. .-|.+.
T Consensus 154 ~r~~l~~~G-gevvgE~Y~pl------g~td~~~ii~~I~~~~Pd~V~s-tlvG~s~~aF~r~~~~aG~~~~~-~Pi~S~ 224 (363)
T PF13433_consen 154 IRDLLEARG-GEVVGERYLPL------GATDFDPIIAEIKAAKPDFVFS-TLVGDSNVAFYRAYAAAGLDPER-IPIASL 224 (363)
T ss_dssp HHHHHHHTT--EEEEEEEE-S-------HHHHHHHHHHHHHHT-SEEEE-E--TTCHHHHHHHHHHHH-SSS----EEES
T ss_pred HHHHHHHcC-CEEEEEEEecC------CchhHHHHHHHHHhhCCCEEEE-eCcCCcHHHHHHHHHHcCCCccc-CeEEEE
Confidence 999999999 99999998887 4589999999999999999998 99999999999999999998664 334443
Q ss_pred cch-hhcccCChhHHhhcCceEEEEeecCC-CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhh
Q 008863 269 TVA-NALDSLNTTVISSMEGTLGIKSYYSD-DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (550)
Q Consensus 269 ~~~-~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 346 (550)
... ..+...+ .+...|.+....|... ++|..++|.++|+++|.. +..++...-.+|-+|+++++|++++
T Consensus 225 ~~~E~E~~~~g---~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~------~~v~s~~~eaaY~~v~l~a~Av~~a 295 (363)
T PF13433_consen 225 STSEAELAAMG---AEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGD------DRVTSDPMEAAYFQVHLWAQAVEKA 295 (363)
T ss_dssp S--HHHHTTS----HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-T------T----HHHHHHHHHHHHHHHHHHHH
T ss_pred ecCHHHHhhcC---hhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCC------CCCCCcHHHHHHHHHHHHHHHHHHh
Confidence 332 2222232 2467899988888765 458999999999998854 2244556667999999999999999
Q ss_pred ccCCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEee-CCeeeEE
Q 008863 347 NYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKEL 398 (550)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~-~~~~~~v 398 (550)
++. +.+.++++|...+|+...|.+++|...+-......|-+++ +++|..|
T Consensus 296 gs~--d~~~vr~al~g~~~~aP~G~v~id~~n~H~~l~~rIg~~~~dG~f~Iv 346 (363)
T PF13433_consen 296 GSD--DPEAVREALAGQSFDAPQGRVRIDPDNHHTWLPPRIGRVNADGQFDIV 346 (363)
T ss_dssp TS----HHHHHHHHTT--EEETTEEEEE-TTTSBEEB--EEEEE-TTS-EEEE
T ss_pred CCC--CHHHHHHHhcCCeecCCCcceEEcCCCCeecccceEEEEcCCCCEEEE
Confidence 987 9999999999999999999999997433323444555554 3555544
No 74
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.97 E-value=1.9e-28 Score=241.01 Aligned_cols=320 Identities=15% Similarity=0.171 Sum_probs=251.5
Q ss_pred EEEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHH
Q 008863 35 TKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (550)
Q Consensus 35 i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (550)
|+||++.|++ +..|.....|+++|++++|+.+ .|++|++..+|+++|+..+.+.+.+++.+++|.+|||+.++..
T Consensus 1 i~IG~~~~lsG~~a~~g~~~~~~~~~a~~~iN~~ggi~G~~v~l~~~D~~~d~~~~~~~~~~l~~~~~v~avig~~~s~~ 80 (336)
T cd06326 1 IVLGQSAPLSGPAAALGRAYRAGAQAYFDAVNAAGGVNGRKIELVTLDDGYEPERTVANTRKLIEDDKVFALFGYVGTPT 80 (336)
T ss_pred CEEEEeccCCCcchhhHHHHHHHHHHHHHHHHhcCCcCCceEEEEEeCCCCChHHHHHHHHHHHhhcCcEEEEeCCCchh
Confidence 6999999999 4567889999999999999988 5899999999999999999999999998569999999988877
Q ss_pred HHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHH
Q 008863 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (550)
+..+.+++...++|+|++++. ++.......+++|++.++....+..+++++.+.+|+++++|+.++.++ ....+.+
T Consensus 81 ~~~~~~~~~~~~iP~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~--~~~~~~~ 156 (336)
T cd06326 81 TAAALPLLEEAGVPLVGPFTG--ASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFG--KDGLAGV 156 (336)
T ss_pred HHHHHHHHHHcCCeEEEecCC--cHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcch--HHHHHHH
Confidence 777888999999999998765 343333346899999999999999999999999999999999988888 8899999
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEecc
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (550)
++.+++.| +++.....++.. ..|+..++.++++.++++|++ ..+...+..++++++++|+..+ ..+ ...
T Consensus 157 ~~~~~~~G-~~~~~~~~~~~~------~~d~~~~~~~l~~~~~dav~~-~~~~~~a~~~i~~~~~~G~~~~-~~~--~~~ 225 (336)
T cd06326 157 EKALAARG-LKPVATASYERN------TADVAAAVAQLAAARPQAVIM-VGAYKAAAAFIRALRKAGGGAQ-FYN--LSF 225 (336)
T ss_pred HHHHHHcC-CCeEEEEeecCC------cccHHHHHHHHHhcCCCEEEE-EcCcHHHHHHHHHHHhcCCCCc-EEE--Eec
Confidence 99999999 887776556543 368899999999889999999 8877789999999999999653 122 222
Q ss_pred chhhcccCChhHHhhcCceEEEEee--c-CCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhh
Q 008863 270 VANALDSLNTTVISSMEGTLGIKSY--Y-SDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (550)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~--~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 346 (550)
.... .+ ........+|++....+ . ....|..++|.+.|++.+.. ..++.++..+||+++++.+|++++
T Consensus 226 ~~~~-~~-~~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-------~~~~~~~~~~y~~~~~~~~a~~~~ 296 (336)
T cd06326 226 VGAD-AL-ARLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPG-------APPSYVSLEGYIAAKVLVEALRRA 296 (336)
T ss_pred cCHH-HH-HHHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCCC-------CCCCeeeehhHHHHHHHHHHHHHc
Confidence 1111 00 11112345676543221 1 12246677777777766531 256677888999999999999998
Q ss_pred ccCCCCHHHHHHHHHhCcccccc-eeEEEeCCCC
Q 008863 347 NYNISSPEMLLRQMLSSDFSGLS-GKIRFKDGEL 379 (550)
Q Consensus 347 ~~~~~~~~~l~~~l~~~~~~G~t-G~i~f~~~g~ 379 (550)
+.. .+++.++++|++++..... +.++|+...+
T Consensus 297 g~~-~~~~~v~~al~~~~~~~~~g~~~~~~~~~h 329 (336)
T cd06326 297 GPD-PTRESLLAALEAMGKFDLGGFRLDFSPGNH 329 (336)
T ss_pred CCC-CCHHHHHHHHHhcCCCCCCCeEEecCcccc
Confidence 763 4899999999998765444 4999976433
No 75
>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=99.97 E-value=2.2e-28 Score=236.43 Aligned_cols=279 Identities=26% Similarity=0.420 Sum_probs=234.8
Q ss_pred EEEEEEecCC-----ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhc----CCeEEEEcCCC
Q 008863 36 KIGAIVDANS-----QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK----EKVKVIAGMET 106 (550)
Q Consensus 36 ~IG~i~~~~~-----~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~----~~v~aiiG~~~ 106 (550)
+||++++.+. ..+.....++..+++++|...+++++++.+.|+++++..+...+.+++.. +++.+|+||.+
T Consensus 1 ~iG~~f~~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG~~~ 80 (298)
T cd06269 1 RIGGLFPLHSGGRFGEEGAFRAAAALFAVEEINNDLPNTTLGYEIYDSCCSPSDAFSAALDLCSLLEKSRGVVAVIGPSS 80 (298)
T ss_pred CEEEEeecccccccCHHHHHHHHHHHHHHHHHhccCCCCeeeeEEEecCCChHHHHHHHHHHHhcCCCCCceEEEECCCC
Confidence 4899999863 35667888999999999987678999999999999999999999888875 69999999999
Q ss_pred hHHHHHHHHhhccCCccEEeccCCCCCCc-ccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchh
Q 008863 107 WEETAVVAEIASRVQVPILSFAAPAVTPL-SMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGK 185 (550)
Q Consensus 107 s~~~~~v~~~~~~~~iP~is~~~~~~~~~-~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~ 185 (550)
+..+.+++.+++.+++|+|+++++ ++. .++..+|+++|+.|++..++.++++++++++|++|+++|++++++ ...
T Consensus 81 s~~~~~v~~~~~~~~iP~is~~~~--~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~~~~~--~~~ 156 (298)
T cd06269 81 SSSAEAVASLLGALHIPQISYSAT--SPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSDDDYG--RRL 156 (298)
T ss_pred chHHHHHHHHhccCCCcEEecccC--chhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEecchhh--HHH
Confidence 999999999999999999999988 555 345678999999999999999999999999999999999999999 999
Q ss_pred HHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEE
Q 008863 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (550)
Q Consensus 186 ~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (550)
.+.+++.+.+.+ +++.....++.. ..++...++++++.++++|++ ++..+.+..+++++.++||+ .+|+||
T Consensus 157 ~~~~~~~~~~~~-~~v~~~~~~~~~------~~~~~~~l~~l~~~~~~viv~-~~~~~~~~~~l~~a~~~g~~-~~~~~i 227 (298)
T cd06269 157 LELLEEELEKNG-ICVAFVESIPDG------SEDIRRLLKELKSSTARVIVV-FSSEEDALRLLEEAVELGMM-TGYHWI 227 (298)
T ss_pred HHHHHHHHHHCC-eeEEEEEEcCCC------HHHHHHHHHHHHhcCCcEEEE-EechHHHHHHHHHHHHcCCC-CCeEEE
Confidence 999999999989 999888776653 378999999999999999999 88889999999999999998 779999
Q ss_pred Eeccchhh-cccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHH
Q 008863 266 VTNTVANA-LDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIG 344 (550)
Q Consensus 266 ~~~~~~~~-~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~ 344 (550)
.++.|... .+. .......+.++... .+.++|||+++
T Consensus 228 ~~~~~~~~~~~~---~~~~~~~~~~~~~~----------------------------------~~~~~~dav~~------ 264 (298)
T cd06269 228 ITDLWLTSCLDL---ELLEYFPGNLTGFG----------------------------------EAALVYDAVYA------ 264 (298)
T ss_pred EEChhhcccccc---CCccccceEEEEEE----------------------------------eeEeEEEEEEe------
Confidence 99988653 111 11122333332221 24566777776
Q ss_pred hhccCCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEee-CCeeeEEEEEeC
Q 008863 345 RLNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV-GKKYKELDFWLP 403 (550)
Q Consensus 345 ~~~~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~-~~~~~~vG~w~~ 403 (550)
|.+.+..+.+++.. ...+++||.|++
T Consensus 265 ---------------------------------~~~~~~~~~~~~~~~~~~~~~vg~w~~ 291 (298)
T cd06269 265 ---------------------------------GRRANYDLDIIQLTPSGGFVKVGTWSP 291 (298)
T ss_pred ---------------------------------cCcCCceEEEEEECCCCCEEEEEEEcC
Confidence 66667888888887 788999999996
No 76
>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen. This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT).
Probab=99.96 E-value=3e-28 Score=238.09 Aligned_cols=302 Identities=17% Similarity=0.194 Sum_probs=238.8
Q ss_pred EEEEEEecCC---ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHH
Q 008863 36 KIGAIVDANS---QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (550)
Q Consensus 36 ~IG~i~~~~~---~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (550)
+||+++|+++ ..|.....|+++|++++| |++++++++|+.+ +..+...+.+|+. ++|.+||||.++..+.+
T Consensus 1 kIG~l~plsG~~a~~g~~~~~g~~lA~~~in----G~~i~l~~~D~~~-~~~a~~~~~~li~-~~V~~iiG~~~s~~~~a 74 (336)
T cd06339 1 RIALLLPLSGPLASVGQAIRNGFLAALYDLN----GASIELRVYDTAG-AAGAAAAARQAVA-EGADIIVGPLLKENVAA 74 (336)
T ss_pred CeEEEEcCCCcchHHHHHHHHHHHHHHHhcc----CCCceEEEEeCCC-cccHHHHHHHHHH-cCCCEEEccCCHHHHHH
Confidence 5999999994 568888999999999999 7899999999999 9999999999997 59999999999999888
Q ss_pred HHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHH
Q 008863 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEA 192 (550)
Q Consensus 113 v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (550)
+++++...++|+|+++.. .... . .+++||+.+++..++.++++++...+++++++|+++++|| ....+.+++.
T Consensus 75 ~~~~~~~~~ip~i~~~~~--~~~~-~--~~~~f~~~~~~~~~~~~~~~~~~~~g~k~vaii~~~~~~g--~~~~~~f~~~ 147 (336)
T cd06339 75 LAAAAAELGVPVLALNND--ESVA-A--GPNLFYFGLSPEDEARRAAEYARSQGKRRPLVLAPDGAYG--QRVADAFRQA 147 (336)
T ss_pred HHhhhccCCCCEEEccCC--cccc-C--CCCEEEecCChHHHHHHHHHHHHhcCccceEEEecCChHH--HHHHHHHHHH
Confidence 889999999999998765 3222 1 5889999999999999999999888999999999999999 9999999999
Q ss_pred HhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC---------------------CCeEEEEEcCCHH-HHHHHHH
Q 008863 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---------------------QSRVFIVLQASLD-MTIHLFT 250 (550)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~---------------------~~~~ii~~~~~~~-~~~~il~ 250 (550)
+++.| ++|+....++. ...|+...+.+|++. ++|.|++ ...+. ....+.+
T Consensus 148 ~~~~G-~~vv~~~~~~~------~~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~-~~~~~~~~~~~~~ 219 (336)
T cd06339 148 WQQLG-GTVVAIESYDP------SPTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDA-VALPDGEARLIKP 219 (336)
T ss_pred HHHcC-CceeeeEecCC------CHHHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEE-EecChhhhhhhcc
Confidence 99999 99998887876 448999999999998 9999988 66665 6667777
Q ss_pred HHHHcCCCCCCEEEEEeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCC-Cchh
Q 008863 251 EANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHP-SIHA 329 (550)
Q Consensus 251 ~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~~ 329 (550)
+++..+.....-.++.++.|... .+.. ......+|++..... . ....+|.++|+++| +..| +.++
T Consensus 220 ~~~~~~~~~~~~~~~g~~~~~~~-~~~~-~~g~~~~g~~~~~~~--~--~~~~~f~~~y~~~~--------~~~p~~~~~ 285 (336)
T cd06339 220 QLLFYYGVPGDVPLYGTSRWYSG-TPAP-LRDPDLNGAWFADPP--W--LLDANFELRYRAAY--------GWPPLSRLA 285 (336)
T ss_pred hhhhhccCcCCCCEEEeccccCC-CCCc-ccCcccCCcEEeCCC--c--ccCcchhhhHHHHh--------cCCCCchHH
Confidence 77766541111256777666532 1111 112345676543321 1 12237778888777 4456 8899
Q ss_pred hHHhHHHHHHHHHHHhhccCCCCHHHHHHHHH-hCcccccceeEEEeCCCCC
Q 008863 330 LRAHDSIKIITEAIGRLNYNISSPEMLLRQML-SSDFSGLSGKIRFKDGELL 380 (550)
Q Consensus 330 ~~~yDav~~~a~Al~~~~~~~~~~~~l~~~l~-~~~~~G~tG~i~f~~~g~~ 380 (550)
+.+|||+.+++.++++.... . ++. ...|+|++|+++|+++|+.
T Consensus 286 a~~YDa~~l~~~~~~~~~~~--~------al~~~~~~~g~~G~~~f~~~g~~ 329 (336)
T cd06339 286 ALGYDAYALAAALAQLGQGD--A------ALTPGAGFSGVTGVLRLDPDGVI 329 (336)
T ss_pred HHHHhHHHHHHHHHHccccc--c------ccCCCCccccCcceEEECCCCeE
Confidence 99999999999888776543 2 333 3478999999999988865
No 77
>KOG1055 consensus GABA-B ion channel receptor subunit GABABR1 and related subunits, G-protein coupled receptor superfamily [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=99.96 E-value=1.7e-28 Score=241.94 Aligned_cols=356 Identities=21% Similarity=0.259 Sum_probs=283.7
Q ss_pred CCCCcEEEEEEEecC-----CccchhHHHHHHHHHHHHhcCC---CCcEEEEEEecCCCCHHHHHHHHHHhhhc-CCeEE
Q 008863 30 NIEEVTKIGAIVDAN-----SQMGKQAITAMKIAVQNFNSDS---RNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKV 100 (550)
Q Consensus 30 ~~~~~i~IG~i~~~~-----~~~g~~~~~a~~~Av~~iN~~~---~~~~l~~~~~d~~~~~~~a~~~~~~li~~-~~v~a 100 (550)
+...+..|++++|+. ...|.....|+++|++++|+.+ +|+.|.+...|++|++..+.++..+++.. ..-..
T Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~m 116 (865)
T KOG1055|consen 37 PSRCPRRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKLM 116 (865)
T ss_pred CCCCCceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHHHcCCchhe
Confidence 344568888888887 2457788999999999999999 89999999999999999999999999863 33456
Q ss_pred EEcCCChHHHHHHHHhhccCCccEEeccCCCCCCc-ccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCC
Q 008863 101 IAGMETWEETAVVAEIASRVQVPILSFAAPAVTPL-SMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVY 179 (550)
Q Consensus 101 iiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~-~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~ 179 (550)
++|+ |++.+..++.-+..++.-+++++++ +|. .++..||++||++|+..........++++|+|++++.++....-
T Consensus 117 ll~G-Cs~v~~~iaea~~~w~l~~lsy~~s--sp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~ 193 (865)
T KOG1055|consen 117 LLGG-CSSVTTLIAEAAKMWNLIVLSYGAS--SPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEV 193 (865)
T ss_pred eccC-CCCcchHHHhhccccceeeecccCC--CccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhh
Confidence 6677 9999999999999999999999999 787 67889999999999999999999999999999999999998763
Q ss_pred CCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 180 GGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 180 g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
- ....+.+...+.+.+ ++++....+. .|....++.+++.++|+|+- ..+...++.+++++...+|.+
T Consensus 194 f--~~~~~dl~~~~~~~~-ieiv~~qsf~---------~dp~~~vk~l~~~D~RiI~g-~f~~~~Arkv~C~~Y~~~myg 260 (865)
T KOG1055|consen 194 F--SSTLNDLEARLKEAG-IEIVFRQSFS---------SDPADSVKNLKRQDARIIVG-LFYETEARKVFCEAYKERLYG 260 (865)
T ss_pred h--cchHHHHHHhhhccc-cEEEEeeccc---------cCHHHHHhhccccchhheec-cchHhhhhHHHHhhchhhccc
Confidence 3 567889999999999 9888766543 36677889999999999999 999999999999999999999
Q ss_pred CCEEEEEeccchhh-----cccCC---hhHHhhcCceEEEEeecCC-------CChhHHHHHHHHHHHhhccCCCCCCCC
Q 008863 260 KDSVWIVTNTVANA-----LDSLN---TTVISSMEGTLGIKSYYSD-------DSSPYKEFSALFRRNFTSEYPEEDHFH 324 (550)
Q Consensus 260 ~~~~~i~~~~~~~~-----~~~~~---~~~~~~~~g~~~~~~~~~~-------~~~~~~~f~~~~~~~~~~~~~~~~~~~ 324 (550)
..|+|+...+.... .+... .+...+++|.+++.....+ .+....+|+..+.+...... ....
T Consensus 261 ~ky~w~~~g~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~---~~~~ 337 (865)
T KOG1055|consen 261 RKYVWFLIGWYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHP---EETG 337 (865)
T ss_pred ceeEEEEEEeeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhcccc---cccc
Confidence 99999987653321 11111 2345567777765543211 12345556655544332111 1233
Q ss_pred CCchhhHHhHHHHHHHHHHHhhccC---------------CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEE
Q 008863 325 PSIHALRAHDSIKIITEAIGRLNYN---------------ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVN 389 (550)
Q Consensus 325 ~~~~~~~~yDav~~~a~Al~~~~~~---------------~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~ 389 (550)
......++|||+|++|.|++++... ..-.+.+.+++.+++|.|++|.+.|.+ |+|. .-..|.+
T Consensus 338 ~~~~~~~ayd~Iwa~ala~n~t~e~l~~~~~~l~~f~y~~k~i~d~i~eamn~tsF~GvsG~V~F~~-geR~-a~t~ieQ 415 (865)
T KOG1055|consen 338 GFQEAPLAYDAIWALALALNKTMEGLGRSHVRLEDFNYNNKTIADQIYEAMNSTSFEGVSGHVVFSN-GERM-ALTLIEQ 415 (865)
T ss_pred CcccCchHHHHHHHHHHHHHHHHhcCCccceeccccchhhhHHHHHHHHHhhcccccccccceEecc-hhhH-HHHHHHH
Confidence 4567889999999999999987542 123567999999999999999999998 8885 7778889
Q ss_pred eeCCeeeEEEEEeCCCC
Q 008863 390 VVGKKYKELDFWLPNFG 406 (550)
Q Consensus 390 ~~~~~~~~vG~w~~~~g 406 (550)
+++++++++|.|+...+
T Consensus 416 ~qdg~y~k~g~Yds~~D 432 (865)
T KOG1055|consen 416 FQDGKYKKIGYYDSTKD 432 (865)
T ss_pred HhCCceEeecccccccc
Confidence 99999999999997555
No 78
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.96 E-value=7.5e-27 Score=229.98 Aligned_cols=326 Identities=14% Similarity=0.135 Sum_probs=253.0
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
|||+++|++ +..|.....|+++|++++|+.+ +|+++++++.|+++++..+.+.+.+++.+++|.+|+|+.++...
T Consensus 1 ~IGv~~p~sG~~a~~g~~~~~g~~~a~~~~N~~Ggi~G~~i~lv~~D~~~~~~~~~~~~~~li~~~~V~~iig~~~s~~~ 80 (341)
T cd06341 1 KIGLLYPDTGVAAVSFPGARAGADAAAGYANAAGGIAGRPIEYVWCDDQGDPASAAACARDLVEDDKVVAVVGGSSGAGG 80 (341)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCcCCceEEEEEecCCCChhHHHHHHHHHHHhcCceEEEecccccch
Confidence 699999998 4678899999999999999988 58999999999999999999999999987799999999887766
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC-CCCcchhHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALL 189 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~l 189 (550)
..+ +.+...++|+|++.+. ++.... .++.|++.+++..+..++++++...+.+++++++.++. || +.....+
T Consensus 81 ~~~-~~~~~~~ip~v~~~~~--~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~~~~g--~~~~~~~ 153 (341)
T cd06341 81 SAL-PYLAGAGIPVIGGAGT--SAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTALSAAV--SAAAALL 153 (341)
T ss_pred hHH-HHHhhcCCceecCCCC--Cchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCCcHHH--HHHHHHH
Confidence 655 8888999999998876 444332 47788999999999999999999888999999987765 88 8899999
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEecc
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (550)
++.+++.| +++.....++.. ..|+...++++++.++|+|++ ......+..++++++++|+..+.. +....
T Consensus 154 ~~~~~~~G-~~v~~~~~~~~~------~~d~~~~~~~i~~~~pdaV~~-~~~~~~a~~~~~~~~~~G~~~~~~--~~~~~ 223 (341)
T cd06341 154 ARSLAAAG-VSVAGIVVITAT------APDPTPQAQQAAAAGADAIIT-VLDAAVCASVLKAVRAAGLTPKVV--LSGTC 223 (341)
T ss_pred HHHHHHcC-CccccccccCCC------CCCHHHHHHHHHhcCCCEEEE-ecChHHHHHHHHHHHHcCCCCCEE--EecCC
Confidence 99999999 888776555543 368899999999999999999 888889999999999999977522 22112
Q ss_pred ch-hhcccCChhHHhhcCceEEEEeecCC--CChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhh
Q 008863 270 VA-NALDSLNTTVISSMEGTLGIKSYYSD--DSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRL 346 (550)
Q Consensus 270 ~~-~~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 346 (550)
.. .... ...+..+|++....+.+. ..|..+.|.+.++ +|..++ +..++.++..+||+++++++|++++
T Consensus 224 ~~~~~~~----~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~-~~~~~~----~~~~~~~~~~~yda~~~~~~a~~~a 294 (341)
T cd06341 224 YDPALLA----APGPALAGVYIAVFYRPFESGTPAVALYLAAMA-RYAPQL----DPPEQGFALIGYIAADLFLRGLSGA 294 (341)
T ss_pred CCHHHHH----hcCcccCceEEEeeeccccCCCHHHHHHHHHHH-HhCCCC----CCCcchHHHHHHHHHHHHHHHHHhc
Confidence 21 1111 122457787776665543 4577777776443 444333 3467888999999999999999999
Q ss_pred ccCCCCHHH-HHHHHHhCcccccce---eEEEeCCCCCCCCceEEE
Q 008863 347 NYNISSPEM-LLRQMLSSDFSGLSG---KIRFKDGELLNADTLRIV 388 (550)
Q Consensus 347 ~~~~~~~~~-l~~~l~~~~~~G~tG---~i~f~~~g~~~~~~~~i~ 388 (550)
+.. .+++. ++++|++++.....| ++.+..++.+...-+.++
T Consensus 295 g~~-~~~~~~v~~al~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~ 339 (341)
T cd06341 295 GGC-PTRASQFLRALRAVTDYDAGGLTPPCDGKAGPGRPSTCYSFV 339 (341)
T ss_pred CCC-CChHHHHHHHhhcCCCCCCCCcccCccCccCCCCCchhhhhe
Confidence 874 46777 999999986654434 344445555543334333
No 79
>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=99.96 E-value=8.5e-27 Score=226.31 Aligned_cols=299 Identities=13% Similarity=0.122 Sum_probs=224.8
Q ss_pred chhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHHhhccCCccEE
Q 008863 48 GKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPIL 125 (550)
Q Consensus 48 g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~i 125 (550)
+....+|+++|+++||..| .|++|+++..|. ++|..+.+.+.+|+. ++|.+|+|+.+|..+.++.+++.+.++|+|
T Consensus 10 ~~~~~~ga~lAveeiNaaGGv~G~~ielv~~D~-~~p~~a~~~a~~Li~-~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i 87 (347)
T TIGR03863 10 EDRGLDGARLAIEDNNTTGRFLGQTFTLDEVAV-RTPEDLVAALKALLA-QGVRFFVLDLPAAALLALADAAKAKGALLF 87 (347)
T ss_pred cchHHHHHHHHHHHHHhhCCcCCceEEEEEccC-CCHHHHHHHHHHHHH-CCCCEEEecCChHHHHHHHHHHHhCCcEEE
Confidence 4678899999999999887 588999998875 789999999999996 689999999999999999999999999999
Q ss_pred eccCCCCCCccc-CCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEE
Q 008863 126 SFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSR 204 (550)
Q Consensus 126 s~~~~~~~~~~~-~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~ 204 (550)
+++++ ++.++ ..+++|+||+.|++..++.++++++...+.+++++|+.+++|| ..+.+.+++.+++.| ++|+..
T Consensus 88 ~~~a~--~~~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkvaii~~~~~~g--~~~~~~~~~~~~~~G-~~vv~~ 162 (347)
T TIGR03863 88 NAGAP--DDALRGADCRANLLHTLPSRAMLADALAQYLAAKRWRRILLIQGPLPAD--ALYADAFRRSAKRFG-AKIVAE 162 (347)
T ss_pred eCCCC--ChHHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEEEEEeCCCccc--HHHHHHHHHHHHHCC-CEEEEe
Confidence 99887 66654 4567999999999999999999999877999999999999999 999999999999999 999988
Q ss_pred eecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccchhhcccCChhHHhh
Q 008863 205 LVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISS 284 (550)
Q Consensus 205 ~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~ 284 (550)
+.++... ....+|+.......+.+++|+|++ .....+....+... .+. .. ..+.
T Consensus 163 ~~~~~~~--~~~~~d~s~~~~~~~~s~pDvv~~-~~~~~~~~~~~~~~--~~~-~~--~~~g------------------ 216 (347)
T TIGR03863 163 RPFTFSG--DPRRTDQSEVPLFTQGADYDVVVV-ADEAGEFARYLPYA--TWL-PR--PVAG------------------ 216 (347)
T ss_pred EEeccCC--chhhhhcccCceeecCCCCCEEEE-ecchhhHhhhcccc--ccc-cc--cccc------------------
Confidence 8776532 001234442222233479999998 65443321111000 000 00 0000
Q ss_pred cCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhccCCCCHHHHHHHHHhCc
Q 008863 285 MEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNYNISSPEMLLRQMLSSD 364 (550)
Q Consensus 285 ~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~l~~~l~~~~ 364 (550)
..|......+.....+..++|.++|+++| +..|+..++.+||++++++.|++++++. ++.+++++|++.+
T Consensus 217 ~~G~~~~~~~~~~~~~~~~~f~~~f~~~~--------g~~p~~~~a~aY~av~~~a~Ai~~AGs~--d~~aV~~aL~~~~ 286 (347)
T TIGR03863 217 SAGLVPTAWHRAWERWGATQLQSRFEKLA--------GRPMTELDYAAWLAVRAVGEAVTRTRSA--DPATLRDYLLSDE 286 (347)
T ss_pred ccCccccccCCcccchhHHHHHHHHHHHh--------CCCCChHHHHHHHHHHHHHHHHHHhcCC--CHHHHHHHHcCCC
Confidence 11221111111222366788999999887 3456777889999999999999999987 9999999999987
Q ss_pred c--cccce-eEEEeC-CCCCCCCceEEEEe
Q 008863 365 F--SGLSG-KIRFKD-GELLNADTLRIVNV 390 (550)
Q Consensus 365 ~--~G~tG-~i~f~~-~g~~~~~~~~i~~~ 390 (550)
+ .+..| +++|++ +++.. ..+.+.+.
T Consensus 287 ~~~~~~~g~~~~~R~~Dhq~~-~~~~~~~~ 315 (347)
T TIGR03863 287 FELAGFKGRPLSFRPWDGQLR-QPVLLVHP 315 (347)
T ss_pred ceecccCCCcceeeCCCcccc-cceEeccc
Confidence 7 47777 799986 55543 44444433
No 80
>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=99.95 E-value=1.9e-26 Score=222.92 Aligned_cols=284 Identities=24% Similarity=0.380 Sum_probs=228.3
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
+||+++|.+ +..+.....|+++|++++|+.+ .|++++++++|+++++..+.+.+.+++.+++|.+|||+.++..+
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~~g~~~~~~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~~~~~ 80 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGIPGRKLELVIYDDQSDPARALAAARRLCQQEGVDALVGPVSSGVA 80 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCCCCcEEEEEEecCCCCHHHHHHHHHHHhcccCceEEEcCCCcHHH
Confidence 599999998 4577889999999999999986 58999999999999999999999999986699999999998888
Q ss_pred HHHHHhhccCCccEEeccCCCCCCc-ccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPL-SMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~-~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (550)
.+++.++...+||+|++.+. .+. .++..+|++|++.|+...++..+++++.+++|+++++++.++.++ ....+.+
T Consensus 81 ~~~~~~~~~~~iP~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~--~~~~~~~ 156 (299)
T cd04509 81 LAVAPVAEALKIPLISPGAT--APGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYG--RGLLEAF 156 (299)
T ss_pred HHHHHHHhhCCceEEeccCC--CcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHH--HHHHHHH
Confidence 88999999999999999877 444 334567999999999999999999999999999999999998888 8889999
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEecc
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (550)
++.+++.| +++.....++.. .+++...++++++.++++|++ ++....+..+++++++.|+. +++.|+..+.
T Consensus 157 ~~~~~~~g-~~i~~~~~~~~~------~~~~~~~~~~l~~~~~~~v~~-~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~ 227 (299)
T cd04509 157 KAAFKKKG-GTVVGEEYYPLG------TTDFTSLLQKLKAAKPDVIVL-CGSGEDAATILKQAAEAGLT-GGYPILGITL 227 (299)
T ss_pred HHHHHHcC-CEEEEEecCCCC------CccHHHHHHHHHhcCCCEEEE-cccchHHHHHHHHHHHcCCC-CCCcEEeccc
Confidence 99999999 988766555442 257888999998888999999 88889999999999999998 6789998877
Q ss_pred chhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHH
Q 008863 270 VANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKI 338 (550)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~ 338 (550)
+...... ....+..+|.++...+..........+...+...+...+ +..++.+++++||++++
T Consensus 228 ~~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~yda~~~ 290 (299)
T cd04509 228 GLSDVLL--EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKY----EDQPDYFAALAYDAVLL 290 (299)
T ss_pred ccCHHHH--HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHh----CCCCChhhhhhcceeee
Confidence 6543221 122355778887776655432222233221122222211 45678899999999887
No 81
>KOG1052 consensus Glutamate-gated kainate-type ion channel receptor subunit GluR5 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=99.95 E-value=1.4e-26 Score=246.13 Aligned_cols=282 Identities=26% Similarity=0.472 Sum_probs=221.6
Q ss_pred HHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccchhhcccCC-hhHHhhcCceEEEEeecCCCChhH
Q 008863 224 LKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVANALDSLN-TTVISSMEGTLGIKSYYSDDSSPY 302 (550)
Q Consensus 224 l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~ 302 (550)
+..++....+++++ .+.+..+..++.++.++||+...|+|+.++......+... ....+..++.+....+.+.. ...
T Consensus 6 ~~~~~~~~~~~~v~-~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~s-~~~ 83 (656)
T KOG1052|consen 6 LLKLKAMRTRVFVL-HMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDELYSLIDVMNGVLGLRGHIPRS-ELL 83 (656)
T ss_pred HHHhhccCceEEEE-eCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhcccccccchhheeeEEeeccCCCcc-HHH
Confidence 34444557888888 8889999999999999999999999999998665555433 23344455666665544433 455
Q ss_pred HHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHhhcc------------CCCCHHHHHHHHHhCccc---c
Q 008863 303 KEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGRLNY------------NISSPEMLLRQMLSSDFS---G 367 (550)
Q Consensus 303 ~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~------------~~~~~~~l~~~l~~~~~~---G 367 (550)
+.|..++... +......+..+||++++++.|++.... .|.++..+.+.++..... |
T Consensus 84 ~~~~~~~~~~---------~~~~~~~~~~~~D~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 (656)
T KOG1052|consen 84 QNFVTRWQTS---------NVELLVYALWAYDAIQALARAVESLLNIGNLSLSCGRNNSWLDALGVFNFGKKLLVVNLSG 154 (656)
T ss_pred HHHHHHHhhc---------cccccchhhHHHHHHHHHHHHHHHhhcCCCCceecCCCCcccchhHHHHHHHhhhhhcccc
Confidence 5555555443 124567789999999999999988762 155677788887776544 4
Q ss_pred cceeEEEeCCCCCCCCceEEEEeeCCeeeEEEEEeCCCCCccccCCCCcCCcCCCccccCCCCccccCCCCCCCCCCccc
Q 008863 368 LSGKIRFKDGELLNADTLRIVNVVGKKYKELDFWLPNFGFSKTSSKHNVGDISSNIAAEGFTGPVIWPGNLINRNPKGWA 447 (550)
Q Consensus 368 ~tG~i~f~~~g~~~~~~~~i~~~~~~~~~~vG~w~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~i~wp~~~~~~~p~~~~ 447 (550)
.+|.+.++.++.+....++++++.+.+.+.+|.|++..| ..+.||+... ..|+++.
T Consensus 155 ~~~~~~~~~~~~~~~~~~~i~n~~~~~~~~ig~W~~~~~-----------------------~~i~~~~~~~-~~~~~~~ 210 (656)
T KOG1052|consen 155 VTGQFQFFRGGLLEYFKYEILNLNGSGERRIGYWYPRGG-----------------------ENISWPGKDY-FVPKGWF 210 (656)
T ss_pred ceeEEEecCCCccccceEEEEEecCcCceeEEEecCCCC-----------------------ceeeccCCcc-cCcCCcc
Confidence 566777777888989999999999888888999998655 1388999988 8999999
Q ss_pred cCCCCCCeEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEec-------CCChHHH
Q 008863 448 MPSNQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPH-------DGVYDDL 520 (550)
Q Consensus 448 ~~~~~~~~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~-------~g~w~Gm 520 (550)
.++.+++++|.++.+ +||++..++. .... ++++++||||||++++++.|+|+|++..+++ +|+||||
T Consensus 211 ~~~~~~~l~v~~~~~---~P~~~~~~~~-~~~~--~~~~~~G~~idll~~l~~~l~f~~~~~~~~~~~g~~~~~g~~~g~ 284 (656)
T KOG1052|consen 211 FPTNGKPLRVGVVTE---PPFVDLVEDL-AILN--GNDRIEGFEIDLLQALAKRLNFSYEIIFVPDGSGSRDPNGNWDGL 284 (656)
T ss_pred ccCCCceEEEEEecc---CCceeeeecc-cccC--CCCccceEEehHHHHHHHhCCCceEEEEcCCCCCCCCCCCChhHH
Confidence 998999999999977 7888887763 1111 5779999999999999999999966666655 3799999
Q ss_pred HHhhhcccccEEeeceeeeeeeeeEEE
Q 008863 521 INGVYDKVNYFNYHDKLLFKKKKRLCL 547 (550)
Q Consensus 521 i~el~~~~ad~a~~~~ti~~~r~~~~~ 547 (550)
+|+|++|+||++ +++||+++|+++|.
T Consensus 285 v~~l~~~~advg-~~~tit~~R~~~vd 310 (656)
T KOG1052|consen 285 VGQLVDGEADVG-ADITITPERSKYVD 310 (656)
T ss_pred HHHHhcCccccc-cceEEeecccccEE
Confidence 999999999999 99999999999986
No 82
>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=99.95 E-value=6.6e-25 Score=213.28 Aligned_cols=278 Identities=21% Similarity=0.269 Sum_probs=221.0
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
|||+++|++ +..|.....|+++|++++|+ + +|+++++++.|+++++..+.+.+.+++.+++|.+|||+.++..+
T Consensus 1 ~IG~~~~lsG~~~~~g~~~~~g~~~a~~~iN~-ggi~g~~i~l~~~d~~~~~~~a~~~~~~li~~~~v~~vig~~~s~~~ 79 (312)
T cd06333 1 KIGAILSLTGPAASLGIPEKKTLELLPDEINA-GGIGGEKVELIVLDDGSDPTKAVTNARKLIEEDKVDAIIGPSTTPAT 79 (312)
T ss_pred CeeEEeecCCcchhhCHHHHHHHHHHHHHHhc-CCcCCeEEEEEEecCCCCHHHHHHHHHHHHhhCCeEEEECCCCCHHH
Confidence 699999999 56678899999999999999 7 78999999999999999999999999986799999999888777
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
.++.+++...++|+|+++.. ++... ...+|+|++.|++...+..+++++...||+++++++.++.++ ....+.++
T Consensus 80 ~~~~~~~~~~~vP~v~~~~~--~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~--~~~~~~~~ 154 (312)
T cd06333 80 MAVAPVAEEAKTPMISLAPA--AAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYG--ESGLKELK 154 (312)
T ss_pred HHHHHHHHhcCCCEEEccCC--ccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHH--HHHHHHHH
Confidence 77888899999999998876 33332 345789999999999999999999999999999999988888 88889999
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccc
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (550)
+.+++.| +++.....++.. ..++...+.++++.++++|++ ......+..+++++++.|+..+ . +.+...
T Consensus 155 ~~~~~~G-~~v~~~~~~~~~------~~d~~~~~~~l~~~~pdaIi~-~~~~~~~~~~~~~l~~~g~~~p--~-~~~~~~ 223 (312)
T cd06333 155 ALAPKYG-IEVVADERYGRT------DTSVTAQLLKIRAARPDAVLI-WGSGTPAALPAKNLRERGYKGP--I-YQTHGV 223 (312)
T ss_pred HHHHHcC-CEEEEEEeeCCC------CcCHHHHHHHHHhCCCCEEEE-ecCCcHHHHHHHHHHHcCCCCC--E-EeecCc
Confidence 9999999 998776666543 257888888888888999998 7777778889999999998764 3 333322
Q ss_pred hhhcccCChhHHhhcCceEEEEee------cCC---CChhHHHHHHHHHHHhhccCCCCCCCC-CCchhhHHhHHHHHHH
Q 008863 271 ANALDSLNTTVISSMEGTLGIKSY------YSD---DSSPYKEFSALFRRNFTSEYPEEDHFH-PSIHALRAHDSIKIIT 340 (550)
Q Consensus 271 ~~~~~~~~~~~~~~~~g~~~~~~~------~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~-~~~~~~~~yDav~~~a 340 (550)
.. .... ....+..+|++....+ .+. ..+..++|.++|+++|. .. |..+++.+||++++++
T Consensus 224 ~~-~~~~-~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~g--------~~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 224 AS-PDFL-RLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKYG--------AGSVSTFGGHAYDALLLLA 293 (312)
T ss_pred Cc-HHHH-HHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHhC--------CCCCCchhHHHHHHHHHHH
Confidence 21 0111 1122456776654321 121 13568888888888873 33 7788999999999998
No 83
>cd06268 PBP1_ABC_transporter_LIVBP_like Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC
Probab=99.93 E-value=2.7e-23 Score=200.78 Aligned_cols=279 Identities=24% Similarity=0.372 Sum_probs=225.7
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCC--CCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDS--RNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~--~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
+||+++|.+ +..+.....|++.|++++|+.+ +|++|++.++|+++++..+.+.++++++ +++.+|+||.++..+
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~~g~~v~~~~~d~~~~~~~~~~~~~~l~~-~~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGILGRKIELVVEDTQGDPEAAAAAARELVD-DGVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCCCCeEEEEEEecCCCCHHHHHHHHHHHHh-CCceEEEcCCcchhH
Confidence 589999998 4678899999999999999987 5899999999999999999999999997 599999999988888
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcC-CeEEEEEEEcCCCCCcchhHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN-WRRVAAIYEDNVYGGDSGKLALL 189 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~-w~~v~ii~~~~~~g~~~~~~~~l 189 (550)
..+..++...+||+|++.+. .+......++++|++.|++..++.++++++...+ |+++++++.++.++ ....+.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~--~~~~~~~ 155 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGAT--SPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYG--RGLAAAF 155 (298)
T ss_pred HhhHHHHHhCCCcEEccCCC--CcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchh--HHHHHHH
Confidence 88899999999999999877 4443324578999999999999999999998887 99999999998888 8899999
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEecc
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (550)
.+.+++.| +++.....++.. ..++...++++++.++++|++ .+....+..+++++++.|+. ..|+..+.
T Consensus 156 ~~~~~~~g-~~i~~~~~~~~~------~~~~~~~~~~l~~~~~~~vi~-~~~~~~~~~~~~~~~~~g~~---~~~~~~~~ 224 (298)
T cd06268 156 REALKKLG-GEVVAEETYPPG------ATDFSPLIAKLKAAGPDAVFL-AGYGGDAALFLKQAREAGLK---VPIVGGDG 224 (298)
T ss_pred HHHHHHcC-CEEEEEeccCCC------CccHHHHHHHHHhcCCCEEEE-ccccchHHHHHHHHHHcCCC---CcEEecCc
Confidence 99999999 888776655442 257888999999888999998 88878999999999999983 36777666
Q ss_pred chhhcccCChhHHhhcCceEEEEeecCCC-ChhHHHHH-HHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHH
Q 008863 270 VANALDSLNTTVISSMEGTLGIKSYYSDD-SSPYKEFS-ALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIIT 340 (550)
Q Consensus 270 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a 340 (550)
+...... ....+..+|.+...++.... .+....|. ..|++.+ +..++.++..+||++++++
T Consensus 225 ~~~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 225 AAAPALL--ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKY--------GRPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred cCCHHHH--HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHh--------CCCcccchHHHHHHHHHHc
Confidence 5432111 12234567877776654432 23444454 5566555 4567888999999999987
No 84
>cd06369 PBP1_GC_C_enterotoxin_receptor Ligand-binding domain of the membrane guanylyl cyclase C. Ligand-binding domain of the membrane guanylyl cyclase C (GC-C or StaR). StaR is a key receptor for the STa (Escherichia coli Heat Stable enterotoxin), a potent stimulant of intestinal chloride and bicarbonate secretion that cause acute secretory diarrhea. The catalytic domain of the STa/guanylin receptor type membrane GC is highly similar to those of the natriuretic peptide receptor (NPR) type and sensory organ-specific type membrane GCs (GC-D, GC-E and GC-F). The GC-C receptor is mainly expressed in the intestine of most vertebrates, but is also found in the kidney and other organs. Moreover, GC-C is activated by guanylin and uroguanylin, endogenous peptide ligands synthesized in the intestine and kidney. Consequently, the receptor activation results in increased cGMP levels and phosphorylation of the CFTR chloride channel and secretion.
Probab=99.92 E-value=3e-22 Score=187.00 Aligned_cols=324 Identities=15% Similarity=0.116 Sum_probs=231.8
Q ss_pred chhHHHHHHHHHHHHhcCC--CCcEEEE----------EEecCCC--CHHHHHHHHHHhhhc-CCeEEEEcCCChHHHHH
Q 008863 48 GKQAITAMKIAVQNFNSDS--RNHKLSL----------QIRDHNR--DPFQAATAAQELINK-EKVKVIAGMETWEETAV 112 (550)
Q Consensus 48 g~~~~~a~~~Av~~iN~~~--~~~~l~~----------~~~d~~~--~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~~~ 112 (550)
-.....|++.|++.+++.. .|..+.+ ...+..| +.-++++...+|... +.-.+++||.|..++.+
T Consensus 17 ~~~v~~av~~a~~~~~~~~~~~g~~f~~~a~~~~~~~~~y~~~~C~sstceg~~~l~~l~~~~~~gcv~lGP~CtYat~~ 96 (380)
T cd06369 17 LKFVKEAVEEAIEIVAERLAEAGLNVTVNANFEGFNTSLYRSRGCRSSTCEGVELLKKLSVTGRLGCVLLGPSCTYATFQ 96 (380)
T ss_pred HHHHHHHHHHHHHHHHhhhhccCceEEEEEeeeccccceeccCCCCcccchHHHHHHHHHhcCccCcEEEcCccceehhh
Confidence 3567789999999998765 5776666 4444333 345677777777653 55779999999999999
Q ss_pred HHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHH------HcCCeEEEEEEEcCCCCCc-chh
Q 008863 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR------KYNWRRVAAIYEDNVYGGD-SGK 185 (550)
Q Consensus 113 v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~------~~~w~~v~ii~~~~~~g~~-~~~ 185 (550)
++.+...+++|+||.++- .-.-+.. +++-|+.|+...++..+.++.+ +++|+++. ||.+++--.+ --.
T Consensus 97 ~~~~~~~~~~P~ISaGsf--glscd~k--~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~~ 171 (380)
T cd06369 97 MVDDEFNLSLPIISAGSF--GLSCDYK--ENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTEDCFWY 171 (380)
T ss_pred hhhhhhcCCCceEecccc--ccCCCch--hhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-EEcCCCCccceeeE
Confidence 999999999999998876 3333322 4789999999999999999994 89998655 8877631000 113
Q ss_pred HHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEE
Q 008863 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (550)
Q Consensus 186 ~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (550)
...+......-+ ..+.+...++ ..+++...++++++ .+|+||+ +++++..+.++.+ ++..++|++|
T Consensus 172 i~al~a~~~~f~-~~~~~~~~l~-------~~~~~~~il~~~~~-~sRIiIm-CG~p~~ir~lm~~----~~~~gDYVf~ 237 (380)
T cd06369 172 INALEAGVAYFS-SALKFKELLR-------TEEELQKLLTDKNR-KSNVIIM-CGTPEDIVNLKGD----RAVAEDIVII 237 (380)
T ss_pred hHhhhhhhhhhh-hcccceeeec-------CchhHHHHHHHhcc-CccEEEE-eCCHHHHHHHHhc----CccCCCEEEE
Confidence 455555555444 4444444333 23678888888765 8899999 9999999998886 5555689999
Q ss_pred EeccchhhcccCChhHHhhcCceEEEEeecCCCChhHHHHHHHHHHHhhccCCCCCCCCC-CchhhHHhHHHHHHHHHHH
Q 008863 266 VTNTVANALDSLNTTVISSMEGTLGIKSYYSDDSSPYKEFSALFRRNFTSEYPEEDHFHP-SIHALRAHDSIKIITEAIG 344 (550)
Q Consensus 266 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~~~~~yDav~~~a~Al~ 344 (550)
..+.+..... .+....++++.++.++...+.. +.+.+ . .+ .+... ..+++..||||.++++||+
T Consensus 238 ~IDlF~~sy~-~d~~a~~amqsVLvIT~~~p~~-~~~~~-------~----~~--fn~~l~~~~aa~fyDaVLLYa~AL~ 302 (380)
T cd06369 238 LIDLFNDVYY-ENTTSPPYMRNVLVLTLPPRNS-TNNSS-------F----TT--DNSLLKDDYVAAYHDGVLLFGHVLK 302 (380)
T ss_pred EEecccchhc-cCcchHHHHhceEEEecCCCCC-ccccc-------C----CC--CCcchHHHHHHHHHHHHHHHHHHHH
Confidence 9887754321 2223446678888776543322 22211 0 00 01122 2778899999999999999
Q ss_pred hhccC--CCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEee--CCeeeEEEEEeCCCC
Q 008863 345 RLNYN--ISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNVV--GKKYKELDFWLPNFG 406 (550)
Q Consensus 345 ~~~~~--~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~~--~~~~~~vG~w~~~~g 406 (550)
+.... ..++..+.+.|++.+|+|++|++++|++|+|. ..|.++.+. .++++.||.|+....
T Consensus 303 EtL~~G~~~~~~~I~~~m~NrTF~GitG~V~IDeNGDRd-~dfsLl~ms~~tg~y~vV~~y~t~~n 367 (380)
T cd06369 303 KFLESQEGVQTFSFINEFRNISFEGAGGPYTLDEYGDRD-VNFTLLYTSTDTSKYKVLFEFDTSTN 367 (380)
T ss_pred HHHHhCCCCCcHHHHHHHhCcceecCCCceEeCCCCCcc-CceEEEEeeCCCCCeEEEEEEECCCC
Confidence 98654 12348899999999999999999999999995 899998875 488999999997333
No 85
>PF10613 Lig_chan-Glu_bd: Ligated ion channel L-glutamate- and glycine-binding site; InterPro: IPR019594 This entry, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and binds L-glutamate and glycine [, ]. It is found in association with IPR001320 from INTERPRO. ; GO: 0004970 ionotropic glutamate receptor activity, 0005234 extracellular-glutamate-gated ion channel activity, 0016020 membrane; PDB: 4E0W_A 3S9E_A 3QXM_B 2F34_A 3C34_B 3S2V_A 3GBB_B 2F36_D 4E0X_A 1TXF_A ....
Probab=99.83 E-value=1.5e-21 Score=134.67 Aligned_cols=57 Identities=30% Similarity=0.629 Sum_probs=44.0
Q ss_pred ccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEec--------CCChHHHHHhhhc
Q 008863 467 KFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPH--------DGVYDDLINGVYD 526 (550)
Q Consensus 467 pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~--------~g~w~Gmi~el~~ 526 (550)
||||.+++.+. .. |++||||||||||++||+.|+|+|++.++++ ||+||||||||++
T Consensus 1 Pfvm~~~~~~~-~~--g~~~~eGyciDll~~la~~l~F~y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 1 PFVMLKEDGEN-LT--GNDRYEGYCIDLLEELAEELNFTYEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp TTBEE-TTSSG-SB--GGGGEESHHHHHHHHHHHHHT-EEEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CeEEEecCCcc-cC--CCccEEEEHHHHHHHHHHHcCCeEEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 79999888322 22 7999999999999999999999944444443 6999999999985
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=99.63 E-value=1e-13 Score=131.29 Aligned_cols=216 Identities=22% Similarity=0.372 Sum_probs=172.5
Q ss_pred EEEEEEecC--CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHH
Q 008863 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v 113 (550)
+||+++|.+ ...+.....+++.+++++ |..+++.++++.+++....+.+.+++. +++.+++++.++.....+
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~-----g~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~d~ii~~~~~~~~~~~ 74 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI-----GRGLEVILADSQSDPERALEALRDLIQ-QGVDGIIGPPSSSSALAV 74 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh-----CCceEEEEecCCCCHHHHHHHHHHHHH-cCCCEEEecCCCHHHHHH
Confidence 589999987 455667778888888886 467888889999999888888888886 589999998887666657
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcC-CCCCcchhHHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN-VYGGDSGKLALLAEA 192 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~-~~g~~~~~~~~l~~~ 192 (550)
...+...++|+|.+... .+... .+++++++.|+....+.++++++.+++|+++++++.+. .++ ....+.+++.
T Consensus 75 ~~~~~~~~ip~v~~~~~--~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~--~~~~~~~~~~ 148 (269)
T cd01391 75 VELAAAAGIPVVSLDAT--APDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYG--RERLEGFKAA 148 (269)
T ss_pred HHHHHHcCCcEEEecCC--CCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchh--hHHHHHHHHH
Confidence 78889999999998876 33333 56889999999999999999999999999999999887 565 7788899999
Q ss_pred HhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC-CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccch
Q 008863 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK-QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (550)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~-~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 271 (550)
+++.+ .++......... ...++....+.+++. ++++|++ .++ ..+..+++++.+.|+.++++.|+..+.+.
T Consensus 149 ~~~~~-~~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~i~~-~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~ 220 (269)
T cd01391 149 LKKAG-IEVVAIEYGDLD-----TEKGFQALLQLLKAAPKPDAIFA-CND-EMAAGALKAAREAGLTPGDISIIGFDGSP 220 (269)
T ss_pred HHhcC-cEEEeccccCCC-----ccccHHHHHHHHhcCCCCCEEEE-cCc-hHHHHHHHHHHHcCCCCCCCEEEeccccc
Confidence 99988 776544333221 224667777777776 7888888 666 88899999999999985567777766654
No 87
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=99.43 E-value=1.4e-11 Score=125.80 Aligned_cols=309 Identities=13% Similarity=0.170 Sum_probs=162.8
Q ss_pred CcEEEEEEEecCCc---cchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHH
Q 008863 33 EVTKIGAIVDANSQ---MGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (550)
Q Consensus 33 ~~i~IG~i~~~~~~---~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (550)
.+-+|++++|+++. .|.....||..|. +.. .+...++.++|+..++. .....+.+. +|+.+||||.....
T Consensus 218 ~~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~-~~~~~~l~~~Dt~~~~~--~~~~~~a~~-~ga~~ViGPL~k~~ 290 (536)
T PF04348_consen 218 PPQRIAVLLPLSGRLARAGQAIRDGFLAAY---YAD-ADSRPELRFYDTNADSA--DALYQQAVA-DGADFVIGPLLKSN 290 (536)
T ss_dssp ----EEEEE--SSTTHHHHHHHHHHHHHHH-------TT--S-EEEEETTTS-H--HHHHHHHHH-TT--EEE---SHHH
T ss_pred CccCEEEEeCCCCchhHHHHHHHHHHHHhh---ccc-ccCCCceEEecCCCCCH--HHHHHHHHH-cCCCEEEcCCCHHH
Confidence 45689999999953 4567777887777 111 24567888899877633 333455554 79999999999988
Q ss_pred HHHHHHhhcc--CCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHH
Q 008863 110 TAVVAEIASR--VQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLA 187 (550)
Q Consensus 110 ~~~v~~~~~~--~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~ 187 (550)
...++..-.. ..||++..... +.. ... +.+|.+.-+.+..++.+++.+..-|+++..||+.++++| ....+
T Consensus 291 V~~l~~~~~~~~~~vp~LaLN~~--~~~-~~~--~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g--~R~~~ 363 (536)
T PF04348_consen 291 VEALAQLPQLQAQPVPVLALNQP--DNS-QAP--PNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWG--QRMAE 363 (536)
T ss_dssp HHHHHH-GG-GGTT-EEEES-----TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHH--HHHHH
T ss_pred HHHHHhcCcccccCCceeeccCC--Ccc-cCc--cceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHH--HHHHH
Confidence 8877765432 48999998876 333 212 334444555578899999999999999999999999999 99999
Q ss_pred HHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEe
Q 008863 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (550)
Q Consensus 188 ~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (550)
.|.+.....| ..+.....+.. ..++...++.-.+.+.|.|++ ...+.+++.+--...-. .. .+-..+.+
T Consensus 364 aF~~~W~~~g-g~~~~~~~~~~-------~~~~~~~i~~r~r~d~D~ifl-~a~~~~ar~ikP~l~~~-~a-~~lPvyat 432 (536)
T PF04348_consen 364 AFNQQWQALG-GQVAEVSYYGS-------PADLQAAIQPRRRQDIDAIFL-VANPEQARLIKPQLDFH-FA-GDLPVYAT 432 (536)
T ss_dssp HHHHHHHHHH-SS--EEEEESS-------TTHHHHHHHHS--TT--EEEE----HHHHHHHHHHHTT--T--TT-EEEE-
T ss_pred HHHHHHHHcC-CCceeeEecCC-------HHHHHHHHhhcCCCCCCEEEE-eCCHHHHHHHhhhcccc-cC-CCCCEEEe
Confidence 9999999988 77755555543 257787887666668999999 88888888776665543 11 11223333
Q ss_pred cc-chhhcccCChhHHhhcCceEEEEee-cCCCChhHHHHHHHHHHHhhccCCCCCCCCCCchhhHHhHHHHHHHHHHHh
Q 008863 268 NT-VANALDSLNTTVISSMEGTLGIKSY-YSDDSSPYKEFSALFRRNFTSEYPEEDHFHPSIHALRAHDSIKIITEAIGR 345 (550)
Q Consensus 268 ~~-~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~ 345 (550)
+. .... .++.....++|+.+.... .-...+ .....+...+... ........+++|||..++.+--
T Consensus 433 S~~~~g~---~~~~~~~dL~gv~f~d~Pwll~~~~---~~~~~~~~~~~~~-----~~~~~RL~AlG~DA~~L~~~l~-- 499 (536)
T PF04348_consen 433 SRSYSGS---PNPSQDRDLNGVRFSDMPWLLDPNS---PLRQQLAALWPNA-----SNSLQRLYALGIDAYRLAPRLP-- 499 (536)
T ss_dssp GGG--HH---T-HHHHHHTTT-EEEE-GGGG---S---HHHHHHH-HHTTT------HHHHHHHHHHHHHHHHHHTHH--
T ss_pred ccccCCC---CCcchhhhhcCCEEeccccccCCCc---hHHHHHHhhccCC-----ccHHHHHHHHHHHHHHHHHHHH--
Confidence 32 2221 223344678888766542 222111 1222333333210 1112234677888877763321
Q ss_pred hccCCCCHHHHHHHHHhCcccccceeEEEeCCCCCCCCceEEEEe
Q 008863 346 LNYNISSPEMLLRQMLSSDFSGLSGKIRFKDGELLNADTLRIVNV 390 (550)
Q Consensus 346 ~~~~~~~~~~l~~~l~~~~~~G~tG~i~f~~~g~~~~~~~~i~~~ 390 (550)
-++.+....+.|.||.+++|++|.. ...+.-.++
T Consensus 500 ----------~l~~~~~~~~~G~TG~L~~~~~g~i-~R~l~wa~f 533 (536)
T PF04348_consen 500 ----------QLRQFPGYRLDGLTGQLSLDEDGRI-ERQLSWAQF 533 (536)
T ss_dssp ----------HHHHSTT--EEETTEEEEE-TT-BE-EEE-EEEEE
T ss_pred ----------HHhhCCCCcccCCceeEEECCCCeE-EEeecceee
Confidence 1122234578999999999988754 234433333
No 88
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=98.83 E-value=4e-07 Score=85.86 Aligned_cols=198 Identities=14% Similarity=0.125 Sum_probs=136.0
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
+||+++|.+ .........+++.+.++. | +++.+.+...++....+.+.+++. .++.++++...........
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~-----g--~~l~~~~~~~~~~~~~~~~~~~~~-~~~d~ii~~~~~~~~~~~~ 72 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAA-----G--YQVLLANSQNDAEKQLSALENLIA-RGVDGIIIAPSDLTAPTIV 72 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHc-----C--CeEEEEeCCCCHHHHHHHHHHHHH-cCCCEEEEecCCCcchhHH
Confidence 589999886 444556667777777663 4 455667777787777778888886 5888888755444333356
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC--CCCcchhHHHHHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~ 192 (550)
..+...++|+|..... .+. .++++++.+++...+..+++++...+-++++++..+.. ++ ....+.+++.
T Consensus 73 ~~l~~~~ip~v~~~~~--~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~~~~~~~~~ 143 (264)
T cd01537 73 KLARKAGIPVVLVDRD--IPD-----GDRVPSVGSDNEQAGYLAGEHLAEKGHRRIALLAGPLGSSTA--RERVAGFKDA 143 (264)
T ss_pred HHhhhcCCCEEEeccC--CCC-----CcccceEecCcHHHHHHHHHHHHHhcCCcEEEEECCCCCCcH--HHHHHHHHHH
Confidence 7778899999998766 322 24566788888899999999998888999999987654 44 5667888888
Q ss_pred HhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC--CeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~--~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
+++.+...+........ +..+....++++.+.+ +++++. . +...+..+++++.+.|+.
T Consensus 144 ~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~i~~-~-~~~~a~~~~~~~~~~g~~ 203 (264)
T cd01537 144 LKEAGPIEIVLVQEGDW------DAEKGYQAAEELLTAHPDPTAIFA-A-NDDMALGALRALREAGLR 203 (264)
T ss_pred HHHcCCcChhhhccCCC------CHHHHHHHHHHHHhcCCCCCEEEE-c-CcHHHHHHHHHHHHhCCC
Confidence 87654012111111111 3356667777777665 566665 4 445667789999999985
No 89
>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=98.76 E-value=8.6e-07 Score=83.64 Aligned_cols=205 Identities=15% Similarity=0.149 Sum_probs=136.2
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
+||++.|.. .........+++.+.++. |+.+ .+.+...++....+...+++. .++.+|+.......... .
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~-----g~~~--~~~~~~~~~~~~~~~~~~~~~-~~~d~iii~~~~~~~~~-~ 71 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREA-----GYSV--LLCNSDEDPEKEREALELLLS-RRVDGIILAPSRLDDEL-L 71 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHc-----CCEE--EEEcCCCCHHHHHHHHHHHHH-cCcCEEEEecCCcchHH-H
Confidence 489999885 444455556666666553 4444 456777788788888888887 58888886544444444 5
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC--CCCcchhHHHHHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~ 192 (550)
..+...++|+|..... .+. +.+..+.++....++.+++++...|.+++++++.+.. ++ ....+.+++.
T Consensus 72 ~~~~~~~ipvv~~~~~--~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~r~~g~~~~ 141 (264)
T cd06267 72 EELAALGIPVVLVDRP--LDG------LGVDSVGIDNRAGAYLAVEHLIELGHRRIAFIGGPPDLSTA--RERLEGYREA 141 (264)
T ss_pred HHHHHcCCCEEEeccc--ccC------CCCCEEeeccHHHHHHHHHHHHHCCCceEEEecCCCccchH--HHHHHHHHHH
Confidence 6678899999998765 221 3445567788888899999998889999999987654 44 5667788888
Q ss_pred HhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC--CeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEE
Q 008863 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (550)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~--~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (550)
+++.+ ..+.......... ...+....++++.+.. .+.|+. .+...+..+++++++.|+..++.+.+.
T Consensus 142 ~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~al~~~g~~~~~~i~i~ 210 (264)
T cd06267 142 LEEAG-IPLDEELIVEGDF----SEESGYEAARELLASGERPTAIFA--ANDLMAIGALRALRELGLRVPEDVSVV 210 (264)
T ss_pred HHHcC-CCCCcceEEeccc----chhhHHHHHHHHHhcCCCCcEEEE--cCcHHHHHHHHHHHHhCCCCCCceEEE
Confidence 88876 5332222222111 2245566777776654 566665 455667788999999998533333333
No 90
>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=98.76 E-value=3.2e-06 Score=79.91 Aligned_cols=197 Identities=14% Similarity=0.108 Sum_probs=133.0
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcC-CChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGM-ETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~-~~s~~~~~v 113 (550)
+||+++|.. .........+++.+.++. | +++.+.++..++....+.+.+++.+ ++.+||.. .........
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~-----g--~~~~~~~~~~~~~~~~~~~~~l~~~-~vdgvi~~~~~~~~~~~~ 72 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKEL-----G--VELIVLDAQNDVSKQIQQIEDLIAQ-GVDGIIISPVDSAALTPA 72 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhc-----C--ceEEEECCCCCHHHHHHHHHHHHHc-CCCEEEEeCCCchhHHHH
Confidence 589999875 444556677777777763 3 4455567767887777888888874 88888754 333333334
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCC--CCCcchhHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV--YGGDSGKLALL 189 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~--~g~~~~~~~~l 189 (550)
...+...++|+|..... .+. .+.+..+.+++...+..+++++... +-+++++|+.+.. ++ ....+.+
T Consensus 73 ~~~l~~~~ip~V~~~~~--~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~--~~r~~gf 143 (267)
T cd01536 73 LKKANAAGIPVVTVDSD--IDG-----GNRLAYVGTDNYEAGRLAGEYLAKLLGGKGKVAIIEGPPGSSNA--QERVKGF 143 (267)
T ss_pred HHHHHHCCCcEEEecCC--CCc-----cceeEEEecCHHHHHHHHHHHHHHHhCCCceEEEEEcccccchH--HHHHHHH
Confidence 45566789999998765 221 1334567788888889999998776 8899999987653 55 6677888
Q ss_pred HHHHhcC-CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC--CeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 190 AEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 190 ~~~l~~~-g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~--~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
++.+++. + .++........ ...+..+.++++.+.. +++|+. ++...+..+++++++.|+.
T Consensus 144 ~~~~~~~~~-~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~i~~--~~d~~a~~~~~~l~~~g~~ 206 (267)
T cd01536 144 RDALKEYPD-IEIVAVQDGNW------DREKALQAMEDLLQANPDIDAIFA--ANDSMALGAVAALKAAGRK 206 (267)
T ss_pred HHHHHhCCC-cEEEEEecCCC------cHHHHHHHHHHHHHhCCCccEEEE--ecCCchHHHHHHHHhcCCC
Confidence 8988887 5 55543221111 2245566777776554 444444 4556777799999999986
No 91
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.72 E-value=6.8e-06 Score=75.70 Aligned_cols=201 Identities=13% Similarity=0.150 Sum_probs=137.6
Q ss_pred CcEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCc-EEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNH-KLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 33 ~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~-~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
+.++||+....+...-.....|++-|+.+. |+ .+++.....++|+..+.+.++++.. ++..+|++..+ ..+.
T Consensus 29 ~~~~VaI~~~veHpaLd~~~~G~~~aLk~~-----G~~n~~i~~~na~~~~~~a~~iarql~~-~~~dviv~i~t-p~Aq 101 (322)
T COG2984 29 DQITVAITQFVEHPALDAAREGVKEALKDA-----GYKNVKIDYQNAQGDLGTAAQIARQLVG-DKPDVIVAIAT-PAAQ 101 (322)
T ss_pred cceeEEEEEeecchhHHHHHHHHHHHHHhc-----CccCeEEEeecCCCChHHHHHHHHHhhc-CCCcEEEecCC-HHHH
Confidence 467788888887655566677777777775 44 7788888999999999999999987 56677776444 3444
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCC----CCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCC-CCCcch
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSR----RWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSG 184 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~----~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~-~g~~~~ 184 (550)
.+.+-. .++|++-.+.+ ++...+. .-|----+.-++..-...-.+++++. +.++++++|..++ .. ..
T Consensus 102 ~~~s~~--~~iPVV~aavt--d~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns--~~ 175 (322)
T COG2984 102 ALVSAT--KTIPVVFAAVT--DPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANS--VS 175 (322)
T ss_pred HHHHhc--CCCCEEEEccC--chhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCccc--HH
Confidence 443332 34999998887 6652211 11222234556666666777777763 8899999998875 55 77
Q ss_pred hHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHH---HHHHHHHHHHHcCC
Q 008863 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD---MTIHLFTEANRMGL 257 (550)
Q Consensus 185 ~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~---~~~~il~~a~~~g~ 257 (550)
..+.++..+++.| +++.... ++. ..|.....+.+. .++|+|++ .++.. ....++..+.+.+.
T Consensus 176 l~eelk~~A~~~G-l~vve~~-v~~-------~ndi~~a~~~l~-g~~d~i~~-p~dn~i~s~~~~l~~~a~~~ki 240 (322)
T COG2984 176 LVEELKKEARKAG-LEVVEAA-VTS-------VNDIPRAVQALL-GKVDVIYI-PTDNLIVSAIESLLQVANKAKI 240 (322)
T ss_pred HHHHHHHHHHHCC-CEEEEEe-cCc-------ccccHHHHHHhc-CCCcEEEE-ecchHHHHHHHHHHHHHHHhCC
Confidence 8899999999999 9886543 332 235555666665 58899998 66553 33456666666654
No 92
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.70 E-value=1.4e-06 Score=84.49 Aligned_cols=312 Identities=10% Similarity=0.103 Sum_probs=183.8
Q ss_pred CcEEEEEEEecCC---ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHH
Q 008863 33 EVTKIGAIVDANS---QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (550)
Q Consensus 33 ~~i~IG~i~~~~~---~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (550)
.+-+|++++|+++ ..+.....||..|.. -+...++-..++.++|+...+..++ ...+.++|+..|+||.-...
T Consensus 256 ~~skiALLLPLtG~~a~~a~~IqdGF~aA~~-~~~~~~~~~~~~~i~dT~~~~l~~i---~aqaqq~G~~~VVGPLlK~n 331 (604)
T COG3107 256 SPSKIALLLPLTGQAAVFARTIQDGFLAAKN-APATQTAQVAELKIYDTSAQPLDAI---LAQAQQDGADFVVGPLLKPN 331 (604)
T ss_pred CchheeEEeccCChhHHHHHHHHHHHHHhcc-CcccCCccccceeeccCCcccHHHH---HHHHHhcCCcEEeccccchh
Confidence 4678999999994 456677788877765 1222223336788889877665544 33444589999999999888
Q ss_pred HHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHH
Q 008863 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (550)
.+.+..-- ...||++....+ +.. . ..+.+....-+.++.++..++.+-..|.+...++...+++| +...+.|
T Consensus 332 Ve~L~~~~-q~~i~vLALN~~--~n~-r--~~~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlvPr~~lG--~Rv~~AF 403 (604)
T COG3107 332 VEALLASN-QQPIPVLALNQP--ENS-R--NPAQLCYFALSPEDEARDAANHLWDQGKRNPLVLVPRNDLG--DRVANAF 403 (604)
T ss_pred HHHHHhCc-CCCCceeeecCC--ccc-c--CcccceeeecChhHHHHHHHHHHHHccccCceEEecchHHH--HHHHHHH
Confidence 87765432 278999988866 222 2 22344444555567889999999999999999999999999 9999999
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHH-----------------------HHhhcCC-CeEEEEEcCCHHHH
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGEL-----------------------KKVQDKQ-SRVFIVLQASLDMT 245 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l-----------------------~~i~~~~-~~~ii~~~~~~~~~ 245 (550)
.....+.| ...+....+... ..+...+ ..+.+.. .|.|++ ...+.++
T Consensus 404 ~~~Wq~~g-g~~v~~~~fg~~-------~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyi-vAtp~el 474 (604)
T COG3107 404 NQEWQKLG-GGTVLQQKFGST-------SELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYI-VATPSEL 474 (604)
T ss_pred HHHHHHhc-CCchhHhhcCcH-------HHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEE-EecchhH
Confidence 99999988 533332222211 1111111 1122223 788888 7778777
Q ss_pred HHHHHHHHHcCCCCCCEEEEEeccchhhcccCChhHHhhcCceEEEEe-ec-CCCChhHHHHHHHHHHHhhccCCCCCCC
Q 008863 246 IHLFTEANRMGLVGKDSVWIVTNTVANALDSLNTTVISSMEGTLGIKS-YY-SDDSSPYKEFSALFRRNFTSEYPEEDHF 323 (550)
Q Consensus 246 ~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~g~~~~~~-~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~ 323 (550)
..|--...-.+.....-.|..+.... ...+++....++|+.+-.. +. ....|..++....|..
T Consensus 475 ~~IKP~ia~~~~~~~~p~yaSSr~~~---gT~~P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p~------------ 539 (604)
T COG3107 475 ALIKPMIAMANGSDSPPLYASSRSSQ---GTNGPDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWPN------------ 539 (604)
T ss_pred hHHhhHHHhhcCCCCcceeeeccccc---cCCCccHHHhccCccccCCchhcCCCchHHHHHHHhcCC------------
Confidence 76655555433322211222222221 2223444566777653221 11 1222444333333221
Q ss_pred CCCchhhHHhHHHHHHHHHHHhhccCCCCHHHHHHHHHh------CcccccceeEEEeCCCCCCCCceEEEEeeCCeeeE
Q 008863 324 HPSIHALRAHDSIKIITEAIGRLNYNISSPEMLLRQMLS------SDFSGLSGKIRFKDGELLNADTLRIVNVVGKKYKE 397 (550)
Q Consensus 324 ~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~l~~~l~~------~~~~G~tG~i~f~~~g~~~~~~~~i~~~~~~~~~~ 397 (550)
-|..+.+++.++ |.+.|..++.+ -.+.|+||.++.|+++... ..+.=.+++++..++
T Consensus 540 --------~~sl~RLyAmGv--------DAwrLan~f~elrqV~G~~i~G~TG~Lsad~~c~I~-R~l~Waqy~~G~vvP 602 (604)
T COG3107 540 --------DYSLARLYAMGV--------DAWRLANHFSELRQVPGYQIDGLTGTLSADPDCVIE-RKLSWAQYQQGQVVP 602 (604)
T ss_pred --------chHHHHHHHhcc--------hHHHHHHHhHHhhcCCCcccccccceeecCCCceEe-ecchHHHhcCCCeee
Confidence 144444554444 33444444333 3578999999999887643 333333344444443
No 93
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=98.66 E-value=1.1e-05 Score=76.80 Aligned_cols=200 Identities=11% Similarity=0.070 Sum_probs=127.3
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEE-EcCCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVI-AGMETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~ai-iG~~~s~~~~~v 113 (550)
|||++.|.. ...-.....+++.+.++. |+.+.+...+...++....+...+++. .++.+| +.|..+....+.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~~~~~~~~~ 74 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKL-----GVSVDIQAAPSEGDQQGQLSIAENMIN-KGYKGLLFSPISDVNLVPA 74 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHh-----CCeEEEEccCCCCCHHHHHHHHHHHHH-hCCCEEEECCCChHHhHHH
Confidence 589999853 323334455666666653 677777666777777767777777876 478774 555544433344
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
...+...++|+|..... .+. ...+ .+.+++...+..+++++... |.++++++....+........+.+.+
T Consensus 75 ~~~~~~~~iPvV~~~~~--~~~---~~~~---~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 146 (275)
T cd06320 75 VERAKKKGIPVVNVNDK--LIP---NATA---FVGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTE 146 (275)
T ss_pred HHHHHHCCCeEEEECCC--CCC---ccce---EEecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 55667889999987654 111 1112 35778888899999998765 88999999864332111445677889
Q ss_pred HHhcC-CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC--CeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 192 ~l~~~-g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~--~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
.+++. | +.+.... .... ...+....++++.+.. ++.|+ +.+...+..+++.+++.|+.
T Consensus 147 ~~~~~~~-~~~~~~~-~~~~-----~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~~~~~al~~~g~~ 207 (275)
T cd06320 147 AIKKASG-IEVVASQ-PADW-----DREKAYDVATTILQRNPDLKAIY--CNNDTMALGVVEAVKNAGKQ 207 (275)
T ss_pred HHhhCCC-cEEEEec-CCCc-----cHHHHHHHHHHHHHhCCCccEEE--ECCchhHHHHHHHHHhcCCC
Confidence 99988 8 7664322 1111 2234455666665443 44443 45666777889999999985
No 94
>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=98.64 E-value=6.2e-06 Score=78.31 Aligned_cols=202 Identities=14% Similarity=0.085 Sum_probs=132.9
Q ss_pred EEEEEEecCC-ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCCh-HHHHHH
Q 008863 36 KIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s-~~~~~v 113 (550)
|||+++|... .+-.....+++.+.++.-. .|+.+++.+.|+..++....+...+++. .++.+||..... ......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~--~g~~~~l~i~~~~~~~~~~~~~~~~~~~-~~vdgiIi~~~~~~~~~~~ 77 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKK--AGLISEFIVTSADGDVAQQIADIRNLIA-QGVDAIIINPASPTALNPV 77 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhc--cCCeeEEEEecCCCCHHHHHHHHHHHHH-cCCCEEEEeCCChhhhHHH
Confidence 6899997652 2223445556555554311 2677888889998898888888888887 599988874433 323334
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcC--CCCCcchhHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDN--VYGGDSGKLALL 189 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~--~~g~~~~~~~~l 189 (550)
...+...++|+|..... .+ . +.+.++.+++...+..+++++... +-++++++.... ..+ ....+.+
T Consensus 78 l~~~~~~~iPvv~~~~~--~~---~---~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~--~~R~~g~ 147 (272)
T cd06300 78 IEEACEAGIPVVSFDGT--VT---T---PCAYNVNEDQAEFGKQGAEWLVKELGGKGNVLVVRGLAGHPVD--EDRYAGA 147 (272)
T ss_pred HHHHHHCCCeEEEEecC--CC---C---CceeEecCCHHHHHHHHHHHHHHHcCCCceEEEEECCCCCcch--HHHHHHH
Confidence 45667789999998754 11 1 346678899999999999998765 888999997532 233 5566778
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC--CeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~--~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
++.+.+.+.+.+... ..... +.++..+.+.++.+.. +++|+. .+.. +..+++.+++.|+..
T Consensus 148 ~~a~~~~~~~~~~~~--~~~~~----~~~~~~~~~~~~l~~~~~~~~i~~--~~d~-A~g~~~al~~~g~~~ 210 (272)
T cd06300 148 KEVLKEYPGIKIVGE--VYGDW----DQAVAQKAVADFLASNPDVDGIWT--QGGD-AVGAVQAFEQAGRDI 210 (272)
T ss_pred HHHHHHCCCcEEEee--cCCCC----CHHHHHHHHHHHHHhCCCcCEEEe--cCCC-cHHHHHHHHHcCCCC
Confidence 888877641443321 11111 2345566777776554 455554 3444 889999999999843
No 95
>cd06325 PBP1_ABC_uncharacterized_transporter Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); its ligand specificity has not been determined experimentally.
Probab=98.60 E-value=6.2e-06 Score=78.74 Aligned_cols=201 Identities=13% Similarity=0.163 Sum_probs=132.7
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (550)
|||++.+.+...-.....+++-.+++.+-. .|.++++.+.|+..++......+.++++ .++.+||+..++. ....
T Consensus 1 ~igv~~~~~~~~~~~~~~gi~~~~~~~g~~-~g~~v~l~~~~~~~~~~~~~~~~~~l~~-~~vd~iI~~~~~~-~~~~-- 75 (281)
T cd06325 1 KVGILQLVEHPALDAARKGFKDGLKEAGYK-EGKNVKIDYQNAQGDQSNLPTIARKFVA-DKPDLIVAIATPA-AQAA-- 75 (281)
T ss_pred CeEEecCCCCcchHHHHHHHHHHHHHhCcc-CCceEEEEEecCCCCHHHHHHHHHHHHh-cCCCEEEEcCcHH-HHHH--
Confidence 589999866444445556665555554332 3678999999999999888888888887 5899999864432 2222
Q ss_pred hhccCCccEEeccCCCCCCcc----cCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCC-CCCcchhHHH
Q 008863 116 IASRVQVPILSFAAPAVTPLS----MSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSGKLAL 188 (550)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~----~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~-~g~~~~~~~~ 188 (550)
.+...++|+|..+.. .+.. +....+....+..++......+++++... +.+++++++++.. ++ ....+.
T Consensus 76 ~~~~~~iPvV~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~--~~r~~g 151 (281)
T cd06325 76 ANATKDIPIVFTAVT--DPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANS--VVQVKE 151 (281)
T ss_pred HHcCCCCCEEEEecC--CccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccH--HHHHHH
Confidence 255679999988754 2321 11111111223344556677888888765 9999999986543 55 667788
Q ss_pred HHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
+++.+++.| +++.... . . ...++...++++.+ .+++|+. .. ...+..+++++.+.|+
T Consensus 152 ~~~~~~~~g-~~~~~~~-~-~------~~~~~~~~~~~~~~-~~dai~~-~~-d~~a~~~~~~~~~~~~ 208 (281)
T cd06325 152 LKKAAAKLG-IEVVEAT-V-S------SSNDVQQAAQSLAG-KVDAIYV-PT-DNTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHHHhCC-CEEEEEe-c-C------CHHHHHHHHHHhcc-cCCEEEE-cC-chhHHhHHHHHHHHHH
Confidence 999999998 8765432 1 1 23566777777765 3577776 44 4466678888888775
No 96
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=98.45 E-value=2.5e-07 Score=88.77 Aligned_cols=82 Identities=15% Similarity=0.182 Sum_probs=63.2
Q ss_pred CCeEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHH----hCCC-CCCeEEEecCCChHHHHHhhhcc
Q 008863 453 EPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVD----HLNY-DLPYEFVPHDGVYDDLINGVYDK 527 (550)
Q Consensus 453 ~~~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~----~l~f-~~~~~~~~~~g~w~Gmi~el~~~ 527 (550)
.+|+|++. ..++||.+...+. ...||+|||+++|++ .||. .+++++++. .|..++-.|..|
T Consensus 40 g~L~Vg~~--~~~pP~~f~~~~g----------~~~G~didl~~~ia~~l~~~lg~~~~~~~~v~~--~~~~~i~~L~~G 105 (302)
T PRK10797 40 GVIVVGHR--ESSVPFSYYDNQQ----------KVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPI--TSQNRIPLLQNG 105 (302)
T ss_pred CeEEEEEc--CCCCCcceECCCC----------CEeeecHHHHHHHHHHHHHhhCCCCceEEEEEc--ChHhHHHHHHCC
Confidence 45677654 3578898763221 588999998888776 5553 344788886 488999999999
Q ss_pred cccEEeeceeeeeeeeeEEEe
Q 008863 528 VNYFNYHDKLLFKKKKRLCLV 548 (550)
Q Consensus 528 ~ad~a~~~~ti~~~r~~~~~~ 548 (550)
++||+++.+++|.+|++.+..
T Consensus 106 ~~Di~~~~~~~t~eR~~~~~f 126 (302)
T PRK10797 106 TFDFECGSTTNNLERQKQAAF 126 (302)
T ss_pred CccEEecCCccCcchhhccee
Confidence 999999999999999988753
No 97
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=98.41 E-value=4.2e-07 Score=85.54 Aligned_cols=78 Identities=21% Similarity=0.280 Sum_probs=64.4
Q ss_pred CCeEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEE
Q 008863 453 EPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFN 532 (550)
Q Consensus 453 ~~~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a 532 (550)
+.+++++ ...++||.+..++. .+.||++|+++++++.+|.+ +++++. .|+.++..|.+|++|++
T Consensus 26 ~~l~v~~--~~~~~P~~~~~~~g----------~~~G~~vdi~~~ia~~lg~~--i~~~~~--pw~~~~~~l~~g~~D~~ 89 (259)
T PRK15437 26 QNIRIGT--DPTYAPFESKNSQG----------ELVGFDIDLAKELCKRINTQ--CTFVEN--PLDALIPSLKAKKIDAI 89 (259)
T ss_pred CeEEEEe--CCCCCCcceeCCCC----------CEEeeeHHHHHHHHHHcCCc--eEEEeC--CHHHHHHHHHCCCCCEE
Confidence 4556664 23468998764432 68999999999999999988 777765 49999999999999999
Q ss_pred eeceeeeeeeeeEE
Q 008863 533 YHDKLLFKKKKRLC 546 (550)
Q Consensus 533 ~~~~ti~~~r~~~~ 546 (550)
+++++.|.+|++.+
T Consensus 90 ~~~~~~t~eR~~~~ 103 (259)
T PRK15437 90 MSSLSITEKRQQEI 103 (259)
T ss_pred EecCCCCHHHhhhc
Confidence 99999999998854
No 98
>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=98.40 E-value=3.7e-05 Score=72.65 Aligned_cols=196 Identities=12% Similarity=0.141 Sum_probs=122.7
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
.||+++|.. ...-.....+++.+.++. |+.+.+ .++..++....+...+++. .++.+||............
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~~-----g~~~~~--~~~~~~~~~~~~~~~~l~~-~~vdgiii~~~~~~~~~~~ 72 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARAA-----GYSLLL--ATTDYDAEREADAVETLLR-QRVDGLILTVADAATSPAL 72 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHHC-----CCEEEE--eeCCCCHHHHHHHHHHHHh-cCCCEEEEecCCCCchHHH
Confidence 378899754 222334445555555442 455554 5566677766677777776 5888888532222222345
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcC---CCCCcchhHHHHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN---VYGGDSGKLALLAE 191 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~---~~g~~~~~~~~l~~ 191 (550)
..+...++|+|..... .+ ...++ +..+....+..+++++...|.++++++..+. +++ ....+.+.+
T Consensus 73 ~~~~~~~ipvV~~~~~--~~----~~~~~---v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~--~~r~~gf~~ 141 (266)
T cd06282 73 DLLDAERVPYVLAYND--PQ----PGRPS---VSVDNRAAARDVAQALAALGHRRIAMLAGRLAASDRA--RQRYAGYRA 141 (266)
T ss_pred HHHhhCCCCEEEEecc--CC----CCCCE---EeeCcHHHHHHHHHHHHHcCcccEEEeccccccCchH--HHHHHHHHH
Confidence 6677889999987654 21 22343 3467788899999999888999999997532 244 556788889
Q ss_pred HHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhh-cC-CCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQ-DK-QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~-~~-~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
.+++.| +.+........ ...+....+.++. +. .++.|+. ++...+..+++++++.|+..
T Consensus 142 ~l~~~~-~~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~~ 202 (266)
T cd06282 142 AMRAAG-LAPLPPVEIPF------NTAALPSALLALLTAHPAPTAIFC--SNDLLALAVIRALRRLGLRV 202 (266)
T ss_pred HHHHcC-CCCCccccCCC------cHHHHHHHHHHHhcCCCCCCEEEE--CCcHHHHHHHHHHHHcCCCC
Confidence 998888 65432221111 1223334455443 33 4566665 56666778999999999853
No 99
>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=98.38 E-value=3.1e-07 Score=84.41 Aligned_cols=77 Identities=19% Similarity=0.336 Sum_probs=63.9
Q ss_pred eEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEee
Q 008863 455 MRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNYH 534 (550)
Q Consensus 455 ~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~~ 534 (550)
|||+.. ..++||.+..++. ...|+++||++++++.+|++ +++++. .|+.++..|.+|++|++++
T Consensus 1 l~V~~~--~~~~P~~~~~~~~----------~~~G~~~dl~~~i~~~~g~~--~~~~~~--~~~~~~~~l~~g~~D~~~~ 64 (225)
T PF00497_consen 1 LRVGVD--EDYPPFSYIDEDG----------EPSGIDVDLLRAIAKRLGIK--IEFVPM--PWSRLLEMLENGKADIIIG 64 (225)
T ss_dssp EEEEEE--SEBTTTBEEETTS----------EEESHHHHHHHHHHHHHTCE--EEEEEE--EGGGHHHHHHTTSSSEEES
T ss_pred CEEEEc--CCCCCeEEECCCC----------CEEEEhHHHHHHHHhhcccc--cceeec--ccccccccccccccccccc
Confidence 355551 2568999987643 68999999999999999999 777774 7999999999999999999
Q ss_pred ceeeeeeeeeEEE
Q 008863 535 DKLLFKKKKRLCL 547 (550)
Q Consensus 535 ~~ti~~~r~~~~~ 547 (550)
++++|.+|++.+.
T Consensus 65 ~~~~~~~r~~~~~ 77 (225)
T PF00497_consen 65 GLSITPERAKKFD 77 (225)
T ss_dssp SEB-BHHHHTTEE
T ss_pred ccccccccccccc
Confidence 9999999987543
No 100
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=98.35 E-value=0.00014 Score=68.72 Aligned_cols=196 Identities=11% Similarity=0.087 Sum_probs=122.1
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEE-EEcCCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKV-IAGMETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~a-iiG~~~s~~~~~v 113 (550)
.||+++|.. .........++..+.++. |+.+ .+.++..++....+...+++. .++.+ |+++..+......
T Consensus 1 ~I~vv~~~~~~~~~~~~~~~i~~~~~~~-----g~~v--~~~~~~~~~~~~~~~~~~~~~-~~~dgii~~~~~~~~~~~~ 72 (268)
T cd06323 1 TIGLSVSTLNNPFFVTLKDGAQKEAKEL-----GYEL--TVLDAQNDAAKQLNDIEDLIT-RGVDAIIINPTDSDAVVPA 72 (268)
T ss_pred CeeEecccccCHHHHHHHHHHHHHHHHc-----CceE--EecCCCCCHHHHHHHHHHHHH-cCCCEEEEcCCChHHHHHH
Confidence 378888753 334455666776666663 4555 456667788777777778776 57887 5555544433334
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCC--CCCcchhHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV--YGGDSGKLALL 189 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~--~g~~~~~~~~l 189 (550)
...+...++|+|..... .+. .+.+-.+..+....+..++++|... +-+++++++.+.. +. ....+.+
T Consensus 73 l~~l~~~~ipvv~~~~~--~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~--~~r~~g~ 143 (268)
T cd06323 73 VKAANEAGIPVFTIDRE--ANG-----GEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAA--RERGKGF 143 (268)
T ss_pred HHHHHHCCCcEEEEccC--CCC-----CceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccH--HHHHHHH
Confidence 44456789999998764 221 1223346677777788889988776 7899999986432 34 5667888
Q ss_pred HHHHhcC-CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 190 AEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 190 ~~~l~~~-g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
++.+++. + +.+........ +..+....+.++.+. .++.|+ +.+...+..+++++++.|+
T Consensus 144 ~~~l~~~~~-~~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~~~~~~l~~~g~ 205 (268)
T cd06323 144 HEVVDKYPG-LKVVASQPADF------DRAKGLNVMENILQAHPDIKGVF--AQNDEMALGAIEALKAAGK 205 (268)
T ss_pred HHHHHhCCC-cEEEecccCCC------CHHHHHHHHHHHHHHCCCcCEEE--EcCCchHHHHHHHHHHcCC
Confidence 8888884 7 66542211111 222333445555433 345544 4555666678999999998
No 101
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=98.32 E-value=9.4e-07 Score=82.39 Aligned_cols=80 Identities=15% Similarity=0.262 Sum_probs=65.3
Q ss_pred CCCeEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccE
Q 008863 452 QEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYF 531 (550)
Q Consensus 452 ~~~~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~ 531 (550)
..++|+.+. ..++||.+...+. .++||++|++++|++.+|++ ++++.. .|+.++..|..|++|+
T Consensus 20 ~~~l~v~~~--~~~~P~~~~~~~g----------~~~G~~~dl~~~i~~~lg~~--~~~~~~--~~~~~~~~l~~g~~D~ 83 (243)
T PRK15007 20 AETIRFATE--ASYPPFESIDANN----------QIVGFDVDLAQALCKEIDAT--CTFSNQ--AFDSLIPSLKFRRVEA 83 (243)
T ss_pred CCcEEEEeC--CCCCCceeeCCCC----------CEEeeeHHHHHHHHHHhCCc--EEEEeC--CHHHHhHHHhCCCcCE
Confidence 356777763 3568998764322 78999999999999999999 666654 5999999999999999
Q ss_pred EeeceeeeeeeeeEEE
Q 008863 532 NYHDKLLFKKKKRLCL 547 (550)
Q Consensus 532 a~~~~ti~~~r~~~~~ 547 (550)
+++.++.|.+|++-+.
T Consensus 84 ~~~~~~~~~~r~~~~~ 99 (243)
T PRK15007 84 VMAGMDITPEREKQVL 99 (243)
T ss_pred EEEcCccCHHHhcccc
Confidence 9999999999987653
No 102
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=98.32 E-value=9e-07 Score=83.38 Aligned_cols=80 Identities=20% Similarity=0.261 Sum_probs=65.7
Q ss_pred CCCeEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccE
Q 008863 452 QEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYF 531 (550)
Q Consensus 452 ~~~~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~ 531 (550)
.++++|... ..++||.+..++. .+.||.+||++++++.+|.+ +++++. .|+.++..|..|++|+
T Consensus 25 ~~~l~v~~~--~~~pPf~~~~~~g----------~~~G~~vdl~~~ia~~lg~~--~~~~~~--~~~~~~~~l~~g~~Di 88 (260)
T PRK15010 25 PETVRIGTD--TTYAPFSSKDAKG----------DFVGFDIDLGNEMCKRMQVK--CTWVAS--DFDALIPSLKAKKIDA 88 (260)
T ss_pred CCeEEEEec--CCcCCceeECCCC----------CEEeeeHHHHHHHHHHhCCc--eEEEeC--CHHHHHHHHHCCCCCE
Confidence 355677653 3478998864332 68899999999999999999 777664 5999999999999999
Q ss_pred EeeceeeeeeeeeEEE
Q 008863 532 NYHDKLLFKKKKRLCL 547 (550)
Q Consensus 532 a~~~~ti~~~r~~~~~ 547 (550)
+++++++|.+|++.+.
T Consensus 89 ~~~~~~~t~eR~~~~~ 104 (260)
T PRK15010 89 IISSLSITDKRQQEIA 104 (260)
T ss_pred EEecCcCCHHHHhhcc
Confidence 9999999999997654
No 103
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=98.31 E-value=1.5e-06 Score=81.66 Aligned_cols=83 Identities=12% Similarity=0.127 Sum_probs=65.5
Q ss_pred CCCeEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhC-CCCCCeEEEecCCChHHHHHhhhccccc
Q 008863 452 QEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKVNY 530 (550)
Q Consensus 452 ~~~~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l-~f~~~~~~~~~~g~w~Gmi~el~~~~ad 530 (550)
...++|++. ..++||.+.+.+ +..++||++||++++++.| |-..++++++. .|+..+..|.+|++|
T Consensus 37 ~g~l~vg~~--~~~pP~~~~~~~---------~g~~~G~~vdl~~~ia~~llg~~~~~~~~~~--~~~~~~~~l~~g~~D 103 (259)
T PRK11917 37 KGQLIVGVK--NDVPHYALLDQA---------TGEIKGFEIDVAKLLAKSILGDDKKIKLVAV--NAKTRGPLLDNGSVD 103 (259)
T ss_pred CCEEEEEEC--CCCCCceeeeCC---------CCceeEeeHHHHHHHHHHhcCCCccEEEEEc--ChhhHHHHHHCCCcc
Confidence 456777765 467899875321 1268999999999999995 76655666665 477788889999999
Q ss_pred EEeeceeeeeeeeeEEE
Q 008863 531 FNYHDKLLFKKKKRLCL 547 (550)
Q Consensus 531 ~a~~~~ti~~~r~~~~~ 547 (550)
++++.+++|.||++.+.
T Consensus 104 ~~~~~~~~t~eR~~~~~ 120 (259)
T PRK11917 104 AVIATFTITPERKRIYN 120 (259)
T ss_pred EEEecccCChhhhheee
Confidence 99999999999998765
No 104
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.29 E-value=0.00017 Score=68.52 Aligned_cols=198 Identities=10% Similarity=0.035 Sum_probs=120.6
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEE-EcCCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVI-AGMETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~ai-iG~~~s~~~~~v 113 (550)
+||+++|.. ..+-.....+++.+.++. |+.+ .+.++..++....+...+++. .++.+| +++..+......
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~~~~-~~~dgiii~~~~~~~~~~~ 72 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKAL-----GYDA--VELSAENSAKKELENLRTAID-KGVSGIIISPTNSSAAVTL 72 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhc-----CCeE--EEecCCCCHHHHHHHHHHHHh-cCCCEEEEcCCchhhhHHH
Confidence 488888754 222223344444444442 4444 456777788777777777776 578777 466555444455
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc------CCeEEEEEEEcC--CCCCcchh
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY------NWRRVAAIYEDN--VYGGDSGK 185 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~------~w~~v~ii~~~~--~~g~~~~~ 185 (550)
...+...++|+|..... ... ..++..+.++....+..+++++... |-++++++.... ..+ ...
T Consensus 73 l~~~~~~~ipvV~~~~~--~~~-----~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~--~~r 143 (277)
T cd06319 73 LKLAAQAKIPVVIADIG--AEG-----GDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNG--QKR 143 (277)
T ss_pred HHHHHHCCCCEEEEecC--CCC-----CceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccH--HHH
Confidence 56677889999987643 111 1234456677777777777776443 668999998543 234 566
Q ss_pred HHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCC--eEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS--RVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 186 ~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~--~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
.+.+++.+++.| ..+.... ..... +..+....++++.+..+ ++|+ +.+...+..+++++++.|+.
T Consensus 144 ~~gf~~~l~~~~-~~~~~~~-~~~~~----~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~g~~~al~~~g~~ 210 (277)
T cd06319 144 TKGFKEAMKEAG-CDLAGIR-QQKDF----SYQETFDYTNDLLTANPDIRAIW--LQGSDRYQGALDAIATAGKT 210 (277)
T ss_pred HHHHHHHHHhcC-CceEeec-cCCCC----CHHHHHHHHHHHHHhCCCCCEEE--ECCCccchHHHHHHHHcCCC
Confidence 788899999988 7644221 11111 22333455556654444 4444 44555567899999999986
No 105
>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=98.28 E-value=0.00029 Score=66.15 Aligned_cols=204 Identities=17% Similarity=0.181 Sum_probs=137.8
Q ss_pred EEEEEecCC-ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-cCCChHHHHHHH
Q 008863 37 IGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVVA 114 (550)
Q Consensus 37 IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~~~v~ 114 (550)
||++.+... .+......+++.+.++. |..+.+. .+...|+..-.+.+.++++ .++.+|| .|..+.......
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~-----g~~~~~~-~~~~~d~~~q~~~i~~~i~-~~~d~Iiv~~~~~~~~~~~l 73 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKEL-----GYEVEIV-FDAQNDPEEQIEQIEQAIS-QGVDGIIVSPVDPDSLAPFL 73 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHH-----TCEEEEE-EESTTTHHHHHHHHHHHHH-TTESEEEEESSSTTTTHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHc-----CCEEEEe-CCCCCCHHHHHHHHHHHHH-hcCCEEEecCCCHHHHHHHH
Confidence 788888773 34556778899998887 4566665 7889999888899999997 5888777 566666666667
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc-CC-eEEEEEEEcCCCCCcchhHHHHHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-NW-RRVAAIYEDNVYGGDSGKLALLAEA 192 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~-~w-~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (550)
..+...+||+|..... +.. ..+....+.++....+..+++++... +- .+++++....++.......+.+.+.
T Consensus 74 ~~~~~~gIpvv~~d~~---~~~---~~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~ 147 (257)
T PF13407_consen 74 EKAKAAGIPVVTVDSD---EAP---DSPRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDA 147 (257)
T ss_dssp HHHHHTTSEEEEESST---HHT---TSTSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHH
T ss_pred HHHhhcCceEEEEecc---ccc---cccceeeeeccHHHHHHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHH
Confidence 7788889999996642 011 22344567788899999999998553 32 6888776554432113456777788
Q ss_pred Hhc-CCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 193 LQN-VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 193 l~~-~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
+++ .+ +++......... ..+.....+.++.+.++-..|+ +++...+..+++.+++.|+.+.
T Consensus 148 l~~~~~-~~~~~~~~~~~~-----~~~~a~~~~~~~l~~~~~~~i~-~~~~~~~~g~~~al~~~g~~~~ 209 (257)
T PF13407_consen 148 LKEYPG-VEIVDEYEYTDW-----DPEDARQAIENLLQANPVDAII-ACNDGMALGAAQALQQAGRAGK 209 (257)
T ss_dssp HHHCTT-EEEEEEEEECTT-----SHHHHHHHHHHHHHHTTEEEEE-ESSHHHHHHHHHHHHHTTCTTT
T ss_pred Hhhcce-eeeeeeeeccCC-----CHHHHHHHHHHhhhcCCceEEE-eCCChHHHHHHHHHHHcCCccc
Confidence 887 45 776653222121 3345555555555444322334 6888888889999999999665
No 106
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.27 E-value=0.00097 Score=64.09 Aligned_cols=200 Identities=10% Similarity=0.109 Sum_probs=120.6
Q ss_pred cEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeE-EEEcCCChHHHH
Q 008863 34 VTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVK-VIAGMETWEETA 111 (550)
Q Consensus 34 ~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~-aiiG~~~s~~~~ 111 (550)
.-+||+++|.. ..+-.....+++.++++. |+.+ .+.++..++....+....++. .++. +|+++..+....
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~-----G~~~--~~~~~~~d~~~~~~~~~~l~~-~~~dgiii~~~~~~~~~ 97 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKL-----GYNL--VVLDSQNNPAKELANVQDLTV-RGTKILLINPTDSDAVG 97 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHc-----CCeE--EEecCCCCHHHHHHHHHHHHH-cCCCEEEEcCCChHHHH
Confidence 45899999753 333345556666666663 4454 446666777777777777766 4666 445665544433
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHH-cCCe-EEEEEEEcCCCCCcchhHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWR-RVAAIYEDNVYGGDSGKLALL 189 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~-~~w~-~v~ii~~~~~~g~~~~~~~~l 189 (550)
.....+...++|+|..... ... .+.+..+.++....+..+++++.. .+.+ +++++..+..........+.+
T Consensus 98 ~~l~~~~~~~ipvV~~~~~--~~~-----~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~gf 170 (295)
T PRK10653 98 NAVKMANQANIPVITLDRG--ATK-----GEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERGEGF 170 (295)
T ss_pred HHHHHHHHCCCCEEEEccC--CCC-----CceeeEEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHHHHH
Confidence 4455667789999998754 111 123445677777777888888865 3543 566665432211114567889
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC--CeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~--~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
++.+++.| +.+.... .... +..+....+.++.+.. +++|+ +.+...+..+++++++.|+
T Consensus 171 ~~al~~~g-~~~~~~~--~~~~----~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~A~g~l~al~~~G~ 231 (295)
T PRK10653 171 KQAVAAHK-FNVLASQ--PADF----DRTKGLNVMQNLLTAHPDVQAVF--AQNDEMALGALRALQTAGK 231 (295)
T ss_pred HHHHhhCC-CEEEEec--CCCC----CHHHHHHHHHHHHHhCCCcCEEE--ECCChhHHHHHHHHHHcCC
Confidence 99999998 7664221 1111 2233444555665443 44443 4556666678999999998
No 107
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=98.26 E-value=0.00012 Score=69.44 Aligned_cols=202 Identities=16% Similarity=0.145 Sum_probs=123.5
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
.||+++|.. ..+......|++.++++. |+.+.+...+... ......+.+++...++.+||............
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~~~~~~~~--~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~ 73 (270)
T cd01545 1 LIGLLYDNPSPGYVSEIQLGALDACRDT-----GYQLVIEPCDSGS--PDLAERVRALLQRSRVDGVILTPPLSDNPELL 73 (270)
T ss_pred CEEEEEcCCCcccHHHHHHHHHHHHHhC-----CCeEEEEeCCCCc--hHHHHHHHHHHHHCCCCEEEEeCCCCCccHHH
Confidence 389999865 445566777887777653 6677665544322 22445566655446888888743322223444
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHh
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (550)
..+...++|+|..... .+. ...++ +..+....+..+++++...|.++++++..+..+.......+.+.+.++
T Consensus 74 ~~~~~~~ipvv~i~~~--~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~ 145 (270)
T cd01545 74 DLLDEAGVPYVRIAPG--TPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDALA 145 (270)
T ss_pred HHHHhcCCCEEEEecC--CCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHHH
Confidence 5667789999988754 222 12233 456777888889999988899999999865543211344577888888
Q ss_pred cCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
+.+ +.+.......... ...+-...+.++.+. .++.|+. ++...+..+++++++.|...
T Consensus 146 ~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~i~~--~~d~~a~~~~~~~~~~g~~~ 205 (270)
T cd01545 146 EAG-LPLDPELVAQGDF----TFESGLEAAEALLALPDRPTAIFA--SNDDMAAGVLAVAHRRGLRV 205 (270)
T ss_pred HcC-CCCChhhEEeCCC----ChhhHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCC
Confidence 877 6542111111110 112222344554432 4566665 55677789999999999853
No 108
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=98.24 E-value=0.00014 Score=68.79 Aligned_cols=197 Identities=19% Similarity=0.233 Sum_probs=123.9
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE--cCCChHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA--GMETWEETAV 112 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii--G~~~s~~~~~ 112 (550)
+||+++|.. ...-.....++..++++. |+.+. +.++..++....+....+++ .++.+++ ++..+ ..
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~~-----g~~~~--~~~~~~~~~~~~~~~~~l~~-~~vdgiii~~~~~~---~~ 69 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAAH-----GYTLL--VASSGYDLDREYAQARKLLE-RGVDGLALIGLDHS---PA 69 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHHC-----CCEEE--EecCCCCHHHHHHHHHHHHh-cCCCEEEEeCCCCC---HH
Confidence 489999854 223344555665555553 45554 46777888877777778876 4676655 33222 23
Q ss_pred HHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcC---CCCCcchhHHHH
Q 008863 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN---VYGGDSGKLALL 189 (550)
Q Consensus 113 v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~---~~g~~~~~~~~l 189 (550)
....+...++|+|..... .+. ...++ +..++...+..+++++...|.+++++|.... .++ ....+.|
T Consensus 70 ~~~~l~~~~iPvv~~~~~--~~~---~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~--~~r~~gf 139 (268)
T cd06273 70 LLDLLARRGVPYVATWNY--SPD---SPYPC---VGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRA--RARRAGV 139 (268)
T ss_pred HHHHHHhCCCCEEEEcCC--CCC---CCCCE---EEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccH--HHHHHHH
Confidence 334567789999997644 221 12233 5578888899999999878999999998543 233 5567888
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
.+.+++.+ +.+.....+.... ..++....+.++.+. .+++|+. ++...+..+++++++.|+..+
T Consensus 140 ~~~l~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~~~~a~~~~~~l~~~g~~~p 205 (268)
T cd06273 140 RAALAEAG-LELPELWQVEAPY----SIADGRAALRQLLEQPPRPTAVIC--GNDVLALGALYEARRLGLSVP 205 (268)
T ss_pred HHHHHHcC-CCCCHHHeeeCCC----cHHHHHHHHHHHHcCCCCCCEEEE--cChHHHHHHHHHHHHcCCCCC
Confidence 89998887 5543222121111 223334455565543 4666665 566677788999999998543
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=98.23 E-value=0.00073 Score=64.09 Aligned_cols=208 Identities=12% Similarity=0.017 Sum_probs=121.8
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcC-CChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGM-ETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~-~~s~~~~~v 113 (550)
|||++.|.. ..+-.....+++.+.++ .|+.+.+...++..++....+....++. .++.+||-. .........
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~-----~g~~~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgvii~~~~~~~~~~~ 74 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKE-----LGVKVTFQGPASETDVAGQVNLLENAIA-RGPDAILLAPTDAKALVPP 74 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHH-----cCCEEEEecCccCCCHHHHHHHHHHHHH-hCCCEEEEcCCChhhhHHH
Confidence 689999763 22222333444444443 2667666544445677777777777776 578877753 322222333
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
...+...++|+|..... .+ ... + +-.+..+....+..+++++... |.++++++....++.......+.+++
T Consensus 75 l~~~~~~~ipvV~~~~~--~~--~~~--~-~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 147 (273)
T cd06310 75 LKEAKDAGIPVVLIDSG--LN--SDI--A-VSFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLE 147 (273)
T ss_pred HHHHHHCCCCEEEecCC--CC--CCc--c-eEEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 34455689999997653 11 111 1 2235667777788888888666 89999999754433211445677888
Q ss_pred HHhcC-CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC--CeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEE
Q 008863 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (550)
Q Consensus 192 ~l~~~-g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~--~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (550)
.+... + +.+... ..... +..+....+.++.+.. ++.|+ +.+...+..+++.+++.|+. ++...+.
T Consensus 148 a~~~~~~-~~~~~~--~~~~~----~~~~~~~~~~~~l~~~~~~~~i~--~~~d~~a~g~~~~l~~~g~~-~di~vig 215 (273)
T cd06310 148 GLKEYPG-IEIVAT--QYSDS----DYAKALDITEDLLTANPDLKGIF--GANEGSAVGAARAVRQAGKA-GKVKVVG 215 (273)
T ss_pred HHHhCCC-cEEEec--ccCCc----CHHHHHHHHHHHHHhCCCceEEE--ecCchhHHHHHHHHHhcCCC-CCeEEEE
Confidence 88887 7 665431 11111 2223334555554433 44443 46677788899999999985 4444443
No 110
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=98.22 E-value=1.6e-06 Score=80.94 Aligned_cols=79 Identities=19% Similarity=0.351 Sum_probs=64.3
Q ss_pred CCCeEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccE
Q 008863 452 QEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYF 531 (550)
Q Consensus 452 ~~~~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~ 531 (550)
..+++|+.. ..++||... ++. .+.||.+||++++++.+|.+ +++++. .|.+++..|..|++|+
T Consensus 24 ~~~l~v~~~--~~~~P~~~~-~~g----------~~~G~~vdl~~~ia~~lg~~--~~~~~~--~~~~~~~~l~~G~vDi 86 (247)
T PRK09495 24 DKKLVVATD--TAFVPFEFK-QGD----------KYVGFDIDLWAAIAKELKLD--YTLKPM--DFSGIIPALQTKNVDL 86 (247)
T ss_pred CCeEEEEeC--CCCCCeeec-CCC----------ceEEEeHHHHHHHHHHhCCc--eEEEeC--CHHHHHHHHhCCCcCE
Confidence 356677753 357889764 221 58899999999999999988 777765 5999999999999999
Q ss_pred EeeceeeeeeeeeEEE
Q 008863 532 NYHDKLLFKKKKRLCL 547 (550)
Q Consensus 532 a~~~~ti~~~r~~~~~ 547 (550)
+++.++.|.+|++.+.
T Consensus 87 ~~~~~~~t~~R~~~~~ 102 (247)
T PRK09495 87 ALAGITITDERKKAID 102 (247)
T ss_pred EEecCccCHHHHhhcc
Confidence 9999999999998754
No 111
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=98.21 E-value=0.0003 Score=66.75 Aligned_cols=203 Identities=15% Similarity=0.122 Sum_probs=120.3
Q ss_pred EEEEEEecC--CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHH
Q 008863 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAV 112 (550)
Q Consensus 36 ~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~ 112 (550)
.||+++|.. .........+++.+.++. |+.+ .+.++..++....+....++. .++.+|+- +..+.....
T Consensus 1 ~i~vi~p~~~~~~~~~~~~~g~~~~~~~~-----g~~~--~~~~~~~~~~~~~~~~~~l~~-~~vdgiii~~~~~~~~~~ 72 (275)
T cd06317 1 TIGYTQNNVGSHSYQTTYNKAFQAAAEED-----GVEV--IVLDANGDVARQAAQVEDLIA-QKVDGIILWPTDGQAYIP 72 (275)
T ss_pred CeEEEecccCCCHHHHHHHHHHHHHHHhc-----CCEE--EEEcCCcCHHHHHHHHHHHHH-cCCCEEEEecCCccccHH
Confidence 378888863 444556667777777662 4444 456777788777777777776 57887754 443333334
Q ss_pred HHHhhccCCccEEeccCCCCCCcccCCCCCeEEE-EecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCCCCCcchhHHHH
Q 008863 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIR-MASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALL 189 (550)
Q Consensus 113 v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~-~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l 189 (550)
....+...++|+|..... .+ ....++++. +.+++...+...++++... +-++++++....++.......+.+
T Consensus 73 ~l~~~~~~~iPvV~~~~~--~~---~~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~ 147 (275)
T cd06317 73 GLRKAKQAGIPVVITNSN--IS---EKGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQKGF 147 (275)
T ss_pred HHHHHHHCCCcEEEeCCC--CC---CCccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHHHH
Confidence 445567889999987654 21 112233322 3455556777777777554 778999997644332114455778
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC---CCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
++.+++.| ..+.......... ...+....++++.+. .++.|+. ++...+..+++++++.|+.
T Consensus 148 ~~~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~ 212 (275)
T cd06317 148 EDELAEVC-PGVEVLDTQPADW----DREKAQVAMEALITKFGDDIDGVYA--GDDNMARGALNAAKEAGLA 212 (275)
T ss_pred HHHHHhhC-CCCEEEeccCCCC----CHHHHHHHHHHHHHhCCCCccEEEE--CCCcHHHHHHHHHHhcCCc
Confidence 88888875 3332221111110 112333344444332 3566665 4555678899999999987
No 112
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=98.20 E-value=2.3e-06 Score=80.10 Aligned_cols=78 Identities=19% Similarity=0.298 Sum_probs=64.2
Q ss_pred CCeEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEE
Q 008863 453 EPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFN 532 (550)
Q Consensus 453 ~~~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a 532 (550)
+.++++. ...++||.+..++. +++||++|+++++++.+|.+ +++++. .|+.++..|.+|++|++
T Consensus 24 ~~l~v~~--~~~~~P~~~~~~~g----------~~~G~~~dl~~~i~~~lg~~--~~~~~~--~~~~~~~~l~~G~~D~~ 87 (250)
T TIGR01096 24 GSVRIGT--ETGYPPFESKDANG----------KLVGFDVDLAKALCKRMKAK--CKFVEQ--NFDGLIPSLKAKKVDAI 87 (250)
T ss_pred CeEEEEE--CCCCCCceEECCCC----------CEEeehHHHHHHHHHHhCCe--EEEEeC--CHHHHHHHHhCCCcCEE
Confidence 4567775 23568998764322 78999999999999999988 777774 59999999999999999
Q ss_pred eeceeeeeeeeeEE
Q 008863 533 YHDKLLFKKKKRLC 546 (550)
Q Consensus 533 ~~~~ti~~~r~~~~ 546 (550)
+++++.+.+|++-+
T Consensus 88 ~~~~~~~~~r~~~~ 101 (250)
T TIGR01096 88 MATMSITPKRQKQI 101 (250)
T ss_pred EecCccCHHHhhcc
Confidence 99999999997644
No 113
>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=98.17 E-value=0.00063 Score=64.46 Aligned_cols=211 Identities=13% Similarity=0.075 Sum_probs=124.2
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-cCCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~~~v 113 (550)
+||+++|.. ..+-.....++..+.++. .| +.+.+.++..++..-.+...++++ .++.++| .+..+.....+
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~----~~--~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~~~~~~~~ 73 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVL----GG--VELQFEDAKNDVATQLSQVENFIA-QGVDAIIVVPVDTAATAPI 73 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHc----CC--cEEEEeCCCCCHHHHHHHHHHHHH-cCCCEEEEecCchhhhHHH
Confidence 589999764 222233444555444441 13 444556777788777777777776 5788775 45444434445
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
...+...++|+|..... .+.. .+.+..+..++...+..++++|... +-+++++|.............+.+++
T Consensus 74 ~~~l~~~~iPvv~~~~~--~~~~----~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~~~R~~gf~~ 147 (272)
T cd06301 74 VKAANAAGIPLVYVNRR--PENA----PKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVAILMGPLGQSAQIDRTKGVEE 147 (272)
T ss_pred HHHHHHCCCeEEEecCC--CCCC----CCeeEEEecChHHHHHHHHHHHHHHhCCCccEEEEECCCCCccHHHHHHHHHH
Confidence 55678889999987654 1111 1234457788888888888988654 45699999765432111445677888
Q ss_pred HHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEe
Q 008863 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (550)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (550)
.+.+.+.+.+... ..... ........++++.+. .++.|+ +.+...+..+++.+++.|+.+++...+.-
T Consensus 148 ~l~~~~~~~~~~~--~~~~~----~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~~~~~~l~~~g~~~~di~ivg~ 217 (272)
T cd06301 148 VLAKYPDIKVVEE--QTANW----SRAEAMDLMENWLSSGGKIDAVV--ANNDEMALGAIMALKAAGKSDKDVPVAGI 217 (272)
T ss_pred HHHHCCCcEEEec--CCCCc----cHHHHHHHHHHHHHhCCCCCEEE--ECCCchHHHHHHHHHHcCCCCCCcEEEee
Confidence 8877651222211 11111 112223445554433 456554 46666777899999999987435444443
No 114
>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=98.15 E-value=0.00065 Score=64.46 Aligned_cols=210 Identities=12% Similarity=0.073 Sum_probs=124.5
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-cCCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~~~v 113 (550)
+||++.|.- ..+-.....++..+.++. |+.+.+ .+...+...-.+....++. .++.+|| .+.........
T Consensus 1 ~~g~~~~~~~~~~~~~~~~~~~~~a~~~-----g~~~~~--~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~~~~~~~~~ 72 (273)
T cd06309 1 TVGFSQVGAESPWRTAETKSIKDAAEKR-----GFDLKF--ADAQQKQENQISAIRSFIA-QGVDVIILAPVVETGWDPV 72 (273)
T ss_pred CeeeccCCCCCHHHHHHHHHHHHHHHhc-----CCEEEE--eCCCCCHHHHHHHHHHHHH-cCCCEEEEcCCccccchHH
Confidence 489999853 323334445555555543 455544 5666676666667777776 5777665 34443332334
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
...+...++|+|..... .+.. ...+++.++.++....+..+++++... +-++++++..+..........+.+++
T Consensus 73 i~~~~~~~iPvV~~~~~--~~~~--~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~ 148 (273)
T cd06309 73 LKEAKAAGIPVILVDRG--VDVK--DDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAE 148 (273)
T ss_pred HHHHHHCCCCEEEEecC--cCCc--cCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHH
Confidence 45567789999998754 2211 112456778899999999999998776 88899999865332111345677888
Q ss_pred HHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC---CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEE
Q 008863 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (550)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (550)
.++..+...+... ..... ...+....++++.+. .++.|+ +.+...+..+++++++.|+..++-+.+
T Consensus 149 ~l~~~~~~~~~~~--~~~~~----~~~~~~~~~~~~l~~~~~~~~aI~--~~~d~~a~g~~~a~~~~g~~ip~di~i 217 (273)
T cd06309 149 VIKKYPNMKIVAS--QTGDF----TRAKGKEVMEALLKAHGDDIDAVY--AHNDEMALGAIQAIKAAGKKPGKDIKI 217 (273)
T ss_pred HHHHCCCCEEeec--cCCcc----cHHHHHHHHHHHHHhCCCCccEEE--ECCcHHHHHHHHHHHHcCCCCCCCeEE
Confidence 8887631443321 11110 223334455555433 355554 455666677999999999864333333
No 115
>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=98.14 E-value=0.00098 Score=63.15 Aligned_cols=199 Identities=12% Similarity=0.081 Sum_probs=126.9
Q ss_pred EEEEEEecC--CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCC-CHHHHHHHHHHhhhcCCeEEEEc-CCChHHHH
Q 008863 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR-DPFQAATAAQELINKEKVKVIAG-METWEETA 111 (550)
Q Consensus 36 ~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~-~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~ 111 (550)
|||++.|.. ...-.....+++.+.++. |+.+.+ ..+.. ++....+...+++. .++.++|. +.......
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~-----g~~v~~--~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~~~~~~ 72 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDL-----GVDVEY--RGPETFDVADMARLIEAAIA-AKPDGIVVTIPDPDALD 72 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHh-----CCEEEE--ECCCCCCHHHHHHHHHHHHH-hCCCEEEEeCCChHHhH
Confidence 689999864 334445667777777764 556554 34444 77767777777776 58887775 33333233
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHH-cCCeEEEEEEEcC--CCCCcchhHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDN--VYGGDSGKLAL 188 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~-~~w~~v~ii~~~~--~~g~~~~~~~~ 188 (550)
.....+...++|+|..... .+... ..+.+..+..++...+..++++|.+ .|-++++++..+. ..+ ....+.
T Consensus 73 ~~l~~~~~~~ipvV~~~~~--~~~~~--~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~g~~~~~~~--~~r~~g 146 (271)
T cd06312 73 PAIKRAVAAGIPVISFNAG--DPKYK--ELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCVIHEPGNVTL--EDRCAG 146 (271)
T ss_pred HHHHHHHHCCCeEEEeCCC--CCccc--cccceEEeccChHHHHHHHHHHHHHhcCCCeEEEEecCCCCccH--HHHHHH
Confidence 3444556789999998754 22111 1234556788889999999999988 8999999997533 233 556788
Q ss_pred HHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
+++.++..+ +.+... .... +..+....++++.+. +++.|+. .+...+..+++.+++.|+.
T Consensus 147 ~~~~~~~~~-~~~~~~--~~~~-----~~~~~~~~~~~~l~~~~~~~aI~~--~~d~~a~g~~~al~~~g~~ 208 (271)
T cd06312 147 FADGLGGAG-ITEEVI--ETGA-----DPTEVASRIAAYLRANPDVDAVLT--LGAPSAAPAAKALKQAGLK 208 (271)
T ss_pred HHHHHHhcC-ceeeEe--ecCC-----CHHHHHHHHHHHHHhCCCccEEEE--eCCccchHHHHHHHhcCCC
Confidence 888888877 654321 1111 223344455555433 3565554 5566677888999999986
No 116
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=98.09 E-value=0.0049 Score=60.57 Aligned_cols=203 Identities=11% Similarity=0.009 Sum_probs=117.5
Q ss_pred CCcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-cCCChHH
Q 008863 32 EEVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEE 109 (550)
Q Consensus 32 ~~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~ 109 (550)
..+-+||+++|.. ...-.....+++-+.++. |+.+.+...+...+...-.+....++. .++.+|| .|.....
T Consensus 44 r~t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~-----G~~l~i~~~~~~~~~~~q~~~i~~l~~-~~vdgIIl~~~~~~~ 117 (343)
T PRK10936 44 KKAWKLCALYPHLKDSYWLSVNYGMVEEAKRL-----GVDLKVLEAGGYYNLAKQQQQLEQCVA-WGADAILLGAVTPDG 117 (343)
T ss_pred CCCeEEEEEecCCCchHHHHHHHHHHHHHHHh-----CCEEEEEcCCCCCCHHHHHHHHHHHHH-hCCCEEEEeCCChHH
Confidence 3578999999875 222334455666665553 555555432223455545555666665 5787766 3444333
Q ss_pred HHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc-----CCeEEEEEEEcCCCCCcch
Q 008863 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-----NWRRVAAIYEDNVYGGDSG 184 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~-----~w~~v~ii~~~~~~g~~~~ 184 (550)
..... .+...++|+|..... .. . .. ....+..+....+...++++... |-++++++..+........
T Consensus 118 ~~~~l-~~~~~giPvV~~~~~--~~-~--~~--~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~~ 189 (343)
T PRK10936 118 LNPDL-ELQAANIPVIALVNG--ID-S--PQ--VTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSKA 189 (343)
T ss_pred hHHHH-HHHHCCCCEEEecCC--CC-C--cc--ceEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHHH
Confidence 22222 456789999976433 11 1 11 12346778888888888888654 4789999975432111134
Q ss_pred hHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 185 ~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
..+.+++.+++.| +++.... .... +.......++++.+. +++.|+. ....+..+++.+++.|+.
T Consensus 190 R~~Gf~~~l~~~~-i~~~~~~-~~~~-----~~~~~~~~~~~~l~~~~~~~ai~~---~d~~A~ga~~al~~~g~~ 255 (343)
T PRK10936 190 VEQGFRAAIAGSD-VRIVDIA-YGDN-----DKELQRNLLQELLERHPDIDYIAG---SAVAAEAAIGELRGRNLT 255 (343)
T ss_pred HHHHHHHHHhcCC-CEEEEee-cCCC-----cHHHHHHHHHHHHHhCCCccEEEe---CCHHHHHHHHHHHhcCCC
Confidence 5677888888888 7765421 1111 122333445555433 4566643 345677788999999984
No 117
>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=98.06 E-value=0.00055 Score=64.64 Aligned_cols=200 Identities=11% Similarity=0.108 Sum_probs=121.7
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
.||+++|.. ..+-.....+++.+.++. |+.+ .+.++..++..-.+...+++. .++.+++...+........
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~-----g~~~--~~~~~~~~~~~~~~~i~~~~~-~~vdgiii~~~~~~~~~~~ 72 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEA-----GYTV--FLANSGEDVERQEQLLSTMLE-HGVAGIILCPAAGTSPDLL 72 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHc-----CCeE--EEecCCCChHHHHHHHHHHHH-cCCCEEEEeCCCCccHHHH
Confidence 378999764 333345667777666654 4555 344566667666666667765 6888887643332222344
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC--CCCcchhHHHHHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~ 192 (550)
..+...++|+|..... .+. ...+ .+.++....+..+++++...|-++++++..+.. .. ....+.|.+.
T Consensus 73 ~~~~~~~ipvV~~~~~--~~~---~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~--~~r~~gf~~~ 142 (268)
T cd06289 73 KRLAESGIPVVLVARE--VAG---APFD---YVGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTR--RERLAGYRAA 142 (268)
T ss_pred HHHHhcCCCEEEEecc--CCC---CCCC---EEeecchHHHHHHHHHHHHCCCCCEEEecCCccccch--HHHHHHHHHH
Confidence 5567789999987644 121 1222 356777788888899888889899999875433 33 5567888888
Q ss_pred HhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
+++.+ ..+.....+.... ........++++.+. ..++|+. .+...+..+++++++.|+..+
T Consensus 143 l~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~al~~~g~~~p 205 (268)
T cd06289 143 LAEAG-LPFDSELVVEGPP----SRQGGAEAVAQLLDLPPRPTAIVC--FNDLVAFGAMSGLRRAGLTPG 205 (268)
T ss_pred HHHcC-CCCCchhEEecCc----chhhHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCC
Confidence 88776 5332211111111 112233444554433 4566554 455667778999999998643
No 118
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=98.05 E-value=0.0038 Score=61.03 Aligned_cols=209 Identities=12% Similarity=0.092 Sum_probs=112.6
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~ 110 (550)
++.+||++.+.. ..+-.....+++-+.++. ++.. +.+.++..+.....+....++. .++.+||= +......
T Consensus 23 ~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~----g~~~--~~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~~~~~~ 95 (330)
T PRK15395 23 ADTRIGVTIYKYDDNFMSVVRKAIEKDAKAA----PDVQ--LLMNDSQNDQSKQNDQIDVLLA-KGVKALAINLVDPAAA 95 (330)
T ss_pred CCceEEEEEecCcchHHHHHHHHHHHHHHhc----CCeE--EEEecCCCCHHHHHHHHHHHHH-cCCCEEEEeccCHHHH
Confidence 578999999743 222234444554444443 2333 3445665566555555666665 57887664 3333323
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc------------CCeEEEEEEEcCC
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY------------NWRRVAAIYEDNV 178 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~------------~w~~v~ii~~~~~ 178 (550)
......+...++|+|..... .+.......+-...+..+....+...++++... |-.++++|.....
T Consensus 96 ~~~l~~l~~~giPvV~vd~~--~~~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~g~~~ 173 (330)
T PRK15395 96 PTVIEKARGQDVPVVFFNKE--PSRKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLKGEPG 173 (330)
T ss_pred HHHHHHHHHCCCcEEEEcCC--ccccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEecCCC
Confidence 33334566789999998764 211111111112345677777777666655432 3334455544322
Q ss_pred CCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC----CCeEEEEEcCCHHHHHHHHHHHHH
Q 008863 179 YGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK----QSRVFIVLQASLDMTIHLFTEANR 254 (550)
Q Consensus 179 ~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~----~~~~ii~~~~~~~~~~~il~~a~~ 254 (550)
........+.+++.+++.| +.+.... ..... .+..+-...++++.+. .+++|+ +++...+..+++++++
T Consensus 174 ~~~~~~R~~G~~~al~~~g-~~~~~~~-~~~~~---~~~~~a~~~~~~~l~~~~~~~~~ai~--~~~d~~A~gvl~al~~ 246 (330)
T PRK15395 174 HPDAEARTTYVIKELNDKG-IKTEQLQ-LDTAM---WDTAQAKDKMDAWLSGPNANKIEVVI--ANNDAMAMGAVEALKA 246 (330)
T ss_pred CchHHHHHHHHHHHHHhcC-CCeeeee-cccCC---cCHHHHHHHHHHHHhhCcCCCeeEEE--ECCchHHHHHHHHHHh
Confidence 1101345677888888888 7654322 21111 0112333455555432 345554 4666777889999999
Q ss_pred cCC
Q 008863 255 MGL 257 (550)
Q Consensus 255 ~g~ 257 (550)
.|+
T Consensus 247 ~Gl 249 (330)
T PRK15395 247 HNK 249 (330)
T ss_pred cCC
Confidence 998
No 119
>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=98.05 E-value=0.00078 Score=63.63 Aligned_cols=199 Identities=15% Similarity=0.136 Sum_probs=121.0
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
+||+++|.. ...-.....+++-+.++. |+.+.+. .+..++..-.+....++. .++.+|+-..+. ......
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~-----g~~~~~~--~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~-~~~~~~ 71 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMY-----KYNIILS--NSDNDKEKELKVLNNLLA-KQVDGIIFMGGK-ISEEHR 71 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHc-----CCeEEEE--eCCCCHHHHHHHHHHHHH-hcCCEEEEeCCC-CcHHHH
Confidence 478898764 222334445555554443 5666554 345566666666667765 578877732111 112344
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC---CCCcchhHHHHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGKLALLAE 191 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~---~g~~~~~~~~l~~ 191 (550)
..+...++|+|..... .+. ...+ .+.+++...++.++++|...|-++++++..+.. .+ ....+.+++
T Consensus 72 ~~l~~~~ipvV~~~~~--~~~---~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~--~~r~~gf~~ 141 (268)
T cd06298 72 EEFKRSPTPVVLAGSV--DED---NELP---SVNIDYKKAAFEATELLIKNGHKKIAFISGPLEDSING--DERLAGYKE 141 (268)
T ss_pred HHHhcCCCCEEEEccc--cCC---CCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCcccccch--hHHHHHHHH
Confidence 4556679999998754 211 1223 357788888899999998889999999985433 34 667788889
Q ss_pred HHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC-CeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ-SRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~-~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
.+++.| ..+.......... +.......++++.+.. +++|+. .+...+..+++++++.|+.-+
T Consensus 142 ~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~vp 204 (268)
T cd06298 142 ALSEAN-IEFDESLIFEGDY----TYESGYELAEELLEDGKPTAAFV--TDDELAIGILNAAQDAGLKVP 204 (268)
T ss_pred HHHHcC-CCCCHHHeEeCCC----ChhHHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCc
Confidence 998887 6542211111111 1123334556665544 666665 455567789999999998643
No 120
>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=98.05 E-value=0.0013 Score=62.35 Aligned_cols=200 Identities=13% Similarity=0.081 Sum_probs=120.9
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcC-CChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGM-ETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~-~~s~~~~~v 113 (550)
+||+++|.. ..+......+++.+.++. |+.+.+ .++..++....+....++. .++.+||.. ..+.....+
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~--~~~~~~~~~~~~~l~~~~~-~~vdgii~~~~~~~~~~~~ 72 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEAL-----GGDLRV--YDAGGDDAKQADQIDQAIA-QKVDAIIIQHGRAEVLKPW 72 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHc-----CCEEEE--ECCCCCHHHHHHHHHHHHH-cCCCEEEEecCChhhhHHH
Confidence 588898853 333345556666666654 555544 5777788777777777776 588888864 333333344
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHH--cCCeEEEEEEEcC-CCCCcchhHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK--YNWRRVAAIYEDN-VYGGDSGKLALLA 190 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~--~~w~~v~ii~~~~-~~g~~~~~~~~l~ 190 (550)
...+...++|+|..... .+. +.+..+.++....++.+++++.. .|.++++++...+ ... ......+.
T Consensus 73 i~~~~~~~ipvV~~~~~--~~~------~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~--~~R~~g~~ 142 (273)
T cd06305 73 VKRALDAGIPVVAFDVD--SDN------PKVNNTTQDDYSLARLSLDQLVKDLGGKGNVGYVNVAGFPPL--DRRYDVWQ 142 (273)
T ss_pred HHHHHHcCCCEEEecCC--CCC------CccceeeechHHHHHHHHHHHHHHhCCCCCEEEEEccCCchH--HHHHHHHH
Confidence 45567789999998764 211 22334667888888888998866 5889999997542 122 33445667
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCC----eEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS----RVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~----~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
+.+++.+.+.+.......... +..+....++++.+..+ ++|+ +.+...+..++..+++.|+..
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~ai~--~~~d~~a~g~~~~l~~~g~~~ 209 (273)
T cd06305 143 AVLKAYPGIKEVAELGDVSNN----TAQDAAAQVEAVLKKYPKGGIDAIW--AAWDEFAKGAKQALDEAGRTD 209 (273)
T ss_pred HHHHHCCCcEEeccccccccc----chhHHHHHHHHHHHHCCCcccCeEE--EcChhhhHHHHHHHHHcCCCC
Confidence 777665412222211111110 22334455555544433 4444 456667788899999999864
No 121
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=98.04 E-value=0.0049 Score=60.07 Aligned_cols=210 Identities=12% Similarity=0.123 Sum_probs=132.8
Q ss_pred cEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-cCCChHHHHH
Q 008863 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAV 112 (550)
Q Consensus 34 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~~~ 112 (550)
..+||++.+... ..+..++..++++.-+.. |....+...+...|+..-++.+.+++. .++.+|+ .|.++.....
T Consensus 33 ~~~i~~~~~~~~---~~f~~~~~~g~~~~a~~~-g~~~~~~~~~~~~d~~~Q~~~i~~~ia-~~~daIiv~~~d~~~~~~ 107 (322)
T COG1879 33 GKTIGVVVPTLG---NPFFQAVRKGAEAAAKKL-GVVVAVVIADAQNDVAKQIAQIEDLIA-QGVDAIIINPVDPDALTP 107 (322)
T ss_pred CceEEEEeccCC---ChHHHHHHHHHHHHHHHc-CCcEEEEecccccChHHHHHHHHHHHH-cCCCEEEEcCCChhhhHH
Confidence 488999998763 334444444443333321 335666677888999889999999987 5776555 6888888888
Q ss_pred HHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHH-cC-CeEEEEEEEcCCCCCcchhHHHHH
Q 008863 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YN-WRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 113 v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~-~~-w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
...-+...+||+|.+... .+.. ......+..+....+...++++.+ ++ .-++.++.....+.......+.++
T Consensus 108 ~v~~a~~aGIpVv~~d~~--~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R~~G~~ 181 (322)
T COG1879 108 AVKKAKAAGIPVVTVDSD--IPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEERVKGFR 181 (322)
T ss_pred HHHHHHHCCCcEEEEecC--CCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHHHhhHH
Confidence 888899999999998876 2222 123444555777777777888743 43 244666665443222356778889
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
+.+.+.+ ..+.......... +.+.-......+....+++-.+++.....+.-..+++++.|..+
T Consensus 182 ~~l~~~~-~~~~v~~~~~~~~----~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~ 245 (322)
T COG1879 182 DALKEHP-PDIEVVDVQTGDW----DRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG 245 (322)
T ss_pred HHHHhCC-CcEEEeeccCCcc----cHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC
Confidence 9999877 4222222122111 22233455666666666765553556666666777888888876
No 122
>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=98.02 E-value=5.7e-06 Score=78.61 Aligned_cols=80 Identities=15% Similarity=0.093 Sum_probs=63.1
Q ss_pred CCCeEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccE
Q 008863 452 QEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYF 531 (550)
Q Consensus 452 ~~~~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~ 531 (550)
.+++++.++ .++||....++. .+.||.+||++++++.+|.++ ++++. -.|+.++..|..|++|+
T Consensus 32 ~~~l~v~~~---~~pP~~~~~~~g----------~~~G~~~dl~~~i~~~lg~~~-~~~~~--~~w~~~~~~l~~G~~Di 95 (275)
T TIGR02995 32 QGFARIAIA---NEPPFTYVGADG----------KVSGAAPDVARAIFKRLGIAD-VNASI--TEYGALIPGLQAGRFDA 95 (275)
T ss_pred CCcEEEEcc---CCCCceeECCCC----------ceecchHHHHHHHHHHhCCCc-eeecc--CCHHHHHHHHHCCCcCE
Confidence 456788875 468898764332 578999999999999999862 23333 35999999999999999
Q ss_pred EeeceeeeeeeeeEEE
Q 008863 532 NYHDKLLFKKKKRLCL 547 (550)
Q Consensus 532 a~~~~ti~~~r~~~~~ 547 (550)
.++.+++|.+|++-+.
T Consensus 96 ~~~~~~~t~eR~~~~~ 111 (275)
T TIGR02995 96 IAAGLFIKPERCKQVA 111 (275)
T ss_pred EeecccCCHHHHhccc
Confidence 9999999999987543
No 123
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=97.98 E-value=0.0011 Score=62.54 Aligned_cols=200 Identities=12% Similarity=0.096 Sum_probs=117.5
Q ss_pred EEEEEecC-----CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 37 IGAIVDAN-----SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 37 IG~i~~~~-----~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
||+++|.. .........+++.++++ . |+.+.+...+.. ....+.+.+++...++.+||.........
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~---~--g~~~~~~~~~~~---~~~~~~~~~~~~~~~vdgiii~~~~~~~~ 73 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAE---H--GYDLVLLPVDPD---EDPLEVYRRLVESGLVDGVIISRTRPDDP 73 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHH---C--CceEEEecCCCc---HHHHHHHHHHHHcCCCCEEEEecCCCCCh
Confidence 78999862 22333444555444443 2 666665544332 23445566666555788777533222222
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
....+...++|+|..... .+. ...++ +.++....+..+++++...|.++++++.............+.+++
T Consensus 74 -~~~~~~~~~ipvV~~~~~--~~~---~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 144 (268)
T cd06271 74 -RVALLLERGFPFVTHGRT--ELG---DPHPW---VDFDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFAQHRRAGYRR 144 (268)
T ss_pred -HHHHHHhcCCCEEEECCc--CCC---CCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEecCccccchHHHHHHHHHH
Confidence 234556789999987654 221 22344 456777888888998888899999999754432111456678888
Q ss_pred HHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
.+++.+ ..+.....+.... +.......++++.+. .+++|+. .+...+..+++++++.|+..+
T Consensus 145 ~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~vp 208 (268)
T cd06271 145 ALAEAG-LPLDPALIVSGDM----TEEGGYAAAAELLALPDRPTAIVC--SSELMALGVLAALAEAGLRPG 208 (268)
T ss_pred HHHHhC-CCCCCceEEeCCC----ChHHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHhCCCCC
Confidence 998887 6542221121111 223334455555433 3666666 455667789999999998644
No 124
>TIGR02285 conserved hypothetical protein. Members of this family are found in several Proteobacteria, including Pseudomonas putida KT2440, Bdellovibrio bacteriovorus HD100 (three members), Aeromonas hydrophila, and Chromobacterium violaceum ATCC 12472. The function is unknown.
Probab=97.96 E-value=1.3e-05 Score=75.78 Aligned_cols=78 Identities=13% Similarity=0.183 Sum_probs=62.2
Q ss_pred CCCeEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhC-CCCCCeEEEecCCChHHHHHhhhccccc
Q 008863 452 QEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHL-NYDLPYEFVPHDGVYDDLINGVYDKVNY 530 (550)
Q Consensus 452 ~~~~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l-~f~~~~~~~~~~g~w~Gmi~el~~~~ad 530 (550)
.+++++..+ .|+||.+...+. ...||.+|+++++++.+ +++ ++++.. .|++++..| .++.|
T Consensus 17 ~~~l~~~~~---~~pPf~~~~~~~----------~~~G~~~~i~~~i~~~~~~~~--~~~~~~--pw~r~l~~l-~~~~d 78 (268)
T TIGR02285 17 KEAITWIVN---DFPPFFIFSGPS----------KGRGVFDVILQEIRRALPQYE--HRFVRV--SFARSLKEL-QGKGG 78 (268)
T ss_pred cceeEEEec---ccCCeeEeCCCC----------CCCChHHHHHHHHHHHcCCCc--eeEEEC--CHHHHHHHH-hcCCC
Confidence 456777765 578998763221 56799999999999998 877 665553 599999999 89999
Q ss_pred EEeeceeeeeeeeeEEE
Q 008863 531 FNYHDKLLFKKKKRLCL 547 (550)
Q Consensus 531 ~a~~~~ti~~~r~~~~~ 547 (550)
+++.++++|+||++.+.
T Consensus 79 ~~~~~~~~t~eR~~~~~ 95 (268)
T TIGR02285 79 VCTVNLLRTPEREKFLI 95 (268)
T ss_pred eEEeeccCCcchhhcee
Confidence 99989999999998764
No 125
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=97.96 E-value=0.0011 Score=63.06 Aligned_cols=204 Identities=15% Similarity=0.112 Sum_probs=130.0
Q ss_pred EEEEEEecCC-ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
+||+++|.-. ..-.....+++-+.++. |+.+-+ .++..++..- +....+.+ .+|.++|=.........+.
T Consensus 3 ~IGvivp~~~npff~~ii~gIe~~a~~~-----Gy~l~l--~~t~~~~~~e-~~i~~l~~-~~vDGiI~~s~~~~~~~l~ 73 (279)
T PF00532_consen 3 TIGVIVPDISNPFFAEIIRGIEQEAREH-----GYQLLL--CNTGDDEEKE-EYIELLLQ-RRVDGIILASSENDDEELR 73 (279)
T ss_dssp EEEEEESSSTSHHHHHHHHHHHHHHHHT-----TCEEEE--EEETTTHHHH-HHHHHHHH-TTSSEEEEESSSCTCHHHH
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHHc-----CCEEEE--ecCCCchHHH-HHHHHHHh-cCCCEEEEecccCChHHHH
Confidence 6999999873 22334445555444442 676654 4555565554 55555554 6788777432222234566
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeE-EEEEEEcCCCCCcchhHHHHHHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRR-VAAIYEDNVYGGDSGKLALLAEAL 193 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~-v~ii~~~~~~g~~~~~~~~l~~~l 193 (550)
.+.+. ++|+|..... .. .....|++ ..++...+..++++|...|.++ ++++..+.+........+.+.+++
T Consensus 74 ~~~~~-~iPvV~~~~~---~~-~~~~~~~V---~~D~~~a~~~a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~Al 145 (279)
T PF00532_consen 74 RLIKS-GIPVVLIDRY---ID-NPEGVPSV---YIDNYEAGYEATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDAL 145 (279)
T ss_dssp HHHHT-TSEEEEESS----SC-TTCTSCEE---EEEHHHHHHHHHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHHH
T ss_pred HHHHc-CCCEEEEEec---cC-CcccCCEE---EEcchHHHHHHHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHHH
Confidence 66666 9999997755 11 11133443 4667778888999999999999 999998765321144556689999
Q ss_pred hcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe--EEEEEcCCHHHHHHHHHHHHHcC-CCCCCEE
Q 008863 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR--VFIVLQASLDMTIHLFTEANRMG-LVGKDSV 263 (550)
Q Consensus 194 ~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~--~ii~~~~~~~~~~~il~~a~~~g-~~~~~~~ 263 (550)
++.| +.+.......... +..+-...++++.+..++ .|+ +++...+..+++.+.+.| +..+.-+
T Consensus 146 ~~~G-l~~~~~~i~~~~~----~~~~g~~~~~~ll~~~p~idai~--~~nd~~A~ga~~~l~~~gr~~ip~di 211 (279)
T PF00532_consen 146 KEAG-LPIDEEWIFEGDF----DYESGYEAARELLESHPDIDAIF--CANDMMAIGAIRALRERGRLKIPEDI 211 (279)
T ss_dssp HHTT-SCEEEEEEEESSS----SHHHHHHHHHHHHHTSTT-SEEE--ESSHHHHHHHHHHHHHTT-TCTTTEE
T ss_pred HHcC-CCCCcccccccCC----CHHHHHHHHHHHHhhCCCCEEEE--EeCHHHHHHHHHHHHHcCCcccChhh
Confidence 9999 8555444333221 334545666777766666 665 478888899999999999 6655443
No 126
>PRK11260 cystine transporter subunit; Provisional
Probab=97.94 E-value=1.5e-05 Score=75.41 Aligned_cols=79 Identities=15% Similarity=0.301 Sum_probs=63.8
Q ss_pred CCCeEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccE
Q 008863 452 QEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYF 531 (550)
Q Consensus 452 ~~~~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~ 531 (550)
.+.++|... ..++||....++ ....||-+|++++|++.+|.+ +++++. .|..+...|.+|++|+
T Consensus 40 ~~~l~v~~~--~~~~P~~~~~~~----------g~~~G~~~dl~~~i~~~lg~~--~e~~~~--~~~~~~~~l~~G~~D~ 103 (266)
T PRK11260 40 RGTLLVGLE--GTYPPFSFQGED----------GKLTGFEVEFAEALAKHLGVK--ASLKPT--KWDGMLASLDSKRIDV 103 (266)
T ss_pred CCeEEEEeC--CCcCCceEECCC----------CCEEEehHHHHHHHHHHHCCe--EEEEeC--CHHHHHHHHhcCCCCE
Confidence 456677743 357889765332 268899999999999999998 777764 5999999999999999
Q ss_pred EeeceeeeeeeeeEE
Q 008863 532 NYHDKLLFKKKKRLC 546 (550)
Q Consensus 532 a~~~~ti~~~r~~~~ 546 (550)
++++++++.+|++-+
T Consensus 104 ~~~~~~~~~~r~~~~ 118 (266)
T PRK11260 104 VINQVTISDERKKKY 118 (266)
T ss_pred EEeccccCHHHHhcc
Confidence 999999999997654
No 127
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=97.93 E-value=0.0016 Score=61.51 Aligned_cols=196 Identities=12% Similarity=0.073 Sum_probs=116.0
Q ss_pred EEEEEecCC-ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHH
Q 008863 37 IGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (550)
Q Consensus 37 IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (550)
||++.|... ..-.....+++-+.++. |+.+ .+.++..++....+....++. .++.++|......... ...
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~~-----g~~~--~~~~~~~~~~~~~~~~~~~~~-~~vdgiii~~~~~~~~-~~~ 72 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEAREA-----GYGV--LLGDTRSDPEREQEYLDLLRR-KQADGIILLDGSLPPT-ALT 72 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHHc-----CCeE--EEecCCCChHHHHHHHHHHHH-cCCCEEEEecCCCCHH-HHH
Confidence 788887652 23334555665555553 5555 345677777655555555554 6888877632221111 222
Q ss_pred hhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC--CCCcchhHHHHHHHH
Q 008863 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEAL 193 (550)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~l 193 (550)
.. ..++|+|..... . ... ....+..+....+..+++++...|.++++++..+.. .+ ....+.|.+.+
T Consensus 73 ~~-~~~ipvv~~~~~---~--~~~---~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~--~~r~~gf~~~~ 141 (267)
T cd06284 73 AL-AKLPPIVQACEY---I--PGL---AVPSVSIDNVAAARLAVDHLISLGHRRIALITGPRDNPLA--RDRLEGYRQAL 141 (267)
T ss_pred HH-hcCCCEEEEecc---c--CCC---CcceEEecccHHHHHHHHHHHHcCCceEEEEcCCccchhH--HHHHHHHHHHH
Confidence 33 349999986532 1 111 223456777888899999998889999999976432 33 55677888888
Q ss_pred hcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 194 ~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
++.+ +.+.......... +.++....++++.+. .++.|+. .+...+..+++++++.|+..
T Consensus 142 ~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~~~~a~g~~~al~~~g~~~ 202 (267)
T cd06284 142 AEAG-LPADEELIQEGDF----SLESGYAAARRLLALPDRPTAIFC--FSDEMAIGAISALKELGLRV 202 (267)
T ss_pred HHcC-CCCCcceEEeCCC----ChHHHHHHHHHHHhCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCC
Confidence 8877 5432211111110 112333445555433 4566665 45556778999999999863
No 128
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=97.92 E-value=1.5e-05 Score=81.82 Aligned_cols=80 Identities=13% Similarity=0.131 Sum_probs=62.0
Q ss_pred CCCCeEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhccccc
Q 008863 451 NQEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNY 530 (550)
Q Consensus 451 ~~~~~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad 530 (550)
..++|||++.. .|+.....+. ...||.+||++++++.+|.+ ++++.. ..|+.++..|.+|++|
T Consensus 41 ~~g~LrVg~~~----~P~~~~~~~~----------~~~G~~~DLl~~ia~~LGv~--~e~v~~-~~~~~ll~aL~~G~iD 103 (482)
T PRK10859 41 ERGELRVGTIN----SPLTYYIGND----------GPTGFEYELAKRFADYLGVK--LEIKVR-DNISQLFDALDKGKAD 103 (482)
T ss_pred hCCEEEEEEec----CCCeeEecCC----------CcccHHHHHHHHHHHHhCCc--EEEEec-CCHHHHHHHHhCCCCC
Confidence 34567887652 3444432221 23899999999999999999 776633 4799999999999999
Q ss_pred EEeeceeeeeeeeeEEE
Q 008863 531 FNYHDKLLFKKKKRLCL 547 (550)
Q Consensus 531 ~a~~~~ti~~~r~~~~~ 547 (550)
|+++++++|.+|++.+.
T Consensus 104 i~~~~lt~T~eR~~~~~ 120 (482)
T PRK10859 104 LAAAGLTYTPERLKQFR 120 (482)
T ss_pred EEeccCcCChhhhccCc
Confidence 99999999999998654
No 129
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=97.90 E-value=0.0062 Score=58.75 Aligned_cols=210 Identities=9% Similarity=0.086 Sum_probs=116.3
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-cCCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~~~v 113 (550)
+||+++|.. ...-.....+++-+.+.+ +..+.+.+.+...++..-.+...+++. .++.+|| .|..+......
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~-----~~g~~~~~~~~~~~~~~q~~~i~~l~~-~~vdgiii~~~~~~~~~~~ 74 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKEN-----GGKVEFTFYDAKNNQSTQNEQIDTALA-KGVDLLAVNLVDPTAAQTV 74 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhh-----CCCeeEEEecCCCCHHHHHHHHHHHHH-cCCCEEEEecCchhhHHHH
Confidence 589999854 222234445666666554 123455556777777766666777776 5787665 34444333445
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCe-----------EEEEEEEcCCCC
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWR-----------RVAAIYEDNVYG 180 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~-----------~v~ii~~~~~~g 180 (550)
...+...++|+|..... .+.......+-+..+.++....+..++++|... +-+ .++++..+....
T Consensus 75 ~~~~~~~giPvV~~~~~--~~~~~~~~~~~~~~V~~d~~~~g~~~a~~l~~~~~~~~~~~~~~~~g~~~i~~~~g~~~~~ 152 (303)
T cd01539 75 INKAKQKNIPVIFFNRE--PEEEDIKSYDKAYYVGTDAEQSGILQGKLIADYWNANKDALDKNGDGIIQYVMLKGEPGHP 152 (303)
T ss_pred HHHHHHCCCCEEEeCCC--CcccccccccccceeeecHHHHHHHHHHHHHHHhhccccccccCCCCceEEEEEEcCCCCc
Confidence 45567789999988754 221111111223346778777788888887543 221 234455432211
Q ss_pred CcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC---CCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 181 GDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 181 ~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
......+.+++.+++.+ ..+.......... ..+.....++++... ..+.|+. .+...+..+++++++.|+
T Consensus 153 ~~~~R~~gf~~~l~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~L~~~~~~~~ai~~--~~d~~a~g~~~al~~~g~ 225 (303)
T cd01539 153 DAIARTKYSIETLNDAG-IKTEELASDTANW----DRAQAKDKMDALLLKYGDKIEAVIA--NNDAMALGAIEALQKYGY 225 (303)
T ss_pred hhhhhhhhHHHHHHhcC-CCeEEEEeecCCC----CHHHHHHHHHHHHHhcCCCccEEEE--CCchHHHHHHHHHHHcCC
Confidence 11344667888888877 6543221111111 222333345554432 2565554 555566678899999987
Q ss_pred CCC
Q 008863 258 VGK 260 (550)
Q Consensus 258 ~~~ 260 (550)
..+
T Consensus 226 ~~p 228 (303)
T cd01539 226 NKG 228 (303)
T ss_pred CcC
Confidence 653
No 130
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a
Probab=97.88 E-value=0.0022 Score=60.65 Aligned_cols=201 Identities=12% Similarity=0.102 Sum_probs=117.2
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
.||+++|.. .........+++.+.++. |+.+. +.++..++..-.+....++. .++.+|+=.........+.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~~~~~~~~ 72 (269)
T cd06275 1 TIGMLVTTSTNPFFAEVVRGVEQYCYRQ-----GYNLI--LCNTEGDPERQRSYLRMLAQ-KRVDGLLVMCSEYDQPLLA 72 (269)
T ss_pred CEEEEeCCCCcchHHHHHHHHHHHHHHc-----CCEEE--EEeCCCChHHHHHHHHHHHH-cCCCEEEEecCCCChHHHH
Confidence 388999864 334445556666666553 55654 34555666655566666665 4666555321111222223
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHh
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (550)
.+....++|+|..... .+ ....++ +..+....+..++++|...|-++++++.............+.+.+.++
T Consensus 73 ~l~~~~~ipvV~i~~~--~~---~~~~~~---V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 144 (269)
T cd06275 73 MLERYRHIPMVVMDWG--PE---DDFADK---IQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMA 144 (269)
T ss_pred HHHhcCCCCEEEEecc--cC---CCCCCe---EeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHH
Confidence 3334569999987754 21 112233 456777778888899988899999999754321111445677888888
Q ss_pred cCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
+.+ +.+.......... +.......++++.+. .++.|+. .+...+..+++.+++.|..-
T Consensus 145 ~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~v 204 (269)
T cd06275 145 EAG-LPVNPGWIVEGDF----ECEGGYEAMQRLLAQPKRPTAVFC--GNDLMAMGALCAAQEAGLRV 204 (269)
T ss_pred HcC-CCCCHHHhccCCC----ChHHHHHHHHHHHcCCCCCcEEEE--CChHHHHHHHHHHHHcCCCC
Confidence 887 6543211111111 112334455565544 3555554 56677778999999998753
No 131
>cd06321 PBP1_ABC_sugar_binding_like_11 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.88 E-value=0.0078 Score=56.92 Aligned_cols=205 Identities=12% Similarity=0.052 Sum_probs=121.5
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-cCCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~~~v 113 (550)
+||+++|.. ..+-.+...+++.+.+++ |..+.+.+.++..++..-.+....+++ .++.+|| .|.........
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~i~~~~~-~~~dgiIi~~~~~~~~~~~ 74 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKL-----NPGVKVTVVSADYDLNKQVSQIDNFIA-AKVDLILLNAVDSKGIAPA 74 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHh-----CCCeEEEEccCCCCHHHHHHHHHHHHH-hCCCEEEEeCCChhHhHHH
Confidence 489999864 223344556666666664 234555556666677655556666665 4676554 34333322333
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCC-CCCcchhHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSGKLALLA 190 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~-~g~~~~~~~~l~ 190 (550)
...+...++|+|..... .+ ... ..+..+....++.+++++... |.++++++..... .. ....+.++
T Consensus 75 i~~~~~~~ipvv~~~~~--~~----~~~---~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~g~~~~~~--~~R~~g~~ 143 (271)
T cd06321 75 VKRAQAAGIVVVAVDVA--AE----GAD---ATVTTDNVQAGEISCQYLADRLGGKGNVAILNGPPVSAV--LDRVAGCK 143 (271)
T ss_pred HHHHHHCCCeEEEecCC--CC----Ccc---ceeeechHHHHHHHHHHHHHHhCCCceEEEEeCCCCchH--HHHHHHHH
Confidence 34456679999998765 22 111 246778888888899998776 9999999976533 22 45567788
Q ss_pred HHHhcC-CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEe
Q 008863 191 EALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (550)
Q Consensus 191 ~~l~~~-g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (550)
+.+++. + ++..... ..... +...-...++++.+. .++.|+. .+...+..+++++++.|+ .+..++..
T Consensus 144 ~~~~~~~~-~~~~~~~-~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~--~di~v~g~ 213 (271)
T cd06321 144 AALAKYPG-IKLLSDD-QNGKG----SRDGGLRVMQGLLTRFPKLDGVFA--INDPTAIGADLAAKQAGR--NDIKITSV 213 (271)
T ss_pred HHHHhCCC-cEEEeee-cCCCC----ChhhHHHHHHHHHHhCCCCCEEEE--CCchhHHHHHHHHHHcCC--CCcEEEEe
Confidence 888887 5 5432111 11111 112222344555433 4566555 566677788999999998 23444443
No 132
>cd06303 PBP1_LuxPQ_Quorum_Sensing Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs. Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs from other bacteria. The members of this group are highly homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea, and that are members of the type I periplasmic binding protein superfamily. The Vibrio harveyi AI-2 receptor consists of two polypeptides, LuxP and LuxQ: LuxP is a periplasmic binding protein that binds AI-2 by clamping it between two domains, LuxQ is an integral membrane protein belonging to the two-component sensor kinase family. Unlike AI-2 bound to the LsrB receptor in Salmonella typhimurium, the Vibrio harveyi AI-2 signaling molecule has an unusual furanosyl borate
Probab=97.88 E-value=0.0054 Score=58.39 Aligned_cols=211 Identities=12% Similarity=0.077 Sum_probs=116.4
Q ss_pred EEEEEEecC--CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCC--CCHHHHHHHHHHhhhcCCeEEEEcCCChH-HH
Q 008863 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN--RDPFQAATAAQELINKEKVKVIAGMETWE-ET 110 (550)
Q Consensus 36 ~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~--~~~~~a~~~~~~li~~~~v~aiiG~~~s~-~~ 110 (550)
|||+++|.. ...-.....++..+.+ .. |+.+.+...++. .++..-.+....++. .++.+||=..... ..
T Consensus 1 ~Igvi~~~~~~~~~~~~~~~~i~~~~~---~~--g~~~~~~~~~~~~~~~~~~~~~~i~~l~~-~~vDgiIv~~~~~~~~ 74 (280)
T cd06303 1 KIAVIYPGQQISDYWVRNIASFTARLE---EL--NIPYELTQFSSRPGIDHRLQSQQLNEALQ-SKPDYLIFTLDSLRHR 74 (280)
T ss_pred CeeEEecCccHHHHHHHHHHHHHHHHH---Hc--CCcEEEEEeccCcccCHHHHHHHHHHHHH-cCCCEEEEcCCchhhH
Confidence 589999863 1111223333333333 22 677776654433 355555555556665 5788777532222 22
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHH--cCCeEEEEEEEcCC-CCCcchhHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK--YNWRRVAAIYEDNV-YGGDSGKLA 187 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~--~~w~~v~ii~~~~~-~g~~~~~~~ 187 (550)
..+.. +...++|.+...... .+.......+....+.++....+..++++|.. .|.+++++|..... .. ....+
T Consensus 75 ~~~~~-l~~~~~p~V~i~~~~-~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~--~~R~~ 150 (280)
T cd06303 75 KLIER-VLASGKTKIILQNIT-TPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYIS--TARGD 150 (280)
T ss_pred HHHHH-HHhCCCCeEEEeCCC-CCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcch--hHHHH
Confidence 33333 334577766653210 12100000112334677888888889998877 79999999976432 22 44567
Q ss_pred HHHHHHhcC-CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEE
Q 008863 188 LLAEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (550)
Q Consensus 188 ~l~~~l~~~-g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~ 264 (550)
.+++.+++. + +.+... +.... +..+....++++.+. +++.|+ +.+...+..+++++++.|+. ++...
T Consensus 151 gf~~al~~~~~-~~~~~~--~~~~~----~~~~~~~~~~~~l~~~~~~~ai~--~~nd~~A~g~l~al~~~G~~-~dv~v 220 (280)
T cd06303 151 TFIDCVHARNN-WTLTSE--FYTDA----TRQKAYQATSDILSNNPDVDFIY--ACSTDIALGASDALKELGRE-DDILI 220 (280)
T ss_pred HHHHHHHhCCC-ceEEEe--ecCCC----CHHHHHHHHHHHHHhCCCCcEEE--ECCcHHHHHHHHHHHHcCCC-CCcEE
Confidence 888888887 6 654322 11111 223334455555443 345555 46667777899999999986 44334
Q ss_pred EE
Q 008863 265 IV 266 (550)
Q Consensus 265 i~ 266 (550)
++
T Consensus 221 vg 222 (280)
T cd06303 221 NG 222 (280)
T ss_pred Ee
Confidence 43
No 133
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.88 E-value=0.0013 Score=62.13 Aligned_cols=206 Identities=16% Similarity=0.123 Sum_probs=120.9
Q ss_pred EEEEEEecC--CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHH
Q 008863 36 KIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v 113 (550)
.||+++|.. ..+......+++.+.++. |+.+.+ .++..+...-.+....+.. .++.+||-....... +
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~~-----g~~~~~--~~~~~~~~~~~~~~~~l~~-~~~dgiii~~~~~~~--~ 70 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAAREH-----GYLLLV--VNTGGDDELEAEAVEALLD-HRVDGIIYATMYHRE--V 70 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHHC-----CCEEEE--EeCCCCHHHHHHHHHHHHH-cCCCEEEEecCCCCh--h
Confidence 489999874 333445556676666553 556544 4455555444455556665 577777653322111 1
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEAL 193 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l 193 (550)
.......++|++..... .+. ...+ .+.+++...+..+++++...|-++++++..+..........+.+.+.+
T Consensus 71 ~~~~~~~~ipvv~~~~~--~~~---~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 71 TLPPELLSVPTVLLNCY--DAD---GALP---SVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred HHHHHhcCCCEEEEecc--cCC---CCCC---eEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 12234578999987654 221 1223 466788888999999998779999999986543111145677888888
Q ss_pred hcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEE
Q 008863 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (550)
Q Consensus 194 ~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (550)
++.+ +.+.......... +..+....++++.+. .+++|+. .+...+..+++++++.|+.-+.-+.++
T Consensus 143 ~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~vp~di~v~ 210 (269)
T cd06288 143 AEAG-IPFDPDLVVHGDW----SADDGYEAAAALLDLDDRPTAIFC--GNDRMAMGAYQALLERGLRIPQDVSVV 210 (269)
T ss_pred HHcC-CCCCHHHeEeCCC----ChHHHHHHHHHHHhCCCCCCEEEE--eCcHHHHHHHHHHHHcCCCCcccceEE
Confidence 8877 5432211111110 112334445565544 4566654 666677789999999998543334443
No 134
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.86 E-value=0.0094 Score=56.49 Aligned_cols=205 Identities=10% Similarity=0.070 Sum_probs=120.7
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (550)
.||++.|.. ..+-.....+++-+.++....+.| +.+.+.+...++....+....++. .++.+|+- |.........
T Consensus 1 ~Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~~g--~~~~~~~~~~~~~~~~~~~~~l~~-~~vDgiii~~~~~~~~~~~ 77 (274)
T cd06311 1 TIGVSIPAADHGWTAGIVWHAQAAAKKLEAAYPD--VEFILVTASNDTEQQNAQQDLLIN-RKIDALVILPFESAPLTQP 77 (274)
T ss_pred CeeeeccCCCCcHHHHHHHHHHHHHHHhhhhCCC--eEEEEEcCCCCHHHHHHHHHHHHH-cCCCEEEEeCCCchhhHHH
Confidence 378888643 333345566777777666543223 455556666666555555555665 56776653 4333332233
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
...+...+||+|..... .+.. . .....+.++....+...++++... +.++++++...... ......+.+.+
T Consensus 78 i~~~~~~gIpvV~~d~~--~~~~--~--~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~g~~~~-~~~~R~~gf~~ 150 (274)
T cd06311 78 VAKAKKAGIFVVVVDRG--LSSP--G--AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVLRGIPTP-IDNERVDAFDA 150 (274)
T ss_pred HHHHHHCCCeEEEEcCC--CCCC--c--ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEEECCCCc-chhHHHHHHHH
Confidence 34456789999997654 1111 0 112235777788888888988665 78899999754331 11455678888
Q ss_pred HHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
.+++.+ +++.... .... +.......++++.+. +.++|+. .+...+..++.++++.|...
T Consensus 151 ~l~~~~-~~~~~~~--~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~~ 211 (274)
T cd06311 151 AIAKYP-IKILDRQ--YANW----NRDDAFSVMQDLLTKFPKIDAVWA--HDDDMAVGVLAAIKQAGRTD 211 (274)
T ss_pred HHhhCC-cEEEecc--CCCC----cHHHHHHHHHHHHHhCCCcCEEEE--CCCcHHHHHHHHHHHcCCCC
Confidence 998888 7665321 1111 112233444454333 4566554 45556778899999999763
No 135
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=97.86 E-value=0.0027 Score=60.20 Aligned_cols=198 Identities=14% Similarity=0.131 Sum_probs=112.9
Q ss_pred cEEEEEEEecCC--------ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-C
Q 008863 34 VTKIGAIVDANS--------QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-M 104 (550)
Q Consensus 34 ~i~IG~i~~~~~--------~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~ 104 (550)
+-.||+++|... ..-.....+++.++++ .|+.+.+...+. +. ...+.+.+...++.+||- +
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~-----~g~~~~v~~~~~--~~---~~~~~~~l~~~~~dgiii~~ 72 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAE-----RGYDLLLSFVSS--PD---RDWLARYLASGRADGVILIG 72 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHH-----cCCEEEEEeCCc--hh---HHHHHHHHHhCCCCEEEEeC
Confidence 457999998631 1222333444433333 267776654332 21 233445444457776653 2
Q ss_pred CChHHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcch
Q 008863 105 ETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSG 184 (550)
Q Consensus 105 ~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~ 184 (550)
.... . .....+...++|+|..+.. .+. ..++ .+.+++...+..+++++...|.++++++..+........
T Consensus 73 ~~~~-~-~~~~~~~~~~ipvV~~~~~--~~~---~~~~---~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~~ 142 (275)
T cd06295 73 QHDQ-D-PLPERLAETGLPFVVWGRP--LPG---QPYC---YVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGEE 142 (275)
T ss_pred CCCC-h-HHHHHHHhCCCCEEEECCc--cCC---CCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhHH
Confidence 2211 1 2234556789999987754 221 2223 466788888999999998889999999986543111145
Q ss_pred hHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 185 ~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
..+.|.+.+.+.+ ..+.......... ........+.++.+. .++.|+. ++...+..+++.+++.|+.
T Consensus 143 r~~gf~~~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~~~~a~g~~~~l~~~g~~ 211 (275)
T cd06295 143 RLEGYREALAEAG-LPLDPRLVAPGDF----TEESGRAAMRALLERGPDFDAVFA--ASDLMALGALRALREAGRR 211 (275)
T ss_pred HHHHHHHHHHHcC-CCCChhhEEeccC----CHHHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHHHHhCCC
Confidence 6677888888877 5433211111111 112333445554433 4576666 4456667888999999985
No 136
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=97.84 E-value=0.0027 Score=59.95 Aligned_cols=199 Identities=12% Similarity=0.125 Sum_probs=116.8
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
.||++.|.. ...-.....+++.+.++. |+.+.+ .+...++..-.+...+++. .++.+||-...... ....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~--~~~~~~~~~~~~~~~~l~~-~~vdgiii~~~~~~-~~~~ 71 (268)
T cd01575 1 LVAVLVPSLSNSVFADVLQGISDVLEAA-----GYQLLL--GNTGYSPEREEELLRTLLS-RRPAGLILTGLEHT-ERTR 71 (268)
T ss_pred CEEEEeCCCcchhHHHHHHHHHHHHHHc-----CCEEEE--ecCCCCchhHHHHHHHHHH-cCCCEEEEeCCCCC-HHHH
Confidence 378999864 222334445666665553 555544 4444455444555566665 57777764222111 2233
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC--CCCcchhHHHHHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~ 192 (550)
..+...++|+|..... .+. +....+..+....+..+++++...|-+++++|..+.. .. ....+.+++.
T Consensus 72 ~~~~~~~ipvv~~~~~--~~~------~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~r~~gf~~~ 141 (268)
T cd01575 72 QLLRAAGIPVVEIMDL--PPD------PIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRA--QQRLEGFRAA 141 (268)
T ss_pred HHHHhcCCCEEEEecC--CCC------CCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccH--HHHHHHHHHH
Confidence 4455679999987543 111 1122356777888888999998889999999987643 22 4456778888
Q ss_pred HhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
+++.+ ............. ........+.++.+. .++.|+. ++...+..+++.+.+.|..-+
T Consensus 142 l~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~~p 204 (268)
T cd01575 142 LRAAG-LDPPLVVTTPEPS----SFALGRELLAELLARWPDLDAVFC--SNDDLALGALFECQRRGISVP 204 (268)
T ss_pred HHHcC-CCCCceeEeccCC----CHHHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHHHHhCCCCC
Confidence 88877 5322211111111 122334455555433 4666665 555667788999999997533
No 137
>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=97.83 E-value=2.2e-05 Score=73.17 Aligned_cols=67 Identities=13% Similarity=0.096 Sum_probs=53.3
Q ss_pred eEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHH---HhhhcccccE
Q 008863 455 MRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLI---NGVYDKVNYF 531 (550)
Q Consensus 455 ~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi---~el~~~~ad~ 531 (550)
++|++ ...|+||.+. + . .||.|||+++|++.+|++ +++++. .|++++ ..|.+|++|+
T Consensus 2 l~vg~--~~~~pPf~~~--~-----------~-~Gfdvdl~~~ia~~lg~~--~~~~~~--~~~~~~~~~~~L~~g~~Di 61 (246)
T TIGR03870 2 LRVCA--ATKEAPYSTK--D-----------G-SGFENKIAAALAAAMGRK--VVFVWL--AKPAIYLVRDGLDKKLCDV 61 (246)
T ss_pred eEEEe--CCCCCCCccC--C-----------C-CcchHHHHHHHHHHhCCC--eEEEEe--ccchhhHHHHHHhcCCccE
Confidence 45554 3467899874 1 1 499999999999999999 777764 599887 5899999999
Q ss_pred Eeeceeeeeee
Q 008863 532 NYHDKLLFKKK 542 (550)
Q Consensus 532 a~~~~ti~~~r 542 (550)
++ .+++|.+|
T Consensus 62 i~-~~~~t~~r 71 (246)
T TIGR03870 62 VL-GLDTGDPR 71 (246)
T ss_pred EE-eCCCChHH
Confidence 98 58988877
No 138
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.83 E-value=0.009 Score=56.32 Aligned_cols=194 Identities=15% Similarity=0.133 Sum_probs=116.8
Q ss_pred EEEEEecCC-ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHHH
Q 008863 37 IGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVA 114 (550)
Q Consensus 37 IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v~ 114 (550)
||+++|... ..-.....+++.+.++ .|+.+ .+.++..++....+...++++ .++.++|- +..........
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~-----~g~~~--~i~~~~~~~~~~~~~~~~~~~-~~vdgiii~~~~~~~~~~~~ 73 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKK-----QKVNL--IVSIANQDLNKQLSDVEDFIT-KKVDAIVLSPVDSKGIRAAI 73 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHh-----cCCEE--EEecCCCCHHHHHHHHHHHHH-cCCCEEEEcCCChhhhHHHH
Confidence 788887652 1222334444444443 25555 445666677667777777776 57887765 44333223333
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCC-CCCcchhHHHHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSGKLALLAE 191 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~-~g~~~~~~~~l~~ 191 (550)
..+...++|+|..... .+ ..+.+..+.++....+...++++... |-+++++++.... .. ....+.+++
T Consensus 74 ~~~~~~~ipvV~~~~~--~~-----~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~--~~R~~gf~~ 144 (267)
T cd06322 74 AKAKKAGIPVITVDIA--AE-----GVAVVSHVATDNYAGGVLAGELAAKVLNGKGQVAIIDYPTVQSV--VDRVRGFKE 144 (267)
T ss_pred HHHHHCCCCEEEEccc--CC-----CCceEEEEecChHHHHHHHHHHHHHHhCCCceEEEEecCCCccH--HHHHHHHHH
Confidence 4456789999998643 11 11223457788878888888888664 7889999975432 22 445677888
Q ss_pred HHhcC-CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 192 ~l~~~-g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
.+++. | +.+... .... ..+.....++++.+. +.++|+. .+...+..+++++++.|+
T Consensus 145 ~~~~~~~-~~~~~~---~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 145 ALADYPN-IKIVAV---QPGI----TRAEALTAAQNILQANPDLDGIFA--FGDDAALGAVSAIKAAGR 203 (267)
T ss_pred HHHhCCC-cEEEEe---cCCC----ChHHHHHHHHHHHHhCCCCCEEEE--cCCcHHHHHHHHHHHCCC
Confidence 88887 7 765321 1111 112333344554432 4565554 566677788999999998
No 139
>PRK09701 D-allose transporter subunit; Provisional
Probab=97.81 E-value=0.036 Score=53.61 Aligned_cols=207 Identities=9% Similarity=0.005 Sum_probs=117.6
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (550)
+||+++|.. ..+-.....+++-+.++. |+.+.+...+...+...-.+...+++. .++.+||- +..+......
T Consensus 26 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~-----g~~v~~~~~~~~~~~~~~~~~i~~l~~-~~vDgiIi~~~~~~~~~~~ 99 (311)
T PRK09701 26 EYAVVLKTLSNPFWVDMKKGIEDEAKTL-----GVSVDIFASPSEGDFQSQLQLFEDLSN-KNYKGIAFAPLSSVNLVMP 99 (311)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHHc-----CCeEEEecCCCCCCHHHHHHHHHHHHH-cCCCEEEEeCCChHHHHHH
Confidence 799999864 222334445555554442 667766543555566666666667776 47776664 3333222222
Q ss_pred HHhhccCCccEEeccCCCCCCcc--cCCCCCeEEEEecCcHHhHHHHHHHHHH-cCC--eEEEEEEEcCCCCCcchhHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLS--MSRRWPYLIRMASNDSEQMKCIADLARK-YNW--RRVAAIYEDNVYGGDSGKLAL 188 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~--~~~~~~~~~~~~p~~~~~~~al~~~l~~-~~w--~~v~ii~~~~~~g~~~~~~~~ 188 (550)
...+...+||++..... .+.. ..........+..+....+...+++|.. .|- ++++++.............+.
T Consensus 100 l~~~~~~giPvV~~~~~--~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~G 177 (311)
T PRK09701 100 VARAWKKGIYLVNLDEK--IDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRNG 177 (311)
T ss_pred HHHHHHCCCcEEEeCCC--CCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHHH
Confidence 23345679999998754 2211 1111122344678888888999998855 454 789888654332111455677
Q ss_pred HHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
+++.+++.+.+.+... ..... ...+....++++.+. .++.|+ +.+...+..++..+++.|..
T Consensus 178 f~~al~~~~~~~~~~~--~~~~~----~~~~~~~~~~~ll~~~~~~~~I~--~~~d~~A~g~~~al~~~G~~ 241 (311)
T PRK09701 178 ATEAFKKASQIKLVAS--QPADW----DRIKALDVATNVLQRNPNIKAIY--CANDTMAMGVAQAVANAGKT 241 (311)
T ss_pred HHHHHHhCCCcEEEEe--cCCCC----CHHHHHHHHHHHHHhCCCCCEEE--ECCcchHHHHHHHHHHcCCC
Confidence 8888877651333221 11110 122334455555443 355544 46666788899999999985
No 140
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=97.81 E-value=0.005 Score=58.13 Aligned_cols=200 Identities=10% Similarity=0.055 Sum_probs=119.9
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
.||+++|.. ...-.....+++.+.++. |+.+.+ .++..++..-.+....+++ .++.+||-..+.... ...
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~~-----g~~~~~--~~~~~~~~~~~~~i~~~~~-~~vdgii~~~~~~~~-~~~ 71 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARKA-----GKHLII--TAGHHSAEKEREAIEFLLE-RRCDALILHSKALSD-DEL 71 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHHC-----CCEEEE--EeCCCchHHHHHHHHHHHH-cCCCEEEEecCCCCH-HHH
Confidence 389999864 333345556666666653 566654 3444555555555666665 578877753222111 213
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHh
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (550)
..+...++|+|..... .+. ...++ +..+....++.+++++...|-+++++|.............+.+.+.++
T Consensus 72 ~~~~~~~ipvV~~~~~--~~~---~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (268)
T cd06270 72 IELAAQVPPLVLINRH--IPG---LADRC---IWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALA 143 (268)
T ss_pred HHHhhCCCCEEEEecc--CCC---CCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 3456779999988754 221 11232 567888889999999988899999999864332111345677888888
Q ss_pred cCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
+.| +.+.......... ...+....++++.+. .+++|+. ++...+..+++.+++.|+.-
T Consensus 144 ~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~i 203 (268)
T cd06270 144 EAG-IALDESLIIEGDF----TEEGGYAAMQELLARGAPFTAVFC--ANDEMAAGAISALREHGISV 203 (268)
T ss_pred HcC-CCCCcceEEECCC----CHHHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCC
Confidence 887 6542211111111 223444555665544 3565554 55667778999999999853
No 141
>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=97.80 E-value=0.0036 Score=61.17 Aligned_cols=200 Identities=16% Similarity=0.161 Sum_probs=120.0
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE--cCCChHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA--GMETWEE 109 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii--G~~~s~~ 109 (550)
.+-.||+++|.. ..+-.....+++.+.++. |+.+.+ .+...++..-.+....++. .++.+|| ++...
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~~-----g~~~~i--~~~~~~~~~~~~~~~~l~~-~~vdGiIi~~~~~~-- 127 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATMY-----KYNIIL--SNSDEDPEKEVQVLNTLLS-KQVDGIIFMGGTIT-- 127 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHHc-----CCEEEE--EeCCCCHHHHHHHHHHHHh-CCCCEEEEeCCCCC--
Confidence 467899999853 222334445555544442 566654 3444455444455555554 5777666 32211
Q ss_pred HHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC---CCCcchhH
Q 008863 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGKL 186 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~---~g~~~~~~ 186 (550)
..+...+...++|+|..... .+ ....+ .+..++...+..++++|...|.++++++..... .+ ....
T Consensus 128 -~~~~~~l~~~~iPvV~~~~~--~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~--~~R~ 196 (329)
T TIGR01481 128 -EKLREEFSRSPVPVVLAGTV--DK---ENELP---SVNIDYKQATKEAVGELIAKGHKSIAFVGGPLSDSING--EDRL 196 (329)
T ss_pred -hHHHHHHHhcCCCEEEEecC--CC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEecCcccccch--HHHH
Confidence 22334456679999987654 21 11223 356777788888899988889999999975332 23 4566
Q ss_pred HHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 187 ~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
+.|.+.+++.| +.+.......... +..+....++++.+..+++|+. .+...+..+++++++.|+.-+
T Consensus 197 ~Gf~~~l~~~g-~~~~~~~~~~~~~----~~~~~~~~~~~ll~~~p~ai~~--~~d~~A~g~~~al~~~g~~vP 263 (329)
T TIGR01481 197 EGYKEALNKAG-IQFGEDLVCEGKY----SYDAGYKAFAELKGSLPTAVFV--ASDEMAAGILNAAMDAGIKVP 263 (329)
T ss_pred HHHHHHHHHcC-CCCCcceEEecCC----ChHHHHHHHHHHhCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCC
Confidence 88888898888 6543221111111 1223345556665556776665 555677889999999998543
No 142
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=97.80 E-value=0.0043 Score=58.22 Aligned_cols=200 Identities=14% Similarity=0.099 Sum_probs=124.5
Q ss_pred EEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHH
Q 008863 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (550)
Q Consensus 37 IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (550)
||+++|.. .........+++.+.++. |+.+.+ .++..++..-.+...++++ .++.++|....... ..+..
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~--~~~~~~~~~~~~~i~~l~~-~~~dgii~~~~~~~-~~~~~ 72 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYEN-----GYQMLL--MNTNFSIEKEIEALELLAR-QKVDGIILLATTIT-DEHRE 72 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHC-----CCEEEE--EeCCCCHHHHHHHHHHHHh-cCCCEEEEeCCCCC-HHHHH
Confidence 78888754 333456667777777653 566644 4555677666677777776 68888886433222 23445
Q ss_pred hhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcC-C--CCCcchhHHHHHHH
Q 008863 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN-V--YGGDSGKLALLAEA 192 (550)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~-~--~g~~~~~~~~l~~~ 192 (550)
.+...++|+|..... .+ ..+ .+.++....+..+++++...+-++++++.... . .. ....+.+++.
T Consensus 73 ~~~~~~ipvv~~~~~--~~-----~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~~~~~~~~~--~~r~~gf~~~ 140 (259)
T cd01542 73 AIKKLNVPVVVVGQD--YP-----GIS---SVVYDDYGAGYELGEYLAQQGHKNIAYLGVSESDIAVG--ILRKQGYLDA 140 (259)
T ss_pred HHhcCCCCEEEEecc--CC-----CCC---EEEECcHHHHHHHHHHHHHcCCCcEEEEcCCcccchhH--HHHHHHHHHH
Confidence 556678999998754 21 223 35678888889999999888889999996432 2 22 4556788888
Q ss_pred HhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC-CeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEE
Q 008863 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ-SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (550)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~-~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (550)
+++.+ ....... .... ........+.++.+.. ++.|+. .+...+..+++.+++.|+.-++-+.+.
T Consensus 141 ~~~~~-~~~~~~~-~~~~-----~~~~~~~~~~~~l~~~~~~~i~~--~~d~~a~g~~~~l~~~g~~vp~di~v~ 206 (259)
T cd01542 141 LKEHG-ICPPNIV-ETDF-----SYESAYEAAQELLEPQPPDAIVC--ATDTIALGAMKYLQELGRRIPEDISVA 206 (259)
T ss_pred HHHcC-CChHHee-eccC-----chhhHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 98888 5111111 1111 1123334455554444 576665 456677789999999998644444444
No 143
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=97.78 E-value=0.011 Score=55.90 Aligned_cols=209 Identities=14% Similarity=0.122 Sum_probs=121.1
Q ss_pred EEEEEEecCC-ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHH
Q 008863 36 KIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (550)
+||+++|... ........+++.+.++. .|+.+. +.++..++..-.+...+++. .++.+|+= +.........
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~~----~g~~~~--~~~~~~~~~~~~~~i~~~~~-~~vdgiii~~~~~~~~~~~ 73 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASNY----PDVELI--IADAADDNSKQVADIENFIR-QGVDLLIISPNEAAPLTPV 73 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHhc----CCcEEE--EEcCCCCHHHHHHHHHHHHH-hCCCEEEEecCchhhchHH
Confidence 5899997532 22223334444333332 255664 44556677666666777776 47666553 3332222233
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
...+...++|+|..... .+. . .+...+..++...+...++++... |-++++++.............+.+++
T Consensus 74 ~~~~~~~~ipvV~~~~~--~~~---~--~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~ 146 (270)
T cd06308 74 VEEAYRAGIPVILLDRK--ILS---D--KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKE 146 (270)
T ss_pred HHHHHHCCCCEEEeCCC--CCC---c--cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHH
Confidence 34456789999987753 111 1 123346778888889999988774 88999999754432211445677888
Q ss_pred HHhcC-CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEec
Q 008863 192 ALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTN 268 (550)
Q Consensus 192 ~l~~~-g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (550)
.+++. + +.+.... .... ...+....++++.+. +.+.|+ +.+...+..+++++++.|+. .+...+.-+
T Consensus 147 ~l~~~~~-~~~~~~~-~~~~-----~~~~~~~~~~~~l~~~~~~~aI~--~~~d~~a~g~~~al~~~g~~-~dv~vvg~d 216 (270)
T cd06308 147 ALSKYPK-IKIVAQQ-DGDW-----LKEKAEEKMEELLQANPDIDLVY--AHNDPMALGAYLAAKRAGRE-KEIKFIGID 216 (270)
T ss_pred HHHHCCC-CEEEEec-CCCc-----cHHHHHHHHHHHHHhCCCCcEEE--eCCcHHHHHHHHHHHHcCCC-CCcEEEEec
Confidence 88888 7 7654321 1111 112223344444332 456554 46677777899999999987 444444433
No 144
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=97.77 E-value=0.0062 Score=57.37 Aligned_cols=201 Identities=12% Similarity=0.135 Sum_probs=119.8
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
.||++.|.. ...-.....+++-+.++. |+.+. +.+...++..-......++. .++.+|+-.........+
T Consensus 1 ~igvi~~~~~~~~~~~~~~~i~~~a~~~-----g~~~~--~~~~~~~~~~~~~~~~~l~~-~~~dgiii~~~~~~~~~l- 71 (267)
T cd06283 1 LIGVIVADITNPFSSLVLKGIEDVCRAH-----GYQVL--VCNSDNDPEKEKEYLESLLA-YQVDGLIVNPTGNNKELY- 71 (267)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc-----CCEEE--EEcCCCCHHHHHHHHHHHHH-cCcCEEEEeCCCCChHHH-
Confidence 378899765 333345666777766654 45553 44555566555566666765 577766632211122223
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC-CCCcchhHHHHHHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALLAEAL 193 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~l~~~l 193 (550)
..+...++|+|..... .+. ...+ .+..+....+..++++|...|-++++++..... ........+.+.+.+
T Consensus 72 ~~~~~~~ipvV~~~~~--~~~---~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~ 143 (267)
T cd06283 72 QRLAKNGKPVVLVDRK--IPE---LGVD---TVTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEAL 143 (267)
T ss_pred HHHhcCCCCEEEEcCC--CCC---CCCC---EEEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHH
Confidence 3456779999998754 211 1223 345677788888999998889999999975433 111134567788888
Q ss_pred hcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 194 ~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
++.+ ............. +..+....++++.++ .++.|+. .+...+..+++.+++.|+..+
T Consensus 144 ~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~vp 205 (267)
T cd06283 144 AEHG-IGVNEELIEIDDE----DADELDERLRQLLNKPKKKTAIFA--ANGLILLEVLKALKELGIRIP 205 (267)
T ss_pred HHcC-CCCCcceeEeccc----chHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCc
Confidence 8776 4322211111111 123445566666544 3566665 456667788999999998543
No 145
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.75 E-value=0.0038 Score=58.98 Aligned_cols=201 Identities=11% Similarity=0.150 Sum_probs=114.8
Q ss_pred EEEEEEecC------CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHH
Q 008863 36 KIGAIVDAN------SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE 109 (550)
Q Consensus 36 ~IG~i~~~~------~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (550)
.||+++|.. ...-.....+++.+.++. |+.+.+. +... +..-.+.+.+++...++.+||-......
T Consensus 1 ~igli~p~~~~~~~~~~~~~~~~~~~~~~~~~~-----g~~~~~~--~~~~-~~~~~~~~~~~~~~~~~dgiii~~~~~~ 72 (270)
T cd06294 1 TIGVVLPPSADEAFQNPFFIEVLRGISAVANEN-----GYDISLA--TGKN-EEELLEEVKKMIQQKRVDGFILLYSRED 72 (270)
T ss_pred CEEEEeCCccccCcCCCCHHHHHHHHHHHHHHC-----CCEEEEe--cCCC-cHHHHHHHHHHHHHcCcCEEEEecCcCC
Confidence 378999852 223334455565555553 5666543 3332 3344555666665445666554221111
Q ss_pred HHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHH
Q 008863 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (550)
......+...++|+|..... .+. ....+ .+..+....++.+++.+...|.++++++.....+.......+.|
T Consensus 73 -~~~~~~~~~~~ipvV~~~~~--~~~--~~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf 144 (270)
T cd06294 73 -DPIIDYLKEEKFPFVVIGKP--EDD--KENIT---YVDNDNIQAGYDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQGY 144 (270)
T ss_pred -cHHHHHHHhcCCCEEEECCC--CCC--CCCCC---eEEECcHHHHHHHHHHHHHcCCccEEEecCCcccHHHHHHHHHH
Confidence 23334456789999998754 211 11222 35567777888888988877999999997544321114456778
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
.+.+++.| +.+.......... ...+....+.++.+. .+++|+. .+...+..+++++++.|+.-
T Consensus 145 ~~~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~i 209 (270)
T cd06294 145 KQALEDHG-IPDRNEVIISLDF----SEEGGYKALKKLLEQHPRPTAIVA--TDDLLALGVLKVLNELGLKV 209 (270)
T ss_pred HHHHHHcC-CCCCcceEEecCC----chHHHHHHHHHHHhCCCCCCEEEE--CChHHHHHHHHHHHHcCCCC
Confidence 88898887 5322111111111 113334455555443 3566555 56678888999999999853
No 146
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=97.73 E-value=0.011 Score=55.62 Aligned_cols=196 Identities=13% Similarity=0.141 Sum_probs=116.0
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (550)
.||+++|.. ...-.....+++.+.++. |+.+.+...+ ..++..-.+....+++ .++.+++- +..... ..+
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~-----~~~~~~~~~~-~~~~~~~~~~~~~l~~-~~vdgiii~~~~~~~-~~~ 72 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAAREA-----GYAVTLSMLA-EADEEALRAAVRRLLA-QRVDGVIVNAPLDDA-DAA 72 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHHC-----CCeEEEEeCC-CCchHHHHHHHHHHHh-cCCCEEEEeCCCCCh-HHH
Confidence 389999854 223344556666666553 5666554322 2233444455555655 57887763 322222 233
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEAL 193 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l 193 (550)
.. ....++|+|..... .+ ...+ .+..+....++.+++++...|-++++++..+..........+.+.+.+
T Consensus 73 ~~-~~~~~ipvv~~~~~--~~----~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l 142 (264)
T cd01574 73 LA-AAPADVPVVFVDGS--PS----PRVS---TVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAAL 142 (264)
T ss_pred HH-HHhcCCCEEEEecc--CC----CCCC---EEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHH
Confidence 33 34678999998754 11 1223 366788888999999998889999999976543211134557788888
Q ss_pred hcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC-CCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK-QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 194 ~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~-~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
...+ +.+.... .... ........++++.+. .++.|+. ++...+..+++++++.|..
T Consensus 143 ~~~~-~~~~~~~--~~~~----~~~~~~~~~~~~l~~~~~~ai~~--~~d~~a~g~~~~~~~~g~~ 199 (264)
T cd01574 143 EAAG-IAPPPVL--EGDW----SAESGYRAGRELLREGDPTAVFA--ANDQMALGVLRALHELGLR 199 (264)
T ss_pred HHCC-CCcceee--ecCC----CHHHHHHHHHHHHhCCCCcEEEE--cCcHHHHHHHHHHHHcCCC
Confidence 8777 6554222 1111 112333445555443 3566554 5666778899999999974
No 147
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=97.73 E-value=0.0095 Score=56.07 Aligned_cols=207 Identities=12% Similarity=0.155 Sum_probs=117.4
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (550)
.||+++|... ......+...+++.-+. .|+.+.+ .++..++..-.+....++. .++.+|+-.........+.
T Consensus 1 ~igvi~~~~~---~~~~~~~~~~~~~~~~~-~g~~~~~--~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~~~~~~~~- 72 (264)
T cd06274 1 TIGLIIPDLE---NRSFARIAKRLEALARE-RGYQLLI--ACSDDDPETERETVETLIA-RQVDALIVAGSLPPDDPYY- 72 (264)
T ss_pred CEEEEecccc---CchHHHHHHHHHHHHHH-CCCEEEE--EeCCCCHHHHHHHHHHHHH-cCCCEEEEcCCCCchHHHH-
Confidence 3899998642 22333333333332222 2566544 4455566555566666666 5788766432222222233
Q ss_pred hhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhc
Q 008863 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN 195 (550)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~ 195 (550)
.+...++|+|..... .+ ....++ +..++...+..+++++...|-++++++.............+.+++.+.+
T Consensus 73 ~~~~~~ipvV~~~~~--~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~ 144 (264)
T cd06274 73 LCQKAGLPVVALDRP--GD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGLPELSPSRERLAGFRQALAD 144 (264)
T ss_pred HHHhcCCCEEEecCc--cC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCCCcccchHHHHHHHHHHHHH
Confidence 456688999998754 21 112233 4567777778889988888999999997654311114567788888888
Q ss_pred CCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC---CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEE
Q 008863 196 VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (550)
Q Consensus 196 ~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (550)
.+ +.+.......... +.......++++.+. .++.|+. .+...+..+++++++.|+.-++-+-+
T Consensus 145 ~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~ai~~--~~d~~A~g~~~al~~~g~~ip~dv~v 210 (264)
T cd06274 145 AG-LPVQPDWIYAEGY----SPESGYQLMAELLARLGRLPRALFT--TSYTLLEGVLRFLRERPGLAPSDLRI 210 (264)
T ss_pred cC-CCCCcceeecCCC----ChHHHHHHHHHHHccCCCCCcEEEE--cChHHHHHHHHHHHHcCCCCCcceEE
Confidence 87 5432211111111 112333445554432 3566665 46667778999999999864333433
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=97.72 E-value=0.011 Score=55.72 Aligned_cols=198 Identities=10% Similarity=-0.049 Sum_probs=116.3
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (550)
+||+++|.. ...-.....+++.+.++. |+.+.+...+...+...-.+....+++ .++.+||- +....... .
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~-----g~~~~~~~~~~~~~~~~~~~~i~~~~~-~~vdgiI~~~~~~~~~~-~ 73 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRL-----GVSLKLLEAGGYPNLAKQIAQLEDCAA-WGADAILLGAVSPDGLN-E 73 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHc-----CCEEEEecCCCCCCHHHHHHHHHHHHH-cCCCEEEEcCCChhhHH-H
Confidence 589999864 223334555666666554 555554322222344445556666665 57877763 33322222 2
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCC-----eEEEEEEEcCCCCCcchhHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNW-----RRVAAIYEDNVYGGDSGKLAL 188 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w-----~~v~ii~~~~~~g~~~~~~~~ 188 (550)
...+...++|+|..... ... . .....+..+....++.++++|...+- ++++++.............+.
T Consensus 74 ~~~~~~~giPvV~~~~~--~~~---~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~~g 146 (268)
T cd06306 74 ILQQVAASIPVIALVND--INS---P--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVKAVEKG 146 (268)
T ss_pred HHHHHHCCCCEEEeccC--CCC---c--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHHHHHHH
Confidence 34456789999987543 111 1 12234677888888999999877665 899999764432111455677
Q ss_pred HHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
+++.+++.+ +++... ..... +.......++++.+. ++++|+. . ...+..+++.+++.|+
T Consensus 147 ~~~~~~~~~-~~~~~~--~~~~~----~~~~~~~~~~~~l~~~~~~~~i~~-~--d~~a~~~~~~l~~~g~ 207 (268)
T cd06306 147 FRDALAGSA-IEISAI--KYGDT----GKEVQRKLVEEALEAHPDIDYIVG-S--AVAAEAAVGILRQRGL 207 (268)
T ss_pred HHHHHhhcC-cEEeee--ccCCc----cHHHHHHHHHHHHHhCCCcCEEee-c--chhhhHHHHHHHhcCC
Confidence 888898888 776442 11111 223334455555433 4566654 3 6667789999999997
No 149
>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=97.70 E-value=0.011 Score=55.97 Aligned_cols=201 Identities=15% Similarity=0.144 Sum_probs=119.1
Q ss_pred EEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCC-hH--HHH
Q 008863 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-MET-WE--ETA 111 (550)
Q Consensus 37 IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~-s~--~~~ 111 (550)
||+++|.. ...-.....+++.+.++. |+.+. +.++..++..-.+....+++ .++.++|= +.. .. ...
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~~~~~~~~~~ 73 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQY-----GYTVL--LCNTYRGGVSEADYVEDLLA-RGVRGVVFISSLHADTHADH 73 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHHC-----CCEEE--EEeCCCChHHHHHHHHHHHH-cCCCEEEEeCCCCCcccchh
Confidence 79999864 333344556666655552 66664 34555566555566666766 57776663 211 11 112
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
.....+...++|+|..... .+. ....+ .+..++...+..++++|...|-++++++....+........+.+.+
T Consensus 74 ~~i~~~~~~~ipvV~i~~~--~~~--~~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 146 (273)
T cd06292 74 SHYERLAERGLPVVLVNGR--APP--PLKVP---HVSTDDALAMRLAVRHLVALGHRRIGFASGPGRTVPRRRKIAGFRA 146 (273)
T ss_pred HHHHHHHhCCCCEEEEcCC--CCC--CCCCC---EEEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHH
Confidence 2233456789999998754 221 11233 3567888899999999988899999999754332111455678888
Q ss_pred HHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
.+++.+ +.......+.... +.......++++.+..+++|+. .+...+..+++.+++.|+.-
T Consensus 147 ~~~~~~-~~~~~~~i~~~~~----~~~~~~~~~~~~l~~~~~ai~~--~~d~~a~g~~~~l~~~g~~i 207 (273)
T cd06292 147 ALEEAG-LEPPEALVARGMF----SVEGGQAAAVELLGSGPTAIVA--ASDLMALGAIRAARRRGLRV 207 (273)
T ss_pred HHHHcC-CCCChhheEeCCC----CHHHHHHHHHHHhcCCCCEEEE--cCcHHHHHHHHHHHHcCCCC
Confidence 888877 5322111111111 1123334455554444776665 56667778899999999753
No 150
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=97.69 E-value=0.0073 Score=56.86 Aligned_cols=200 Identities=17% Similarity=0.156 Sum_probs=115.9
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
+||+++|.. ...-.....++..+.++. |+.+.+ .++..++..-.+....++. .++.+||-......... .
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~--~~~~~~~~~~~~~~~~l~~-~~vdgiIi~~~~~~~~~-~ 71 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAA-----GYSTII--GNSDENPETENRYLDNLLS-QRVDGIIVVPHEQSAEQ-L 71 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHc-----CCEEEE--EeCCCCHHHHHHHHHHHHh-cCCCEEEEcCCCCChHH-H
Confidence 489999864 333445666776666654 455544 3444566555555556665 57877764322222222 3
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHh
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (550)
..+...++|+|..+.. .+. ...+++ ..+.......+++++...|-++++++.............+.+.+.++
T Consensus 72 ~~l~~~~ipvV~~~~~--~~~---~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~~~R~~gf~~~~~ 143 (265)
T cd06299 72 EDLLKRGIPVVFVDRE--ITG---SPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYISGPQDTSTGRERLEAFRQACA 143 (265)
T ss_pred HHHHhCCCCEEEEecc--cCC---CCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEeCCCCcccHHHHHHHHHHHHH
Confidence 4556679999988764 221 223443 34555566667778877799999999654321111445577888888
Q ss_pred cCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
+.+ ..+.......... ...+....++++.+..++.|+. ++...+..+++.+++.|+.-
T Consensus 144 ~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~av~~--~~d~~a~gv~~al~~~g~~v 201 (265)
T cd06299 144 SLG-LEVNEDLVVLGGY----SQESGYAGATKLLDQGATAIIA--GDSMMTIGAIRAIHDAGLVI 201 (265)
T ss_pred HCC-CCCChHhEEecCc----chHHHHHHHHHHHcCCCCEEEE--cCcHHHHHHHHHHHHhCCCC
Confidence 877 5432211111110 1123344556655545776655 55667788999999999853
No 151
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.69 E-value=0.0078 Score=56.86 Aligned_cols=206 Identities=15% Similarity=0.099 Sum_probs=119.0
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
+||+++|.. ...-.....++.-+.++. |+.+.+. .+..++..-.+....+.+ .++.+||--.+......+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~-----gy~v~~~--~~~~~~~~~~~~i~~~~~-~~~dgiii~~~~~~~~~~~ 72 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEADAR-----GLSLVLC--ATRNRPERELTYLRWLDT-NHVDGLIFVTNRPDDGALA 72 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHHHC-----CCEEEEE--eCCCCHHHHHHHHHHHHH-CCCCEEEEeCCCCCHHHHH
Confidence 489999854 333344555555555543 6666544 344455544445555554 6788777532221222233
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHh
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (550)
.+. ..++|+|..... .+. ...+ .+.+++...+..++++|...|-+++++|.............+.+++.++
T Consensus 73 ~~~-~~~~pvV~i~~~--~~~---~~~~---~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 73 KLI-NSYGNIVLVDED--VPG---AKVP---KVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHH-hcCCCEEEECCC--CCC---CCCC---EEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 333 357999997754 221 1123 3668888999999999988899999999754332111345688889998
Q ss_pred cCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEE
Q 008863 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (550)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (550)
+.+ ..+.......... ........+.++.+. .++.|+. ++...+..+++.+++.|..-++-+-|
T Consensus 144 ~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~vp~di~i 209 (269)
T cd06293 144 EAH-IPEVPEYVCFGDY----TREFGRAAAAQLLARGDPPTAIFA--ASDEIAIGLLEVLRERGLSIPGDMSL 209 (269)
T ss_pred HcC-CCCChheEEecCC----CHHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCccceEE
Confidence 887 5432111111111 122333455555433 4676665 56667778999999999754333333
No 152
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=97.68 E-value=0.016 Score=55.39 Aligned_cols=213 Identities=12% Similarity=0.066 Sum_probs=119.4
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (550)
+||+++|.. ..+-.....+++.+.++. |+.+. ++++. ++..-.+...+++. .++.+||= +..+.....+
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~-~~~~~~~~i~~~~~-~~~dgiii~~~~~~~~~~~ 71 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEK-----GFTVV--KIDVP-DGEKVLSAIDNLGA-QGAKGFVICVPDVKLGPAI 71 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHc-----CCEEE--EccCC-CHHHHHHHHHHHHH-cCCCEEEEccCchhhhHHH
Confidence 588888754 223345556666666653 55654 44555 66555566666665 57776664 2222333445
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHH----HcCC--eEEEEEEE-cC--CCCCcch
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR----KYNW--RRVAAIYE-DN--VYGGDSG 184 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~----~~~w--~~v~ii~~-~~--~~g~~~~ 184 (550)
...+...++|+|..... .+..+....+.+-.+..+....+...++++. ..|+ +++++|.. .. ... ..
T Consensus 72 ~~~~~~~~iPvV~~~~~--~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~~~~g~~~~~i~~i~~~~~~~~~~--~~ 147 (289)
T cd01540 72 VAKAKAYNMKVVAVDDR--LVDADGKPMEDVPHVGMSATKIGEQVGEAIADEMKKRGWDPKEVGALRITYDELDTA--KP 147 (289)
T ss_pred HHHHHhCCCeEEEecCC--CcccCCCccccceEecCCHHHHHHHHHHHHHHHHHhhcCCCcceEEEEecCCCCcch--hh
Confidence 55677899999997654 2211100011223356677777777666554 3577 68888753 22 233 55
Q ss_pred hHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeE-EEEEcCCHHHHHHHHHHHHHcCCCCCC
Q 008863 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRV-FIVLQASLDMTIHLFTEANRMGLVGKD 261 (550)
Q Consensus 185 ~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~-ii~~~~~~~~~~~il~~a~~~g~~~~~ 261 (550)
..+.+++.+++.| +............ .+.......++++... ..+. .++ +.+...+..++.++++.|+...+
T Consensus 148 R~~G~~~~l~~~~-~~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~i~-~~~d~~a~g~~~al~~~g~~~~d 222 (289)
T cd01540 148 RTDGALEALKAPG-FPEANIFQAPQKT---TDTEGAFDAAASTLTKNPNVKNWIIY-GLNDETVLGAVRATEQSGIAAAD 222 (289)
T ss_pred HHHHHHHHHhcCC-CCcceEecccccC---cchhhHHHHHHHHHHhCCCcCeeEEE-eCCcHHHHHHHHHHHHcCCCCcc
Confidence 6788888998877 5432211111110 0112223345555443 3343 455 67777788899999999987544
Q ss_pred EEEEE
Q 008863 262 SVWIV 266 (550)
Q Consensus 262 ~~~i~ 266 (550)
...+.
T Consensus 223 i~vig 227 (289)
T cd01540 223 VIGVG 227 (289)
T ss_pred eEEEe
Confidence 43443
No 153
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.67 E-value=0.042 Score=53.67 Aligned_cols=202 Identities=9% Similarity=-0.004 Sum_probs=118.0
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~ 110 (550)
+..+||++.+.. +........+++.++++. |+.+.+ .++..++..-.+....+++ .++.+||= +......
T Consensus 24 ~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~-----g~~l~i--~~~~~~~~~~~~~i~~l~~-~~vDGiIi~~~~~~~~ 95 (330)
T PRK10355 24 KEVKIGMAIDDLRLERWQKDRDIFVKKAESL-----GAKVFV--QSANGNEETQMSQIENMIN-RGVDVLVIIPYNGQVL 95 (330)
T ss_pred CCceEEEEecCCCchHHHHHHHHHHHHHHHc-----CCEEEE--ECCCCCHHHHHHHHHHHHH-cCCCEEEEeCCChhhH
Confidence 479999999855 333445555665555543 555554 5666677666666667766 57877764 3222222
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC---CCCcchhHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV---YGGDSGKLA 187 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~---~g~~~~~~~ 187 (550)
......+...++|+|..... .+. . +....+.++....++.++++|...+.++++++..... .. ....+
T Consensus 96 ~~~l~~~~~~~iPvV~id~~--~~~---~--~~~~~V~~D~~~~g~~a~~~L~~~g~~~i~~i~~g~~~~~~~--~~R~~ 166 (330)
T PRK10355 96 SNVIKEAKQEGIKVLAYDRM--INN---A--DIDFYISFDNEKVGELQAKALVDKVPQGNYFLMGGSPVDNNA--KLFRA 166 (330)
T ss_pred HHHHHHHHHCCCeEEEECCC--CCC---C--CccEEEecCHHHHHHHHHHHHHHhcCCCCEEEEeCCCCCccH--HHHHH
Confidence 33345566778999997654 111 1 1122577889999999999998778788776653221 22 34456
Q ss_pred HHHHHHhcC---CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhc---CCCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 188 LLAEALQNV---SSSEIQSRLVLPPISSISDPKEAVRGELKKVQD---KQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 188 ~l~~~l~~~---g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~---~~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
.+++.+++. +.+.+......... ...+....++++.+ ..++.|+ +.+...+..+++.+++.|+.
T Consensus 167 gf~~~l~~~~~~~~i~~~~~~~~~~~-----~~~~~~~~~~~lL~~~~~~~~aI~--~~nD~~A~g~l~al~~~g~~ 236 (330)
T PRK10355 167 GQMKVLKPYIDSGKIKVVGDQWVDGW-----LPENALKIMENALTANNNKIDAVV--ASNDATAGGAIQALSAQGLS 236 (330)
T ss_pred HHHHHHhhhccCCCeEEecccCCCCC-----CHHHHHHHHHHHHHhCCCCccEEE--ECCCchHHHHHHHHHHCCCC
Confidence 677777653 20332111111110 12233344555432 2356555 46677777899999999986
No 154
>cd06324 PBP1_ABC_sugar_binding_like_13 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.67 E-value=0.014 Score=56.30 Aligned_cols=205 Identities=13% Similarity=0.094 Sum_probs=118.1
Q ss_pred EEEEEecC-C-ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcC--CeEEEEcCCChHHHHH
Q 008863 37 IGAIVDAN-S-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKE--KVKVIAGMETWEETAV 112 (550)
Q Consensus 37 IG~i~~~~-~-~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~--~v~aiiG~~~s~~~~~ 112 (550)
||+++|.. . .+-.....+++.+.++. |+.+.+ .++..+...-......+++ . ++.+||=.........
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~-----g~~v~~--~~~~~~~~~~~~~i~~~~~-~~~~vdgiIi~~~~~~~~~ 73 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDL-----GIELEV--LYAERDRFLMLQQARTILQ-RPDKPDALIFTNEKSVAPE 73 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhc-----CCeEEE--EeCCCCHHHHHHHHHHHHH-hccCCCEEEEcCCccchHH
Confidence 78888764 2 22334445565555543 566554 3555566666666667775 5 7877663222222333
Q ss_pred HHHhhccCCccEEeccCCCCCCccc-------CCC-CCeEEEEecCcHHhHHHHHHHHHHcCCeE--------EEEEEEc
Q 008863 113 VAEIASRVQVPILSFAAPAVTPLSM-------SRR-WPYLIRMASNDSEQMKCIADLARKYNWRR--------VAAIYED 176 (550)
Q Consensus 113 v~~~~~~~~iP~is~~~~~~~~~~~-------~~~-~~~~~~~~p~~~~~~~al~~~l~~~~w~~--------v~ii~~~ 176 (550)
....+...++|+|..... .+... ... .+++-.+.++....++.+++.|...+.++ ++++...
T Consensus 74 ~~~~~~~~giPvV~~~~~--~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~~ 151 (305)
T cd06324 74 LLRLAEGAGVKLFLVNSG--LTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISGD 151 (305)
T ss_pred HHHHHHhCCCeEEEEecC--CCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeCC
Confidence 445667789999988754 22211 011 12345677888899999999987776664 7767643
Q ss_pred CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHH
Q 008863 177 NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANR 254 (550)
Q Consensus 177 ~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~ 254 (550)
..........+.+++.+++.|...+... +.... ........++++.+. +.+.|+ +.+...+..+++++++
T Consensus 152 ~~~~~~~~R~~Gf~~~~~~~g~~~~~~~--~~~~~----~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~A~g~~~al~~ 223 (305)
T cd06324 152 PTTPAAILREAGLRRALAEHPDVRLRQV--VYAGW----SEDEAYEQAENLLKRYPDVRLIW--AANDQMAFGALRAAKE 223 (305)
T ss_pred CCChHHHHHHHHHHHHHHHCCCceEeee--ecCCC----CHHHHHHHHHHHHHHCCCccEEE--ECCchHHHHHHHHHHH
Confidence 3211114456678888887751333221 11111 223334455555433 456554 4566777889999999
Q ss_pred cCCCC
Q 008863 255 MGLVG 259 (550)
Q Consensus 255 ~g~~~ 259 (550)
.|+.-
T Consensus 224 ~g~~v 228 (305)
T cd06324 224 AGRKP 228 (305)
T ss_pred cCCCc
Confidence 99863
No 155
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.64 E-value=0.01 Score=58.31 Aligned_cols=204 Identities=12% Similarity=0.091 Sum_probs=118.9
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
..-.||+++|.. ..+......++..+.++. |+.+-+ .++..++....+....++. .++.+||-........
T Consensus 63 ~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~~-----g~~~~~--~~~~~~~~~~~~~~~~l~~-~~vdgiIi~~~~~~~~ 134 (342)
T PRK10014 63 QSGVIGLIVRDLSAPFYAELTAGLTEALEAQ-----GRMVFL--LQGGKDGEQLAQRFSTLLN-QGVDGVVIAGAAGSSD 134 (342)
T ss_pred CCCEEEEEeCCCccchHHHHHHHHHHHHHHc-----CCEEEE--EeCCCCHHHHHHHHHHHHh-CCCCEEEEeCCCCCcH
Confidence 457899999853 223334445555554432 555543 3444555544455555554 5777766322122223
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
.....+...++|+|..... .+ ....++ +..+....+..++++|...|.+++++|..+..........+.+.+
T Consensus 135 ~~~~~l~~~~iPvV~~~~~--~~---~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~~ 206 (342)
T PRK10014 135 DLREMAEEKGIPVVFASRA--SY---LDDVDT---VRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYCA 206 (342)
T ss_pred HHHHHHhhcCCCEEEEecC--CC---CCCCCE---EEeCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHHH
Confidence 4445566789999987643 11 112233 567888888889999988899999999754332101345677888
Q ss_pred HHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
.+++.| +.+.....+.... ........++++.+. .++.|+ +.+...+..+++.+.+.|+.-
T Consensus 207 al~~~g-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~--~~nd~~A~g~~~~l~~~g~~v 269 (342)
T PRK10014 207 TLLKFG-LPFHSEWVLECTS----SQKQAAEAITALLRHNPTISAVV--CYNETIAMGAWFGLLRAGRQS 269 (342)
T ss_pred HHHHcC-CCCCcceEecCCC----ChHHHHHHHHHHHcCCCCCCEEE--ECCcHHHHHHHHHHHHcCCCC
Confidence 898888 6543221111111 112233445555443 355555 466677778899999998753
No 156
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.64 E-value=0.011 Score=55.64 Aligned_cols=202 Identities=14% Similarity=0.127 Sum_probs=120.5
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-cCCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~~~v 113 (550)
.||+++|.. ...-.....++..+.++. |+.+. +.++..++..-.+....+++ .++.+|+ .+... ....
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~~-----~~~~~--~~~~~~~~~~~~~~i~~l~~-~~~dgiii~~~~~-~~~~- 70 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAER-----GYSTF--VANTGDNPDAQRRAIEMLLD-RRVDGLILGDARS-DDHF- 70 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHHC-----CCEEE--EEeCCCCHHHHHHHHHHHHH-cCCCEEEEecCCC-ChHH-
Confidence 389999864 233334445555555543 56653 44555566555555556665 5777666 33222 2222
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC--CCCcchhHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAE 191 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~ 191 (550)
...+...++|++..... .+ ..++ +..+....+..++++|...|-++++++..+.. .. ....+.+.+
T Consensus 71 ~~~~~~~~iPvv~~~~~--~~-----~~~~---V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~--~~R~~Gf~~ 138 (265)
T cd06285 71 LDELTRRGVPFVLVLRH--AG-----TSPA---VTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTA--RDRLAGFRA 138 (265)
T ss_pred HHHHHHcCCCEEEEccC--CC-----CCCE---EEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccH--HHHHHHHHH
Confidence 34456679999987754 21 2233 56678888888999998889999999986543 23 556777888
Q ss_pred HHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCC-CCEEEEE
Q 008863 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIV 266 (550)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~-~~~~~i~ 266 (550)
.+++.| +.+.....+.... +.......++++.+. .++.|+. .+...+..+++.+++.|+.- ++...+.
T Consensus 139 ~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~~p~di~iig 209 (265)
T cd06285 139 ALAEAG-IEVPPERIVYSGF----DIEGGEAAAEKLLRSDSPPTAIFA--VNDFAAIGVMGAARDRGLRVPDDVALVG 209 (265)
T ss_pred HHHHcC-CCCChhhEEeCCC----CHHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEEe
Confidence 888888 6543211111111 112333455555433 4566554 56667788999999999853 3333443
No 157
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.64 E-value=0.0068 Score=57.24 Aligned_cols=207 Identities=12% Similarity=0.075 Sum_probs=120.3
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (550)
.||++.|.. ..+-.....+++.+.++. |+.+.+ .++..++..-.+....++. .++.+|+- +.... . ..
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~--~~~~~~~~~~~~~i~~l~~-~~~dgiii~~~~~~-~-~~ 70 (270)
T cd06296 1 LIGLVFPDLDSPWASEVLRGVEEAAAAA-----GYDVVL--SESGRRTSPERQWVERLSA-RRTDGVILVTPELT-S-AQ 70 (270)
T ss_pred CeEEEECCCCCccHHHHHHHHHHHHHHc-----CCeEEE--ecCCCchHHHHHHHHHHHH-cCCCEEEEecCCCC-h-HH
Confidence 378898764 334455556666665552 555544 4444555444445555665 57777653 32222 2 23
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEAL 193 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l 193 (550)
...+...++|+|..... ... ....+ .+.++....+...++.+...|.++++++.............+.|.+.+
T Consensus 71 ~~~~~~~~ipvV~i~~~--~~~--~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~ 143 (270)
T cd06296 71 RAALRRTGIPFVVVDPA--GDP--DADVP---SVGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCSRARLDGYRAAL 143 (270)
T ss_pred HHHHhcCCCCEEEEecc--cCC--CCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHH
Confidence 45567789999998754 111 11223 367788888888999988889999999976432111145667788888
Q ss_pred hcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCC-CCEEEEE
Q 008863 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG-KDSVWIV 266 (550)
Q Consensus 194 ~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~-~~~~~i~ 266 (550)
++.+ +.+.......... ..+.....++++.+. .+++|+. .+...+..+++.+++.|+.- .+...+.
T Consensus 144 ~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~~p~~i~v~~ 212 (270)
T cd06296 144 AEAG-IPVDPALVREGDF----STESGFRAAAELLALPERPTAIFA--GNDLMALGVYEAARERGLRIPEDLSVVG 212 (270)
T ss_pred HHcC-CCCChHHheeCCC----CHHHHHHHHHHHHhCCCCCcEEEE--cCcHHHHHHHHHHHHhCCCCCCceEEEE
Confidence 8877 5443211111110 122333445555433 4555554 56666778999999999753 3333443
No 158
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.63 E-value=0.0082 Score=56.50 Aligned_cols=193 Identities=17% Similarity=0.130 Sum_probs=112.3
Q ss_pred EEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHH
Q 008863 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (550)
Q Consensus 37 IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (550)
||+++|.. ...-.....++.-+.++. |+.+.+...+. +. ...+...+++. .++.+++-..+..... ...
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~-----g~~~~~~~~~~--~~-~~~~~i~~~~~-~~vdgiii~~~~~~~~-~~~ 71 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQAR-----GYQPLLINTDD--DE-DLDAALRQLLQ-YRVDGVIVTSGTLSSE-LAE 71 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHC-----CCeEEEEcCCC--CH-HHHHHHHHHHH-cCCCEEEEecCCCCHH-HHH
Confidence 78898764 223334445554444432 67766554443 33 33344555665 5787777432222222 345
Q ss_pred hhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhc
Q 008863 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN 195 (550)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~ 195 (550)
.+...++|+|..... .+. +.+..+.++....+..+++++...|-++++++..+..........+.+.+.+++
T Consensus 72 ~~~~~~ipvV~~~~~--~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~ 143 (266)
T cd06278 72 ECRRNGIPVVLINRY--VDG------PGVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGPADTSTSRERERGFRDALAA 143 (266)
T ss_pred HHhhcCCCEEEECCc--cCC------CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCCCcccchHHHHHHHHHHHHH
Confidence 566789999998754 221 122346788888999999999888999999998654321114566788888888
Q ss_pred CCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcC
Q 008863 196 VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMG 256 (550)
Q Consensus 196 ~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g 256 (550)
.+ ..+.... .... ...+....+.++.+. .+++|+. .+...+..+++.+++.+
T Consensus 144 ~~-~~~~~~~-~~~~-----~~~~~~~~~~~~l~~~~~~~~i~~--~~~~~a~~~~~~l~~~~ 197 (266)
T cd06278 144 AG-VPVVVEE-AGDY-----SYEGGYEAARRLLASRPRPDAIFC--ANDLLAIGVMDAARQEG 197 (266)
T ss_pred cC-CChhhhc-cCCC-----CHHHHHHHHHHHHhcCCCCCEEEE--cCcHHHHHHHHHHHHhc
Confidence 88 6532211 1111 112333444554433 4566665 45556667888888753
No 159
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.62 E-value=0.0053 Score=58.04 Aligned_cols=199 Identities=12% Similarity=0.104 Sum_probs=119.3
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
.||+++|.. ...-.....+++.++++. |+.+ .+.++..++....+....+++ .++.+||--.+......+.
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~~-~~vdgii~~~~~~~~~~~~ 72 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAA-----GYSL--LIANSLNDPERELEILRSFEQ-RRMDGIIIAPGDERDPELV 72 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHc-----CCEE--EEEeCCCChHHHHHHHHHHHH-cCCCEEEEecCCCCcHHHH
Confidence 489999854 334455666776666663 5554 345666677655666666665 5777777422222223445
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHh
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (550)
..+...++|+|..... .+ ...++ +..+....+..+++++...|-++++++.............+.+.+.++
T Consensus 73 ~~~~~~~ipvV~i~~~--~~----~~~~~---V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~ 143 (269)
T cd06281 73 DALASLDLPIVLLDRD--MG----GGADA---VLFDHAAGMRQAVEYLISLGHRRIALVGGGSNTRPGRERLEGYKAAFA 143 (269)
T ss_pred HHHHhCCCCEEEEecc--cC----CCCCE---EEECcHHHHHHHHHHHHHCCCcEEEEecCccccccHHHHHHHHHHHHH
Confidence 5666789999998765 22 12233 456666677778888877799999999764332111445677888888
Q ss_pred cCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
..| +.+......... ....-...+.++.+. .++.|+. .+...+..+++++.+.|+.-
T Consensus 144 ~~~-~~~~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~i 202 (269)
T cd06281 144 AAG-LPPDPALVRLST-----PAASGFDATRALLALPDRPTAIIA--GGTQVLVGVLRALREAGLRI 202 (269)
T ss_pred HcC-CCCCHHHeecCc-----HHHHHHHHHHHHHcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCC
Confidence 888 654211111110 112223445555432 4677665 45556668999999999853
No 160
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.57 E-value=0.015 Score=57.24 Aligned_cols=202 Identities=12% Similarity=0.109 Sum_probs=117.2
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
.+-+||+++|.. ...-.....+++.+.++. |+.+. +.++..++..-.+....++. .++.+||-........
T Consensus 58 ~~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~~~~~ 129 (341)
T PRK10703 58 HTKSIGLLATSSEAPYFAEIIEAVEKNCYQK-----GYTLI--LCNAWNNLEKQRAYLSMLAQ-KRVDGLLVMCSEYPEP 129 (341)
T ss_pred CCCeEEEEeCCCCCchHHHHHHHHHHHHHHC-----CCEEE--EEeCCCCHHHHHHHHHHHHH-cCCCEEEEecCCCCHH
Confidence 446899999875 223334555665555543 45543 44555666655556666665 5777765321111122
Q ss_pred HHHHhhcc-CCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC--CCCcchhHHH
Q 008863 112 VVAEIASR-VQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLAL 188 (550)
Q Consensus 112 ~v~~~~~~-~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~ 188 (550)
.+ ..+.. .++|+|..... .+. ..+.. .+.++....+...++.|...|-+++++|..... .. ....+.
T Consensus 130 ~~-~~l~~~~~iPvV~~d~~--~~~---~~~~~--~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~--~~R~~G 199 (341)
T PRK10703 130 LL-AMLEEYRHIPMVVMDWG--EAK---ADFTD--AIIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTG--AGRLAG 199 (341)
T ss_pred HH-HHHHhcCCCCEEEEecc--cCC---cCCCC--eEEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccch--HHHHHH
Confidence 23 33444 69999987654 211 11111 245565667788888887779999999965332 22 455678
Q ss_pred HHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
|.+.+++.| +.+.......... ...+....++++.+. .++.|+. ++...+..++.++.+.|..-
T Consensus 200 f~~~l~~~g-i~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~nd~~a~g~~~al~~~g~~i 265 (341)
T PRK10703 200 FMKAMEEAN-IKVPEEWIVQGDF----EPESGYEAMQQILSQKHRPTAVFC--GGDIMAMGAICAADEMGLRV 265 (341)
T ss_pred HHHHHHHcC-CCCChHHeEeCCC----CHHHHHHHHHHHHhCCCCCCEEEE--CCcHHHHHHHHHHHHcCCCC
Confidence 888998888 7543221111110 123334455555443 4566665 56666778999999999753
No 161
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.56 E-value=0.058 Score=52.70 Aligned_cols=201 Identities=9% Similarity=0.009 Sum_probs=111.2
Q ss_pred EEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHH
Q 008863 35 TKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAV 112 (550)
Q Consensus 35 i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~ 112 (550)
.+|+++.... ..+-.....+++.+.++. |+++.+. ..+..+...-.+....++. +++.+|+- |..+....+
T Consensus 24 ~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~-----G~~v~~~-~~~~~d~~~q~~~i~~li~-~~vdgIiv~~~d~~al~~ 96 (336)
T PRK15408 24 ERIAFIPKLVGVGFFTSGGNGAKEAGKEL-----GVDVTYD-GPTEPSVSGQVQLINNFVN-QGYNAIIVSAVSPDGLCP 96 (336)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHHh-----CCEEEEE-CCCCCCHHHHHHHHHHHHH-cCCCEEEEecCCHHHHHH
Confidence 4799888654 233334556666666554 5666542 2344566655677778886 58877764 555554456
Q ss_pred HHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEec-CcHHhHHHHHHHHHH-c--CCeEEEEEEEcCCCCCcchhHHH
Q 008863 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMAS-NDSEQMKCIADLARK-Y--NWRRVAAIYEDNVYGGDSGKLAL 188 (550)
Q Consensus 113 v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p-~~~~~~~al~~~l~~-~--~w~~v~ii~~~~~~g~~~~~~~~ 188 (550)
....+...+||+|..... .+.. . . .+.+.. ++...+..+++++.+ . +-.+++++.............+.
T Consensus 97 ~l~~a~~~gIpVV~~d~~--~~~~---~-~-~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g 169 (336)
T PRK15408 97 ALKRAMQRGVKVLTWDSD--TKPE---C-R-SYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKE 169 (336)
T ss_pred HHHHHHHCCCeEEEeCCC--CCCc---c-c-eEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHH
Confidence 666677889999998765 2211 1 1 122222 234567667777754 3 34688888754321111334456
Q ss_pred HHHHHhc--CCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC--CeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 189 LAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 189 l~~~l~~--~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~--~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
+.+.+.+ .+ ++++... .... +...-....+.+.+.. .+.|+. . +...+...++++++.|+.
T Consensus 170 ~~~~l~~~~p~-~~vv~~~-~~~~-----d~~~a~~~~~~lL~~~pdi~aI~~-~-~~~~~~Ga~~Al~~~g~~ 234 (336)
T PRK15408 170 AKAKIAKEHPG-WEIVTTQ-FGYN-----DATKSLQTAEGILKAYPDLDAIIA-P-DANALPAAAQAAENLKRD 234 (336)
T ss_pred HHHHHHhhCCC-CEEEeec-CCCC-----cHHHHHHHHHHHHHHCCCCcEEEE-C-CCccHHHHHHHHHhCCCC
Confidence 6666643 34 5554321 1111 2223334555555544 455554 3 444445678888888864
No 162
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=97.56 E-value=0.0079 Score=57.65 Aligned_cols=185 Identities=13% Similarity=0.245 Sum_probs=108.5
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (550)
+||++...+...-....+||+-++++..-. . ..+++.+.+...|+....+.+.++.. .++..|+-. ....+..+..
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~g~~-~-~~~~~~~~~a~~d~~~~~~~~~~l~~-~~~DlIi~~-gt~aa~~~~~ 76 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKELGYD-E-KNVEIEYKNAEGDPEKLRQIARKLKA-QKPDLIIAI-GTPAAQALAK 76 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHTT---C-CCEEEEEEE-TT-HHHHHHHHHHHCC-TS-SEEEEE-SHHHHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHcCCc-c-ccEEEEEecCCCCHHHHHHHHHHHhc-CCCCEEEEe-CcHHHHHHHH
Confidence 688888877554556778887777765332 2 46788888999999888888887765 577777743 3445555555
Q ss_pred hhccCCccEEeccCCCCCCccc----CCCC--CeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCCC-CCcchhH
Q 008863 116 IASRVQVPILSFAAPAVTPLSM----SRRW--PYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVY-GGDSGKL 186 (550)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~----~~~~--~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~~-g~~~~~~ 186 (550)
..... +|+|-.+.+ +|... .... .++.-+. .........++++++ +-++++++|+++.- + ....
T Consensus 77 ~~~~~-iPVVf~~V~--dp~~~~l~~~~~~~~~nvTGv~--~~~~~~~~l~l~~~l~P~~k~igvl~~~~~~~~--~~~~ 149 (294)
T PF04392_consen 77 HLKDD-IPVVFCGVS--DPVGAGLVDSLDRPGKNVTGVS--ERPPIEKQLELIKKLFPDAKRIGVLYDPSEPNS--VAQI 149 (294)
T ss_dssp H-SS--S-EEEECES---TTTTTS-S-SSS--SSEEEEE--E---HHHHHHHHHHHSTT--EEEEEEETT-HHH--HHHH
T ss_pred hcCCC-cEEEEEecc--ChhhhhccccccCCCCCEEEEE--CCcCHHHHHHHHHHhCCCCCEEEEEecCCCccH--HHHH
Confidence 44433 999887775 55421 1122 2443333 334555666667663 57999999987652 3 4567
Q ss_pred HHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCH
Q 008863 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL 242 (550)
Q Consensus 187 ~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~ 242 (550)
+.+++.+++.| +++.... ++ +..++...++.+.+ +.+++++ ..+.
T Consensus 150 ~~~~~~a~~~g-~~l~~~~-v~-------~~~~~~~~~~~l~~-~~da~~~-~~~~ 194 (294)
T PF04392_consen 150 EQLRKAAKKLG-IELVEIP-VP-------SSEDLEQALEALAE-KVDALYL-LPDN 194 (294)
T ss_dssp HHHHHHHHHTT--EEEEEE-ES-------SGGGHHHHHHHHCT-T-SEEEE--S-H
T ss_pred HHHHHHHHHcC-CEEEEEe-cC-------cHhHHHHHHHHhhc-cCCEEEE-ECCc
Confidence 78888889999 8876543 32 23577778887754 6688887 5544
No 163
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.56 E-value=0.025 Score=55.25 Aligned_cols=200 Identities=12% Similarity=0.094 Sum_probs=117.5
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~ 110 (550)
.+-.||+++|.. ...-.....+++.+.++ .|+.+.+. .+..++..-.+....++. .++.+||- +......
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~-----~g~~~~~~--~~~~~~~~~~~~~~~l~~-~~vdgiIi~~~~~~~~ 131 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQ-----RGYQLLIA--CSDDQPDNEMRCAEHLLQ-RQVDALIVSTSLPPEH 131 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHH-----cCCEEEEE--eCCCCHHHHHHHHHHHHH-cCCCEEEEcCCCCCCh
Confidence 457899999853 22223344555555544 26666553 344455444444555554 57887764 2222122
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC--CCCcchhHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLAL 188 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~ 188 (550)
..+. .+...++|+|..... .+ ...+++ +..++...+..++++|...|-++++++..... .. ....+.
T Consensus 132 ~~~~-~l~~~~iPvV~v~~~--~~---~~~~~~---V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~--~~R~~G 200 (328)
T PRK11303 132 PFYQ-RLQNDGLPIIALDRA--LD---REHFTS---VVSDDQDDAEMLAESLLKFPAESILLLGALPELSVS--FEREQG 200 (328)
T ss_pred HHHH-HHHhcCCCEEEECCC--CC---CCCCCE---EEeCCHHHHHHHHHHHHHCCCCeEEEEeCccccccH--HHHHHH
Confidence 2233 344679999987654 11 122233 45677778888899988889999999976433 23 456678
Q ss_pred HHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
|.+.+++.| +.+.... .... +..+-...++++.+. .++.|+. .+...+..+++++.+.|+.-+
T Consensus 201 f~~al~~~g-~~~~~~~-~~~~-----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~al~~~g~~vP 265 (328)
T PRK11303 201 FRQALKDDP-REVHYLY-ANSF-----EREAGAQLFEKWLETHPMPDALFT--TSYTLLQGVLDVLLERPGELP 265 (328)
T ss_pred HHHHHHHcC-CCceEEE-eCCC-----ChHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCC
Confidence 889999888 6543211 1111 112333445555443 4666665 455667788999999998533
No 164
>cd06316 PBP1_ABC_sugar_binding_like_7 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.55 E-value=0.041 Score=52.74 Aligned_cols=205 Identities=10% Similarity=0.000 Sum_probs=113.5
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v~ 114 (550)
|||+++|... ..+...+..++++.-.+ .|+++.+. .++..++..-.+....++. .++.+||= +..........
T Consensus 1 ~i~~i~~~~~---~~~~~~~~~gi~~~a~~-~g~~~~~~-~~~~~~~~~~~~~l~~~~~-~~~dgiii~~~~~~~~~~~i 74 (294)
T cd06316 1 KAAIVMHTSG---SDWSNAQVRGAKDEFAK-LGIEVVAT-TDAQFDPAKQVADIETTIS-QKPDIIISIPVDPVSTAAAY 74 (294)
T ss_pred CeEEEecCCC---ChHHHHHHHHHHHHHHH-cCCEEEEe-cCCCCCHHHHHHHHHHHHH-hCCCEEEEcCCCchhhhHHH
Confidence 6899997532 22333333333332222 26666533 3556677666666677776 47776553 43322223344
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCCCCCcchhHHHHHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAEA 192 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~~ 192 (550)
..+...++|+|..... .+.... ...++..+..+....+..++++|... +-++++++..+.+........+.+.+.
T Consensus 75 ~~~~~~~iPvV~~~~~--~~~~~~-~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~ 151 (294)
T cd06316 75 KKVAEAGIKLVFMDNV--PSGLEH-GKDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKET 151 (294)
T ss_pred HHHHHcCCcEEEecCC--Cccccc-CcceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHHH
Confidence 4566789999987754 221111 11233446677777888889988665 789999997644321113445777777
Q ss_pred HhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
+++.+ ..+......... ........++++.+. .++.|+. .+...+..+++.+++.|+
T Consensus 152 l~~~~-~~~~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~ 210 (294)
T cd06316 152 IKKNY-PDITIVAEKGID-----GPSKAEDIANAMLTQNPDLKGIYA--VWDVPAEGVIAALRAAGR 210 (294)
T ss_pred HHHhC-CCcEEEeecCCc-----chhHHHHHHHHHHHhCCCeeEEEe--CCCchhHHHHHHHHHcCC
Confidence 77554 322211111110 112223344554433 4555554 556678899999999997
No 165
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=97.54 E-value=0.00017 Score=65.24 Aligned_cols=75 Identities=17% Similarity=0.342 Sum_probs=60.5
Q ss_pred eEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEee
Q 008863 455 MRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNYH 534 (550)
Q Consensus 455 ~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~~ 534 (550)
+++..+ ..+.||.+...+. .+.||++|+++.+.+.+|++ +++++. .|+.++..|.+|++|++++
T Consensus 2 l~v~~~--~~~~p~~~~~~~g----------~~~G~~~~~~~~~~~~~g~~--~~~~~~--~~~~~~~~l~~g~~D~~~~ 65 (219)
T smart00062 2 LRVGTN--GDYPPFSFADEDG----------ELTGFDVDLAKAIAKELGLK--VEFVEV--SFDNLLTALKSGKIDVVAA 65 (219)
T ss_pred EEEEec--CCCCCcEEECCCC----------CcccchHHHHHHHHHHhCCe--EEEEec--cHHHHHHHHHCCcccEEec
Confidence 456653 3568888764332 58899999999999999988 777775 7999999999999999999
Q ss_pred ceeeeeeeeeE
Q 008863 535 DKLLFKKKKRL 545 (550)
Q Consensus 535 ~~ti~~~r~~~ 545 (550)
....+.+|+..
T Consensus 66 ~~~~~~~~~~~ 76 (219)
T smart00062 66 GMTITPERAKQ 76 (219)
T ss_pred cccCCHHHHhh
Confidence 88777777653
No 166
>cd06290 PBP1_LacI_like_9 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.51 E-value=0.014 Score=54.97 Aligned_cols=199 Identities=14% Similarity=0.101 Sum_probs=112.0
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
.||+++|.. ...-.....+++.+.++ .|+.+.+ .++..++..-.+....+++ .++.++|-..+......+.
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~-----~gy~~~~--~~~~~~~~~~~~~i~~l~~-~~~dgiii~~~~~~~~~~~ 72 (265)
T cd06290 1 TIGVLTQDFASPFYGRILKGMERGLNG-----SGYSPII--ATGHWNQSRELEALELLKS-RRVDALILLGGDLPEEEIL 72 (265)
T ss_pred CEEEEECCCCCchHHHHHHHHHHHHHH-----CCCEEEE--EeCCCCHHHHHHHHHHHHH-CCCCEEEEeCCCCChHHHH
Confidence 488999754 22222333444433332 2566544 4455566544455555655 5777776322211112222
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHh
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (550)
.+ . .++|+|..... .+. ...++ +..+....+..++++|...|-++++++..+..........+.+.+.+.
T Consensus 73 ~~-~-~~iPvV~i~~~--~~~---~~~~~---V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 142 (265)
T cd06290 73 AL-A-EEIPVLAVGRR--VPG---PGAAS---IAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALE 142 (265)
T ss_pred HH-h-cCCCEEEECCC--cCC---CCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHH
Confidence 23 2 48999988764 221 12233 557788888889998887899999999765332111455677888888
Q ss_pred cCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
+.+ +.+.....+.... +.......++++.+. .++.|+. ++...+..+++.+++.|+.-
T Consensus 143 ~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~aii~--~~~~~a~~~~~~l~~~g~~i 202 (265)
T cd06290 143 EAG-LEVQPDLIVQGDF----EEESGLEAVEELLQRGPDFTAIFA--ANDQTAYGARLALYRRGLRV 202 (265)
T ss_pred HcC-CCCCHHHEEecCC----CHHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCC
Confidence 777 6543211111111 112233455555543 4566654 56677788899999999853
No 167
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.48 E-value=0.033 Score=54.32 Aligned_cols=201 Identities=12% Similarity=0.110 Sum_probs=115.2
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~ 110 (550)
++-.||+++|.. ...-.....+++.+.++. |+.+.+ .++..++..-.+....+++ .++.+||= |.....
T Consensus 55 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~--~~~~~~~~~~~~~~~~l~~-~~vdGiI~~~~~~~~- 125 (327)
T PRK10423 55 QTRTIGMLITASTNPFYSELVRGVERSCFER-----GYSLVL--CNTEGDEQRMNRNLETLMQ-KRVDGLLLLCTETHQ- 125 (327)
T ss_pred CCCeEEEEeCCCCCCcHHHHHHHHHHHHHHc-----CCEEEE--EeCCCCHHHHHHHHHHHHH-cCCCEEEEeCCCcch-
Confidence 457899999864 223334555665555542 566554 4445566555555555555 56776663 222111
Q ss_pred HHHHHhhcc-CCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC--CCCcchhHH
Q 008863 111 AVVAEIASR-VQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLA 187 (550)
Q Consensus 111 ~~v~~~~~~-~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~ 187 (550)
. ....... .++|+|..... +. ....+ .+..+....+..++++|...|-+++++|..... .. ....+
T Consensus 126 ~-~~~~l~~~~~iPvV~i~~~---~~--~~~~~---~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~--~~R~~ 194 (327)
T PRK10423 126 P-SREIMQRYPSVPTVMMDWA---PF--DGDSD---LIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPA--RLRLE 194 (327)
T ss_pred h-hHHHHHhcCCCCEEEECCc---cC--CCCCC---EEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccch--HHHHH
Confidence 1 1112223 48999987643 11 11112 245565666888889998889999999975432 22 45678
Q ss_pred HHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 188 ~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
.|.+.+++.| +.+.....+.... ........++++.+. .++.|+. ++...+..+++.+++.|+.-+
T Consensus 195 Gf~~al~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~~l~~~g~~vP 262 (327)
T PRK10423 195 GYRAAMKRAG-LNIPDGYEVTGDF----EFNGGFDAMQQLLALPLRPQAVFT--GNDAMAVGVYQALYQAGLSVP 262 (327)
T ss_pred HHHHHHHHcC-CCCCcceEEeCCC----ChHHHHHHHHHHhcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCC
Confidence 8899999888 6543221111111 112223445555433 4566554 566677789999999998543
No 168
>cd06286 PBP1_CcpB_like Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. This group includes the ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. CcpB is 30% identical in sequence to CcpA which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. Like CcpA, the DNA-binding protein CcpB exerts its catabolite-repressing effect by a mechanism dependent on the presence of HPr(Ser-P), the small phosphocarrier proteins of the phosphoenolpyruvate-sugar phosphotransferase system, but with a less significant degree.
Probab=97.46 E-value=0.018 Score=53.97 Aligned_cols=196 Identities=12% Similarity=0.088 Sum_probs=118.4
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
.||+++|.. ..+-.....+++.+.++. |+.+.+ .++..++....+....++. .++.+||=.........+.
T Consensus 1 ~i~~i~~~~~~~~~~~i~~gi~~~~~~~-----g~~~~~--~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~~~~~~~~~ 72 (260)
T cd06286 1 TIGVVLPYINHPYFSQLVDGIEKAALKH-----GYKVVL--LQTNYDKEKELEYLELLKT-KQVDGLILCSRENDWEVIE 72 (260)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHHc-----CCEEEE--EeCCCChHHHHHHHHHHHH-cCCCEEEEeCCCCCHHHHH
Confidence 478999864 334456667777776653 566654 4455566555566666665 5777666322211223344
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC--CCCcchhHHHHHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLALLAEA 192 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~l~~~ 192 (550)
.+.. .+ |++..... .+ ...+ .+.++....+..++++|...|-++++++..+.. .. ....+.|.+.
T Consensus 73 ~~~~-~~-pvv~~~~~--~~----~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~--~~R~~Gf~~~ 139 (260)
T cd06286 73 PYTK-YG-PIVLCEEY--DS----KNIS---SVYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNS--QSRKKAYKDA 139 (260)
T ss_pred HHhc-CC-CEEEEecc--cC----CCCC---EEEECChHHHHHHHHHHHHCCCceEEEEcCCcccchh--HHHHHHHHHH
Confidence 4433 34 88876643 11 2223 366788888889999998889999999976532 22 4556788888
Q ss_pred HhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
+++.| +.+.....+.... +..+-...++++.+. .++.|+ +++...+..+++.+++.|+.-
T Consensus 140 l~~~~-~~~~~~~i~~~~~----~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~~~~~~l~~~g~~i 201 (260)
T cd06286 140 LEEYG-LTPDEEWIFEGCF----TIEDGERIGHQLLKMKDRPDAIF--TGSDEVAAGIITEAKKQGIRV 201 (260)
T ss_pred HHHcC-CCCChHheEeCCC----CHHHHHHHHHHHHcCCCCCCEEE--EcchHHHHHHHHHHHHcCCCC
Confidence 98887 6543211111111 122334455555543 456555 466677788999999999853
No 169
>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=97.45 E-value=0.026 Score=53.24 Aligned_cols=198 Identities=11% Similarity=0.112 Sum_probs=111.0
Q ss_pred EEEEEEec---C-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 36 KIGAIVDA---N-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 36 ~IG~i~~~---~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
.||+++|. . ..+-.....+++-+.++. |+.+.+...+. +...-......+++ .++.+||-......
T Consensus 1 ~vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~-----g~~~~~~~~~~--~~~~~~~~~~~l~~-~~vdgiii~~~~~~-- 70 (268)
T cd06277 1 NIGLIASKRILNSPAFYSEIYRAIEEEAKKY-----GYNLILKFVSD--EDEEEFELPSFLED-GKVDGIILLGGIST-- 70 (268)
T ss_pred CeEEEEeccccccCCcHHHHHHHHHHHHHHc-----CCEEEEEeCCC--ChHHHHHHHHHHHH-CCCCEEEEeCCCCh--
Confidence 38999987 2 223334445555555442 67776665443 33222222333444 57887775222211
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
.....+...++|+|..... .+. ...++ +..+....+...++++...|.++++++.............+.|.+
T Consensus 71 ~~~~~l~~~~ipvV~~~~~--~~~---~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~ 142 (268)
T cd06277 71 EYIKEIKELGIPFVLVDHY--IPN---EKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDPLYSPSFEERYEGYKK 142 (268)
T ss_pred HHHHHHhhcCCCEEEEccC--CCC---CCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCCCCCcchHHHHHHHHH
Confidence 2244556779999987654 221 12233 445667777778888888899999999765432111445677888
Q ss_pred HHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
.+++.| +.+.....+.... .........++++.. .++.|+. ++...+..+++++++.|+.
T Consensus 143 ~~~~~~-~~~~~~~~~~~~~---~~~~~~~~~l~~~~~-~~~ai~~--~~d~~a~g~~~a~~~~g~~ 202 (268)
T cd06277 143 ALLDHG-IPFNEDYDITEKE---EDEEDIGKFIDELKP-LPTAFFC--SNDGVAFLLIKVLKEMGIR 202 (268)
T ss_pred HHHHcC-CCCCcceEEEcch---hHHHHHHHHHhcCCC-CCCEEEE--CCcHHHHHHHHHHHHcCCC
Confidence 888887 6543221111100 012233333333222 3566555 5566667888999999985
No 170
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.45 E-value=0.063 Score=50.78 Aligned_cols=174 Identities=10% Similarity=0.026 Sum_probs=106.3
Q ss_pred CcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEE
Q 008863 68 NHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIR 146 (550)
Q Consensus 68 ~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~ 146 (550)
|+.+.+ .++..++..-.+...++++ .++.+||= +..+.........+...+||+|..... .+.. ..+....
T Consensus 29 G~~~~~--~~~~~d~~~~~~~i~~~~~-~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~--~~~~---~~~~~~~ 100 (272)
T cd06313 29 GVDVTW--YGGALDAVKQVAAIENMAS-QGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTL--IAPL---QINVHSF 100 (272)
T ss_pred CCEEEE--ecCCCCHHHHHHHHHHHHH-cCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCC--CCCC---CCceEEE
Confidence 555554 5666687777777778876 57776664 433333333434456679999998764 2211 1122334
Q ss_pred EecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHH
Q 008863 147 MASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGEL 224 (550)
Q Consensus 147 ~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l 224 (550)
+.++....+..++++|... +.++++++..+..........+.|.+.+++.+..++... ..... +.......+
T Consensus 101 v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~~~----~~~~~~~~~ 174 (272)
T cd06313 101 LAPDNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPANW----DVSKAARIW 174 (272)
T ss_pred ECCCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCCCC----CHHHHHHHH
Confidence 6788888899999998766 889999997653321114467788888877531444321 11111 223344555
Q ss_pred HHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 225 KKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 225 ~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
+++.+. .+++|+ +.+...+..+++.+++.|+
T Consensus 175 ~~~l~~~~~~~ai~--~~nd~~a~g~~~al~~~g~ 207 (272)
T cd06313 175 ETWLTKYPQLDGAF--CHNDSMALAAYQIMKAAGR 207 (272)
T ss_pred HHHHHhCCCCCEEE--ECCCcHHHHHHHHHHHcCC
Confidence 555443 345544 4666777788999999998
No 171
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.44 E-value=0.034 Score=54.21 Aligned_cols=202 Identities=14% Similarity=0.167 Sum_probs=130.3
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
++-.||+++|.- ...-.....|++.+.++. |+.+-+ ..+..++..-.+....++. .++.+||=.. .....
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~~-----gy~~~l--~~~~~~~~~e~~~~~~l~~-~~vdGiIi~~-~~~~~ 127 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAAREA-----GYSLLL--ANTDDDPEKEREYLETLLQ-KRVDGLILLG-ERPND 127 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHHc-----CCEEEE--ECCCCCHHHHHHHHHHHHH-cCCCEEEEec-CCCCH
Confidence 577899999843 222334555555555543 555544 4444466555555555554 6888877433 22333
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcC--CCCCcchhHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN--VYGGDSGKLALL 189 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~--~~g~~~~~~~~l 189 (550)
.....+...++|+|..+.. .+ ...++ .+..++...+..++++|...|.+++++|.... ..+ ....+.+
T Consensus 128 ~~~~~l~~~~~P~V~i~~~--~~---~~~~~---~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~--~~R~~Gf 197 (333)
T COG1609 128 SLLELLAAAGIPVVVIDRS--PP---GLGVP---SVGIDNFAGAYLATEHLIELGHRRIAFIGGPLDSSAS--RERLEGY 197 (333)
T ss_pred HHHHHHHhcCCCEEEEeCC--Cc---cCCCC---EEEEChHHHHHHHHHHHHHCCCceEEEEeCCCccccH--hHHHHHH
Confidence 3455666779999998865 23 22233 46788899999999999999999999999873 344 6667889
Q ss_pred HHHHhcCCCeEE-EEEeecCCCCCCCCChHHHHHHHHHhhcC--C-CeEEEEEcCCHHHHHHHHHHHHHcCCCCCC
Q 008863 190 AEALQNVSSSEI-QSRLVLPPISSISDPKEAVRGELKKVQDK--Q-SRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (550)
Q Consensus 190 ~~~l~~~g~~~v-~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~-~~~ii~~~~~~~~~~~il~~a~~~g~~~~~ 261 (550)
.+.+.+.| +.. ......... ...+-...+.++... . ++.|+. ++...+..+++++.+.|+..++
T Consensus 198 ~~al~~~~-~~~~~~~i~~~~~-----~~~~g~~~~~~ll~~~~~~ptAif~--~nD~~Alg~l~~~~~~g~~vP~ 265 (333)
T COG1609 198 RAALREAG-LPINPEWIVEGDF-----SEESGYEAAERLLARGEPRPTAIFC--ANDLMALGALRALRELGLRVPE 265 (333)
T ss_pred HHHHHHCC-CCCCcceEEecCC-----ChHHHHHHHHHHHhcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCC
Confidence 99999999 764 221111111 123444455555543 2 667665 7788899999999999987554
No 172
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=97.43 E-value=0.072 Score=50.86 Aligned_cols=202 Identities=13% Similarity=0.114 Sum_probs=116.2
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (550)
+||+++|.. ...-.....+++-+.++. |+.+. +.++..++..-.+...+++. .++.+||- +..+......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~a~~~-----g~~~~--~~~~~~~~~~~~~~i~~~~~-~~vdgiii~~~~~~~~~~~ 72 (288)
T cd01538 1 KIGLSLPTKTEERWIRDRPNFEAALKEL-----GAEVI--VQNANGDPAKQISQIENMIA-KGVDVLVIAPVDGEALASA 72 (288)
T ss_pred CeEEEEeCCCcHHHHHHHHHHHHHHHHc-----CCEEE--EECCCCCHHHHHHHHHHHHH-cCCCEEEEecCChhhHHHH
Confidence 489999854 323344555666555553 45544 45666677666666667776 57876663 3333333344
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc------CCeEEEEEEEcCCCCCcchhHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY------NWRRVAAIYEDNVYGGDSGKLA 187 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~------~w~~v~ii~~~~~~g~~~~~~~ 187 (550)
...+...++|+|..... .+.. ...+ .+..+....+..++++|... |-++++++..+..........+
T Consensus 73 l~~l~~~~ipvV~~~~~--~~~~---~~~~--~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~ 145 (288)
T cd01538 73 VEKAADAGIPVIAYDRL--ILNS---NVDY--YVSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFN 145 (288)
T ss_pred HHHHHHCCCCEEEECCC--CCCC---Ccce--EEEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHH
Confidence 44566789999998765 2211 1122 34567777777788877555 8889999976443211134556
Q ss_pred HHHHHHhcCC---CeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC---CCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 188 LLAEALQNVS---SSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 188 ~l~~~l~~~g---~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
.|++.+++.+ .+.+.... ..... +..+....++++.+. .++.|+. .+...+..++.++++.|+..
T Consensus 146 gf~~~l~~~~~~~~~~~~~~~-~~~~~----~~~~~~~~~~~~l~~~~~~~~~I~~--~~d~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 146 GAMSVLKPLIDSGKITIVGEV-ATPDW----DPETAQKRMENALTANYNKVDGVLA--ANDGTAGGAIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHhccccCCeeEEecc-ccCCC----CHHHHHHHHHHHHHhCCCCccEEEe--CCcHHHHHHHHHHHHcCCCC
Confidence 6777887764 02222111 11110 112233445555433 3455554 56677788999999999865
No 173
>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=97.42 E-value=0.023 Score=53.76 Aligned_cols=205 Identities=10% Similarity=0.148 Sum_probs=121.0
Q ss_pred EEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChH---HHH
Q 008863 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWE---ETA 111 (550)
Q Consensus 37 IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~---~~~ 111 (550)
||+++|.. ..+-.....+++-+.++. |+.+. +.++..++....+...+++. .++.++|= |..+. ...
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~l~~-~~vdgii~~~~~~~~~~~~~ 73 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSEK-----GYSLL--LASTNNDPERERKCLENMLS-QGIDGLIIEPTKSALPNPNI 73 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHHc-----CCEEE--EEeCCCCHHHHHHHHHHHHH-cCCCEEEEeccccccccccH
Confidence 78888754 222233444444443332 55554 45566777777777778876 58887763 32211 111
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC-CCCcchhHHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALLA 190 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~l~ 190 (550)
.....+...++|+|..... .+. .. +..+..++...+..+++++...|.++++++...+. .+ ....+.+.
T Consensus 74 ~~~~~~~~~~ipvV~~~~~--~~~---~~---~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~--~~r~~g~~ 143 (273)
T cd01541 74 DLYLKLEKLGIPYVFINAS--YEE---LN---FPSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQG--VKRMKGFI 143 (273)
T ss_pred HHHHHHHHCCCCEEEEecC--CCC---CC---CCEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccH--HHHHHHHH
Confidence 2233456779999998754 211 11 22467788888899999998889999998875432 22 44567788
Q ss_pred HHHhcCCCeEEEEEe--ecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEE
Q 008863 191 EALQNVSSSEIQSRL--VLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~--~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (550)
+.+++.+ ..+.... ...... ........++++.+. .+++|+ +.+...+..+++++++.|+..++-+-++
T Consensus 144 ~~l~~~~-~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~av~--~~~d~~a~g~~~al~~~g~~~p~dv~vv 216 (273)
T cd01541 144 KAYREHG-IPFNPSNVITYTTEE----KEEKLFEKIKEILKRPERPTAIV--CYNDEIALRVIDLLKELGLKIPEDISVV 216 (273)
T ss_pred HHHHHcC-CCCChHHEEeccccc----hhhHHHHHHHHHHcCCCCCCEEE--EcCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 8888877 5322111 111110 112344555555443 456655 4666777789999999998644333333
No 174
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.41 E-value=0.00023 Score=82.45 Aligned_cols=81 Identities=10% Similarity=0.053 Sum_probs=63.7
Q ss_pred CCCeEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccE
Q 008863 452 QEPMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYF 531 (550)
Q Consensus 452 ~~~~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~ 531 (550)
.++++|++. .++.||..... . +.+++||-+|++++|++.+|.+ +++++. .+|+.++..|.+|++||
T Consensus 55 ~~~l~vgv~--~~~~p~~~~~~-~--------~g~~~G~~~D~l~~ia~~lG~~--~e~v~~-~~~~~~l~~l~~g~iDl 120 (1197)
T PRK09959 55 KKNLVIAVH--KSQTATLLHTD-S--------QQRVRGINADYLNLLKRALNIK--LTLREY-ADHQKAMDALEEGEVDI 120 (1197)
T ss_pred CCeEEEEec--CCCCCCceeec-C--------CCccceecHHHHHHHHHhcCCc--eEEEeC-CCHHHHHHHHHcCCCcE
Confidence 355777764 23445544422 1 1179999999999999999999 888774 37999999999999999
Q ss_pred EeeceeeeeeeeeEE
Q 008863 532 NYHDKLLFKKKKRLC 546 (550)
Q Consensus 532 a~~~~ti~~~r~~~~ 546 (550)
..+.+++|.+|++.+
T Consensus 121 ~~~~~~~~~~r~~~~ 135 (1197)
T PRK09959 121 VLSHLVASPPLNDDI 135 (1197)
T ss_pred ecCccccccccccch
Confidence 999999999998754
No 175
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.41 E-value=0.04 Score=54.22 Aligned_cols=203 Identities=12% Similarity=0.090 Sum_probs=113.9
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
.+-.||+++|.- ..+-.....+++.+.++. |+.+ .+.+...++..-.+....++. .++.++|-........
T Consensus 58 ~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~~-----g~~~--~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~~~~~~ 129 (343)
T PRK10727 58 STETVGLVVGDVSDPFFGAMVKAVEQVAYHT-----GNFL--LIGNGYHNEQKERQAIEQLIR-HRCAALVVHAKMIPDA 129 (343)
T ss_pred CCCeEEEEeCCCCcchHHHHHHHHHHHHHHc-----CCEE--EEEeCCCCHHHHHHHHHHHHh-cCCCEEEEecCCCChH
Confidence 567899999743 222233444554444442 5554 344555566555555556665 5777766421111122
Q ss_pred HHHHhhccCCcc-EEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHH
Q 008863 112 VVAEIASRVQVP-ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 112 ~v~~~~~~~~iP-~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
.+..+.. ++| ++..... .+. ...++ +.+++...+..++++|...|.+++++|.............+.|.
T Consensus 130 ~~~~~~~--~~p~vV~i~~~--~~~---~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 199 (343)
T PRK10727 130 ELASLMK--QIPGMVLINRI--LPG---FENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGYY 199 (343)
T ss_pred HHHHHHh--cCCCEEEEecC--CCC---CCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHHH
Confidence 2333332 677 6765543 111 11233 56677777888888888889999999975433111145668889
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
+.+++.| +.+.......... +...-...++++.+. .++.|+. .+...+..+++++++.|+.-+
T Consensus 200 ~al~~~g-i~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~nD~~A~g~~~al~~~G~~vP 264 (343)
T PRK10727 200 DALAESG-IPANDRLVTFGEP----DESGGEQAMTELLGRGRNFTAVAC--YNDSMAAGAMGVLNDNGIDVP 264 (343)
T ss_pred HHHHHCC-CCCChhhEEeCCC----ChhHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCC
Confidence 9999888 6543211111110 112223345555443 3565554 566778889999999998543
No 176
>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=97.41 E-value=0.02 Score=53.81 Aligned_cols=196 Identities=12% Similarity=0.142 Sum_probs=110.8
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
.||+++|.. ..+......+++.+.++. |+.+.+...+ +... ....+.+ .++.+||-.........+
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~~~~~---~~~~---~~~~l~~-~~vdgii~~~~~~~~~~~- 67 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAISKN-----GYNMNVSITP---SLAE---AEDLFKE-NRFDGVIIFGESASDVEY- 67 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHHHc-----CCEEEEEecc---cHHH---HHHHHHH-cCcCEEEEeCCCCChHHH-
Confidence 478999864 223334445555544432 5666665433 2222 2233443 577766532222122222
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHh
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (550)
..+...++|+|..... .+ ...++ +..++...+..+++++...|.++++++...............+++.++
T Consensus 68 ~~~~~~~ipvV~~~~~--~~----~~~~~---V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 138 (261)
T cd06272 68 LYKIKLAIPVVSYGVD--YD----LKYPI---VNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCD 138 (261)
T ss_pred HHHHHcCCCEEEEccc--CC----CCCCE---EEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHH
Confidence 3445788999987654 22 22233 567788888889999988899999999765431111445677888888
Q ss_pred cCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 195 NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 195 ~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
+.| +.+.......... ........+.++.+. .+++|+. ++...+..+++.+++.|+.-+
T Consensus 139 ~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~~l~~~g~~vp 199 (261)
T cd06272 139 ENG-ISISDSHIDVDGL----SAEGGDNAAKKLLKESDLPTAIIC--GSYDIALGVLSALNKQGISIP 199 (261)
T ss_pred HcC-CCCCHHHeeeCCC----CHHHHHHHHHHHHcCCCCCCEEEE--CCcHHHHHHHHHHHHhCCCCC
Confidence 887 5332211111111 122333455555443 3566554 566667789999999998543
No 177
>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=97.39 E-value=0.075 Score=50.96 Aligned_cols=198 Identities=12% Similarity=0.013 Sum_probs=109.5
Q ss_pred EEEEEEecCC-ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHH-HHH
Q 008863 36 KIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEE-TAV 112 (550)
Q Consensus 36 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~-~~~ 112 (550)
|||+++|... ..-.....+++-+.++. |+.+.+...+...+...-.+....+++ .++.+||= +..... ...
T Consensus 1 ~igvvvp~~~n~f~~~~~~gi~~~a~~~-----g~~v~~~~~~~~~~~~~~~~~i~~l~~-~~vDgiIi~~~~~~~~~~~ 74 (295)
T TIGR02955 1 KLCALYPHLKDSYWLSINYGMVEQAKHL-----GVELKVLEAGGYPNLDKQLAQIEQCKS-WGADAILLGTVSPEALNHD 74 (295)
T ss_pred CeeEEecCCCcHHHHHHHHHHHHHHHHh-----CCEEEEEcCCCCCCHHHHHHHHHHHHH-cCCCEEEEecCChhhhhHH
Confidence 5899998542 11223334444444432 666665433333455555556666665 68887763 322222 122
Q ss_pred HHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc-C----CeEEEEEEEcCCCCCcchhHH
Q 008863 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-N----WRRVAAIYEDNVYGGDSGKLA 187 (550)
Q Consensus 113 v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~-~----w~~v~ii~~~~~~g~~~~~~~ 187 (550)
+.. +. .++|+|..... ... . ..+..+..+....+..++++|... . -.+++++.............+
T Consensus 75 l~~-~~-~~iPvV~~~~~--~~~--~---~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~~~R~~ 145 (295)
T TIGR02955 75 LAQ-LT-KSIPVFALVNQ--IDS--N---QVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGTKPVTQ 145 (295)
T ss_pred HHH-Hh-cCCCEEEEecC--CCc--c---ceeEEEeecHHHHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCchhHHHH
Confidence 333 33 48999876432 111 1 123346677777888888888651 1 346999976543211155678
Q ss_pred HHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 188 ~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
.+++.+++.| +.+... ..... ....-...++++.+. ..++| +++...+..+++++++.|+.
T Consensus 146 Gf~~al~~~g-~~~~~~--~~~~~----~~~~~~~~~~~~L~~~~~~d~i---~~~d~~a~g~l~al~~~g~~ 208 (295)
T TIGR02955 146 GFRAALEGSD-VEISAI--LWADN----DKELQRNLLQDLLKKHPDIDYL---VGSAVAAEAAISELRSLHMT 208 (295)
T ss_pred HHHHHHhcCC-cEEEEE--ecCCC----cHHHHHHHHHHHHHhCCCcCEE---EeccHHHHHHHHHHHhhCcc
Confidence 8999999888 776532 11111 223334455555433 35643 34556677888998888873
No 178
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=97.38 E-value=0.00025 Score=67.38 Aligned_cols=60 Identities=15% Similarity=0.145 Sum_probs=50.8
Q ss_pred ccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEeeceeeeeeeeeEEE
Q 008863 486 RYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNYHDKLLFKKKKRLCL 547 (550)
Q Consensus 486 ~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~~~~ti~~~r~~~~~ 547 (550)
.+.||.|||++++++.++-. -....+.-.|++++..|..|+.|+.++.+++|.||++.+.
T Consensus 57 ~~~G~dvdl~~~ia~~l~~~--~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~er~~~~~ 116 (275)
T COG0834 57 KLVGFDVDLAKAIAKRLGGD--KKVEFVPVAWDGLIPALKAGKVDIIIAGMTITPERKKKVD 116 (275)
T ss_pred eEEeeeHHHHHHHHHHhCCc--ceeEEeccchhhhhHHHhcCCcCEEEeccccCHHHhcccc
Confidence 79999999999999998876 2233334579999999999999999999999998877553
No 179
>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=97.34 E-value=0.046 Score=53.34 Aligned_cols=208 Identities=10% Similarity=0.065 Sum_probs=118.4
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~ 110 (550)
.+-.||+++|.. ...-.....+++-+.++ .|+.+.+. +...++..-.+....++. .++.++|- |......
T Consensus 59 ~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~-----~gy~~~i~--~~~~~~~~~~~~~~~l~~-~~vdgiIi~~~~~~~~ 130 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSYARIAKELEQQCRE-----AGYQLLIA--CSDDNPDQEKVVIENLLA-RQVDALIVASCMPPED 130 (327)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHH-----CCCEEEEE--eCCCCHHHHHHHHHHHHH-cCCCEEEEeCCCCCCh
Confidence 467899999853 22233444455444443 26666543 344455444445555554 57777653 3322122
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
..+ ..+...++|+|..... .+. ...++ +.+++...+..++++|...|.++++++.............+.|+
T Consensus 131 ~~~-~~l~~~~iPvV~~~~~--~~~---~~~~~---V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~ 201 (327)
T TIGR02417 131 AYY-QKLQNEGLPVVALDRS--LDD---EHFCS---VISDDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGFR 201 (327)
T ss_pred HHH-HHHHhcCCCEEEEccc--cCC---CCCCE---EEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHHH
Confidence 223 3445679999987754 221 12333 55677777888888888889999999975443211145567788
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC---CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEE
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (550)
+.+.+.| +...... .... ...+-...++++.+. .++.|+. .+...+..+++++++.|-.+++...++
T Consensus 202 ~al~~~~-~~~~~~~-~~~~-----~~~~~~~~~~~ll~~~~~~~~Ai~~--~~D~~A~g~~~al~~~g~vP~dvsvig 271 (327)
T TIGR02417 202 QALKQAT-LEVEWVY-GGNY-----SRESGYQMFAKLCARLGRLPQALFT--TSYTLLEGVLDYMLERPLLDSQLHLAT 271 (327)
T ss_pred HHHHHcC-CChHhEE-eCCC-----ChHHHHHHHHHHHhcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 8888888 6432111 1111 112333455555443 3566665 556667789999999993333433343
No 180
>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=97.31 E-value=0.029 Score=52.97 Aligned_cols=201 Identities=12% Similarity=0.084 Sum_probs=114.5
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
.||++.|.. ..+-.....++..+.++. |+.+.+...+ .+. ...+...+++...++.+||=...... ....
T Consensus 1 ~Igvi~p~~~~~~~~~~~~~i~~~~~~~-----gy~~~~~~~~--~~~-~~~~~~~~~l~~~~vdgvi~~~~~~~-~~~~ 71 (269)
T cd06297 1 TISVLLPVVATEFYRRLLEGIEGALLEQ-----RYDLALFPLL--SLA-RLKRYLESTTLAYLTDGLLLASYDLT-ERLA 71 (269)
T ss_pred CEEEEeCCCcChhHHHHHHHHHHHHHHC-----CCEEEEEeCC--CcH-HHHHHHHHHHHhcCCCEEEEecCccC-hHHH
Confidence 378899864 223334445555555553 6666665433 222 22333433333356666553222112 2334
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcC--C------CCCcchhH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN--V------YGGDSGKL 186 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~--~------~g~~~~~~ 186 (550)
..+...++|+|..... .+ ..++ +.++....+...++.|... .++++++.... . .. ....
T Consensus 72 ~~l~~~~iPvv~~~~~--~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~--~~R~ 138 (269)
T cd06297 72 ERRLPTERPVVLVDAE--NP-----RFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVF--AERR 138 (269)
T ss_pred HHHhhcCCCEEEEccC--CC-----CCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccH--HHHH
Confidence 4456789999988654 21 1233 4578888888888888766 79999886432 1 23 4557
Q ss_pred HHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEE
Q 008863 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVW 264 (550)
Q Consensus 187 ~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~ 264 (550)
+.+++.+++.| +.+.....+.... +..+....++++.+. .++.|+. .+...+..+++.+++.|..-++-+.
T Consensus 139 ~gf~~~~~~~g-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~~l~~~g~~vP~di~ 211 (269)
T cd06297 139 AGFQQALKDAG-RPFSPDLLAITDH----SEEGGRLAMRHLLEKASPPLAVFA--SADQQALGALQEAVELGLTVGEDVR 211 (269)
T ss_pred HHHHHHHHHcC-CCCChhhEEeCCC----ChhhHHHHHHHHHcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCCceE
Confidence 88889998888 6543211111111 123334556665543 3566665 5666778899999999975443343
Q ss_pred E
Q 008863 265 I 265 (550)
Q Consensus 265 i 265 (550)
+
T Consensus 212 v 212 (269)
T cd06297 212 V 212 (269)
T ss_pred E
Confidence 3
No 181
>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=97.30 E-value=0.043 Score=51.54 Aligned_cols=199 Identities=14% Similarity=0.176 Sum_probs=116.5
Q ss_pred EEEEEEecCC-ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHH
Q 008863 36 KIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (550)
.||+++|... ..-.....++..++++. |+++.+ .+...++..-......+.. .++.++|= |...... .
T Consensus 1 ~Ig~i~p~~~~~~~~~~~~~i~~~~~~~-----g~~~~~--~~~~~~~~~~~~~i~~l~~-~~~dgiii~~~~~~~~--~ 70 (263)
T cd06280 1 TVGLIVADIRNPFFTAVSRAVEDAAYRA-----GLRVIL--CNTDEDPEKEAMYLELMEE-ERVTGVIFAPTRATLR--R 70 (263)
T ss_pred CEEEEecccccccHHHHHHHHHHHHHHC-----CCEEEE--EeCCCCHHHHHHHHHHHHh-CCCCEEEEeCCCCCch--H
Confidence 4899998752 23344556666666653 666644 4445565544444455554 46665553 3221211 2
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC-CCCcchhHHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALLAEA 192 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~l~~~ 192 (550)
.. ....++|+|..... .+ ....++ +..+....+..++++|...|-++++++..... .. ....+.+++.
T Consensus 71 ~~-~~~~~iPvV~~~~~--~~---~~~~~~---v~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~--~~R~~gf~~~ 139 (263)
T cd06280 71 LA-ELRLSFPVVLIDRA--GP---AGRVDA---VVLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTG--AERRAGYEDA 139 (263)
T ss_pred HH-HHhcCCCEEEECCC--CC---CCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCH--HHHHHHHHHH
Confidence 22 34568999998754 22 122344 34677788888899998889999999976432 22 4556778888
Q ss_pred HhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEE
Q 008863 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (550)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (550)
+.+.+ +...... ... ...+....+.++.+. .+++|+ +.+...+..+++.+++.|+.-++-+.+
T Consensus 140 ~~~~~-~~~~~~~-~~~------~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~g~~~~l~~~g~~~p~di~i 204 (263)
T cd06280 140 MRRHG-LAPDARF-VAP------TAEAAEAALAAWLAAPERPEALV--ASNGLLLLGALRAVRAAGLRIPQDLAL 204 (263)
T ss_pred HHHcC-CCCChhh-ccc------CHHHHHHHHHHHhcCCCCCcEEE--ECCcHHHHHHHHHHHHcCCCCCCcEEE
Confidence 88887 6532211 111 112323444554433 456554 466677888999999999854333333
No 182
>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=97.27 E-value=0.17 Score=47.66 Aligned_cols=198 Identities=11% Similarity=0.101 Sum_probs=110.0
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-cCCChHHH-HHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEET-AVV 113 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~-~~v 113 (550)
+||++...+...-.....++..+.++. |+.+.+.. ++..+...-.+....++. .++.++| .|...... ..+
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~~~-~~~~~~~~~~~~i~~l~~-~~vDgiIi~~~~~~~~~~~l 73 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKEL-----GVDVEFVV-PQQGTVNAQLRMLEDLIA-EGVDGIAISPIDPKAVIPAL 73 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHHc-----CCeEEEeC-CCCCCHHHHHHHHHHHHh-cCCCEEEEecCChhHhHHHH
Confidence 478887554333334445555555442 55555432 344455555555666665 5787766 34333322 333
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
..+ .. ++|+|..... .+. ... +..+..+....+..+++++... +-.+++++.............+.+++
T Consensus 74 ~~~-~~-~ipvV~~~~~--~~~--~~~---~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~ 144 (271)
T cd06314 74 NKA-AA-GIKLITTDSD--APD--SGR---YVYIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKD 144 (271)
T ss_pred HHH-hc-CCCEEEecCC--CCc--cce---eEEEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHH
Confidence 444 45 9999998754 111 111 2235677778888888888653 33456666654321111456678899
Q ss_pred HHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 192 ALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 192 ~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
.+++.| +++.... .... ...+....++++.+. .++.|+. .+...+..++..+++.|+.
T Consensus 145 ~~~~~~-~~~~~~~-~~~~-----~~~~~~~~~~~~l~~~~~~~~i~~--~~d~~a~~~~~al~~~g~~ 204 (271)
T cd06314 145 AIKDSK-IEIVDTR-GDEE-----DFAKAKSNAEDALNAHPDLKCMFG--LYAYNGPAIAEAVKAAGKL 204 (271)
T ss_pred HHhcCC-cEEEEEe-cCcc-----CHHHHHHHHHHHHHhCCCccEEEe--cCCccHHHHHHHHHHcCCC
Confidence 999888 7764321 1111 123334455555443 3466654 3444555678888888886
No 183
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=97.26 E-value=0.14 Score=48.53 Aligned_cols=200 Identities=12% Similarity=0.062 Sum_probs=115.1
Q ss_pred EEEEEEecCC-ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHH
Q 008863 36 KIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (550)
+||+++|... ..-.....+++.+.++. |+.+. +.+...++..-.+....+++ .++.+||- +..+......
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~-----g~~v~--~~~~~~~~~~~~~~i~~~~~-~~~Dgiii~~~~~~~~~~~ 72 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKAL-----GYELI--STDAQGDLTKQIADVEDLLT-RGVNVLIINPVDPEGLVPA 72 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHc-----CCEEE--EEcCCCCHHHHHHHHHHHHH-cCCCEEEEecCCccchHHH
Confidence 5899998642 22233444555555542 55553 45665676666666666766 57766653 3333322333
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHH-cCCe--EEEEEEEcC--CCCCcchhHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWR--RVAAIYEDN--VYGGDSGKLAL 188 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~-~~w~--~v~ii~~~~--~~g~~~~~~~~ 188 (550)
...+...++|+|..... .+.. .+.+..+..+....+..++++|.. .|-+ +++++..+. ..+ ....+.
T Consensus 73 i~~~~~~~iPvV~~~~~--~~~~----~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~--~~R~~g 144 (282)
T cd06318 73 VAAAKAAGVPVVVVDSS--INLE----AGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIILLSGDAGNLVG--QARRDG 144 (282)
T ss_pred HHHHHHCCCCEEEecCC--CCCC----cCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEEEECCCCCchH--hHHHHh
Confidence 44556789999998753 1110 123445778888889999998865 6754 888887543 233 556677
Q ss_pred HHHHHhcCCCeEE------EEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 189 LAEALQNVSSSEI------QSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 189 l~~~l~~~g~~~v------~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
+++.+.+.+ ... .......... ...+....+.++... +++.|+. .+...+..+++++++.|+.
T Consensus 145 f~~~l~~~~-~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~g~~~al~~~g~~ 215 (282)
T cd06318 145 FLLGVSEAQ-LRKYGKTNFTIVAQGYGDW----TREGGLKAMEDLLVAHPDINVVYS--ENDDMALGAMRVLAEAGKT 215 (282)
T ss_pred HHHHHhhCc-ccccccCCeEEEecCCCCC----CHHHHHHHHHHHHHhCCCcCEEEE--CCcchHHHHHHHHHHcCCC
Confidence 888888775 421 1110011111 112323444454332 4565655 5556677899999999985
No 184
>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions. PBPs have two cell-membrane translocation functions: bind substrate, and interact with the membrane bound complex. A diverse group of periplasmic transport receptors for lysine/arginine/ornithine (LAO), glutamine, histidine, sulfate, phosphate, molybdate, and methanol are included in the PBPb CD.
Probab=97.26 E-value=0.00045 Score=62.46 Aligned_cols=68 Identities=16% Similarity=0.290 Sum_probs=56.6
Q ss_pred cccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEeeceeeeeeee
Q 008863 464 FFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNYHDKLLFKKKK 543 (550)
Q Consensus 464 ~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~~~~ti~~~r~ 543 (550)
.++||.....+. .++||+.|+++.+++.+|.+ +++++.. |..++..|.+|++|++++..+.+.+|+
T Consensus 8 ~~~p~~~~~~~g----------~~~G~~~~~~~~~~~~~g~~--~~~~~~~--~~~~~~~l~~g~~D~~~~~~~~~~~~~ 73 (218)
T cd00134 8 TYPPFSFRDANG----------ELTGFDVDLAKAIAKELGVK--VKFVEVD--WDGLITALKSGKVDLIAAGMTITPERA 73 (218)
T ss_pred CCCCeeEECCCC----------CEEeeeHHHHHHHHHHhCCe--EEEEeCC--HHHHHHHHhcCCcCEEeecCcCCHHHH
Confidence 456787653222 68999999999999999977 7777755 999999999999999999888888887
Q ss_pred eE
Q 008863 544 RL 545 (550)
Q Consensus 544 ~~ 545 (550)
+.
T Consensus 74 ~~ 75 (218)
T cd00134 74 KQ 75 (218)
T ss_pred hh
Confidence 65
No 185
>PRK09526 lacI lac repressor; Reviewed
Probab=97.25 E-value=0.1 Score=51.18 Aligned_cols=202 Identities=12% Similarity=0.078 Sum_probs=114.7
Q ss_pred CcEEEEEEEecCC-ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc--CCChHH
Q 008863 33 EVTKIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG--METWEE 109 (550)
Q Consensus 33 ~~i~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG--~~~s~~ 109 (550)
.+-.||+++|... ..-.....+++-+.++ .|+.+.+...+. .+...-.+....+++ .++.+||- +.....
T Consensus 62 ~~~~Igvv~~~~~~~~~~~~~~gi~~~a~~-----~g~~~~i~~~~~-~~~~~~~~~l~~l~~-~~vdGiii~~~~~~~~ 134 (342)
T PRK09526 62 QSLTIGLATTSLALHAPSQIAAAIKSRADQ-----LGYSVVISMVER-SGVEACQAAVNELLA-QRVSGVIINVPLEDAD 134 (342)
T ss_pred CCceEEEEeCCCCcccHHHHHHHHHHHHHH-----CCCEEEEEeCCC-ChHHHHHHHHHHHHh-cCCCEEEEecCCCcch
Confidence 4567999998542 2223444555555544 267776643322 223333344455554 57777663 433322
Q ss_pred HHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHH
Q 008863 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALL 189 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l 189 (550)
...+. ....++|++..... +. ...+ .+..++...+..++++|...|.++++++.............+.|
T Consensus 135 ~~~~~--~~~~~iPvV~~d~~---~~---~~~~---~V~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~Gf 203 (342)
T PRK09526 135 AEKIV--ADCADVPCLFLDVS---PQ---SPVN---SVSFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLAGW 203 (342)
T ss_pred HHHHH--hhcCCCCEEEEecc---CC---CCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHHHH
Confidence 22221 12358999887542 11 1122 35677788888899999888999999997643211114456778
Q ss_pred HHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCC
Q 008863 190 AEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKD 261 (550)
Q Consensus 190 ~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~ 261 (550)
++.+++.| +.+.... .... ...+-...+.++.+. .++.|+. ++...+..+++.+++.|+.-++
T Consensus 204 ~~al~~~g-i~~~~~~-~~~~-----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~g~~~al~~~g~~vP~ 268 (342)
T PRK09526 204 LEYLTDYQ-LQPIAVR-EGDW-----SAMSGYQQTLQMLREGPVPSAILV--ANDQMALGVLRALHESGLRVPG 268 (342)
T ss_pred HHHHHHcC-CCcceEE-eCCC-----chHHHHHHHHHHhcCCCCCcEEEE--cCcHHHHHHHHHHHHcCCCCCC
Confidence 88998888 7543221 1111 112223344454433 4565554 5667778899999999986443
No 186
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=97.23 E-value=0.059 Score=50.66 Aligned_cols=193 Identities=17% Similarity=0.171 Sum_probs=112.1
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (550)
.||++.|.. ..+-.....+++-+.++. |+.+. +.++..++..-.+....++. .++.+||- +.... .
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~--~~~~~~~~~~~~~~i~~~~~-~~~dgiii~~~~~~----~ 68 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYKK-----GYKLI--LCNSDNDPEKEREYLEMLRQ-NQVDGIIAGTHNLG----I 68 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHHC-----CCeEE--EecCCccHHHHHHHHHHHHH-cCCCEEEEecCCcC----H
Confidence 378888753 333334445555544442 55554 34454555544455555554 56776663 32222 1
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC-CCCcchhHHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALLAEA 192 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~l~~~ 192 (550)
..+...++|+|..... .+ ...++ +.++....+..++++|...|.++++++..... +.......+.+.+.
T Consensus 69 -~~~~~~gipvv~~~~~--~~----~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~ 138 (265)
T cd06291 69 -EEYENIDLPIVSFDRY--LS----ENIPI---VSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDV 138 (265)
T ss_pred -HHHhcCCCCEEEEeCC--CC----CCCCe---EeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHH
Confidence 2345679999998865 22 22333 56777778888899998889999999975443 21114556778889
Q ss_pred HhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
+++.+ +.+.... ..... +..+....++++.+. .++.|+. ++...+..+++.+.+.|..
T Consensus 139 l~~~~-~~~~~~~-~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~~~~~al~~~g~~ 198 (265)
T cd06291 139 LKENG-LEVRIIE-IQENF----DDAEKKEEIKELLEEYPDIDGIFA--SNDLTAILVLKEAQQRGIR 198 (265)
T ss_pred HHHcC-CCCChhe-eeccc----cchHHHHHHHHHHhCCCCCCEEEE--CChHHHHHHHHHHHHcCCC
Confidence 98887 6542211 11111 111223445555433 3455554 4555777899999999975
No 187
>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=97.22 E-value=0.042 Score=52.32 Aligned_cols=195 Identities=12% Similarity=0.137 Sum_probs=111.5
Q ss_pred EEEEEecC------CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 37 IGAIVDAN------SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 37 IG~i~~~~------~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
||+++|.. ...-.....+++-+.++. |+.+.+...+. .. +....++ ..++.+++-.......
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~~-----g~~~~~~~~~~---~~---~~~~~~~-~~~~dgiii~~~~~~~ 69 (283)
T cd06279 2 VGVVLTDSLSYAFSDPVASQFLAGVAEVLDAA-----GVNLLLLPASS---ED---SDSALVV-SALVDGFIVYGVPRDD 69 (283)
T ss_pred EEEEeCCcccccccCccHHHHHHHHHHHHHHC-----CCEEEEecCcc---HH---HHHHHHH-hcCCCEEEEeCCCCCh
Confidence 89999863 222234445555444442 66666543322 11 2223344 3678877753222222
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC------------
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV------------ 178 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~------------ 178 (550)
.....+...++|+|..... .+ ...+ .+..+....+...+++|...|-++++++..+..
T Consensus 70 -~~~~~~~~~~ipvV~~~~~--~~----~~~~---~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~~~~~~~~~~~~~~~ 139 (283)
T cd06279 70 -PLVAALLRRGLPVVVVDQP--LP----PGVP---SVGIDDRAAAREAARHLLDLGHRRIGILGLRLGRDRNTGRVTDER 139 (283)
T ss_pred -HHHHHHHHcCCCEEEEecC--CC----CCCC---EEeeCcHHHHHHHHHHHHHcCCCcEEEecCccccccccccccccc
Confidence 2344556789999987654 21 1223 467788888999999998889999999975421
Q ss_pred -----CCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHH
Q 008863 179 -----YGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTE 251 (550)
Q Consensus 179 -----~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~ 251 (550)
........+.+.+.+++.+ +.+.....+.... .........++++.+. ..++|+ +++...+..+++.
T Consensus 140 ~~~~~~~~~~~R~~gf~~~~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~gv~~a 213 (283)
T cd06279 140 LASATFSVARERLEGYLEALEEAG-IDISDVPIWEIPE---NDRASGEEAARELLDASPRPTAIL--CMSDVLALGALQV 213 (283)
T ss_pred ccccccccHHHHHHHHHHHHHHcC-CCCChheEEecCC---CchHHHHHHHHHHHcCCCCCcEEE--ECCcHHHHHHHHH
Confidence 0001345677888888777 5432111111111 0123344556666544 345555 4566677789999
Q ss_pred HHHcCCCC
Q 008863 252 ANRMGLVG 259 (550)
Q Consensus 252 a~~~g~~~ 259 (550)
+++.|+.-
T Consensus 214 l~~~g~~i 221 (283)
T cd06279 214 ARELGLRV 221 (283)
T ss_pred HHHcCCCC
Confidence 99999853
No 188
>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=97.19 E-value=0.21 Score=47.15 Aligned_cols=210 Identities=12% Similarity=0.138 Sum_probs=111.8
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-cCCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~~~v 113 (550)
+||++.|.. ...-.....++..+.++.+.. ...+.... ....++..-.+....+ .. ++.+++ .+.........
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~--~~~~~~~~-~~~~~~~~~~~~i~~~-~~-~vdgiii~~~~~~~~~~~ 75 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDA--RIRVRIHF-VESFDPAALAAALLRL-GA-RSDGVALVAPDHPQVRAA 75 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhcc--CceEEEEE-ccCCCHHHHHHHHHHH-Hh-cCCEEEEeCCCcHHHHHH
Confidence 589998764 223334555666666554221 22232222 2334554444444444 34 677665 34333322233
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc-C--CeEEEEEEEcCCCCCcchhHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-N--WRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~-~--w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
...+...++|+|..... .+.. .. +..+..+....+...+++|... | -++++++.............+.++
T Consensus 76 i~~~~~~~ipvV~~~~~--~~~~--~~---~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 148 (275)
T cd06307 76 VARLAAAGVPVVTLVSD--LPGS--PR---AGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFR 148 (275)
T ss_pred HHHHHHCCCcEEEEeCC--CCCC--ce---eeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHH
Confidence 34555689999987643 1111 11 2235666677777777877554 5 369999876433211144567788
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEE
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (550)
+.+++.+ ..+.......... +..+....++++.+. .++.|+. ..+. +..+++.+++.|+. .+...++
T Consensus 149 ~a~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~-~~d~--~~g~~~al~~~g~~-~di~Ivg 217 (275)
T cd06307 149 SVLREEF-PGLRVLETLEGLD----DPARAYEATRKLLARHPDLVGIYN-AGGG--NRGVIRALREAGRA-GKVVFVG 217 (275)
T ss_pred HHHHhhC-CCcEEEeeccCCC----ChHHHHHHHHHHHHhCCCceEEEE-CCCC--hHHHHHHHHHcCCC-CCcEEEE
Confidence 8888776 5443222221111 222334455555432 5677776 5443 36899999999985 3433333
No 189
>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=97.18 E-value=0.24 Score=47.56 Aligned_cols=203 Identities=8% Similarity=-0.053 Sum_probs=114.8
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (550)
+||++.+.. ..+-.....+++.+.++. |+.+.+. .+...++....+....+++ .++.+||- +.........
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~~-----g~~v~~~-~~~~~d~~~~~~~i~~~~~-~~~DgiIi~~~~~~~~~~~ 73 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKEL-----GVDAIYV-GPTTADAAGQVQIIEDLIA-QGVDAIAVVPNDPDALEPV 73 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHHh-----CCeEEEE-CCCCCCHHHHHHHHHHHHh-cCCCEEEEecCCHHHHHHH
Confidence 588888753 323334555666555552 5555532 2444566666666667766 47776664 3333322334
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc-CC-eEEEEEEEcCCCCCcchhHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-NW-RRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~-~w-~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
...+...++|+|..... .+. . . .......++....+..++++|... +- ++++++.............+.+++
T Consensus 74 ~~~~~~~~iPvV~v~~~--~~~-~--~-~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~ 147 (298)
T cd06302 74 LKKAREAGIKVVTHDSD--VQP-D--N-RDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKA 147 (298)
T ss_pred HHHHHHCCCeEEEEcCC--CCC-C--c-ceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHH
Confidence 44556789999997754 211 0 0 113345577788888889988665 43 689998754332111345577888
Q ss_pred HHhcCCCeE-EEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 192 ALQNVSSSE-IQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 192 ~l~~~g~~~-v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
.+++.| .. +.......... +...-...++++.+. .++.|+. .+...+..+++.+++.|+.
T Consensus 148 ~l~~~g-~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~D~~A~g~~~al~~~g~~ 210 (298)
T cd06302 148 YQKEKY-YPMLELVDRQYGDD----DADKSYQTAQELLKAYPDLKGIIG--PTSVGIPGAARAVEEAGLK 210 (298)
T ss_pred HHhhcC-CCCeEEeCcccCCC----CHHHHHHHHHHHHHhCCCceEEEE--CCCcchhHHHHHHHhcCCC
Confidence 888875 22 22111111111 112223344444333 4555554 5566778899999999986
No 190
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.11 E-value=0.00083 Score=77.91 Aligned_cols=78 Identities=3% Similarity=0.029 Sum_probs=60.7
Q ss_pred CeEecccCcccccccEEEecCCCCCCCCCCCcccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEe
Q 008863 454 PMRIGVPTRTFFEKFVVIKDDPLNGNSNDKNLRYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNY 533 (550)
Q Consensus 454 ~~~i~~~~~~~~~pfv~~~~~~~~~~~~~~~~~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~ 533 (550)
+++++. ...++||.+..++. .+.||.+|++++|++.+|.+ +++++.. .|.-+...|.+|++|+.
T Consensus 303 ~l~v~~--~~~~pP~~~~d~~g----------~~~G~~~Dll~~i~~~~g~~--~~~v~~~-~~~~~~~~l~~g~~D~i- 366 (1197)
T PRK09959 303 DLKVLE--NPYSPPYSMTDENG----------SVRGVMGDILNIITLQTGLN--FSPITVS-HNIHAGTQLNPGGWDII- 366 (1197)
T ss_pred ceEEEc--CCCCCCeeEECCCC----------cEeeehHHHHHHHHHHHCCe--EEEEecC-CHHHHHHHHHCCCceEe-
Confidence 345543 34678999875432 68999999999999999988 7777653 47778888999999975
Q ss_pred eceeeeeeeeeEEE
Q 008863 534 HDKLLFKKKKRLCL 547 (550)
Q Consensus 534 ~~~ti~~~r~~~~~ 547 (550)
++++.|++|++.++
T Consensus 367 ~~~~~t~~r~~~~~ 380 (1197)
T PRK09959 367 PGAIYSEDRENNVL 380 (1197)
T ss_pred ecccCCccccccce
Confidence 56668999998764
No 191
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=97.08 E-value=0.065 Score=50.29 Aligned_cols=199 Identities=11% Similarity=0.030 Sum_probs=106.3
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (550)
|||+++|.. .........+..++++.-++ .|+.+.+ .++. ++....+....+.. .++.+||-.... ....+..
T Consensus 1 ~Igvi~~~~-~~~~~f~~~l~~gi~~~~~~-~gy~~~~--~~~~-~~~~~~~~~~~l~~-~~vdgiii~~~~-~~~~~~~ 73 (260)
T cd06304 1 KVALVYDGG-GGDKSFNQSAYEGLEKAEKE-LGVEVKY--VESV-EDADYEPNLRQLAA-QGYDLIFGVGFG-FMDAVEK 73 (260)
T ss_pred CEEEEecCC-CCcchHHHHHHHHHHHHHHh-cCceEEE--EecC-CHHHHHHHHHHHHH-cCCCEEEECCcc-hhHHHHH
Confidence 689999852 11234444444444443322 2555444 4444 55444455555554 577766542222 2233434
Q ss_pred hhccC-CccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc-CCeEEEEEEEcCC-CCCcchhHHHHHHH
Q 008863 116 IASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY-NWRRVAAIYEDNV-YGGDSGKLALLAEA 192 (550)
Q Consensus 116 ~~~~~-~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~-~w~~v~ii~~~~~-~g~~~~~~~~l~~~ 192 (550)
..... ++|++..... .+. ....+ .+..+...-++..+.++... |-+++++|..+.. .. ....+.|.+.
T Consensus 74 ~~~~~~~ipvv~~~~~--~~~--~~~~~---~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~--~~R~~Gf~~~ 144 (260)
T cd06304 74 VAKEYPDVKFAIIDGV--VDA--PPNVA---SYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEV--NRFINGFAAG 144 (260)
T ss_pred HHHHCCCCEEEEecCc--cCC--CCCee---eeecchHHHHHHHHHHHHHhccCCceEEEeccccHHH--HHHHHHHHHH
Confidence 44433 7898887654 111 01112 23445555555556555554 8899999976432 22 4456778888
Q ss_pred HhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcC
Q 008863 193 LQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMG 256 (550)
Q Consensus 193 l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g 256 (550)
+++.+ ............. .+...-...++++.+..+++| + +.+...+..++.++++.|
T Consensus 145 ~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~ai-~-~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 145 AKSVN-PDITVLVIYTGSF---FDPAKGKEAALALIDQGADVI-F-AAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HHHhC-CCcEEEEEEecCc---cCcHHHHHHHHHHHhCCCCEE-E-EcCCCCchHHHHHHHHcC
Confidence 88877 5433221111110 011233445666655567766 4 566677778999999988
No 192
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=97.08 E-value=0.11 Score=50.87 Aligned_cols=206 Identities=11% Similarity=0.077 Sum_probs=118.2
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
.+-.||+++|.- ...-.....+++.+.++. |+.+.+ .+...++..-.+....++. .++.+||-...... .
T Consensus 62 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~--~~~~~~~~~~~~~~~~~~~-~~vdgiI~~~~~~~-~ 132 (331)
T PRK14987 62 TSRAIGVLLPSLTNQVFAEVLRGIESVTDAH-----GYQTML--AHYGYKPEMEQERLESMLS-WNIDGLILTERTHT-P 132 (331)
T ss_pred CCCEEEEEeCCCcchhHHHHHHHHHHHHHHC-----CCEEEE--ecCCCCHHHHHHHHHHHHh-cCCCEEEEcCCCCC-H
Confidence 456899999853 222334445555555442 566654 4444555444444455554 57777774221111 2
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC-CCCcchhHHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-YGGDSGKLALLA 190 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~-~g~~~~~~~~l~ 190 (550)
.....+...++|+|..... .. . .... .+..+....+..++++|...|.++++++..... .. ....+.|+
T Consensus 133 ~~~~~l~~~~iPvV~~~~~--~~--~--~~~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~--~~R~~Gf~ 202 (331)
T PRK14987 133 RTLKMIEVAGIPVVELMDS--QS--P--CLDI--AVGFDNFEAARQMTTAIIARGHRHIAYLGARLDERT--IIKQKGYE 202 (331)
T ss_pred HHHHHHHhCCCCEEEEecC--CC--C--CCCc--eEEeCcHHHHHHHHHHHHHCCCceEEEEcCCCcccH--HHHHHHHH
Confidence 2333456779999975422 11 1 1111 367788888888999998899999999965432 22 34567788
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEE
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWI 265 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i 265 (550)
+.+.+.| +.... ..+.... ...+-...++++.+. .++.|+. ++...+..+++++++.|+.-++-+-|
T Consensus 203 ~al~~~g-~~~~~-~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~nD~~A~g~~~al~~~g~~vP~disv 271 (331)
T PRK14987 203 QAMLDAG-LVPYS-VMVEQSS----SYSSGIELIRQARREYPQLDGVFC--TNDDLAVGAAFECQRLGLKVPDDMAI 271 (331)
T ss_pred HHHHHcC-CCccc-eeecCCC----ChhhHHHHHHHHHhcCCCCCEEEE--CCcHHHHHHHHHHHHcCCCCCCccEE
Confidence 8898888 53111 1111111 112223345555443 4566654 66777888999999999865433333
No 193
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=97.08 E-value=0.12 Score=50.76 Aligned_cols=201 Identities=10% Similarity=0.085 Sum_probs=113.7
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
.+-.||+++|.. ...-.....+++-+.++. |+.+. +.+...++..-.+....+.+ .++.+||-........
T Consensus 58 ~~~~Igvi~~~~~~~f~~~l~~gi~~~~~~~-----gy~~~--~~~~~~~~~~~~~~i~~l~~-~~vdGiIi~~~~~~~~ 129 (346)
T PRK10401 58 VSDTIGVVVMDVSDAFFGALVKAVDLVAQQH-----QKYVL--IGNSYHEAEKERHAIEVLIR-QRCNALIVHSKALSDD 129 (346)
T ss_pred CCCEEEEEeCCCCCccHHHHHHHHHHHHHHC-----CCEEE--EEcCCCChHHHHHHHHHHHh-cCCCEEEEeCCCCChH
Confidence 456899999854 223334445555555443 55543 34555555544445555554 5777666321111122
Q ss_pred HHHHhhccCCcc-EEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC--CCCcchhHHH
Q 008863 112 VVAEIASRVQVP-ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV--YGGDSGKLAL 188 (550)
Q Consensus 112 ~v~~~~~~~~iP-~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~--~g~~~~~~~~ 188 (550)
.+..+.. ++| ++..... .+. ...++ +..++...+...+++|...|.+++++|..... .. ....+.
T Consensus 130 ~~~~~~~--~~p~vV~i~~~--~~~---~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~--~~R~~G 197 (346)
T PRK10401 130 ELAQFMD--QIPGMVLINRV--VPG---YAHRC---VCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDD--AMRRAG 197 (346)
T ss_pred HHHHHHh--cCCCEEEEecc--cCC---CCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcch--HHHHHH
Confidence 2333433 355 6665543 111 12233 55677777888888888889999999975432 23 556788
Q ss_pred HHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
|++.+++.| +.+.......... ....-...++++.+. .++.|+. .+...+..+++.+++.|+.-+
T Consensus 198 f~~al~~~g-i~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~nd~~A~g~~~al~~~G~~vP 264 (346)
T PRK10401 198 WMSALKEQG-IIPPESWIGTGTP----DMQGGEAAMVELLGRNLQLTAVFA--YNDNMAAGALTALKDNGIAIP 264 (346)
T ss_pred HHHHHHHcC-CCCChhheecCCC----ChHHHHHHHHHHHcCCCCCcEEEE--CCcHHHHHHHHHHHHcCCCCC
Confidence 899999888 6543211111111 112223445555433 4666665 567777889999999998644
No 194
>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=97.05 E-value=0.064 Score=50.46 Aligned_cols=203 Identities=10% Similarity=0.090 Sum_probs=114.8
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (550)
+||+++|.+.........+++-+.++. .|+.+.+. .. +. .+....+. ..++.++|-...+.. ...
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~----~g~~~~~~--~~--~~---~~~~~~l~-~~~vdGiI~~~~~~~---~~~ 65 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH----GPWSIYLE--PR--GL---QEPLRWLK-DWQGDGIIARIDDPE---MAE 65 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc----CCeEEEEe--cc--cc---hhhhhhcc-ccccceEEEECCCHH---HHH
Confidence 589999855444445556665555553 25565442 22 11 23333343 457887774322221 223
Q ss_pred hhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhc
Q 008863 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN 195 (550)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~ 195 (550)
.+...++|+|..... .+. .. +-++..++...+..+++++...|.++++++...... ......+.+++.+++
T Consensus 66 ~l~~~~~PvV~~~~~--~~~---~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~-~~~~R~~gf~~~~~~ 136 (265)
T cd01543 66 ALQKLGIPVVDVSGS--REK---PG---IPRVTTDNAAIGRMAAEHFLERGFRHFAFYGLPGAR-WSDEREEAFRQLVAE 136 (265)
T ss_pred HHhhCCCCEEEEeCc--cCC---CC---CCEEeeCHHHHHHHHHHHHHHCCCcEEEEEcCCCCH-HHHHHHHHHHHHHHH
Confidence 445679999998754 221 11 234678888888889999988899999998754331 113445778888988
Q ss_pred CCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCC-CCCEEEEEe
Q 008863 196 VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLV-GKDSVWIVT 267 (550)
Q Consensus 196 ~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~-~~~~~~i~~ 267 (550)
.| +.+.......... ..........++++.+. .+++|+ +++...+..+++.+++.|+. +++...+.-
T Consensus 137 ~~-~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~ai~--~~~d~~a~g~~~~l~~~g~~vp~di~vigf 206 (265)
T cd01543 137 AG-YECSFFYRGLSTD--AQSWEEEQEELAQWLQSLPKPVGIF--ACTDARARQLLEACRRAGIAVPEEVAVLGV 206 (265)
T ss_pred cC-CccccccCccccc--cccHHHHHHHHHHHHhcCCCCcEEE--ecChHHHHHHHHHHHHhCCCCCCceEEEee
Confidence 88 6542111000000 00112223445554433 456555 46777788899999999984 334444443
No 195
>PRK09492 treR trehalose repressor; Provisional
Probab=97.01 E-value=0.19 Score=48.62 Aligned_cols=191 Identities=14% Similarity=0.093 Sum_probs=113.0
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCC-ChHHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGME-TWEET 110 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~-~s~~~ 110 (550)
.+-+||+++|.. ...-.....++. +.+++. |+.+ .+.++..++....+....+.. .++.++|-.. .....
T Consensus 61 ~~~~Ig~i~~~~~~~~~~~~~~~i~---~~~~~~--gy~~--~~~~~~~~~~~~~~~~~~l~~-~~vdgiIi~~~~~~~~ 132 (315)
T PRK09492 61 SDKVVGIIVSRLDSLSENQAVRTML---PAFYEQ--GYDP--IIMESQFSPEKVNEHLGVLKR-RNVDGVILFGFTGITE 132 (315)
T ss_pred CCCeEEEEecCCcCcccHHHHHHHH---HHHHHc--CCeE--EEEecCCChHHHHHHHHHHHh-cCCCEEEEeCCCcccH
Confidence 456899999853 222233444444 344443 5655 345555666555555555544 6788777532 22222
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEc-C--CCCCcchhHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYED-N--VYGGDSGKLA 187 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~-~--~~g~~~~~~~ 187 (550)
......++|++..... .+ ..+ .+.+++...+..++++|...|.++++++... . ..+ ....+
T Consensus 133 ----~~l~~~~~pvv~i~~~--~~-----~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~--~~R~~ 196 (315)
T PRK09492 133 ----EMLAPWQDKLVLLARD--AK-----GFS---SVCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTG--KRRHQ 196 (315)
T ss_pred ----HHHHhcCCCEEEEecc--CC-----CCc---EEEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhH--HHHHH
Confidence 2223456787765532 11 122 3566777788888899888899999999632 2 233 45678
Q ss_pred HHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 188 ~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
.|.+.+++.| +.+... .... +.......++++.+.+++.|+. .+...+..+++++++.|+
T Consensus 197 Gf~~al~~~g-~~~~~~--~~~~-----~~~~~~~~~~~~l~~~~~ai~~--~~D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 197 AYLAFCKQHK-LTPVAA--LGGL-----SMQSGYELVAKVLTPETTALVC--ATDTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHHHHcC-CCceee--cCCC-----CchHHHHHHHHHhhcCCCEEEE--cCcHHHHHHHHHHHHcCC
Confidence 8999999988 764321 1111 1122233455554456777765 556777889999999998
No 196
>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=97.01 E-value=0.0013 Score=60.70 Aligned_cols=52 Identities=13% Similarity=0.096 Sum_probs=39.2
Q ss_pred ccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEeeceeeeeeeeeE
Q 008863 488 DGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNYHDKLLFKKKKRL 545 (550)
Q Consensus 488 ~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~~~~ti~~~r~~~ 545 (550)
.||++||++++++.+|.+ ++++...-.|.-++..|..|++|++++ +.+|++.
T Consensus 19 ~G~~~el~~~i~~~~g~~--i~~~~~~~~~~~~~~~l~~g~~Di~~~----~~~r~~~ 70 (232)
T TIGR03871 19 EGFENKIAQLLADDLGLP--LEYTWFPQRRGFVRNTLNAGRCDVVIG----VPAGYEM 70 (232)
T ss_pred CchHHHHHHHHHHHcCCc--eEEEecCcchhhHHHHHhcCCccEEEe----ccCcccc
Confidence 599999999999999999 555543323444677899999999876 4556543
No 197
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.94 E-value=0.15 Score=49.19 Aligned_cols=209 Identities=15% Similarity=0.105 Sum_probs=118.1
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~ 110 (550)
++-+||+++|.. ..+......+++-+.++. |+.+.+ .+...+...-.+....++. .++.+||= +.....
T Consensus 34 ~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~-----g~~~~~--~~~~~~~~~~~~~i~~l~~-~~vDgiIi~~~~~~~- 104 (309)
T PRK11041 34 ESRTILVIVPDICDPFFSEIIRGIEVTAAEH-----GYLVLI--GDCAHQNQQEKTFVNLIIT-KQIDGMLLLGSRLPF- 104 (309)
T ss_pred CCcEEEEEeCCCcCccHHHHHHHHHHHHHHC-----CCEEEE--EeCCCChHHHHHHHHHHHH-cCCCEEEEecCCCCh-
Confidence 567999999864 333445556666666653 555544 4444455544455556655 57777663 221111
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
.... .......|++..+.. .+. ...++ +..+....+...+++|...|-+++++|.............+.|+
T Consensus 105 ~~~~-~~~~~~~pvv~~~~~--~~~---~~~~~---V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~ 175 (309)
T PRK11041 105 DASK-EEQRNLPPMVMANEF--APE---LELPT---VHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYV 175 (309)
T ss_pred HHHH-HHHhcCCCEEEEccc--cCC---CCCCE---EEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHH
Confidence 1111 122223467765543 111 12233 56788888888899998889999999975433211144578888
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEE
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIV 266 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~ 266 (550)
+.+.+.| +.+.......... ........+.++.+. .++.|+. ++...+..+++++++.|+.-++-++++
T Consensus 176 ~~~~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~a~gv~~al~~~g~~ip~di~vv 246 (309)
T PRK11041 176 QALRRCG-ITVDPQYIARGDF----TFEAGAKALKQLLDLPQPPTAVFC--HSDVMALGALSQAKRMGLRVPQDLSII 246 (309)
T ss_pred HHHHHcC-CCCCHHHeEeCCC----CHHHHHHHHHHHHcCCCCCCEEEE--cCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 8998888 6543211111111 122334555666543 3666665 556666688999999997533224443
No 198
>cd06354 PBP1_BmpA_PnrA_like Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. The PnrA lipoprotein, also known as Tp0319 or TmpC, represents a novel family of bacterial purine nucleoside receptor encoded within an ATP-binding cassette (ABC) transport system (pnrABCDE). It shows a striking structural similarity to another basic membrane lipoprotein Med which regulates the competence transcription factor gene, comK, in Bacillus subtilis. The members of PnrA-like subgroup are likely to have similar nucleoside-binding functions and a similar type I periplasmic sugar-binding protein-like fold.
Probab=96.79 E-value=0.33 Score=45.64 Aligned_cols=196 Identities=13% Similarity=0.092 Sum_probs=103.9
Q ss_pred EEEEEEecC----CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 36 KIGAIVDAN----SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 36 ~IG~i~~~~----~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
|||+++|.. ...-.....|++.+.++ .|+.+.+. +.. ++..-.+....++. .++.+||-.... ...
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~-----~gy~~~i~--~~~-~~~~~~~~i~~l~~-~~vdgiI~~~~~-~~~ 70 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKE-----LGIEYKYV--ESK-SDADYEPNLEQLAD-AGYDLIVGVGFL-LAD 70 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHH-----cCCeEEEE--ecC-CHHHHHHHHHHHHh-CCCCEEEEcCcc-hHH
Confidence 589999852 22233444555555554 26666554 332 33333444555554 688888853222 122
Q ss_pred HHHHhhccC-CccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHH-cCCeEEEEEEEcCCCCCcchhHHHH
Q 008863 112 VVAEIASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLALL 189 (550)
Q Consensus 112 ~v~~~~~~~-~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~-~~w~~v~ii~~~~~~g~~~~~~~~l 189 (550)
.+....... ++|++..+.. .+. . +.+-++..+....+..++.++.. .|.+++++|..+.... .....+.+
T Consensus 71 ~~~~~~~~~~~~PiV~i~~~--~~~--~---~~~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~~~~~~-~~~r~~gf 142 (265)
T cd06354 71 ALKEVAKQYPDQKFAIIDAV--VDD--P---PNVASIVFKEEEGSFLAGYLAALMTKTGKVGFIGGMDIPL-IRRFEAGF 142 (265)
T ss_pred HHHHHHHHCCCCEEEEEecc--cCC--C---CcEEEEEecchhHHHHHHHHHHhhcCCCeEEEEecccChH-HHHHHHHH
Confidence 344455554 8999987653 111 0 11223444555555555566654 3999999997543211 02223567
Q ss_pred HHHHhcCC---C-eEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcC
Q 008863 190 AEALQNVS---S-SEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMG 256 (550)
Q Consensus 190 ~~~l~~~g---~-~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g 256 (550)
++.+++.| . ++.... ..... ....+-...++++.+.++++|+. .+...+..+++.+++.|
T Consensus 143 ~~~~~~~g~~~~~~~~~~~--~~~~~---~~~~~~~~~~~~ll~~~pdaI~~--~nd~~A~gv~~al~~~g 206 (265)
T cd06354 143 EAGVKYVNPGVPDIEVLVQ--YAGSF---NDPAKGKEIAQAMYDQGADVIFA--AAGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHHHHHHhccCCCceEEEE--EcCcc---cCHHHHHHHHHHHHHCCCcEEEE--CCCCCchHHHHHHHhcC
Confidence 77776643 0 222111 11110 01123334556665556787665 56667778899999988
No 199
>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=96.56 E-value=0.44 Score=44.86 Aligned_cols=192 Identities=11% Similarity=0.078 Sum_probs=105.1
Q ss_pred EEEEEEecCC--ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-cCCChHHHHH
Q 008863 36 KIGAIVDANS--QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAV 112 (550)
Q Consensus 36 ~IG~i~~~~~--~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~~~ 112 (550)
+||++.+.+. ..+......+..++++.-++ .|+.+.+... ..+.. ... .++.++| .+..+. .
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~-~g~~~~~~~~--~~~~~--------~~~-~~vdgii~~~~~~~---~ 65 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQE-LGIELTKFFR--DDDLL--------EIL-EDVDGIIAIGKFSQ---E 65 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHH-cCCEEEEEec--cchhH--------Hhc-cCcCEEEEecCCCH---H
Confidence 5889988541 22233333333333333322 2666665433 22111 122 4566554 222222 2
Q ss_pred HHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCC-------CCCcchh
Q 008863 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNV-------YGGDSGK 185 (550)
Q Consensus 113 v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~-------~g~~~~~ 185 (550)
....+...++|++..... .. ....+ .+..++...+..+++++...|.++++++..... .. ...
T Consensus 66 ~~~~~~~~~~pvV~~~~~--~~---~~~~~---~v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~--~~R 135 (270)
T cd01544 66 QLAKLAKLNPNLVFVDSN--PA---PDGFD---SVVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIE--DPR 135 (270)
T ss_pred HHHHHHhhCCCEEEECCC--CC---CCCCC---EEEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhh--hHH
Confidence 334455678999987654 11 12233 356788888888999998889999999986532 22 445
Q ss_pred HHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC----CCeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK----QSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 186 ~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~----~~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
.+.+.+.+.+.| .. .....+.... +..+....++++.+. .+++|+ +++...+..+++.+++.|+.-+
T Consensus 136 ~~gf~~~~~~~~-~~-~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~ai~--~~~d~~a~g~~~~l~~~g~~vp 206 (270)
T cd01544 136 ETAFREYMKEKG-LY-DPELIYIGDF----TVESGYQLMKEALKSLGDNLPTAFF--IASDPMAIGALRALQEAGIKVP 206 (270)
T ss_pred HHHHHHHHHHcC-CC-ChheEeeCCC----CHHHHHHHHHHHHhccCCCCCCEEE--EcCcHHHHHHHHHHHHcCCCCC
Confidence 677888888877 42 1111111110 112223444444332 245544 4677778889999999998643
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=96.46 E-value=0.62 Score=44.80 Aligned_cols=199 Identities=9% Similarity=0.008 Sum_probs=110.4
Q ss_pred EEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHHH
Q 008863 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVA 114 (550)
Q Consensus 37 IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v~ 114 (550)
||++.|.- +..-.....+++.+.++. |+.+ .+.++..++..-.+....++. .++.+||= +..........
T Consensus 1 ig~~~~~~~~~~~~~~~~~i~~~a~~~-----g~~v--~~~~~~~~~~~q~~~i~~l~~-~~vDgIIi~~~~~~~~~~~l 72 (302)
T TIGR02634 1 IGVSIDDLRLERWQKDRDIFVAAAESL-----GAKV--FVQSANGNEAKQISQIENLIA-RGVDVLVIIPQNGQVLSNAV 72 (302)
T ss_pred CeeecCccchhhHHHHHHHHHHHHHhc-----CCEE--EEEeCCCCHHHHHHHHHHHHH-cCCCEEEEeCCChhHHHHHH
Confidence 56666543 222233334444444432 5555 445666777666667777776 57776653 33333333444
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCe-EEEEEEEcCCCCCcchhHHHHHHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWR-RVAAIYEDNVYGGDSGKLALLAEAL 193 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~-~v~ii~~~~~~g~~~~~~~~l~~~l 193 (550)
..+...++|+|..... .+. . +....+..+....+..++++|...+-+ +++++..+..........+.+++.+
T Consensus 73 ~~~~~~~iPvV~~d~~--~~~---~--~~~~~V~~d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~~R~~g~~~~~ 145 (302)
T TIGR02634 73 QEAKDEGIKVVAYDRL--IND---A--DIDFYLSFDNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNAKLLRGGQMKVL 145 (302)
T ss_pred HHHHHCCCeEEEecCc--CCC---C--CccEEEecCHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcchHHHHHHHHHHH
Confidence 5567789999997654 211 1 122346678888888999998776655 6777765322110033456666667
Q ss_pred hcC----CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC---CCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 194 QNV----SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 194 ~~~----g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
++. + +.+......... ...+....++++... .+++|+. .+...+..+++++++.|+.
T Consensus 146 ~~~~~~~~-~~~~~~~~~~~~-----~~~~~~~~~~~ll~~~~~~~~aI~~--~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 146 QPAIDSGD-IKIVGDQWVDGW-----LPENALRIMENALTANDNKVDAVVA--SNDATAGGAIQALTAQGLA 209 (302)
T ss_pred hhhccCCC-eEEecCcCCCCC-----CHHHHHHHHHHHHHhCCCCccEEEE--CCCchHHHHHHHHHHCCCC
Confidence 653 3 443211111110 123334556665432 4566554 5566677899999999984
No 201
>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=96.33 E-value=0.9 Score=43.87 Aligned_cols=191 Identities=11% Similarity=0.015 Sum_probs=110.1
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEET 110 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~ 110 (550)
.+-.||+++|.- .........++.-+.++ . |+.+-+ .++..++....+....+.. .++.++|- +......
T Consensus 58 ~~~~Ig~i~~~~~~~~~~~~~~~i~~~~~~---~--gy~~~i--~~~~~~~~~~~~~~~~l~~-~~vdGvIi~~~~~~~~ 129 (311)
T TIGR02405 58 SDKVVAVIVSRLDSPSENLAVSGMLPVFYT---A--GYDPII--MESQFSPQLTNEHLSVLQK-RNVDGVILFGFTGCDE 129 (311)
T ss_pred CCCEEEEEeCCcccccHHHHHHHHHHHHHH---C--CCeEEE--ecCCCChHHHHHHHHHHHh-cCCCEEEEeCCCCCCH
Confidence 445799999753 22222333444333333 2 566543 4455555544444444443 57776663 2211111
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEc-C--CCCCcchhHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYED-N--VYGGDSGKLA 187 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~-~--~~g~~~~~~~ 187 (550)
. .....++|++..+.. .+ ..+ .+.+++...+..++++|...|.+++++|..+ . ..+ ....+
T Consensus 130 ~----~l~~~~~p~V~i~~~--~~-----~~~---~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~--~~R~~ 193 (311)
T TIGR02405 130 E----ILESWNHKAVVIARD--TG-----GFS---SVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTG--LMRHN 193 (311)
T ss_pred H----HHHhcCCCEEEEecC--CC-----Ccc---EEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhH--HHHHH
Confidence 1 223457788776543 11 122 3667888888889999988999999999732 2 233 45678
Q ss_pred HHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 188 ~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
.|++.+++.| +.... . .... ...+....++++.+.+++.|+ +++...+..+++.+.+.|+
T Consensus 194 gf~~a~~~~g-i~~~~-~-~~~~-----~~~~~~~~~~~~l~~~~tAi~--~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 194 AYLAYCESAN-LEPIY-Q-TGQL-----SHESGYVLTDKVLKPETTALV--CATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHHHHcC-CCcee-e-eCCC-----CHHHHHHHHHHHHhcCCCEEE--ECCcHHHHHHHHHHHHcCC
Confidence 8999999998 75211 1 1111 112333445555444567665 4677778889999999996
No 202
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=96.21 E-value=1.3 Score=43.29 Aligned_cols=206 Identities=13% Similarity=0.081 Sum_probs=106.1
Q ss_pred CcEEEEEEEecC---CccchhHHHHHHHHHHHHhcCCCCcEEEEEEec--CCCCHHHHHHHHHHhhhcCCeEEEEcCCCh
Q 008863 33 EVTKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRD--HNRDPFQAATAAQELINKEKVKVIAGMETW 107 (550)
Q Consensus 33 ~~i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d--~~~~~~~a~~~~~~li~~~~v~aiiG~~~s 107 (550)
+..+++++.+-. ..+.+....|.+.+-++. +.+++..... ...+.....+...++.+ ++...|++...
T Consensus 34 ~~~~~~~~~~g~~~D~s~n~~~~~g~~~~~~~~-----g~~~~~~~~~~~~~~~~~~~~~~~~~~a~-~g~~lI~~~gf- 106 (345)
T COG1744 34 KKKKVAVIDVGGIDDKSFNQSAYEGLLKAKKEL-----GLKVETYYWEYVQSDSEADYERALRALAE-DGYDLIFGTGF- 106 (345)
T ss_pred cceEEEEEecCCCCccchhHHHHHHHHHHHHHh-----CCceEeeeeeecCCcchhHHHHHHHHHHh-cCCCEEEEecc-
Confidence 456666666543 344566667777666555 4455553332 22234455556666665 57788887543
Q ss_pred HHHHHHHHhhccC-CccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcC-CCCCcchh
Q 008863 108 EETAVVAEIASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN-VYGGDSGK 185 (550)
Q Consensus 108 ~~~~~v~~~~~~~-~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~-~~g~~~~~ 185 (550)
.-..++..++.++ ++.++...+. .....+...+.||..-. ..++-.++..+.+ -.+++.|..-+ +-- ..+
T Consensus 107 ~~~d~~~~va~~~Pd~~F~iid~~---~~~~~Nv~s~~f~~~eg-ayL~G~~AA~~sk--~~~vG~vgg~~~p~v--~~f 178 (345)
T COG1744 107 AFSDALEKVAAEYPDVKFVIIDGV---VKKEDNVASYVFREYEG-AYLAGVAAAKMSK--SGKVGFVGGMDIPEV--NRF 178 (345)
T ss_pred chhhHHHHHHHHCCCCEEEEecCc---cCCCCceEEEEeccccH-HHHHHHHHHHhhc--CCceeEEecccchhh--HHH
Confidence 3344455555555 4444443332 11111333456655432 2233333333322 34555555433 222 556
Q ss_pred HHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 186 ~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
...|...++..+ -.+.....+-..- . +...-......+.+.++|+|+- .+.+..... +.+|++.+...
T Consensus 179 ~~gF~~Gak~~n-p~i~v~v~~~gsf--~-D~~k~k~~a~~li~~GaDVI~~-~ag~~~~gv-~~~A~~~~~~~ 246 (345)
T COG1744 179 INGFLAGAKSVN-PDIKVKVVYVGSF--S-DPAKGKEAANALIDQGADVIYP-AAGGTGVGV-FQAAKELGAYA 246 (345)
T ss_pred HHHHHHHHHhhC-CCccEEEEEecCc--c-ChHHHHHHHHHHHhcCCCEEEe-cCCCCcchH-HHHHHHhCCCe
Confidence 667777776655 3333333222211 1 1122344777888889999998 665544333 33777777643
No 203
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=96.21 E-value=0.38 Score=45.03 Aligned_cols=193 Identities=10% Similarity=0.044 Sum_probs=100.5
Q ss_pred EEEEEEecC---CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHH
Q 008863 36 KIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAV 112 (550)
Q Consensus 36 ~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~ 112 (550)
|||++++-. ..+......|++.+.++ .|.++. +.+...++....+.+.++++ ++...|++. +.....+
T Consensus 1 kva~l~~g~~~D~~~n~~~~~G~~~~~~~-----~gv~~~--~~e~~~~~~~~~~~i~~~~~-~g~dlIi~~-g~~~~~~ 71 (258)
T cd06353 1 KVAFVYVGPIGDQGWNYAHDEGRKAAEKA-----LGVEVT--YVENVPEGADAERVLRELAA-QGYDLIFGT-SFGFMDA 71 (258)
T ss_pred CEEEEEeCCCCccchhHHHHHHHHHHHHh-----cCCeEE--EEecCCchHhHHHHHHHHHH-cCCCEEEEC-chhhhHH
Confidence 588888744 22333444555554444 244444 44555466677777888876 589999983 3334444
Q ss_pred HHHhhccC-CccEEeccCCCCCCcccCCCCCeEEEEecCc---HHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHH
Q 008863 113 VAEIASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASND---SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (550)
Q Consensus 113 v~~~~~~~-~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~---~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~ 188 (550)
+..++.++ ++.++..... .+ . |.+..+.... ..++-.++..+.. -.+|++|...... ........
T Consensus 72 ~~~vA~~~p~~~F~~~d~~--~~---~---~Nv~~~~~~~~e~~ylaG~~Aa~~t~--t~kVG~I~g~~~~-~~~~~~~g 140 (258)
T cd06353 72 ALKVAKEYPDVKFEHCSGY--KT---A---PNVGSYFARIYEGRYLAGVVAGKMTK--TNKVGYVAAFPIP-EVVRGINA 140 (258)
T ss_pred HHHHHHHCCCCEEEECCCC--CC---C---CCeeeEechhhHHHHHHHHHHHHhhc--CCcEEEEcCcccH-HHHHHHHH
Confidence 55555554 3444443322 11 1 3333332222 2233334444433 3589999865421 11344556
Q ss_pred HHHHHhcCC-CeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 189 LAEALQNVS-SSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 189 l~~~l~~~g-~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
|...++..+ .+++.... ..... +...-....+.+.+.++|+|+- .+.. ..++.++++.|.
T Consensus 141 F~~G~~~~~p~~~v~~~~-~g~~~----D~~~a~~~a~~l~~~G~DvI~~-~~~~---~g~~~aa~~~g~ 201 (258)
T cd06353 141 FALGARSVNPDATVKVIW-TGSWF----DPAKEKEAALALIDQGADVIYQ-HTDS---PGVIQAAEEKGV 201 (258)
T ss_pred HHHHHHHHCCCcEEEEEE-ecCCC----CcHHHHHHHHHHHHCCCcEEEe-cCCC---hHHHHHHHHhCC
Confidence 666555333 03333222 11111 1122345556677779998888 6622 467888888773
No 204
>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=95.86 E-value=1.7 Score=41.19 Aligned_cols=205 Identities=11% Similarity=0.008 Sum_probs=107.0
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCC-hHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMET-WEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~-s~~~~~v 113 (550)
+||++.|.. ...-.....++..+.++. |+.+ .+.++..++..-.+....++. .++.+||=... .......
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~-----gy~~--~~~~~~~~~~~~~~~i~~l~~-~~vdgiil~~~~~~~~~~~ 73 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAI-----GWNL--RILDGRGSEAGQAAALNQAIA-LKPDGIVLGGVDAAELQAE 73 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHc-----CcEE--EEECCCCCHHHHHHHHHHHHH-cCCCEEEEcCCCHHHHHHH
Confidence 588888753 222223444554444443 5554 344555666655556666665 57777664322 1211222
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHc--CCeEEEEEEEcCC-CCCcchhHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKY--NWRRVAAIYEDNV-YGGDSGKLALLA 190 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~--~w~~v~ii~~~~~-~g~~~~~~~~l~ 190 (550)
...+...++|+|..... ...........+-.+..+....+..++++|... |-++++++..... .. ....+.++
T Consensus 74 ~~~~~~~~iPvV~~d~~--~~~~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~~--~~r~~~~~ 149 (280)
T cd06315 74 LELAQKAGIPVVGWHAG--PEPGPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSIA--KAKANAMK 149 (280)
T ss_pred HHHHHHCCCCEEEecCC--CCCCcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCccH--HHHHHHHH
Confidence 23445679999988653 111100000113446778888888899988765 8899999864322 11 11123444
Q ss_pred HHHhcC-CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC---CCeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 191 EALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK---QSRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 191 ~~l~~~-g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~---~~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
..++.. + ..+.......... .........+++.+. .+++|+ +++...+..+++.+++.|+..
T Consensus 150 ~~~~a~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~ai~--~~~D~~A~g~~~~l~~~g~~~ 215 (280)
T cd06315 150 EIIEACKG-CTVLSIEDVPISR----TATRMPALTARLLQRYGDKWTHSL--AINDLYFDYMAPPLASAGRKA 215 (280)
T ss_pred HHHHhCCC-CEEEEecccCcch----hhhhhHHHHHHHHHhcCcccceec--ccchhhhHHhHHHHHHhcccC
Confidence 444432 2 2221111111100 111111344444332 245544 577778888999999999864
No 205
>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=95.60 E-value=2.3 Score=40.80 Aligned_cols=201 Identities=10% Similarity=0.073 Sum_probs=103.1
Q ss_pred EEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEe-cCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHH
Q 008863 37 IGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIR-DHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (550)
Q Consensus 37 IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~-d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (550)
||++.+.. ..+-.....+++.+.++. |+ ..+++. +...++..-.+....+++ .++.+||- |..+......
T Consensus 1 Igvi~~~~~~~f~~~~~~gi~~~a~~~-----g~-~~~i~~~~~~~d~~~q~~~i~~l~~-~~vdgiIi~~~~~~~~~~~ 73 (302)
T TIGR02637 1 IGLVVKSLGNPFFEAANKGAEEAAKEL-----GS-VYIIYTGPTGTTAEGQIEVVNSLIA-QKVDAIAISANDPDALVPA 73 (302)
T ss_pred CEEEeccCCCHHHHHHHHHHHHHHHHh-----CC-eeEEEECCCCCCHHHHHHHHHHHHH-cCCCEEEEeCCChHHHHHH
Confidence 57777653 222234445555555554 32 222222 345677666667777776 57776553 4433333334
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEec-CcHHhHHHHHHHH-HHc-CCeEEEEEEEcCCCCCcchhHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMAS-NDSEQMKCIADLA-RKY-NWRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p-~~~~~~~al~~~l-~~~-~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
...+...+||+|..... .+. . .....+.. +....++..++.+ +++ +-.++++|..+..........+.++
T Consensus 74 l~~~~~~giPvV~~~~~--~~~-~----~~~~~v~~~Dn~~~g~~aa~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~ 146 (302)
T TIGR02637 74 LKKAMKRGIKVVTWDSG--VAP-E----GRNLFLNQASADLIGRTQVQLAAEQIGNGGEIAILSAASTATNQNAWIEIMK 146 (302)
T ss_pred HHHHHHCCCEEEEeCCC--CCC-C----ceeEEEecCCHHHHHHHHHHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHH
Confidence 44566789999987754 211 1 11233333 3444445455554 332 2368999876533210123456677
Q ss_pred HHHhcCC--CeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC--CeEEEEEcCCHHHHHHHHHHHHHcCCCC
Q 008863 191 EALQNVS--SSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ--SRVFIVLQASLDMTIHLFTEANRMGLVG 259 (550)
Q Consensus 191 ~~l~~~g--~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~--~~~ii~~~~~~~~~~~il~~a~~~g~~~ 259 (550)
+.+.+.+ ..++.... .... ..+.-...++++.+.. .+.|+. .....+..+++++++.|..+
T Consensus 147 ~~~~~~~~~~~~~~~~~--~~~~----~~~~~~~~~~~~L~~~~~~~ai~~--~~d~~a~ga~~al~~~g~~~ 211 (302)
T TIGR02637 147 KELKDPKYPKVKLVATV--YGDD----DAQKSYQEAQGLLKSYPNLKGIIA--PTTVGIKAAAQAVSDAKLIG 211 (302)
T ss_pred HHHhhccCCCCEEEeee--cCCc----hHHHHHHHHHHHHHhCCCccEEEe--CCCchHHHHHHHHHhcCCCC
Confidence 7776542 03332111 1111 1233344555555443 445544 45666777888888888753
No 206
>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=94.11 E-value=4.6 Score=37.02 Aligned_cols=212 Identities=12% Similarity=0.059 Sum_probs=119.5
Q ss_pred cEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEe-cC-CCCHHHHHHHHHHhhhcCCeEEEEcC-CChHHH
Q 008863 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIR-DH-NRDPFQAATAAQELINKEKVKVIAGM-ETWEET 110 (550)
Q Consensus 34 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~-d~-~~~~~~a~~~~~~li~~~~v~aiiG~-~~s~~~ 110 (550)
.++||++.+.-+ .+...++|++..+++.-. ..|.-+++ |+ ...-...+.....|..+..+.|||=. .-+..+
T Consensus 2 ~~kIGivTgtvS-q~ed~~r~Ae~l~~~Yg~----~~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~vpGt~ 76 (275)
T PF12683_consen 2 DYKIGIVTGTVS-QSEDEYRGAEELIKKYGD----VMIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAVPGTA 76 (275)
T ss_dssp -EEEEEEE--TT-T-HHHHHHHHHHHHHHHH----HEEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS---H
T ss_pred ceEEEEEeCCcc-cChHHHHHHHHHHHHhCc----ceEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCCcchH
Confidence 589999997553 356677888888877632 26666666 43 34556777888888888889888853 333455
Q ss_pred HHHHHhhc-cCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCC--CcchhHH
Q 008863 111 AVVAEIAS-RVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYG--GDSGKLA 187 (550)
Q Consensus 111 ~~v~~~~~-~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g--~~~~~~~ 187 (550)
.++..+=+ +-.|.+|+..... +|..-...... -+.++....+..++...+.+|.++|+-+.....-. ......+
T Consensus 77 ~af~kIkekRpDIl~ia~~~~E-Dp~~i~~~aDi--~~~~D~~~~G~~i~~~Ak~mGAktFVh~sfprhms~~~l~~Rr~ 153 (275)
T PF12683_consen 77 EAFRKIKEKRPDILLIAGEPHE-DPEVISSAADI--VVNPDEISRGYTIVWAAKKMGAKTFVHYSFPRHMSYELLARRRD 153 (275)
T ss_dssp HHHHHHHHH-TTSEEEESS--S--HHHHHHHSSE--EEE--HHHHHHHHHHHHHHTT-S-EEEEEETTGGGSHHHHHHHH
T ss_pred HHHHHHHhcCCCeEEEcCCCcC-CHHHHhhccCe--EeccchhhccHHHHHHHHHcCCceEEEEechhhcchHHHHHHHH
Confidence 55555433 4567777755441 23211112233 34578888899999999999999999997654322 0122234
Q ss_pred HHHHHHhcCCCeEEEEEeecCCCCCCCCChHHH-----HHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAV-----RGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 188 ~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~-----~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
.+++.-++.| ++.+....-.+.. ..+.... ...-+.+++-+.++-+. +++......+++++.+.|.
T Consensus 154 ~M~~~C~~lG-i~fv~~taPDP~s--d~gv~gaqqfIlE~vp~~i~kYGkdtaff-~TN~a~~epllk~~~~~g~ 224 (275)
T PF12683_consen 154 IMEEACKDLG-IKFVEVTAPDPTS--DVGVAGAQQFILEDVPKWIKKYGKDTAFF-CTNDAMTEPLLKQALEYGG 224 (275)
T ss_dssp HHHHHHHHCT---EEEEEE---SS--TCHHHHHHHHHHHHHHHHHHHH-S--EEE-ESSHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHcC-CeEEEEeCCCCCC--CCCcHHHHHHHHHHHHHHHHHhCCceeEE-ecCccccHHHHHHHHHcCC
Confidence 4566667789 8877665443332 0111111 12234556669999999 9999999999999999874
No 207
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=94.00 E-value=0.66 Score=42.51 Aligned_cols=97 Identities=10% Similarity=0.045 Sum_probs=73.7
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCC---CCCCChHHHHHHHHHhhcC
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPIS---SISDPKEAVRGELKKVQDK 230 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~---~~~~~~~d~~~~l~~i~~~ 230 (550)
-..|+.+-|+++|.+|++++.. |- ....+.+.+.+++.| ++|.....+.... +...+.....+.++++...
T Consensus 107 ~~~A~~~AL~alg~~RIalvTP---Y~--~~v~~~~~~~l~~~G-~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~ 180 (239)
T TIGR02990 107 PSSAAVDGLAALGVRRISLLTP---YT--PETSRPMAQYFAVRG-FEIVNFTCLGLTDDREMARISPDCIVEAALAAFDP 180 (239)
T ss_pred HHHHHHHHHHHcCCCEEEEECC---Cc--HHHHHHHHHHHHhCC-cEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCC
Confidence 5678999999999999999985 55 778899999999999 9988764443321 1112334556666666677
Q ss_pred CCeEEEEEcCCHHHHHHHHHHHHH-cCC
Q 008863 231 QSRVFIVLQASLDMTIHLFTEANR-MGL 257 (550)
Q Consensus 231 ~~~~ii~~~~~~~~~~~il~~a~~-~g~ 257 (550)
++|.|++ .|..-....++.++.+ +|.
T Consensus 181 ~aDAifi-sCTnLrt~~vi~~lE~~lGk 207 (239)
T TIGR02990 181 DADALFL-SCTALRAATCAQRIEQAIGK 207 (239)
T ss_pred CCCEEEE-eCCCchhHHHHHHHHHHHCC
Confidence 9999999 8999899999999876 454
No 208
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=93.97 E-value=6.5 Score=38.18 Aligned_cols=146 Identities=14% Similarity=0.032 Sum_probs=83.4
Q ss_pred CCeEEEEc-CCChHHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEE
Q 008863 96 EKVKVIAG-METWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIY 174 (550)
Q Consensus 96 ~~v~aiiG-~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~ 174 (550)
.++.++|- +..+. .....+...++|++..... .+ ...++ .+..+....+..++++|...|.+++++|.
T Consensus 113 ~~vDgiI~~~~~~~---~~~~~l~~~~~pvV~~~~~--~~---~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~ 181 (327)
T PRK10339 113 KNVTGILIVGKPTP---ALRAAASALTDNICFIDFH--EP---GSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIG 181 (327)
T ss_pred ccCCEEEEeCCCCH---HHHHHHHhcCCCEEEEeCC--CC---CCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeC
Confidence 45665553 22221 2334445678999987643 11 11223 35677777888889999888999999996
Q ss_pred EcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHHHH
Q 008863 175 EDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFTEA 252 (550)
Q Consensus 175 ~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~~a 252 (550)
..............+.+.+...| + +.....+.... ...+....++++.+. .++.|+ +++...+..+++++
T Consensus 182 ~~~~~~~~~~R~~gf~~~~~~~g-~-~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~--~~~D~~A~g~~~al 253 (327)
T PRK10339 182 GEDEPGKADIREVAFAEYGRLKQ-V-VREEDIWRGGF----SSSSGYELAKQMLAREDYPKALF--VASDSIAIGVLRAI 253 (327)
T ss_pred CccccchhhHHHHHHHHHHHHcC-C-CChhheeecCc----ChhHHHHHHHHHHhCCCCCCEEE--ECCcHHHHHHHHHH
Confidence 54321101344566777777777 5 11111111110 112233445555432 355555 46677788999999
Q ss_pred HHcCCCCC
Q 008863 253 NRMGLVGK 260 (550)
Q Consensus 253 ~~~g~~~~ 260 (550)
++.|+.-+
T Consensus 254 ~~~g~~vP 261 (327)
T PRK10339 254 HERGLNIP 261 (327)
T ss_pred HHcCCCCC
Confidence 99998543
No 209
>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=93.55 E-value=6.6 Score=36.89 Aligned_cols=149 Identities=13% Similarity=0.074 Sum_probs=88.4
Q ss_pred cCCeEEEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEE
Q 008863 95 KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIY 174 (550)
Q Consensus 95 ~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~ 174 (550)
..++.++|-.........+. .+...++|+|..... ... ....++ +..+....+..+++.|...|.+++++|.
T Consensus 54 ~~~vdgiIi~~~~~~~~~~~-~l~~~~iPvV~i~~~--~~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i~ 125 (269)
T cd06287 54 ALDIDGAILVEPMADDPQVA-RLRQRGIPVVSIGRP--PGD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIALIV 125 (269)
T ss_pred ccCcCeEEEecCCCCCHHHH-HHHHcCCCEEEeCCC--CCC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEEe
Confidence 35777655321111112233 345679999998754 210 122333 4457777788888888888999999997
Q ss_pred EcCC--CCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--CCeEEEEEcCCHHHHHHHHH
Q 008863 175 EDNV--YGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--QSRVFIVLQASLDMTIHLFT 250 (550)
Q Consensus 175 ~~~~--~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--~~~~ii~~~~~~~~~~~il~ 250 (550)
.... .. ....+.+++.+++.| +..... ...... ...+-...++++.+. .+++|+. .+...+..+++
T Consensus 126 ~~~~~~~~--~~R~~gf~~a~~~~g-~~~~~~-~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~~--~~d~~A~gvl~ 195 (269)
T cd06287 126 GSARRNSY--LEAEAAYRAFAAEHG-MPPVVL-RVDEAG----GEEAGYAACAQLLAQHPDLDALCV--PVDAFAVGAVR 195 (269)
T ss_pred CCcccccH--HHHHHHHHHHHHHcC-CCccee-EecCCC----ChHHHHHHHHHHHhCCCCCCEEEE--cCcHHHHHHHH
Confidence 5432 22 445677888888888 653221 111111 122333455555433 4566665 67778889999
Q ss_pred HHHHcCCCCCC
Q 008863 251 EANRMGLVGKD 261 (550)
Q Consensus 251 ~a~~~g~~~~~ 261 (550)
.+++.|+.-+.
T Consensus 196 al~~~gl~vP~ 206 (269)
T cd06287 196 AATELGRAVPD 206 (269)
T ss_pred HHHHcCCCCCC
Confidence 99999986443
No 210
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=93.28 E-value=5.1 Score=35.05 Aligned_cols=95 Identities=15% Similarity=0.092 Sum_probs=66.4
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCCh---HHHHHHHHHhhcCCC
Q 008863 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPK---EAVRGELKKVQDKQS 232 (550)
Q Consensus 156 ~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~---~d~~~~l~~i~~~~~ 232 (550)
.|+++-|+.++.+++.++.. |- ....+...+.++.+| ++|+...-+.-....+-.. ...-+..+++...++
T Consensus 107 ~Avv~aL~al~a~ri~vlTP---Y~--~evn~~e~ef~~~~G-feiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~ 180 (238)
T COG3473 107 TAVVEALNALGAQRISVLTP---YI--DEVNQREIEFLEANG-FEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDA 180 (238)
T ss_pred HHHHHHHHhhCcceEEEecc---ch--hhhhhHHHHHHHhCC-eEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCC
Confidence 46778889999999999984 44 567788899999999 9988765443221000011 123455667777799
Q ss_pred eEEEEEcCCHHHHHHHHHHHHH-cCC
Q 008863 233 RVFIVLQASLDMTIHLFTEANR-MGL 257 (550)
Q Consensus 233 ~~ii~~~~~~~~~~~il~~a~~-~g~ 257 (550)
|.|++ .|..-....++..+.+ .|.
T Consensus 181 DaiFi-SCTnlRt~eii~~lE~~~G~ 205 (238)
T COG3473 181 DAIFI-SCTNLRTFEIIEKLERDTGV 205 (238)
T ss_pred CeEEE-EeeccccHHHHHHHHHHhCC
Confidence 99999 8888777777777765 443
No 211
>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=92.68 E-value=2.2 Score=39.90 Aligned_cols=89 Identities=18% Similarity=0.205 Sum_probs=69.1
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
=+||+|.+...........||...++..| |+.++......+..|+..+.+.+..++. +++.+|++... ...+.
T Consensus 121 ~kVG~I~g~~~~~~~~~~~gF~~G~~~~~---p~~~v~~~~~g~~~D~~~a~~~a~~l~~-~G~DvI~~~~~---~~g~~ 193 (258)
T cd06353 121 NKVGYVAAFPIPEVVRGINAFALGARSVN---PDATVKVIWTGSWFDPAKEKEAALALID-QGADVIYQHTD---SPGVI 193 (258)
T ss_pred CcEEEEcCcccHHHHHHHHHHHHHHHHHC---CCcEEEEEEecCCCCcHHHHHHHHHHHH-CCCcEEEecCC---ChHHH
Confidence 37999988765445567789999999888 5678877777788899999999999997 69999987652 23455
Q ss_pred HhhccCCccEEeccCC
Q 008863 115 EIASRVQVPILSFAAP 130 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~ 130 (550)
..+.+.++..|.....
T Consensus 194 ~aa~~~g~~~IG~d~d 209 (258)
T cd06353 194 QAAEEKGVYAIGYVSD 209 (258)
T ss_pred HHHHHhCCEEEeeccc
Confidence 6667788999987644
No 212
>TIGR00035 asp_race aspartate racemase.
Probab=91.18 E-value=3.2 Score=37.97 Aligned_cols=46 Identities=11% Similarity=0.132 Sum_probs=26.3
Q ss_pred CHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHHhhccCCccEEec
Q 008863 81 DPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSF 127 (550)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~ 127 (550)
++...+..+.+.+.+.++.+|+=+-++.... +..+-+..++|+|+.
T Consensus 59 ~~~~~l~~~~~~L~~~g~d~iviaCNTah~~-~~~l~~~~~iPii~i 104 (229)
T TIGR00035 59 RPRPILIDIAVKLENAGADFIIMPCNTAHKF-AEDIQKAIGIPLISM 104 (229)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCccHHHH-HHHHHHhCCCCEech
Confidence 3555555555555567888777544333322 444555567888773
No 213
>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=90.37 E-value=17 Score=34.86 Aligned_cols=199 Identities=13% Similarity=0.127 Sum_probs=103.2
Q ss_pred EEEEEEEecC---CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCC-CHHHHHHHHHHhhhcCCeEEEEcCCChHHH
Q 008863 35 TKIGAIVDAN---SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR-DPFQAATAAQELINKEKVKVIAGMETWEET 110 (550)
Q Consensus 35 i~IG~i~~~~---~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~-~~~~a~~~~~~li~~~~v~aiiG~~~s~~~ 110 (550)
.+|+++++-. ..+......|++.+.++. .+ +++...+... ++....+.+.++.+ ++...|++.. ....
T Consensus 2 ~~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~----~~--i~~~~~e~~~~~~~~~~~~~~~~~~-~g~dlIi~~g-~~~~ 73 (306)
T PF02608_consen 2 KKVALLDPGGINDKGFNQSAYEGLKRAEKEL----DG--IEIIYVENVPETDADYEEAIRQLAD-QGYDLIIGHG-FEYS 73 (306)
T ss_dssp EEEEEESSS-CCCSSHHHHHHHHHHHHHHHC----TT--EEEEEEES-S-TCHHHHHHHHHHHH-TT-SEEEEES-GGGH
T ss_pred eEEEEEECCCCCCccHHHHHHHHHHHHHHHc----CC--ceEEEEecCCccHHHHHHHHHHHHH-cCCCEEEEcc-HHHH
Confidence 4677777765 334455666666666664 13 4444444433 34455666666665 6888888743 3444
Q ss_pred HHHHHhhccC-CccEEeccCCCCCCcccCCCCCeEEEEecCc---HHhHHHHHHHHHHcCCeEEEEEE---EcC-CCCCc
Q 008863 111 AVVAEIASRV-QVPILSFAAPAVTPLSMSRRWPYLIRMASND---SEQMKCIADLARKYNWRRVAAIY---EDN-VYGGD 182 (550)
Q Consensus 111 ~~v~~~~~~~-~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~---~~~~~al~~~l~~~~w~~v~ii~---~~~-~~g~~ 182 (550)
.++..++.++ ++-++..... ..... +++..+.... ..++-.++.++.+ -.+++++. ..+ +.-
T Consensus 74 ~~~~~vA~~yPd~~F~~~d~~--~~~~~----~Nv~~~~f~~~e~~fLaG~~Aa~~tk--t~~vg~ig~i~G~~~p~~-- 143 (306)
T PF02608_consen 74 DALQEVAKEYPDTKFIIIDGY--IDAPE----PNVISITFREEEASFLAGYLAALMTK--TGKVGFIGDIGGMDIPPV-- 143 (306)
T ss_dssp HHHHHHHTC-TTSEEEEESS-----ST-----TTEEEEEE-HHHHHHHHHHHHHHHHS--STEEEEEEEEES--SCTT--
T ss_pred HHHHHHHHHCCCCEEEEEecC--cCCCC----CcEEEEEccccchhHHHHHHHHHHhc--cCcccccccccCCCcHhH--
Confidence 5666777776 5555555443 11111 3344444432 2233334444443 35788887 433 322
Q ss_pred chhHHHHHHHHhcCCC-eEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCC
Q 008863 183 SGKLALLAEALQNVSS-SEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 183 ~~~~~~l~~~l~~~g~-~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~ 258 (550)
..+...|...++..+. +++.... ..... +...-+...+.+-+.++|+|+- .+.. ....++.++++.|..
T Consensus 144 ~~~~~gF~~Ga~~~np~i~v~~~~-~gs~~----D~~~~~~~a~~li~~GaDvI~~-~ag~-~~~gv~~aa~e~g~~ 213 (306)
T PF02608_consen 144 NRFINGFIAGAKYVNPDIKVNVSY-TGSFN----DPAKAKEAAEALIDQGADVIFP-VAGG-SGQGVIQAAKEAGVY 213 (306)
T ss_dssp HHHHHHHHHHHHHTTTT-EEEEEE--SSSS-----HHHHHHHHHHHHHTT-SEEEE-E-CC-CHHHHHHHHHHHTHE
T ss_pred HHHHHHHHHHHHHhCcCceEEEEE-cCCcC----chHHHHHHHHHHhhcCCeEEEE-CCCC-CchHHHHHHHHcCCc
Confidence 5666777777765540 4443322 22211 2233455556677789999998 5543 445678888888864
No 214
>PRK10200 putative racemase; Provisional
Probab=89.98 E-value=4.4 Score=37.04 Aligned_cols=47 Identities=15% Similarity=0.063 Sum_probs=31.4
Q ss_pred CCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHHhhccCCccEEe
Q 008863 79 NRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILS 126 (550)
Q Consensus 79 ~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is 126 (550)
..+|...+...++.+.+.|+.+|+=|-.+.... ...+-+..++|+|+
T Consensus 57 ~~~~~~~l~~~~~~L~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~ 103 (230)
T PRK10200 57 WDKTGDILAEAALGLQRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLH 103 (230)
T ss_pred cchHHHHHHHHHHHHHHcCCCEEEECCchHHHH-HHHHHHhCCCCEee
Confidence 345777777777777778888888654443333 45555667788777
No 215
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=89.39 E-value=1.8 Score=39.62 Aligned_cols=74 Identities=16% Similarity=0.177 Sum_probs=43.5
Q ss_pred CcchhHHH-HHHHHHHHHhccccccccCCCCCCCcEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCC
Q 008863 1 MNRFFFLV-LIIASELVFVSPGVESASTNVNIEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN 79 (550)
Q Consensus 1 M~r~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~ 79 (550)
|+.+..+. ++++++++++|..+.+.+. .+|+||+.-..++ .-++..++-+.++ -|++|+++.+.+.
T Consensus 1 m~~~~~~~~~~~~~l~~~~~~~~~~~~~-----~~I~vg~~~~p~a---~ile~~~k~~~~k-----~Gi~l~i~~FtDY 67 (268)
T COG1464 1 MKKLKKLALALVALLALAACGAAAAKAT-----KTIKVGATPGPHA---EILEVVVKPALKK-----KGLDLKIVEFTDY 67 (268)
T ss_pred CchHHHHHHHHHHHHHHHhhhhhccccC-----CcEEEeecCCchH---HHHHHHHHHHHHh-----cCceEEEEEecCC
Confidence 44443333 3333344555554433322 5899998754432 2333355555555 3899999999988
Q ss_pred CCHHHHHH
Q 008863 80 RDPFQAAT 87 (550)
Q Consensus 80 ~~~~~a~~ 87 (550)
..|..|+.
T Consensus 68 ~~PN~AL~ 75 (268)
T COG1464 68 VQPNEALA 75 (268)
T ss_pred cchhHHHh
Confidence 88887763
No 216
>PF13377 Peripla_BP_3: Periplasmic binding protein-like domain; PDB: 3K9C_B 3BIL_B 3JVD_B 1ZAY_A 1VPW_A 1DBQ_A 2PUA_A 1QQA_A 1PNR_A 1JHZ_A ....
Probab=88.72 E-value=2.9 Score=35.47 Aligned_cols=92 Identities=15% Similarity=0.160 Sum_probs=59.2
Q ss_pred HHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHH-HHhhcCCCeEEEE
Q 008863 159 ADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGEL-KKVQDKQSRVFIV 237 (550)
Q Consensus 159 ~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l-~~i~~~~~~~ii~ 237 (550)
+++|...|.+++++|.............+.+++.+++.| +........... ...+..... ..+++..++.||.
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~-~~~~~~~~~~~~-----~~~~~~~~~~~~l~~~~pdaii~ 74 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHG-IEFEELIFFSDD-----DSEDAREAQLLWLRRLRPDAIIC 74 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTT-SEEEGEEEEESS-----SHHHHHHHHHHHHHTCSSSEEEE
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCC-CCCCeeEeecCC-----cchhHHHHHHHHHhcCCCcEEEE
Confidence 467888899999999944321111556677888999999 775544433322 222333222 2333336676665
Q ss_pred EcCCHHHHHHHHHHHHHcCCC
Q 008863 238 LQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 238 ~~~~~~~~~~il~~a~~~g~~ 258 (550)
.+...+..++..+.+.|+.
T Consensus 75 --~~~~~a~~~~~~l~~~g~~ 93 (160)
T PF13377_consen 75 --SNDRLALGVLRALRELGIR 93 (160)
T ss_dssp --SSHHHHHHHHHHHHHTTSC
T ss_pred --cCHHHHHHHHHHHHHcCCc
Confidence 7888899999999999984
No 217
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=88.29 E-value=13 Score=32.23 Aligned_cols=100 Identities=11% Similarity=0.026 Sum_probs=63.7
Q ss_pred HhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcC--CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC
Q 008863 153 EQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK 230 (550)
Q Consensus 153 ~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~--g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~ 230 (550)
++...+.+.+...++ ++.++....+ ..+.+.+.+.+. + +.|+.... ... +..+....++.|.++
T Consensus 35 dl~~~l~~~~~~~~~-~ifllG~~~~------~~~~~~~~l~~~yP~-l~ivg~~~--g~f----~~~~~~~i~~~I~~~ 100 (172)
T PF03808_consen 35 DLFPDLLRRAEQRGK-RIFLLGGSEE------VLEKAAANLRRRYPG-LRIVGYHH--GYF----DEEEEEAIINRINAS 100 (172)
T ss_pred HHHHHHHHHHHHcCC-eEEEEeCCHH------HHHHHHHHHHHHCCC-eEEEEecC--CCC----ChhhHHHHHHHHHHc
Confidence 456666666666654 7778876544 344455555544 4 56655432 211 335678899999999
Q ss_pred CCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEeccc
Q 008863 231 QSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNTV 270 (550)
Q Consensus 231 ~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (550)
++|+|++ .........++.+.++..-.+ +|+..+..
T Consensus 101 ~pdiv~v-glG~PkQE~~~~~~~~~l~~~---v~i~vG~~ 136 (172)
T PF03808_consen 101 GPDIVFV-GLGAPKQERWIARHRQRLPAG---VIIGVGGA 136 (172)
T ss_pred CCCEEEE-ECCCCHHHHHHHHHHHHCCCC---EEEEECch
Confidence 9999999 777777777777766643322 66665553
No 218
>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=87.24 E-value=24 Score=32.51 Aligned_cols=185 Identities=10% Similarity=0.085 Sum_probs=102.1
Q ss_pred EEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHHh
Q 008863 37 IGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEI 116 (550)
Q Consensus 37 IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~ 116 (550)
|.+++|.-...-.+...+++.++++. |+ ..+.+..+..+. .+...+.++ .++.++|=-............
T Consensus 2 ~~~~~~~~~~~~~~~~~~i~~~l~~~-----g~-~~l~~~~~~~~~---~~~~~~~~~-~~vdGvIi~~~~~~~~~~~~~ 71 (247)
T cd06276 2 ILLLLNKLSSFKEIIYNSFVNTLGKN-----AQ-VDLYFHHYNEDL---FKNIISNTK-GKYSGYVVMPHFKNEIQYFLL 71 (247)
T ss_pred EEEEEecCchHHHHHHHHHHHHHHhc-----Cc-EEEEEEcCchHH---HHHHHHHHh-cCCCEEEEecCCCCcHHHHHH
Confidence 55666554222223444544444442 51 333344333222 223333333 456655521111111223445
Q ss_pred hccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHH--cCCeEEEEEEEcC-CCCCcchhHHHHHHHH
Q 008863 117 ASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK--YNWRRVAAIYEDN-VYGGDSGKLALLAEAL 193 (550)
Q Consensus 117 ~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~--~~w~~v~ii~~~~-~~g~~~~~~~~l~~~l 193 (550)
+...++|++...-. .+. ...+++ +..++...+..+++.+.. .|.+++++|.... ..+ ....+.+++.+
T Consensus 72 ~~~~~~PvV~i~~~--~~~--~~~~~~---V~~D~~~~~~~a~~~L~~~~~G~~~Ia~i~~~~~~~~--~~R~~gf~~~l 142 (247)
T cd06276 72 KKIPKEKLLILDHS--IPE--GGEYSS---VAQDFEKAIYNALQEGLEKLKKYKKLILVFPNKTAIP--KEIKRGFERFC 142 (247)
T ss_pred hccCCCCEEEEcCc--CCC--CCCCCe---EEEccHHHHHHHHHHHHHHhcCCCEEEEEecCccHhH--HHHHHHHHHHH
Confidence 55578999987754 211 112233 556788888888999888 8999999997644 233 56678899999
Q ss_pred hcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 194 QNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 194 ~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
++.| +.... ... . .. .. + ...++|+ +.+...+..+++.+++.|+.-+
T Consensus 143 ~~~g-~~~~~---~~~------~-~~--~~---~--~~~~ai~--~~~d~~A~g~~~~l~~~g~~iP 189 (247)
T cd06276 143 KDYN-IETEI---IND------Y-EN--RE---I--EKGDLYI--ILSDTDLVFLIKKARESGLLLG 189 (247)
T ss_pred HHcC-CCccc---ccc------c-ch--hh---c--cCCcEEE--EeCHHHHHHHHHHHHHcCCcCC
Confidence 9988 64321 100 0 01 00 1 1235444 5678888899999999998544
No 219
>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=86.84 E-value=4 Score=39.24 Aligned_cols=91 Identities=20% Similarity=0.206 Sum_probs=64.9
Q ss_pred EEEEEEE---ecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH
Q 008863 35 TKIGAIV---DANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA 111 (550)
Q Consensus 35 i~IG~i~---~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~ 111 (550)
=+||.+- ......-.....||...++.+| |+.++......+-.|+..+.+.+..|+. +++.+|+.. ......
T Consensus 127 ~~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~n---p~i~v~~~~~gs~~D~~~~~~~a~~li~-~GaDvI~~~-ag~~~~ 201 (306)
T PF02608_consen 127 GKVGFIGDIGGMDIPPVNRFINGFIAGAKYVN---PDIKVNVSYTGSFNDPAKAKEAAEALID-QGADVIFPV-AGGSGQ 201 (306)
T ss_dssp TEEEEEEEEES--SCTTHHHHHHHHHHHHHTT---TT-EEEEEE-SSSS-HHHHHHHHHHHHH-TT-SEEEEE--CCCHH
T ss_pred CcccccccccCCCcHhHHHHHHHHHHHHHHhC---cCceEEEEEcCCcCchHHHHHHHHHHhh-cCCeEEEEC-CCCCch
Confidence 3566666 5555555678899999999999 6788888888888999999999999998 799999972 234455
Q ss_pred HHHHhhccCCcc--EEeccCC
Q 008863 112 VVAEIASRVQVP--ILSFAAP 130 (550)
Q Consensus 112 ~v~~~~~~~~iP--~is~~~~ 130 (550)
.+...|.+.+.. .|.....
T Consensus 202 gv~~aa~e~g~~~~~IG~d~d 222 (306)
T PF02608_consen 202 GVIQAAKEAGVYGYVIGVDSD 222 (306)
T ss_dssp HHHHHHHHHTHETEEEEEES-
T ss_pred HHHHHHHHcCCceEEEEeccc
Confidence 566677888887 7776544
No 220
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=86.74 E-value=5 Score=39.41 Aligned_cols=94 Identities=13% Similarity=0.131 Sum_probs=69.6
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
..+.+.+.+..+|++++.||++..-.. ....+.+.+.++..+ +.+.....+.+.. ..+....-+..+++.++|
T Consensus 16 ~l~~l~~~~~~~g~~r~liVTd~~~~~--~g~~~~v~~~L~~~~-i~~~if~~v~p~P----~~~~v~~~~~~~~~~~~D 88 (377)
T COG1454 16 SLKELGEEVKRLGAKRALIVTDRGLAK--LGLLDKVLDSLDAAG-IEYEVFDEVEPEP----TIETVEAGAEVAREFGPD 88 (377)
T ss_pred hHHHHHHHHHhcCCCceEEEECCcccc--chhHHHHHHHHHhcC-CeEEEecCCCCCC----CHHHHHHHHHHHHhcCCC
Confidence 456677788889999999999887544 668999999999999 8776655555544 556778888999999999
Q ss_pred EEEEEc-CCHHHHHHHHHHHHH
Q 008863 234 VFIVLQ-ASLDMTIHLFTEANR 254 (550)
Q Consensus 234 ~ii~~~-~~~~~~~~il~~a~~ 254 (550)
.||-+. +|.-++...+.....
T Consensus 89 ~iIalGGGS~~D~AK~i~~~~~ 110 (377)
T COG1454 89 TIIALGGGSVIDAAKAIALLAE 110 (377)
T ss_pred EEEEeCCccHHHHHHHHHHHhh
Confidence 999722 233455555554444
No 221
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=86.25 E-value=30 Score=32.63 Aligned_cols=205 Identities=10% Similarity=0.095 Sum_probs=108.7
Q ss_pred CcEEEEEEEecCC-ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeE-EEEcCCChHHH
Q 008863 33 EVTKIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVK-VIAGMETWEET 110 (550)
Q Consensus 33 ~~i~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~-aiiG~~~s~~~ 110 (550)
+...||+..|.-. ..-..-..+|.-+.+.+ |.++. +.+...+...-+.....++++ ++. .||++..+...
T Consensus 24 ~d~~IGis~~d~~~eRW~~D~~~~~~~~e~~-----g~k~~--~q~A~~~~~~Q~~qien~i~q-g~~vlvi~a~d~~~l 95 (341)
T COG4213 24 KDGVIGISMPDLRSERWIKDRDAFVKKAEAL-----GAKVD--VQSADGDEEKQLAQIENMINQ-GVKVLVIGAIDGGVL 95 (341)
T ss_pred cCCeEEEEcCChhHhhhhhhhHHHHHHHHhc-----cchhh--hhhhccChhHHHHHHHHHHhc-CCCEEEEEeccchhH
Confidence 4789999987642 11112223343333333 33433 344555677778888999985 554 56689998888
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHH----hHHHHHHHHHHcC---CeEEEEEE-EcCCCCC-
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSE----QMKCIADLARKYN---WRRVAAIY-EDNVYGG- 181 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~----~~~al~~~l~~~~---w~~v~ii~-~~~~~g~- 181 (550)
..+...+...+||+|++.-- .......|. +.-+... |+.++.+-++... =..+.++. +.++...
T Consensus 96 ~~~i~~A~~~gikViaYDRl-----I~n~dvd~Y--vsFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~DnNA~ 168 (341)
T COG4213 96 SNAVEKAKSEGIKVIAYDRL-----INNADVDFY--VSFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPDDNNAK 168 (341)
T ss_pred HHHHHHHHHcCCeEEEeecc-----cccCCccEE--EEecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCCCcchH
Confidence 88888899999999997532 222333333 3333333 4444444443322 12233443 3333110
Q ss_pred --cchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhc---CCCeEEEEEcCCHHHHHHHHHHHHHcC
Q 008863 182 --DSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD---KQSRVFIVLQASLDMTIHLFTEANRMG 256 (550)
Q Consensus 182 --~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~---~~~~~ii~~~~~~~~~~~il~~a~~~g 256 (550)
......-|+..+..-. +.++.....+... + ......+..+.. .+.+.|+- .+...+.-.+.++...|
T Consensus 169 lf~~G~m~VLkp~idsGk-ik~~Ge~~~d~W~----p-s~Aq~~men~lta~~~~vdaVvA--~nDgtagGaI~aL~a~G 240 (341)
T COG4213 169 LFFAGAMKVLKPLIDSGK-IKVVGEQWTDGWL----P-SNAQQIMENLLTANYNDIDAVVA--PNDGTAGGAIAALKAQG 240 (341)
T ss_pred HHHhcHHHHHHHHhhCCc-eEEeeeccccccC----H-HHHHHHHHHHHhcccCceeEEEc--CCCchhHHHHHHHHhcc
Confidence 0122333444444433 6664444333221 1 122233333332 24555555 34466777889999999
Q ss_pred CCCC
Q 008863 257 LVGK 260 (550)
Q Consensus 257 ~~~~ 260 (550)
+.++
T Consensus 241 l~g~ 244 (341)
T COG4213 241 LAGK 244 (341)
T ss_pred cCCC
Confidence 9854
No 222
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=85.93 E-value=7.1 Score=38.89 Aligned_cols=91 Identities=14% Similarity=0.103 Sum_probs=61.5
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
....+.+.++.+|.+++.++++..-.. ....+.+.+.+++.| +.+.....+.+.. ..++..+..+.+++.++|
T Consensus 18 ~~~~l~~~~~~~g~~~~livt~~~~~~--~g~~~~v~~~L~~~~-i~~~~f~~v~~np----~~~~v~~~~~~~~~~~~D 90 (383)
T PRK09860 18 SLTDAMNMMADYGFTRTLIVTDNMLTK--LGMAGDVQKALEERN-IFSVIYDGTQPNP----TTENVAAGLKLLKENNCD 90 (383)
T ss_pred HHHHHHHHHHhcCCCEEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEeCCCCCCc----CHHHHHHHHHHHHHcCCC
Confidence 345577888999999999998754322 346788999999988 7654333343332 456788888889999999
Q ss_pred EEEEEcC-CHHHHHHHHHH
Q 008863 234 VFIVLQA-SLDMTIHLFTE 251 (550)
Q Consensus 234 ~ii~~~~-~~~~~~~il~~ 251 (550)
.||-+.+ +.-++.+.+..
T Consensus 91 ~IiaiGGGS~iD~AK~ia~ 109 (383)
T PRK09860 91 SVISLGGGSPHDCAKGIAL 109 (383)
T ss_pred EEEEeCCchHHHHHHHHHH
Confidence 9996232 33344444443
No 223
>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=85.17 E-value=10 Score=32.73 Aligned_cols=102 Identities=13% Similarity=-0.015 Sum_probs=61.1
Q ss_pred HHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC
Q 008863 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ 231 (550)
Q Consensus 152 ~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~ 231 (550)
.++...+.+.+...+ .++.++.+..+.. ....+.+++... | +.++....-+. ...+....+++|.+++
T Consensus 32 ~dl~~~ll~~~~~~~-~~v~llG~~~~~~--~~~~~~l~~~yp--~-l~i~g~~~g~~------~~~~~~~i~~~I~~~~ 99 (171)
T cd06533 32 SDLMPALLELAAQKG-LRVFLLGAKPEVL--EKAAERLRARYP--G-LKIVGYHHGYF------GPEEEEEIIERINASG 99 (171)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHHHH--HHHHHHHHHHCC--C-cEEEEecCCCC------ChhhHHHHHHHHHHcC
Confidence 345666666666554 6777777654432 333333333332 4 66665332221 2234445899999999
Q ss_pred CeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEecc
Q 008863 232 SRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (550)
Q Consensus 232 ~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (550)
+|+|++ .........++.+..+..-.+ +++....
T Consensus 100 pdiv~v-glG~PkQE~~~~~~~~~l~~~---v~~~vG~ 133 (171)
T cd06533 100 ADILFV-GLGAPKQELWIARHKDRLPVP---VAIGVGG 133 (171)
T ss_pred CCEEEE-ECCCCHHHHHHHHHHHHCCCC---EEEEece
Confidence 999999 888887778887777655222 5665444
No 224
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=85.08 E-value=3.1 Score=39.11 Aligned_cols=81 Identities=17% Similarity=0.152 Sum_probs=41.0
Q ss_pred CcchhHHHHHHHHHHHHhccccccccCCCCCCCcEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCC
Q 008863 1 MNRFFFLVLIIASELVFVSPGVESASTNVNIEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR 80 (550)
Q Consensus 1 M~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~ 80 (550)
||+.++++++++++++++|+. .+. .+++|+||..-... . .-..++.+.+-.. .|++++++.+++..
T Consensus 5 ~~~~~~~~~~~~~l~l~gC~~-~~~-----~~~~I~IG~~~~~~-----~--~~~~~~~~~l~~~-~G~~Vel~~f~~~~ 70 (271)
T PRK11063 5 FKTFAAVGALIGTLALVGCGQ-DEK-----DPNHIKVGVIVGAE-----Q--QVAEVAQKVAKEK-YGLDVELVTFNDYV 70 (271)
T ss_pred HHHHHHHHHHHHHHHHHhccc-ccC-----CCCcEEEEeCCCCh-----H--HHHHHHHHHHHHh-cCCeEEEEEecCcH
Confidence 444444444443444445532 111 22469999985221 1 1233444444332 38999999987655
Q ss_pred CHHHHHHHHHHhhhcCCeEEEE
Q 008863 81 DPFQAATAAQELINKEKVKVIA 102 (550)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~aii 102 (550)
.+..++ ....+.+.+
T Consensus 71 ~~~~AL-------a~GdID~~~ 85 (271)
T PRK11063 71 LPNEAL-------SKGDIDANA 85 (271)
T ss_pred HHHHHH-------HcCCcceec
Confidence 444333 234666643
No 225
>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein. A subset of this model in which nearly all members exhibit genomic context with elements of phosphonate metabolism, particularly the C-P lyase system has been built (TIGR03431) as an equivalog. Nevertheless, there are members of this subfamily (TIGR01098) which show up sporadically on a phylogenetic tree that also show phosphonate context and are most likely competent to transport phosphonates.
Probab=84.32 E-value=1.1 Score=41.67 Aligned_cols=51 Identities=8% Similarity=0.001 Sum_probs=42.0
Q ss_pred ccccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEeeceeee
Q 008863 486 RYDGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNYHDKLLF 539 (550)
Q Consensus 486 ~~~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~~~~ti~ 539 (550)
.+.++..||.+++++.+|.+ +++++. ++|+.++..|..|++|+++.+....
T Consensus 46 ~~~~~~~~l~~~l~~~~g~~--v~~~~~-~~~~~~~~~l~~g~~Di~~~~~~~~ 96 (254)
T TIGR01098 46 NLTRRWEPLADYLEKKLGIK--VQLFVA-TDYSAVIEAMRFGRVDIAWFGPSSY 96 (254)
T ss_pred HHHHHHHHHHHHHHHHhCCc--EEEEeC-CCHHHHHHHHHcCCccEEEECcHHH
Confidence 46677789999999999988 666653 4699999999999999999776543
No 226
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=84.23 E-value=9.3 Score=38.25 Aligned_cols=81 Identities=9% Similarity=-0.002 Sum_probs=56.9
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
..+.+.+.++.+|.+++.++.+..-.. ....+.+.+.|++.| +.+.....+.+.. ..+...+.++..++.++|
T Consensus 36 ~~~~l~~~~~~~g~~~~lvv~~~~~~~--~g~~~~v~~~L~~~g-i~~~~~~~v~~~P----~~~~v~~~~~~~r~~~~D 108 (395)
T PRK15454 36 AVSSCGQQAQTRGLKHLFVMADSFLHQ--AGMTAGLTRSLAVKG-IAMTLWPCPVGEP----CITDVCAAVAQLRESGCD 108 (395)
T ss_pred HHHHHHHHHHhcCCCEEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEECCCCCCc----CHHHHHHHHHHHHhcCcC
Confidence 345677888889988888887654322 446788999999988 7765432233322 445678888889999999
Q ss_pred EEEEEcCCH
Q 008863 234 VFIVLQASL 242 (550)
Q Consensus 234 ~ii~~~~~~ 242 (550)
.||- .+.+
T Consensus 109 ~Iia-vGGG 116 (395)
T PRK15454 109 GVIA-FGGG 116 (395)
T ss_pred EEEE-eCCh
Confidence 9998 4443
No 227
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=83.44 E-value=9.2 Score=35.35 Aligned_cols=100 Identities=12% Similarity=0.150 Sum_probs=58.6
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEE
Q 008863 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (550)
Q Consensus 156 ~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~i 235 (550)
..+.++++.++.+++.+|++.+.| ....+.+.+.+++.| +++.......... +..+......+++..+++.|
T Consensus 8 ~~l~~~l~~~~~~~~lvv~d~~t~---~~~g~~v~~~l~~~g-~~v~~~~~~~~~~----~~~~~~~~~~~~~~~~~d~i 79 (250)
T PF13685_consen 8 DKLPEILSELGLKKVLVVTDENTY---KAAGEKVEESLKSAG-IEVAVIEEFVGDA----DEDEVEKLVEALRPKDADLI 79 (250)
T ss_dssp GGHHHHHGGGT-SEEEEEEETTHH---HHHHHHHHHHHHTTT--EEEEEE-EE-------BHHHHHHHHTTS--TT--EE
T ss_pred HHHHHHHHhcCCCcEEEEEcCCHH---HHHHHHHHHHHHHcC-CeEEEEecCCCCC----CHHHHHHHHHHhcccCCCEE
Confidence 346678888888999999998765 456788999999999 8887433122211 34456666677766788888
Q ss_pred EEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEe
Q 008863 236 IVLQASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (550)
Q Consensus 236 i~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (550)
+- .+++.-.-..=..+.+.++ .|+-+.|
T Consensus 80 i~-vGgG~i~D~~K~~A~~~~~---p~isVPT 107 (250)
T PF13685_consen 80 IG-VGGGTIIDIAKYAAFELGI---PFISVPT 107 (250)
T ss_dssp EE-EESHHHHHHHHHHHHHHT-----EEEEES
T ss_pred EE-eCCcHHHHHHHHHHHhcCC---CEEEecc
Confidence 87 6666543333334555554 2444443
No 228
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=83.10 E-value=23 Score=34.64 Aligned_cols=92 Identities=16% Similarity=0.163 Sum_probs=67.1
Q ss_pred cEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHH
Q 008863 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (550)
Q Consensus 34 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v 113 (550)
+-+||.+.......-.....||...++..|. .+++...+..+-.|+..+.+.+..|++ +|+.+|+....+.....+
T Consensus 161 ~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np---~i~v~v~~~gsf~D~~k~k~~a~~li~-~GaDVI~~~ag~~~~gv~ 236 (345)
T COG1744 161 SGKVGFVGGMDIPEVNRFINGFLAGAKSVNP---DIKVKVVYVGSFSDPAKGKEAANALID-QGADVIYPAAGGTGVGVF 236 (345)
T ss_pred CCceeEEecccchhhHHHHHHHHHHHHhhCC---CccEEEEEecCccChHHHHHHHHHHHh-cCCCEEEecCCCCcchHH
Confidence 5678888877765567888999999999994 588888888899999999999999987 699999976554443332
Q ss_pred HHhhccCCccEEeccCC
Q 008863 114 AEIASRVQVPILSFAAP 130 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~ 130 (550)
. .+.+.+.-.|.....
T Consensus 237 ~-~A~~~~~~~iGvdsD 252 (345)
T COG1744 237 Q-AAKELGAYAIGVDSD 252 (345)
T ss_pred H-HHHHhCCCeEEEecc
Confidence 0 222333333665543
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=83.02 E-value=12 Score=37.21 Aligned_cols=91 Identities=13% Similarity=0.080 Sum_probs=61.6
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
...+.++++.++.+++.++++..... ....+.+.+.+++.| +++.....+.+.. ..+...+.++..++.++|.
T Consensus 12 ~~~l~~~l~~~g~~~~liv~~~~~~~--~~~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~d~ 84 (370)
T cd08192 12 IKELPAECAELGIKRPLIVTDPGLAA--LGLVARVLALLEDAG-LAAALFDEVPPNP----TEAAVEAGLAAYRAGGCDG 84 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEeCCCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 45577888889999999998765432 336788999999888 7764433333332 4567788888888889999
Q ss_pred EEEEcC-CHHHHHHHHHHH
Q 008863 235 FIVLQA-SLDMTIHLFTEA 252 (550)
Q Consensus 235 ii~~~~-~~~~~~~il~~a 252 (550)
||-+.+ +.-++..++...
T Consensus 85 IIaiGGGSviD~aK~ia~~ 103 (370)
T cd08192 85 VIAFGGGSALDLAKAVALM 103 (370)
T ss_pred EEEeCCchHHHHHHHHHHH
Confidence 996232 344555555444
No 230
>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=82.99 E-value=12 Score=37.29 Aligned_cols=92 Identities=14% Similarity=0.160 Sum_probs=61.7
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
..+.+.+.++.++-+++.++++..... ....+.+.+.+++.| +.+.....+.+.. ..+.....++.+++.++|
T Consensus 13 ~l~~l~~~l~~~g~~~~lvvt~~~~~~--~g~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~d 85 (374)
T cd08189 13 SLAQLPAAISQLGVKKVLIVTDKGLVK--LGLLDKVLEALEGAG-IEYAVYDGVPPDP----TIENVEAGLALYRENGCD 85 (374)
T ss_pred HHHHHHHHHHhcCCCeEEEEeCcchhh--cccHHHHHHHHHhcC-CeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCC
Confidence 345677888888889999998765432 335688899999888 7655433343332 456778888888888999
Q ss_pred EEEEEcC-CHHHHHHHHHHH
Q 008863 234 VFIVLQA-SLDMTIHLFTEA 252 (550)
Q Consensus 234 ~ii~~~~-~~~~~~~il~~a 252 (550)
.||-+.+ +.-++..++...
T Consensus 86 ~IIaiGGGS~~D~aK~ia~~ 105 (374)
T cd08189 86 AILAVGGGSVIDCAKAIAAR 105 (374)
T ss_pred EEEEeCCccHHHHHHHHHHH
Confidence 9996232 344555554444
No 231
>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=82.42 E-value=7.8 Score=39.11 Aligned_cols=76 Identities=11% Similarity=0.115 Sum_probs=55.5
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
.+.+.++++.++.+++.++++..-.. ....+.+.+.+++.| +.+.....+.+.. ..+.....++..++.++|.
T Consensus 11 ~~~l~~~l~~~g~~~vlivt~~~~~~--~g~~~~v~~~L~~~g-i~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~D~ 83 (414)
T cd08190 11 TAEVGMDLKNLGARRVCLVTDPNLAQ--LPPVKVVLDSLEAAG-INFEVYDDVRVEP----TDESFKDAIAFAKKGQFDA 83 (414)
T ss_pred HHHHHHHHHHcCCCeEEEEECcchhh--cchHHHHHHHHHHcC-CcEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCE
Confidence 45677788899999999999866433 445788899998888 7665433333332 4467778888888889999
Q ss_pred EEE
Q 008863 235 FIV 237 (550)
Q Consensus 235 ii~ 237 (550)
||-
T Consensus 84 IIa 86 (414)
T cd08190 84 FVA 86 (414)
T ss_pred EEE
Confidence 987
No 232
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=82.22 E-value=8.5 Score=38.37 Aligned_cols=90 Identities=11% Similarity=0.183 Sum_probs=60.0
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
....+.+.++.++.+++.++++..-.- ....+.+.+.+++.| +.+.....+.+.. ..++....++.+++.++|
T Consensus 17 ~l~~l~~~~~~~g~~~~lvvtd~~~~~--~g~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D 89 (382)
T PRK10624 17 AIGALTDEVKRRGFKKALIVTDKTLVK--CGVVAKVTDVLDAAG-LAYEIYDGVKPNP----TIEVVKEGVEVFKASGAD 89 (382)
T ss_pred HHHHHHHHHHhcCCCEEEEEeCcchhh--CcchHHHHHHHHHCC-CeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCC
Confidence 345677888889999999998765432 346788999999888 7664432233322 446677888888888999
Q ss_pred EEEEEcC-CHHHHHHHHH
Q 008863 234 VFIVLQA-SLDMTIHLFT 250 (550)
Q Consensus 234 ~ii~~~~-~~~~~~~il~ 250 (550)
.||-+.+ +.-++..++.
T Consensus 90 ~IIaiGGGS~iD~aK~ia 107 (382)
T PRK10624 90 YLIAIGGGSPQDTCKAIG 107 (382)
T ss_pred EEEEeCChHHHHHHHHHH
Confidence 9986132 3334444433
No 233
>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=81.54 E-value=39 Score=30.27 Aligned_cols=126 Identities=14% Similarity=0.193 Sum_probs=69.8
Q ss_pred HhhhcCCeEEEEcCCChHHHHHHHHhh-ccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeE
Q 008863 91 ELINKEKVKVIAGMETWEETAVVAEIA-SRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRR 169 (550)
Q Consensus 91 ~li~~~~v~aiiG~~~s~~~~~v~~~~-~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~ 169 (550)
+.+.+.++.+|+-+-++ ....+..+- ...++|+++... +.+.-+.. +-++
T Consensus 59 ~~l~~~g~d~i~i~C~s-~~~~~~~~~~~~~~iPv~~~~~---------------------------a~~~~~~~-~~~r 109 (216)
T PF01177_consen 59 EKLEKAGVDAIVIACNS-AHPFVDELRKERVGIPVVGIVE---------------------------AALEAAKA-GGKR 109 (216)
T ss_dssp HHHHHTTESEEEESSHH-HHHHHHHHHHHHHSSEEEESHH---------------------------HHHHHHHH-TSSE
T ss_pred HHHHhCCCCEEEEcCCc-hhhhHHHHhhhcCceEEEeccH---------------------------HHHHHHHh-cCCE
Confidence 33345789888854333 223333344 566888777332 22444444 8889
Q ss_pred EEEEEEcCCCCCcchhHHHHHHHHhcC-CCe--EEEEEee--cC----CCCCCCCChH---HHHHHHHHh-hcCCCeEEE
Q 008863 170 VAAIYEDNVYGGDSGKLALLAEALQNV-SSS--EIQSRLV--LP----PISSISDPKE---AVRGELKKV-QDKQSRVFI 236 (550)
Q Consensus 170 v~ii~~~~~~g~~~~~~~~l~~~l~~~-g~~--~v~~~~~--~~----~~~~~~~~~~---d~~~~l~~i-~~~~~~~ii 236 (550)
++++.... ......+.+.+.+. | + .+..... +. ... .+.. .+...++++ ++.++++|+
T Consensus 110 i~vl~t~~-----~~~~~~~~~~~~~~~g-i~~~~~~~i~~~~~~~~e~~~---~~~~~~~~~~~~~~~l~~~~~~d~ii 180 (216)
T PF01177_consen 110 IGVLTTYT-----TEKSPLYEEFIEEAAG-IDDEVVAGIHNAIYDVIELGD---IPPEQIEILAEAARELIKEDGADAII 180 (216)
T ss_dssp EEEEESHH-----HHHHTHHHHHHHHCTT-EECEEEEEEEEEHTHHHHTTC---TTHHHHHHHHHHHHHHHHCTTSSEEE
T ss_pred EEEEecCc-----ccchHHHHHHHHHhcC-CcHHHHHHHHhhcHHHHhhhc---CCHHHHHHHHHHHHHHhccCCCCEEE
Confidence 99999532 33456677777776 7 6 4444210 10 111 1122 344555555 377999999
Q ss_pred EEcCCHHHHH-HHHHHHHHc
Q 008863 237 VLQASLDMTI-HLFTEANRM 255 (550)
Q Consensus 237 ~~~~~~~~~~-~il~~a~~~ 255 (550)
+ .|..-... ..+..+.+.
T Consensus 181 L-gCt~l~~~~~~~~~l~~~ 199 (216)
T PF01177_consen 181 L-GCTHLPLLLGAIEALEEE 199 (216)
T ss_dssp E-ESTTGGGGHHHHHHHHHT
T ss_pred E-CCCchHHHHHHHHhhccc
Confidence 9 66655443 666666553
No 234
>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=81.39 E-value=15 Score=36.36 Aligned_cols=91 Identities=11% Similarity=0.122 Sum_probs=61.6
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
.+.+.++++.++.+++.++++...+. ....+.+.+.+++.| +.+.....+.... ..++....++.+++.++|.
T Consensus 11 l~~l~~~l~~~~~~~~lvv~~~~~~~--~~~~~~v~~~L~~~~-~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~d~ 83 (370)
T cd08551 11 IEKLGEEIKNLGGRKALIVTDPGLVK--TGVLDKVIDSLKEAG-IEVVIFDGVEPNP----TLSNVDAAVAAYREEGCDG 83 (370)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhh--CccHHHHHHHHHHcC-CeEEEECCCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 46677888888999999999765432 356788999999888 7654332233332 4567888888998889999
Q ss_pred EEEEcC-CHHHHHHHHHHH
Q 008863 235 FIVLQA-SLDMTIHLFTEA 252 (550)
Q Consensus 235 ii~~~~-~~~~~~~il~~a 252 (550)
||-+.+ +.-++..++...
T Consensus 84 IiaiGGGs~~D~AK~va~~ 102 (370)
T cd08551 84 VIAVGGGSVLDTAKAIALL 102 (370)
T ss_pred EEEeCCchHHHHHHHHHHH
Confidence 886232 334455554443
No 235
>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=79.94 E-value=18 Score=35.97 Aligned_cols=77 Identities=13% Similarity=0.100 Sum_probs=55.5
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
....+.++++.++.+++.+|++...+. ....+.+.+.+++.| +.+.....+.+.. ..+...+.++.+++.++|
T Consensus 10 ~~~~l~~~~~~~~~~r~livt~~~~~~--~g~~~~v~~~L~~~g-i~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D 82 (375)
T cd08194 10 AVDETGAVLADLGGKRPLIVTDKVMVK--LGLVDKLTDSLKKEG-IESAIFDDVVSEP----TDESVEEGVKLAKEGGCD 82 (375)
T ss_pred HHHHHHHHHHHcCCCeEEEEcCcchhh--cchHHHHHHHHHHCC-CeEEEECCCCCCc----CHHHHHHHHHHHHhcCCC
Confidence 345566777777889999999765433 446788999999988 7765433344432 456778888889888999
Q ss_pred EEEE
Q 008863 234 VFIV 237 (550)
Q Consensus 234 ~ii~ 237 (550)
.||-
T Consensus 83 ~IIa 86 (375)
T cd08194 83 VIIA 86 (375)
T ss_pred EEEE
Confidence 9996
No 236
>cd08193 HVD 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. 5-hydroxyvalerate dehydrogenase (HVD) is an iron-containing (type III) NAD-dependent alcohol dehydrogenase. It plays a role in the cyclopentanol metabolism biochemical pathway. It catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. This cyclopentanol (cpn) degradation pathway is present in some bacteria which can use cyclopentanol as sole carbon source. In Comamonas sp. strain NCIMB 9872, this enzyme is encoded by the CpnD gene.
Probab=79.90 E-value=11 Score=37.53 Aligned_cols=89 Identities=12% Similarity=0.123 Sum_probs=59.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
...+.++++.++.+++.++++..-.. ....+.+...+++.+ +.+.....+.+.. ..+.....++.+++.++|.
T Consensus 14 l~~l~~~l~~~~~~~~livt~~~~~~--~~~~~~v~~~L~~~~-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~ 86 (376)
T cd08193 14 LARLGELLAALGAKRVLVVTDPGILK--AGLIDPLLASLEAAG-IEVTVFDDVEADP----PEAVVEAAVEAARAAGADG 86 (376)
T ss_pred HHHHHHHHHHcCCCeEEEEcCcchhh--CccHHHHHHHHHHcC-CeEEEECCCCCCc----CHHHHHHHHHHHHhcCCCE
Confidence 35577788888999999998765322 335788889999888 7665333333332 4567888888998889999
Q ss_pred EEEEcCCH--HHHHHHHHH
Q 008863 235 FIVLQASL--DMTIHLFTE 251 (550)
Q Consensus 235 ii~~~~~~--~~~~~il~~ 251 (550)
||- .+.+ -++..++..
T Consensus 87 IIa-iGGGs~iD~aK~ia~ 104 (376)
T cd08193 87 VIG-FGGGSSMDVAKLVAV 104 (376)
T ss_pred EEE-eCCchHHHHHHHHHH
Confidence 887 4333 344444433
No 237
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=78.62 E-value=16 Score=34.81 Aligned_cols=92 Identities=13% Similarity=0.164 Sum_probs=70.1
Q ss_pred CCCCeEEEEecCcHHhHHHH----HHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCC
Q 008863 139 RRWPYLIRMASNDSEQMKCI----ADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSIS 214 (550)
Q Consensus 139 ~~~~~~~~~~p~~~~~~~al----~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~ 214 (550)
...++.|-+.|+....+..+ .+.++..|.+++.++++.+--- ....+..++.|+++| +.+.....+.+..
T Consensus 38 k~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~--~~~~~~a~~~L~~~~-I~~~vyD~v~~eP--- 111 (465)
T KOG3857|consen 38 KMMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAK--LGLVKVAQDSLEENG-INVEVYDKVQPEP--- 111 (465)
T ss_pred ccceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhh--cccHHHHHHHHHHcC-CceEEecCccCCC---
Confidence 34577788888887776664 4457889999999999987533 557888999999999 8887655555443
Q ss_pred CChHHHHHHHHHhhcCCCeEEEE
Q 008863 215 DPKEAVRGELKKVQDKQSRVFIV 237 (550)
Q Consensus 215 ~~~~d~~~~l~~i~~~~~~~ii~ 237 (550)
...++...++-.|+.+.|.++.
T Consensus 112 -tv~s~~~alefak~~~fDs~va 133 (465)
T KOG3857|consen 112 -TVGSVTAALEFAKKKNFDSFVA 133 (465)
T ss_pred -chhhHHHHHHHHHhcccceEEE
Confidence 4567888888888888888776
No 238
>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=78.61 E-value=12 Score=37.16 Aligned_cols=77 Identities=9% Similarity=0.171 Sum_probs=54.8
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
....+.+.++.++.+++.++++..-.- ....+.+.+.+++.| +.+.....+.+.. ..+......+.+++.++|
T Consensus 16 ~l~~l~~~l~~~g~~r~lvvt~~~~~~--~g~~~~v~~~L~~~~-i~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D 88 (379)
T TIGR02638 16 AIEDIVDEVKRRGFKKALVVTDKDLIK--FGVADKVTDLLDEAG-IAYELFDEVKPNP----TITVVKAGVAAFKASGAD 88 (379)
T ss_pred HHHHHHHHHHhcCCCEEEEEcCcchhh--ccchHHHHHHHHHCC-CeEEEECCCCCCc----CHHHHHHHHHHHHhcCCC
Confidence 345677788888989999999765322 336788899999888 7664432233322 456777888888888999
Q ss_pred EEEE
Q 008863 234 VFIV 237 (550)
Q Consensus 234 ~ii~ 237 (550)
.||-
T Consensus 89 ~Iia 92 (379)
T TIGR02638 89 YLIA 92 (379)
T ss_pred EEEE
Confidence 9996
No 239
>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=77.70 E-value=24 Score=35.21 Aligned_cols=90 Identities=13% Similarity=0.086 Sum_probs=60.2
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCC-CCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVY-GGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~-g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
...+.++++.++ +++.+|++.... . ....+.+.+.+++.| +++.....+.+.. ..++..+..+.+++.++|
T Consensus 14 l~~l~~~~~~~g-~r~livt~~~~~~~--~g~~~~v~~~L~~~~-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D 85 (380)
T cd08185 14 LNELGEEALKPG-KKALIVTGNGSSKK--TGYLDRVIELLKQAG-VEVVVFDKVEPNP----TTTTVMEGAALAREEGCD 85 (380)
T ss_pred HHHHHHHHHhcC-CeEEEEeCCCchhh--ccHHHHHHHHHHHcC-CeEEEeCCccCCC----CHHHHHHHHHHHHHcCCC
Confidence 455677787777 899999976542 2 457788999999888 7765333344332 456777888888888999
Q ss_pred EEEEEcC-CHHHHHHHHHHH
Q 008863 234 VFIVLQA-SLDMTIHLFTEA 252 (550)
Q Consensus 234 ~ii~~~~-~~~~~~~il~~a 252 (550)
.||-+.+ +.-++...+...
T Consensus 86 ~IiavGGGS~iD~aK~ia~~ 105 (380)
T cd08185 86 FVVGLGGGSSMDTAKAIAFM 105 (380)
T ss_pred EEEEeCCccHHHHHHHHHHH
Confidence 9996232 334555554443
No 240
>PF00465 Fe-ADH: Iron-containing alcohol dehydrogenase ; InterPro: IPR001670 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of ethanol to acetaldehyde with the concomitant reduction of NAD. Currently three, structurally and catalytically, different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Iron-containing ADH's have been found in yeast (gene ADH4) [], as well as in Zymomonas mobilis (gene adhB) []. These two iron-containing ADH's are closely related to the following enzymes: Escherichia coli propanediol oxidoreductase (1.1.1.77 from EC) (gene fucO) [], an enzyme involved in the metabolism of fucose and which also seems to contain ferrous ion(s). Clostridium acetobutylicum NADPH- and NADH-dependent butanol dehydrogenases (1.1.1 from EC) (genes adh1, bdhA and bdhB) [], an enzyme which has activity using butanol and ethanol as substrates. E. coli adhE [], an iron-dependent enzyme which harbor three different activities: alcohol dehydrogenase, acetaldehyde dehydrogenase (acetylating) (1.2.1.10 from EC) and pyruvate-formate-lyase deactivase. Bacterial glycerol dehydrogenase (1.1.1.6 from EC) (gene gldA or dhaD) []. Clostridium kluyveri NAD-dependent 4-hydroxybutyrate dehydrogenase (4hbd) (1.1.1.61 from EC). Citrobacter freundii and Klebsiella pneumoniae 1,3-propanediol dehydrogenase (1.1.1.202 from EC) (gene dhaT). Bacillus methanolicus NAD-dependent methanol dehydrogenase (1.1.1.244 from EC) []. E. coli and Salmonella typhimurium ethanolamine utilization protein eutG. E. coli hypothetical protein yiaY. ; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1RRM_A 2BL4_A 2BI4_A 3BFJ_R 1KQ3_A 1JQ5_A 1JPU_A 1JQA_A 3JZD_A 3UHJ_A ....
Probab=75.51 E-value=9.8 Score=37.69 Aligned_cols=90 Identities=13% Similarity=0.121 Sum_probs=63.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
...+.+.++.+| ++.+|++..-.. ....+.+...+++.+ +.+.....+.... ...+..+.++.+++.++|.
T Consensus 11 l~~l~~~l~~~g--r~lvVt~~~~~~--~~~~~~v~~~L~~~~-i~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~D~ 81 (366)
T PF00465_consen 11 LEELGEELKRLG--RVLVVTDPSLSK--SGLVDRVLDALEEAG-IEVQVFDGVGPNP----TLEDVDEAAEQARKFGADC 81 (366)
T ss_dssp GGGHHHHHHCTT--EEEEEEEHHHHH--HTHHHHHHHHHHHTT-CEEEEEEEESSS-----BHHHHHHHHHHHHHTTSSE
T ss_pred HHHHHHHHHhcC--CEEEEECchHHh--CccHHHHHHHHhhCc-eEEEEEecCCCCC----cHHHHHHHHHHHHhcCCCE
Confidence 455677788887 999999873222 336889999999999 8876655555544 5678889999999999999
Q ss_pred EEEEcCCHH--HHHHHHHHHHH
Q 008863 235 FIVLQASLD--MTIHLFTEANR 254 (550)
Q Consensus 235 ii~~~~~~~--~~~~il~~a~~ 254 (550)
||- .+.+. ++.+++..+..
T Consensus 82 IIa-iGGGS~~D~aK~va~~~~ 102 (366)
T PF00465_consen 82 IIA-IGGGSVMDAAKAVALLLA 102 (366)
T ss_dssp EEE-EESHHHHHHHHHHHHHHT
T ss_pred EEE-cCCCCcCcHHHHHHhhcc
Confidence 997 54443 44455554444
No 241
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein. Note that this model does not identify all phnD-subfamily genes with evident phosphonate context, but all sequences above the trusted context may be inferred to bind phosphonate compounds even in the absence of such context. Furthermore, there is ample evidence to suggest that many other members of the TIGR01098 subfamily have a different primary function.
Probab=75.40 E-value=18 Score=34.33 Aligned_cols=87 Identities=16% Similarity=0.081 Sum_probs=45.2
Q ss_pred CcchhHHHHHHHHHHHHhccccccccCCCCCCCcEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCC
Q 008863 1 MNRFFFLVLIIASELVFVSPGVESASTNVNIEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR 80 (550)
Q Consensus 1 M~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~ 80 (550)
|+|+.++..+++ +.+.+|+.++++.+ .+++||+..+.+.. .....++--.+.+.+. .|.++++....+
T Consensus 1 ~~~~~~~~~~~~-~~~~~~~~~~~~~~-----~~l~vg~~~~~~~~---~~~~~~~~l~~~l~~~-~g~~v~~~~~~~-- 68 (288)
T TIGR03431 1 MLRRLILSLVAA-FMLISSNAQAEDWP-----KELNFGIIPTENAS---DLKQRWEPLADYLSKK-LGVKVKLFFATD-- 68 (288)
T ss_pred ChhhHHHHHHHH-HHHHhcchhhhcCC-----CeEEEEEcCCCCHH---HHHHHHHHHHHHHHHH-hCCcEEEEeCCC--
Confidence 888866555543 44555655433322 57999998765421 2222223223444433 367777654432
Q ss_pred CHHHHHHHHHHhhhcCCeEEEEcC
Q 008863 81 DPFQAATAAQELINKEKVKVIAGM 104 (550)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~aiiG~ 104 (550)
. ....+.+....+.+++..
T Consensus 69 -~----~~~~~al~~g~~D~~~~~ 87 (288)
T TIGR03431 69 -Y----AGVIEGMRFGKVDIAWYG 87 (288)
T ss_pred -H----HHHHHHHHcCCccEEEEC
Confidence 1 122344444678888743
No 242
>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=75.34 E-value=29 Score=34.26 Aligned_cols=76 Identities=11% Similarity=0.079 Sum_probs=52.7
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
...+.++++.++ +++.+|++...+- .....+.+.+.+++.| +++.....+.+.. ..++..+..+.+++.++|.
T Consensus 14 l~~l~~~~~~~g-~r~lvVt~~~~~~-~~g~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~ 86 (357)
T cd08181 14 VEKHGEELAALG-KRALIVTGKSSAK-KNGSLDDVTKALEELG-IEYEIFDEVEENP----SLETIMEAVEIAKKFNADF 86 (357)
T ss_pred HHHHHHHHHHcC-CEEEEEeCCchHh-hcCcHHHHHHHHHHcC-CeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCE
Confidence 344667788888 8998888765421 0235678899999888 7665433333332 4567888888899999999
Q ss_pred EEE
Q 008863 235 FIV 237 (550)
Q Consensus 235 ii~ 237 (550)
||-
T Consensus 87 IIa 89 (357)
T cd08181 87 VIG 89 (357)
T ss_pred EEE
Confidence 997
No 243
>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=75.02 E-value=31 Score=34.28 Aligned_cols=77 Identities=18% Similarity=0.202 Sum_probs=53.7
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
....+.++++.++.+++.++++..... ....+.+.+.+++.| +.+.....+.+.. ...+..+.+..+++.++|
T Consensus 15 ~l~~l~~~l~~~g~~~~livt~~~~~~--~~~~~~v~~~L~~~~-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~d 87 (377)
T cd08188 15 ALKLAGRYARRLGAKKVLLVSDPGVIK--AGWVDRVIESLEEAG-LEYVVFSDVSPNP----RDEEVMAGAELYLENGCD 87 (377)
T ss_pred HHHHHHHHHHHcCCCeEEEEeCcchhh--CccHHHHHHHHHHcC-CeEEEeCCCCCCC----CHHHHHHHHHHHHhcCCC
Confidence 345677788888989999998754322 335788889998888 7654332233322 345677788888888999
Q ss_pred EEEE
Q 008863 234 VFIV 237 (550)
Q Consensus 234 ~ii~ 237 (550)
.||-
T Consensus 88 ~IIa 91 (377)
T cd08188 88 VIIA 91 (377)
T ss_pred EEEE
Confidence 9997
No 244
>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=75.02 E-value=41 Score=29.23 Aligned_cols=87 Identities=14% Similarity=0.090 Sum_probs=54.5
Q ss_pred HHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcC--CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhc
Q 008863 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQD 229 (550)
Q Consensus 152 ~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~--g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~ 229 (550)
.++...+.+.....+ .++.++....+ .++.+.+.+.+. + ++|+.. .... ...+-...+++|.+
T Consensus 34 ~dl~~~l~~~~~~~~-~~vfllG~~~~------v~~~~~~~l~~~yP~-l~i~g~--~g~f-----~~~~~~~i~~~I~~ 98 (177)
T TIGR00696 34 PDLMEELCQRAGKEK-LPIFLYGGKPD------VLQQLKVKLIKEYPK-LKIVGA--FGPL-----EPEERKAALAKIAR 98 (177)
T ss_pred HHHHHHHHHHHHHcC-CeEEEECCCHH------HHHHHHHHHHHHCCC-CEEEEE--CCCC-----ChHHHHHHHHHHHH
Confidence 346666777666666 47777775543 344444444432 4 666653 2221 22344668999999
Q ss_pred CCCeEEEEEcCCHHHHHHHHHHHHH
Q 008863 230 KQSRVFIVLQASLDMTIHLFTEANR 254 (550)
Q Consensus 230 ~~~~~ii~~~~~~~~~~~il~~a~~ 254 (550)
+++|++++ .........++.+...
T Consensus 99 s~~dil~V-glG~PkQE~~~~~~~~ 122 (177)
T TIGR00696 99 SGAGIVFV-GLGCPKQEIWMRNHRH 122 (177)
T ss_pred cCCCEEEE-EcCCcHhHHHHHHhHH
Confidence 99999999 8777777777766544
No 245
>KOG3307 consensus Molybdopterin converting factor subunit 2 [Coenzyme transport and metabolism]
Probab=74.80 E-value=1.4 Score=34.41 Aligned_cols=31 Identities=26% Similarity=0.313 Sum_probs=23.8
Q ss_pred ccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHH
Q 008863 488 DGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLIN 522 (550)
Q Consensus 488 ~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~ 522 (550)
.-||||+|++=..+ |+ ++.+.++|.|-+=+.
T Consensus 113 ~~~~ID~LKa~vPI--wK--kE~Ye~~~vWK~N~E 143 (150)
T KOG3307|consen 113 TEKCIDLLKAHVPI--WK--KEEYEVDGVWKSNIE 143 (150)
T ss_pred HHHHHHHHHhcCCc--cc--ceeeecCccccccHH
Confidence 36999999987755 34 668899999987554
No 246
>PRK00856 pyrB aspartate carbamoyltransferase catalytic subunit; Provisional
Probab=74.36 E-value=57 Score=31.26 Aligned_cols=136 Identities=10% Similarity=0.140 Sum_probs=79.2
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
-.|+.+|...+ .+....|+.|+.++ ||..+.+...++...-.+.++.+.+.++.-++.+|+-=.. ....+.
T Consensus 46 k~~~~lF~~pS---TRTR~SFe~A~~~L----Gg~~i~l~~~~~~~~kgEs~~Dta~vls~y~~D~iv~R~~--~~~~~~ 116 (305)
T PRK00856 46 KTVANLFFEPS---TRTRLSFELAAKRL----GADVINFSASTSSVSKGETLADTIRTLSAMGADAIVIRHP--QSGAAR 116 (305)
T ss_pred cEEEEEeccCC---cchHHHHHHHHHHc----CCcEEEeCCCcccCCCCcCHHHHHHHHHhcCCCEEEEeCC--ChHHHH
Confidence 44777776553 57889999999998 4555555444433333355555566665443555553111 222355
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcC-C--eEEEEEEEcCCCCCcchhHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN-W--RRVAAIYEDNVYGGDSGKLAL 188 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~-w--~~v~ii~~~~~~g~~~~~~~~ 188 (550)
.++...++|+|..+.. + .. +| .++++|++ +++| + .+|+++.+- .++ ..+..
T Consensus 117 ~~a~~~~vPVINa~~g--~-----~~-------HP-----tQ~LaDl~Ti~e~~G~l~g~kv~~vGD~-~~~---~v~~S 173 (305)
T PRK00856 117 LLAESSDVPVINAGDG--S-----HQ-------HP-----TQALLDLLTIREEFGRLEGLKVAIVGDI-KHS---RVARS 173 (305)
T ss_pred HHHHHCCCCEEECCCC--C-----CC-------Cc-----HHHHHHHHHHHHHhCCCCCCEEEEECCC-CCC---cHHHH
Confidence 5666689999996643 0 11 12 35666664 4454 3 366666632 222 35677
Q ss_pred HHHHHhcCCCeEEEE
Q 008863 189 LAEALQNVSSSEIQS 203 (550)
Q Consensus 189 l~~~l~~~g~~~v~~ 203 (550)
+...+...| ..+..
T Consensus 174 l~~~~~~~g-~~~~~ 187 (305)
T PRK00856 174 NIQALTRLG-AEVRL 187 (305)
T ss_pred HHHHHHHcC-CEEEE
Confidence 777888888 76654
No 247
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=73.94 E-value=11 Score=36.33 Aligned_cols=38 Identities=16% Similarity=0.124 Sum_probs=21.0
Q ss_pred CcchhHHHHHHHHH---HHHhccccccccCCCCCCCcEEEEEEEecC
Q 008863 1 MNRFFFLVLIIASE---LVFVSPGVESASTNVNIEEVTKIGAIVDAN 44 (550)
Q Consensus 1 M~r~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~i~IG~i~~~~ 44 (550)
||||.+.+.+.+++ ++.+|+.+.. ..+.++||...+..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~l~Ig~~~~~~ 41 (320)
T TIGR02122 1 MKKRLFLLGAALAIVGAALAACAGDGG------EPTFVTIGTGGTGG 41 (320)
T ss_pred CchHHHHHHHHHHHHHHHHHhhccCCC------CCceEEEEeCCCCC
Confidence 88885544333332 3344544322 33589999877544
No 248
>TIGR03850 bind_CPR_0540 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family. Members of this protein are the substrate-binding protein of a predicted carbohydrate transporter operon, together with permease subunits of ABC transporter homology families. This substrate-binding protein frequently co-occurs in genomes with a family of disaccharide phosphorylases, TIGR02336, suggesting that the molecule transported will include beta-D-galactopyranosyl-(1-3)-N-acetyl-D-glucosamine and related carbohydrates. Members of this family are sporadically strain by strain, often in species with a human host association, including Propionibacterium acnes and Clostridium perfringens, and Bacillus cereus.
Probab=73.80 E-value=12 Score=38.00 Aligned_cols=24 Identities=17% Similarity=0.293 Sum_probs=19.1
Q ss_pred HHHHHHHHHHhcCCCCcEEEEEEe
Q 008863 53 TAMKIAVQNFNSDSRNHKLSLQIR 76 (550)
Q Consensus 53 ~a~~~Av~~iN~~~~~~~l~~~~~ 76 (550)
..++-.+++.|+..++++|++...
T Consensus 48 ~~~~~~~~~F~~~~~~i~V~~~~~ 71 (437)
T TIGR03850 48 KMWEEVVEAFEKSHEGVKVELTVS 71 (437)
T ss_pred HHHHHHHHHHHHHCCCceEEEEeC
Confidence 456778899998878999998754
No 249
>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=73.48 E-value=29 Score=34.56 Aligned_cols=77 Identities=12% Similarity=0.187 Sum_probs=54.1
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
....+.+.++.++-+++.++++..... ....+.+.+.+++.| +.+.....+.+.. ..+...+..+.+++.++|
T Consensus 15 ~l~~l~~~l~~~g~~~~lvv~~~~~~~--~~~~~~v~~~L~~~~-~~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~D 87 (377)
T cd08176 15 AIKEIGDELKNLGFKKALIVTDKGLVK--IGVVEKVTDVLDEAG-IDYVIYDGVKPNP----TITNVKDGLAVFKKEGCD 87 (377)
T ss_pred HHHHHHHHHHHhCCCeEEEECCchHhh--cCcHHHHHHHHHHcC-CeEEEeCCCCCCC----CHHHHHHHHHHHHhcCCC
Confidence 345677788888888998888754321 246788899999888 7654332233322 446678888888888999
Q ss_pred EEEE
Q 008863 234 VFIV 237 (550)
Q Consensus 234 ~ii~ 237 (550)
.||-
T Consensus 88 ~IIa 91 (377)
T cd08176 88 FIIS 91 (377)
T ss_pred EEEE
Confidence 9996
No 250
>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=73.04 E-value=10 Score=35.10 Aligned_cols=79 Identities=11% Similarity=0.086 Sum_probs=56.2
Q ss_pred EEEEEEcC--CCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYEDN--VYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~~--~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
|++|..+. .|. ....+.+++.+++.| ..+... ..... +.......++++.+.++|.||+...++.....
T Consensus 1 I~vi~~~~~~~~~--~~~~~g~~~~a~~~g-~~~~~~-~~~~~-----d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~ 71 (257)
T PF13407_consen 1 IGVIVPSMDNPFW--QQVIKGAKAAAKELG-YEVEIV-FDAQN-----DPEEQIEQIEQAISQGVDGIIVSPVDPDSLAP 71 (257)
T ss_dssp EEEEESSSSSHHH--HHHHHHHHHHHHHHT-CEEEEE-EESTT-----THHHHHHHHHHHHHTTESEEEEESSSTTTTHH
T ss_pred cEEEeCCCCCHHH--HHHHHHHHHHHHHcC-CEEEEe-CCCCC-----CHHHHHHHHHHHHHhcCCEEEecCCCHHHHHH
Confidence 45555543 355 677888888999988 777654 12211 33556677888888899988884577777889
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
+++.+.+.|+
T Consensus 72 ~l~~~~~~gI 81 (257)
T PF13407_consen 72 FLEKAKAAGI 81 (257)
T ss_dssp HHHHHHHTTS
T ss_pred HHHHHhhcCc
Confidence 9999999987
No 251
>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein. A subset of this model in which nearly all members exhibit genomic context with elements of phosphonate metabolism, particularly the C-P lyase system has been built (TIGR03431) as an equivalog. Nevertheless, there are members of this subfamily (TIGR01098) which show up sporadically on a phylogenetic tree that also show phosphonate context and are most likely competent to transport phosphonates.
Probab=72.87 E-value=11 Score=34.94 Aligned_cols=18 Identities=6% Similarity=-0.104 Sum_probs=14.6
Q ss_pred HHHHHHHhhcCCCeEEEE
Q 008863 220 VRGELKKVQDKQSRVFIV 237 (550)
Q Consensus 220 ~~~~l~~i~~~~~~~ii~ 237 (550)
....++.+...+.|+.+.
T Consensus 183 ~~~~~~al~~G~~Da~~~ 200 (254)
T TIGR01098 183 HDASALAVANGKVDAATN 200 (254)
T ss_pred hHHHHHHHHcCCCCeEEe
Confidence 456778888889999988
No 252
>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=72.65 E-value=40 Score=33.64 Aligned_cols=87 Identities=15% Similarity=0.124 Sum_probs=56.0
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEE
Q 008863 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (550)
Q Consensus 156 ~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~i 235 (550)
..+.++++.++ +++.+|++..... ....+.+.+.+++.| +.+.....+.+.. ...+....++..++.++|.|
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~--~~~~~~v~~~L~~~~-~~~~~f~~v~~~~----~~~~v~~~~~~~~~~~~D~I 83 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAG--TPVFAELVQALAAAG-VEVEVFDGVLPDL----PRSELCDAASAAARAGPDVI 83 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhh--cchHHHHHHHHHHcC-CeEEEECCCCCCc----CHHHHHHHHHHHHhcCCCEE
Confidence 45677888888 8998888654332 356788888999888 7664332222211 34556677777888899998
Q ss_pred EEEcCCH--HHHHHHHHH
Q 008863 236 IVLQASL--DMTIHLFTE 251 (550)
Q Consensus 236 i~~~~~~--~~~~~il~~ 251 (550)
|- .+.+ -++..++..
T Consensus 84 Ia-iGGGS~iD~aK~ia~ 100 (386)
T cd08191 84 IG-LGGGSCIDLAKIAGL 100 (386)
T ss_pred EE-eCCchHHHHHHHHHH
Confidence 86 4333 344444443
No 253
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=72.18 E-value=75 Score=28.60 Aligned_cols=131 Identities=13% Similarity=0.187 Sum_probs=75.9
Q ss_pred CCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHH-hhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHH
Q 008863 80 RDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE-IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCI 158 (550)
Q Consensus 80 ~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~-~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al 158 (550)
.++...+..+..-+++-|...|+=|.++ +..+++ +-...+||+|+ ..++.
T Consensus 58 ~~~~~~L~~~a~~Le~~GAd~i~l~~NT--~H~~~d~iq~~~~iPllh---------------------------IidaT 108 (230)
T COG1794 58 DEAGEILIDAAKKLERAGADFIVLPTNT--MHKVADDIQKAVGIPLLH---------------------------IIDAT 108 (230)
T ss_pred ccHHHHHHHHHHHHHhcCCCEEEEeCCc--HHHHHHHHHHhcCCCeeh---------------------------HHHHH
Confidence 4555555555555666788888865443 333333 44467888776 45566
Q ss_pred HHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHh-hcCCCeEEEE
Q 008863 159 ADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKV-QDKQSRVFIV 237 (550)
Q Consensus 159 ~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i-~~~~~~~ii~ 237 (550)
++-+++-|.++++++..... -....++..+.++| ++++ +|. ++-+..+.++ -+.-.+-.+.
T Consensus 109 a~~ik~~g~kkvgLLgT~~T-----m~~~fY~~~l~~~g-ievv----vPd--------d~~q~~v~~iIy~El~~G~~~ 170 (230)
T COG1794 109 AKAIKAAGAKKVGLLGTRFT-----MEQGFYRKRLEEKG-IEVV----VPD--------DDEQAEVNRIIYEELCQGIVK 170 (230)
T ss_pred HHHHHhcCCceeEEeeccch-----HHhHHHHHHHHHCC-ceEe----cCC--------HHHHHHHHHHHHHHHhcccch
Confidence 66777778888888886532 12455677888888 7654 222 1222222222 1111223444
Q ss_pred EcCCHHHHHHHHHHHHHcCCC
Q 008863 238 LQASLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 238 ~~~~~~~~~~il~~a~~~g~~ 258 (550)
..+.+....+++.+.+.|--
T Consensus 171 -~~sr~~~~~ii~~l~~~Gae 190 (230)
T COG1794 171 -DASRELYLAVIERLAERGAE 190 (230)
T ss_pred -HHHHHHHHHHHHHHHHcCCC
Confidence 56666677777777777543
No 254
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=72.04 E-value=92 Score=32.64 Aligned_cols=134 Identities=18% Similarity=0.294 Sum_probs=83.6
Q ss_pred CHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHH
Q 008863 81 DPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIAD 160 (550)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~ 160 (550)
.-..+++.+.+.+..+++.+||.-.++ +..+. +...||+|....+ ..+..+++.
T Consensus 48 ~~~~~v~~~~~~~~~~~~dviIsrG~t--a~~i~---~~~~iPVv~i~~s--------------------~~Dil~al~- 101 (538)
T PRK15424 48 GFEKAVTYIRKRLATERCDAIIAAGSN--GAYLK---SRLSVPVILIKPS--------------------GFDVMQALA- 101 (538)
T ss_pred hHHHHHHHHHHHHhhCCCcEEEECchH--HHHHH---hhCCCCEEEecCC--------------------HhHHHHHHH-
Confidence 345677778554445789999964332 33333 3468999886654 112444543
Q ss_pred HHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcC
Q 008863 161 LARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA 240 (550)
Q Consensus 161 ~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~ 240 (550)
.++.++ .++++|...+. ...++.+.+.+. +.+...... +.+|....++++++.+.++||- ..
T Consensus 102 ~a~~~~-~~iavv~~~~~----~~~~~~~~~~l~----~~i~~~~~~--------~~~e~~~~v~~lk~~G~~~vvG-~~ 163 (538)
T PRK15424 102 RARKLT-SSIGVVTYQET----IPALVAFQKTFN----LRIEQRSYV--------TEEDARGQINELKANGIEAVVG-AG 163 (538)
T ss_pred HHHhcC-CcEEEEecCcc----cHHHHHHHHHhC----CceEEEEec--------CHHHHHHHHHHHHHCCCCEEEc-Cc
Confidence 335554 56777776554 224666776664 444443322 3478999999999999999887 43
Q ss_pred CHHHHHHHHHHHHHcCCCCCCEEEEEe
Q 008863 241 SLDMTIHLFTEANRMGLVGKDSVWIVT 267 (550)
Q Consensus 241 ~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (550)
. ....|.+.|+.+ +++.+
T Consensus 164 ~------~~~~A~~~g~~g---~~~~s 181 (538)
T PRK15424 164 L------ITDLAEEAGMTG---IFIYS 181 (538)
T ss_pred h------HHHHHHHhCCce---EEecC
Confidence 2 356788899876 55553
No 255
>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=71.77 E-value=67 Score=27.86 Aligned_cols=128 Identities=17% Similarity=0.268 Sum_probs=76.4
Q ss_pred CHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHH
Q 008863 81 DPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIAD 160 (550)
Q Consensus 81 ~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~ 160 (550)
+-.++++.+.+++.++++.+||+-. .++.. +-+..++|+|....+ .....+++..
T Consensus 18 ~~e~~v~~a~~~~~~~g~dViIsRG--~ta~~---lr~~~~iPVV~I~~s--------------------~~Dil~al~~ 72 (176)
T PF06506_consen 18 SLEEAVEEARQLLESEGADVIISRG--GTAEL---LRKHVSIPVVEIPIS--------------------GFDILRALAK 72 (176)
T ss_dssp -HHHHHHHHHHHHTTTT-SEEEEEH--HHHHH---HHCC-SS-EEEE-----------------------HHHHHHHHHH
T ss_pred cHHHHHHHHHHhhHhcCCeEEEECC--HHHHH---HHHhCCCCEEEECCC--------------------HhHHHHHHHH
Confidence 4567889999994447999999631 22222 335568898885544 2334445444
Q ss_pred HHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcC
Q 008863 161 LARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA 240 (550)
Q Consensus 161 ~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~ 240 (550)
.- . .-++++++...+... ....+.+.+ | +.+..... . +..++...+++++..+.++|+- ..
T Consensus 73 a~-~-~~~~Iavv~~~~~~~----~~~~~~~ll---~-~~i~~~~~-~-------~~~e~~~~i~~~~~~G~~viVG-g~ 133 (176)
T PF06506_consen 73 AK-K-YGPKIAVVGYPNIIP----GLESIEELL---G-VDIKIYPY-D-------SEEEIEAAIKQAKAEGVDVIVG-GG 133 (176)
T ss_dssp CC-C-CTSEEEEEEESS-SC----CHHHHHHHH---T--EEEEEEE-S-------SHHHHHHHHHHHHHTT--EEEE-SH
T ss_pred HH-h-cCCcEEEEecccccH----HHHHHHHHh---C-CceEEEEE-C-------CHHHHHHHHHHHHHcCCcEEEC-CH
Confidence 33 2 338999998877532 266677766 4 55554332 2 4478999999999999999887 43
Q ss_pred CHHHHHHHHHHHHHcCCC
Q 008863 241 SLDMTIHLFTEANRMGLV 258 (550)
Q Consensus 241 ~~~~~~~il~~a~~~g~~ 258 (550)
. ..+.|++.|+.
T Consensus 134 ~------~~~~A~~~gl~ 145 (176)
T PF06506_consen 134 V------VCRLARKLGLP 145 (176)
T ss_dssp H------HHHHHHHTTSE
T ss_pred H------HHHHHHHcCCc
Confidence 2 35677888885
No 256
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=70.42 E-value=1.2e+02 Score=30.10 Aligned_cols=150 Identities=14% Similarity=0.117 Sum_probs=91.0
Q ss_pred cEEEEEEEecCCccchh-HHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCCh-HHHH
Q 008863 34 VTKIGAIVDANSQMGKQ-AITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETA 111 (550)
Q Consensus 34 ~i~IG~i~~~~~~~g~~-~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s-~~~~ 111 (550)
..+|-.|.|.++..-.. ..+-+....+..+....+ ++.+......+++...++++.+-+.+.+|.+.+=-.+. ....
T Consensus 212 ~l~i~~IaP~HG~i~~~~~~~i~~~Y~~W~~~~~~~-~V~l~Y~smyg~T~~ma~aiaegl~~~gv~v~~~~~~~~~~~e 290 (388)
T COG0426 212 LLKIEMIAPSHGPIWRGNPKEIVEAYRDWAEGQPKG-KVDLIYDSMYGNTEKMAQAIAEGLMKEGVDVEVINLEDADPSE 290 (388)
T ss_pred ccCccEEEcCCCceeeCCHHHHHHHHHHHHccCCcc-eEEEEEecccCCHHHHHHHHHHHhhhcCCceEEEEcccCCHHH
Confidence 37799999998543332 334445555555555434 67665555677888877777777766788776654333 3444
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAE 191 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~ 191 (550)
.+..+....++.+ . +|..... +.|+ ...++..++..-.-++.+.+.....++ ......+++
T Consensus 291 I~~~i~~a~~~vv-G------sPT~~~~-------~~p~---i~~~l~~v~~~~~~~k~~~vfgS~GW~--g~av~~i~~ 351 (388)
T COG0426 291 IVEEILDAKGLVV-G------SPTINGG-------AHPP---IQTALGYVLALAPKNKLAGVFGSYGWS--GEAVDLIEE 351 (388)
T ss_pred HHHHHhhcceEEE-e------cCcccCC-------CCch---HHHHHHHHHhccCcCceEEEEeccCCC--CcchHHHHH
Confidence 4445555544433 2 1222222 1232 344555555444445667777777777 788999999
Q ss_pred HHhcCCCeEEEEE
Q 008863 192 ALQNVSSSEIQSR 204 (550)
Q Consensus 192 ~l~~~g~~~v~~~ 204 (550)
.+++.| .++...
T Consensus 352 ~l~~~g-~~~~~~ 363 (388)
T COG0426 352 KLKDLG-FEFGFD 363 (388)
T ss_pred HHHhcC-cEEecc
Confidence 999999 887665
No 257
>cd08171 GlyDH-like2 Glycerol dehydrogenase-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=70.41 E-value=33 Score=33.62 Aligned_cols=74 Identities=19% Similarity=0.198 Sum_probs=50.7
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
...+.++++.++ +++.+|++...+ ....+.+.+.+++.| +.+.....+.... ..++.....+..++.++|.
T Consensus 11 ~~~l~~~~~~~~-~r~liv~d~~~~---~~~~~~v~~~l~~~~-~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~d~ 81 (345)
T cd08171 11 YKKIPEVCEKYG-KKVVVIGGKTAL---AAAKDKIKAALEQSG-IEITDFIWYGGES----TYENVERLKKNPAVQEADM 81 (345)
T ss_pred HHHHHHHHHhcC-CEEEEEeCHHHH---HHHHHHHHHHHHHCC-CeEEEEEecCCCC----CHHHHHHHHHHHhhcCCCE
Confidence 455677777777 888888875443 335677888888888 7665433344332 4456777777788889999
Q ss_pred EEE
Q 008863 235 FIV 237 (550)
Q Consensus 235 ii~ 237 (550)
||-
T Consensus 82 iia 84 (345)
T cd08171 82 IFA 84 (345)
T ss_pred EEE
Confidence 986
No 258
>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=69.75 E-value=1.1e+02 Score=31.89 Aligned_cols=135 Identities=16% Similarity=0.266 Sum_probs=84.2
Q ss_pred CCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHH
Q 008863 80 RDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIA 159 (550)
Q Consensus 80 ~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~ 159 (550)
.+-..+++.+.+.+..+++.+||.-.. ++..+. +...+|+|....+ ..+..+++.
T Consensus 37 ~~~~~~~~~a~~~~~~~~~dviIsrG~--ta~~i~---~~~~iPVv~i~~s--------------------~~Dil~al~ 91 (526)
T TIGR02329 37 LGFEDAVREIRQRLGAERCDVVVAGGS--NGAYLK---SRLSLPVIVIKPT--------------------GFDVMQALA 91 (526)
T ss_pred ccHHHHHHHHHHHHHhCCCcEEEECch--HHHHHH---HhCCCCEEEecCC--------------------hhhHHHHHH
Confidence 345678888855444578999996433 333333 3457999886654 112444442
Q ss_pred HHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEc
Q 008863 160 DLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQ 239 (550)
Q Consensus 160 ~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~ 239 (550)
.++.++ .++++|...+. ...++.+.+.+. +.+.... +. +..+....++++++.+.++||- .
T Consensus 92 -~a~~~~-~~ia~vg~~~~----~~~~~~~~~ll~----~~i~~~~-~~-------~~~e~~~~~~~l~~~G~~~viG-~ 152 (526)
T TIGR02329 92 -RARRIA-SSIGVVTHQDT----PPALRRFQAAFN----LDIVQRS-YV-------TEEDARSCVNDLRARGIGAVVG-A 152 (526)
T ss_pred -HHHhcC-CcEEEEecCcc----cHHHHHHHHHhC----CceEEEE-ec-------CHHHHHHHHHHHHHCCCCEEEC-C
Confidence 335554 56777776554 224666777664 4444333 22 3478999999999999998886 4
Q ss_pred CCHHHHHHHHHHHHHcCCCCCCEEEEEe
Q 008863 240 ASLDMTIHLFTEANRMGLVGKDSVWIVT 267 (550)
Q Consensus 240 ~~~~~~~~il~~a~~~g~~~~~~~~i~~ 267 (550)
. .....|+++||.+ +.|.+
T Consensus 153 ~------~~~~~A~~~gl~~---ili~s 171 (526)
T TIGR02329 153 G------LITDLAEQAGLHG---VFLYS 171 (526)
T ss_pred h------HHHHHHHHcCCce---EEEec
Confidence 3 2357789999975 55544
No 259
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=69.21 E-value=1e+02 Score=28.93 Aligned_cols=114 Identities=11% Similarity=0.169 Sum_probs=62.7
Q ss_pred chhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCCh-HHHHHHHHhhccCCccEEe
Q 008863 48 GKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETW-EETAVVAEIASRVQVPILS 126 (550)
Q Consensus 48 g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s-~~~~~v~~~~~~~~iP~is 126 (550)
|..=..++...+.++| |..+++.. +..-++. ...+++. .+...||....+ ..-..+..+|...++|+|+
T Consensus 82 G~~Kve~~~~rl~~IN---P~~~V~~i--~~~i~~e----~~~~ll~-~~~D~VIdaiD~~~~k~~L~~~c~~~~ip~I~ 151 (268)
T PRK15116 82 GLAKAEVMAERIRQIN---PECRVTVV--DDFITPD----NVAEYMS-AGFSYVIDAIDSVRPKAALIAYCRRNKIPLVT 151 (268)
T ss_pred ChHHHHHHHHHHHhHC---CCcEEEEE--ecccChh----hHHHHhc-CCCCEEEEcCCCHHHHHHHHHHHHHcCCCEEE
Confidence 4444446666667776 45555543 3322222 2334443 356777766555 4445688899999999998
Q ss_pred ccCCCCCCcccCCCCCeEEEEecC----cHHhHHHHHHHHHH-cCCe-------EEEEEEEcC
Q 008863 127 FAAPAVTPLSMSRRWPYLIRMASN----DSEQMKCIADLARK-YNWR-------RVAAIYEDN 177 (550)
Q Consensus 127 ~~~~~~~~~~~~~~~~~~~~~~p~----~~~~~~al~~~l~~-~~w~-------~v~ii~~~~ 177 (550)
.+.. ....+ |.-+++.-= ...+++.+-..|++ +|.. .+-++|+..
T Consensus 152 ~gGa--g~k~d----p~~~~~~di~~t~~~pla~~~R~~lr~~~~~~~~~~~~~~~~~v~S~E 208 (268)
T PRK15116 152 TGGA--GGQID----PTQIQVVDLAKTIQDPLAAKLRERLKSDFGVVKNSKGKLGVDCVFSTE 208 (268)
T ss_pred ECCc--ccCCC----CCeEEEEeeecccCChHHHHHHHHHHHhhCCCcccCccCCeEEEeCCC
Confidence 7655 33333 444444321 12355555555655 4553 266666544
No 260
>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=68.05 E-value=47 Score=33.14 Aligned_cols=76 Identities=14% Similarity=0.243 Sum_probs=51.8
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
...+.+.++.++ +++.+|++...+- .....+.+.+.++..| +++.....+.+.. ..++....+..+++.++|.
T Consensus 17 ~~~l~~~~~~~~-~r~livt~~~~~~-~~~~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~ 89 (382)
T cd08187 17 ESELGKELKKYG-KKVLLVYGGGSIK-KNGLYDRVIASLKEAG-IEVVELGGVEPNP----RLETVREGIELCKEEKVDF 89 (382)
T ss_pred HHHHHHHHHHhC-CEEEEEeCCcHHH-hcCcHHHHHHHHHHcC-CeEEEECCccCCC----CHHHHHHHHHHHHHcCCCE
Confidence 445677777775 8998888754320 0235688999999888 7665433333332 3467778888888889999
Q ss_pred EEE
Q 008863 235 FIV 237 (550)
Q Consensus 235 ii~ 237 (550)
||-
T Consensus 90 IIa 92 (382)
T cd08187 90 ILA 92 (382)
T ss_pred EEE
Confidence 996
No 261
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=67.94 E-value=1.1e+02 Score=29.79 Aligned_cols=124 Identities=12% Similarity=0.047 Sum_probs=70.3
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEe-cCCCCHHHHHHHHHHhhhc---CCeEEEEcCCCh
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIR-DHNRDPFQAATAAQELINK---EKVKVIAGMETW 107 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~-d~~~~~~~a~~~~~~li~~---~~v~aiiG~~~s 107 (550)
+.++|+.+.... ......-..|++.++++. |.++..... ....+...+.+.+.+++.+ .++.+|+...+.
T Consensus 161 g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~-----g~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~~~~d~ 235 (330)
T PRK15395 161 GKIQYVLLKGEPGHPDAEARTTYVIKELNDK-----GIKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVIANNDA 235 (330)
T ss_pred CceEEEEEecCCCCchHHHHHHHHHHHHHhc-----CCCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEEECCch
Confidence 467777665432 222334457888888764 333333323 2334556677788888864 358899976444
Q ss_pred HHHHHHHHhhccC---CccEEeccCCCCCCccc-CCCCCeEEEEecCcHHhHHHHHHHHHH
Q 008863 108 EETAVVAEIASRV---QVPILSFAAPAVTPLSM-SRRWPYLIRMASNDSEQMKCIADLARK 164 (550)
Q Consensus 108 ~~~~~v~~~~~~~---~iP~is~~~~~~~~~~~-~~~~~~~~~~~p~~~~~~~al~~~l~~ 164 (550)
. +..+...+.+. .+|++++... ..... ....|.+..+..+...++...++++..
T Consensus 236 ~-A~gvl~al~~~Gl~~vpVvg~D~~--~~~~~~~~~g~~~ttv~~~~~~~G~~a~~~l~~ 293 (330)
T PRK15395 236 M-AMGAVEALKAHNKSSIPVFGVDAL--PEALALVKSGAMAGTVLNDANNQAKATFDLAKN 293 (330)
T ss_pred H-HHHHHHHHHhcCCCCCeEEeeCCC--HHHHHHHHhCCceEEEecCHHHHHHHHHHHHHH
Confidence 3 33344444444 5588887765 11111 111244566677777788877777654
No 262
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=66.41 E-value=2.8 Score=39.94 Aligned_cols=32 Identities=19% Similarity=0.015 Sum_probs=28.7
Q ss_pred CChHHHHHhhhcccccEEeeceeeeeeeeeEE
Q 008863 515 GVYDDLINGVYDKVNYFNYHDKLLFKKKKRLC 546 (550)
Q Consensus 515 g~w~Gmi~el~~~~ad~a~~~~ti~~~r~~~~ 546 (550)
.+|..++..|.+|++|++++.++++.||++-+
T Consensus 51 ~~~~~i~~~L~sG~vDlgi~g~~~~~er~~~v 82 (287)
T PRK00489 51 LRPDDIPGYVADGVVDLGITGEDLLEESGADV 82 (287)
T ss_pred ECcHHHHHHHHcCCCCEEEcchHHHHHCCCCc
Confidence 46999999999999999999999999886654
No 263
>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=65.97 E-value=43 Score=32.94 Aligned_cols=72 Identities=13% Similarity=0.133 Sum_probs=51.6
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEE
Q 008863 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (550)
Q Consensus 156 ~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~i 235 (550)
..+.++++.++ +++.+|++...+ ....+.+.+.+++.| +.+.+.. +.... ..++.....+.+++.++|.|
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~---~~~~~~v~~~L~~~~-i~~~~~~-~~~~p----~~~~v~~~~~~~~~~~~D~I 81 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVL---DLVGAKIEESLAAAG-IDARFEV-FGGEC----TRAEIERLAEIARDNGADVV 81 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHH---HHHHHHHHHHHHhCC-CeEEEEE-eCCcC----CHHHHHHHHHHHhhcCCCEE
Confidence 45667777776 899888865432 356788888999888 7765433 44332 45677888888888899998
Q ss_pred EE
Q 008863 236 IV 237 (550)
Q Consensus 236 i~ 237 (550)
|-
T Consensus 82 Ia 83 (351)
T cd08170 82 IG 83 (351)
T ss_pred EE
Confidence 87
No 264
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=65.94 E-value=56 Score=32.34 Aligned_cols=73 Identities=8% Similarity=0.105 Sum_probs=51.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
...+.++++.++ +++.+|++...+ ....+.+.+.+++.| +.+.+.. +.... ..+.....++.+++.++|.
T Consensus 18 ~~~l~~~l~~~g-~~~livtd~~~~---~~~~~~v~~~l~~~~-~~~~~~~-~~~ep----~~~~v~~~~~~~~~~~~d~ 87 (366)
T PRK09423 18 LARLGEYLKPLG-KRALVIADEFVL---GIVGDRVEASLKEAG-LTVVFEV-FNGEC----SDNEIDRLVAIAEENGCDV 87 (366)
T ss_pred HHHHHHHHHHcC-CEEEEEEChhHH---HHHHHHHHHHHHhCC-CeEEEEE-eCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 455677788888 899888865543 336678888898888 7764332 44332 4467778888888889999
Q ss_pred EEE
Q 008863 235 FIV 237 (550)
Q Consensus 235 ii~ 237 (550)
||-
T Consensus 88 IIa 90 (366)
T PRK09423 88 VIG 90 (366)
T ss_pred EEE
Confidence 987
No 265
>cd08186 Fe-ADH8 Iron-containing alcohol dehydrogenase. Type III Iron-containing alcohol dehydrogenases (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. The ADH of hyperthermophilic archaeon Thermococcus hydrothermalis oxidizes a series of primary aliphatic and aromatic alcohols preferentially from C2 to C8 but is also active towards methanol and glycerol and stereospecific for monoterpenes. It was suggested that the type III ADHs in microorganisms are involved in acetaldehyde detoxication rather than in alcohol turnover.
Probab=64.87 E-value=36 Score=33.93 Aligned_cols=91 Identities=14% Similarity=0.120 Sum_probs=58.0
Q ss_pred HHHHHHHHHHc---CCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC
Q 008863 155 MKCIADLARKY---NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ 231 (550)
Q Consensus 155 ~~al~~~l~~~---~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~ 231 (550)
...+.++++.+ +.+++.+|++..... .....+.+.+.+++.| +.+.....+.+.. ..++....++.+++.+
T Consensus 11 ~~~l~~~l~~~~~~g~kr~livtd~~~~~-~~g~~~~v~~~L~~~g-i~~~~f~~v~~~p----~~~~v~~~~~~~~~~~ 84 (383)
T cd08186 11 IEKIGEILKDLKSKGISKVLLVTGKSAYK-KSGAWDKVEPALDEHG-IEYVLYNKVTPNP----TVDQVDEAAKLGREFG 84 (383)
T ss_pred HHHHHHHHHHhcccCCCEEEEEcCccHHh-hcChHHHHHHHHHHcC-CeEEEeCCCCCCC----CHHHHHHHHHHHHHcC
Confidence 34566777776 778999998754321 1235688899999888 7654332233322 4467788888888889
Q ss_pred CeEEEEEc-CCHHHHHHHHHH
Q 008863 232 SRVFIVLQ-ASLDMTIHLFTE 251 (550)
Q Consensus 232 ~~~ii~~~-~~~~~~~~il~~ 251 (550)
+|.||-+. ++.-++..++..
T Consensus 85 ~D~IIaiGGGS~iD~aK~ia~ 105 (383)
T cd08186 85 AQAVIAIGGGSPIDSAKSAAI 105 (383)
T ss_pred CCEEEEeCCccHHHHHHHHHH
Confidence 99988623 233455555444
No 266
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=64.65 E-value=63 Score=29.79 Aligned_cols=88 Identities=10% Similarity=0.056 Sum_probs=54.7
Q ss_pred HhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhc-CCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC
Q 008863 153 EQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN-VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ 231 (550)
Q Consensus 153 ~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~-~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~ 231 (550)
++...+.+.....+ .++.++..+.+ .++.+.+.+++ .+ +.|..... ... ..++....+++|.+++
T Consensus 92 dl~~~ll~~~~~~~-~~v~llG~~~~------v~~~a~~~l~~~y~-l~i~g~~~-Gyf-----~~~e~~~i~~~I~~s~ 157 (243)
T PRK03692 92 DLWEALMARAGKEG-TPVFLVGGKPE------VLAQTEAKLRTQWN-VNIVGSQD-GYF-----TPEQRQALFERIHASG 157 (243)
T ss_pred HHHHHHHHHHHhcC-CeEEEECCCHH------HHHHHHHHHHHHhC-CEEEEEeC-CCC-----CHHHHHHHHHHHHhcC
Confidence 46666776666666 67777765533 33444443322 35 66654431 211 2234567899999999
Q ss_pred CeEEEEEcCCHHHHHHHHHHHHHc
Q 008863 232 SRVFIVLQASLDMTIHLFTEANRM 255 (550)
Q Consensus 232 ~~~ii~~~~~~~~~~~il~~a~~~ 255 (550)
+|++++ .........++....+.
T Consensus 158 ~dil~V-glG~PkQE~~~~~~~~~ 180 (243)
T PRK03692 158 AKIVTV-AMGSPKQEIFMRDCRLV 180 (243)
T ss_pred CCEEEE-ECCCcHHHHHHHHHHHh
Confidence 999999 87777777777665554
No 267
>PRK07475 hypothetical protein; Provisional
Probab=63.78 E-value=61 Score=29.96 Aligned_cols=58 Identities=17% Similarity=0.173 Sum_probs=36.7
Q ss_pred CcEEEEEEec----------CCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHHhhccCCccEEe
Q 008863 68 NHKLSLQIRD----------HNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILS 126 (550)
Q Consensus 68 ~~~l~~~~~d----------~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is 126 (550)
.+++.+.+.+ ...++...+..+.+.+.+.++.+|+.+- .........+.+..++|+++
T Consensus 39 ~~pv~~~~v~g~~~~~~~~~~~~~~~~~l~~aa~~L~~~G~d~I~~~C-gt~~~~~~~l~~~~~VPv~~ 106 (245)
T PRK07475 39 PFPVRYKVVRGATPERVVEGDDPSLLDAFVAAARELEAEGVRAITTSC-GFLALFQRELAAALGVPVAT 106 (245)
T ss_pred CcCEEEEeeCCCCHHHHhcCCCccHHHHHHHHHHHHHHcCCCEEEech-HHHHHHHHHHHHHcCCCEec
Confidence 3555555554 2345666666666666668999999753 33333445566678899886
No 268
>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=63.75 E-value=1.3e+02 Score=28.03 Aligned_cols=121 Identities=14% Similarity=0.077 Sum_probs=63.3
Q ss_pred cEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHH
Q 008863 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (550)
Q Consensus 34 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v 113 (550)
.=+||.+.+.......+...|++.++++.|.................+...+.+.+.++++. +..||+..... .+..+
T Consensus 121 ~~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~-~pdaI~~~nd~-~A~gv 198 (265)
T cd06354 121 TGKVGFIGGMDIPLIRRFEAGFEAGVKYVNPGVPDIEVLVQYAGSFNDPAKGKEIAQAMYDQ-GADVIFAAAGG-TGNGV 198 (265)
T ss_pred CCeEEEEecccChHHHHHHHHHHHHHHHHhccCCCceEEEEEcCcccCHHHHHHHHHHHHHC-CCcEEEECCCC-CchHH
Confidence 35677776433222223337898888887521112222222222222345566777788863 57888875443 44445
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIAD 160 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~ 160 (550)
...+...++.++++... + ......|.+..+......++.-++.
T Consensus 199 ~~al~~~gisIvGfD~~---~-~~~~~~p~lttv~~~~~~~~~~~~~ 241 (265)
T cd06354 199 FQAAKEAGVYAIGVDSD---Q-YYLAPGVVLTSMVKRVDVAVYDAIK 241 (265)
T ss_pred HHHHHhcCCeEEEecCc---c-cccCCCcEEEEEeehhHHHHHHHHH
Confidence 55566677777777654 2 2223346566665444444433333
No 269
>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=63.08 E-value=36 Score=31.70 Aligned_cols=79 Identities=11% Similarity=0.092 Sum_probs=51.6
Q ss_pred EEEEEEEc--CCCCCcchhHHHHHHHHhc-CCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHH
Q 008863 169 RVAAIYED--NVYGGDSGKLALLAEALQN-VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (550)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~l~~-~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~ 245 (550)
+|++|..+ +.|. ....+.+.+.+++ .| ..+..... .. +.......++++.+.+.|.+|+........
T Consensus 1 ~igvi~~~~~~~~~--~~~~~gi~~~~~~~~~-~~~~~~~~--~~-----~~~~~~~~i~~l~~~~vdgiii~~~~~~~~ 70 (272)
T cd06301 1 KIGVSMANFDDNFL--TLLRNAMKEHAKVLGG-VELQFEDA--KN-----DVATQLSQVENFIAQGVDAIIVVPVDTAAT 70 (272)
T ss_pred CeeEeecccCCHHH--HHHHHHHHHHHHHcCC-cEEEEeCC--CC-----CHHHHHHHHHHHHHcCCCEEEEecCchhhh
Confidence 46777765 3466 7777888888888 88 77765321 11 234556777888777899888823333345
Q ss_pred HHHHHHHHHcCC
Q 008863 246 IHLFTEANRMGL 257 (550)
Q Consensus 246 ~~il~~a~~~g~ 257 (550)
..++.++.+.++
T Consensus 71 ~~~~~~l~~~~i 82 (272)
T cd06301 71 APIVKAANAAGI 82 (272)
T ss_pred HHHHHHHHHCCC
Confidence 567777777664
No 270
>COG4143 TbpA ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]
Probab=62.91 E-value=1.5e+02 Score=28.51 Aligned_cols=148 Identities=16% Similarity=0.173 Sum_probs=72.5
Q ss_pred CcchhHHHHHHHHHHHHhccccccccCCCCCCCcEEEEEEEecCCcc--chhHHHHHHHHHHHHhcCCCCcEEEEEEecC
Q 008863 1 MNRFFFLVLIIASELVFVSPGVESASTNVNIEEVTKIGAIVDANSQM--GKQAITAMKIAVQNFNSDSRNHKLSLQIRDH 78 (550)
Q Consensus 1 M~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~IG~i~~~~~~~--g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~ 78 (550)
|+|+ +..++++++++++|++.+++. .+++|+.--...+.+ |.....+| |.-+ +.+++++...+
T Consensus 1 m~~~-l~~~~~~all~~~~~~a~~~t------~~LtVytydSF~~ewg~Gp~vk~~F----E~~~----~~~v~fV~~~d 65 (336)
T COG4143 1 MRRL-LRALIGLALLVSAALGAQAAT------PTLTVYTYDSFASEWGPGPKVKKAF----EAEY----GCKVNFVALGD 65 (336)
T ss_pred Chhh-HHHHHHHHHHHHHhhHHhhcC------ceEEEEEEeeeecccCCcHHHHHHH----HHHh----CceEEEEEcCc
Confidence 6663 333333344444554322222 479998877665433 33444444 3332 56888877644
Q ss_pred CCCHHHHHHHHHHhhh---cCCeEEEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhH
Q 008863 79 NRDPFQAATAAQELIN---KEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQM 155 (550)
Q Consensus 79 ~~~~~~a~~~~~~li~---~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~ 155 (550)
+.+.+.+++. ..+.++|+|-.......+. +..++.+... +...... |.-++.-+-
T Consensus 66 ------~v~llnRl~leg~~~~ADvvvGldn~~l~~A~-------~~glf~~~~~--d~~~~~v--p~~~~~d~f----- 123 (336)
T COG4143 66 ------GVELLNRLILEGKNPKADVVVGLDNNLLARAR-------ETGLFAPYGV--DASDVPV--PEGWKIDTF----- 123 (336)
T ss_pred ------HHHHHHHHHHcCCCCCCcEEEecChHHHHHHH-------hcCCcccCCC--CcccCCC--CcccccCcc-----
Confidence 2233333332 3578899997665444432 3333333332 1110000 111111000
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHh
Q 008863 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ 194 (550)
Q Consensus 156 ~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~ 194 (550)
+.-|++-.|+++|+.+-. ...-+.|.+..+
T Consensus 124 ------~~P~DyGy~a~vYd~~~~---~~ppksL~dL~~ 153 (336)
T COG4143 124 ------ALPYDYGYFAFVYDKTKL---KNPPKSLKDLVE 153 (336)
T ss_pred ------ccccccceEEEEEchHHh---cCCcccHHHhcC
Confidence 334688899999987642 222355666665
No 271
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=62.69 E-value=48 Score=32.33 Aligned_cols=83 Identities=14% Similarity=0.029 Sum_probs=56.8
Q ss_pred CCeEEEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHH
Q 008863 166 NWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (550)
Q Consensus 166 ~w~~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~ 243 (550)
.-.+++++... ++|. ....+.+++.+++.| +++.... +... +...-...++.+.+.+.+.|++...+..
T Consensus 22 ~~~~i~~v~k~~~~pf~--~~~~~Gi~~aa~~~G-~~v~~~~--~~~~----d~~~q~~~i~~li~~~vdgIiv~~~d~~ 92 (336)
T PRK15408 22 AAERIAFIPKLVGVGFF--TSGGNGAKEAGKELG-VDVTYDG--PTEP----SVSGQVQLINNFVNQGYNAIIVSAVSPD 92 (336)
T ss_pred CCcEEEEEECCCCCHHH--HHHHHHHHHHHHHhC-CEEEEEC--CCCC----CHHHHHHHHHHHHHcCCCEEEEecCCHH
Confidence 44578888764 3566 677788888899999 8776421 2111 2223346677787889999988445666
Q ss_pred HHHHHHHHHHHcCC
Q 008863 244 MTIHLFTEANRMGL 257 (550)
Q Consensus 244 ~~~~il~~a~~~g~ 257 (550)
.+...++++.+.|+
T Consensus 93 al~~~l~~a~~~gI 106 (336)
T PRK15408 93 GLCPALKRAMQRGV 106 (336)
T ss_pred HHHHHHHHHHHCCC
Confidence 66789999999886
No 272
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=62.40 E-value=15 Score=31.97 Aligned_cols=30 Identities=17% Similarity=0.285 Sum_probs=25.8
Q ss_pred EEEEcCCChHHHHHHHHhhccCCccEEecc
Q 008863 99 KVIAGMETWEETAVVAEIASRVQVPILSFA 128 (550)
Q Consensus 99 ~aiiG~~~s~~~~~v~~~~~~~~iP~is~~ 128 (550)
++|+||..++-+.....+++.+++|||+.+
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlstg 32 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDTG 32 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcHh
Confidence 578999998888888889999999999843
No 273
>TIGR02136 ptsS_2 phosphate binding protein. Members of this family are phosphate-binding proteins. Most are found in phosphate ABC-transporter operons, but some are found in phosphate regulatory operons. This model separates members of the current family from the phosphate ABC transporter phosphate binding protein described by TIGRFAMs model TIGR00975.
Probab=61.83 E-value=25 Score=33.41 Aligned_cols=66 Identities=17% Similarity=0.125 Sum_probs=35.7
Q ss_pred CcchhH-HHHHHHHHHHH-hccccccccCCCC--CCCcEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEE
Q 008863 1 MNRFFF-LVLIIASELVF-VSPGVESASTNVN--IEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQI 75 (550)
Q Consensus 1 M~r~~~-~~~~~~~~~~~-~~~~~~~~~~~~~--~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~ 75 (550)
||++.+ ++.++++++.+ +|++ +-.+.-.. ....++||+.-... . -+.-.+.++.+..|+.++++..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~lrig~s~s~~-----~---~lp~~l~~f~~~~P~i~v~i~~ 70 (287)
T TIGR02136 1 MKKRIFLLIGLAAALLAAAGCGG-AIDSGIPDAKGSSTITIDGSTTVA-----P---LAEAAAEEFQKIHPGVSVTVQG 70 (287)
T ss_pred CchhhhHHHHHHHHHHHHhhccc-cccccchhhcccceEEEeccchHH-----H---HHHHHHHHHHhhCCCceEEEcc
Confidence 888854 44554444433 4444 22222111 22579999877432 1 2555667776666777777644
No 274
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=61.78 E-value=38 Score=31.60 Aligned_cols=80 Identities=9% Similarity=0.043 Sum_probs=50.9
Q ss_pred EEEEEEEc---CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHH
Q 008863 169 RVAAIYED---NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMT 245 (550)
Q Consensus 169 ~v~ii~~~---~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~ 245 (550)
+|++|..+ +.|. ....+.+.+.+++.| ..+..... ... +.......++++...+.+.+|+........
T Consensus 1 ~i~~i~~~~~~~~~~--~~~~~g~~~~~~~~g-~~v~~~~~--~~~----~~~~~~~~i~~l~~~~vdgiii~~~~~~~~ 71 (271)
T cd06312 1 KIAFVTHGPAGDPFW--TVVKNGAEDAAKDLG-VDVEYRGP--ETF----DVADMARLIEAAIAAKPDGIVVTIPDPDAL 71 (271)
T ss_pred CEEEecCCCCCCcHH--HHHHHHHHHHHHHhC-CEEEEECC--CCC----CHHHHHHHHHHHHHhCCCEEEEeCCChHHh
Confidence 46666654 3465 777888899999998 77654321 110 123445677777777899888823343444
Q ss_pred HHHHHHHHHcCC
Q 008863 246 IHLFTEANRMGL 257 (550)
Q Consensus 246 ~~il~~a~~~g~ 257 (550)
...++.+.+.|+
T Consensus 72 ~~~l~~~~~~~i 83 (271)
T cd06312 72 DPAIKRAVAAGI 83 (271)
T ss_pred HHHHHHHHHCCC
Confidence 567777777764
No 275
>cd08182 HEPD Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP). Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP) with either NADH or NADPH as a cofactor. NADH is the preferred cofactor. PnAA is a biosynthetic intermediate for several phosphonates such as the antibiotic fosfomycin, phosphinothricin tripeptide (PTT), and 2-aminoethylphosphonate (AEP). This enzyme is named PhpC in PTT biosynthesis pathway in Streptomyces hygroscopicus and S. viridochromogenes. Members of this family are only found in bacteria.
Probab=61.44 E-value=54 Score=32.49 Aligned_cols=88 Identities=10% Similarity=0.086 Sum_probs=56.7
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
...+.++++.++.+++.+|++...+ ....+.+.+++.+ +.+.....+.+.. ..+...+.++.+++.++|.
T Consensus 11 l~~l~~~~~~~g~~~~livtd~~~~-----~~~~~~~~l~~~~-~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~D~ 80 (367)
T cd08182 11 IAKLPSLLKGLGGKRVLLVTGPRSA-----IASGLTDILKPLG-TLVVVFDDVQPNP----DLEDLAAGIRLLREFGPDA 80 (367)
T ss_pred HHHHHHHHHhcCCCeEEEEeCchHH-----HHHHHHHHHHHcC-CeEEEEcCcCCCc----CHHHHHHHHHHHHhcCcCE
Confidence 3556777888888999999865431 3466777788877 6654333333332 4456778888888889999
Q ss_pred EEEEcC-CHHHHHHHHHHH
Q 008863 235 FIVLQA-SLDMTIHLFTEA 252 (550)
Q Consensus 235 ii~~~~-~~~~~~~il~~a 252 (550)
||-+.+ +.-++..++...
T Consensus 81 IIavGGGs~~D~aK~ia~~ 99 (367)
T cd08182 81 VLAVGGGSVLDTAKALAAL 99 (367)
T ss_pred EEEeCCcHHHHHHHHHHHH
Confidence 986232 334555555443
No 276
>TIGR00670 asp_carb_tr aspartate carbamoyltransferase. Ornithine carbamoyltransferases are in the same superfamily and form an outgroup.
Probab=61.36 E-value=1.2e+02 Score=29.09 Aligned_cols=134 Identities=11% Similarity=0.119 Sum_probs=76.2
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEE-ecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQI-RDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAV 112 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~-~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~ 112 (550)
-.|+.+|...+ .+....|+.|+.++ ||..+.+.. .++.-.-.+.++.+...++.- +.+|+- ... ...
T Consensus 40 k~v~~lF~~pS---TRTR~SFe~A~~~L----Gg~~i~l~~~~~s~~~kgEsi~Dta~vls~y-~D~iviR~~~---~~~ 108 (301)
T TIGR00670 40 KILANLFFEPS---TRTRLSFETAMKRL----GGDVVNFSDSETSSVAKGETLADTIKTLSGY-SDAIVIRHPL---EGA 108 (301)
T ss_pred CEEEEEeccCC---chhHhHHHHHHHHc----CCcEEEcCCCCcccCCCCcCHHHHHHHHHHh-CCEEEEECCc---hhH
Confidence 34777776553 57888999999998 566666655 333322223444444444432 333332 112 223
Q ss_pred HHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcCC---eEEEEEEEcCCCCCcchhH
Q 008863 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYNW---RRVAAIYEDNVYGGDSGKL 186 (550)
Q Consensus 113 v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~w---~~v~ii~~~~~~g~~~~~~ 186 (550)
+..+++...+|+|..+.. + .. +| .++++|++ +++|. .+|+++.+... ...+
T Consensus 109 ~~~~a~~s~vPVINa~~g--~-----~~-------HP-----tQ~LaDl~Ti~e~~g~l~g~~va~vGD~~~----~~v~ 165 (301)
T TIGR00670 109 ARLAAEVSEVPVINAGDG--S-----NQ-------HP-----TQTLLDLYTIYEEFGRLDGLKIALVGDLKY----GRTV 165 (301)
T ss_pred HHHHHhhCCCCEEeCCCC--C-----CC-------Cc-----HHHHHHHHHHHHHhCCCCCCEEEEEccCCC----CcHH
Confidence 455666678999986643 0 01 12 36666664 44542 57777774321 2456
Q ss_pred HHHHHHHhcCCCeEEEE
Q 008863 187 ALLAEALQNVSSSEIQS 203 (550)
Q Consensus 187 ~~l~~~l~~~g~~~v~~ 203 (550)
..+...+...| ..+..
T Consensus 166 ~Sl~~~~a~~g-~~v~~ 181 (301)
T TIGR00670 166 HSLAEALTRFG-VEVYL 181 (301)
T ss_pred HHHHHHHHHcC-CEEEE
Confidence 77777778888 77654
No 277
>PRK00779 ornithine carbamoyltransferase; Provisional
Probab=61.12 E-value=1.5e+02 Score=28.38 Aligned_cols=131 Identities=15% Similarity=0.197 Sum_probs=74.8
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE--cCCChHHHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA--GMETWEETAV 112 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii--G~~~s~~~~~ 112 (550)
-+|+.+|...+ .+...+|+.|..++ |+..+.+....+.-.-.+.+..+...++. -+.+|+ .+ ....
T Consensus 44 k~v~~lF~e~S---TRTR~SFe~A~~~L----Gg~~i~l~~~~ss~~kgEsl~Dt~~~l~~-~~D~iv~R~~----~~~~ 111 (304)
T PRK00779 44 KTLAMIFEKPS---TRTRVSFEVGMAQL----GGHAIFLSPRDTQLGRGEPIEDTARVLSR-YVDAIMIRTF----EHET 111 (304)
T ss_pred CEEEEEecCCC---chHHHHHHHHHHHc----CCcEEEECcccccCCCCcCHHHHHHHHHH-hCCEEEEcCC----ChhH
Confidence 44677776653 58889999999998 45555554332221222334444444443 244444 33 2223
Q ss_pred HHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcC-C--eEEEEEEEcCCCCCcchhH
Q 008863 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN-W--RRVAAIYEDNVYGGDSGKL 186 (550)
Q Consensus 113 v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~-w--~~v~ii~~~~~~g~~~~~~ 186 (550)
+..+++..++|+|..+.. .. +| .++++|++ +++| + .+++++.+ . ...+
T Consensus 112 ~~~~a~~~~vPVINag~~--------~~-------HP-----tQaL~Dl~Ti~e~~g~l~gl~i~~vGd--~----~~v~ 165 (304)
T PRK00779 112 LEELAEYSTVPVINGLTD--------LS-------HP-----CQILADLLTIYEHRGSLKGLKVAWVGD--G----NNVA 165 (304)
T ss_pred HHHHHHhCCCCEEeCCCC--------CC-------Ch-----HHHHHHHHHHHHHhCCcCCcEEEEEeC--C----CccH
Confidence 555677788999996532 11 12 36677764 3443 3 46777764 2 2356
Q ss_pred HHHHHHHhcCCCeEEEEE
Q 008863 187 ALLAEALQNVSSSEIQSR 204 (550)
Q Consensus 187 ~~l~~~l~~~g~~~v~~~ 204 (550)
..+...+...| .++...
T Consensus 166 ~Sl~~~l~~~g-~~v~~~ 182 (304)
T PRK00779 166 NSLLLAAALLG-FDLRVA 182 (304)
T ss_pred HHHHHHHHHcC-CEEEEE
Confidence 77777788888 776543
No 278
>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=59.75 E-value=33 Score=31.19 Aligned_cols=93 Identities=13% Similarity=0.159 Sum_probs=62.7
Q ss_pred ecCcHHhHHHHHHHHHH-cCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHH
Q 008863 148 ASNDSEQMKCIADLARK-YNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKK 226 (550)
Q Consensus 148 ~p~~~~~~~al~~~l~~-~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~ 226 (550)
.|+...-++.+++.+.. ..-+++.++..+.. ...+.+.+++.| ..+.....+.. . .........+.
T Consensus 97 ~~~~~~~s~~L~~~l~~~~~~~~vl~~~g~~~-------~~~l~~~L~~~g-~~v~~~~vY~~-~----~~~~~~~~~~~ 163 (231)
T PF02602_consen 97 VPSSEGSSEGLAELLKEQLRGKRVLILRGEGG-------RPDLPEKLREAG-IEVTEVIVYET-P----PEELSPELKEA 163 (231)
T ss_dssp E-TTSSSHHHHHGGHHHCCTTEEEEEEESSSS-------CHHHHHHHHHTT-EEEEEEECEEE-E----EHHHHHHHHHH
T ss_pred cCCCCCCHHHHHHHHHhhCCCCeEEEEcCCCc-------cHHHHHHHHHCC-CeEEEEEEeec-c----cccchHHHHHH
Confidence 56655667888888874 44488888775433 466778888888 88776665544 2 22344455666
Q ss_pred hhcCCCeEEEEEcCCHHHHHHHHHHHHHc
Q 008863 227 VQDKQSRVFIVLQASLDMTIHLFTEANRM 255 (550)
Q Consensus 227 i~~~~~~~ii~~~~~~~~~~~il~~a~~~ 255 (550)
+.....++|++ .++..+..++..+.+.
T Consensus 164 l~~~~~~~v~f--tS~~~~~~~~~~~~~~ 190 (231)
T PF02602_consen 164 LDRGEIDAVVF--TSPSAVRAFLELLKKN 190 (231)
T ss_dssp HHHTTTSEEEE--SSHHHHHHHHHHSSGH
T ss_pred HHcCCCCEEEE--CCHHHHHHHHHHhHhh
Confidence 66677888877 6788888888777654
No 279
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=59.68 E-value=15 Score=35.57 Aligned_cols=56 Identities=18% Similarity=0.250 Sum_probs=47.8
Q ss_pred ccchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEeeceeeeeeeeeEE
Q 008863 488 DGFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNYHDKLLFKKKKRLC 546 (550)
Q Consensus 488 ~GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~~~~ti~~~r~~~~ 546 (550)
.||-=+|.++.|+.||-+ .++.+.+ .-+-+..+|.+|++|++.+.++-.++|-+..
T Consensus 44 ~G~eYelak~Fa~yLgV~--Lki~~~~-n~dqLf~aL~ng~~DL~Aagl~~~~~~l~~~ 99 (473)
T COG4623 44 TGLEYELAKAFADYLGVK--LKIIPAD-NIDQLFDALDNGNADLAAAGLLYNSERLKNF 99 (473)
T ss_pred cchhHHHHHHHHHHhCCe--EEEEecC-CHHHHHHHHhCCCcceecccccCChhHhccc
Confidence 389999999999999988 7776653 4678999999999999999999998885543
No 280
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=59.36 E-value=54 Score=30.44 Aligned_cols=77 Identities=9% Similarity=0.101 Sum_probs=49.4
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcC-CHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SLDMTI 246 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~-~~~~~~ 246 (550)
++++..+ +.|. ....+.+.+.+++.| .++.... ... +.......++.+...+.+.||+ .. ......
T Consensus 2 Ig~i~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~--~~~-----~~~~~~~~l~~~~~~~vdgii~-~~~~~~~~~ 70 (273)
T cd06305 2 IAVVRYGGSGDFD--QAYLAGTKAEAEALG-GDLRVYD--AGG-----DDAKQADQIDQAIAQKVDAIII-QHGRAEVLK 70 (273)
T ss_pred eEEEeecCCCcHH--HHHHHHHHHHHHHcC-CEEEEEC--CCC-----CHHHHHHHHHHHHHcCCCEEEE-ecCChhhhH
Confidence 5666653 4455 667788888899998 8776532 111 2233456666666678898888 53 444455
Q ss_pred HHHHHHHHcCC
Q 008863 247 HLFTEANRMGL 257 (550)
Q Consensus 247 ~il~~a~~~g~ 257 (550)
.+++.+.+.|+
T Consensus 71 ~~i~~~~~~~i 81 (273)
T cd06305 71 PWVKRALDAGI 81 (273)
T ss_pred HHHHHHHHcCC
Confidence 67788888775
No 281
>TIGR00363 lipoprotein, YaeC family. This family of putative lipoproteins contains a consensus site for lipoprotein signal sequence cleavage. Included in this family is the E. coli hypothetical protein yaeC. About half of the proteins between the noise and trusted cutoffs contain the consensus lipoprotein signature and may belong to this family.
Probab=59.05 E-value=28 Score=32.48 Aligned_cols=55 Identities=18% Similarity=0.146 Sum_probs=30.8
Q ss_pred CcEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE
Q 008863 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA 102 (550)
Q Consensus 33 ~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii 102 (550)
++|+||...... ..-++.+.+.+-++ .|++|+++.+++...+..|+ ....+.+-+
T Consensus 18 ~~l~vG~~~~~~-------~~~~~~~~~~~~~~-~G~~Ve~~~f~d~~~~~~Al-------~~G~ID~~~ 72 (258)
T TIGR00363 18 LHIKVGVISGAE-------QQVAEVAAKVAKEK-YGLDVELVEFNDYALPNEAV-------SKGDLDANA 72 (258)
T ss_pred CcEEEEeCCCCh-------HHHHHHHHHHHHHh-cCCEEEEEEeCCcHHHHHHH-------HcCCCCeEe
Confidence 579999876433 12222333332221 38999999988755554443 235666543
No 282
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=58.74 E-value=1.5e+02 Score=28.88 Aligned_cols=121 Identities=15% Similarity=0.092 Sum_probs=71.5
Q ss_pred EEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEE-EEEEecCCCCHHHHHHHHHHhhhcC-C-eEEEEcCCChHHH
Q 008863 35 TKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKL-SLQIRDHNRDPFQAATAAQELINKE-K-VKVIAGMETWEET 110 (550)
Q Consensus 35 i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l-~~~~~d~~~~~~~a~~~~~~li~~~-~-v~aiiG~~~s~~~ 110 (550)
=+||++.... ...+..-..|+.-|+++.+ ..+ ...+.....+...+.+.+.+++... . ..|||.....-+.
T Consensus 176 ~~i~~i~~~~~~~~~~~R~~Gf~~al~~~~-----~~~~~~~i~~~~~~~~~g~~~~~~ll~~~~~~ptAif~~nD~~Al 250 (333)
T COG1609 176 RRIAFIGGPLDSSASRERLEGYRAALREAG-----LPINPEWIVEGDFSEESGYEAAERLLARGEPRPTAIFCANDLMAL 250 (333)
T ss_pred ceEEEEeCCCccccHhHHHHHHHHHHHHCC-----CCCCcceEEecCCChHHHHHHHHHHHhcCCCCCcEEEEcCcHHHH
Confidence 4677777763 3344566788888887763 333 3344444447778888888888643 2 8899976554444
Q ss_pred HHHHHhhccC--CccE-EeccCCCCCCc-ccCCCCCeEEEEecCcHHhHHHHHHHHH
Q 008863 111 AVVAEIASRV--QVPI-LSFAAPAVTPL-SMSRRWPYLIRMASNDSEQMKCIADLAR 163 (550)
Q Consensus 111 ~~v~~~~~~~--~iP~-is~~~~~~~~~-~~~~~~~~~~~~~p~~~~~~~al~~~l~ 163 (550)
..+ ..+... .+|. |+..+. +.. ......|-+-.+..+...+++..+++|.
T Consensus 251 g~l-~~~~~~g~~vP~disviGf--Dd~~~~~~~~P~LTTv~~~~~~~G~~A~~~Ll 304 (333)
T COG1609 251 GAL-RALRELGLRVPEDLSVIGF--DDIELARFLTPPLTTVRQPIEELGRRAAELLL 304 (333)
T ss_pred HHH-HHHHHcCCCCCCeeEEEEe--cChhhhhhCCCCCeeecCCHHHHHHHHHHHHH
Confidence 433 333333 3663 444443 332 2233345566677777777777777663
No 283
>cd08550 GlyDH-like Glycerol_dehydrogenase-like. Families of proteins related to glycerol dehydrogenases. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site. Some subfamilies have not been characterized till now.
Probab=58.52 E-value=85 Score=30.81 Aligned_cols=73 Identities=18% Similarity=0.190 Sum_probs=49.3
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
...+.++++.++ +++.+|++...+ ....+.+.+.+++.| +.+.... +.... ..+.....++.+++.++|.
T Consensus 11 ~~~l~~~~~~~g-~~~liv~~~~~~---~~~~~~v~~~l~~~~-i~~~~~~-~~~~p----~~~~v~~~~~~~~~~~~d~ 80 (349)
T cd08550 11 IKEIAAILSTFG-SKVAVVGGKTVL---KKSRPRFEAALAKSI-IVVDVIV-FGGEC----STEEVVKALCGAEEQEADV 80 (349)
T ss_pred HHHHHHHHHHcC-CeEEEEEChHHH---HHHHHHHHHHHHhcC-CeeEEEE-cCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 455677888888 888888865443 345677888888888 6543332 33221 3356777778888889999
Q ss_pred EEE
Q 008863 235 FIV 237 (550)
Q Consensus 235 ii~ 237 (550)
||-
T Consensus 81 IIa 83 (349)
T cd08550 81 IIG 83 (349)
T ss_pred EEE
Confidence 886
No 284
>TIGR00658 orni_carb_tr ornithine carbamoyltransferase. Most OTCases are homotrimers, but the homotrimers are organized into dodecamers built from four trimers in at least two species; the catabolic OTCase of Pseudomonas aeruginosa is allosterically regulated, while OTCase of the extreme thermophile Pyrococcus furiosus shows both allostery and thermophily.
Probab=57.75 E-value=1.7e+02 Score=28.07 Aligned_cols=131 Identities=14% Similarity=0.154 Sum_probs=71.6
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcC-CeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKE-KVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~-~v~aiiG~~~s~~~~~v~ 114 (550)
.++.+|-..+ .+....|+.|+.++ |+..+.+...++.-.-.+.++.+...++.- .+.++=++ . ...+.
T Consensus 41 ~v~~lF~epS---TRTR~SFe~A~~~L----Gg~~i~l~~~~ss~~kgEsl~Dt~~vls~y~D~iv~R~~-~---~~~~~ 109 (304)
T TIGR00658 41 TLALIFEKPS---TRTRVSFEVAAYQL----GGHPLYLNPNDLQLGRGESIKDTARVLSRYVDGIMARVY-K---HEDVE 109 (304)
T ss_pred EEEEEecCCC---cchHHHHHHHHHHc----CCCEEEeCCccccCCCCCCHHHHHHHHHHhCCEEEEECC-C---hHHHH
Confidence 4666665543 58889999999998 455555533333212223333333444321 22233333 2 22345
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcC-C--eEEEEEEEcCCCCCcchhHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN-W--RRVAAIYEDNVYGGDSGKLAL 188 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~-w--~~v~ii~~~~~~g~~~~~~~~ 188 (550)
.++...++|+|..+.. .. +| .++++|++ +++| + .+|+++.+. ...+..
T Consensus 110 ~~a~~~~vPVINa~~~--------~~-------HP-----tQaL~Dl~Ti~e~~g~l~g~~v~~vGd~------~~v~~S 163 (304)
T TIGR00658 110 ELAKYASVPVINGLTD--------LF-------HP-----CQALADLLTIIEHFGKLKGVKVVYVGDG------NNVCNS 163 (304)
T ss_pred HHHHhCCCCEEECCCC--------CC-------Ch-----HHHHHHHHHHHHHhCCCCCcEEEEEeCC------CchHHH
Confidence 5666778999986422 11 12 36677764 3444 3 356666532 235677
Q ss_pred HHHHHhcCCCeEEEEE
Q 008863 189 LAEALQNVSSSEIQSR 204 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~ 204 (550)
+...+...| ..+...
T Consensus 164 l~~~l~~~g-~~v~~~ 178 (304)
T TIGR00658 164 LMLAGAKLG-MDVVVA 178 (304)
T ss_pred HHHHHHHcC-CEEEEE
Confidence 777888888 766543
No 285
>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=57.56 E-value=1.1e+02 Score=25.45 Aligned_cols=119 Identities=14% Similarity=0.130 Sum_probs=65.1
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
+|+.+.+.. ......-..|++.|+++. |.+.....................++.+.++.+||... ...+..+.
T Consensus 11 ~i~~i~~~~~~~~~~~r~~gf~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~pdaii~~~-~~~a~~~~ 84 (160)
T PF13377_consen 11 RIAFIGGPPNSSVSRERLEGFREALKEH-----GIEFEELIFFSDDDSEDAREAQLLWLRRLRPDAIICSN-DRLALGVL 84 (160)
T ss_dssp SEEEEESSTTSHHHHHHHHHHHHHHHHT-----TSEEEGEEEEESSSHHHHHHHHHHHHHTCSSSEEEESS-HHHHHHHH
T ss_pred eEEEEecCCCChhHHHHHHHHHHHHHHC-----CCCCCeeEeecCCcchhHHHHHHHHHhcCCCcEEEEcC-HHHHHHHH
Confidence 466666333 334456668888888776 45555444444344333333333344433667888743 34445555
Q ss_pred HhhccCCc------cEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHH
Q 008863 115 EIASRVQV------PILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (550)
Q Consensus 115 ~~~~~~~i------P~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~ 164 (550)
..+...++ .+++.... +.. ...+|-+-.+..+...++...+++|..
T Consensus 85 ~~l~~~g~~vP~di~vv~~~~~---~~~-~~~~p~it~i~~~~~~~g~~a~~~l~~ 136 (160)
T PF13377_consen 85 RALRELGIRVPQDISVVSFDDS---PLL-EFFSPPITTIDQDPREMGREAVELLLD 136 (160)
T ss_dssp HHHHHTTSCTTTTSEEEEESSS---GHH-HCSSSTSEEEEE-HHHHHHHHHHHHHH
T ss_pred HHHHHcCCcccccccEEEecCc---HHH-HHHcCCCceecCCHHHHHHHHHHHHHH
Confidence 66665543 46776643 322 223344555666777788888877743
No 286
>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=57.32 E-value=1e+02 Score=24.79 Aligned_cols=64 Identities=9% Similarity=0.062 Sum_probs=43.0
Q ss_pred chhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHH----HHHHHHHHHHHcCCC
Q 008863 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD----MTIHLFTEANRMGLV 258 (550)
Q Consensus 183 ~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~----~~~~il~~a~~~g~~ 258 (550)
.-....+...++..| +++..--.. ......+..+.+.++++|.+ ++... .+..+++++++.+..
T Consensus 13 ~lG~~~~~~~l~~~G-~~vi~lG~~----------vp~e~~~~~a~~~~~d~V~i-S~~~~~~~~~~~~~~~~L~~~~~~ 80 (122)
T cd02071 13 DRGAKVIARALRDAG-FEVIYTGLR----------QTPEEIVEAAIQEDVDVIGL-SSLSGGHMTLFPEVIELLRELGAG 80 (122)
T ss_pred HHHHHHHHHHHHHCC-CEEEECCCC----------CCHHHHHHHHHHcCCCEEEE-cccchhhHHHHHHHHHHHHhcCCC
Confidence 555777888889999 887653321 22345667777889999999 65433 445667777777664
No 287
>TIGR00854 pts-sorbose PTS system, mannose/fructose/sorbose family, IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families.It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIB components of this family of PTS transporters.
Probab=56.41 E-value=1e+02 Score=25.96 Aligned_cols=81 Identities=9% Similarity=0.052 Sum_probs=56.1
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
.++.+..|.++++.+++.++-+.-.- ..+.+.+.....-.| +++.... .++....+++-+..+.+
T Consensus 13 HGQV~~~W~~~~~~~~IiVvdD~~A~---D~~~k~~lkma~P~g-vk~~i~s-----------ve~a~~~l~~~~~~~~~ 77 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVVNDDVAN---DEVRQTLMGIVAPTG-FKVRFVS-----------LEKTINVIHKPAYHDQT 77 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEcccccC---CHHHHHHHHhhCCCC-CEEEEEE-----------HHHHHHHHhCcCCCCce
Confidence 45667788999999999888765542 456666666666667 7765432 14555555554455678
Q ss_pred EEEEEcCCHHHHHHHHH
Q 008863 234 VFIVLQASLDMTIHLFT 250 (550)
Q Consensus 234 ~ii~~~~~~~~~~~il~ 250 (550)
++++ .-++.++..+++
T Consensus 78 v~vl-~k~~~da~~l~~ 93 (151)
T TIGR00854 78 IFLL-FRNPQDVLTLVE 93 (151)
T ss_pred EEEE-ECCHHHHHHHHH
Confidence 8888 999998888765
No 288
>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=55.87 E-value=38 Score=32.31 Aligned_cols=113 Identities=18% Similarity=0.167 Sum_probs=57.1
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChH---HHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWE---ETA 111 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~---~~~ 111 (550)
=+||++++.+...+......++-+.+. .|+++.....++..+...+ ...+ . +++.+++-+.+.. ...
T Consensus 132 k~igvl~~~~~~~~~~~~~~~~~~a~~-----~g~~l~~~~v~~~~~~~~~---~~~l-~-~~~da~~~~~~~~~~~~~~ 201 (294)
T PF04392_consen 132 KRIGVLYDPSEPNSVAQIEQLRKAAKK-----LGIELVEIPVPSSEDLEQA---LEAL-A-EKVDALYLLPDNLVDSNFE 201 (294)
T ss_dssp -EEEEEEETT-HHHHHHHHHHHHHHHH-----TT-EEEEEEESSGGGHHHH---HHHH-C-TT-SEEEE-S-HHHHHTHH
T ss_pred CEEEEEecCCCccHHHHHHHHHHHHHH-----cCCEEEEEecCcHhHHHHH---HHHh-h-ccCCEEEEECCcchHhHHH
Confidence 478988877632222333333333333 2667665555554444333 2333 3 3444554443332 223
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHH
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~ 164 (550)
.+...+...++|+++.... .... --+....++...+++..++++.+
T Consensus 202 ~i~~~~~~~~iPv~~~~~~----~v~~---Gal~~~~~~~~~~G~~Aa~~a~~ 247 (294)
T PF04392_consen 202 AILQLANEAKIPVFGSSDF----YVKA---GALGGYSVDYYEQGRQAAEMAVR 247 (294)
T ss_dssp HHHHHCCCTT--EEESSHH----HHCT---T-SEEEE--HHHHHHHHHHHHHH
T ss_pred HHHHHHHhcCCCEEECCHH----HhcC---CcEEEEccCHHHHHHHHHHHHHH
Confidence 4677889999999985422 1222 23567788888999888888755
No 289
>PRK14174 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=55.75 E-value=1.9e+02 Score=27.55 Aligned_cols=153 Identities=14% Similarity=0.091 Sum_probs=88.2
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc--CCC--hHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG--MET--WEET 110 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG--~~~--s~~~ 110 (550)
-+++++.--+......+.+.-.-+.+++ |+..++...+...+..+..+...++=.++.|++|+= |.. -...
T Consensus 32 P~Laii~vg~d~as~~Yv~~k~k~~~~~-----Gi~~~~~~l~~~~~~~el~~~I~~lN~D~~V~GIlvq~Plp~~id~~ 106 (295)
T PRK14174 32 PGLTVIIVGEDPASQVYVRNKAKSCKEI-----GMNSTVIELPADTTEEHLLKKIEDLNNDPDVHGILVQQPLPKQIDEF 106 (295)
T ss_pred CeEEEEEeCCChHHHHHHHHHHHHHHHc-----CCEEEEEECCCCCCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHH
Confidence 4666666554333455666666666665 788888877776777777777777766777887774 332 2222
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcC----CeEEEEEEEcCCCCCcchhH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN----WRRVAAIYEDNVYGGDSGKL 186 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~----w~~v~ii~~~~~~g~~~~~~ 186 (550)
.....+.-...+=-+++... .........+. +.|- .+.++.++|++|+ -+++++|....--| .-++
T Consensus 107 ~i~~~I~p~KDVDGl~~~n~--g~l~~~~~~~~---~~Pc---Tp~ail~ll~~y~i~l~Gk~vvViGrS~iVG--~Pla 176 (295)
T PRK14174 107 AVTLAIDPAKDVDGFHPENL--GRLVMGHLDKC---FVSC---TPYGILELLGRYNIETKGKHCVVVGRSNIVG--KPMA 176 (295)
T ss_pred HHHhcCCccccccccChhhH--HHHhcCCCCCC---cCCC---CHHHHHHHHHHhCCCCCCCEEEEECCCCcch--HHHH
Confidence 22333433444433333222 11111111121 2344 5678899999875 47899998887778 6666
Q ss_pred HHHHHHHhcCCCeEEEE
Q 008863 187 ALLAEALQNVSSSEIQS 203 (550)
Q Consensus 187 ~~l~~~l~~~g~~~v~~ 203 (550)
..|.+.+...+ .+|..
T Consensus 177 ~lL~~~~~~~~-atVt~ 192 (295)
T PRK14174 177 NLMLQKLKESN-CTVTI 192 (295)
T ss_pred HHHHhccccCC-CEEEE
Confidence 66655444455 45443
No 290
>PRK14805 ornithine carbamoyltransferase; Provisional
Probab=55.70 E-value=1.9e+02 Score=27.65 Aligned_cols=132 Identities=10% Similarity=0.133 Sum_probs=76.7
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVV 113 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v 113 (550)
-.|+.+|...+ .+....|+.|+.++ ||..+.+...++.-.-.+.++.+.+.++.- +.+|+- ..... .+
T Consensus 39 k~~~~lF~epS---TRTR~SFE~A~~~L----Gg~~i~l~~~~ss~~kgEsl~Dt~~vls~y-~D~iviR~~~~~---~~ 107 (302)
T PRK14805 39 KSVVMLFEKPS---LRTRVSFDIGINKL----GGHCLYLDQQNGALGKRESVADFAANLSCW-ADAIVARVFSHS---TI 107 (302)
T ss_pred CEEEEEecCCC---chHHHHHHHHHHHc----CCcEEECCCCcCcCCCCcCHHHHHHHHHHh-CCEEEEeCCChh---HH
Confidence 34777776653 58889999999998 455666543333222234444445555532 445542 12222 34
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcC---CeEEEEEEEcCCCCCcchhHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN---WRRVAAIYEDNVYGGDSGKLA 187 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~---w~~v~ii~~~~~~g~~~~~~~ 187 (550)
..+++...+|+|..+.. .. +| .++++|++ +++| -.+|+++.+. ...+.
T Consensus 108 ~~~a~~~~vPVINa~~~--------~~-------HP-----tQaL~Dl~Ti~e~~g~l~g~kva~vGD~------~~v~~ 161 (302)
T PRK14805 108 EQLAEHGSVPVINALCD--------LY-------HP-----CQALADFLTLAEQFGDVSKVKLAYVGDG------NNVTH 161 (302)
T ss_pred HHHHHhCCCCEEECCCC--------CC-------Ch-----HHHHHHHHHHHHHhCCcCCcEEEEEcCC------CccHH
Confidence 45566678999996432 11 22 36777764 3454 2578777642 33567
Q ss_pred HHHHHHhcCCCeEEEEE
Q 008863 188 LLAEALQNVSSSEIQSR 204 (550)
Q Consensus 188 ~l~~~l~~~g~~~v~~~ 204 (550)
.+...+...| ..+...
T Consensus 162 S~~~~~~~~g-~~v~~~ 177 (302)
T PRK14805 162 SLMYGAAILG-ATMTVI 177 (302)
T ss_pred HHHHHHHHcC-CEEEEE
Confidence 7777788888 776543
No 291
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=55.50 E-value=80 Score=29.78 Aligned_cols=78 Identities=9% Similarity=0.081 Sum_probs=52.0
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
+++|..+ +.|. ....+.+.+.+++.| ..+..... .. +.......++.+.+.+++.||+..+..+....
T Consensus 2 I~vi~~~~~~~~~--~~~~~gi~~~a~~~g-~~~~~~~~---~~----~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~ 71 (288)
T cd01538 2 IGLSLPTKTEERW--IRDRPNFEAALKELG-AEVIVQNA---NG----DPAKQISQIENMIAKGVDVLVIAPVDGEALAS 71 (288)
T ss_pred eEEEEeCCCcHHH--HHHHHHHHHHHHHcC-CEEEEECC---CC----CHHHHHHHHHHHHHcCCCEEEEecCChhhHHH
Confidence 5677754 3455 777888899999999 77665321 11 22344567777777789988882344555567
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
.++++.+.|.
T Consensus 72 ~l~~l~~~~i 81 (288)
T cd01538 72 AVEKAADAGI 81 (288)
T ss_pred HHHHHHHCCC
Confidence 7888888775
No 292
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=55.39 E-value=2e+02 Score=28.34 Aligned_cols=114 Identities=14% Similarity=0.161 Sum_probs=64.8
Q ss_pred CeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHH
Q 008863 142 PYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVR 221 (550)
Q Consensus 142 ~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~ 221 (550)
|+-+...+. ....+.++++.++++++.+|++...+ ....+.+.+.+++.| +.+.... ++... .+...+...
T Consensus 9 ~~~v~~G~g---~~~~l~~~l~~~~~~~~livtd~~~~---~~~~~~v~~~L~~~g-i~~~~~~-~~~~e-~~~~~~~v~ 79 (358)
T PRK00002 9 SYPIIIGKG---LLSELGELLAPLKGKKVAIVTDETVA---PLYLEKLRASLEAAG-FEVDVVV-LPDGE-QYKSLETLE 79 (358)
T ss_pred CCcEEEeCC---hHHHHHHHHHhcCCCeEEEEECCchH---HHHHHHHHHHHHhcC-CceEEEE-eCCCC-CCCCHHHHH
Confidence 444445554 34556777777788999999976543 457788888888888 7654321 22211 011345677
Q ss_pred HHHHHhhcCCC---eEEEEEcCC--HHHHHHHHHHHHHcCCCCCCEEEEEec
Q 008863 222 GELKKVQDKQS---RVFIVLQAS--LDMTIHLFTEANRMGLVGKDSVWIVTN 268 (550)
Q Consensus 222 ~~l~~i~~~~~---~~ii~~~~~--~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (550)
..++.+++.+. +.||. .+. .-++..++......|. .++-|.|+
T Consensus 80 ~~~~~~~~~~~~r~d~IIa-vGGGsv~D~aK~iA~~~~~gi---p~i~IPTT 127 (358)
T PRK00002 80 KIYDALLEAGLDRSDTLIA-LGGGVIGDLAGFAAATYMRGI---RFIQVPTT 127 (358)
T ss_pred HHHHHHHHcCCCCCCEEEE-EcCcHHHHHHHHHHHHhcCCC---CEEEcCch
Confidence 77777776654 87776 333 2344444443333332 34444443
No 293
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein. Note that this model does not identify all phnD-subfamily genes with evident phosphonate context, but all sequences above the trusted context may be inferred to bind phosphonate compounds even in the absence of such context. Furthermore, there is ample evidence to suggest that many other members of the TIGR01098 subfamily have a different primary function.
Probab=55.25 E-value=15 Score=34.81 Aligned_cols=41 Identities=12% Similarity=0.089 Sum_probs=33.2
Q ss_pred HHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEeece
Q 008863 493 ELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNYHDK 536 (550)
Q Consensus 493 Dll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~~~~ 536 (550)
.+.+++++.+|.+ .+++.. ..|+.++..|..|++|+++++.
T Consensus 48 ~l~~~l~~~~g~~--v~~~~~-~~~~~~~~al~~g~~D~~~~~~ 88 (288)
T TIGR03431 48 PLADYLSKKLGVK--VKLFFA-TDYAGVIEGMRFGKVDIAWYGP 88 (288)
T ss_pred HHHHHHHHHhCCc--EEEEeC-CCHHHHHHHHHcCCccEEEECh
Confidence 4668888888887 776543 3799999999999999999663
No 294
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=55.15 E-value=1.2e+02 Score=25.87 Aligned_cols=80 Identities=8% Similarity=-0.012 Sum_probs=54.9
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHh-cCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCC
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQ-NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS 232 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~-~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~ 232 (550)
.++.+..|+++++.+++.++-+.-.- ..+.+.+..... -.| +++.... .++....+++ +..+.
T Consensus 17 HGQV~~~W~~~~~~~~IiVvdD~vA~---D~~~k~~lkma~~P~g-vk~~i~s-----------v~~a~~~l~~-~~~~~ 80 (158)
T PRK09756 17 HGQVGVTWTSTIGANLLVVVDDVVAN---DDIQQKLMGITAETYG-FGIRFFT-----------IEKTINVIGK-AAPHQ 80 (158)
T ss_pred hHHHHHhhhcccCCCEEEEEcchhcC---CHHHHHHHHhcCCCCC-CEEEEEE-----------HHHHHHHHHh-ccCCc
Confidence 46677889999999999888765542 445565555544 567 6665322 2456666666 55566
Q ss_pred eEEEEEcCCHHHHHHHHH
Q 008863 233 RVFIVLQASLDMTIHLFT 250 (550)
Q Consensus 233 ~~ii~~~~~~~~~~~il~ 250 (550)
+++++ .-++.++..+++
T Consensus 81 ~vlvl-~~~~~da~~l~~ 97 (158)
T PRK09756 81 KIFLI-CRTPQTVRKLVE 97 (158)
T ss_pred eEEEE-ECCHHHHHHHHH
Confidence 78888 999998888765
No 295
>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=54.93 E-value=20 Score=28.56 Aligned_cols=87 Identities=14% Similarity=0.151 Sum_probs=46.2
Q ss_pred eEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhh--cCCCeEEEEEcCCHHHH
Q 008863 168 RRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQ--DKQSRVFIVLQASLDMT 245 (550)
Q Consensus 168 ~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~--~~~~~~ii~~~~~~~~~ 245 (550)
|++++|....+-+ . +...+-+.+.+.| .++... .+.. .+-+=......+. -...|.+++ +..++..
T Consensus 1 ksiAVvGaS~~~~--~-~g~~v~~~l~~~G-~~v~~V---np~~----~~i~G~~~y~sl~e~p~~iDlavv-~~~~~~~ 68 (116)
T PF13380_consen 1 KSIAVVGASDNPG--K-FGYRVLRNLKAAG-YEVYPV---NPKG----GEILGIKCYPSLAEIPEPIDLAVV-CVPPDKV 68 (116)
T ss_dssp -EEEEET--SSTT--S-HHHHHHHHHHHTT--EEEEE---STTC----SEETTEE-BSSGGGCSST-SEEEE--S-HHHH
T ss_pred CEEEEEcccCCCC--C-hHHHHHHHHHhCC-CEEEEE---CCCc----eEECcEEeeccccCCCCCCCEEEE-EcCHHHH
Confidence 4677877665433 2 3444555555577 665432 2211 0000011222333 348899999 9999999
Q ss_pred HHHHHHHHHcCCCCCCEEEEEecc
Q 008863 246 IHLFTEANRMGLVGKDSVWIVTNT 269 (550)
Q Consensus 246 ~~il~~a~~~g~~~~~~~~i~~~~ 269 (550)
..+++++.++|.. .+|+.+..
T Consensus 69 ~~~v~~~~~~g~~---~v~~~~g~ 89 (116)
T PF13380_consen 69 PEIVDEAAALGVK---AVWLQPGA 89 (116)
T ss_dssp HHHHHHHHHHT-S---EEEE-TTS
T ss_pred HHHHHHHHHcCCC---EEEEEcch
Confidence 9999999999854 48998773
No 296
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=54.86 E-value=70 Score=29.21 Aligned_cols=88 Identities=15% Similarity=0.247 Sum_probs=60.5
Q ss_pred ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH-HHHHhhccCCccE
Q 008863 46 QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA-VVAEIASRVQVPI 124 (550)
Q Consensus 46 ~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~-~v~~~~~~~~iP~ 124 (550)
..|..=..+++-.+..|| |.- ++...+. +-..+...+++. .+...||-...+-.+. .+..+|..+++|+
T Consensus 80 ~iGk~Kv~vm~eri~~In---P~c--~V~~~~~----f~t~en~~~~~~-~~~DyvIDaiD~v~~Kv~Li~~c~~~ki~v 149 (263)
T COG1179 80 DIGKPKVEVMKERIKQIN---PEC--EVTAIND----FITEENLEDLLS-KGFDYVIDAIDSVRAKVALIAYCRRNKIPV 149 (263)
T ss_pred hcccHHHHHHHHHHHhhC---CCc--eEeehHh----hhCHhHHHHHhc-CCCCEEEEchhhhHHHHHHHHHHHHcCCCE
Confidence 467777788888888888 333 3333433 344455677777 4899999877766555 5778999999999
Q ss_pred EeccCCCCCCcccCCCCCeEEEEec
Q 008863 125 LSFAAPAVTPLSMSRRWPYLIRMAS 149 (550)
Q Consensus 125 is~~~~~~~~~~~~~~~~~~~~~~p 149 (550)
|+.+.. ...++ |+-+++.-
T Consensus 150 Iss~Ga--g~k~D----PTri~v~D 168 (263)
T COG1179 150 ISSMGA--GGKLD----PTRIQVAD 168 (263)
T ss_pred Eeeccc--cCCCC----CceEEeee
Confidence 997766 33333 66666553
No 297
>PRK00865 glutamate racemase; Provisional
Probab=54.54 E-value=1.2e+02 Score=28.24 Aligned_cols=36 Identities=14% Similarity=0.292 Sum_probs=22.5
Q ss_pred HhhhcCCeEEEEcCCChHHHHHHHHhhccCCccEEe
Q 008863 91 ELINKEKVKVIAGMETWEETAVVAEIASRVQVPILS 126 (550)
Q Consensus 91 ~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is 126 (550)
+.+.+.++.+|+=+-.+..+..+..+-+..++|+|.
T Consensus 61 ~~L~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 61 EFLLEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHHHhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 333457888777554444434455565677899998
No 298
>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=54.48 E-value=64 Score=29.95 Aligned_cols=80 Identities=9% Similarity=0.083 Sum_probs=48.4
Q ss_pred EEEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcC-CHHHH
Q 008863 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SLDMT 245 (550)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~-~~~~~ 245 (550)
||++|..+ +.|. ..+...+.+.+++.| ..+.....-... +.......++++...+.+.||+ .. .....
T Consensus 1 ~Igvi~~~~~~~~~--~~~~~g~~~~~~~~g-~~~~~~~~~~~~-----~~~~~~~~i~~l~~~~vdgvii-~~~~~~~~ 71 (273)
T cd06310 1 KIALVPKGTTSDFW--QAVKAGAEAAAKELG-VKVTFQGPASET-----DVAGQVNLLENAIARGPDAILL-APTDAKAL 71 (273)
T ss_pred CeEEEecCCCcHHH--HHHHHHHHHHHHHcC-CEEEEecCccCC-----CHHHHHHHHHHHHHhCCCEEEE-cCCChhhh
Confidence 46777655 3455 677788888888888 776543211011 2234456677777778888888 43 33333
Q ss_pred HHHHHHHHHcCC
Q 008863 246 IHLFTEANRMGL 257 (550)
Q Consensus 246 ~~il~~a~~~g~ 257 (550)
...+..+.+.++
T Consensus 72 ~~~l~~~~~~~i 83 (273)
T cd06310 72 VPPLKEAKDAGI 83 (273)
T ss_pred HHHHHHHHHCCC
Confidence 456677766654
No 299
>PRK10386 curli assembly protein CsgE; Provisional
Probab=54.37 E-value=46 Score=27.02 Aligned_cols=27 Identities=19% Similarity=0.295 Sum_probs=17.4
Q ss_pred cEEE-EEEEecC-CccchhHHHHHHHHHH
Q 008863 34 VTKI-GAIVDAN-SQMGKQAITAMKIAVQ 60 (550)
Q Consensus 34 ~i~I-G~i~~~~-~~~g~~~~~a~~~Av~ 60 (550)
++-| |.+.+.+ +..|......|-....
T Consensus 25 eiEi~GLIiD~T~Tr~G~DFY~~Fs~~~~ 53 (130)
T PRK10386 25 EVEVPGLLTDHTVSSIGHDFYRAFSDKWE 53 (130)
T ss_pred cccccceEeccccccccHhHHHHHHHHHh
Confidence 4555 6666666 6678877777655544
No 300
>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=54.07 E-value=1.8e+02 Score=26.78 Aligned_cols=130 Identities=14% Similarity=0.060 Sum_probs=73.4
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
-+||.+.+........-..||+.++++.+. +.+..........+...+.+.+.++++. +..+|++.... .+..+.
T Consensus 121 ~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~ai~~~~d~-~A~gv~ 195 (260)
T cd06304 121 GKVGFVGGMPIPEVNRFINGFAAGAKSVNP---DITVLVIYTGSFFDPAKGKEAALALIDQ-GADVIFAAAGG-TGPGVI 195 (260)
T ss_pred CceEEEeccccHHHHHHHHHHHHHHHHhCC---CcEEEEEEecCccCcHHHHHHHHHHHhC-CCCEEEEcCCC-CchHHH
Confidence 467777543222223345788888876542 2333222223333445666777787763 56788875444 333344
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEE
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAI 173 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii 173 (550)
..+.+.++-++++... +. .....|-+-.+..+....+...++.+..-.|+..-..
T Consensus 196 ~al~~~gv~vigfD~~---~~-~~~~~p~lttv~~~~~~~~~~~~~~~~~~~~~~~~~~ 250 (260)
T cd06304 196 QAAKEAGVYAIGVDSD---QS-ALAPDAVLTSAVKNVDVAVYDAIKAVLDGTWKGGVYW 250 (260)
T ss_pred HHHHHcCCEEEeecCc---hh-hhcCccEEEEEEeccHHHHHHHHHHHHcCCCCCcceE
Confidence 5555666666666544 22 2223466777777777787777777766666544333
No 301
>cd00001 PTS_IIB_man PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. The active site histidine receives a phosphate group from the IIA subunit and transfers it to the substrate.
Probab=54.07 E-value=1.2e+02 Score=25.65 Aligned_cols=81 Identities=10% Similarity=0.112 Sum_probs=56.3
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
.++.+..|.++++.+++.++-+.-.- ..+.+.+.....-.| +++.... .++....+.+-+..+.+
T Consensus 12 HGQV~~~W~~~~~~~~IvVvdD~~A~---D~~~k~~l~ma~P~g-vk~~i~s-----------ve~a~~~l~~~~~~~~~ 76 (151)
T cd00001 12 HGQVATTWTKELNANRIIVVNDEVAN---DELRKTLLKLAAPPG-VKLRIFT-----------VEKAIEAINSPKYDKQR 76 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEcccccC---CHHHHHHHHhhCCCC-CeEEEEE-----------HHHHHHHHhCcCCCCce
Confidence 46678889999999999887765542 446666666666667 7765432 24555566654455678
Q ss_pred EEEEEcCCHHHHHHHHH
Q 008863 234 VFIVLQASLDMTIHLFT 250 (550)
Q Consensus 234 ~ii~~~~~~~~~~~il~ 250 (550)
++++ .-++..+..+++
T Consensus 77 v~il-~k~~~~~~~l~~ 92 (151)
T cd00001 77 VFLL-FKNPQDVLRLVE 92 (151)
T ss_pred EEEE-ECCHHHHHHHHH
Confidence 8888 999988887765
No 302
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=53.83 E-value=1.2e+02 Score=29.32 Aligned_cols=93 Identities=15% Similarity=0.144 Sum_probs=50.4
Q ss_pred CCCcEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCC-CHHHHHHHHHHhhhcC----CeEEEE---
Q 008863 31 IEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR-DPFQAATAAQELINKE----KVKVIA--- 102 (550)
Q Consensus 31 ~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~-~~~~a~~~~~~li~~~----~v~aii--- 102 (550)
+.-+-+||+|.+.++ .|++.-+..++...+...+.+...--++ +....+-.+.+.+... .+.+|+
T Consensus 11 P~~p~~I~vITs~~g-------Aa~~D~~~~~~~r~~~~~~~~~p~~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~R 83 (319)
T PF02601_consen 11 PKFPKRIAVITSPTG-------AAIQDFLRTLKRRNPIVEIILYPASVQGEGAAASIVSALRKANEMGQADDFDVIIIIR 83 (319)
T ss_pred CCCCCEEEEEeCCch-------HHHHHHHHHHHHhCCCcEEEEEeccccccchHHHHHHHHHHHHhccccccccEEEEec
Confidence 335679999998874 4555556666665454554443332222 2222233333333322 244444
Q ss_pred cCCChH-----HHHHHHHhhccCCccEEeccCC
Q 008863 103 GMETWE-----ETAVVAEIASRVQVPILSFAAP 130 (550)
Q Consensus 103 G~~~s~-----~~~~v~~~~~~~~iP~is~~~~ 130 (550)
|+.+-+ ....++.......+|+|+.-..
T Consensus 84 GGGs~eDL~~FN~e~varai~~~~~PvisaIGH 116 (319)
T PF02601_consen 84 GGGSIEDLWAFNDEEVARAIAASPIPVISAIGH 116 (319)
T ss_pred CCCChHHhcccChHHHHHHHHhCCCCEEEecCC
Confidence 443322 3345666667789999997655
No 303
>PRK14804 ornithine carbamoyltransferase; Provisional
Probab=53.80 E-value=2.1e+02 Score=27.52 Aligned_cols=129 Identities=12% Similarity=0.180 Sum_probs=75.0
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v~ 114 (550)
.|+.+|...+ .+....|+.|+.++ ||..+.+....+... ...++.+.+.++. .+.+|+- ..... .+.
T Consensus 45 ~l~~lF~epS---TRTR~SFe~A~~~L----Gg~~i~l~~~~~~~~-~~~~~dt~~vls~-~~D~iv~R~~~~~---~~~ 112 (311)
T PRK14804 45 SLAMLFQKTS---TRTRVSFEVAMTEM----GGHGIYLDWMASNFQ-LSDIDLEARYLSR-NVSVIMARLKKHE---DLL 112 (311)
T ss_pred EEEEEEcCCc---hhHHHHHHHHHHHc----CCeEEEeCCCccccc-cccHHHHHHHHHh-cCCEEEEeCCChH---HHH
Confidence 3666776553 58889999999998 566666543222111 1223333455553 5666653 11222 234
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcC---C--eEEEEEEEcCCCCCcchhH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN---W--RRVAAIYEDNVYGGDSGKL 186 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~---w--~~v~ii~~~~~~g~~~~~~ 186 (550)
.++....+|+|..+.. .. +| .++++|++ +++| + .+|+++.+ . ...+
T Consensus 113 ~~a~~~~vPVINag~~--------~~-------HP-----tQaL~Dl~Ti~e~~g~~~l~g~~va~vGd---~---~rv~ 166 (311)
T PRK14804 113 VMKNGSQVPVINGCDN--------MF-------HP-----CQSLADIMTIALDSPEIPLNQKQLTYIGV---H---NNVV 166 (311)
T ss_pred HHHHHCCCCEEECCCC--------CC-------Ch-----HHHHHHHHHHHHHhCCCCCCCCEEEEECC---C---CcHH
Confidence 5666778999996633 11 22 36777765 4455 2 37777762 2 3467
Q ss_pred HHHHHHHhcCCCeEEEE
Q 008863 187 ALLAEALQNVSSSEIQS 203 (550)
Q Consensus 187 ~~l~~~l~~~g~~~v~~ 203 (550)
..+...+...| ..+..
T Consensus 167 ~Sl~~~~~~~G-~~v~~ 182 (311)
T PRK14804 167 NSLIGITAALG-IHLTL 182 (311)
T ss_pred HHHHHHHHHcC-CEEEE
Confidence 77777888888 76654
No 304
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=53.38 E-value=54 Score=31.28 Aligned_cols=200 Identities=14% Similarity=0.052 Sum_probs=89.6
Q ss_pred Ccchh-HHHHHHHHHHHHhccc-cccccCCCCCCCcEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecC
Q 008863 1 MNRFF-FLVLIIASELVFVSPG-VESASTNVNIEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDH 78 (550)
Q Consensus 1 M~r~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~ 78 (550)
|.++. +....++++.+++||+ +...++.....+++++|++-..+...-.+....+.-.+++ + -|+++++.+.-+
T Consensus 1 m~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~l~~gi~p~e~~~~~~~~~~pl~~~L~~---~-lG~~V~~~~a~d 76 (299)
T COG3221 1 MKKKKLLLASAAAVLALAGCCGSSESDAPAAEDPKELRVGIVPTENPTNLIPAWAPLADYLEK---E-LGIPVEFFVATD 76 (299)
T ss_pred CchHHHHHHHHHHHHHHHHhccCCccccccccCCcceEEEEcCCCChHHHHHHHHHHHHHHHH---H-hCCceEEEeccc
Confidence 55563 3334444444555444 3323232335578999999887742222333344333333 2 377888776522
Q ss_pred CCCHHHHHHHHHHhhhcCCeE-EEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHH
Q 008863 79 NRDPFQAATAAQELINKEKVK-VIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKC 157 (550)
Q Consensus 79 ~~~~~~a~~~~~~li~~~~v~-aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a 157 (550)
-. .+.+.+...++. |.+||. ....+.. . ....-|+...... +. ...|..+|-+..+....
T Consensus 77 ---y~----~vieal~~g~~D~A~~~~~--a~~~a~~-~-~~~~e~~~~~~~~--dg---~~~Y~S~~i~~~ds~i~--- 137 (299)
T COG3221 77 ---YA----AVIEALRAGQVDIAWLGPS--AYVEAVD-R-ALAGEPLAQTVQK--DG---SPGYYSVIIVRADSPIK--- 137 (299)
T ss_pred ---HH----HHHHHHhCCCeeEEecCch--hHHHHHh-h-cccccceeeeecc--CC---CcceeEEEEEeCCCCcc---
Confidence 11 223333346776 666665 1111111 1 1123344443111 11 11233333333332222
Q ss_pred HHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEE
Q 008863 158 IADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIV 237 (550)
Q Consensus 158 l~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~ 237 (550)
-+...+-+++++--.+...| ++ .-...+.+.|.+.. ...+.... ....+...+..+.+.+.|+-.+
T Consensus 138 ---sl~dlkgk~~af~d~~StSG----~l-~P~~~L~~~g~~d~--~~~f~~v~----~~G~H~~a~~aV~nG~vDva~~ 203 (299)
T COG3221 138 ---SLEDLKGKRFAFGDPDSTSG----YL-FPLYYLAKEGGIDP--DKFFGEVI----FSGGHDAAVLAVANGQVDVAAV 203 (299)
T ss_pred ---hHHHhcCCeEeccCCCcchh----hH-hHHHHHHHhcCCCh--hhhhceee----ccChHHHHHHHHHcCCceEEec
Confidence 22366678887766655544 22 22333333330211 00011110 1123566777788888888777
No 305
>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=51.97 E-value=1.6e+02 Score=26.04 Aligned_cols=89 Identities=8% Similarity=0.003 Sum_probs=57.3
Q ss_pred eEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCC----HH
Q 008863 168 RRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS----LD 243 (550)
Q Consensus 168 ~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~----~~ 243 (550)
.++.+.+-..+. |.-....+...++..| +++.+- ... ......++.+++.++++|.+ .+. ..
T Consensus 85 ~~vv~~t~~gd~--H~lG~~~v~~~l~~~G-~~vi~L---G~~-------vp~e~~v~~~~~~~pd~v~l-S~~~~~~~~ 150 (197)
T TIGR02370 85 GKVVCGVAEGDV--HDIGKNIVVTMLRANG-FDVIDL---GRD-------VPIDTVVEKVKKEKPLMLTG-SALMTTTMY 150 (197)
T ss_pred CeEEEEeCCCch--hHHHHHHHHHHHHhCC-cEEEEC---CCC-------CCHHHHHHHHHHcCCCEEEE-ccccccCHH
Confidence 355555544442 2555777888888899 877542 221 23455667777789999888 543 35
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEEeccc
Q 008863 244 MTIHLFTEANRMGLVGKDSVWIVTNTV 270 (550)
Q Consensus 244 ~~~~il~~a~~~g~~~~~~~~i~~~~~ 270 (550)
.+..+++++++.|....-.+|++...+
T Consensus 151 ~~~~~i~~l~~~~~~~~v~i~vGG~~~ 177 (197)
T TIGR02370 151 GQKDINDKLKEEGYRDSVKFMVGGAPV 177 (197)
T ss_pred HHHHHHHHHHHcCCCCCCEEEEEChhc
Confidence 667888888888876554566665444
No 306
>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=51.87 E-value=2.5e+02 Score=27.72 Aligned_cols=105 Identities=14% Similarity=0.151 Sum_probs=60.0
Q ss_pred CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHHhhccCCccE
Q 008863 45 SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPI 124 (550)
Q Consensus 45 ~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~ 124 (550)
+.+|.+...+.+++- . =.+.+.+.|.-..-..++....++-. .. .. .-+........+.+.+.+.+||+
T Consensus 6 Gf~gD~~~a~~~l~~-----~---g~~d~l~~d~LaE~tma~~~~~~~~~-p~-~g-Y~~~~~~~L~~~L~~~~~~gIkv 74 (362)
T PF07287_consen 6 GFWGDRPDAAVRLAR-----G---GDVDYLVGDYLAERTMAILARAKRKD-PT-KG-YAPDFVRDLRPLLPAAAEKGIKV 74 (362)
T ss_pred ccccCcHHHHHHHHh-----c---CCCCEEEEecHHHHHHHHHHHHHhhC-CC-CC-chHHHHHHHHHHHHHHHhCCCCE
Confidence 344566666666552 1 15677777765443334433233221 11 11 11222234455667888899999
Q ss_pred EeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCC-eEEEEEEEcCC
Q 008863 125 LSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNW-RRVAAIYEDNV 178 (550)
Q Consensus 125 is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w-~~v~ii~~~~~ 178 (550)
|+-+.. .+ ....++.+.+++++.|. -||++|+.|+.
T Consensus 75 I~NaGg-----~n-------------p~~~a~~v~eia~e~Gl~lkvA~V~gDd~ 111 (362)
T PF07287_consen 75 ITNAGG-----LN-------------PAGCADIVREIARELGLSLKVAVVYGDDL 111 (362)
T ss_pred EEeCCC-----CC-------------HHHHHHHHHHHHHhcCCCeeEEEEECccc
Confidence 986544 11 12278888889988766 48999998776
No 307
>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=51.80 E-value=83 Score=28.87 Aligned_cols=79 Identities=9% Similarity=0.049 Sum_probs=49.3
Q ss_pred EEEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHH
Q 008863 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (550)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~ 246 (550)
+|++|..+ +.|. ..+.+.+++.+++.| +.+.....- . +.......++++...+.+.||+.........
T Consensus 1 ~ig~i~p~~~~~~~--~~~~~~~~~~a~~~g-~~~~~~~~~-~------~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~ 70 (267)
T cd01536 1 KIGLVVPSLNNPFW--QAMNKGAEAAAKELG-VELIVLDAQ-N------DVSKQIQQIEDLIAQGVDGIIISPVDSAALT 70 (267)
T ss_pred CEEEEeccccCHHH--HHHHHHHHHHHHhcC-ceEEEECCC-C------CHHHHHHHHHHHHHcCCCEEEEeCCCchhHH
Confidence 46777765 3455 778888888888888 776553221 1 2234456677777778898887233333334
Q ss_pred HHHHHHHHcCC
Q 008863 247 HLFTEANRMGL 257 (550)
Q Consensus 247 ~il~~a~~~g~ 257 (550)
..+..+.+.+.
T Consensus 71 ~~~~~l~~~~i 81 (267)
T cd01536 71 PALKKANAAGI 81 (267)
T ss_pred HHHHHHHHCCC
Confidence 46666666654
No 308
>PRK03515 ornithine carbamoyltransferase subunit I; Provisional
Probab=51.79 E-value=2.4e+02 Score=27.52 Aligned_cols=132 Identities=13% Similarity=0.108 Sum_probs=72.9
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcC-CeEEEEcCCChHHHHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKE-KVKVIAGMETWEETAVV 113 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~-~v~aiiG~~~s~~~~~v 113 (550)
-+|+.+|...+ .+....|+.|+.++ ||..+.+...++.-.-.+.++...+.++.- .+.++=.+. ...+
T Consensus 46 k~l~~lF~epS---TRTR~SFe~A~~~L----Gg~~i~l~~~~s~~~kgEsl~Dtarvls~y~D~Iv~R~~~----~~~~ 114 (336)
T PRK03515 46 KNIALIFEKDS---TRTRCSFEVAAYDQ----GARVTYLGPSGSQIGHKESIKDTARVLGRMYDGIQYRGYG----QEIV 114 (336)
T ss_pred CEEEEEecCCC---hhHHHHHHHHHHHc----CCcEEEeCCccccCCCCCCHHHHHHHHHHhCcEEEEEeCC----hHHH
Confidence 34777776653 68889999999888 455555533332222223333344444321 222232332 2245
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcC---Ce--EEEEEEEcCCCCCcchh
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN---WR--RVAAIYEDNVYGGDSGK 185 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~---w~--~v~ii~~~~~~g~~~~~ 185 (550)
..++....+|+|..... .. +| .++++|++ +++| ++ +++++.+- .+ ..
T Consensus 115 ~~~a~~~~vPVINa~~~--------~~-------HP-----tQaLaDl~Ti~e~~g~~~l~g~~ia~vGD~-~~----~v 169 (336)
T PRK03515 115 ETLAEYAGVPVWNGLTN--------EF-------HP-----TQLLADLLTMQEHLPGKAFNEMTLAYAGDA-RN----NM 169 (336)
T ss_pred HHHHHhCCCCEEECCCC--------CC-------Ch-----HHHHHHHHHHHHHhCCCCcCCCEEEEeCCC-cC----cH
Confidence 55666778999985322 11 22 36777764 4564 33 56666431 12 36
Q ss_pred HHHHHHHHhcCCCeEEEE
Q 008863 186 LALLAEALQNVSSSEIQS 203 (550)
Q Consensus 186 ~~~l~~~l~~~g~~~v~~ 203 (550)
...+...+...| ..+..
T Consensus 170 ~~Sl~~~~~~~g-~~v~~ 186 (336)
T PRK03515 170 GNSLLEAAALTG-LDLRL 186 (336)
T ss_pred HHHHHHHHHHcC-CEEEE
Confidence 777777778888 76654
No 309
>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=51.76 E-value=81 Score=29.95 Aligned_cols=79 Identities=11% Similarity=0.053 Sum_probs=49.6
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
+++|..+ +.|. ....+.+++.+++.| ..+.... +... +.......++.+...++|.||+..........
T Consensus 2 I~vi~~~~~~~f~--~~i~~gi~~~a~~~g-~~v~~~~--~~~~----d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~ 72 (298)
T cd06302 2 IAFVPKVTGIPYF--NRMEEGAKEAAKELG-VDAIYVG--PTTA----DAAGQVQIIEDLIAQGVDAIAVVPNDPDALEP 72 (298)
T ss_pred EEEEEcCCCChHH--HHHHHHHHHHHHHhC-CeEEEEC--CCCC----CHHHHHHHHHHHHhcCCCEEEEecCCHHHHHH
Confidence 5555543 3455 677788888888888 7765321 1111 22445567777777789988882333344567
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
+++++.+.++
T Consensus 73 ~~~~~~~~~i 82 (298)
T cd06302 73 VLKKAREAGI 82 (298)
T ss_pred HHHHHHHCCC
Confidence 7788877775
No 310
>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=51.74 E-value=1.9e+02 Score=26.60 Aligned_cols=118 Identities=16% Similarity=0.153 Sum_probs=59.7
Q ss_pred EEEEEEecCC--ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhc-CCeEEEEcCCChHHHHH
Q 008863 36 KIGAIVDANS--QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETAV 112 (550)
Q Consensus 36 ~IG~i~~~~~--~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~~~ 112 (550)
+|+.+..... .....-..|++.++++.+ ..+.........+...+.+.+.+++.+ ..+.+|++..... +..
T Consensus 114 ~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~-a~~ 187 (265)
T cd06291 114 HIAHIGGPNNTVSPTNLRYEGFLDVLKENG-----LEVRIIEIQENFDDAEKKEEIKELLEEYPDIDGIFASNDLT-AIL 187 (265)
T ss_pred EEEEEccCcccccchHHHHHHHHHHHHHcC-----CCCChheeeccccchHHHHHHHHHHhCCCCCCEEEECChHH-HHH
Confidence 6777764432 233455578888876642 122212222222223356667777754 3468888765443 334
Q ss_pred HHHhhccCCc--c----EEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHH
Q 008863 113 VAEIASRVQV--P----ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR 163 (550)
Q Consensus 113 v~~~~~~~~i--P----~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~ 163 (550)
+...+...++ | ++++... +. .....|.+..+..+...++...++.|.
T Consensus 188 ~~~al~~~g~~vp~di~v~g~d~~---~~-~~~~~~~~~tv~~~~~~~g~~a~~~l~ 240 (265)
T cd06291 188 VLKEAQQRGIRVPEDLQIIGYDGT---KL-TRLYTPELTTIRQPIEEIAKTAVDLLI 240 (265)
T ss_pred HHHHHHHcCCCCCcceEEeccCCh---HH-HhhcCCCceeecCCHHHHHHHHHHHHH
Confidence 4444544443 3 3443332 22 122234455566666777777666663
No 311
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=51.71 E-value=2.2e+02 Score=27.08 Aligned_cols=162 Identities=14% Similarity=0.181 Sum_probs=98.0
Q ss_pred cEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHH
Q 008863 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (550)
Q Consensus 34 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v 113 (550)
.=.|+.||..++ .+..-+|+.|+.++ ++..+-+..-+.+-.-.+.++...+.++ .-+.+|.-=..+ -..+
T Consensus 44 gk~laliFeK~S---TRTR~SFeva~~ql----Gg~~~~l~~~~~Qlgr~Esi~DTArVLs-r~~D~I~~R~~~--~~~v 113 (310)
T COG0078 44 GKNLALIFEKTS---TRTRVSFEVAATQL----GGHAIYLGPGDSQLGRGESIKDTARVLS-RMVDAIMIRGFS--HETL 113 (310)
T ss_pred CceEEEEecCCC---chhhhhHHHHHHHc----CCCeEEeCCCccccCCCCcHHHHHHHHH-hhhheEEEeccc--HHHH
Confidence 457999998874 57888899999988 4556555555544333344444555555 245555532222 3357
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcC---CeEEEEEEEcCCCCCcchhHH
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN---WRRVAAIYEDNVYGGDSGKLA 187 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~---w~~v~ii~~~~~~g~~~~~~~ 187 (550)
..+++...+|+|..-+. .. +| .+++++++ .|+| -.+++.+.+. .+...
T Consensus 114 e~lA~~s~VPViNgLtD--------~~-------HP-----~Q~LADl~Ti~E~~g~l~g~k~a~vGDg------NNv~n 167 (310)
T COG0078 114 EELAKYSGVPVINGLTD--------EF-------HP-----CQALADLMTIKEHFGSLKGLKLAYVGDG------NNVAN 167 (310)
T ss_pred HHHHHhCCCceEccccc--------cc-------Cc-----HHHHHHHHHHHHhcCcccCcEEEEEcCc------chHHH
Confidence 77889999999874432 11 12 46777765 4564 3566666654 34678
Q ss_pred HHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHh-hcCCCeEEEE
Q 008863 188 LLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKV-QDKQSRVFIV 237 (550)
Q Consensus 188 ~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i-~~~~~~~ii~ 237 (550)
.+.......| +.+... -|... ..+.++....+++ ++++..+.+.
T Consensus 168 Sl~~~~a~~G-~dv~ia--~Pk~~---~p~~~~~~~a~~~a~~~g~~i~~t 212 (310)
T COG0078 168 SLLLAAAKLG-MDVRIA--TPKGY---EPDPEVVEKAKENAKESGGKITLT 212 (310)
T ss_pred HHHHHHHHhC-CeEEEE--CCCcC---CcCHHHHHHHHHHHHhcCCeEEEe
Confidence 8888888888 766543 23222 1345666666665 4445555555
No 312
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=51.69 E-value=1.4e+02 Score=25.33 Aligned_cols=80 Identities=8% Similarity=-0.002 Sum_probs=55.3
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
.++.+..|.++++.+++.++-+.-.- ..+.+.+.....-.| +++.... .++....+++ ...+.+
T Consensus 15 HGQV~~~W~~~~~~~~IvVvdD~~A~---D~~~k~~l~ma~P~g-vk~~i~s-----------v~~a~~~l~~-~~~~~~ 78 (157)
T PRK11425 15 HGQVGVQWVGFAGANLVLVANDEVAE---DPVQQNLMEMVLAEG-IAVRFWT-----------LQKVIDNIHR-AADRQK 78 (157)
T ss_pred hHHhhhhhhcccCCCEEEEEcchhcC---CHHHHHHHHhhCCCC-CeEEEEE-----------HHHHHHHHhc-cCCCce
Confidence 46677888999999998777655442 456666666666667 7665432 2566666776 555667
Q ss_pred EEEEEcCCHHHHHHHHH
Q 008863 234 VFIVLQASLDMTIHLFT 250 (550)
Q Consensus 234 ~ii~~~~~~~~~~~il~ 250 (550)
++++ .-++.++..+++
T Consensus 79 v~il-~k~~~d~~~l~~ 94 (157)
T PRK11425 79 ILLV-CKTPADFLTLVK 94 (157)
T ss_pred EEEE-ECCHHHHHHHHH
Confidence 8888 889988877765
No 313
>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=51.65 E-value=2.2e+02 Score=27.05 Aligned_cols=83 Identities=12% Similarity=0.065 Sum_probs=47.3
Q ss_pred CcEEEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhc-CCeEEEEcCCChHHH
Q 008863 33 EVTKIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEET 110 (550)
Q Consensus 33 ~~i~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~ 110 (550)
+.++|+.+.... ......-..||+.++++. ++.++.. +.....+...+.+.+.+++.. ..+.+|++.... .+
T Consensus 141 g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~----g~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~-~A 214 (305)
T cd06324 141 GRIDLLAISGDPTTPAAILREAGLRRALAEH----PDVRLRQ-VVYAGWSEDEAYEQAENLLKRYPDVRLIWAANDQ-MA 214 (305)
T ss_pred CceeEEEEeCCCCChHHHHHHHHHHHHHHHC----CCceEee-eecCCCCHHHHHHHHHHHHHHCCCccEEEECCch-HH
Confidence 457788776433 222345567888888763 2344422 223445666777788888864 358899875443 33
Q ss_pred HHHHHhhccCC
Q 008863 111 AVVAEIASRVQ 121 (550)
Q Consensus 111 ~~v~~~~~~~~ 121 (550)
..+...+.+.+
T Consensus 215 ~g~~~al~~~g 225 (305)
T cd06324 215 FGALRAAKEAG 225 (305)
T ss_pred HHHHHHHHHcC
Confidence 33334444433
No 314
>PLN02342 ornithine carbamoyltransferase
Probab=51.04 E-value=2.3e+02 Score=27.81 Aligned_cols=130 Identities=11% Similarity=0.088 Sum_probs=73.5
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG-METWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~~v~ 114 (550)
.|+.+|...+ .+....|+.|+.++ |+..+.+...++.-.-.+.++.+...++. -+.+|+- ..... .+.
T Consensus 87 ~va~lF~epS---TRTR~SFE~A~~~L----Gg~~i~l~~~~ss~~kGESl~DTarvLs~-y~D~IviR~~~~~---~~~ 155 (348)
T PLN02342 87 SMAMIFTKPS---MRTRVSFETGFFLL----GGHALYLGPDDIQLGKREETRDIARVLSR-YNDIIMARVFAHQ---DVL 155 (348)
T ss_pred EEEEEecCCC---cchHHHHHHHHHHc----CCcEEEeCcccccCCCCcCHHHHHHHHHH-hCCEEEEeCCChH---HHH
Confidence 4666776553 57888899999888 56666664434322222334444444443 2444442 12222 345
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcC---CeEEEEEEEcCCCCCcchhHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN---WRRVAAIYEDNVYGGDSGKLAL 188 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~---w~~v~ii~~~~~~g~~~~~~~~ 188 (550)
.+++...+|+|..... .. +| .++++|++ +++| -.+|+++.+. ...+..
T Consensus 156 ~la~~~~vPVINA~~~--------~~-------HP-----tQaLaDl~Ti~e~~G~l~glkva~vGD~------~nva~S 209 (348)
T PLN02342 156 DLAEYSSVPVINGLTD--------YN-------HP-----CQIMADALTIIEHIGRLEGTKVVYVGDG------NNIVHS 209 (348)
T ss_pred HHHHhCCCCEEECCCC--------CC-------Ch-----HHHHHHHHHHHHHhCCcCCCEEEEECCC------chhHHH
Confidence 5566678999986422 11 22 36667664 3443 3577777532 336777
Q ss_pred HHHHHhcCCCeEEEE
Q 008863 189 LAEALQNVSSSEIQS 203 (550)
Q Consensus 189 l~~~l~~~g~~~v~~ 203 (550)
+...+...| ..+..
T Consensus 210 li~~~~~~G-~~v~~ 223 (348)
T PLN02342 210 WLLLAAVLP-FHFVC 223 (348)
T ss_pred HHHHHHHcC-CEEEE
Confidence 777888888 76654
No 315
>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=51.03 E-value=2.5e+02 Score=27.61 Aligned_cols=104 Identities=13% Similarity=0.076 Sum_probs=61.1
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe-
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR- 233 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~- 233 (550)
...+.++++.++-+++.++++..-+ ....+.+.+.+++.| +.+.... ++... .+...+.....+..+++.+++
T Consensus 11 l~~l~~~l~~~g~~rvlvVtd~~v~---~~~~~~l~~~L~~~g-~~~~~~~-~~~~e-~~k~~~~v~~~~~~~~~~~~dr 84 (355)
T cd08197 11 LDSVLGYLPELNADKYLLVTDSNVE---DLYGHRLLEYLREAG-APVELLS-VPSGE-EHKTLSTLSDLVERALALGATR 84 (355)
T ss_pred HHHHHHHHHhcCCCeEEEEECccHH---HHHHHHHHHHHHhcC-CceEEEE-eCCCC-CCCCHHHHHHHHHHHHHcCCCC
Confidence 3446677777777899999876543 336678888998888 7553322 33221 011345677788888888777
Q ss_pred --EEEEEcCC--HHHHHHHHHHHHHcCCCCCCEEEEEec
Q 008863 234 --VFIVLQAS--LDMTIHLFTEANRMGLVGKDSVWIVTN 268 (550)
Q Consensus 234 --~ii~~~~~--~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (550)
.||. .+. .-++..++...... +..++.|-|+
T Consensus 85 ~~~IIA-vGGGsv~D~ak~~A~~~~r---gip~I~IPTT 119 (355)
T cd08197 85 RSVIVA-LGGGVVGNIAGLLAALLFR---GIRLVHIPTT 119 (355)
T ss_pred CcEEEE-ECCcHHHHHHHHHHHHhcc---CCCEEEecCc
Confidence 6665 332 23444444433322 3345666554
No 316
>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=50.83 E-value=1e+02 Score=30.65 Aligned_cols=82 Identities=20% Similarity=0.171 Sum_probs=54.2
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEE
Q 008863 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (550)
Q Consensus 156 ~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~i 235 (550)
..+.++++.++ +++.+|++... . ..+.+.+.+++.| +.+.... +.... ..++..+.++.+++.++|.|
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~----~-~~~~v~~~L~~~g-~~~~~~~-~~~~p----~~~~v~~~~~~~~~~~~D~I 79 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASS----L-RAAWLIEALRAAG-IEVTHVV-VAGEP----SVELVDAAVAEARNAGCDVV 79 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCch----H-HHHHHHHHHHHcC-CeEEEec-CCCCc----CHHHHHHHHHHHHhcCCCEE
Confidence 45677777775 88988886433 2 5677888888888 7664432 33322 44677888888888899999
Q ss_pred EEEcCCH--HHHHHHHH
Q 008863 236 IVLQASL--DMTIHLFT 250 (550)
Q Consensus 236 i~~~~~~--~~~~~il~ 250 (550)
|- .+.+ -++..++.
T Consensus 80 Ia-iGGGS~~D~aK~ia 95 (374)
T cd08183 80 IA-IGGGSVIDAGKAIA 95 (374)
T ss_pred EE-ecCchHHHHHHHHH
Confidence 87 4333 34444443
No 317
>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=50.77 E-value=98 Score=28.68 Aligned_cols=80 Identities=8% Similarity=0.071 Sum_probs=47.4
Q ss_pred EEEEEEEcC--CCCCcchhHHHHHHHHhcC---CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcC-CH
Q 008863 169 RVAAIYEDN--VYGGDSGKLALLAEALQNV---SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SL 242 (550)
Q Consensus 169 ~v~ii~~~~--~~g~~~~~~~~l~~~l~~~---g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~-~~ 242 (550)
||+++..+. .|- ....+.+.+.+++. | ..+..... .... +.+.....++++...+.+.||+ .. +.
T Consensus 1 ~Ig~i~~~~~~~~~--~~~~~~i~~~~~~~~~~g-~~~~l~i~-~~~~----~~~~~~~~~~~~~~~~vdgiIi-~~~~~ 71 (272)
T cd06300 1 KIGLSNSYAGNTWR--AQMLDEFKAQAKELKKAG-LISEFIVT-SADG----DVAQQIADIRNLIAQGVDAIII-NPASP 71 (272)
T ss_pred CeEEeccccCChHH--HHHHHHHHHHHHhhhccC-CeeEEEEe-cCCC----CHHHHHHHHHHHHHcCCCEEEE-eCCCh
Confidence 356666443 344 56677777888887 7 64332221 1111 2344567777777778898888 54 33
Q ss_pred HHHHHHHHHHHHcCC
Q 008863 243 DMTIHLFTEANRMGL 257 (550)
Q Consensus 243 ~~~~~il~~a~~~g~ 257 (550)
......+..+.+.|+
T Consensus 72 ~~~~~~l~~~~~~~i 86 (272)
T cd06300 72 TALNPVIEEACEAGI 86 (272)
T ss_pred hhhHHHHHHHHHCCC
Confidence 334456777777664
No 318
>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=50.62 E-value=63 Score=30.30 Aligned_cols=80 Identities=13% Similarity=0.106 Sum_probs=47.8
Q ss_pred EEEEEEc---CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHH
Q 008863 170 VAAIYED---NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (550)
Q Consensus 170 v~ii~~~---~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~ 246 (550)
+++|..+ ++|. ....+.+.+.+++.| ..+.......... .+.......++.+.+.+.|.||+ ........
T Consensus 2 Igvi~~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vDgiIv-~~~~~~~~ 74 (280)
T cd06303 2 IAVIYPGQQISDYW--VRNIASFTARLEELN-IPYELTQFSSRPG---IDHRLQSQQLNEALQSKPDYLIF-TLDSLRHR 74 (280)
T ss_pred eeEEecCccHHHHH--HHHHHHHHHHHHHcC-CcEEEEEeccCcc---cCHHHHHHHHHHHHHcCCCEEEE-cCCchhhH
Confidence 6777765 3465 677788888888888 7765432111110 01233456677777788998888 54333234
Q ss_pred HHHHHHHHcC
Q 008863 247 HLFTEANRMG 256 (550)
Q Consensus 247 ~il~~a~~~g 256 (550)
..++.+.+.+
T Consensus 75 ~~~~~l~~~~ 84 (280)
T cd06303 75 KLIERVLASG 84 (280)
T ss_pred HHHHHHHhCC
Confidence 4556666654
No 319
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=50.59 E-value=1.3e+02 Score=28.85 Aligned_cols=84 Identities=14% Similarity=0.155 Sum_probs=50.1
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHH---H
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEET---A 111 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~---~ 111 (550)
=+||+++..+.........-++...+. .|+++.-....+..+...+++. +. .++.+|++|.+.... .
T Consensus 160 k~Igv~Y~p~E~ns~~l~eelk~~A~~-----~Gl~vve~~v~~~ndi~~a~~~----l~-g~~d~i~~p~dn~i~s~~~ 229 (322)
T COG2984 160 KSIGVLYNPGEANSVSLVEELKKEARK-----AGLEVVEAAVTSVNDIPRAVQA----LL-GKVDVIYIPTDNLIVSAIE 229 (322)
T ss_pred eeEEEEeCCCCcccHHHHHHHHHHHHH-----CCCEEEEEecCcccccHHHHHH----hc-CCCcEEEEecchHHHHHHH
Confidence 358888866643333443334333333 2667665555444444444333 32 589999998766533 3
Q ss_pred HHHHhhccCCccEEecc
Q 008863 112 VVAEIASRVQVPILSFA 128 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~ 128 (550)
.+...+...+||+|...
T Consensus 230 ~l~~~a~~~kiPli~sd 246 (322)
T COG2984 230 SLLQVANKAKIPLIASD 246 (322)
T ss_pred HHHHHHHHhCCCeecCC
Confidence 46678889999999844
No 320
>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=49.51 E-value=85 Score=30.64 Aligned_cols=73 Identities=10% Similarity=0.071 Sum_probs=49.5
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
.+.+.++++.++.+++.+|++...+ ....+.+.+.+++.+ ..+ +. .+.+.. ..+......+.+++.++|.
T Consensus 11 l~~l~~~l~~~g~~~~livt~~~~~---~~~~~~v~~~l~~~~-~~~-~~-~~~~~p----~~~~v~~~~~~~~~~~~d~ 80 (337)
T cd08177 11 LAALAAELERLGASRALVLTTPSLA---TKLAERVASALGDRV-AGT-FD-GAVMHT----PVEVTEAAVAAAREAGADG 80 (337)
T ss_pred HHHHHHHHHHcCCCeEEEEcChHHH---HHHHHHHHHHhccCC-cEE-eC-CCCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 4567788899999999999876543 225667777887765 433 21 122222 4456777788888889999
Q ss_pred EEE
Q 008863 235 FIV 237 (550)
Q Consensus 235 ii~ 237 (550)
||-
T Consensus 81 IIa 83 (337)
T cd08177 81 IVA 83 (337)
T ss_pred EEE
Confidence 886
No 321
>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=49.46 E-value=2.1e+02 Score=26.16 Aligned_cols=116 Identities=14% Similarity=0.212 Sum_probs=64.4
Q ss_pred ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHH-HHHHHHhhccCCccE
Q 008863 46 QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE-TAVVAEIASRVQVPI 124 (550)
Q Consensus 46 ~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~-~~~v~~~~~~~~iP~ 124 (550)
..|..=..++...+.++| |..+++.. +..-++ +...+++. .+...|+....+.. -..+..+|...++|+
T Consensus 61 diG~~Kae~~~~~l~~in---P~~~V~~~--~~~i~~----~~~~~l~~-~~~D~VvdaiD~~~~k~~L~~~c~~~~ip~ 130 (231)
T cd00755 61 TVGKPKVEVMAERIRDIN---PECEVDAV--EEFLTP----DNSEDLLG-GDPDFVVDAIDSIRAKVALIAYCRKRKIPV 130 (231)
T ss_pred hCCCcHHHHHHHHHHHHC---CCcEEEEe--eeecCH----hHHHHHhc-CCCCEEEEcCCCHHHHHHHHHHHHHhCCCE
Confidence 345555566677777777 45555543 332232 12344554 35777777654443 445888999999999
Q ss_pred EeccCCCCCCcccCCCCCeEEEEecCcH----HhHHHHHHHHHHcCCe-EEEEEEEcC
Q 008863 125 LSFAAPAVTPLSMSRRWPYLIRMASNDS----EQMKCIADLARKYNWR-RVAAIYEDN 177 (550)
Q Consensus 125 is~~~~~~~~~~~~~~~~~~~~~~p~~~----~~~~al~~~l~~~~w~-~v~ii~~~~ 177 (550)
|+.... ....+ |.-+++..=.. .+++.+-..|++.+.. .+-++|+..
T Consensus 131 I~s~g~--g~~~d----p~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v~S~E 182 (231)
T cd00755 131 ISSMGA--GGKLD----PTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVVYSTE 182 (231)
T ss_pred EEEeCC--cCCCC----CCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEEeCCC
Confidence 997655 22233 44444432211 2445555555554543 466677654
No 322
>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=48.94 E-value=45 Score=24.26 Aligned_cols=41 Identities=15% Similarity=0.221 Sum_probs=32.8
Q ss_pred HHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEE
Q 008863 158 IADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQ 202 (550)
Q Consensus 158 l~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~ 202 (550)
..++++.+ .+++.+.+|+|.-| ....+.+.+.+.+.| ..+.
T Consensus 35 ~~~~L~~~-~~~vii~~D~D~aG--~~a~~~~~~~l~~~g-~~~~ 75 (79)
T cd03364 35 QAELLKRL-AKEVILAFDGDEAG--QKAALRALELLLKLG-LNVR 75 (79)
T ss_pred HHHHHHhc-CCeEEEEECCCHHH--HHHHHHHHHHHHHCC-CeEE
Confidence 35556555 68999999999888 888999999999988 6654
No 323
>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=48.91 E-value=96 Score=28.61 Aligned_cols=78 Identities=6% Similarity=0.062 Sum_probs=48.4
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
|+++..+ +.|. ....+.+.+.+++.| ..+.... ... +.......++++.+.+++.+|+..........
T Consensus 2 i~~~~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~i~~--~~~-----~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~ 71 (267)
T cd06322 2 IGASLLTQQHPFY--IELANAMKEEAKKQK-VNLIVSI--ANQ-----DLNKQLSDVEDFITKKVDAIVLSPVDSKGIRA 71 (267)
T ss_pred eeEeecCcccHHH--HHHHHHHHHHHHhcC-CEEEEec--CCC-----CHHHHHHHHHHHHHcCCCEEEEcCCChhhhHH
Confidence 4555554 3455 677788888888888 7765422 111 22345566777777789988882333333455
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
.+.++.+.|+
T Consensus 72 ~~~~~~~~~i 81 (267)
T cd06322 72 AIAKAKKAGI 81 (267)
T ss_pred HHHHHHHCCC
Confidence 6777777764
No 324
>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=48.90 E-value=89 Score=29.06 Aligned_cols=80 Identities=5% Similarity=0.035 Sum_probs=47.7
Q ss_pred EEEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCC-HHHH
Q 008863 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS-LDMT 245 (550)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~-~~~~ 245 (550)
++++|..+ +.|. ..+.+.+.+.+++.| ..+.....-... +...-...++++.+.+.+.||+ ... ....
T Consensus 1 ~igvi~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~~~~~-----~~~~~~~~i~~l~~~~vdgiIi-~~~~~~~~ 71 (275)
T cd06320 1 KYGVVLKTLSNEFW--RSLKEGYENEAKKLG-VSVDIQAAPSEG-----DQQGQLSIAENMINKGYKGLLF-SPISDVNL 71 (275)
T ss_pred CeeEEEecCCCHHH--HHHHHHHHHHHHHhC-CeEEEEccCCCC-----CHHHHHHHHHHHHHhCCCEEEE-CCCChHHh
Confidence 35666654 3455 667778888888888 776543211111 2223445677777778888877 443 3334
Q ss_pred HHHHHHHHHcCC
Q 008863 246 IHLFTEANRMGL 257 (550)
Q Consensus 246 ~~il~~a~~~g~ 257 (550)
...++.+.+.+.
T Consensus 72 ~~~~~~~~~~~i 83 (275)
T cd06320 72 VPAVERAKKKGI 83 (275)
T ss_pred HHHHHHHHHCCC
Confidence 456677777664
No 325
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=48.88 E-value=1.1e+02 Score=29.88 Aligned_cols=82 Identities=9% Similarity=0.011 Sum_probs=52.3
Q ss_pred CeEEEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHH
Q 008863 167 WRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM 244 (550)
Q Consensus 167 w~~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~ 244 (550)
-+++++|..+ +.|. ....+.+++.+++.| ..+......... +.......++.+.+.+.+.||+.......
T Consensus 46 t~~Igvv~p~~~~~f~--~~~~~gi~~aa~~~G-~~l~i~~~~~~~-----~~~~q~~~i~~l~~~~vdgIIl~~~~~~~ 117 (343)
T PRK10936 46 AWKLCALYPHLKDSYW--LSVNYGMVEEAKRLG-VDLKVLEAGGYY-----NLAKQQQQLEQCVAWGADAILLGAVTPDG 117 (343)
T ss_pred CeEEEEEecCCCchHH--HHHHHHHHHHHHHhC-CEEEEEcCCCCC-----CHHHHHHHHHHHHHhCCCEEEEeCCChHH
Confidence 3788888865 3455 667788888899998 776653321110 22344567777777889988883444444
Q ss_pred HHHHHHHHHHcCC
Q 008863 245 TIHLFTEANRMGL 257 (550)
Q Consensus 245 ~~~il~~a~~~g~ 257 (550)
....+ ++.+.|+
T Consensus 118 ~~~~l-~~~~~gi 129 (343)
T PRK10936 118 LNPDL-ELQAANI 129 (343)
T ss_pred hHHHH-HHHHCCC
Confidence 44555 6777665
No 326
>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=48.86 E-value=80 Score=29.36 Aligned_cols=80 Identities=6% Similarity=0.017 Sum_probs=49.4
Q ss_pred EEEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHH
Q 008863 169 RVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (550)
Q Consensus 169 ~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~ 246 (550)
++++|+.+ +.|. ......+.+.+++.| ..+.....-.. . +.......++.+...+++.||+ ........
T Consensus 1 ~Igvi~~~~~~~f~--~~~~~gi~~~a~~~g-~~~~~~~~~~~-~----~~~~~~~~i~~~~~~~vdgiI~-~~~~~~~~ 71 (268)
T cd06306 1 KLCVLYPHLKDAYW--LSVNYGMVEEAKRLG-VSLKLLEAGGY-P----NLAKQIAQLEDCAAWGADAILL-GAVSPDGL 71 (268)
T ss_pred CeEEEcCCCCCHHH--HHHHHHHHHHHHHcC-CEEEEecCCCC-C----CHHHHHHHHHHHHHcCCCEEEE-cCCChhhH
Confidence 36677764 3455 677788888899998 77655321110 0 2234456677777789999988 54332222
Q ss_pred HHHHHHHHcCC
Q 008863 247 HLFTEANRMGL 257 (550)
Q Consensus 247 ~il~~a~~~g~ 257 (550)
..+..+.+.|+
T Consensus 72 ~~~~~~~~~gi 82 (268)
T cd06306 72 NEILQQVAASI 82 (268)
T ss_pred HHHHHHHHCCC
Confidence 25677777775
No 327
>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=48.79 E-value=1e+02 Score=29.31 Aligned_cols=79 Identities=8% Similarity=0.016 Sum_probs=50.4
Q ss_pred EEEEEEEcC--CCCCcchhHHHHHHHHhc--CCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHH
Q 008863 169 RVAAIYEDN--VYGGDSGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM 244 (550)
Q Consensus 169 ~v~ii~~~~--~~g~~~~~~~~l~~~l~~--~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~ 244 (550)
+|++|..+. .|. ....+.+.+.+++ .| +.+.... ... +.......++.+...+++.||+...+...
T Consensus 1 ~Igviv~~~~~~~~--~~~~~gi~~~a~~~~~g-~~~~~~~---~~~----~~~~q~~~i~~l~~~~vdgiii~~~~~~~ 70 (303)
T cd01539 1 KIGVFLYKFDDTFI--SLVRKNLEDIQKENGGK-VEFTFYD---AKN----NQSTQNEQIDTALAKGVDLLAVNLVDPTA 70 (303)
T ss_pred CeEEEeeCCCChHH--HHHHHHHHHHHHhhCCC-eeEEEec---CCC----CHHHHHHHHHHHHHcCCCEEEEecCchhh
Confidence 356666543 454 6677788888888 67 6654432 111 22334566777888899988873444444
Q ss_pred HHHHHHHHHHcCC
Q 008863 245 TIHLFTEANRMGL 257 (550)
Q Consensus 245 ~~~il~~a~~~g~ 257 (550)
....++++.+.|+
T Consensus 71 ~~~~~~~~~~~gi 83 (303)
T cd01539 71 AQTVINKAKQKNI 83 (303)
T ss_pred HHHHHHHHHHCCC
Confidence 5678888888776
No 328
>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=48.72 E-value=1e+02 Score=30.18 Aligned_cols=88 Identities=9% Similarity=0.226 Sum_probs=53.9
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
...+.++++.++.+++.+|++.... ....+.+.+.+++.| +.+.......... +...+.....++.+++ ++|.
T Consensus 11 l~~l~~~~~~~~~~~~livtd~~~~---~~~~~~v~~~l~~~~-i~~~~~~~~~~~~--~pt~~~v~~~~~~~~~-~~d~ 83 (348)
T cd08175 11 LERLPEILKEFGYKKALIVADENTY---AAAGKKVEALLKRAG-VVVLLIVLPAGDL--IADEKAVGRVLKELER-DTDL 83 (348)
T ss_pred HHHHHHHHHhcCCCcEEEEECCcHH---HHHHHHHHHHHHHCC-CeeEEeecCCCcc--cCCHHHHHHHHHHhhc-cCCE
Confidence 3456778888888999999865443 223577888898888 7654332222210 0144566677777777 8898
Q ss_pred EEEEcC--CHHHHHHHHH
Q 008863 235 FIVLQA--SLDMTIHLFT 250 (550)
Q Consensus 235 ii~~~~--~~~~~~~il~ 250 (550)
||- .+ +.-++..++.
T Consensus 84 IIa-IGGGs~~D~aK~vA 100 (348)
T cd08175 84 IIA-VGSGTINDITKYVS 100 (348)
T ss_pred EEE-ECCcHHHHHHHHHH
Confidence 886 33 3334444443
No 329
>PRK01713 ornithine carbamoyltransferase; Provisional
Probab=48.34 E-value=2.7e+02 Score=27.14 Aligned_cols=133 Identities=11% Similarity=0.084 Sum_probs=74.8
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
-+|+.+|...+ .+....|+.|+.++ ||..+.+...++.-.-.+.++...+.++. -+.+|+-= ......+.
T Consensus 47 k~v~~lF~epS---TRTR~SFe~A~~~L----Gg~~i~l~~~~ss~~kgEsl~DTarvls~-y~D~iv~R--~~~~~~~~ 116 (334)
T PRK01713 47 KNIALIFEKTS---TRTRCAFEVAAYDQ----GAQVTYIDPNSSQIGHKESMKDTARVLGR-MYDAIEYR--GFKQSIVN 116 (334)
T ss_pred CEEEEEeCCCC---chHHHHHHHHHHHc----CCeEEEcCCccccCCCCcCHHHHHHHHHH-hCCEEEEE--cCchHHHH
Confidence 34677776653 58889999999888 45566553333222222344444444443 23344421 11223455
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcC--C--eEEEEEEEcCCCCCcchhHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN--W--RRVAAIYEDNVYGGDSGKLA 187 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~--w--~~v~ii~~~~~~g~~~~~~~ 187 (550)
.+++...+|+|..... .. +| .++++|++ +++| . .+++++.+- .+ ..+.
T Consensus 117 ~~a~~~~vPVINa~~~--------~~-------HP-----tQaL~Dl~Ti~e~~g~~l~gl~ia~vGD~-~~----~v~~ 171 (334)
T PRK01713 117 ELAEYAGVPVFNGLTD--------EF-------HP-----TQMLADVLTMIENCDKPLSEISYVYIGDA-RN----NMGN 171 (334)
T ss_pred HHHHhCCCCEEECCCC--------CC-------Ch-----HHHHHHHHHHHHHcCCCcCCcEEEEECCC-cc----CHHH
Confidence 5667778999996422 11 22 36777754 4454 2 366666532 12 2567
Q ss_pred HHHHHHhcCCCeEEEE
Q 008863 188 LLAEALQNVSSSEIQS 203 (550)
Q Consensus 188 ~l~~~l~~~g~~~v~~ 203 (550)
.+...+...| ..+..
T Consensus 172 Sl~~~~~~~g-~~v~~ 186 (334)
T PRK01713 172 SLLLIGAKLG-MDVRI 186 (334)
T ss_pred HHHHHHHHcC-CEEEE
Confidence 7777788888 77654
No 330
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=48.04 E-value=92 Score=26.30 Aligned_cols=81 Identities=19% Similarity=0.210 Sum_probs=54.4
Q ss_pred hhHHHHHHHHHHHHhcCC-CCcEEEEEEe--cCCCCHHHHHHHHHHhhhcCCeEEEEcC-CChHHHHHHHHhhccCCccE
Q 008863 49 KQAITAMKIAVQNFNSDS-RNHKLSLQIR--DHNRDPFQAATAAQELINKEKVKVIAGM-ETWEETAVVAEIASRVQVPI 124 (550)
Q Consensus 49 ~~~~~a~~~Av~~iN~~~-~~~~l~~~~~--d~~~~~~~a~~~~~~li~~~~v~aiiG~-~~s~~~~~v~~~~~~~~iP~ 124 (550)
.+.-+-.+-|+.+..+.. .|-.+.+... -...+-.+|++++..|-. -++.++-|. .....+.++..+-..++||+
T Consensus 93 AqVsqVA~GAIsEADRHNiRGERISvDTiPlVGEE~laEAVkAV~rLpR-v~iLVLAGslMGGkIteaVk~lr~~hgI~V 171 (218)
T COG1707 93 AQVSQVARGAISEADRHNIRGERISVDTIPLVGEEELAEAVKAVARLPR-VGILVLAGSLMGGKITEAVKELREEHGIPV 171 (218)
T ss_pred hhHHHHHHhhcchhhhcccccceeeeecccccChHHHHHHHHHHhcccc-ceeEEEecccccchHHHHHHHHHHhcCCeE
Confidence 344455556666555443 3555555544 334456678888777754 577777775 55678888999999999999
Q ss_pred EeccCC
Q 008863 125 LSFAAP 130 (550)
Q Consensus 125 is~~~~ 130 (550)
||..-.
T Consensus 172 ISL~M~ 177 (218)
T COG1707 172 ISLNMF 177 (218)
T ss_pred EEeccC
Confidence 997654
No 331
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=47.50 E-value=1.9e+02 Score=25.02 Aligned_cols=36 Identities=14% Similarity=0.247 Sum_probs=28.2
Q ss_pred cCCeEEEEcCCCh---HHHHHHHHhhccCCccEEeccCC
Q 008863 95 KEKVKVIAGMETW---EETAVVAEIASRVQVPILSFAAP 130 (550)
Q Consensus 95 ~~~v~aiiG~~~s---~~~~~v~~~~~~~~iP~is~~~~ 130 (550)
.++.+.++|.... .....+..+++.+++|+++....
T Consensus 34 AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~ 72 (171)
T PRK00945 34 AKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGS 72 (171)
T ss_pred CCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEcccc
Confidence 3789999997553 36667899999999999986653
No 332
>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=47.46 E-value=67 Score=29.33 Aligned_cols=77 Identities=14% Similarity=0.170 Sum_probs=47.1
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
++++... ..++ ..+...+++.+++.| +.+..... .. ..+.....++++.+.+++.+|+.........
T Consensus 2 ig~v~~~~~~~~~--~~~~~g~~~~~~~~g-~~l~~~~~---~~----~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~- 70 (264)
T cd01537 2 IGVLVPDLDNPFF--AQVLKGIEEAAKAAG-YQVLLANS---QN----DAEKQLSALENLIARGVDGIIIAPSDLTAPT- 70 (264)
T ss_pred eEEEEcCCCChHH--HHHHHHHHHHHHHcC-CeEEEEeC---CC----CHHHHHHHHHHHHHcCCCEEEEecCCCcchh-
Confidence 5667764 3455 777788888888888 77654321 11 2234566677777778888887233333333
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
.+..+.+.++
T Consensus 71 ~~~~l~~~~i 80 (264)
T cd01537 71 IVKLARKAGI 80 (264)
T ss_pred HHHHhhhcCC
Confidence 5666666554
No 333
>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=47.40 E-value=93 Score=29.03 Aligned_cols=78 Identities=8% Similarity=0.038 Sum_probs=48.3
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
++++..+ +.|. ......+.+.+++.| ..+.... ... +.......++.+...++|.||+..+..+....
T Consensus 2 igv~~~~~~~~~~--~~~~~~i~~~~~~~g-~~v~~~~---~~~----~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~ 71 (282)
T cd06318 2 IGFSQYTLNSPFF--AALTEAAKAHAKALG-YELISTD---AQG----DLTKQIADVEDLLTRGVNVLIINPVDPEGLVP 71 (282)
T ss_pred eeEEeccccCHHH--HHHHHHHHHHHHHcC-CEEEEEc---CCC----CHHHHHHHHHHHHHcCCCEEEEecCCccchHH
Confidence 5555543 3455 677788888899998 7765422 111 22334567777888889988882333333345
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
.++.+.+.|+
T Consensus 72 ~i~~~~~~~i 81 (282)
T cd06318 72 AVAAAKAAGV 81 (282)
T ss_pred HHHHHHHCCC
Confidence 6777777664
No 334
>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=47.08 E-value=1.6e+02 Score=28.62 Aligned_cols=86 Identities=12% Similarity=0.084 Sum_probs=52.4
Q ss_pred HHHHHHHHHHcCC-eEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEe-ecCCCCCCCCChHHHHHHHHHhhcCCC
Q 008863 155 MKCIADLARKYNW-RRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRL-VLPPISSISDPKEAVRGELKKVQDKQS 232 (550)
Q Consensus 155 ~~al~~~l~~~~w-~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~-~~~~~~~~~~~~~d~~~~l~~i~~~~~ 232 (550)
...+.++++.++. +++.+|++...+ ....+.+.+.+++.+ +.+.... ..... ...+.....+..+++ +.
T Consensus 11 l~~l~~~~~~~~~~~kvlivtd~~~~---~~~~~~i~~~L~~~~-~~~~i~~~~~~~~----p~~~~v~~~~~~~~~-~~ 81 (332)
T cd08549 11 INDIGPIINKIGVNSKIMIVCGNNTY---KVAGKEIIERLESNN-FTKEVLERDSLLI----PDEYELGEVLIKLDK-DT 81 (332)
T ss_pred HHHHHHHHHHcCCCCcEEEEECCcHH---HHHHHHHHHHHHHcC-CeEEEEecCCCCC----CCHHHHHHHHHHhhc-CC
Confidence 3456677777775 788888876553 223477888888888 6554211 11111 134566777778877 88
Q ss_pred eEEEEEcCC--HHHHHHHHH
Q 008863 233 RVFIVLQAS--LDMTIHLFT 250 (550)
Q Consensus 233 ~~ii~~~~~--~~~~~~il~ 250 (550)
+.||- .+. .-++..++.
T Consensus 82 d~IIa-iGGGsv~D~aK~iA 100 (332)
T cd08549 82 EFLLG-IGSGTIIDLVKFVS 100 (332)
T ss_pred CEEEE-ECCcHHHHHHHHHH
Confidence 88886 333 334444444
No 335
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=47.06 E-value=1e+02 Score=28.29 Aligned_cols=88 Identities=6% Similarity=-0.058 Sum_probs=54.6
Q ss_pred HhHHHHHHHHHHc--CCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC
Q 008863 153 EQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK 230 (550)
Q Consensus 153 ~~~~al~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~ 230 (550)
..++.+++++... .-++|.++..+. ....+.+.+.+.| ..+.....+.... ...+.......+++.
T Consensus 102 ~~~e~L~~~~~~~~~~~~~vL~~rg~~-------~r~~l~~~L~~~G-~~v~~~~vY~~~~----~~~~~~~~~~~l~~~ 169 (240)
T PRK09189 102 GDGVRLAETVAAALAPTARLLYLAGRP-------RAPVFEDRLAAAG-IPFRVAECYDMLP----VMYSPATLSAILGGA 169 (240)
T ss_pred CCHHHHHHHHHHhcCCCCcEEEeccCc-------ccchhHHHHHhCC-CeeEEEEEEEeec----CCCChHHHHHHHhcC
Confidence 4577888887542 456777776432 2467888888888 8776655553321 111222344555666
Q ss_pred CCeEEEEEcCCHHHHHHHHHHHHH
Q 008863 231 QSRVFIVLQASLDMTIHLFTEANR 254 (550)
Q Consensus 231 ~~~~ii~~~~~~~~~~~il~~a~~ 254 (550)
+.++|++ .++..+..|++....
T Consensus 170 ~~d~i~f--~S~~~~~~f~~~~~~ 191 (240)
T PRK09189 170 PFDAVLL--YSRVAARRFFALMRL 191 (240)
T ss_pred CCCEEEE--eCHHHHHHHHHHHhh
Confidence 7788877 556678888877654
No 336
>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=46.78 E-value=78 Score=28.94 Aligned_cols=76 Identities=17% Similarity=0.138 Sum_probs=48.4
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
++++... +.|. ....+.+++.+++.| +.+.... .. . +.......++++.+.+.+.|++ .........
T Consensus 2 i~~v~~~~~~~~~--~~~~~g~~~~~~~~g-~~~~~~~--~~-~----~~~~~~~~~~~~~~~~~d~iii-~~~~~~~~~ 70 (264)
T cd06267 2 IGVIVPDISNPFF--AELLRGIEEAAREAG-YSVLLCN--SD-E----DPEKEREALELLLSRRVDGIIL-APSRLDDEL 70 (264)
T ss_pred EEEEECCCCCHHH--HHHHHHHHHHHHHcC-CEEEEEc--CC-C----CHHHHHHHHHHHHHcCcCEEEE-ecCCcchHH
Confidence 5666655 4566 777788888888888 7765432 11 1 2234556677777778898888 544433333
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
++.+.+.|+
T Consensus 71 -~~~~~~~~i 79 (264)
T cd06267 71 -LEELAALGI 79 (264)
T ss_pred -HHHHHHcCC
Confidence 777777775
No 337
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional
Probab=46.75 E-value=93 Score=29.27 Aligned_cols=55 Identities=16% Similarity=0.135 Sum_probs=29.2
Q ss_pred CcEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE
Q 008863 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA 102 (550)
Q Consensus 33 ~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii 102 (550)
++|+||+..... . .-.+++.+...+. .|++++++..+....+..|+ ....+.+-+
T Consensus 32 ~tLkVG~~~~~~----~---~~~e~a~~~~k~~-~G~~Velv~fsd~~~~n~AL-------~~G~ID~n~ 86 (272)
T PRK09861 32 KHIKVGVINGAE----Q---DVAEVAKKVAKEK-YGLDVELVGFSGSLLPNDAT-------NHGELDANV 86 (272)
T ss_pred CcEEEEEcCCch----H---HHHHHHHHHHHHc-CCCeEEEEecCchhhHHHHH-------HcCCcceeh
Confidence 479999876432 1 1222333333222 38999998665544443333 335666644
No 338
>PRK13805 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional
Probab=46.15 E-value=2.9e+02 Score=31.11 Aligned_cols=78 Identities=13% Similarity=0.099 Sum_probs=50.1
Q ss_pred CCeEEEEEEEcCCCCCcchhHHHHHHHHh--cCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcC-CH
Q 008863 166 NWRRVAAIYEDNVYGGDSGKLALLAEALQ--NVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SL 242 (550)
Q Consensus 166 ~w~~v~ii~~~~~~g~~~~~~~~l~~~l~--~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~-~~ 242 (550)
+.+++.+|++..... ....+.+.+.++ ..+ +.+.....+.+.. ..+...+.+..+++.++|.||-+.+ +.
T Consensus 479 ~~~~~lvVtd~~~~~--~g~~~~v~~~L~~~~~~-i~~~~~~~v~~np----~~~~v~~~~~~~~~~~~D~IIaiGGGSv 551 (862)
T PRK13805 479 GKKRAFIVTDRFMVE--LGYVDKVTDVLKKRENG-VEYEVFSEVEPDP----TLSTVRKGAELMRSFKPDTIIALGGGSP 551 (862)
T ss_pred CCCEEEEEECcchhh--cchHHHHHHHHhcccCC-CeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCEEEEeCCchH
Confidence 668998888655432 346788888888 667 6654333333332 4467788888898899999996222 33
Q ss_pred HHHHHHHH
Q 008863 243 DMTIHLFT 250 (550)
Q Consensus 243 ~~~~~il~ 250 (550)
-++..++.
T Consensus 552 iD~AK~ia 559 (862)
T PRK13805 552 MDAAKIMW 559 (862)
T ss_pred HHHHHHHH
Confidence 34444443
No 339
>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=46.14 E-value=1.3e+02 Score=26.71 Aligned_cols=75 Identities=20% Similarity=0.218 Sum_probs=45.5
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
...++..++.. -++|+++..|... ....+.++...+..| +.+.... ... ++..-....+++.++.+.|+
T Consensus 18 ~aKLAa~~~~~-~~~v~lis~D~~R---~ga~eQL~~~a~~l~-vp~~~~~---~~~---~~~~~~~~~l~~~~~~~~D~ 86 (196)
T PF00448_consen 18 IAKLAARLKLK-GKKVALISADTYR---IGAVEQLKTYAEILG-VPFYVAR---TES---DPAEIAREALEKFRKKGYDL 86 (196)
T ss_dssp HHHHHHHHHHT-T--EEEEEESTSS---THHHHHHHHHHHHHT-EEEEESS---TTS---CHHHHHHHHHHHHHHTTSSE
T ss_pred HHHHHHHHhhc-cccceeecCCCCC---ccHHHHHHHHHHHhc-cccchhh---cch---hhHHHHHHHHHHHhhcCCCE
Confidence 34455555444 6889999986542 567889999999888 6543211 110 01223456677777778999
Q ss_pred EEEEcCC
Q 008863 235 FIVLQAS 241 (550)
Q Consensus 235 ii~~~~~ 241 (550)
|++ +..
T Consensus 87 vlI-DT~ 92 (196)
T PF00448_consen 87 VLI-DTA 92 (196)
T ss_dssp EEE-EE-
T ss_pred EEE-ecC
Confidence 999 654
No 340
>PF11965 DUF3479: Domain of unknown function (DUF3479); InterPro: IPR022571 This functionally uncharacterised domain, found N-terminal to PF02514 from PFAM, occurs in magnesium chelatase subunit H, which is involved in chlorophyll biosynthesis. It is found in bacteria, green plants and archaea. It is around 160 amino acids in length.; GO: 0016851 magnesium chelatase activity
Probab=45.71 E-value=1.9e+02 Score=24.71 Aligned_cols=78 Identities=18% Similarity=0.199 Sum_probs=52.7
Q ss_pred hHHHHHHHHHHHHhcCC-CCcEEEEEEec-CCCCHHHHHHHHHHhhhcCCeEEEEcC--CChHHHHHHHHhhccC--Ccc
Q 008863 50 QAITAMKIAVQNFNSDS-RNHKLSLQIRD-HNRDPFQAATAAQELINKEKVKVIAGM--ETWEETAVVAEIASRV--QVP 123 (550)
Q Consensus 50 ~~~~a~~~Av~~iN~~~-~~~~l~~~~~d-~~~~~~~a~~~~~~li~~~~v~aiiG~--~~s~~~~~v~~~~~~~--~iP 123 (550)
+...++.-|.+.+|.+. +|..|.+..-. -..+| .+.+.+++-+. ....|||. ...+....+.+..... +.|
T Consensus 11 ~~~~al~~aa~~l~~~~~p~l~l~~~~~~el~~~~-~~~~~~~~aia--~ADii~~smlF~ed~v~~l~~~L~~~r~~~~ 87 (164)
T PF11965_consen 11 HYNSALYRAAARLNRDHCPGLELSVFAAAELERDP-EALEECEAAIA--RADIIFGSMLFIEDHVRPLLPALEARRDHCP 87 (164)
T ss_pred hhhHHHHHHHHHHhhccCCCeEEEEEeHHHhhcCh-HHHHHHHHHHH--hCCEEEeehhhhHHHHHHHHHHHHHHHccCC
Confidence 56678888999999984 77777776553 33454 56677777775 45566654 5556777788877766 777
Q ss_pred EEeccCC
Q 008863 124 ILSFAAP 130 (550)
Q Consensus 124 ~is~~~~ 130 (550)
.+-...+
T Consensus 88 a~i~~~s 94 (164)
T PF11965_consen 88 AMIIFES 94 (164)
T ss_pred EEEEEcC
Confidence 6554443
No 341
>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=45.68 E-value=2.2e+02 Score=25.22 Aligned_cols=102 Identities=11% Similarity=0.162 Sum_probs=60.2
Q ss_pred HHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHH
Q 008863 109 ETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLAL 188 (550)
Q Consensus 109 ~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~ 188 (550)
....+..+|+..+||++..... . + .....+.+.+.++..+-+.+-.+.+.+.+. ......
T Consensus 46 ~~e~~~~~A~~lgipl~~i~~~---~--~-------------~e~~~~~l~~~l~~~~~~g~~~vv~G~i~s--d~~~~~ 105 (194)
T cd01994 46 NHELLELQAEAMGIPLIRIEIS---G--E-------------EEDEVEDLKELLRKLKEEGVDAVVFGAILS--EYQRTR 105 (194)
T ss_pred CHHHHHHHHHHcCCcEEEEeCC---C--C-------------chHHHHHHHHHHHHHHHcCCCEEEECcccc--HHHHHH
Confidence 3445667888899998764432 1 1 112235555555443211233444444433 556677
Q ss_pred HHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCH
Q 008863 189 LAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL 242 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~ 242 (550)
+.+...+.| ++..... ...+...+++++.+.+-+++|+ ....
T Consensus 106 ~e~~~~~~g-l~~~~PL----------W~~~~~~ll~e~~~~g~~~~iv-~v~~ 147 (194)
T cd01994 106 VERVCERLG-LEPLAPL----------WGRDQEELLREMIEAGFKAIII-KVAA 147 (194)
T ss_pred HHHHHHHcC-CEEEecc----------cCCCHHHHHHHHHHcCCeEEEE-Eecc
Confidence 888888888 7654332 2345677889998889998887 5433
No 342
>PRK09701 D-allose transporter subunit; Provisional
Probab=45.61 E-value=1.4e+02 Score=28.68 Aligned_cols=85 Identities=8% Similarity=0.053 Sum_probs=54.6
Q ss_pred cCCeEEEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCH
Q 008863 165 YNWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL 242 (550)
Q Consensus 165 ~~w~~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~ 242 (550)
+--.+++++..+ +.|. ....+.+.+.+++.| ..+..... +... +.......++++...+++.||+.....
T Consensus 22 ~~~~~Igvi~~~~~~~f~--~~~~~gi~~~a~~~g-~~v~~~~~-~~~~----~~~~~~~~i~~l~~~~vDgiIi~~~~~ 93 (311)
T PRK09701 22 FAAAEYAVVLKTLSNPFW--VDMKKGIEDEAKTLG-VSVDIFAS-PSEG----DFQSQLQLFEDLSNKNYKGIAFAPLSS 93 (311)
T ss_pred ccCCeEEEEeCCCCCHHH--HHHHHHHHHHHHHcC-CeEEEecC-CCCC----CHHHHHHHHHHHHHcCCCEEEEeCCCh
Confidence 555689999965 3455 777888889999998 77764321 1111 223445677778777899998823333
Q ss_pred HHHHHHHHHHHHcCC
Q 008863 243 DMTIHLFTEANRMGL 257 (550)
Q Consensus 243 ~~~~~il~~a~~~g~ 257 (550)
......+.++.+.|+
T Consensus 94 ~~~~~~l~~~~~~gi 108 (311)
T PRK09701 94 VNLVMPVARAWKKGI 108 (311)
T ss_pred HHHHHHHHHHHHCCC
Confidence 334445666777665
No 343
>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=45.22 E-value=1.7e+02 Score=23.95 Aligned_cols=66 Identities=12% Similarity=0.183 Sum_probs=45.8
Q ss_pred CcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCH----HHHHHHHHHHHHcC
Q 008863 181 GDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL----DMTIHLFTEANRMG 256 (550)
Q Consensus 181 ~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~----~~~~~il~~a~~~g 256 (550)
+|....+.+...++..| ++|...-.. .+....++..++.++++|.+ ++.. +....+++.+++.|
T Consensus 14 ~Hd~g~~iv~~~l~~~G-feVi~lg~~----------~s~e~~v~aa~e~~adii~i-Ssl~~~~~~~~~~~~~~L~~~g 81 (132)
T TIGR00640 14 GHDRGAKVIATAYADLG-FDVDVGPLF----------QTPEEIARQAVEADVHVVGV-SSLAGGHLTLVPALRKELDKLG 81 (132)
T ss_pred ccHHHHHHHHHHHHhCC-cEEEECCCC----------CCHHHHHHHHHHcCCCEEEE-cCchhhhHHHHHHHHHHHHhcC
Confidence 34566788888999999 888653322 23345677788889999999 5543 34566777777777
Q ss_pred CC
Q 008863 257 LV 258 (550)
Q Consensus 257 ~~ 258 (550)
..
T Consensus 82 ~~ 83 (132)
T TIGR00640 82 RP 83 (132)
T ss_pred CC
Confidence 63
No 344
>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=44.85 E-value=1.1e+02 Score=28.99 Aligned_cols=80 Identities=6% Similarity=0.153 Sum_probs=47.8
Q ss_pred EEEEEEEcC--CCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHH
Q 008863 169 RVAAIYEDN--VYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (550)
Q Consensus 169 ~v~ii~~~~--~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~ 246 (550)
|+++|..+. .|. ..+...+.+.+.+.| ..+.... .... +.......++.+...+++.||+..+......
T Consensus 1 ~i~~i~~~~~~~~~--~~~~~gi~~~a~~~g-~~~~~~~--~~~~----~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~ 71 (294)
T cd06316 1 KAAIVMHTSGSDWS--NAQVRGAKDEFAKLG-IEVVATT--DAQF----DPAKQVADIETTISQKPDIIISIPVDPVSTA 71 (294)
T ss_pred CeEEEecCCCChHH--HHHHHHHHHHHHHcC-CEEEEec--CCCC----CHHHHHHHHHHHHHhCCCEEEEcCCCchhhh
Confidence 456666542 343 556677888888888 7765221 1111 2234456677776778898887233333345
Q ss_pred HHHHHHHHcCC
Q 008863 247 HLFTEANRMGL 257 (550)
Q Consensus 247 ~il~~a~~~g~ 257 (550)
.+++++.+.|+
T Consensus 72 ~~i~~~~~~~i 82 (294)
T cd06316 72 AAYKKVAEAGI 82 (294)
T ss_pred HHHHHHHHcCC
Confidence 67788888775
No 345
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=44.42 E-value=16 Score=27.85 Aligned_cols=21 Identities=24% Similarity=0.463 Sum_probs=9.6
Q ss_pred Ccch-hHHHHHHHHHHHHhccc
Q 008863 1 MNRF-FFLVLIIASELVFVSPG 21 (550)
Q Consensus 1 M~r~-~~~~~~~~~~~~~~~~~ 21 (550)
|..+ +++++++++++|+.++.
T Consensus 1 MaSK~~llL~l~LA~lLlisSe 22 (95)
T PF07172_consen 1 MASKAFLLLGLLLAALLLISSE 22 (95)
T ss_pred CchhHHHHHHHHHHHHHHHHhh
Confidence 6655 34444444444444433
No 346
>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=44.36 E-value=80 Score=29.65 Aligned_cols=76 Identities=8% Similarity=0.117 Sum_probs=49.2
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCC-HHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS-LDMTI 246 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~-~~~~~ 246 (550)
|++|..+ +.|. ....+.+.+.+++.| ..+.... .. +.......++++...+++.||+ ... .....
T Consensus 2 Ig~v~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~---~~-----~~~~~~~~i~~~~~~~~dgiii-~~~~~~~~~ 69 (289)
T cd01540 2 IGFIVKQPEEPWF--QTEWKFAKKAAKEKG-FTVVKID---VP-----DGEKVLSAIDNLGAQGAKGFVI-CVPDVKLGP 69 (289)
T ss_pred eeeecCCCCCcHH--HHHHHHHHHHHHHcC-CEEEEcc---CC-----CHHHHHHHHHHHHHcCCCEEEE-ccCchhhhH
Confidence 5666654 2455 667778888899888 7765321 11 1233445677777788998888 543 33456
Q ss_pred HHHHHHHHcCC
Q 008863 247 HLFTEANRMGL 257 (550)
Q Consensus 247 ~il~~a~~~g~ 257 (550)
.+++++.+.|+
T Consensus 70 ~~~~~~~~~~i 80 (289)
T cd01540 70 AIVAKAKAYNM 80 (289)
T ss_pred HHHHHHHhCCC
Confidence 67888888775
No 347
>PRK14529 adenylate kinase; Provisional
Probab=43.48 E-value=99 Score=28.09 Aligned_cols=30 Identities=10% Similarity=0.032 Sum_probs=25.5
Q ss_pred EEEEcCCChHHHHHHHHhhccCCccEEecc
Q 008863 99 KVIAGMETWEETAVVAEIASRVQVPILSFA 128 (550)
Q Consensus 99 ~aiiG~~~s~~~~~v~~~~~~~~iP~is~~ 128 (550)
.+++||..++-+.....++..+++++|+.+
T Consensus 3 I~l~G~PGsGK~T~a~~La~~~~~~~is~g 32 (223)
T PRK14529 3 ILIFGPNGSGKGTQGALVKKKYDLAHIESG 32 (223)
T ss_pred EEEECCCCCCHHHHHHHHHHHHCCCCcccc
Confidence 578999988888888889999999999754
No 348
>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=43.15 E-value=70 Score=31.81 Aligned_cols=79 Identities=10% Similarity=0.014 Sum_probs=49.7
Q ss_pred cCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCH--
Q 008863 165 YNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL-- 242 (550)
Q Consensus 165 ~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~-- 242 (550)
++.+++.+|++...+ ......+.+.+.+++.| +.+.....+.+.. ..+...+.++.+++.++|.||- .+.+
T Consensus 21 ~~~~r~livt~~~~~-~~~g~~~~v~~~L~~~g-~~~~~~~~v~~~p----~~~~v~~~~~~~~~~~~D~IIa-vGGGSv 93 (375)
T cd08179 21 LKGKKAFIVTGGGSM-KKFGFLDKVEAYLKEAG-IEVEVFEGVEPDP----SVETVLKGAEAMREFEPDWIIA-LGGGSP 93 (375)
T ss_pred hcCCeEEEEeCchHH-HhCChHHHHHHHHHHcC-CeEEEeCCCCCCc----CHHHHHHHHHHHHhcCCCEEEE-eCCccH
Confidence 345888888865432 01235678889998888 7664332233332 4466788888899889999997 4333
Q ss_pred HHHHHHHH
Q 008863 243 DMTIHLFT 250 (550)
Q Consensus 243 ~~~~~il~ 250 (550)
-++.+.+.
T Consensus 94 iD~AK~ia 101 (375)
T cd08179 94 IDAAKAMW 101 (375)
T ss_pred HHHHHHHH
Confidence 34444443
No 349
>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=43.14 E-value=86 Score=31.46 Aligned_cols=79 Identities=15% Similarity=0.110 Sum_probs=51.5
Q ss_pred cCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEc-CCHH
Q 008863 165 YNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQ-ASLD 243 (550)
Q Consensus 165 ~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~-~~~~ 243 (550)
.+.+++.+|++..-.. ....+.+.+.+++.| +.+.....+.+.. ..+.....+..+++.++|+||-+. ++.-
T Consensus 19 ~~~~k~liVtd~~~~~--~g~~~~v~~~L~~~g-i~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~D~IIaiGGGS~i 91 (398)
T cd08178 19 KGKKRAFIVTDRFMVK--LGYVDKVIDVLKRRG-VETEVFSDVEPDP----SLETVRKGLELMNSFKPDTIIALGGGSPM 91 (398)
T ss_pred cCCCeEEEEcChhHHh--CccHHHHHHHHHHCC-CeEEEecCCCCCc----CHHHHHHHHHHHHhcCCCEEEEeCCccHH
Confidence 4568998888654322 336788899999888 7765433343332 445677888888888999999623 2344
Q ss_pred HHHHHHH
Q 008863 244 MTIHLFT 250 (550)
Q Consensus 244 ~~~~il~ 250 (550)
++..++.
T Consensus 92 D~AK~iA 98 (398)
T cd08178 92 DAAKIMW 98 (398)
T ss_pred HHHHHHH
Confidence 5555554
No 350
>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=42.91 E-value=1.1e+02 Score=28.21 Aligned_cols=77 Identities=14% Similarity=0.120 Sum_probs=45.8
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
+++|..+ +.|. ..+.+.+.+.+++.| .++... .... +.......++.+.+.+++.+++ .........
T Consensus 2 I~vi~~~~~~~~~--~~~~~g~~~~a~~~g-~~~~~~---~~~~----~~~~~~~~i~~~~~~~vdgiii-~~~~~~~~~ 70 (268)
T cd06289 2 IGLVINDLTNPFF--AELAAGLEEVLEEAG-YTVFLA---NSGE----DVERQEQLLSTMLEHGVAGIIL-CPAAGTSPD 70 (268)
T ss_pred EEEEecCCCcchH--HHHHHHHHHHHHHcC-CeEEEe---cCCC----ChHHHHHHHHHHHHcCCCEEEE-eCCCCccHH
Confidence 4555543 3455 667778888888888 766432 1111 2233456677777778888887 433222234
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
.++.+.+.|+
T Consensus 71 ~~~~~~~~~i 80 (268)
T cd06289 71 LLKRLAESGI 80 (268)
T ss_pred HHHHHHhcCC
Confidence 6677777665
No 351
>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=42.86 E-value=1.2e+02 Score=28.14 Aligned_cols=78 Identities=9% Similarity=0.066 Sum_probs=48.6
Q ss_pred EEEEEEc---CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHH
Q 008863 170 VAAIYED---NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (550)
Q Consensus 170 v~ii~~~---~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~ 246 (550)
|++|..+ +.|. ....+.+...+.+.| +.+.... ... +.+.....++.+...+++.|++.....+...
T Consensus 2 i~vi~p~~~~~~~~--~~~~~g~~~~~~~~g-~~~~~~~---~~~----~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 71 (275)
T cd06317 2 IGYTQNNVGSHSYQ--TTYNKAFQAAAEEDG-VEVIVLD---ANG----DVARQAAQVEDLIAQKVDGIILWPTDGQAYI 71 (275)
T ss_pred eEEEecccCCCHHH--HHHHHHHHHHHHhcC-CEEEEEc---CCc----CHHHHHHHHHHHHHcCCCEEEEecCCccccH
Confidence 4556543 3466 777788888888888 7765432 111 2234456677777778998887233343345
Q ss_pred HHHHHHHHcCC
Q 008863 247 HLFTEANRMGL 257 (550)
Q Consensus 247 ~il~~a~~~g~ 257 (550)
..++.+.+.++
T Consensus 72 ~~l~~~~~~~i 82 (275)
T cd06317 72 PGLRKAKQAGI 82 (275)
T ss_pred HHHHHHHHCCC
Confidence 66777777765
No 352
>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=42.76 E-value=28 Score=28.67 Aligned_cols=55 Identities=15% Similarity=0.318 Sum_probs=35.8
Q ss_pred HHHhh-hcCCeEEEEcCCCh--HHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEE
Q 008863 89 AQELI-NKEKVKVIAGMETW--EETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIR 146 (550)
Q Consensus 89 ~~~li-~~~~v~aiiG~~~s--~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~ 146 (550)
+.+++ +.++++.++|.... .....+..+++..++|+++.... -...+ ...|.++-
T Consensus 4 ~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~--kg~i~-~~hp~~~G 61 (137)
T PF00205_consen 4 AADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPMG--KGVIP-EDHPLFLG 61 (137)
T ss_dssp HHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGG--TTSST-TTSTTEEE
T ss_pred HHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCcc--ccccC-CCCchhcc
Confidence 34444 34789999997555 67788999999999999876544 22233 33466554
No 353
>PRK01066 porphobilinogen deaminase; Provisional
Probab=42.75 E-value=42 Score=30.32 Aligned_cols=18 Identities=17% Similarity=-0.016 Sum_probs=15.7
Q ss_pred HHHHhhhcccccEEeece
Q 008863 519 DLINGVYDKVNYFNYHDK 536 (550)
Q Consensus 519 Gmi~el~~~~ad~a~~~~ 536 (550)
.+=.+|++|++|+||.++
T Consensus 77 ele~aLl~g~iDiAVHSl 94 (231)
T PRK01066 77 DVDFLVLSGQCDLAIHSA 94 (231)
T ss_pred HHHHHHHcCCCCEEEecC
Confidence 466788999999999987
No 354
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=42.67 E-value=2.5e+02 Score=25.17 Aligned_cols=88 Identities=22% Similarity=0.268 Sum_probs=50.9
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
.-.-+.++++.+ -++|++|=.-........+.+..++.+.+.| ..+..-....+ +..++...|. +++
T Consensus 20 ~~~~i~n~l~g~-~~~i~FIPtAs~~~~~~~Yv~k~~~~l~~lg-~~v~~L~l~~~------~~~~Ie~~l~-----~~d 86 (224)
T COG3340 20 FLPFIANFLQGK-RKTIAFIPTASVDSEDDFYVEKVRNALAKLG-LEVSELHLSKP------PLAAIENKLM-----KAD 86 (224)
T ss_pred hhHHHHHHhcCC-CceEEEEecCccccchHHHHHHHHHHHHHcC-CeeeeeeccCC------CHHHHHHhhh-----hcc
Confidence 334455555554 4678777654321111447899999999999 77765443322 2233332222 568
Q ss_pred EEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 234 VFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 234 ~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
+|++ . +.....+|+..++-|+
T Consensus 87 ~IyV-g--GGNTF~LL~~lke~gl 107 (224)
T COG3340 87 IIYV-G--GGNTFNLLQELKETGL 107 (224)
T ss_pred EEEE-C--CchHHHHHHHHHHhCc
Confidence 8888 3 4455666777776664
No 355
>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=42.02 E-value=1.9e+02 Score=26.94 Aligned_cols=79 Identities=9% Similarity=-0.001 Sum_probs=49.9
Q ss_pred eEEEEEEEcC--CCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCC-HHH
Q 008863 168 RRVAAIYEDN--VYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS-LDM 244 (550)
Q Consensus 168 ~~v~ii~~~~--~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~-~~~ 244 (550)
++++++..+- .|. ..+.+.+.+.+++.| ..+.... .. . +.+.....++.+...+.|.||+ ... .+.
T Consensus 1 ~~ig~i~~~~~~~~~--~~~~~gi~~~a~~~g-y~~~~~~--~~-~----~~~~~~~~i~~l~~~~vdgiil-~~~~~~~ 69 (280)
T cd06315 1 KNIIFVASDLKNGGI--LGVGEGVREAAKAIG-WNLRILD--GR-G----SEAGQAAALNQAIALKPDGIVL-GGVDAAE 69 (280)
T ss_pred CeEEEEecccCCcHH--HHHHHHHHHHHHHcC-cEEEEEC--CC-C----CHHHHHHHHHHHHHcCCCEEEE-cCCCHHH
Confidence 3577777652 344 667788888899888 7765432 11 1 2344557788888889999998 543 232
Q ss_pred HHHHHHHHHHcCC
Q 008863 245 TIHLFTEANRMGL 257 (550)
Q Consensus 245 ~~~il~~a~~~g~ 257 (550)
....++.+.+.++
T Consensus 70 ~~~~~~~~~~~~i 82 (280)
T cd06315 70 LQAELELAQKAGI 82 (280)
T ss_pred HHHHHHHHHHCCC
Confidence 3345566666554
No 356
>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=41.62 E-value=1.3e+02 Score=27.27 Aligned_cols=78 Identities=14% Similarity=0.114 Sum_probs=49.1
Q ss_pred EEEEEEEcC---CCCCcchhHHHHHHHHhc--CCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHH
Q 008863 169 RVAAIYEDN---VYGGDSGKLALLAEALQN--VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (550)
Q Consensus 169 ~v~ii~~~~---~~g~~~~~~~~l~~~l~~--~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~ 243 (550)
+|++|.... .++ ....+.+++.+.+ .+ +++..... .. +..+....++++...+.+.|++ .....
T Consensus 1 ~Ig~i~~~~~~~~~~--~~~~~~~~~~~~~~g~~-~~~~~~~~--~~-----~~~~~~~~~~~~~~~~~d~ii~-~~~~~ 69 (269)
T cd01391 1 KIGVLLPLSGSAPFG--AQLLAGIELAAEEIGRG-LEVILADS--QS-----DPERALEALRDLIQQGVDGIIG-PPSSS 69 (269)
T ss_pred CceEEeecCCCcHHH--HHHHHHHHHHHHHhCCc-eEEEEecC--CC-----CHHHHHHHHHHHHHcCCCEEEe-cCCCH
Confidence 366777643 455 6677788888888 66 66543321 11 2235667777777778999988 55444
Q ss_pred HHHHHHHHHHHcCC
Q 008863 244 MTIHLFTEANRMGL 257 (550)
Q Consensus 244 ~~~~il~~a~~~g~ 257 (550)
....+...+.+.++
T Consensus 70 ~~~~~~~~~~~~~i 83 (269)
T cd01391 70 SALAVVELAAAAGI 83 (269)
T ss_pred HHHHHHHHHHHcCC
Confidence 44446777777665
No 357
>PRK14187 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=41.53 E-value=3.2e+02 Score=26.03 Aligned_cols=173 Identities=10% Similarity=0.045 Sum_probs=97.4
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc--CC--ChHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG--ME--TWEET 110 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG--~~--~s~~~ 110 (550)
-+++++.--+......+.+.-.-+.+++ |+..+....+......+..+...++=.++.|++|+= |. .....
T Consensus 33 P~LaiI~vg~d~as~~Yv~~k~k~a~~~-----Gi~~~~~~l~~~~~e~~l~~~I~~lN~d~~V~GIlvqlPLP~~i~~~ 107 (294)
T PRK14187 33 PCLIVILVGDDPASQLYVRNKQRKAEML-----GLRSETILLPSTISESSLIEKINELNNDDSVHGILVQLPVPNHIDKN 107 (294)
T ss_pred CeEEEEEeCCChhHHHHHHHHHHHHHHc-----CCEEEEEECCCCCCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHH
Confidence 4677776555333456666767777776 788888777766666667777777766677777774 32 22233
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcC----CeEEEEEEEcCCCCCcchhH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN----WRRVAAIYEDNVYGGDSGKL 186 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~----w~~v~ii~~~~~~g~~~~~~ 186 (550)
..+..+.-...+=-+++... .........+.+ .|- .+.++.++|++++ -+++++|....--|
T Consensus 108 ~i~~~I~p~KDVDGl~~~n~--g~l~~g~~~~~~---~Pc---Tp~avi~lL~~~~i~l~Gk~vvViGrS~iVG------ 173 (294)
T PRK14187 108 LIINTIDPEKDVDGFHNENV--GRLFTGQKKNCL---IPC---TPKGCLYLIKTITRNLSGSDAVVIGRSNIVG------ 173 (294)
T ss_pred HHHhccCcccCcccCChhhH--HHHhCCCCCCCc---cCc---CHHHHHHHHHHhCCCCCCCEEEEECCCccch------
Confidence 33444444444443333222 111111111222 344 5678899998864 57898888777666
Q ss_pred HHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCH
Q 008863 187 ALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL 242 (550)
Q Consensus 187 ~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~ 242 (550)
.-+...|.+.+ -+|..-.... .++ .+.. .++|+||. +...
T Consensus 174 kPla~lL~~~~-aTVt~chs~T---------~~l----~~~~-~~ADIvVs-AvGk 213 (294)
T PRK14187 174 KPMACLLLGEN-CTVTTVHSAT---------RDL----ADYC-SKADILVA-AVGI 213 (294)
T ss_pred HHHHHHHhhCC-CEEEEeCCCC---------CCH----HHHH-hhCCEEEE-ccCC
Confidence 44455555566 5555332211 232 2221 27889998 5443
No 358
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=41.52 E-value=2.3e+02 Score=28.89 Aligned_cols=93 Identities=17% Similarity=0.161 Sum_probs=51.8
Q ss_pred CCCcEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCC-HHHHHHHHHHhhhcC--CeEEEE-cCCC
Q 008863 31 IEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRD-PFQAATAAQELINKE--KVKVIA-GMET 106 (550)
Q Consensus 31 ~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~-~~~a~~~~~~li~~~--~v~aii-G~~~ 106 (550)
+.-+-+||+|.+.++ .|++.-+..++...|...+.+...--+++ ....+..+.+.+... .|.+|+ |+.+
T Consensus 132 P~~p~~I~viTs~~g-------Aa~~D~~~~~~~r~p~~~~~~~~~~vQG~~A~~~i~~al~~~~~~~~Dviii~RGGGS 204 (438)
T PRK00286 132 PFFPKRIGVITSPTG-------AAIRDILTVLRRRFPLVEVIIYPTLVQGEGAAASIVAAIERANARGEDVLIVARGGGS 204 (438)
T ss_pred CCCCCEEEEEeCCcc-------HHHHHHHHHHHhcCCCCeEEEecCcCcCccHHHHHHHHHHHhcCCCCCEEEEecCCCC
Confidence 445789999998885 45666667777665554544433333332 222333333333332 333443 4443
Q ss_pred hH-----HHHHHHHhhccCCccEEeccCC
Q 008863 107 WE-----ETAVVAEIASRVQVPILSFAAP 130 (550)
Q Consensus 107 s~-----~~~~v~~~~~~~~iP~is~~~~ 130 (550)
-+ ....++...-...+|+|+.-..
T Consensus 205 ~eDL~~Fn~e~v~~ai~~~~~Pvis~IGH 233 (438)
T PRK00286 205 LEDLWAFNDEAVARAIAASRIPVISAVGH 233 (438)
T ss_pred HHHhhccCcHHHHHHHHcCCCCEEEeccC
Confidence 33 2345666666779999996655
No 359
>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=41.26 E-value=2.9e+02 Score=25.51 Aligned_cols=115 Identities=15% Similarity=0.165 Sum_probs=63.5
Q ss_pred CcEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHH-
Q 008863 33 EVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETA- 111 (550)
Q Consensus 33 ~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~- 111 (550)
+.=+||++.+.....+.....+++-++++. |.++..... .+.....+.+.+++. +..+|+.+.......
T Consensus 130 g~~~i~~l~~~~~~~~~~r~~g~~~~~~~~-----g~~~~~~~~---~~~~~~~~~~~~~~~--~~dai~~~~d~~a~~~ 199 (281)
T cd06325 130 DAKTVGVLYNPSEANSVVQVKELKKAAAKL-----GIEVVEATV---SSSNDVQQAAQSLAG--KVDAIYVPTDNTVASA 199 (281)
T ss_pred CCcEEEEEeCCCCccHHHHHHHHHHHHHhC-----CCEEEEEec---CCHHHHHHHHHHhcc--cCCEEEEcCchhHHhH
Confidence 345788886544333445557777777552 455443222 122334455556653 346777655443322
Q ss_pred --HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHH
Q 008863 112 --VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (550)
Q Consensus 112 --~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~ 164 (550)
++.......++|+++.... +. ..|-+.....+...+++..++++.+
T Consensus 200 ~~~~~~~~~~~~ipvig~d~~---~~----~~~~l~tv~~~~~~~G~~a~~~l~~ 247 (281)
T cd06325 200 MEAVVKVANEAKIPVIASDDD---MV----KRGGLATYGIDYYELGRQTGKMAAK 247 (281)
T ss_pred HHHHHHHHHHcCCCEEEcCHH---HH----hCCceEEecCCHHHHHHHHHHHHHH
Confidence 2333322357998887654 22 1255666777777788877777644
No 360
>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=40.77 E-value=3e+02 Score=25.52 Aligned_cols=120 Identities=14% Similarity=0.054 Sum_probs=63.3
Q ss_pred EEEEEEecC-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhc-CCeEEEEcCCChHHHHHH
Q 008863 36 KIGAIVDAN-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~~~v 113 (550)
+||.+.... ......-..|++-|+++.+ .+..+.......+...+.+.+.+++.+ .++.||+.... ..+..+
T Consensus 120 ~I~~i~~~~~~~~~~~R~~gf~~a~~~~g-----~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d-~~A~gv 193 (269)
T cd06287 120 QIALIVGSARRNSYLEAEAAYRAFAAEHG-----MPPVVLRVDEAGGEEAGYAACAQLLAQHPDLDALCVPVD-AFAVGA 193 (269)
T ss_pred cEEEEeCCcccccHHHHHHHHHHHHHHcC-----CCcceeEecCCCChHHHHHHHHHHHhCCCCCCEEEEcCc-HHHHHH
Confidence 567765332 2223445678888887642 222222223333445566777777754 35789997543 444445
Q ss_pred HHhhccCCc--c-EEeccC-CCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHH
Q 008863 114 AEIASRVQV--P-ILSFAA-PAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR 163 (550)
Q Consensus 114 ~~~~~~~~i--P-~is~~~-~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~ 163 (550)
...+.+.++ | -++.-+ . +........|.+-.+..+...+++..+++|.
T Consensus 194 l~al~~~gl~vP~dvsvig~~--d~~~~~~~~p~ltti~~~~~~~g~~A~~~l~ 245 (269)
T cd06287 194 VRAATELGRAVPDQLRVVTRY--DGLRARTSEPPLTAVDLHLDEVAEQAVDLLF 245 (269)
T ss_pred HHHHHHcCCCCCCceEEEecc--CchhhccCCCCcccccCCHHHHHHHHHHHHH
Confidence 555555544 5 122221 2 2222223335555667777778877777663
No 361
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=40.67 E-value=4.3e+02 Score=27.31 Aligned_cols=103 Identities=14% Similarity=0.125 Sum_probs=57.0
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcC--CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCC
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNV--SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQS 232 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~--g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~ 232 (550)
.+...+++....=+++.|+|... ||--+.+++.+.+.+++. | +.+.... +.. .+...++..+. ++
T Consensus 239 l~~Y~~~~~~~~~~kv~IvY~S~-~GnTe~mA~~ia~gl~~~g~g-v~v~~~~-v~~--------~~~~~i~~~~~--~a 305 (479)
T PRK05452 239 VELYLKWAADYQEDRITIFYDTM-SNNTRMMADAIAQGIAEVDPR-VAVKIFN-VAR--------SDKNEILTNVF--RS 305 (479)
T ss_pred HHHHHHHhhccCcCcEEEEEECC-ccHHHHHHHHHHHHHHhhCCC-ceEEEEE-CCC--------CCHHHHHhHHh--hC
Confidence 33344444443447899999753 222267788888888866 4 4443322 221 23334444443 56
Q ss_pred eEEEEEcCCH------HHHHHHHHHHHHcCCCCCCEEEEEeccch
Q 008863 233 RVFIVLQASL------DMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (550)
Q Consensus 233 ~~ii~~~~~~------~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 271 (550)
+.|++ .++. .....++..+....+.++...-+++..|.
T Consensus 306 d~vil-GspT~~~~~~p~~~~fl~~l~~~~l~gK~~~vFGSygw~ 349 (479)
T PRK05452 306 KGVLV-GSSTMNNVMMPKIAGLLEEITGLRFRNKRASAFGSHGWS 349 (479)
T ss_pred CEEEE-ECCccCCcchHHHHHHHHHhhccCcCCCEEEEEECCCcC
Confidence 67777 4432 24566777777776666544455555553
No 362
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=40.43 E-value=1.6e+02 Score=29.87 Aligned_cols=91 Identities=16% Similarity=0.154 Sum_probs=56.5
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHH--HhcCCC-CcEEEEEEecCCCCHHHHHH-HHHHhh-hcCCeEEEEcCCChHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQN--FNSDSR-NHKLSLQIRDHNRDPFQAAT-AAQELI-NKEKVKVIAGMETWEE 109 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~--iN~~~~-~~~l~~~~~d~~~~~~~a~~-~~~~li-~~~~v~aiiG~~~s~~ 109 (550)
-+||++.--+ .. ......+.-+++. .+..++ +..-++.++|+-|+.-.--+ ++.+|+ .+-.+..|||...|..
T Consensus 299 ~kvgvvnQTT-m~-~~et~~I~~~l~~~~~~k~gp~~~~~~~~vfnTIC~ATqeRQdA~~~L~~~~vDlmiVVGG~NSSN 376 (460)
T PLN02821 299 VKVGIANQTT-ML-KGETEEIGKLLEKTMMQKYGVENVNDHFMSFNTICDATQERQDAMYKLVEEKLDLMLVVGGWNSSN 376 (460)
T ss_pred ccEEEEECCC-Cc-HHHHHHHHHHHHHhhhhhcCCcccCccccccCCcchhHHHHHHHHHHHhhcCCCEEEEECCCCCcc
Confidence 5688776433 21 2222333333333 233331 23345567888887755444 445664 3467889999999999
Q ss_pred HHHHHHhhccCCccEEec
Q 008863 110 TAVVAEIASRVQVPILSF 127 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~ 127 (550)
+..++.+|...++|..-.
T Consensus 377 T~~L~eIa~~~g~~sy~I 394 (460)
T PLN02821 377 TSHLQEIAEHKGIPSYWI 394 (460)
T ss_pred HHHHHHHHHHhCCCEEEE
Confidence 999999999999985443
No 363
>PF03830 PTSIIB_sorb: PTS system sorbose subfamily IIB component; InterPro: IPR004720 Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families: It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This entry is specific for the IIB components of this family of PTS transporters [].; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 3LFJ_B 1BLE_A 3P3V_B 1NRZ_C 3EYE_A 1VSQ_C 2JZH_A 2JZN_C 2JZO_D.
Probab=40.43 E-value=67 Score=27.06 Aligned_cols=84 Identities=14% Similarity=0.156 Sum_probs=57.7
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
.++.+..|+++++.+++.++-+.-. . ..+.+.+-....-.| +++.... .++....+++-...+.+
T Consensus 13 HGQV~~~W~~~~~~~~IiVvdD~~A-~--D~~~k~~l~ma~P~g-vk~~i~s-----------v~~a~~~l~~~~~~~~~ 77 (151)
T PF03830_consen 13 HGQVATAWVKKLNANRIIVVDDEVA-N--DPFQKMILKMAAPAG-VKLSIFS-----------VEEAIEKLKKPEYSKKR 77 (151)
T ss_dssp CTTHHHHHHHHHTTSEEEEE-HHHH-H--SHHHHHHHHHTSHTT-SEEEEE------------HHHHHHHHCGGGGTTEE
T ss_pred eeeeeEEEhhhcccCEEEEECHHHh-c--CHHHHHHHHHhhcCC-CceEEEE-----------HHHHHHHHHhcccCCce
Confidence 3567888999999999988876543 2 445666666665667 7765432 25666677777766788
Q ss_pred EEEEEcCCHHHHHHHHHHHH
Q 008863 234 VFIVLQASLDMTIHLFTEAN 253 (550)
Q Consensus 234 ~ii~~~~~~~~~~~il~~a~ 253 (550)
++++ .-++.++..+++.-.
T Consensus 78 v~ii-~k~~~d~~~l~~~g~ 96 (151)
T PF03830_consen 78 VLII-VKSPEDALRLVEAGV 96 (151)
T ss_dssp EEEE-ESSHHHHHHHHHTT-
T ss_pred EEEE-ECCHHHHHHHHhcCC
Confidence 8888 999998887776444
No 364
>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=40.15 E-value=3.5e+02 Score=26.16 Aligned_cols=89 Identities=13% Similarity=0.152 Sum_probs=53.1
Q ss_pred HHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEE
Q 008863 156 KCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVF 235 (550)
Q Consensus 156 ~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~i 235 (550)
..+.++++.++.+++.+|++.... ....+.+.+.+++. +.+.....+.+.. ..++....+..+++.++|.|
T Consensus 12 ~~l~~~~~~~g~~~~liv~~~~~~---~~~~~~v~~~l~~~--~~~~~~~~~~~~p----~~~~v~~~~~~~~~~~~d~I 82 (332)
T cd07766 12 EKIGEEIKRGGFDRALVVSDEGVV---KGVGEKVADSLKKL--IAVHIFDGVGPNP----TFEEVKEAVERARAAEVDAV 82 (332)
T ss_pred HHHHHHHHhcCCCeEEEEeCCchh---hhHHHHHHHHHHhc--CcEEEeCCcCCCc----CHHHHHHHHHHHHhcCcCEE
Confidence 446677888888999999965432 34567777777652 1221111122211 44677788888888889998
Q ss_pred EEEcC-CHHHHHHHHHHHH
Q 008863 236 IVLQA-SLDMTIHLFTEAN 253 (550)
Q Consensus 236 i~~~~-~~~~~~~il~~a~ 253 (550)
|-+.+ +.-++..++....
T Consensus 83 IaiGGGs~~D~aK~ia~~~ 101 (332)
T cd07766 83 IAVGGGSTLDTAKAVAALL 101 (332)
T ss_pred EEeCCchHHHHHHHHHHHh
Confidence 86122 3334444444443
No 365
>PLN02691 porphobilinogen deaminase
Probab=39.92 E-value=37 Score=32.92 Aligned_cols=48 Identities=13% Similarity=0.132 Sum_probs=29.6
Q ss_pred cchHHHHHHHHHhCCCCCCeEEEec-----------------CCChH-HHHHhhhcccccEEeece
Q 008863 489 GFSIELFRLVVDHLNYDLPYEFVPH-----------------DGVYD-DLINGVYDKVNYFNYHDK 536 (550)
Q Consensus 489 GfciDll~~la~~l~f~~~~~~~~~-----------------~g~w~-Gmi~el~~~~ad~a~~~~ 536 (550)
-++++.|++.-..+.-++.+++++. .|-|. .+=.+|++|++|+||.++
T Consensus 59 ~~V~~~L~~~~p~~~~~~~~eiv~i~T~GD~~~d~pL~~iGgkGlFtkele~aLl~g~iDiAVHSl 124 (351)
T PLN02691 59 YETRDLLKAAHPELAEEGALEIVIIKTTGDKILDQPLADIGGKGLFTKEIDDALLSGRIDIAVHSM 124 (351)
T ss_pred HHHHHHHHHhCCCcCCCCCEEEEEEeecCCccccchHHHcCCceEeHHHHHHHHHcCCCCEEEecc
Confidence 4456777665433321223667654 13333 455688999999999987
No 366
>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=39.88 E-value=1.8e+02 Score=26.86 Aligned_cols=75 Identities=11% Similarity=0.150 Sum_probs=44.4
Q ss_pred EEEEEEc-----CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHH
Q 008863 170 VAAIYED-----NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM 244 (550)
Q Consensus 170 v~ii~~~-----~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~ 244 (550)
|+++..+ +.|. ..+.+.+++.+++.| ..+.... ... ........+..+.+.+.|.||+ ......
T Consensus 2 vgv~~~~~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~-~~~------~~~~~~~~~~~l~~~~vdgiii-~~~~~~ 70 (268)
T cd06277 2 IGLIASKRILNSPAFY--SEIYRAIEEEAKKYG-YNLILKF-VSD------EDEEEFELPSFLEDGKVDGIIL-LGGIST 70 (268)
T ss_pred eEEEEeccccccCCcH--HHHHHHHHHHHHHcC-CEEEEEe-CCC------ChHHHHHHHHHHHHCCCCEEEE-eCCCCh
Confidence 5566655 4565 777788888888888 7765432 111 1223334555666678888888 443222
Q ss_pred HHHHHHHHHHcCC
Q 008863 245 TIHLFTEANRMGL 257 (550)
Q Consensus 245 ~~~il~~a~~~g~ 257 (550)
..+..+.+.+.
T Consensus 71 --~~~~~l~~~~i 81 (268)
T cd06277 71 --EYIKEIKELGI 81 (268)
T ss_pred --HHHHHHhhcCC
Confidence 23666666654
No 367
>cd00494 HMBS Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of porphobilinogen (PBG) into hydroxymethylbilane (HMB). HMBS consists of three domains, and is believed to bind substrate through a hinge-bending motion of domains I and II. HMBS is found in all organisms except viruses.
Probab=39.67 E-value=48 Score=31.32 Aligned_cols=22 Identities=14% Similarity=0.294 Sum_probs=17.8
Q ss_pred CChH-HHHHhhhcccccEEeece
Q 008863 515 GVYD-DLINGVYDKVNYFNYHDK 536 (550)
Q Consensus 515 g~w~-Gmi~el~~~~ad~a~~~~ 536 (550)
|-|. .+=..|++|++|+||.++
T Consensus 55 G~Ftkele~aLl~g~iDiAVHSl 77 (292)
T cd00494 55 GLFTKELEEALLNGEIDLAVHSL 77 (292)
T ss_pred ceeHHHHHHHHHcCCCCEEEecc
Confidence 4466 455689999999999987
No 368
>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=39.61 E-value=1.4e+02 Score=27.74 Aligned_cols=82 Identities=11% Similarity=0.018 Sum_probs=47.5
Q ss_pred EEEEEEEcC--CCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHH
Q 008863 169 RVAAIYEDN--VYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (550)
Q Consensus 169 ~v~ii~~~~--~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~ 246 (550)
+++++..+. .|. ....+.+.+.+++.| ..+.......... .+.......++.+.+ +.|.+++.........
T Consensus 1 ~ig~v~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~~~~~~---~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~ 73 (275)
T cd06307 1 RLGFLLPKGSNAFY--RELAAALEAAAAAFP-DARIRVRIHFVES---FDPAALAAALLRLGA-RSDGVALVAPDHPQVR 73 (275)
T ss_pred CeEEEeCCCCChHH--HHHHHHHHHHHhhhh-ccCceEEEEEccC---CCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHH
Confidence 467777653 355 667778888888876 5433322111110 022344566777777 8898887233334445
Q ss_pred HHHHHHHHcCC
Q 008863 247 HLFTEANRMGL 257 (550)
Q Consensus 247 ~il~~a~~~g~ 257 (550)
..++++.+.|.
T Consensus 74 ~~i~~~~~~~i 84 (275)
T cd06307 74 AAVARLAAAGV 84 (275)
T ss_pred HHHHHHHHCCC
Confidence 67788877665
No 369
>PRK02102 ornithine carbamoyltransferase; Validated
Probab=39.61 E-value=3.7e+02 Score=26.19 Aligned_cols=133 Identities=14% Similarity=0.146 Sum_probs=74.1
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
-.++.+|...+ .+....|+.|+.++ ++..+.+...++.-.-.+.++.+...++. -+.+|+-=. .....+.
T Consensus 47 k~v~~lF~epS---TRTR~SFe~A~~~L----Gg~~i~l~~~~ss~~kgEsl~Dt~rvls~-y~D~iviR~--~~~~~~~ 116 (331)
T PRK02102 47 KNIALIFEKTS---TRTRCAFEVAAIDL----GAHVTYLGPNDSQLGKKESIEDTARVLGR-MYDGIEYRG--FKQEIVE 116 (331)
T ss_pred CEEEEEeCCCC---hhHHHHHHHHHHHc----CCCEEEcCcccccCCCCcCHHHHHHHHhh-cCCEEEEEC--CchHHHH
Confidence 34777776653 58889999999988 45555433333222222344444444443 244444211 1223455
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcC---CeEEEEEEEcCCCCCcchhHHH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN---WRRVAAIYEDNVYGGDSGKLAL 188 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~---w~~v~ii~~~~~~g~~~~~~~~ 188 (550)
.+++...+|+|..+.. .. +| .++++|++ +++| -.+++++.+. .+ ..+..
T Consensus 117 ~~a~~~~vPVINa~~~--------~~-------HP-----tQaLaDl~Ti~e~~g~l~g~~va~vGd~-~~----~v~~S 171 (331)
T PRK02102 117 ELAKYSGVPVWNGLTD--------EW-------HP-----TQMLADFMTMKEHFGPLKGLKLAYVGDG-RN----NMANS 171 (331)
T ss_pred HHHHhCCCCEEECCCC--------CC-------Ch-----HHHHHHHHHHHHHhCCCCCCEEEEECCC-cc----cHHHH
Confidence 6667778999985432 11 12 36677764 4454 2567666432 12 26777
Q ss_pred HHHHHhcCCCeEEEE
Q 008863 189 LAEALQNVSSSEIQS 203 (550)
Q Consensus 189 l~~~l~~~g~~~v~~ 203 (550)
+...+...| ..+..
T Consensus 172 l~~~~~~~g-~~v~~ 185 (331)
T PRK02102 172 LMVGGAKLG-MDVRI 185 (331)
T ss_pred HHHHHHHcC-CEEEE
Confidence 777888888 76654
No 370
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=39.54 E-value=1.3e+02 Score=29.40 Aligned_cols=40 Identities=10% Similarity=0.144 Sum_probs=26.5
Q ss_pred cEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecC
Q 008863 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDH 78 (550)
Q Consensus 34 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~ 78 (550)
.++.+...|.+ .....++....+.++... |=+|++.++.+
T Consensus 29 ~l~~~~~~~~~----~p~~~~~~~fa~~v~ekt-~G~l~i~vfP~ 68 (332)
T COG1638 29 VLRFSHVTPEG----HPKGKAAKKFAELVEEKT-GGRLKIEVFPN 68 (332)
T ss_pred EEeecccCCCC----CcHHHHHHHHHHHHHHHh-CCeEEEEECCC
Confidence 56666666544 466788888888888775 33566666644
No 371
>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=39.54 E-value=1.3e+02 Score=27.52 Aligned_cols=78 Identities=9% Similarity=-0.005 Sum_probs=47.4
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
++++..+ +.|. ....+.+.+.+++.| ..+..... .. +.......++.+...+.|.||+..+... ...
T Consensus 2 igvv~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~-~~------~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~ 70 (266)
T cd06282 2 VGVVLPSLANPVF--AECVQGIQEEARAAG-YSLLLATT-DY------DAEREADAVETLLRQRVDGLILTVADAA-TSP 70 (266)
T ss_pred eEEEeCCCCcchH--HHHHHHHHHHHHHCC-CEEEEeeC-CC------CHHHHHHHHHHHHhcCCCEEEEecCCCC-chH
Confidence 4556543 3455 677788888888888 77665321 11 2234456677777778888887233332 234
Q ss_pred HHHHHHHcCCC
Q 008863 248 LFTEANRMGLV 258 (550)
Q Consensus 248 il~~a~~~g~~ 258 (550)
++..+.+.|+.
T Consensus 71 ~~~~~~~~~ip 81 (266)
T cd06282 71 ALDLLDAERVP 81 (266)
T ss_pred HHHHHhhCCCC
Confidence 67777777753
No 372
>TIGR00212 hemC porphobilinogen deaminase. Biosynthesis of cofactors, prosthetic groups, and carriers: Heme and porphyrin
Probab=39.42 E-value=49 Score=31.29 Aligned_cols=22 Identities=18% Similarity=0.329 Sum_probs=17.8
Q ss_pred CChH-HHHHhhhcccccEEeece
Q 008863 515 GVYD-DLINGVYDKVNYFNYHDK 536 (550)
Q Consensus 515 g~w~-Gmi~el~~~~ad~a~~~~ 536 (550)
|-|. .+=..|++|++|+||.++
T Consensus 55 GlFtkele~aLl~g~iDiAVHSl 77 (292)
T TIGR00212 55 GLFTKELEQALLDGEIDLAVHSL 77 (292)
T ss_pred eeeHHHHHHHHhcCCCCEEEecc
Confidence 3455 556889999999999987
No 373
>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=39.16 E-value=1.7e+02 Score=26.88 Aligned_cols=76 Identities=13% Similarity=0.088 Sum_probs=47.3
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
|+++..+ ++|. ..+.+.+.+.+++.| ..+..... .. +.......++.+.+.+.|.||+ ...... ..
T Consensus 2 igvv~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~---~~----~~~~~~~~~~~l~~~~vdgiIi-~~~~~~-~~ 69 (265)
T cd06299 2 IGVIVPDIRNPYF--ASLATAIQDAASAAG-YSTIIGNS---DE----NPETENRYLDNLLSQRVDGIIV-VPHEQS-AE 69 (265)
T ss_pred EEEEecCCCCccH--HHHHHHHHHHHHHcC-CEEEEEeC---CC----CHHHHHHHHHHHHhcCCCEEEE-cCCCCC-hH
Confidence 5666653 3455 677788888888888 77654321 11 2234456777777788888888 543222 23
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
.++++.+.|.
T Consensus 70 ~~~~l~~~~i 79 (265)
T cd06299 70 QLEDLLKRGI 79 (265)
T ss_pred HHHHHHhCCC
Confidence 4677777665
No 374
>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=39.00 E-value=2.1e+02 Score=28.00 Aligned_cols=71 Identities=11% Similarity=0.198 Sum_probs=47.2
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
.+.+.++++.++ +++.+|++...+ ....+.+.+.+++.+ +.+. .+.... ..+.....+..+++.++|.
T Consensus 12 l~~l~~~~~~~~-~~~liv~d~~~~---~~~~~~l~~~L~~~~-~~~~---~~~~~p----~~~~v~~~~~~~~~~~~D~ 79 (347)
T cd08172 12 LDELGELLKRFG-KRPLIVTGPRSW---AAAKPYLPESLAAGE-AFVL---RYDGEC----SEENIERLAAQAKENGADV 79 (347)
T ss_pred HHHHHHHHHHhC-CeEEEEECHHHH---HHHHHHHHHHHhcCe-EEEE---EeCCCC----CHHHHHHHHHHHHhcCCCE
Confidence 345667777774 889888876553 446677777775555 4432 122112 4567888888888889998
Q ss_pred EEE
Q 008863 235 FIV 237 (550)
Q Consensus 235 ii~ 237 (550)
||-
T Consensus 80 iIa 82 (347)
T cd08172 80 IIG 82 (347)
T ss_pred EEE
Confidence 886
No 375
>PRK00072 hemC porphobilinogen deaminase; Reviewed
Probab=38.82 E-value=51 Score=31.22 Aligned_cols=22 Identities=14% Similarity=0.243 Sum_probs=18.0
Q ss_pred CChH-HHHHhhhcccccEEeece
Q 008863 515 GVYD-DLINGVYDKVNYFNYHDK 536 (550)
Q Consensus 515 g~w~-Gmi~el~~~~ad~a~~~~ 536 (550)
|-|. .+=.+|++|++|+||.++
T Consensus 59 G~Ftkele~aLl~g~iDiAVHSl 81 (295)
T PRK00072 59 GLFVKELEEALLEGEIDIAVHSL 81 (295)
T ss_pred ceeHHHHHHHHHcCCCCEEEecc
Confidence 4566 455889999999999987
No 376
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=38.80 E-value=1.9e+02 Score=27.67 Aligned_cols=81 Identities=15% Similarity=0.107 Sum_probs=48.6
Q ss_pred CCeEEEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHH
Q 008863 166 NWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (550)
Q Consensus 166 ~w~~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~ 243 (550)
+-+.|+++..+ +.|. ..+.+.+.+.+.+.| ..+..... .. +.......++.+.+.+.+.||+ .....
T Consensus 60 ~~~~Igvv~~~~~~~~~--~~l~~gi~~~~~~~g-~~~~~~~~--~~-----~~~~~~~~~~~l~~~~vdgiIi-~~~~~ 128 (328)
T PRK11303 60 RTRSIGLIIPDLENTSY--ARIAKYLERQARQRG-YQLLIACS--DD-----QPDNEMRCAEHLLQRQVDALIV-STSLP 128 (328)
T ss_pred CCceEEEEeCCCCCchH--HHHHHHHHHHHHHcC-CEEEEEeC--CC-----CHHHHHHHHHHHHHcCCCEEEE-cCCCC
Confidence 34578888764 3455 667788888888888 77754321 11 1223345666777778898888 53321
Q ss_pred HHHHHHHHHHHcCC
Q 008863 244 MTIHLFTEANRMGL 257 (550)
Q Consensus 244 ~~~~il~~a~~~g~ 257 (550)
.....+..+.+.++
T Consensus 129 ~~~~~~~~l~~~~i 142 (328)
T PRK11303 129 PEHPFYQRLQNDGL 142 (328)
T ss_pred CChHHHHHHHhcCC
Confidence 12344566666654
No 377
>PRK10481 hypothetical protein; Provisional
Probab=38.74 E-value=1.9e+02 Score=26.25 Aligned_cols=82 Identities=12% Similarity=0.031 Sum_probs=0.0
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (550)
+||++.|.. .+..+..+.+.+. |+.+.+........+...+..+.+-+..+++.+|+-.-....+.....
T Consensus 131 riGVitP~~----~qi~~~~~kw~~~------G~~v~~~~aspy~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~~~~~~ 200 (224)
T PRK10481 131 QVGVIVPVE----EQLAQQAQKWQVL------QKPPVFALASPYHGSEEELIDAGKELLDQGADVIVLDCLGYHQRHRDL 200 (224)
T ss_pred eEEEEEeCH----HHHHHHHHHHHhc------CCceeEeecCCCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcCHHHHHH
Q ss_pred hhccCCccEEec
Q 008863 116 IASRVQVPILSF 127 (550)
Q Consensus 116 ~~~~~~iP~is~ 127 (550)
+-...++|+|.+
T Consensus 201 le~~lg~PVI~~ 212 (224)
T PRK10481 201 LQKALDVPVLLS 212 (224)
T ss_pred HHHHHCcCEEcH
No 378
>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=38.61 E-value=1.2e+02 Score=28.08 Aligned_cols=78 Identities=12% Similarity=0.097 Sum_probs=45.5
Q ss_pred EEEEEEc-CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHH
Q 008863 170 VAAIYED-NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHL 248 (550)
Q Consensus 170 v~ii~~~-~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~i 248 (550)
|++|... ++|. ..+...+.+.+.+.| ..+.... .... +.......++.+.+.+.|.+|+...........
T Consensus 2 i~~v~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~--~~~~----~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~ 72 (271)
T cd06314 2 IAVVTNGASPFW--KIAEAGVKAAGKELG-VDVEFVV--PQQG----TVNAQLRMLEDLIAEGVDGIAISPIDPKAVIPA 72 (271)
T ss_pred eEEEcCCCcHHH--HHHHHHHHHHHHHcC-CeEEEeC--CCCC----CHHHHHHHHHHHHhcCCCEEEEecCChhHhHHH
Confidence 4555532 3455 677788888888888 7765431 1110 223345667777777888888823333334566
Q ss_pred HHHHHHcCC
Q 008863 249 FTEANRMGL 257 (550)
Q Consensus 249 l~~a~~~g~ 257 (550)
++.+.+ +.
T Consensus 73 l~~~~~-~i 80 (271)
T cd06314 73 LNKAAA-GI 80 (271)
T ss_pred HHHHhc-CC
Confidence 666655 54
No 379
>COG2082 CobH Precorrin isomerase [Coenzyme metabolism]
Probab=38.60 E-value=55 Score=29.11 Aligned_cols=72 Identities=15% Similarity=0.191 Sum_probs=46.6
Q ss_pred hHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhc--CCeEEEEc-CCChHHHHHHHHhhccCCccEEe
Q 008863 50 QAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK--EKVKVIAG-METWEETAVVAEIASRVQVPILS 126 (550)
Q Consensus 50 ~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~--~~v~aiiG-~~~s~~~~~v~~~~~~~~iP~is 126 (550)
....+++.+.++.... .+ ++. +|..+|+-.+|+++.+ .+..+|+| |..-..+.....-+....||+|+
T Consensus 114 rsaa~~~~~~~~~~~~----~i--vvI---GNAPTAL~~l~elie~~~~~palvIg~PVGFv~AaesKe~L~~~~iP~it 184 (210)
T COG2082 114 RSAAGMRLAAERGEGG----AI--VVI---GNAPTALFELLELIEEGGIKPALVIGVPVGFVGAAESKEALRESPIPYIT 184 (210)
T ss_pred HHHHHHHHHHHhcCCc----eE--EEE---eCCHHHHHHHHHHHHccCCCCcEEEEcCCcccchHHHHHHHHhCCCCeEE
Confidence 4456666776665321 22 222 4667899999999975 34777887 65555555556666677799998
Q ss_pred ccCC
Q 008863 127 FAAP 130 (550)
Q Consensus 127 ~~~~ 130 (550)
.-.+
T Consensus 185 v~G~ 188 (210)
T COG2082 185 VRGR 188 (210)
T ss_pred EecC
Confidence 6554
No 380
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=37.96 E-value=1.9e+02 Score=27.26 Aligned_cols=81 Identities=6% Similarity=0.032 Sum_probs=50.4
Q ss_pred CeEEEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHH
Q 008863 167 WRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM 244 (550)
Q Consensus 167 w~~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~ 244 (550)
-+.++++..+ +.|. ......+.+.+++.| +.+..... .. +.......++++...+.+.+++.....+.
T Consensus 26 ~~~I~vi~~~~~~~f~--~~~~~~i~~~~~~~G-~~~~~~~~-~~------d~~~~~~~~~~l~~~~~dgiii~~~~~~~ 95 (295)
T PRK10653 26 KDTIALVVSTLNNPFF--VSLKDGAQKEADKLG-YNLVVLDS-QN------NPAKELANVQDLTVRGTKILLINPTDSDA 95 (295)
T ss_pred CCeEEEEecCCCChHH--HHHHHHHHHHHHHcC-CeEEEecC-CC------CHHHHHHHHHHHHHcCCCEEEEcCCChHH
Confidence 4577887764 2455 677888888999999 77754321 11 22344566677777788877772333333
Q ss_pred HHHHHHHHHHcCC
Q 008863 245 TIHLFTEANRMGL 257 (550)
Q Consensus 245 ~~~il~~a~~~g~ 257 (550)
....+..+.+.|+
T Consensus 96 ~~~~l~~~~~~~i 108 (295)
T PRK10653 96 VGNAVKMANQANI 108 (295)
T ss_pred HHHHHHHHHHCCC
Confidence 3456777777665
No 381
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=37.86 E-value=4.2e+02 Score=26.35 Aligned_cols=106 Identities=14% Similarity=0.113 Sum_probs=61.5
Q ss_pred HHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCC
Q 008863 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQ 231 (550)
Q Consensus 152 ~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~ 231 (550)
.....+..++.+...-++|.++|+.. ||.-...++.+.+.+.+.| +.+.... +. ..+...+++.+.+
T Consensus 231 ~~i~~~Y~~W~~~~~~~~V~l~Y~sm-yg~T~~ma~aiaegl~~~g-v~v~~~~-~~--------~~~~~eI~~~i~~-- 297 (388)
T COG0426 231 KEIVEAYRDWAEGQPKGKVDLIYDSM-YGNTEKMAQAIAEGLMKEG-VDVEVIN-LE--------DADPSEIVEEILD-- 297 (388)
T ss_pred HHHHHHHHHHHccCCcceEEEEEecc-cCCHHHHHHHHHHHhhhcC-CceEEEE-cc--------cCCHHHHHHHHhh--
Confidence 34566666666665445899998743 3323777888888888888 7765432 21 1355566666654
Q ss_pred CeEEEEEcCCH------HHHHHHHHHHHHcCCCCCCEEEEEeccch
Q 008863 232 SRVFIVLQASL------DMTIHLFTEANRMGLVGKDSVWIVTNTVA 271 (550)
Q Consensus 232 ~~~ii~~~~~~------~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 271 (550)
++.+++ .++. .....++.....+....+.-.-+.+-+|.
T Consensus 298 a~~~vv-GsPT~~~~~~p~i~~~l~~v~~~~~~~k~~~vfgS~GW~ 342 (388)
T COG0426 298 AKGLVV-GSPTINGGAHPPIQTALGYVLALAPKNKLAGVFGSYGWS 342 (388)
T ss_pred cceEEE-ecCcccCCCCchHHHHHHHHHhccCcCceEEEEeccCCC
Confidence 445666 4432 23455555555555544433344555555
No 382
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=37.63 E-value=2.5e+02 Score=27.18 Aligned_cols=79 Identities=8% Similarity=0.167 Sum_probs=53.5
Q ss_pred eEEEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCH-HH
Q 008863 168 RRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL-DM 244 (550)
Q Consensus 168 ~~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~-~~ 244 (550)
.+|+++..+ +.|. ....+.+.+.+.+.| ..+.... ... +.....+.++.+.+.+.|.||+ .... ..
T Consensus 26 ~~Ig~i~~~~~~~f~--~~~~~gi~~~a~~~g-~~l~i~~---~~~----~~~~~~~~i~~l~~~~vDGiIi-~~~~~~~ 94 (330)
T PRK10355 26 VKIGMAIDDLRLERW--QKDRDIFVKKAESLG-AKVFVQS---ANG----NEETQMSQIENMINRGVDVLVI-IPYNGQV 94 (330)
T ss_pred ceEEEEecCCCchHH--HHHHHHHHHHHHHcC-CEEEEEC---CCC----CHHHHHHHHHHHHHcCCCEEEE-eCCChhh
Confidence 567777754 3577 888889999999999 8776532 111 2345567788888889999998 5432 33
Q ss_pred HHHHHHHHHHcCC
Q 008863 245 TIHLFTEANRMGL 257 (550)
Q Consensus 245 ~~~il~~a~~~g~ 257 (550)
....+..+.+.+.
T Consensus 95 ~~~~l~~~~~~~i 107 (330)
T PRK10355 95 LSNVIKEAKQEGI 107 (330)
T ss_pred HHHHHHHHHHCCC
Confidence 3456677777664
No 383
>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=37.52 E-value=1.6e+02 Score=27.28 Aligned_cols=78 Identities=12% Similarity=0.042 Sum_probs=46.7
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
+++|..+ +.|. ....+.+.+.+++.| ..+.... ... +.......++++...+.+.||+.....+....
T Consensus 2 i~vi~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~---~~~----~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~ 71 (277)
T cd06319 2 IAYIVSDLRIPFW--QIMGRGVKSKAKALG-YDAVELS---AEN----SAKKELENLRTAIDKGVSGIIISPTNSSAAVT 71 (277)
T ss_pred eEEEeCCCCchHH--HHHHHHHHHHHHhcC-CeEEEec---CCC----CHHHHHHHHHHHHhcCCCEEEEcCCchhhhHH
Confidence 5566553 3455 667788888888888 7765321 111 22334456667767789988872333333445
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
.+..+.+.+.
T Consensus 72 ~l~~~~~~~i 81 (277)
T cd06319 72 LLKLAAQAKI 81 (277)
T ss_pred HHHHHHHCCC
Confidence 6777777664
No 384
>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=37.46 E-value=1.5e+02 Score=27.38 Aligned_cols=78 Identities=12% Similarity=0.098 Sum_probs=44.8
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
++++..+ +.|. ..+.+.+.+.+++.| ..+..... ... ........++.+...+.+.||+ .........
T Consensus 2 I~vi~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~-~~~-----~~~~~~~~~~~l~~~~vdgiii-~~~~~~~~~ 71 (270)
T cd01545 2 IGLLYDNPSPGYV--SEIQLGALDACRDTG-YQLVIEPC-DSG-----SPDLAERVRALLQRSRVDGVIL-TPPLSDNPE 71 (270)
T ss_pred EEEEEcCCCcccH--HHHHHHHHHHHHhCC-CeEEEEeC-CCC-----chHHHHHHHHHHHHCCCCEEEE-eCCCCCccH
Confidence 4566654 3466 777888888888888 77654321 111 1123344555566667888877 432222245
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
.+..+.+.++
T Consensus 72 ~~~~~~~~~i 81 (270)
T cd01545 72 LLDLLDEAGV 81 (270)
T ss_pred HHHHHHhcCC
Confidence 5666666654
No 385
>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=37.30 E-value=26 Score=31.29 Aligned_cols=34 Identities=26% Similarity=0.371 Sum_probs=25.7
Q ss_pred CeEEEEcCCChHHHHHHHHhhccCCccEEeccCC
Q 008863 97 KVKVIAGMETWEETAVVAEIASRVQVPILSFAAP 130 (550)
Q Consensus 97 ~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~ 130 (550)
++.+|+||.+++-+.....++..++.|+|+....
T Consensus 2 ~v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~Dri 35 (233)
T PF01745_consen 2 KVYLIVGPTGTGKTALAIALAQKTGAPVISLDRI 35 (233)
T ss_dssp EEEEEE-STTSSHHHHHHHHHHHH--EEEEE-SG
T ss_pred cEEEEECCCCCChhHHHHHHHHHhCCCEEEecce
Confidence 5789999999998888888999999999986543
No 386
>PRK09810 entericidin A; Provisional
Probab=37.22 E-value=35 Score=21.31 Aligned_cols=20 Identities=25% Similarity=0.446 Sum_probs=9.6
Q ss_pred CcchhHHHHHHHHHHHHhccc
Q 008863 1 MNRFFFLVLIIASELVFVSPG 21 (550)
Q Consensus 1 M~r~~~~~~~~~~~~~~~~~~ 21 (550)
|||. +++++++++++.+|..
T Consensus 2 Mkk~-~~l~~~~~~~L~aCNT 21 (41)
T PRK09810 2 MKRL-IVLVLLASTLLTGCNT 21 (41)
T ss_pred hHHH-HHHHHHHHHHHhhhhh
Confidence 4444 3333444445566654
No 387
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=36.95 E-value=2e+02 Score=27.87 Aligned_cols=80 Identities=14% Similarity=0.065 Sum_probs=49.9
Q ss_pred CeEEEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHH
Q 008863 167 WRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDM 244 (550)
Q Consensus 167 w~~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~ 244 (550)
-+.++++..+ +.|. ....+.+.+.+.+.| ..+.... ... +.......++.+.+.+.+.||+ ......
T Consensus 64 ~~~Igvv~~~~~~~~~--~~i~~gi~~~a~~~g-~~~~~~~-~~~------~~~~~~~~~~~l~~~~vdgiIi-~~~~~~ 132 (342)
T PRK10014 64 SGVIGLIVRDLSAPFY--AELTAGLTEALEAQG-RMVFLLQ-GGK------DGEQLAQRFSTLLNQGVDGVVI-AGAAGS 132 (342)
T ss_pred CCEEEEEeCCCccchH--HHHHHHHHHHHHHcC-CEEEEEe-CCC------CHHHHHHHHHHHHhCCCCEEEE-eCCCCC
Confidence 3567888764 3455 667778888888888 7654321 111 2234456677777778898888 543322
Q ss_pred HHHHHHHHHHcCC
Q 008863 245 TIHLFTEANRMGL 257 (550)
Q Consensus 245 ~~~il~~a~~~g~ 257 (550)
....+..+.+.++
T Consensus 133 ~~~~~~~l~~~~i 145 (342)
T PRK10014 133 SDDLREMAEEKGI 145 (342)
T ss_pred cHHHHHHHhhcCC
Confidence 3456666666664
No 388
>PF02402 Lysis_col: Lysis protein; InterPro: IPR003059 The DNA sequence of the entire colicin E2 operon has been determined []. The operon comprises the colicin activity gene (ceaB), the colicin immunity gene (ceiB) and the lysis gene (celB), which is essential for colicin release from producing cells []. A putative LexA binding site is located upstream from ceaB, and a rho-independent terminator structure is located downstream from celB []. Comparison of the amino acid sequences of colicin E2 and cloacin DF13 reveal extensive similarity. These colicins have different modes of action and recognise different cell surface receptors; the two major regions of heterology at the C terminus, and in the C-terminal end of the central region are thought to correspond to the catalytic and receptor-recognition domains, respectively []. Sequence similarities between colicins E2, A and E1 [] are less striking. The colicin E2 (pyocin) immunity protein does not share similarity with either the colicin E3 or cloacin DF13 [] immunity proteins. By contrast, the lysis proteins of the ColE2, ColE1 and CloDF13 plasmids are almost identical except in the N-terminal regions, which themselves are similar to lipoprotein signal peptides []. Processing of the ColE2 prolysis protein to the mature form is prevented by globomycin, a specific inhibitor of the lipoprotein signal peptidase []. The mature ColE2 lysis protein is located in the cell envelope [].; GO: 0009405 pathogenesis, 0019835 cytolysis, 0019867 outer membrane
Probab=36.81 E-value=19 Score=22.60 Aligned_cols=21 Identities=14% Similarity=0.401 Sum_probs=13.1
Q ss_pred CcchhHHHHHHHHHHHHhccc
Q 008863 1 MNRFFFLVLIIASELVFVSPG 21 (550)
Q Consensus 1 M~r~~~~~~~~~~~~~~~~~~ 21 (550)
||+..+...+++.+++++|..
T Consensus 1 MkKi~~~~i~~~~~~L~aCQa 21 (46)
T PF02402_consen 1 MKKIIFIGIFLLTMLLAACQA 21 (46)
T ss_pred CcEEEEeHHHHHHHHHHHhhh
Confidence 787765555555566666644
No 389
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=36.75 E-value=1.8e+02 Score=27.55 Aligned_cols=87 Identities=17% Similarity=0.167 Sum_probs=49.7
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHH-HHHHHhhhcCCeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAA-TAAQELINKEKVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~-~~~~~li~~~~v~aiiG~~~s~~~~~v~ 114 (550)
+++++.--+- .......+.-++...+ + .++..++|+-|+.-.-- +++.+|..+-.+..|+|+..|+.+..+.
T Consensus 156 kv~vvsQTT~--~~~~~~~i~~~l~~~~---~--~~~~~~~nTIC~aT~~RQ~a~~~La~~vD~miVIGg~~SsNT~kL~ 228 (281)
T PF02401_consen 156 KVAVVSQTTQ--SVEKFEEIVEALKKRF---P--ELEGPVFNTICYATQNRQEAARELAKEVDAMIVIGGKNSSNTRKLA 228 (281)
T ss_dssp CEEEEE-TTS---HHHHHHHHHHHHHHS---T--CEE-SCC-S--CHHHHHHHHHHHHHCCSSEEEEES-TT-HHHHHHH
T ss_pred eEEEEEeecc--cHHHHHHHHHHHHHhC---c--cccCCCCCCCCHhHHHHHHHHHHHHhhCCEEEEecCCCCccHHHHH
Confidence 5666665441 1233334444444332 2 23334678877765444 4555666666788899999999999999
Q ss_pred HhhccCCccEEeccC
Q 008863 115 EIASRVQVPILSFAA 129 (550)
Q Consensus 115 ~~~~~~~iP~is~~~ 129 (550)
.+|...+.|.+-...
T Consensus 229 eia~~~~~~t~~Ie~ 243 (281)
T PF02401_consen 229 EIAKEHGKPTYHIET 243 (281)
T ss_dssp HHHHHCTTCEEEESS
T ss_pred HHHHHhCCCEEEeCC
Confidence 999999887665443
No 390
>cd01569 PBEF_like pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general, nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction in the NAD salvage synthesis.
Probab=36.53 E-value=4.6e+02 Score=26.35 Aligned_cols=146 Identities=11% Similarity=0.144 Sum_probs=72.8
Q ss_pred cCCChHHHHHHHHh-hccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCC-
Q 008863 103 GMETWEETAVVAEI-ASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYG- 180 (550)
Q Consensus 103 G~~~s~~~~~v~~~-~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g- 180 (550)
|...++...++.-. ...+++|++..+-. .... .+ ....+ .....+|...+++.|.-..+++|.|..++.
T Consensus 197 ~F~gTdtv~A~~~~~~~~yg~~~~G~sIP----a~eH---S~-i~s~~-~~~E~~AF~~~~~~fp~~~~~lv~DTYD~~~ 267 (407)
T cd01569 197 NFKGTDTIPALDAAYAYYYEDPMAGFSIP----AAEH---ST-MTAWG-RERELEAFRNLLEQFGPGIVSVVSDSYDFWN 267 (407)
T ss_pred CCccchhhhhhhHHHHHhcCCCccccccc----HHHh---HH-HHhCC-CccHHHHHHHHHHHcCCCcEEEEecCccHHH
Confidence 33444444443322 57788887765432 1110 11 11111 134668899999998766777888877743
Q ss_pred CcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChH---HHHHHHHHh-----hcCC-----CeEEEE--EcCCHHHH
Q 008863 181 GDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKE---AVRGELKKV-----QDKQ-----SRVFIV--LQASLDMT 245 (550)
Q Consensus 181 ~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~---d~~~~l~~i-----~~~~-----~~~ii~--~~~~~~~~ 245 (550)
+.......+++.+...| .++ .++...+. ... ..+..|.+. .+.+ +++-|+ ...+...+
T Consensus 268 ~~~~~~~~lk~~i~~~g-~~l--viRpDSGD----~~~l~~~~~~~L~~~FG~~~n~kGykvl~~~v~Ii~gd~ide~~i 340 (407)
T cd01569 268 ALTLWGPRLKDEILARG-GTL--VIRPDSGD----PVDIICGVLEILGEIFGGTVNSKGYKVLNPHVRIIQGDGITLERI 340 (407)
T ss_pred HHHHHHHHHHHHHHhcC-CcE--EEECCCCC----HHHHHHHHHHHHHHHhCCcccCCcccccCCceEEEEcCCCCHHHH
Confidence 01122334555444445 555 23333332 111 122333332 0012 344444 22344677
Q ss_pred HHHHHHHHHcCCCCCCEEE
Q 008863 246 IHLFTEANRMGLVGKDSVW 264 (550)
Q Consensus 246 ~~il~~a~~~g~~~~~~~~ 264 (550)
..|+..+.+.|....+-.|
T Consensus 341 ~~Il~~L~~~G~~~dNi~f 359 (407)
T cd01569 341 EEILERLKAKGFASENIVF 359 (407)
T ss_pred HHHHHHHHHCCCccccceE
Confidence 7788889999987654344
No 391
>PRK02255 putrescine carbamoyltransferase; Provisional
Probab=36.44 E-value=4.2e+02 Score=25.90 Aligned_cols=131 Identities=13% Similarity=0.171 Sum_probs=76.7
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE--cCCChHHHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA--GMETWEETAV 112 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii--G~~~s~~~~~ 112 (550)
-.|+.+|...+ .+....|+.|+.++ +|..+.+...++.-.-.+.+..+...++. -+.+|+ .+.. . .
T Consensus 43 k~v~~lF~epS---TRTR~SFe~A~~~L----Gg~~i~l~~~~ss~~kgEsl~Dtarvls~-y~D~iviR~~~~-~---~ 110 (338)
T PRK02255 43 KTLGMIFEQSS---TRTRVSFETAMTQL----GGHAQYLAPGQIQLGGHESLEDTARVLSR-LVDIIMARVDRH-Q---T 110 (338)
T ss_pred CEEEEEeCCCC---cchHHHHHHHHHHc----CCeEEEeCcccccCCCCcCHHHHHHHHHH-hCcEEEEecCCh-H---H
Confidence 44777776653 57888999999998 56666665444333333455555555553 244443 2221 2 2
Q ss_pred HHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcC----Ce--EEEEEEEcCCCCCcc
Q 008863 113 VAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN----WR--RVAAIYEDNVYGGDS 183 (550)
Q Consensus 113 v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~----w~--~v~ii~~~~~~g~~~ 183 (550)
+..++...++|+|..... .. +| .++++|++ +++| ++ +|+++.+. .
T Consensus 111 ~~~~a~~~~vPVINa~~~--------~~-------HP-----tQaLaDl~Ti~e~~g~g~~l~glkv~~vGD~------~ 164 (338)
T PRK02255 111 VVELAKYATVPVINGMSD--------YN-------HP-----TQELGDLFTMIEHLPEGKKLEDCKVVFVGDA------T 164 (338)
T ss_pred HHHHHHhCCCCEEECCCC--------CC-------Ch-----HHHHHHHHHHHHHhCCCCCCCCCEEEEECCC------c
Confidence 445666788999994322 11 22 36677764 4563 33 67777642 2
Q ss_pred hhHHHHHHHHhcCCCeEEEEE
Q 008863 184 GKLALLAEALQNVSSSEIQSR 204 (550)
Q Consensus 184 ~~~~~l~~~l~~~g~~~v~~~ 204 (550)
.....+...+...| .++...
T Consensus 165 ~v~~Sl~~~~~~~g-~~v~~~ 184 (338)
T PRK02255 165 QVCVSLMFIATKMG-MDFVHF 184 (338)
T ss_pred hHHHHHHHHHHhCC-CEEEEE
Confidence 36777777888888 776553
No 392
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=36.42 E-value=2.3e+02 Score=26.22 Aligned_cols=100 Identities=12% Similarity=0.088 Sum_probs=54.5
Q ss_pred HHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEe--ecCCCCCCCCChHHHHHHHHHhhc
Q 008863 152 SEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRL--VLPPISSISDPKEAVRGELKKVQD 229 (550)
Q Consensus 152 ~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~--~~~~~~~~~~~~~d~~~~l~~i~~ 229 (550)
.+...++.+....- -++|.++...-+-. ....+.+++.... ..|+... .+. ..++ ..++++|.+
T Consensus 94 ~Dl~~~Ll~~a~~~-~~~vfllGgkp~V~--~~a~~~l~~~~p~---l~ivg~h~GYf~-------~~e~-~~i~~~I~~ 159 (253)
T COG1922 94 TDLVEALLKRAAEE-GKRVFLLGGKPGVA--EQAAAKLRAKYPG---LKIVGSHDGYFD-------PEEE-EAIVERIAA 159 (253)
T ss_pred HHHHHHHHHHhCcc-CceEEEecCCHHHH--HHHHHHHHHHCCC---ceEEEecCCCCC-------hhhH-HHHHHHHHh
Confidence 34556666665444 35666666543322 3333344443332 3444332 122 2233 588999999
Q ss_pred CCCeEEEEEcCCHHHHHHHHHHHHHcCCCCCCEEEEEecc
Q 008863 230 KQSRVFIVLQASLDMTIHLFTEANRMGLVGKDSVWIVTNT 269 (550)
Q Consensus 230 ~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (550)
+++|++++ ......-..++.+-++.--.. +++..++
T Consensus 160 s~pdil~V-gmG~P~QE~wi~~~~~~~~~~---v~igVGg 195 (253)
T COG1922 160 SGPDILLV-GMGVPRQEIWIARNRQQLPVA---VAIGVGG 195 (253)
T ss_pred cCCCEEEE-eCCCchhHHHHHHhHHhcCCc---eEEeccc
Confidence 99999999 666666555555554432222 5665443
No 393
>PRK13814 pyrB aspartate carbamoyltransferase catalytic subunit; Provisional
Probab=35.85 E-value=4.1e+02 Score=25.60 Aligned_cols=135 Identities=13% Similarity=0.108 Sum_probs=72.2
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEE-cCCChHHHHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIA-GMETWEETAVV 113 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aii-G~~~s~~~~~v 113 (550)
-.|+.+|-..+ .+....|+.|+.++ ||..+.+...++.-.-.+.++.+.+.++.-++.+|+ =...... +
T Consensus 46 k~v~~lF~epS---TRTR~SFe~A~~~L----Gg~~~~~~~~~s~~~kgEsl~Dtarvls~y~~D~iv~R~~~~~~---~ 115 (310)
T PRK13814 46 HVVANLFFEPS---TRTRNSFEIAAKRL----GAMVLNPNLKISAISKGETLFDTIKTLEAMGVYFFIVRHSENET---P 115 (310)
T ss_pred CEEEEEEecCc---chhHHHHHHHHHHh----CCeEEECCCccccCCCCCCHHHHHHHHHHhCCCEEEEeCCchhH---H
Confidence 34777776553 58889999999998 554444422222222234445555555543333443 1222222 3
Q ss_pred HHhhcc-CCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcC-C--eEEEEEEEcCCCCCcchhH
Q 008863 114 AEIASR-VQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN-W--RRVAAIYEDNVYGGDSGKL 186 (550)
Q Consensus 114 ~~~~~~-~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~-w--~~v~ii~~~~~~g~~~~~~ 186 (550)
..++.. ..+|+|..+-+ + .. +| .++++|++ +++| + .+++++.+- .+ ...+
T Consensus 116 ~~~a~~~~~vPvINag~g--~-----~~-------HP-----tQaLaDl~Ti~e~~g~l~g~~va~vGD~-~~---~rv~ 172 (310)
T PRK13814 116 EQIAKQLSSGVVINAGDG--N-----HQ-------HP-----SQALIDLMTIKQHKPHWNKLCVTIIGDI-RH---SRVA 172 (310)
T ss_pred HHHHHhCCCCCeEECCcC--C-----CC-------Cc-----hHHHHHHHHHHHHhCCcCCcEEEEECCC-CC---CcHH
Confidence 333444 36999986544 1 11 22 36777765 3454 2 466666532 22 2456
Q ss_pred HHHHHHHhcCCCe-EEEE
Q 008863 187 ALLAEALQNVSSS-EIQS 203 (550)
Q Consensus 187 ~~l~~~l~~~g~~-~v~~ 203 (550)
..+...+...| . .+..
T Consensus 173 ~Sl~~~~a~~g-~~~v~~ 189 (310)
T PRK13814 173 NSLMDGLVTMG-VPEIRL 189 (310)
T ss_pred HHHHHHHHHcC-CCEEEE
Confidence 77777788888 6 5543
No 394
>cd08468 PBP2_Pa0477 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold. LysR-type transcriptional regulator Pa0477 is related to DntR, which controls genes encoding enzymes for oxidative degradation of the nitro-aromatic compound 2,4-dinitrotoluene. The transcription of the genes encoding enzymes involved in such degradation is regulated and expression of these enzymes is enhanced by inducers, which are either an intermediate in the metabolic pathway or compounds to be degraded. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their spec
Probab=35.67 E-value=1.1e+02 Score=26.51 Aligned_cols=43 Identities=5% Similarity=-0.100 Sum_probs=31.7
Q ss_pred cchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEee
Q 008863 489 GFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNYH 534 (550)
Q Consensus 489 GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~~ 534 (550)
.+-.+++.++.+.. -+ +++...++..+.++..|.+|++|+|+.
T Consensus 13 ~~l~~~l~~~~~~~-P~--v~i~~~~~~~~~~~~~l~~g~~Dl~i~ 55 (202)
T cd08468 13 AVMPRLMARLEELA-PS--VRLNLVHAEQKLPLDALLAGEIDFALG 55 (202)
T ss_pred HHhHHHHHHHHhhC-CC--CEEEEEECChHhHHHHHHCCCccEEEe
Confidence 34457777777654 23 345445678999999999999999997
No 395
>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=35.62 E-value=1.9e+02 Score=26.74 Aligned_cols=78 Identities=12% Similarity=0.052 Sum_probs=45.4
Q ss_pred CCeEEEEEEEc---------CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEE
Q 008863 166 NWRRVAAIYED---------NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFI 236 (550)
Q Consensus 166 ~w~~v~ii~~~---------~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii 236 (550)
..+.+++|..+ +.|. ....+.+.+.+++.| +.+.... .. . .+.....+.+.+.++|.||
T Consensus 2 ~s~~i~vi~p~~~~~~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~v~~---~~-----~-~~~~~~~~~l~~~~~dgii 69 (275)
T cd06295 2 RTDTIALVVPEPHERDQSFSDPFF--LSLLGGIADALAERG-YDLLLSF---VS-----S-PDRDWLARYLASGRADGVI 69 (275)
T ss_pred CceEEEEEecCccccccccCCchH--HHHHHHHHHHHHHcC-CEEEEEe---CC-----c-hhHHHHHHHHHhCCCCEEE
Confidence 35678888853 2344 566777888888888 7765432 11 1 1223334445556889888
Q ss_pred EEcCCHHHHHHHHHHHHHcCC
Q 008863 237 VLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 237 ~~~~~~~~~~~il~~a~~~g~ 257 (550)
+..+... ...++.+.+.|+
T Consensus 70 i~~~~~~--~~~~~~~~~~~i 88 (275)
T cd06295 70 LIGQHDQ--DPLPERLAETGL 88 (275)
T ss_pred EeCCCCC--hHHHHHHHhCCC
Confidence 7233222 244677777665
No 396
>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=35.27 E-value=1.8e+02 Score=26.64 Aligned_cols=77 Identities=9% Similarity=0.097 Sum_probs=47.4
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCC-HHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS-LDMTI 246 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~-~~~~~ 246 (550)
+++|..+ +.|. ..+.+.+.+.+++.| ..+.... ... +..+....++++.+.+++.|++ ... .....
T Consensus 2 I~vv~~~~~~~~~--~~~~~~i~~~~~~~g-~~v~~~~---~~~----~~~~~~~~~~~~~~~~~dgii~-~~~~~~~~~ 70 (268)
T cd06323 2 IGLSVSTLNNPFF--VTLKDGAQKEAKELG-YELTVLD---AQN----DAAKQLNDIEDLITRGVDAIII-NPTDSDAVV 70 (268)
T ss_pred eeEecccccCHHH--HHHHHHHHHHHHHcC-ceEEecC---CCC----CHHHHHHHHHHHHHcCCCEEEE-cCCChHHHH
Confidence 4555543 3455 677788888888888 7775321 111 2344556777777778898877 432 23334
Q ss_pred HHHHHHHHcCC
Q 008863 247 HLFTEANRMGL 257 (550)
Q Consensus 247 ~il~~a~~~g~ 257 (550)
..+..+.+.+.
T Consensus 71 ~~l~~l~~~~i 81 (268)
T cd06323 71 PAVKAANEAGI 81 (268)
T ss_pred HHHHHHHHCCC
Confidence 56777776654
No 397
>PRK12562 ornithine carbamoyltransferase subunit F; Provisional
Probab=35.07 E-value=4.4e+02 Score=25.72 Aligned_cols=131 Identities=12% Similarity=0.072 Sum_probs=73.1
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcC-CeEEEEcCCChHHHHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKE-KVKVIAGMETWEETAVVA 114 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~-~v~aiiG~~~s~~~~~v~ 114 (550)
+|+.+|...+ .+....|+.|+.++ ++..+.+...++.-.-.+.++.+...++.- .+.++=.+ . ...+.
T Consensus 47 ~l~~lF~epS---TRTR~SFE~A~~~L----Gg~~i~l~~~~s~~~kgEsl~Dtarvls~y~D~iviR~~-~---~~~~~ 115 (334)
T PRK12562 47 NIALIFEKDS---TRTRCSFEVAAYDQ----GARVTYLGPSGSQIGHKESIKDTARVLGRMYDGIQYRGH-G---QEVVE 115 (334)
T ss_pred EEEEEECCCC---chhHHHHHHHHHHc----CCeEEEeCCccccCCCCcCHHHHHHHHHHhCCEEEEECC-c---hHHHH
Confidence 4777776653 58889999999998 555665533333222223344444444421 22222233 2 22455
Q ss_pred HhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcCC-----eEEEEEEEcCCCCCcchhH
Q 008863 115 EIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYNW-----RRVAAIYEDNVYGGDSGKL 186 (550)
Q Consensus 115 ~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~w-----~~v~ii~~~~~~g~~~~~~ 186 (550)
.+++...+|+|..... .. +| .++++|++ +++|+ .+++++.+- .+ ...
T Consensus 116 ~~a~~~~vPVINa~~~--------~~-------HP-----tQaLaDl~Ti~e~~g~~~l~gl~va~vGD~-~~----~v~ 170 (334)
T PRK12562 116 TLAEYAGVPVWNGLTN--------EF-------HP-----TQLLADLLTMQEHLPGKAFNEMTLVYAGDA-RN----NMG 170 (334)
T ss_pred HHHHhCCCCEEECCCC--------CC-------Ch-----HHHHHHHHHHHHHhCCCCcCCcEEEEECCC-CC----CHH
Confidence 5667778999996422 11 12 36777764 45653 355555532 12 256
Q ss_pred HHHHHHHhcCCCeEEEE
Q 008863 187 ALLAEALQNVSSSEIQS 203 (550)
Q Consensus 187 ~~l~~~l~~~g~~~v~~ 203 (550)
..+...+...| ..+..
T Consensus 171 ~S~~~~~~~~G-~~v~~ 186 (334)
T PRK12562 171 NSMLEAAALTG-LDLRL 186 (334)
T ss_pred HHHHHHHHHcC-CEEEE
Confidence 77777778888 76654
No 398
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=35.02 E-value=3.1e+02 Score=25.27 Aligned_cols=92 Identities=13% Similarity=0.117 Sum_probs=62.9
Q ss_pred HHhHHHHHHHHHHcC--CeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhc
Q 008863 152 SEQMKCIADLARKYN--WRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD 229 (550)
Q Consensus 152 ~~~~~al~~~l~~~~--w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~ 229 (550)
...+..++..+..+. -+++.++..+. ....+.+.+...| +.+.....+.... ...+.......++.
T Consensus 106 ~~~~~~l~~~l~~~~~~~~~vl~~~~~~-------~r~~l~~~L~~~G-~~v~~~~~Y~~~~----~~~~~~~~~~~~~~ 173 (248)
T COG1587 106 DGDSEGLLEELPELLKGGKRVLILRGNG-------GREVLEEKLEERG-AEVREVEVYRTEP----PPLDEATLIELLKL 173 (248)
T ss_pred ccchHHHHHHhhhhccCCCeEEEEcCCC-------chHHHHHHHHhCC-CEEEEEeeeeecC----CCccHHHHHHHHHh
Confidence 456777777776653 36777777542 2477888999999 8887766665443 11223344556667
Q ss_pred CCCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 230 KQSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 230 ~~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
.+.++|++ .++..+..++..+...+.
T Consensus 174 ~~~d~v~f--tS~~~v~~~~~~~~~~~~ 199 (248)
T COG1587 174 GEVDAVVF--TSSSAVRALLALAPESGI 199 (248)
T ss_pred CCCCEEEE--eCHHHHHHHHHHccccch
Confidence 78888877 788889999998888764
No 399
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=35.01 E-value=3.1e+02 Score=27.88 Aligned_cols=94 Identities=17% Similarity=0.185 Sum_probs=52.0
Q ss_pred CCCCcEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCC-HHHHHHHHHHhhhc-CCeEEEE---cC
Q 008863 30 NIEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRD-PFQAATAAQELINK-EKVKVIA---GM 104 (550)
Q Consensus 30 ~~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~-~~~a~~~~~~li~~-~~v~aii---G~ 104 (550)
.+.-+-+||+|.+.++ .|++.-+..++...|...+.+...--+++ ....+-.+.+.+.. ..+.+|| |+
T Consensus 125 lP~~p~~i~vits~~~-------aa~~D~~~~~~~r~p~~~~~~~~~~vQG~~a~~~i~~al~~~~~~~~~dviii~RGG 197 (432)
T TIGR00237 125 LPHFPKRVGVITSQTG-------AALADILHILKRRDPSLKVVIYPTLVQGEGAVQSIVESIELANTKNECDVLIVGRGG 197 (432)
T ss_pred CCCCCCEEEEEeCCcc-------HHHHHHHHHHHhhCCCceEEEecccccCccHHHHHHHHHHHhhcCCCCCEEEEecCC
Confidence 3445789999998875 45555567777665555555443333332 22222233333332 2234333 43
Q ss_pred CChH-----HHHHHHHhhccCCccEEeccCC
Q 008863 105 ETWE-----ETAVVAEIASRVQVPILSFAAP 130 (550)
Q Consensus 105 ~~s~-----~~~~v~~~~~~~~iP~is~~~~ 130 (550)
.+-+ ..+.++.......+|+||.-..
T Consensus 198 Gs~eDL~~Fn~e~~~rai~~~~~Pvis~iGH 228 (432)
T TIGR00237 198 GSLEDLWSFNDEKVARAIFLSKIPIISAVGH 228 (432)
T ss_pred CCHHHhhhcCcHHHHHHHHcCCCCEEEecCc
Confidence 3332 3345666667889999997655
No 400
>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=34.95 E-value=2.1e+02 Score=27.01 Aligned_cols=69 Identities=12% Similarity=0.057 Sum_probs=38.4
Q ss_pred chhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 183 ~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
....+.+.+.+++.| ....... .+... +.......++.+.+.+++.||+.....+.....++++.+.|+
T Consensus 14 ~~~~~gi~~~a~~~g-~~~~i~~-~~~~~----d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~gi 82 (302)
T TIGR02637 14 EAANKGAEEAAKELG-SVYIIYT-GPTGT----TAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRGI 82 (302)
T ss_pred HHHHHHHHHHHHHhC-CeeEEEE-CCCCC----CHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCC
Confidence 556667777777777 4322111 11111 223344566777777788777733334445566777777664
No 401
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=34.55 E-value=3.9e+02 Score=26.53 Aligned_cols=99 Identities=16% Similarity=0.136 Sum_probs=59.4
Q ss_pred HHhHHHHHHHHHHc--CCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhc
Q 008863 152 SEQMKCIADLARKY--NWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD 229 (550)
Q Consensus 152 ~~~~~al~~~l~~~--~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~ 229 (550)
...+..+++.+... .-++|.+......-| ......+.+.+.+.| ..+.....+.... ..........+..+.+
T Consensus 125 ~~~~e~L~~~l~~~~~~g~~vli~~~~~~~~--~~~~~~L~~~L~~~G-~~V~~~~vY~~~~--~~~~~~~~~~~~~l~~ 199 (381)
T PRK07239 125 SESSAEVLEYLLEEGVAGKRIAVQLHGATDE--WEPLPEFLEALRAAG-AEVVPVPVYRWVP--PPDPGPLDRLVDAIAS 199 (381)
T ss_pred CCccHHHHHHHhcCCCCCCEEEEEcCCCccc--cCchHHHHHHHHHCC-CEEEEeCcEEEcC--CCChhHHHHHHHHHHc
Confidence 33567777777543 446666654331212 223467888999999 8777655443221 0011223445566666
Q ss_pred CCCeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 230 KQSRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 230 ~~~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
...++|++ .|+..+..|+..+.+.++
T Consensus 200 ~~~d~v~F--tS~stv~~f~~~l~~~~~ 225 (381)
T PRK07239 200 RGLDAVTF--TSAPAVAALLERAREMGL 225 (381)
T ss_pred CCccEEEE--cCHHHHHHHHHHHHHcCC
Confidence 67777776 678888888888876554
No 402
>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=34.48 E-value=1.1e+02 Score=21.93 Aligned_cols=38 Identities=5% Similarity=-0.070 Sum_probs=28.8
Q ss_pred CCcEEEEEEe--cCCCCHHHHHHHHHHhhhcCCeEEEEcC
Q 008863 67 RNHKLSLQIR--DHNRDPFQAATAAQELINKEKVKVIAGM 104 (550)
Q Consensus 67 ~~~~l~~~~~--d~~~~~~~a~~~~~~li~~~~v~aiiG~ 104 (550)
||++|.+.-. -...|+.+|++...+...+.+..||+|-
T Consensus 10 ~G~ei~yl~iv~~~~~d~d~Al~eM~e~A~~lGAnAVVGv 49 (74)
T TIGR03884 10 PGLQLYYLGIVSTESDNVDEIVENLREKVKAKGGMGLIAF 49 (74)
T ss_pred CCeEEEEEEEEEEecCCHHHHHHHHHHHHHHcCCCEEEEE
Confidence 6777654322 3334899999999988888999999995
No 403
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=34.44 E-value=2.1e+02 Score=26.55 Aligned_cols=90 Identities=20% Similarity=0.198 Sum_probs=52.5
Q ss_pred cCcHHhHHHHHHH--HHH---cCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHH
Q 008863 149 SNDSEQMKCIADL--ARK---YNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGE 223 (550)
Q Consensus 149 p~~~~~~~al~~~--l~~---~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~ 223 (550)
|+....++.++++ +.. ..-.++.++..+ .....+.+.|.+.| ..+.....+.... ...+....
T Consensus 107 ~p~~~~se~Ll~~~~l~~~~~~~~~~vLi~rg~-------~~r~~L~~~L~~~G-~~v~~~~vY~~~~----~~~~~~~~ 174 (255)
T PRK05752 107 PEQGDDSEALLALPALRQALAVPDPRVLIMRGE-------GGRELLAERLREQG-ASVDYLELYRRCL----PDYPAGTL 174 (255)
T ss_pred CCCCCCcHHHHhChhhhccccCCCCEEEEEccC-------ccHHHHHHHHHHCC-CEEeEEEEEeecC----CCCCHHHH
Confidence 3334446677765 333 233566665543 23567888999999 8877665554321 11122344
Q ss_pred HHHhhcCCCeEEEEEcCCHHHHHHHHHHH
Q 008863 224 LKKVQDKQSRVFIVLQASLDMTIHLFTEA 252 (550)
Q Consensus 224 l~~i~~~~~~~ii~~~~~~~~~~~il~~a 252 (550)
...+.....++|++ .++..+..++..+
T Consensus 175 ~~~~~~~~~d~v~f--tS~~~~~~~~~~~ 201 (255)
T PRK05752 175 LQRVEAERLNGLVV--SSGQGFEHLQQLA 201 (255)
T ss_pred HHHHHhCCCCEEEE--CCHHHHHHHHHHh
Confidence 55566667788887 4777777776654
No 404
>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=34.31 E-value=3e+02 Score=23.52 Aligned_cols=66 Identities=14% Similarity=0.180 Sum_probs=42.4
Q ss_pred CeEEEEEEEcCCCC-CcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhc-CCCeEEEEEcC
Q 008863 167 WRRVAAIYEDNVYG-GDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQD-KQSRVFIVLQA 240 (550)
Q Consensus 167 w~~v~ii~~~~~~g-~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~-~~~~~ii~~~~ 240 (550)
.-++++|...|.-+ ........+...+++.| ..+.....++. +...+...+++..+ .+.|+|+. .+
T Consensus 4 ~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G-~~v~~~~iv~D------d~~~i~~~l~~~~~~~~~DlVIt-tG 71 (163)
T TIGR02667 4 PLRIAILTVSDTRTEEDDTSGQYLVERLTEAG-HRLADRAIVKD------DIYQIRAQVSAWIADPDVQVILI-TG 71 (163)
T ss_pred ccEEEEEEEeCcCCccCCCcHHHHHHHHHHCC-CeEEEEEEcCC------CHHHHHHHHHHHHhcCCCCEEEE-CC
Confidence 45677776555211 01233567788899999 88877666654 34667777777653 47899998 44
No 405
>PRK11891 aspartate carbamoyltransferase; Provisional
Probab=34.25 E-value=5.1e+02 Score=26.27 Aligned_cols=135 Identities=13% Similarity=0.124 Sum_probs=72.1
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEE-ecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQI-RDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~-~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v 113 (550)
-.|+.+|-..+ .+....|+.|+.++ +|..+.+.. .++.-.-.+.++.+...++.- +.+|+-=. .....+
T Consensus 127 K~v~~lF~epS---TRTR~SFE~A~~~L----Gg~~i~l~~~~~ss~~kGESi~DTarvLs~y-~D~IviR~--~~~~~~ 196 (429)
T PRK11891 127 AVLGNLFFEAS---TRTRVSFGAAFCRL----GGSVCDTTGFTFSSMAKGESIYDTSRVMSGY-VDALVIRH--PEQGSV 196 (429)
T ss_pred cEEEEEeccCC---chhHHHHHHHHHHc----CCeEEEeCCccccCCCCCCCHHHHHHHHHHh-CCEEEEeC--CchhHH
Confidence 34676775553 57888999999988 565655532 222211123344444444432 33333211 122245
Q ss_pred HHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcC-------CeEEEEEEEcCCCCCcc
Q 008863 114 AEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN-------WRRVAAIYEDNVYGGDS 183 (550)
Q Consensus 114 ~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~-------w~~v~ii~~~~~~g~~~ 183 (550)
..+++...+|+|..+.+ + .. +| .++++|++ ++|| -.+|+++.+- .++
T Consensus 197 ~e~A~~s~vPVINAgdg--~-----~~-------HP-----tQaLaDl~Ti~E~~g~~g~~l~G~kIa~vGD~-~~~--- 253 (429)
T PRK11891 197 AEFARATNLPVINGGDG--P-----GE-------HP-----SQALLDLYTIQREFSRLGKIVDGAHIALVGDL-KYG--- 253 (429)
T ss_pred HHHHHhCCCCEEECCCC--C-----CC-------Cc-----HHHHHHHHHHHHHhCccCCCcCCCEEEEECcC-CCC---
Confidence 56667778999996643 1 11 22 36677764 4564 2377777742 333
Q ss_pred hhHHHHHHHHhcC-CCeEEEE
Q 008863 184 GKLALLAEALQNV-SSSEIQS 203 (550)
Q Consensus 184 ~~~~~l~~~l~~~-g~~~v~~ 203 (550)
..+..+...+... | ..+..
T Consensus 254 rv~~Sl~~~la~~~G-~~v~l 273 (429)
T PRK11891 254 RTVHSLVKLLALYRG-LKFTL 273 (429)
T ss_pred hHHHHHHHHHHHhcC-CEEEE
Confidence 3456666665554 7 66554
No 406
>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=34.19 E-value=3e+02 Score=23.54 Aligned_cols=35 Identities=20% Similarity=0.396 Sum_probs=28.1
Q ss_pred cCCeEEEEcCCC--hHHHHHHHHhhccCCccEEeccC
Q 008863 95 KEKVKVIAGMET--WEETAVVAEIASRVQVPILSFAA 129 (550)
Q Consensus 95 ~~~v~aiiG~~~--s~~~~~v~~~~~~~~iP~is~~~ 129 (550)
.++++.++|... +.....+..+++..++|+++...
T Consensus 27 AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~ 63 (162)
T TIGR00315 27 AKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATAD 63 (162)
T ss_pred CCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCc
Confidence 378999999755 36777889999999999998553
No 407
>PRK13792 lysozyme inhibitor; Provisional
Probab=34.06 E-value=25 Score=28.48 Aligned_cols=22 Identities=18% Similarity=0.392 Sum_probs=14.3
Q ss_pred CcchhHHHHHHHHHHHHhcccc
Q 008863 1 MNRFFFLVLIIASELVFVSPGV 22 (550)
Q Consensus 1 M~r~~~~~~~~~~~~~~~~~~~ 22 (550)
||+.++++++.+++++.+|+..
T Consensus 1 mk~~l~~ll~~~~~lLsaCs~~ 22 (127)
T PRK13792 1 MKKALWLLLAAVPVVLVACGGS 22 (127)
T ss_pred ChhHHHHHHHHHHhheecccCC
Confidence 8877665555565566677663
No 408
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=34.02 E-value=1.1e+02 Score=29.31 Aligned_cols=43 Identities=12% Similarity=0.047 Sum_probs=23.7
Q ss_pred hHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEE
Q 008863 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIV 237 (550)
Q Consensus 185 ~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~ 237 (550)
....+...+++.| +.......+.. +.......+.+.+.|.++.
T Consensus 140 ~~~~l~~~l~~~g-~~~~dv~~v~~---------~~~~~~~al~~G~vDa~~~ 182 (314)
T PRK11553 140 SHNLLLRALRKAG-LKFTDIQPTYL---------TPADARAAFQQGNVDAWAI 182 (314)
T ss_pred HHHHHHHHHHHcC-CCHHHeEEEec---------ChHHHHHHHHcCCCCEEEE
Confidence 4556666777777 64322111111 1223456677778898887
No 409
>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=33.95 E-value=2e+02 Score=26.51 Aligned_cols=77 Identities=10% Similarity=0.068 Sum_probs=43.3
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
|++|..+ +.|. ..+.+.+.+.+++.| ..+..... .. +.......++.+.+.+.+.||+ .........
T Consensus 2 Igvv~~~~~~~~~--~~~~~~i~~~a~~~g-~~~~~~~~--~~-----~~~~~~~~i~~l~~~~vdgii~-~~~~~~~~~ 70 (269)
T cd06281 2 IGCLVSDITNPLL--AQLFSGAEDRLRAAG-YSLLIANS--LN-----DPERELEILRSFEQRRMDGIII-APGDERDPE 70 (269)
T ss_pred EEEEecCCccccH--HHHHHHHHHHHHHcC-CEEEEEeC--CC-----ChHHHHHHHHHHHHcCCCEEEE-ecCCCCcHH
Confidence 4566643 3444 667777888888888 66554321 11 2233455666677777787777 433222234
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
+++.+++.+.
T Consensus 71 ~~~~~~~~~i 80 (269)
T cd06281 71 LVDALASLDL 80 (269)
T ss_pred HHHHHHhCCC
Confidence 5566666553
No 410
>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=33.94 E-value=2.4e+02 Score=22.30 Aligned_cols=63 Identities=11% Similarity=0.104 Sum_probs=39.6
Q ss_pred chhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCC-H---HHHHHHHHHHHHcCC
Q 008863 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS-L---DMTIHLFTEANRMGL 257 (550)
Q Consensus 183 ~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~-~---~~~~~il~~a~~~g~ 257 (550)
.-....+...++..| +++..- ... ......++.+.+.++++|.+ ++. . ..+..+++++++.+.
T Consensus 13 ~lG~~~~~~~l~~~G-~~V~~l---g~~-------~~~~~l~~~~~~~~pdvV~i-S~~~~~~~~~~~~~i~~l~~~~~ 79 (119)
T cd02067 13 DIGKNIVARALRDAG-FEVIDL---GVD-------VPPEEIVEAAKEEDADAIGL-SGLLTTHMTLMKEVIEELKEAGL 79 (119)
T ss_pred hHHHHHHHHHHHHCC-CEEEEC---CCC-------CCHHHHHHHHHHcCCCEEEE-eccccccHHHHHHHHHHHHHcCC
Confidence 445677888888888 877432 221 12345566677779999988 554 2 344556667776643
No 411
>COG3470 Tpd Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]
Probab=33.93 E-value=31 Score=28.56 Aligned_cols=21 Identities=24% Similarity=0.232 Sum_probs=11.7
Q ss_pred CcchhHHHHHHHHHHHHhccc
Q 008863 1 MNRFFFLVLIIASELVFVSPG 21 (550)
Q Consensus 1 M~r~~~~~~~~~~~~~~~~~~ 21 (550)
|++..+++..++.+++.+|+.
T Consensus 1 M~~~k~l~~~~~~a~v~s~~a 21 (179)
T COG3470 1 MKMKKLLLSAAILASVFSAPA 21 (179)
T ss_pred CchHHHHHHHHHHHHHHhhhh
Confidence 666655555555555555544
No 412
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=33.70 E-value=2.9e+02 Score=23.31 Aligned_cols=125 Identities=16% Similarity=0.119 Sum_probs=73.5
Q ss_pred HHHhhh-cCCeEEEEcCCCh--HHHHHHHHhhccCCccEEeccCCCCCCc-ccCCCCCeEEEEecCcHHhHHHHHHHHHH
Q 008863 89 AQELIN-KEKVKVIAGMETW--EETAVVAEIASRVQVPILSFAAPAVTPL-SMSRRWPYLIRMASNDSEQMKCIADLARK 164 (550)
Q Consensus 89 ~~~li~-~~~v~aiiG~~~s--~~~~~v~~~~~~~~iP~is~~~~~~~~~-~~~~~~~~~~~~~p~~~~~~~al~~~l~~ 164 (550)
+..+++ .++...|+||.-- +.-+-+..+.+..+||.+..+++ -.. ..+.- -+......++..+++.
T Consensus 28 ~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipivaTa~~--~~~~~~~~i--------~~~~~~lh~it~~l~D 97 (170)
T COG1880 28 VAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVATASS--MGNLIGRGI--------GSEYINLHAITQYLTD 97 (170)
T ss_pred HHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEecchh--hcchhhccc--------ccchhHHHHHHHHhcC
Confidence 334443 2688999998554 45556788999999999987766 333 33221 1344467788888887
Q ss_pred cCCe---------EEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCC---CCCCChHHHHHHHHHhh
Q 008863 165 YNWR---------RVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPIS---SISDPKEAVRGELKKVQ 228 (550)
Q Consensus 165 ~~w~---------~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~---~~~~~~~d~~~~l~~i~ 228 (550)
=+|. -|.++..-..|. ...++.++....- .+|.....+.+.. +.+...+++.+.|+++.
T Consensus 98 p~w~G~dg~g~yDlviflG~~~yy~--sq~Ls~lKhFs~i---~tiaId~~Y~pnAd~SFpNl~kde~~~~L~ell 168 (170)
T COG1880 98 PNWPGFDGNGNYDLVIFLGSIYYYL--SQVLSGLKHFSNI---KTIAIDRYYQPNADYSFPNLSKDEYLAYLDELL 168 (170)
T ss_pred CCCCCcCCCCCcceEEEEeccHHHH--HHHHHHhhhhhcc---eEEEeccccCcCccccCCCcCHHHHHHHHHHHh
Confidence 5554 466666555555 5555555554421 3444444444433 12234556666776654
No 413
>COG0371 GldA Glycerol dehydrogenase and related enzymes [Energy production and conversion]
Probab=33.59 E-value=3.1e+02 Score=27.03 Aligned_cols=90 Identities=14% Similarity=0.134 Sum_probs=58.7
Q ss_pred HHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEE
Q 008863 157 CIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFI 236 (550)
Q Consensus 157 al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii 236 (550)
-+.++++..+-+++.+++++..+ .-..+.+.+.+...| + .+........ ...+......++.+.++++||
T Consensus 20 ~~~~~~~~~~~~~~lvv~g~~~~---~~~~~~~~~~l~~~g-~-~~~~~~~~~a-----~~~ev~~~~~~~~~~~~d~vI 89 (360)
T COG0371 20 KLLEVLLKLGLSRALVVTGENTY---AIAGEKVEKSLKDEG-L-VVHVVFVGEA-----SEEEVERLAAEAGEDGADVVI 89 (360)
T ss_pred hHHHHHHhccCCceEEEEChhHH---HHHHHHHHHHhcccC-c-ceeeeecCcc-----CHHHHHHHHHHhcccCCCEEE
Confidence 35566666666889888887665 456688888999998 7 4444433332 445666666777667889988
Q ss_pred EEcCCHHHHHHHHHHHHHcCC
Q 008863 237 VLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 237 ~~~~~~~~~~~il~~a~~~g~ 257 (550)
- -+.+...-..=..|.++|+
T Consensus 90 G-VGGGk~iD~aK~~A~~~~~ 109 (360)
T COG0371 90 G-VGGGKTIDTAKAAAYRLGL 109 (360)
T ss_pred E-ecCcHHHHHHHHHHHHcCC
Confidence 7 6655544444444555665
No 414
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=33.40 E-value=1.7e+02 Score=27.97 Aligned_cols=71 Identities=13% Similarity=0.145 Sum_probs=46.2
Q ss_pred HHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHH-HHHHhhhcCCeEEEEcCCChHHHHHHHHhhccCCccEEe
Q 008863 54 AMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAAT-AAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILS 126 (550)
Q Consensus 54 a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~-~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is 126 (550)
.++.-++.+.+..+. +.+...|+-|+.-.--+ ++.+|..+-.+..|+|+..|..+..+..+|...+.|..-
T Consensus 170 ~~~~i~~~l~~~~~~--~~v~~~nTIC~aT~~RQ~a~~~La~~vD~miVVGg~~SsNT~kL~~i~~~~~~~t~~ 241 (298)
T PRK01045 170 DTAEIIAALKERFPE--IQGPPKDDICYATQNRQEAVKELAPQADLVIVVGSKNSSNSNRLREVAEEAGAPAYL 241 (298)
T ss_pred HHHHHHHHHHHhCcC--cccCCCCCcchhhHHHHHHHHHHHhhCCEEEEECCCCCccHHHHHHHHHHHCCCEEE
Confidence 333444444443333 23333677776644333 455666667888999999999999999999998877544
No 415
>COG1653 UgpB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=33.39 E-value=3e+02 Score=27.46 Aligned_cols=27 Identities=11% Similarity=0.182 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHhcCCCCcEEEEEEecC
Q 008863 52 ITAMKIAVQNFNSDSRNHKLSLQIRDH 78 (550)
Q Consensus 52 ~~a~~~Av~~iN~~~~~~~l~~~~~d~ 78 (550)
...++-.+++.++..|+++|+++....
T Consensus 45 ~~~~~~~i~~f~~~~p~ikv~~~~~~~ 71 (433)
T COG1653 45 ADALEELIKEFEKENPGIKVKVVNVPG 71 (433)
T ss_pred hHHHHHHHHHHHHhCCCeEEEEEecCc
Confidence 567777888999887888888877643
No 416
>cd07372 2A5CPDO_B The beta subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO), catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, which is an intermediate during p-chloronitrobenzene degradation. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active 2A5CPDO enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. The alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication. This model describes the beta subunit, which contains a putative metal binding site with two conserved histidines; these residues are equivalent to two out of three Fe(II) bindin
Probab=33.36 E-value=4.3e+02 Score=25.22 Aligned_cols=89 Identities=17% Similarity=0.202 Sum_probs=50.4
Q ss_pred CCCHHHHHHHHHHhhhcCCeEEEE--c---CCChHHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcH-
Q 008863 79 NRDPFQAATAAQELINKEKVKVIA--G---METWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDS- 152 (550)
Q Consensus 79 ~~~~~~a~~~~~~li~~~~v~aii--G---~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~- 152 (550)
.+|+.-|...+..+. +.++.+.. . +..-.+..++.-+....++|+|..+.. . . |..+...++..
T Consensus 95 ~gd~eLA~~i~~~~~-~~Gi~~~~~~~~~~~LDHGt~vPL~fl~p~~~~pvV~is~~--~-l------~~~~~~~~~~~~ 164 (294)
T cd07372 95 NVDVELAEACCEEGR-KAGLVTKMMRNPRFRVDYGTITTLHMIRPQWDIPVVGISAN--N-T------PYYLNTKEGLGE 164 (294)
T ss_pred CCCHHHHHHHHHHHH-HCCCCeeeccCCCCCCCchHHHHHHHhCCCCCCcEEEEecC--c-c------cccccccCCHHH
Confidence 456655544444443 46776653 1 233345556665655567888766543 1 0 10011112222
Q ss_pred --HhHHHHHHHHHHcCCeEEEEEEEcCC
Q 008863 153 --EQMKCIADLARKYNWRRVAAIYEDNV 178 (550)
Q Consensus 153 --~~~~al~~~l~~~~w~~v~ii~~~~~ 178 (550)
.+++++.+.++..+ +||++|.+.+-
T Consensus 165 ~~~lG~ai~~al~~~~-~RV~vIaSG~L 191 (294)
T cd07372 165 MDVLGKATREAIRKTG-RRAVLLASNTL 191 (294)
T ss_pred HHHHHHHHHHHHHhcC-CeEEEEEeCcc
Confidence 37888889888886 89999998653
No 417
>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=32.91 E-value=3.9e+02 Score=24.49 Aligned_cols=120 Identities=13% Similarity=0.063 Sum_probs=59.3
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEE---EecCCCCHHHHHHHHHHhhhc-CCeEEEEcCCChHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQ---IRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETA 111 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~---~~d~~~~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~~ 111 (550)
+|+.+.+........-..|++.|+++.+ .++... ......+...+.+.+.+++.. ..+.+|+..... .+.
T Consensus 111 ~i~~i~~~~~~~~~~R~~gf~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~-~a~ 184 (265)
T cd01543 111 HFAFYGLPGARWSDEREEAFRQLVAEAG-----YECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVGIFACTDA-RAR 184 (265)
T ss_pred EEEEEcCCCCHHHHHHHHHHHHHHHHcC-----CccccccCccccccccHHHHHHHHHHHHhcCCCCcEEEecChH-HHH
Confidence 5666544332222334467777776642 222111 111122334556677777753 357888876443 333
Q ss_pred HHHHhhccCCc--c----EEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHH
Q 008863 112 VVAEIASRVQV--P----ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (550)
Q Consensus 112 ~v~~~~~~~~i--P----~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~ 164 (550)
.+...+.+.++ | ++++... +.......|.+-.+..+...+++..+++|.+
T Consensus 185 g~~~~l~~~g~~vp~di~vigfd~~---~~~~~~~~~~ltti~~~~~~~g~~a~~~l~~ 240 (265)
T cd01543 185 QLLEACRRAGIAVPEEVAVLGVDND---ELICELSRPPLSSVEQNAERIGYEAAKLLDR 240 (265)
T ss_pred HHHHHHHHhCCCCCCceEEEeeCCc---hhhhccCCCCCceeecCHHHHHHHHHHHHHH
Confidence 34444444443 3 4555543 2111112244445666667777777776643
No 418
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=32.90 E-value=2.4e+02 Score=25.72 Aligned_cols=87 Identities=17% Similarity=0.186 Sum_probs=49.1
Q ss_pred HHHHHHH-HH-cCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 156 KCIADLA-RK-YNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 156 ~al~~~l-~~-~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
..++..+ .+ ...+++.++..+. ....+.+.+.+.| ..+.....+.... ...+....+..+.+.+.+
T Consensus 112 ~~l~~~l~~~~~~~~~ili~~~~~-------~~~~l~~~L~~~G-~~v~~~~~Y~~~~----~~~~~~~~~~~~~~~~~d 179 (249)
T PRK05928 112 SELLLELPELLLKGKRVLYLRGNG-------GREVLGDTLEERG-AEVDECEVYERVP----PKLDGAELLARLQSGEVD 179 (249)
T ss_pred hHHHHhChhhhcCCCEEEEECCCC-------CHHHHHHHHHHCC-CEEeEEEEEEeeC----CCCChHHHHHHHHhCCCC
Confidence 3444444 33 3456776665432 2466777888888 7665544443221 111222334444445777
Q ss_pred EEEEEcCCHHHHHHHHHHHHHcC
Q 008863 234 VFIVLQASLDMTIHLFTEANRMG 256 (550)
Q Consensus 234 ~ii~~~~~~~~~~~il~~a~~~g 256 (550)
+|++ .++..+..+++.+.+.+
T Consensus 180 ~ivf--tS~~~v~~~~~~~~~~~ 200 (249)
T PRK05928 180 AVIF--TSPSTVRAFFSLAPELG 200 (249)
T ss_pred EEEE--CCHHHHHHHHHHhcccc
Confidence 7776 67888888888776655
No 419
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=32.86 E-value=5.5e+02 Score=26.24 Aligned_cols=90 Identities=16% Similarity=0.118 Sum_probs=49.2
Q ss_pred EEEEEEecCC----ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCC-CHHHHHHHHHHhhhcCCeEEEEcCCCh-HH
Q 008863 36 KIGAIVDANS----QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR-DPFQAATAAQELINKEKVKVIAGMETW-EE 109 (550)
Q Consensus 36 ~IG~i~~~~~----~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~-~~~~a~~~~~~li~~~~v~aiiG~~~s-~~ 109 (550)
+||++.-... ..........+..++.+|+. .++++..+... ++..+.+. ++.++.+++.+||-...+ ..
T Consensus 2 ~ig~v~~~~~~~~~~~~~~~~~~~~~~~~~l~~~----~~~vv~~~~~~~~~~~~~~~-~~~~~~~~~d~ii~~~~tf~~ 76 (452)
T cd00578 2 KIGFVTGSQHLYGEELLEQVEEYAREVADLLNEL----PVEVVDKPEVTGTPDEARKA-AEEFNEANCDGLIVWMHTFGP 76 (452)
T ss_pred EEEEEEecccccChhHHHHHHHHHHHHHHHHhcC----CceEEecCcccCCHHHHHHH-HHHHhhcCCcEEEEccccccc
Confidence 5666654332 11123444555556666654 24555554433 55544444 444554577777753222 23
Q ss_pred HHHHHHhhccCCccEEeccCC
Q 008863 110 TAVVAEIASRVQVPILSFAAP 130 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~ 130 (550)
...+...+...+.|++-++..
T Consensus 77 ~~~~~~~~~~~~~Pvll~a~~ 97 (452)
T cd00578 77 AKMWIAGLSELRKPVLLLATQ 97 (452)
T ss_pred HHHHHHHHHhcCCCEEEEeCC
Confidence 334556677889999988866
No 420
>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=32.52 E-value=38 Score=26.86 Aligned_cols=32 Identities=25% Similarity=0.460 Sum_probs=27.1
Q ss_pred eEEEEcCCChHHHHHHHHhhccCCccEEeccC
Q 008863 98 VKVIAGMETWEETAVVAEIASRVQVPILSFAA 129 (550)
Q Consensus 98 v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~ 129 (550)
+.+|.|+.+++=+.....+++.+++++++...
T Consensus 1 vI~I~G~~gsGKST~a~~La~~~~~~~i~~d~ 32 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAKELAERLGFPVISMDD 32 (121)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHTCEEEEEHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHHCCeEEEecc
Confidence 56899999999888888899989999987654
No 421
>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=32.09 E-value=4e+02 Score=24.38 Aligned_cols=118 Identities=12% Similarity=0.116 Sum_probs=61.7
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhc-CCeEEEEcCCChHHHHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETAVV 113 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~~~v 113 (550)
=+|+.+.+........-..|++.++++.+-. +.....+ .+...+.+.+.+++.. ..+.+|+..... .+..+
T Consensus 116 ~~i~~~~~~~~~~~~~R~~gf~~~~~~~~~~-----~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~-~a~g~ 187 (263)
T cd06280 116 RRIGGLFGNASTTGAERRAGYEDAMRRHGLA-----PDARFVA--PTAEAAEAALAAWLAAPERPEALVASNGL-LLLGA 187 (263)
T ss_pred ceEEEEeCCCCCCHHHHHHHHHHHHHHcCCC-----CChhhcc--cCHHHHHHHHHHHhcCCCCCcEEEECCcH-HHHHH
Confidence 3566665433222334457777777664321 1111111 3455566677777753 357888875443 33344
Q ss_pred HHhhccCCc--c----EEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHH
Q 008863 114 AEIASRVQV--P----ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARK 164 (550)
Q Consensus 114 ~~~~~~~~i--P----~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~ 164 (550)
...+.+.++ | ++++... +.. ....|.+..+..+...+++..++.+.+
T Consensus 188 ~~~l~~~g~~~p~di~iig~d~~---~~~-~~~~p~lt~i~~~~~~~g~~a~~~l~~ 240 (263)
T cd06280 188 LRAVRAAGLRIPQDLALAGFDND---PWT-ELVGPGITVIEQPVEEIGRAAMSLLLE 240 (263)
T ss_pred HHHHHHcCCCCCCcEEEEEeCCh---hHH-HhcCCCceEecCCHHHHHHHHHHHHHH
Confidence 445555443 3 4444433 212 222344566777778888887777643
No 422
>COG0547 TrpD Anthranilate phosphoribosyltransferase [Amino acid transport and metabolism]
Probab=32.02 E-value=2.8e+02 Score=27.04 Aligned_cols=87 Identities=14% Similarity=0.097 Sum_probs=61.3
Q ss_pred HHHHHhhhcCCeEEEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcC
Q 008863 87 TAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN 166 (550)
Q Consensus 87 ~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~ 166 (550)
+.+.+.+++.++..++-|...+....+.++=...+++.|--.-. |..+... +..--+.-....+...+++.++..|
T Consensus 138 e~~~~~l~~~g~~FlfAp~~hp~~k~v~~vR~~LG~RTifN~LG---PL~NPa~-~~~qliGV~~p~~~~~~A~~l~~LG 213 (338)
T COG0547 138 EQAARALEETGIGFLFAPAYHPAMKHVAPVRKELGVRTIFNLLG---PLLNPAR-AKLQLIGVYHPELVELLAEALRLLG 213 (338)
T ss_pred HHHHHHHHhcCeEEEEccccCHHHHHHHHHHHHcCCCchHHhhc---cccCCCC-CCceEEEEeCHHHHHHHHHHHHHhC
Confidence 34455566789999999999999999999999999986542222 3333221 2111122234558899999999999
Q ss_pred CeEEEEEEEcC
Q 008863 167 WRRVAAIYEDN 177 (550)
Q Consensus 167 w~~v~ii~~~~ 177 (550)
-+++.+|+..+
T Consensus 214 ~~ralvV~G~~ 224 (338)
T COG0547 214 VERALVVHGLE 224 (338)
T ss_pred cceEEEEECCC
Confidence 99999999753
No 423
>PRK05575 cbiC precorrin-8X methylmutase; Validated
Probab=31.96 E-value=82 Score=28.02 Aligned_cols=70 Identities=16% Similarity=0.222 Sum_probs=44.8
Q ss_pred hHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcC--CeEEEEc-CCChHHHHHHHHhhccCCccEEe
Q 008863 50 QAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKE--KVKVIAG-METWEETAVVAEIASRVQVPILS 126 (550)
Q Consensus 50 ~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~--~v~aiiG-~~~s~~~~~v~~~~~~~~iP~is 126 (550)
+...|++.|.++ +++ | +.+ +|..+|+-..++++.+. +...||| |...-.+......+...++|+|+
T Consensus 114 Rs~aam~~a~~~----~~~--I-vvI----GNAPTAL~~l~~li~~g~~~PalVIG~PVGFV~A~ESKe~L~~~~vP~It 182 (204)
T PRK05575 114 RSMAAVEKAAEE----GVE--F-FVF----GNAPTALYKLKELIKEGKANPKFIIAVPVGFVGAAESKEELEKLDIPYIT 182 (204)
T ss_pred HHHHHHHHHHHc----CCc--E-EEE----eCcHHHHHHHHHHHHcCCCCCCEEEEeCCccccHHHHHHHHHhCCCCEEE
Confidence 566788888864 212 2 222 56678999999999753 3578887 55444343344455667899998
Q ss_pred ccCC
Q 008863 127 FAAP 130 (550)
Q Consensus 127 ~~~~ 130 (550)
.-..
T Consensus 183 ~~G~ 186 (204)
T PRK05575 183 VRGR 186 (204)
T ss_pred EecC
Confidence 6544
No 424
>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=31.95 E-value=2.3e+02 Score=26.93 Aligned_cols=71 Identities=7% Similarity=0.111 Sum_probs=44.8
Q ss_pred CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcC
Q 008863 177 NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMG 256 (550)
Q Consensus 177 ~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g 256 (550)
++|. ....+.+.+.+++.| ..+.... ... +.......++.+...+.|.||+...........++.+.+.+
T Consensus 10 ~~~~--~~~~~~i~~~a~~~g-~~v~~~~---~~~----~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~ 79 (302)
T TIGR02634 10 LERW--QKDRDIFVAAAESLG-AKVFVQS---ANG----NEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEG 79 (302)
T ss_pred hhhH--HHHHHHHHHHHHhcC-CEEEEEe---CCC----CHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCC
Confidence 3555 677788888888888 7765421 111 22344567777777788888882333344566777777766
Q ss_pred C
Q 008863 257 L 257 (550)
Q Consensus 257 ~ 257 (550)
+
T Consensus 80 i 80 (302)
T TIGR02634 80 I 80 (302)
T ss_pred C
Confidence 4
No 425
>KOG2387 consensus CTP synthase (UTP-ammonia lyase) [Nucleotide transport and metabolism]
Probab=31.55 E-value=3.6e+02 Score=27.14 Aligned_cols=91 Identities=18% Similarity=0.134 Sum_probs=55.9
Q ss_pred CcEEEEEEEecC--CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCC-------CCHHHHHHHHHHhhhcCCeEEEE-
Q 008863 33 EVTKIGAIVDAN--SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN-------RDPFQAATAAQELINKEKVKVIA- 102 (550)
Q Consensus 33 ~~i~IG~i~~~~--~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~-------~~~~~a~~~~~~li~~~~v~aii- 102 (550)
.+++|+++--.+ ...-.+...|++.|.-.+ ++++++.+.+++ .+...+-.++-+++. ....|+
T Consensus 297 ~~V~IalVGKYt~l~DsY~Sv~KAL~Ha~~~~-----~~kl~i~wi~s~dLE~~t~~e~~~~~~~aW~~l~--~adGilv 369 (585)
T KOG2387|consen 297 VPVRIALVGKYTKLSDSYLSVVKALEHAALAI-----NRKLEIVWIDSSDLEPETEQEDPRKYHAAWQKLK--SADGILV 369 (585)
T ss_pred CcEEEEEEeccccchHHHHHHHHHHHHHHHHh-----cccceEEEEehhcccccccccChhHHHHHHHHhc--cCCeEEe
Confidence 579999988776 222345667777777666 456777777652 233345556666664 333333
Q ss_pred -cCCChH---HHHHHHHhhccCCccEEeccCC
Q 008863 103 -GMETWE---ETAVVAEIASRVQVPILSFAAP 130 (550)
Q Consensus 103 -G~~~s~---~~~~v~~~~~~~~iP~is~~~~ 130 (550)
|..... -....+.+|.+.++|++...-.
T Consensus 370 PGGFG~RGveG~i~Aak~ARen~iP~LGiCLG 401 (585)
T KOG2387|consen 370 PGGFGDRGVEGKILAAKWARENKIPFLGICLG 401 (585)
T ss_pred CCcccccchhHHHHHHHHHHhcCCCeEeeehh
Confidence 333332 3335678999999999875443
No 426
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=31.49 E-value=1.1e+02 Score=27.89 Aligned_cols=75 Identities=9% Similarity=0.106 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHhcCCCCcEEEEEEecCCCCH---HHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHHhhccCCccEEec
Q 008863 51 AITAMKIAVQNFNSDSRNHKLSLQIRDHNRDP---FQAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSF 127 (550)
Q Consensus 51 ~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~---~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~ 127 (550)
...|++...+++.+. |++|.++..|...+. ..++....+... ..-+.+.-|..-.....+..+|...++|+-..
T Consensus 47 ~~saMRhfa~~L~~~--G~~V~Y~~~~~~~~~~s~~~~L~~~~~~~~-~~~~~~~~P~d~~l~~~l~~~~~~~~i~~~~~ 123 (224)
T PF04244_consen 47 FFSAMRHFADELRAK--GFRVHYIELDDPENTQSFEDALARALKQHG-IDRLHVMEPGDYRLEQRLESLAQQLGIPLEVL 123 (224)
T ss_dssp HHHHHHHHHHHHHHT--T--EEEE-TT-TT--SSHHHHHHHHHHHH-----EEEE--S-HHHHHHHHH----SSS-EEEE
T ss_pred HHHHHHHHHHHHHhC--CCEEEEEeCCCccccccHHHHHHHHHHHcC-CCEEEEECCCCHHHHHHHHhhhcccCCceEEe
Confidence 456777777888776 899999998765544 334433333322 34555666888788888999999999997554
Q ss_pred c
Q 008863 128 A 128 (550)
Q Consensus 128 ~ 128 (550)
.
T Consensus 124 ~ 124 (224)
T PF04244_consen 124 E 124 (224)
T ss_dssp -
T ss_pred C
Confidence 3
No 427
>PRK05954 precorrin-8X methylmutase; Provisional
Probab=31.36 E-value=92 Score=27.67 Aligned_cols=72 Identities=14% Similarity=0.174 Sum_probs=46.8
Q ss_pred hhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcC--CeEEEEc-CCChHHHHHHHHhhccCCccEE
Q 008863 49 KQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKE--KVKVIAG-METWEETAVVAEIASRVQVPIL 125 (550)
Q Consensus 49 ~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~--~v~aiiG-~~~s~~~~~v~~~~~~~~iP~i 125 (550)
.+...|++.+.+++.. + | +.+ +|..+|+-.+++++.+. +...||| |..--.+......+...++|+|
T Consensus 107 TRs~aam~~a~~~~~~---~--I-vvI----GNAPTAL~~l~eli~~g~~~PalVIg~PVGFV~A~ESKe~L~~~~iP~I 176 (203)
T PRK05954 107 TRTETGLLKCAQQYPE---A--I-YVI----GNAPTALLALCQQIRAGRVKPSLVIGVPVGFVSVVEAKQALAQLDVPQI 176 (203)
T ss_pred cHHHHHHHHHHHHCCC---C--E-EEE----eCCHHHHHHHHHHHHcCCCCCCEEEEECCcccCHHHHHHHHHhCCCCEE
Confidence 4677888888876532 2 2 222 56678999999999743 4677887 5544334334444456789999
Q ss_pred eccCC
Q 008863 126 SFAAP 130 (550)
Q Consensus 126 s~~~~ 130 (550)
+.-.+
T Consensus 177 t~~Gr 181 (203)
T PRK05954 177 RVEGR 181 (203)
T ss_pred EEecC
Confidence 86554
No 428
>COG0181 HemC Porphobilinogen deaminase [Coenzyme metabolism]
Probab=31.26 E-value=36 Score=32.13 Aligned_cols=44 Identities=18% Similarity=0.257 Sum_probs=30.0
Q ss_pred cchHHHHHHHHHhCCCCCCeEEEec-----------------CCChH-HHHHhhhcccccEEeece
Q 008863 489 GFSIELFRLVVDHLNYDLPYEFVPH-----------------DGVYD-DLINGVYDKVNYFNYHDK 536 (550)
Q Consensus 489 GfciDll~~la~~l~f~~~~~~~~~-----------------~g~w~-Gmi~el~~~~ad~a~~~~ 536 (550)
.+|++.|++.-..+ + +++++. .|-|. .+=..|++|++|+||.++
T Consensus 19 ~~V~~~L~~~~p~~--~--~ei~~i~T~GD~i~d~pL~~iGgkGlFtkEle~all~g~~DiAVHSl 80 (307)
T COG0181 19 NEVIERLKAAYPDL--E--VEIVTIKTKGDRILDKPLSKIGGKGLFTKELEQALLEGEIDIAVHSL 80 (307)
T ss_pred HHHHHHHHHhCCCc--e--EEEEEEecccchhccchHHHcCCcEEEHHHHHHHHHcCCCCEEEeec
Confidence 57788887776533 3 556654 13344 455667899999999998
No 429
>COG2332 CcmE Cytochrome c-type biogenesis protein CcmE [Posttranslational modification, protein turnover, chaperones]
Probab=31.23 E-value=1.4e+02 Score=24.78 Aligned_cols=33 Identities=27% Similarity=0.455 Sum_probs=22.7
Q ss_pred CCCcEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCC
Q 008863 31 IEEVTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHN 79 (550)
Q Consensus 31 ~~~~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~ 79 (550)
.++.+++|++....+ +|++++..++++.+.|..
T Consensus 50 ~G~rlR~GGlV~~GS----------------v~R~~~~~~v~F~vtD~~ 82 (153)
T COG2332 50 TGQRLRLGGLVEAGS----------------VQRDPGSLKVSFVVTDGN 82 (153)
T ss_pred CCcEEEEeeeEeece----------------EEecCCCcEEEEEEecCC
Confidence 457899999996542 355445677777777664
No 430
>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=31.13 E-value=3.3e+02 Score=23.18 Aligned_cols=85 Identities=14% Similarity=0.124 Sum_probs=49.6
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHH---HHhhcCC
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGEL---KKVQDKQ 231 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l---~~i~~~~ 231 (550)
.+.+.+.+..+|-=.+.-+|.+. +. .+.+.+.+...| ++.... .+ ..|..-.+ .-+-...
T Consensus 43 ~~~i~~~ls~~G~i~~~R~Y~~a-~a-----~~~l~~~l~~~G-f~pv~~----kG------~~Dv~laIDame~~~~~~ 105 (160)
T TIGR00288 43 LDEIREILSEYGDIKIGKVLLNQ-YA-----SDKLIEAVVNQG-FEPIIV----AG------DVDVRMAVEAMELIYNPN 105 (160)
T ss_pred HHHHHHHHHhcCCeEEEEEEech-hc-----cHHHHHHHHHCC-ceEEEe----cC------cccHHHHHHHHHHhccCC
Confidence 35666677777755555566542 21 235677777777 764421 11 13333222 2222346
Q ss_pred CeEEEEEcCCHHHHHHHHHHHHHcCC
Q 008863 232 SRVFIVLQASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 232 ~~~ii~~~~~~~~~~~il~~a~~~g~ 257 (550)
.|.+++ .++..+...++..+++.|.
T Consensus 106 iD~~vL-vSgD~DF~~Lv~~lre~G~ 130 (160)
T TIGR00288 106 IDAVAL-VTRDADFLPVINKAKENGK 130 (160)
T ss_pred CCEEEE-EeccHhHHHHHHHHHHCCC
Confidence 778887 7777777788888888775
No 431
>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e.g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].
Probab=31.08 E-value=94 Score=25.91 Aligned_cols=36 Identities=19% Similarity=0.167 Sum_probs=26.8
Q ss_pred eEEEEEEEcCCCCCcchhHHHHHHHHhcC-CCeEEEEEe
Q 008863 168 RRVAAIYEDNVYGGDSGKLALLAEALQNV-SSSEIQSRL 205 (550)
Q Consensus 168 ~~v~ii~~~~~~g~~~~~~~~l~~~l~~~-g~~~v~~~~ 205 (550)
++|.|+|+.|.- .+......|.+.|.+. | +.+....
T Consensus 1 ~kVfI~Ys~d~~-~h~~~V~~la~~L~~~~g-~~V~lD~ 37 (150)
T PF08357_consen 1 RKVFISYSHDSE-EHKEWVLALAEFLRQNCG-IDVILDQ 37 (150)
T ss_pred CeEEEEeCCCCH-HHHHHHHHHHHHHHhccC-CceeecH
Confidence 478899988753 3457788899999998 8 7766443
No 432
>PRK10586 putative oxidoreductase; Provisional
Probab=30.88 E-value=3.6e+02 Score=26.63 Aligned_cols=76 Identities=12% Similarity=0.102 Sum_probs=47.1
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
...-+.++++.++.+++.+|++...+ ......+.+.+++.+ +.+. .+.... ...+..+..+.. +.++|
T Consensus 21 a~~~l~~~~~~~g~~~~lvv~g~~~~---~~~~~~~~~~l~~~~-~~~~---~~~g~~----~~~~v~~l~~~~-~~~~d 88 (362)
T PRK10586 21 SIDHLHDFFTDEQLSRAVWIYGERAI---AAAQPYLPPAFELPG-AKHI---LFRGHC----SESDVAQLAAAS-GDDRQ 88 (362)
T ss_pred HHHHHHHHHHhcCCCeEEEEEChHHH---HHHHHHHHHHHHHcC-CeEE---EeCCCC----CHHHHHHHHHHh-ccCCC
Confidence 44568888999999999999876543 333456677788888 6542 232221 334555444443 34788
Q ss_pred EEEEEcCCH
Q 008863 234 VFIVLQASL 242 (550)
Q Consensus 234 ~ii~~~~~~ 242 (550)
.||- .+.+
T Consensus 89 ~iia-vGGG 96 (362)
T PRK10586 89 VVIG-VGGG 96 (362)
T ss_pred EEEE-ecCc
Confidence 8886 4433
No 433
>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=30.74 E-value=52 Score=28.53 Aligned_cols=31 Identities=19% Similarity=0.110 Sum_probs=26.2
Q ss_pred eEEEEcCCChHHHHHHHHhhccCCccEEecc
Q 008863 98 VKVIAGMETWEETAVVAEIASRVQVPILSFA 128 (550)
Q Consensus 98 v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~ 128 (550)
+.+|+|+.+|+=+.....++..++.++|+.+
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~~~~~is~~ 31 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENFGFTHLSAG 31 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHcCCeEEECC
Confidence 4689999988888877889999999999854
No 434
>PF02729 OTCace_N: Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; InterPro: IPR006132 This entry contains two related enzymes: Aspartate carbamoyltransferase (2.1.3.2 from EC) (ATCase) catalyzes the conversion of aspartate and carbamoyl phosphate to carbamoylaspartate, the second step in the de novo biosynthesis of pyrimidine nucleotides []. In prokaryotes ATCase consists of two subunits: a catalytic chain (gene pyrB) and a regulatory chain (gene pyrI), while in eukaryotes it is a domain in a multi- functional enzyme (called URA2 in yeast, rudimentary in Drosophila, and CAD in mammals []) that also catalyzes other steps of the biosynthesis of pyrimidines. Ornithine carbamoyltransferase (2.1.3.3 from EC) (OTCase) catalyzes the conversion of ornithine and carbamoyl phosphate to citrulline. In mammals this enzyme participates in the urea cycle [] and is located in the mitochondrial matrix. In prokaryotes and eukaryotic microorganisms it is involved in the biosynthesis of arginine. In some bacterial species it is also involved in the degradation of arginine [] (the arginine deaminase pathway). It has been shown [] that these two enzymes are evolutionary related. The predicted secondary structure of both enzymes are similar and there are some regions of sequence similarities. One of these regions includes three residues which have been shown, by crystallographic studies [], to be implicated in binding the phosphoryl group of carbamoyl phosphate and may also play a role in trimerization of the molecules []. The carboxyl-terminal, aspartate/ornithine-binding domain is is described by IPR006131 from INTERPRO. ; GO: 0016743 carboxyl- or carbamoyltransferase activity, 0006520 cellular amino acid metabolic process; PDB: 1ML4_A 2P2G_D 2I6U_A 2YFK_B 3D6N_B 3SDS_A 3GD5_A 3R7L_B 3R7F_A 3R7D_A ....
Probab=30.58 E-value=75 Score=26.46 Aligned_cols=82 Identities=13% Similarity=0.144 Sum_probs=49.1
Q ss_pred cEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCC----CHHHHHHHHHHhhhcCCeEEEEcCCChHH
Q 008863 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNR----DPFQAATAAQELINKEKVKVIAGMETWEE 109 (550)
Q Consensus 34 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~----~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 109 (550)
.-.|+.+|...+ .+....|+.|+.++ |+..+.+...++.- .....++....+ . .+.++=++ .
T Consensus 39 gk~v~~lF~e~S---tRTR~SFe~A~~~L----Gg~~i~~~~~~s~~~k~Esl~Dtar~ls~~-~--D~iv~R~~----~ 104 (142)
T PF02729_consen 39 GKTVALLFFEPS---TRTRLSFEAAANRL----GGHVIYLDPSTSSLGKGESLEDTARVLSRY-V--DAIVIRHP----S 104 (142)
T ss_dssp TCEEEEEESS-----HHHHHHHHHHHHHT----TCEEEEEETTTSSTTTSSEHHHHHHHHHHH-C--SEEEEEES----S
T ss_pred CCEEEEEecCCC---chhhhhHHHhhhcc----eeEEEEECcccccCcCCCCHHHHHHHHHHh-h--heEEEEec----c
Confidence 467888887764 68889999999998 56677766333322 223344444444 2 23333333 2
Q ss_pred HHHHHHhhccCCccEEeccC
Q 008863 110 TAVVAEIASRVQVPILSFAA 129 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~ 129 (550)
...+..++....+|+|..+.
T Consensus 105 ~~~~~~~a~~~~vPVINa~~ 124 (142)
T PF02729_consen 105 HGALEELAEHSSVPVINAGD 124 (142)
T ss_dssp HHHHHHHHHHCSSEEEEEEE
T ss_pred chHHHHHHHhccCCeEcCcC
Confidence 23455567777999998664
No 435
>PRK08286 cbiC cobalt-precorrin-8X methylmutase; Validated
Probab=30.52 E-value=90 Score=27.99 Aligned_cols=72 Identities=17% Similarity=0.198 Sum_probs=45.4
Q ss_pred hhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcC--CeEEEEc-CCChHHHHHHHHhhccCCccEE
Q 008863 49 KQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKE--KVKVIAG-METWEETAVVAEIASRVQVPIL 125 (550)
Q Consensus 49 ~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~--~v~aiiG-~~~s~~~~~v~~~~~~~~iP~i 125 (550)
.....|++.+.++. ++ . +++ -+|..+|+-.+++++.+. +...||| |...-.+.-....+...++|+|
T Consensus 118 TRsaaam~~a~~~~----~~-~--Ivv---IGNAPTAL~~l~~li~~g~~~PalVIG~PVGFV~AaEsKe~L~~~~iP~I 187 (214)
T PRK08286 118 TRSMAAVDIAAAEE----GP-K--LFV---FGNAPTALFRLLEMVEHGQLQVDAVVGVPVGFVGAAESKEALTESDLPAI 187 (214)
T ss_pred cHHHHHHHHHHhcc----CC-c--EEE---EeCcHHHHHHHHHHHHcCCCCCcEEEEeCCccccHHHHHHHHHhCCCCEE
Confidence 35667888888762 12 1 112 156678999999999742 4778887 5444333334444456789999
Q ss_pred eccCC
Q 008863 126 SFAAP 130 (550)
Q Consensus 126 s~~~~ 130 (550)
+.-..
T Consensus 188 t~~Gr 192 (214)
T PRK08286 188 AALGR 192 (214)
T ss_pred EEecC
Confidence 86544
No 436
>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=30.50 E-value=2.3e+02 Score=25.92 Aligned_cols=75 Identities=23% Similarity=0.243 Sum_probs=45.4
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
++++..+ +.|. ....+.+.+.+++.| ..+..... . . . .+....++++.+.+.+.|++..+... ..
T Consensus 2 I~~i~~~~~~~~~--~~~~~~i~~~~~~~g-~~~~~~~~--~-~----~-~~~~~~i~~~~~~~vdgiii~~~~~~--~~ 68 (266)
T cd06278 2 IGVVVADLDNPFY--SELLEALSRALQARG-YQPLLINT--D-D----D-EDLDAALRQLLQYRVDGVIVTSGTLS--SE 68 (266)
T ss_pred EEEEeCCCCCchH--HHHHHHHHHHHHHCC-CeEEEEcC--C-C----C-HHHHHHHHHHHHcCCCEEEEecCCCC--HH
Confidence 4555543 3455 667788888888888 77654321 1 1 2 25556777777778888887233322 23
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
.++.+.+.|+
T Consensus 69 ~~~~~~~~~i 78 (266)
T cd06278 69 LAEECRRNGI 78 (266)
T ss_pred HHHHHhhcCC
Confidence 4667776664
No 437
>PF13617 Lipoprotein_19: YnbE-like lipoprotein
Probab=30.39 E-value=73 Score=21.83 Aligned_cols=30 Identities=7% Similarity=-0.030 Sum_probs=13.1
Q ss_pred HHHHHHHHHHhccccccccCCCCCCCcEEEEEE
Q 008863 8 VLIIASELVFVSPGVESASTNVNIEEVTKIGAI 40 (550)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~IG~i 40 (550)
+++++++++.+|...-.-.. .+++|+|=.=
T Consensus 5 ~~~~~~~~l~gCtPtV~v~a---P~~PI~InlN 34 (59)
T PF13617_consen 5 LLLALALALTGCTPTVKVEA---PDKPITINLN 34 (59)
T ss_pred HHHHHHHHHccCCCeEEeec---CCCCEEEEEE
Confidence 34444455556643111111 2356776543
No 438
>cd08469 PBP2_PnbR The C-terminal substrate binding domain of LysR-type transcriptional regulator PnbR, which is involved in regulating the pnb genes encoding enzymes for 4-nitrobenzoate catabolism, contains the type 2 periplasmic binding fold. PnbR is the regulator of one or both of the two pnb genes that encoding enzymes for 4-nitrobenzoate catabolism. In Pseudomonas putida strain, pnbA encodes a 4-nitrobenzoate reductase, which is responsible for catalyzing the direct reduction of 4-nitrobenzoate to 4-hydroxylaminobenzoate, and pnbB encodes a 4-hydroxylaminobenzoate lyase, which catalyzes the conversion of 4-hydroxylaminobenzoate to 3, 4-dihydroxybenzoic acid and ammonium. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft bet
Probab=30.31 E-value=1e+02 Score=27.21 Aligned_cols=44 Identities=9% Similarity=-0.170 Sum_probs=29.8
Q ss_pred cchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEeec
Q 008863 489 GFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNYHD 535 (550)
Q Consensus 489 GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~~~ 535 (550)
.+...++.++.+... + .++....+.+..++..|.+|++|+|++.
T Consensus 13 ~~l~~~l~~f~~~~P-~--v~l~i~~~~~~~~~~~l~~g~~Di~i~~ 56 (221)
T cd08469 13 VLLPALVRRLETEAP-G--IDLRIRPVTRLDLAEQLDLGRIDLVIGI 56 (221)
T ss_pred HHHHHHHHHHHHHCC-C--cEEEEeeCChhhHHHHHHCCCccEEEec
Confidence 344455555555432 2 3444445678899999999999999974
No 439
>PRK14167 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=30.29 E-value=4.9e+02 Score=24.86 Aligned_cols=139 Identities=12% Similarity=0.044 Sum_probs=84.1
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc--CC--ChHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG--ME--TWEET 110 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG--~~--~s~~~ 110 (550)
-+++++.--.......+.+..+-+.+++ |+..++..........+..+...++=+++.|++|+= |. .-...
T Consensus 32 P~LaiI~vg~d~as~~Yv~~k~k~~~~~-----Gi~~~~~~l~~~~~~~el~~~I~~lN~D~~V~GIlvq~PLP~~i~~~ 106 (297)
T PRK14167 32 PGLATVLMSDDPASETYVSMKQRDCEEV-----GIEAIDVEIDPDAPAEELYDTIDELNADEDVHGILVQMPVPDHVDDR 106 (297)
T ss_pred ceEEEEEeCCCHHHHHHHHHHHHHHHHc-----CCEEEEEECCCCCCHHHHHHHHHHHhCCCCCCEEEEcCCCCCCCCHH
Confidence 4677777555333456667777777776 788888777766666667777777766777888874 32 22333
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcC----CeEEEEEEEcCCCCCcchhH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN----WRRVAAIYEDNVYGGDSGKL 186 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~----w~~v~ii~~~~~~g~~~~~~ 186 (550)
..+..+.-...+=-+++... ...... . +. ..|- .+.++.++|++|+ -+++++|....--| .-++
T Consensus 107 ~i~~~I~p~KDVDGl~~~n~--g~l~~g-~-~~---~~Pc---Tp~avi~lL~~~~i~l~Gk~vvViGrS~iVG--kPla 174 (297)
T PRK14167 107 EVLRRIDPAKDVDGFHPENV--GRLVAG-D-AR---FKPC---TPHGIQKLLAAAGVDTEGADVVVVGRSDIVG--KPMA 174 (297)
T ss_pred HHHhccCcccCcccCChhhh--HHHhCC-C-CC---CCCC---CHHHHHHHHHHhCCCCCCCEEEEECCCcccH--HHHH
Confidence 34444555555544443322 111111 1 21 2354 6789999998874 48999998877777 5544
Q ss_pred HHHH
Q 008863 187 ALLA 190 (550)
Q Consensus 187 ~~l~ 190 (550)
..|.
T Consensus 175 ~lL~ 178 (297)
T PRK14167 175 NLLI 178 (297)
T ss_pred HHHh
Confidence 4443
No 440
>cd08440 PBP2_LTTR_like_4 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold. LysR-transcriptional regulators comprise the largest family of prokaryotic transcription factor. Homologs of some of LTTRs with similar domain organizations are also found in the archaea and eukaryotic organisms. The LTTRs are composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. The genes controlled by the LTTRs have diverse funct
Probab=30.02 E-value=1.4e+02 Score=25.22 Aligned_cols=45 Identities=9% Similarity=-0.000 Sum_probs=32.9
Q ss_pred cchHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEeece
Q 008863 489 GFSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNYHDK 536 (550)
Q Consensus 489 GfciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~~~~ 536 (550)
.+-.+++.++.+... + +++....+..+.++..|.+|++|+|+...
T Consensus 13 ~~l~~~l~~~~~~~p-~--v~i~i~~~~~~~~~~~l~~g~~D~~i~~~ 57 (197)
T cd08440 13 TLLPPVLAAFRRRHP-G--IRVRLRDVSAEQVIEAVRSGEVDFGIGSE 57 (197)
T ss_pred hHHHHHHHHHHHhCC-C--cEEEEEeCChHHHHHHHHcCCccEEEEeC
Confidence 455688888877643 3 33444456788999999999999999854
No 441
>PRK09492 treR trehalose repressor; Provisional
Probab=30.01 E-value=4.8e+02 Score=24.68 Aligned_cols=115 Identities=8% Similarity=0.033 Sum_probs=59.8
Q ss_pred EEEEEEec-C-CccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHH
Q 008863 36 KIGAIVDA-N-SQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (550)
Q Consensus 36 ~IG~i~~~-~-~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v 113 (550)
+||.+... . ...+..-..|++.|+++. |.++.. .....+...+.+.+.+++. .++.||+..... .+..+
T Consensus 177 ~I~~i~~~~~~~~~~~~R~~Gf~~al~~~-----g~~~~~--~~~~~~~~~~~~~~~~~l~-~~~~ai~~~~D~-~A~g~ 247 (315)
T PRK09492 177 HISYLGVDHSDVTTGKRRHQAYLAFCKQH-----KLTPVA--ALGGLSMQSGYELVAKVLT-PETTALVCATDT-LALGA 247 (315)
T ss_pred eEEEEcCCcccchhHHHHHHHHHHHHHHc-----CCCcee--ecCCCCchHHHHHHHHHhh-cCCCEEEEcCcH-HHHHH
Confidence 56666421 1 112234456777777664 233222 1222333455566677775 578899976543 33334
Q ss_pred HHhhccC---CccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHH
Q 008863 114 AEIASRV---QVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR 163 (550)
Q Consensus 114 ~~~~~~~---~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~ 163 (550)
...+.+. ++.++++... +. .....|-+-.+..+...+++..+++|.
T Consensus 248 ~~al~~~g~~disvig~d~~---~~-~~~~~p~lttv~~~~~~~g~~A~~~l~ 296 (315)
T PRK09492 248 SKYLQEQGRDDIQVAGVGNT---PL-LKFLFPNILSVDPGYAEAGRQAAQQLI 296 (315)
T ss_pred HHHHHHcCCCceEEEeeCch---hH-hhhcCCCCceecccHHHHHHHHHHHHH
Confidence 4444444 4555555433 21 122234455566666777777777663
No 442
>PTZ00088 adenylate kinase 1; Provisional
Probab=29.95 E-value=54 Score=29.93 Aligned_cols=31 Identities=6% Similarity=0.119 Sum_probs=26.9
Q ss_pred EEEEcCCChHHHHHHHHhhccCCccEEeccC
Q 008863 99 KVIAGMETWEETAVVAEIASRVQVPILSFAA 129 (550)
Q Consensus 99 ~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~ 129 (550)
.+|+||.+|+-+.....+++.+++|+|+.+.
T Consensus 9 Ivl~G~PGsGK~T~a~~La~~~g~~~is~gd 39 (229)
T PTZ00088 9 IVLFGAPGVGKGTFAEILSKKENLKHINMGN 39 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEECCh
Confidence 6889999998888888899999999999653
No 443
>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=29.70 E-value=3.6e+02 Score=25.77 Aligned_cols=81 Identities=11% Similarity=0.118 Sum_probs=47.9
Q ss_pred CCeEEEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHH
Q 008863 166 NWRRVAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLD 243 (550)
Q Consensus 166 ~w~~v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~ 243 (550)
.-+.++++..+ +.|. ..+...+.+.+.+.| ..+..... .. +.......++.+.+.+.+.||+ .....
T Consensus 59 ~~~~Igvi~~~~~~~~~--~~~~~~i~~~~~~~g-y~~~i~~~-~~------~~~~~~~~~~~l~~~~vdgiIi-~~~~~ 127 (327)
T TIGR02417 59 RSRTIGLVIPDLENYSY--ARIAKELEQQCREAG-YQLLIACS-DD------NPDQEKVVIENLLARQVDALIV-ASCMP 127 (327)
T ss_pred CCceEEEEeCCCCCccH--HHHHHHHHHHHHHCC-CEEEEEeC-CC------CHHHHHHHHHHHHHcCCCEEEE-eCCCC
Confidence 34578888764 3454 667788888888888 77654321 11 1223345677777778888887 43221
Q ss_pred HHHHHHHHHHHcCC
Q 008863 244 MTIHLFTEANRMGL 257 (550)
Q Consensus 244 ~~~~il~~a~~~g~ 257 (550)
.....+..+.+.++
T Consensus 128 ~~~~~~~~l~~~~i 141 (327)
T TIGR02417 128 PEDAYYQKLQNEGL 141 (327)
T ss_pred CChHHHHHHHhcCC
Confidence 12344556666554
No 444
>PRK14171 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=29.64 E-value=5e+02 Score=24.70 Aligned_cols=147 Identities=10% Similarity=0.039 Sum_probs=85.9
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc--CC--ChHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG--ME--TWEET 110 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG--~~--~s~~~ 110 (550)
-+++++.--.......+.+.-.-+.+++ |+..+....+...+..+..+...++=.++.|++|+= |. .....
T Consensus 33 P~LaiI~vg~d~as~~Yv~~k~k~a~~~-----Gi~~~~~~l~~~~~~~~l~~~I~~LN~D~~V~GIlvqlPLP~~id~~ 107 (288)
T PRK14171 33 PKLAIVLVGDNPASIIYVKNKIKNAHKI-----GIDTLLVNLSTTIHTNDLISKINELNLDNEISGIIVQLPLPSSIDKN 107 (288)
T ss_pred CeEEEEEeCCCccHHHHHHHHHHHHHHc-----CCEEEEEECCCCCCHHHHHHHHHHHcCCCCCCEEEEeCCCCCCCCHH
Confidence 3566666544333455656666666665 788888777776777777777777766677888774 32 22333
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcC----CeEEEEEEEcCCCCCcchhH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN----WRRVAAIYEDNVYGGDSGKL 186 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~----w~~v~ii~~~~~~g~~~~~~ 186 (550)
..+..+.-...+=-+++... ..... ...+. +.|- ...++.++|++|+ -+++++|....--| .-
T Consensus 108 ~i~~~I~p~KDVDGl~~~N~--g~l~~-g~~~~---~~Pc---Tp~av~~lL~~y~i~l~GK~vvViGrS~iVG--kP-- 174 (288)
T PRK14171 108 KILSAVSPSKDIDGFHPLNV--GYLHS-GISQG---FIPC---TALGCLAVIKKYEPNLTGKNVVIIGRSNIVG--KP-- 174 (288)
T ss_pred HHHhccCcccccccCCccch--hhhhc-CCCCC---CcCC---CHHHHHHHHHHhCCCCCCCEEEEECCCCcch--HH--
Confidence 44444444555544443322 11111 11122 2344 5678999999875 47899998877777 44
Q ss_pred HHHHHHHhcCCCeEEE
Q 008863 187 ALLAEALQNVSSSEIQ 202 (550)
Q Consensus 187 ~~l~~~l~~~g~~~v~ 202 (550)
+...|.+.+ -+|.
T Consensus 175 --la~lL~~~~-ATVt 187 (288)
T PRK14171 175 --LSALLLKEN-CSVT 187 (288)
T ss_pred --HHHHHHHCC-CEEE
Confidence 444455556 5554
No 445
>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=29.62 E-value=4.7e+02 Score=25.49 Aligned_cols=84 Identities=12% Similarity=-0.020 Sum_probs=51.1
Q ss_pred HHHHHHHHH-HcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 155 MKCIADLAR-KYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 155 ~~al~~~l~-~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
...+.++++ ..+.+++.+|++...+ ....+.+.+.+++.+ ....+ +.+.. ..+.....++.+++.++|
T Consensus 12 l~~l~~~l~~~~~~~~~liv~d~~~~---~~~~~~v~~~l~~~~-~~~~~---~~~~~----~~~~v~~~~~~~~~~~~d 80 (339)
T cd08173 12 LEKIPNVLRDLLLGGRVLVVTGPTTK---SIAGKKVEALLEDEG-EVDVV---IVEDA----TYEEVEKVESSARDIGAD 80 (339)
T ss_pred HHHHHHHHHHhCCCCeEEEEECCchH---HHHHHHHHHHHHhcC-CeEEE---EeCCC----CHHHHHHHHHHhhhcCCC
Confidence 344667776 4577899999865442 345677777887664 22222 22221 446777888888888899
Q ss_pred EEEEEcCC--HHHHHHHHH
Q 008863 234 VFIVLQAS--LDMTIHLFT 250 (550)
Q Consensus 234 ~ii~~~~~--~~~~~~il~ 250 (550)
.||- .+. .-++..++.
T Consensus 81 ~iIa-iGGGs~~D~aK~~a 98 (339)
T cd08173 81 FVIG-VGGGRVIDVAKVAA 98 (339)
T ss_pred EEEE-eCCchHHHHHHHHH
Confidence 8886 333 234444443
No 446
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=29.60 E-value=4.8e+02 Score=24.54 Aligned_cols=119 Identities=14% Similarity=0.074 Sum_probs=65.3
Q ss_pred EEEEEEEecCC-ccchhHHHHHHHHHHHHhcCCCCcEEEE-EEecCCCCHHHHHHHHHHhhhc-CCeEEEEcCCChHHHH
Q 008863 35 TKIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSL-QIRDHNRDPFQAATAAQELINK-EKVKVIAGMETWEETA 111 (550)
Q Consensus 35 i~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~~~l~~-~~~d~~~~~~~a~~~~~~li~~-~~v~aiiG~~~s~~~~ 111 (550)
=+|+++.+... .....-..||+.++++. +.++.. .+.....+...+.+.+.+++.. ....+|+.... ..+.
T Consensus 153 ~~I~~l~~~~~~~~~~~R~~Gf~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d-~~a~ 226 (309)
T PRK11041 153 KRIACIAGPEEMPLCHYRLQGYVQALRRC-----GITVDPQYIARGDFTFEAGAKALKQLLDLPQPPTAVFCHSD-VMAL 226 (309)
T ss_pred ceEEEEeCCccccchHHHHHHHHHHHHHc-----CCCCCHHHeEeCCCCHHHHHHHHHHHHcCCCCCCEEEEcCc-HHHH
Confidence 46787765442 22334568888888763 222221 1122334555677777788753 24788887533 3443
Q ss_pred HHHHhhccCCc------cEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHH
Q 008863 112 VVAEIASRVQV------PILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLAR 163 (550)
Q Consensus 112 ~v~~~~~~~~i------P~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~ 163 (550)
.+...+.+.++ -++++... +.. ....|.+..+..+...++...++++.
T Consensus 227 gv~~al~~~g~~ip~di~vvg~D~~---~~~-~~~~~~~~ti~~~~~~~g~~av~~l~ 280 (309)
T PRK11041 227 GALSQAKRMGLRVPQDLSIIGFDDI---DLA-QYCDPPLTTVAQPRYEIGREAMLLLL 280 (309)
T ss_pred HHHHHHHHcCCCCCcceEEEEeCCc---hhh-hhcCCCceEEecCHHHHHHHHHHHHH
Confidence 45555555554 35555543 211 12234455677777777777776653
No 447
>PRK14189 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=29.58 E-value=5e+02 Score=24.67 Aligned_cols=172 Identities=11% Similarity=0.077 Sum_probs=99.6
Q ss_pred cEEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEc--CC--ChHH
Q 008863 34 VTKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAG--ME--TWEE 109 (550)
Q Consensus 34 ~i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG--~~--~s~~ 109 (550)
.-+++++.--+......+.+.-.-+.+++ |+..+....+......+..+...++=.++.|++|+= |. ....
T Consensus 32 ~p~Laii~vg~d~as~~Yv~~k~k~~~~~-----Gi~~~~~~l~~~~~~~~l~~~I~~lN~d~~V~GIlvq~Plp~~i~~ 106 (285)
T PRK14189 32 QPGLAVILVGDNPASQVYVRNKVKACEDN-----GFHSLKDRYPADLSEAELLARIDELNRDPKIHGILVQLPLPKHIDS 106 (285)
T ss_pred CCeEEEEEeCCCchHHHHHHHHHHHHHHc-----CCEEEEEECCCCCCHHHHHHHHHHHcCCCCCCeEEEeCCCCCCCCH
Confidence 34777777655444456666676777776 788888877777777777777777766677877774 32 2223
Q ss_pred HHHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcC----CeEEEEEEEcCCCCCcchh
Q 008863 110 TAVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYN----WRRVAAIYEDNVYGGDSGK 185 (550)
Q Consensus 110 ~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~----w~~v~ii~~~~~~g~~~~~ 185 (550)
...+..+.-...+=-+++... ..... .. +. +.|- ...++.++|++|+ -+++++|....--|
T Consensus 107 ~~i~~~I~p~KDVDGl~~~n~--g~l~~-~~-~~---~~Pc---Tp~aii~lL~~~~i~l~Gk~vvViGrs~iVG----- 171 (285)
T PRK14189 107 HKVIEAIAPEKDVDGFHVANA--GALMT-GQ-PL---FRPC---TPYGVMKMLESIGIPLRGAHAVVIGRSNIVG----- 171 (285)
T ss_pred HHHHhhcCcccCcccCChhhh--hHhhC-CC-CC---CcCC---CHHHHHHHHHHcCCCCCCCEEEEECCCCccH-----
Confidence 333444444444444433322 11111 11 11 2354 5789999999875 47888888766666
Q ss_pred HHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCH
Q 008863 186 LALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL 242 (550)
Q Consensus 186 ~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~ 242 (550)
+-+...|.+.| .+|..... .+.++...+ .++|+||. ....
T Consensus 172 -kPla~lL~~~~-atVt~~hs---------~t~~l~~~~-----~~ADIVV~-avG~ 211 (285)
T PRK14189 172 -KPMAMLLLQAG-ATVTICHS---------KTRDLAAHT-----RQADIVVA-AVGK 211 (285)
T ss_pred -HHHHHHHHHCC-CEEEEecC---------CCCCHHHHh-----hhCCEEEE-cCCC
Confidence 44455555566 66654321 112332222 27889998 5553
No 448
>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein. This model identifies a cluster of ABC transporter periplasmic substrate binding proteins, apparently specific for taurine. Transport systems for taurine (NH2-CH2-CH2-SO3H), sulfonates, and sulfate esters import sulfur when sulfate levels are low. The most closely related proteins outside this family are putative aliphatic sulfonate binding proteins (TIGR01728).
Probab=29.55 E-value=60 Score=30.95 Aligned_cols=37 Identities=5% Similarity=-0.044 Sum_probs=29.2
Q ss_pred HHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEeecee
Q 008863 498 VVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNYHDKL 537 (550)
Q Consensus 498 la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~~~~t 537 (550)
+++.+|.+ +++++.+ +|..++..|..|++|+++.+.+
T Consensus 21 ~~k~~Gl~--Ve~~~~~-~~~~~~~al~~G~iD~~~~~~~ 57 (300)
T TIGR01729 21 AAKEAGAT--IDWRKFD-SGADISTALASGNVPIGVIGSS 57 (300)
T ss_pred hHHhcCCe--eEEEecC-cHHHHHHHHHcCCCCEeccCCC
Confidence 45567888 7887764 4889999999999999986543
No 449
>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=29.46 E-value=2.4e+02 Score=25.86 Aligned_cols=76 Identities=13% Similarity=0.183 Sum_probs=45.8
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
++++..+ +.|. ..+.+.+.+.+++.| .++..... .. +.......++.+.+.+.|.|++....... .
T Consensus 2 i~vi~~~~~~~~~--~~~~~gi~~~~~~~g-~~~~~~~~--~~-----~~~~~~~~i~~l~~~~~dgiii~~~~~~~--~ 69 (270)
T cd06296 2 IGLVFPDLDSPWA--SEVLRGVEEAAAAAG-YDVVLSES--GR-----RTSPERQWVERLSARRTDGVILVTPELTS--A 69 (270)
T ss_pred eEEEECCCCCccH--HHHHHHHHHHHHHcC-CeEEEecC--CC-----chHHHHHHHHHHHHcCCCEEEEecCCCCh--H
Confidence 4556644 4566 778888888888888 77654321 11 22344566777777788888772333222 3
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
.++.+.+.+.
T Consensus 70 ~~~~~~~~~i 79 (270)
T cd06296 70 QRAALRRTGI 79 (270)
T ss_pred HHHHHhcCCC
Confidence 4666666654
No 450
>PRK13733 conjugal transfer protein TraV; Provisional
Probab=29.21 E-value=40 Score=28.67 Aligned_cols=21 Identities=19% Similarity=0.368 Sum_probs=13.5
Q ss_pred CcchhHHHHHHHHHHHHhccc
Q 008863 1 MNRFFFLVLIIASELVFVSPG 21 (550)
Q Consensus 1 M~r~~~~~~~~~~~~~~~~~~ 21 (550)
||+..+++++..+|+|.+|.+
T Consensus 1 MK~~~~li~l~~~LlL~GCAg 21 (171)
T PRK13733 1 MKQISLLIPLLGTLLLSGCAG 21 (171)
T ss_pred CchhhHHHHHHHHHHhccccC
Confidence 887766666655556666654
No 451
>PF08194 DIM: DIM protein; InterPro: IPR013172 Drosophila immune-induced molecules (DIMs) are short proteins induced during the immune response of Drosophila []. This entry includes DIMs 1 to 4 and DIM23.
Probab=29.15 E-value=1e+02 Score=18.62 Aligned_cols=7 Identities=14% Similarity=-0.007 Sum_probs=4.0
Q ss_pred CcEEEEE
Q 008863 33 EVTKIGA 39 (550)
Q Consensus 33 ~~i~IG~ 39 (550)
+++.|.+
T Consensus 24 G~ViING 30 (36)
T PF08194_consen 24 GNVIING 30 (36)
T ss_pred CeEEECc
Confidence 4666643
No 452
>PRK15088 PTS system mannose-specific transporter subunits IIAB; Provisional
Probab=29.15 E-value=3.8e+02 Score=25.94 Aligned_cols=81 Identities=7% Similarity=0.003 Sum_probs=55.0
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
.++.+..|.++++.+++.++-+.-.- ..+.+.+-....-.| +++.... .++....+.+-+..+.+
T Consensus 176 HGQV~~~W~~~~~~~~IiVvdD~vA~---D~~~k~~lk~A~P~g-vk~~i~s-----------v~~a~~~l~~~~~~~~~ 240 (322)
T PRK15088 176 HGQVATRWTKETNVSRIIVVSDEVAA---DTVRKTLLTQVAPPG-VTAHVVD-----------VAKMIRVYNNPKYAGER 240 (322)
T ss_pred hHHHHHHHhhccCCCEEEEeCccccC---CHHHHHHHHhcCCCC-CeEEEEE-----------HHHHHHHHhCCCCCCCe
Confidence 45667789999999999888765542 446666666666667 7765432 14444555544444667
Q ss_pred EEEEEcCCHHHHHHHHH
Q 008863 234 VFIVLQASLDMTIHLFT 250 (550)
Q Consensus 234 ~ii~~~~~~~~~~~il~ 250 (550)
++++ .-++.++..+++
T Consensus 241 vlil-~k~p~d~~~l~~ 256 (322)
T PRK15088 241 VMLL-FTNPTDVERLVE 256 (322)
T ss_pred EEEE-ECCHHHHHHHHH
Confidence 8888 999998888865
No 453
>KOG0259 consensus Tyrosine aminotransferase [Amino acid transport and metabolism]
Probab=29.11 E-value=2.3e+02 Score=27.93 Aligned_cols=76 Identities=14% Similarity=0.203 Sum_probs=50.6
Q ss_pred hHHHHHHHHHHHHhcCC-------CCc----------EEEEEEec--CCCCHHHHHHHHHHhhhcCCeEEEE--cC----
Q 008863 50 QAITAMKIAVQNFNSDS-------RNH----------KLSLQIRD--HNRDPFQAATAAQELINKEKVKVIA--GM---- 104 (550)
Q Consensus 50 ~~~~a~~~Av~~iN~~~-------~~~----------~l~~~~~d--~~~~~~~a~~~~~~li~~~~v~aii--G~---- 104 (550)
.-.+|++++++-+-+-+ ||+ .|++..+| .+.+-..-+.....++. ++.+|++ -|
T Consensus 134 GC~qAIe~~i~~LA~p~aNILlPrPGfp~Y~~~a~~~~lEVR~ydlLPe~~weIDL~~veal~D-ENT~AivviNP~NPc 212 (447)
T KOG0259|consen 134 GCSQAIELAISSLANPGANILLPRPGFPLYDTRAIYSGLEVRYYDLLPEKDWEIDLDGVEALAD-ENTVAIVVINPNNPC 212 (447)
T ss_pred cchHHHHHHHHHhcCCCCceecCCCCCchHHHhhhhcCceeEeecccCcccceechHHHHHhhc-cCeeEEEEeCCCCCC
Confidence 34578888888775444 343 47777776 44555566777777876 5665555 22
Q ss_pred --CCh-HHHHHHHHhhccCCccEEe
Q 008863 105 --ETW-EETAVVAEIASRVQVPILS 126 (550)
Q Consensus 105 --~~s-~~~~~v~~~~~~~~iP~is 126 (550)
..+ .....++..|.+++|++|+
T Consensus 213 GnVys~~HL~kiae~A~klgi~vIa 237 (447)
T KOG0259|consen 213 GNVYSEDHLKKIAETAKKLGIMVIA 237 (447)
T ss_pred cccccHHHHHHHHHHHHHhCCeEEe
Confidence 223 3445789999999999997
No 454
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=28.96 E-value=62 Score=26.51 Aligned_cols=31 Identities=13% Similarity=0.261 Sum_probs=24.6
Q ss_pred eEEEEcCCChHHHHHHHHhhccCCccEEecc
Q 008863 98 VKVIAGMETWEETAVVAEIASRVQVPILSFA 128 (550)
Q Consensus 98 v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~ 128 (550)
++.++|+..++=+.-+..++...+.++|+..
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~~~~~~i~~D 31 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKRLGAVVISQD 31 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHSTEEEEEHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHCCCEEEeHH
Confidence 5678899888877777888888888888754
No 455
>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=28.95 E-value=4.1e+02 Score=23.52 Aligned_cols=88 Identities=14% Similarity=0.050 Sum_probs=53.2
Q ss_pred eEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCC----HH
Q 008863 168 RRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQAS----LD 243 (550)
Q Consensus 168 ~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~----~~ 243 (550)
.++.+..-..+ .|.-....+...++..| +++.. +... ......++.+++.++++|.+ .+. ..
T Consensus 83 ~~vl~~~~~gd--~H~lG~~~v~~~l~~~G-~~vi~---lG~~-------~p~~~l~~~~~~~~~d~v~l-S~~~~~~~~ 148 (201)
T cd02070 83 GKVVIGTVEGD--IHDIGKNLVATMLEANG-FEVID---LGRD-------VPPEEFVEAVKEHKPDILGL-SALMTTTMG 148 (201)
T ss_pred CeEEEEecCCc--cchHHHHHHHHHHHHCC-CEEEE---CCCC-------CCHHHHHHHHHHcCCCEEEE-eccccccHH
Confidence 35544444434 22445778888899999 88743 2221 23345666777779999988 542 34
Q ss_pred HHHHHHHHHHHcCCCCCCEEEEEecc
Q 008863 244 MTIHLFTEANRMGLVGKDSVWIVTNT 269 (550)
Q Consensus 244 ~~~~il~~a~~~g~~~~~~~~i~~~~ 269 (550)
.+..+++++++.+....-.++++...
T Consensus 149 ~~~~~i~~lr~~~~~~~~~i~vGG~~ 174 (201)
T cd02070 149 GMKEVIEALKEAGLRDKVKVMVGGAP 174 (201)
T ss_pred HHHHHHHHHHHCCCCcCCeEEEECCc
Confidence 56677778888765333345565444
No 456
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=28.88 E-value=4.9e+02 Score=24.36 Aligned_cols=91 Identities=15% Similarity=0.140 Sum_probs=52.3
Q ss_pred ecCcHHhHHHHHHH-HHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHH
Q 008863 148 ASNDSEQMKCIADL-ARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKK 226 (550)
Q Consensus 148 ~p~~~~~~~al~~~-l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~ 226 (550)
.|. ..-+++++++ +....-++|.++-.+ .....+.+.|.+.| ..|.....|..... . ... ..+..
T Consensus 119 ~P~-~~~se~Ll~l~~~~~~g~~vLi~rg~-------~gr~~L~~~L~~~G-~~V~~~~vY~~~~~-~-~~~---~~~~~ 184 (266)
T PRK08811 119 RPT-RMDSEGLLALPLAQAPLQAVGLITAP-------GGRGLLAPTLQQRG-ARILRADVYQRVPL-R-LRA---STLAA 184 (266)
T ss_pred CCC-CCCcHHHHhChhhhCCCCEEEEEeCC-------CcHHHHHHHHHHCC-CEEeEEEEEeeeCC-C-CCH---HHHHH
Confidence 344 3557888887 444445677766643 23478889999999 88877665543220 0 111 23334
Q ss_pred hh-cCCCeEEEEEcCCHHHHHHHHHHHHH
Q 008863 227 VQ-DKQSRVFIVLQASLDMTIHLFTEANR 254 (550)
Q Consensus 227 i~-~~~~~~ii~~~~~~~~~~~il~~a~~ 254 (550)
+. +...++++ ..+++.+..+++.+.+
T Consensus 185 l~~~~~~d~i~--ftS~sav~~f~~~l~~ 211 (266)
T PRK08811 185 LSRAAPRSVLA--LSSAEALTLILQQLPD 211 (266)
T ss_pred HHHhCCCCEEE--EChHHHHHHHHHHhhh
Confidence 42 32444444 4667777777766543
No 457
>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=28.83 E-value=3e+02 Score=25.29 Aligned_cols=78 Identities=9% Similarity=0.063 Sum_probs=44.8
Q ss_pred EEEEEEcC--CCCCcchhHHHHHHHHhcC-CCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHH
Q 008863 170 VAAIYEDN--VYGGDSGKLALLAEALQNV-SSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTI 246 (550)
Q Consensus 170 v~ii~~~~--~~g~~~~~~~~l~~~l~~~-g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~ 246 (550)
++++..+. .|. ..+...+.+.+.+. | ..+..... .. +..+....++.+...+++.|++.....+...
T Consensus 2 ig~~~~~~~~~~~--~~~~~~i~~~~~~~~g-~~~~~~~~-~~------~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 71 (270)
T cd06308 2 IGFSQCNLADPWR--AAMNDEIQREASNYPD-VELIIADA-AD------DNSKQVADIENFIRQGVDLLIISPNEAAPLT 71 (270)
T ss_pred EEEEeeCCCCHHH--HHHHHHHHHHHHhcCC-cEEEEEcC-CC------CHHHHHHHHHHHHHhCCCEEEEecCchhhch
Confidence 55666542 344 56677777878875 7 76654321 11 2234456667776778888888233333334
Q ss_pred HHHHHHHHcCC
Q 008863 247 HLFTEANRMGL 257 (550)
Q Consensus 247 ~il~~a~~~g~ 257 (550)
..+..+.+.|+
T Consensus 72 ~~~~~~~~~~i 82 (270)
T cd06308 72 PVVEEAYRAGI 82 (270)
T ss_pred HHHHHHHHCCC
Confidence 56666666664
No 458
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=28.73 E-value=2.2e+02 Score=26.86 Aligned_cols=52 Identities=13% Similarity=0.128 Sum_probs=37.4
Q ss_pred EecCCCCHHHH-HHHHHHhhhcCCeEEEEcCCChHHHHHHHHhhccCCccEEe
Q 008863 75 IRDHNRDPFQA-ATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILS 126 (550)
Q Consensus 75 ~~d~~~~~~~a-~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is 126 (550)
+.|+-|+.-.- .+++.+|..+-.+..|+|+..|+.+..+..+|...+.|..-
T Consensus 188 v~~TIC~aT~~RQ~a~~~La~~vD~miVVGg~~SsNT~rL~eia~~~~~~t~~ 240 (281)
T PRK12360 188 FFNTICSATKKRQESAKELSKEVDVMIVIGGKHSSNTQKLVKICEKNCPNTFH 240 (281)
T ss_pred cCCCcchhhhhHHHHHHHHHHhCCEEEEecCCCCccHHHHHHHHHHHCCCEEE
Confidence 35666655433 33455666556788999999999999999999998866443
No 459
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=28.71 E-value=3.3e+02 Score=27.26 Aligned_cols=73 Identities=15% Similarity=0.143 Sum_probs=48.0
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCe
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSR 233 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~ 233 (550)
+++--+.+....+-++|++|.-|.- = .+..+.|+.+.+-.| +.+... .+ -.++...+..+++. |
T Consensus 220 lAKLAar~~~~~~~~kVaiITtDtY-R--IGA~EQLk~Ya~im~-vp~~vv--~~--------~~el~~ai~~l~~~--d 283 (407)
T COG1419 220 LAKLAARYVMLKKKKKVAIITTDTY-R--IGAVEQLKTYADIMG-VPLEVV--YS--------PKELAEAIEALRDC--D 283 (407)
T ss_pred HHHHHHHHHhhccCcceEEEEeccc-h--hhHHHHHHHHHHHhC-CceEEe--cC--------HHHHHHHHHHhhcC--C
Confidence 3333334443457789999998752 2 557888999988888 655432 22 25777777777654 8
Q ss_pred EEEEEcCCHH
Q 008863 234 VFIVLQASLD 243 (550)
Q Consensus 234 ~ii~~~~~~~ 243 (550)
+|++ +.-+.
T Consensus 284 ~ILV-DTaGr 292 (407)
T COG1419 284 VILV-DTAGR 292 (407)
T ss_pred EEEE-eCCCC
Confidence 8988 65443
No 460
>COG3017 LolB Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]
Probab=28.55 E-value=54 Score=28.86 Aligned_cols=23 Identities=35% Similarity=0.492 Sum_probs=13.5
Q ss_pred CcchhHHHHHHHHHHHHhccccc
Q 008863 1 MNRFFFLVLIIASELVFVSPGVE 23 (550)
Q Consensus 1 M~r~~~~~~~~~~~~~~~~~~~~ 23 (550)
|+|..++++.++++++.+|+..+
T Consensus 4 ~~~~~~~l~~~As~LL~aC~~~~ 26 (206)
T COG3017 4 MKRLLFLLLALASLLLTACTLTA 26 (206)
T ss_pred HHHHHHHHHHHHHHHHHhccCcC
Confidence 34445555666666777776633
No 461
>PF13362 Toprim_3: Toprim domain
Probab=28.36 E-value=2.1e+02 Score=21.53 Aligned_cols=51 Identities=18% Similarity=0.114 Sum_probs=36.0
Q ss_pred CCeEEEEEEEcCCC--CCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHH
Q 008863 166 NWRRVAAIYEDNVY--GGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKK 226 (550)
Q Consensus 166 ~w~~v~ii~~~~~~--g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~ 226 (550)
.++++.|..++|.. | ......+.+.+.+.| ..+..... ++ ...|+...+++
T Consensus 40 ~~~~vii~~D~D~~~~G--~~~a~~~~~~~~~~g-~~~~~~~p-~~------~g~D~ND~l~~ 92 (96)
T PF13362_consen 40 PGRRVIIAADNDKANEG--QKAAEKAAERLEAAG-IAVSIVEP-GP------EGKDWNDLLQA 92 (96)
T ss_pred CCCeEEEEECCCCchhh--HHHHHHHHHHHHhCC-CeEEEECC-CC------CCchHHHHHHh
Confidence 67889888888877 8 888888999999888 76654332 11 23477666654
No 462
>cd08446 PBP2_Chlorocatechol The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold. This CD includes the substrate binding domain of LysR-type regulators CbnR, ClcR and TfdR, which are involved in the regulation of chlorocatechol breakdown. The chlorocatechol-degradative pathway is often found in bacteria that can use chlorinated aromatic compounds as carbon and energy sources. CbnR is found in the 3-chlorobenzoate degradative bacterium Ralstonia eutropha NH9 and forms a tetramer. CbnR activates the expression of the cbnABCD genes, which are responsible for the degradation of chlorocatechol converted from 3-chlorobenzoate and are transcribed divergently from cbnR. In soil bacterium Pseudomonas putida, the 3-chlorocatechol-degradative pathway is encoded by clcABD operon, which requires the divergently transcribed clcR for activation. TfdR is involved in the activation of tf
Probab=28.29 E-value=1.6e+02 Score=25.17 Aligned_cols=43 Identities=14% Similarity=0.100 Sum_probs=31.1
Q ss_pred chHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEeec
Q 008863 490 FSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNYHD 535 (550)
Q Consensus 490 fciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~~~ 535 (550)
+..+++.++.+... + .++....+.+..+...|.+|++|+|+..
T Consensus 15 ~l~~~i~~~~~~~P-~--v~l~i~~~~~~~~~~~l~~~~~Dl~i~~ 57 (198)
T cd08446 15 TVPRLLRAFLTARP-D--VTVSLHNMTKDEQIEALRAGRIHIGFGR 57 (198)
T ss_pred HHHHHHHHHHHHCC-C--eEEEEeeCCHHHHHHHHHCCCccEEEEe
Confidence 44566777765542 3 4444456789999999999999999964
No 463
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=28.24 E-value=1.9e+02 Score=21.37 Aligned_cols=43 Identities=19% Similarity=0.247 Sum_probs=26.0
Q ss_pred HHHHHHhhhcCCeE-EEEcCCChH-HHHHHHHhhccCCccEEecc
Q 008863 86 ATAAQELINKEKVK-VIAGMETWE-ETAVVAEIASRVQVPILSFA 128 (550)
Q Consensus 86 ~~~~~~li~~~~v~-aiiG~~~s~-~~~~v~~~~~~~~iP~is~~ 128 (550)
.+.+.+.+.+.++. +|+...+++ ....+..+|+.++||++.+.
T Consensus 16 ~~~v~kai~~gkaklViiA~D~~~~~~~~i~~~c~~~~Vp~~~~~ 60 (82)
T PRK13602 16 TKQTVKALKRGSVKEVVVAEDADPRLTEKVEALANEKGVPVSKVD 60 (82)
T ss_pred HHHHHHHHHcCCeeEEEEECCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence 34444555433443 444444443 44468888999999998876
No 464
>PRK13054 lipid kinase; Reviewed
Probab=28.23 E-value=3.5e+02 Score=25.82 Aligned_cols=76 Identities=9% Similarity=0.057 Sum_probs=44.9
Q ss_pred eEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 168 RRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 168 ~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
+++.+|+-...-+ ......+...+.+.| ..+....+-.. .+...+.++....+.+.|++ .+....+..
T Consensus 4 ~~~~~i~N~~~~~--~~~~~~~~~~l~~~g-~~~~v~~t~~~--------~~a~~~a~~~~~~~~d~vvv-~GGDGTl~e 71 (300)
T PRK13054 4 PKSLLILNGKSAG--NEELREAVGLLREEG-HTLHVRVTWEK--------GDAARYVEEALALGVATVIA-GGGDGTINE 71 (300)
T ss_pred ceEEEEECCCccc--hHHHHHHHHHHHHcC-CEEEEEEecCC--------CcHHHHHHHHHHcCCCEEEE-ECCccHHHH
Confidence 4666777544322 344555666788888 76544322111 34555666665567788888 666666667
Q ss_pred HHHHHHHc
Q 008863 248 LFTEANRM 255 (550)
Q Consensus 248 il~~a~~~ 255 (550)
++..+...
T Consensus 72 vv~~l~~~ 79 (300)
T PRK13054 72 VATALAQL 79 (300)
T ss_pred HHHHHHhh
Confidence 77766543
No 465
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=28.22 E-value=2e+02 Score=26.71 Aligned_cols=45 Identities=16% Similarity=0.319 Sum_probs=36.1
Q ss_pred hHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEE
Q 008863 185 KLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIV 237 (550)
Q Consensus 185 ~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~ 237 (550)
-++.|.+.|...| +.+....++.. +.+++.+.++...+. +|+||+
T Consensus 22 Na~~la~~L~~~G-~~v~~~~~VgD------~~~~I~~~l~~a~~r-~D~vI~ 66 (255)
T COG1058 22 NAAFLADELTELG-VDLARITTVGD------NPDRIVEALREASER-ADVVIT 66 (255)
T ss_pred hHHHHHHHHHhcC-ceEEEEEecCC------CHHHHHHHHHHHHhC-CCEEEE
Confidence 3677888999999 99888877764 447788888888776 999998
No 466
>PRK04284 ornithine carbamoyltransferase; Provisional
Probab=28.13 E-value=5.7e+02 Score=24.91 Aligned_cols=133 Identities=11% Similarity=0.105 Sum_probs=73.9
Q ss_pred EEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHHHH
Q 008863 36 KIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVVAE 115 (550)
Q Consensus 36 ~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~ 115 (550)
.++.+|...+ .+....|+.|+.++ +|..+.+...++.-.-.+.++.+...++.- +.+|+--.. ....+..
T Consensus 47 ~l~~lF~epS---TRTR~SFe~A~~~L----Gg~~i~l~~~~ss~~kgEsl~DTarvls~y-~D~iviR~~--~~~~~~~ 116 (332)
T PRK04284 47 NIALIFEKDS---TRTRCAFEVAAYDQ----GAHVTYLGPTGSQMGKKESTKDTARVLGGM-YDGIEYRGF--SQRTVET 116 (332)
T ss_pred EEEEEecCCC---hhHHHHHHHHHHHc----CCeEEEcCCccccCCCCcCHHHHHHHHHHh-CCEEEEecC--chHHHHH
Confidence 3676776653 68889999999998 455554433333222223444444444432 444443211 2223555
Q ss_pred hhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HH-cC-C--eEEEEEEEcCCCCCcchhHHH
Q 008863 116 IASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RK-YN-W--RRVAAIYEDNVYGGDSGKLAL 188 (550)
Q Consensus 116 ~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~-~~-w--~~v~ii~~~~~~g~~~~~~~~ 188 (550)
++....+|+|..... .. +| .++++|++ ++ +| + .+|+++.+- . ...+..
T Consensus 117 ~a~~s~vPVINa~~~--------~~-------HP-----tQaL~Dl~Ti~e~~~g~l~g~kia~vGD~-~----~~v~~S 171 (332)
T PRK04284 117 LAEYSGVPVWNGLTD--------ED-------HP-----TQVLADFLTAKEHLKKPYKDIKFTYVGDG-R----NNVANA 171 (332)
T ss_pred HHHhCCCCEEECCCC--------CC-------Ch-----HHHHHHHHHHHHHhcCCcCCcEEEEecCC-C----cchHHH
Confidence 666678999984321 11 22 36677764 44 33 2 477777642 1 125677
Q ss_pred HHHHHhcCCCeEEEEE
Q 008863 189 LAEALQNVSSSEIQSR 204 (550)
Q Consensus 189 l~~~l~~~g~~~v~~~ 204 (550)
+...+...| ..+...
T Consensus 172 l~~~~~~~g-~~v~~~ 186 (332)
T PRK04284 172 LMQGAAIMG-MDFHLV 186 (332)
T ss_pred HHHHHHHcC-CEEEEE
Confidence 777778888 776543
No 467
>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=28.13 E-value=4.6e+02 Score=23.84 Aligned_cols=117 Identities=12% Similarity=0.119 Sum_probs=55.8
Q ss_pred EEEEEEEecCC-ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHHHHHH
Q 008863 35 TKIGAIVDANS-QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEETAVV 113 (550)
Q Consensus 35 i~IG~i~~~~~-~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~~v 113 (550)
-+|+.+..... .....-..||+-++++. +.++... .....+...+.+.+..++....+.+|+.+.... +..+
T Consensus 117 ~~i~~i~~~~~~~~~~~r~~gf~~~l~~~-----~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~ai~~~~d~~-a~g~ 189 (264)
T cd01574 117 RTIAHVAGPEEWLSARARLAGWRAALEAA-----GIAPPPV-LEGDWSAESGYRAGRELLREGDPTAVFAANDQM-ALGV 189 (264)
T ss_pred CEEEEEecCCccchHHHHHHHHHHHHHHC-----CCCccee-eecCCCHHHHHHHHHHHHhCCCCcEEEEcCcHH-HHHH
Confidence 46666654332 11233446777776532 3333222 223334556666667777544478888764433 3334
Q ss_pred HHhhccCC--cc----EEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH
Q 008863 114 AEIASRVQ--VP----ILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA 162 (550)
Q Consensus 114 ~~~~~~~~--iP----~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l 162 (550)
...+.+.+ +| +++.... +.. ....|.+-.+..+...+++..++.+
T Consensus 190 ~~~~~~~g~~ip~~i~ii~~d~~---~~~-~~~~~~~~ti~~~~~~~g~~a~~~l 240 (264)
T cd01574 190 LRALHELGLRVPDDVSVVGFDDI---PES-AYFIPPLTTVRQDFAALGRRAVELL 240 (264)
T ss_pred HHHHHHcCCCCccceEEecccCc---hHH-hccCCCcceeeCCHHHHHHHHHHHH
Confidence 44444434 33 4554433 211 1112333334444555555555554
No 468
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=27.97 E-value=2.6e+02 Score=23.48 Aligned_cols=98 Identities=12% Similarity=0.120 Sum_probs=49.8
Q ss_pred EecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHH
Q 008863 147 MASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKK 226 (550)
Q Consensus 147 ~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~ 226 (550)
+.+.-..+++.+++++...+..--.++++.-.-. ...++.+.+.+.. . ..+.....+.+.. +..++...+++
T Consensus 23 Lt~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra--~qTa~~l~~~~~~-~-~~~~~~~~l~p~~----~~~~~~~~l~~ 94 (152)
T TIGR00249 23 LTTNGCDESRLVAQWLKGQGVEIERILVSPFVRA--EQTAEIVGDCLNL-P-SSAEVLEGLTPCG----DIGLVSDYLEA 94 (152)
T ss_pred cCHHHHHHHHHHHHHHHhCCCCCCEEEECCcHHH--HHHHHHHHHHcCC-C-cceEEccCcCCCC----CHHHHHHHHHH
Confidence 4555667888899999876544334444433222 2223333333221 1 1222222222211 33456677777
Q ss_pred hhcCCCeEEEEEcCCHHHHHHHHHHHH
Q 008863 227 VQDKQSRVFIVLQASLDMTIHLFTEAN 253 (550)
Q Consensus 227 i~~~~~~~ii~~~~~~~~~~~il~~a~ 253 (550)
+.+...+.+++ .+-......++..+.
T Consensus 95 ~~~~~~~~vli-VgH~P~i~~l~~~l~ 120 (152)
T TIGR00249 95 LTNEGVASVLL-VSHLPLVGYLVAELC 120 (152)
T ss_pred HHhcCCCEEEE-EeCCCCHHHHHHHHh
Confidence 76544455665 566666677776664
No 469
>COG3439 Uncharacterized conserved protein [Function unknown]
Probab=27.95 E-value=2.3e+02 Score=23.42 Aligned_cols=68 Identities=16% Similarity=0.196 Sum_probs=51.2
Q ss_pred chhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHh--hcCCCeEEEEEcCCHHHHHHHHHHHHHcCCCCC
Q 008863 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKV--QDKQSRVFIVLQASLDMTIHLFTEANRMGLVGK 260 (550)
Q Consensus 183 ~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i--~~~~~~~ii~~~~~~~~~~~il~~a~~~g~~~~ 260 (550)
.+..+.+.+.++++| ..|.... |..+.+++- ++..+-.|+. .|.+..+..++.+-.+.|+.-+
T Consensus 22 ~E~i~~l~~~lk~~G-~~V~~~i-------------d~~e~l~~~g~~~~~p~~Il~-~cnP~~g~~ll~~~p~~gl~lP 86 (137)
T COG3439 22 DETIERLEEKLKKNG-FKVFTEI-------------DHAEALKNAGVLDIPPYTILV-FCNPKAGTPLLSKNPEFGLLLP 86 (137)
T ss_pred HHHHHHHHHHHHhCC-CeEEEEe-------------cHHHHHHhcCcCCCCCeEEEE-EcCCcccchhhccChhhhccCC
Confidence 677899999999999 8776443 444555543 3446777777 9999999999999999998776
Q ss_pred CEEEE
Q 008863 261 DSVWI 265 (550)
Q Consensus 261 ~~~~i 265 (550)
-++.+
T Consensus 87 crv~V 91 (137)
T COG3439 87 CRVLV 91 (137)
T ss_pred eEEEE
Confidence 55544
No 470
>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=27.84 E-value=4e+02 Score=24.57 Aligned_cols=79 Identities=13% Similarity=0.083 Sum_probs=44.6
Q ss_pred EEEEEEcC----CCCCcchhHHHHHHHHhc-------CCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEE
Q 008863 170 VAAIYEDN----VYGGDSGKLALLAEALQN-------VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVL 238 (550)
Q Consensus 170 v~ii~~~~----~~g~~~~~~~~l~~~l~~-------~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~ 238 (550)
|+++.+.. .+| ......++..+.. .| .++.....-... +.......++++.+.+.++|+.
T Consensus 2 ig~~~p~sg~~~~~~--~~~~~g~~~a~~~~n~~gg~~g-~~v~~~~~d~~~-----~~~~~~~~~~~l~~~~v~~iig- 72 (298)
T cd06268 2 IGVLLPLSGPLAALG--EPVRNGAELAVEEINAAGGILG-RKIELVVEDTQG-----DPEAAAAAARELVDDGVDAVIG- 72 (298)
T ss_pred eeeeecCcCchhhcC--hhHHHHHHHHHHHHHhcCCCCC-eEEEEEEecCCC-----CHHHHHHHHHHHHhCCceEEEc-
Confidence 45555443 355 5566666665555 34 455444322211 2234456667777667888877
Q ss_pred cCCHHHHHHHHHHHHHcCC
Q 008863 239 QASLDMTIHLFTEANRMGL 257 (550)
Q Consensus 239 ~~~~~~~~~il~~a~~~g~ 257 (550)
..+......+...+.+.++
T Consensus 73 ~~~~~~~~~~~~~~~~~~i 91 (298)
T cd06268 73 PLSSGVALAAAPVAEEAGV 91 (298)
T ss_pred CCcchhHHhhHHHHHhCCC
Confidence 6655555667777777665
No 471
>TIGR00216 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming). Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response.
Probab=27.65 E-value=2.6e+02 Score=26.41 Aligned_cols=53 Identities=17% Similarity=0.136 Sum_probs=39.1
Q ss_pred EecCCCCHH-HHHHHHHHhhhcCCeEEEEcCCChHHHHHHHHhhccCCccEEec
Q 008863 75 IRDHNRDPF-QAATAAQELINKEKVKVIAGMETWEETAVVAEIASRVQVPILSF 127 (550)
Q Consensus 75 ~~d~~~~~~-~a~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~ 127 (550)
+.|+-|+.- .=.+++.+|..+-.+..|+|+..|+.+..+..+|...+.|..-.
T Consensus 187 ~~nTIC~AT~~RQ~a~~~la~~vD~miVVGg~nSsNT~rL~ei~~~~~~~t~~I 240 (280)
T TIGR00216 187 VFNTICYATQNRQDAVKELAPEVDLMIVIGGKNSSNTTRLYEIAEEHGPPSYLI 240 (280)
T ss_pred CCCCcccccHHHHHHHHHHHhhCCEEEEECCCCCchHHHHHHHHHHhCCCEEEE
Confidence 456666553 33445566666678889999999999999999999998775443
No 472
>PF02570 CbiC: Precorrin-8X methylmutase; InterPro: IPR003722 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 CbiC and CobH precorrin-8X methylmutase (also known as precorrin isomerase, 5.4.1.2 from EC), both as stand-alone enzymes and when CobJ forms part of a bifunctional enzyme. CobH and CbiC from the aerobic and anaerobic pathways, respectively, catalyse a methyl rearrangement in precorrin-8 that moves the methyl group from C-11 to C-12 to produce hydrogenobyrinic acid []. Hydrogenobyrinic acid now contains all the major framework alterations associated with corrin synthesis []. CobH and CbiC can sometimes be fused to other enzymes in the cobalamin pathway to make bifunctional enzymes: e.g., with CobJ/CibH (precorrin-3B C17-methylase/precorrin isomerase, IPR014422 from INTERPRO) and with CbiX (precorrin isomerase, IPR012067 from INTERPRO).; GO: 0016993 precorrin-8X methylmutase activity, 0009236 cobalamin biosynthetic process; PDB: 1V9C_B 1I1H_A 1F2V_A 1OU0_B 2AFV_A 2AFR_A 3E7D_D.
Probab=27.59 E-value=1.1e+02 Score=27.11 Aligned_cols=71 Identities=18% Similarity=0.193 Sum_probs=42.5
Q ss_pred hHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCC--eEEEEc-CCChHHHHHHHHhhccCCccEEe
Q 008863 50 QAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEK--VKVIAG-METWEETAVVAEIASRVQVPILS 126 (550)
Q Consensus 50 ~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~--v~aiiG-~~~s~~~~~v~~~~~~~~iP~is 126 (550)
+...|++.|.++.+.. -+ .+ +|..+|+-..++++.+.+ +..||| |..--.+......+...++|+|+
T Consensus 106 Rs~aa~~~a~~~~~~~----I~--vI----GNAPTAL~~ll~li~~~~~~PalVIg~PVGFV~A~ESKe~L~~~~vP~I~ 175 (198)
T PF02570_consen 106 RSAAAMRKAAKELPGA----IV--VI----GNAPTALFELLELIEEGGVRPALVIGVPVGFVGAAESKEALMQSGVPYIT 175 (198)
T ss_dssp HHHHHHHHHHCTTTTC----EE--EE----SS-HHHHHHHHHHHHTTT-TTSEEEE---SSSSHHHHHHHHHHSTS-EEE
T ss_pred HHHHHHHHHHHHcCCc----EE--EE----eCcHHHHHHHHHHHHhcCCCCcEEEECCCcccCcHHHHHHHHhCCCCEEE
Confidence 5556777777764321 11 11 567789999999997533 467777 55544444455556666999998
Q ss_pred ccCC
Q 008863 127 FAAP 130 (550)
Q Consensus 127 ~~~~ 130 (550)
.-.+
T Consensus 176 ~~G~ 179 (198)
T PF02570_consen 176 VRGR 179 (198)
T ss_dssp ESSS
T ss_pred EecC
Confidence 6544
No 473
>PRK00040 rpsP 30S ribosomal protein S16; Reviewed
Probab=27.46 E-value=1.1e+02 Score=22.30 Aligned_cols=34 Identities=24% Similarity=0.316 Sum_probs=25.9
Q ss_pred EEEeCCCCCCCCceEEEEeeC-----Ce-eeEEEEEeCCC
Q 008863 372 IRFKDGELLNADTLRIVNVVG-----KK-YKELDFWLPNF 405 (550)
Q Consensus 372 i~f~~~g~~~~~~~~i~~~~~-----~~-~~~vG~w~~~~ 405 (550)
|++...|....+.|.|+-.+. +. .+.+|+|+|..
T Consensus 4 IRL~R~G~k~~P~YrIVv~d~r~~RdGk~iE~lG~ydP~~ 43 (75)
T PRK00040 4 IRLARGGAKKRPFYRIVVADSRSPRDGRFIERVGFYNPLA 43 (75)
T ss_pred EhhhhCCCCCCCeEEEEEEecCCCCCCCceeEEeecCCCC
Confidence 566677888889999998763 33 57799999843
No 474
>cd08169 DHQ-like Dehydroquinate synthase-like which includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. Dehydroquinate synthase-like. This group contains dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. They exhibit the dehydroquinate synthase structural fold. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-Deoxystreptamine (DOS)-containing aminoglycoside antibiotics includes ne
Probab=27.36 E-value=6e+02 Score=24.88 Aligned_cols=102 Identities=11% Similarity=0.046 Sum_probs=56.6
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhc-CCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC---
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQN-VSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK--- 230 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~-~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~--- 230 (550)
...+.++++.++-+++.++++..-. ....+.+.+.+++ .+ +.+.......... +.+.+...+..+++.
T Consensus 11 l~~l~~~~~~~~~~k~livtd~~v~---~~~~~~v~~~L~~~~~-~~~~~~~~~e~~k----~~~~v~~~~~~~~~~~~~ 82 (344)
T cd08169 11 LESVESYTTRDLFDQYFFISDSGVA---DLIAHYIAEYLSKILP-VHILVIEGGEEYK----TFETVTRILERAIALGAN 82 (344)
T ss_pred HHHHHHHHHhcCCCeEEEEECccHH---HHHHHHHHHHHHhhcC-ceEEEeCCCCCCC----CHHHHHHHHHHHHHcCCC
Confidence 3445667777777899888876543 3466777777866 56 5443211122211 345566666777654
Q ss_pred CCeEEEEEcCC--HHHHHHHHHHHHHcCCCCCCEEEEEec
Q 008863 231 QSRVFIVLQAS--LDMTIHLFTEANRMGLVGKDSVWIVTN 268 (550)
Q Consensus 231 ~~~~ii~~~~~--~~~~~~il~~a~~~g~~~~~~~~i~~~ 268 (550)
+.+.||. .+. .-++..++......|+ .++-|-|+
T Consensus 83 r~d~IIa-iGGGsv~D~ak~vA~~~~rgi---p~i~VPTT 118 (344)
T cd08169 83 RRTAIVA-VGGGATGDVAGFVASTLFRGI---AFIRVPTT 118 (344)
T ss_pred CCcEEEE-ECCcHHHHHHHHHHHHhccCC---cEEEecCC
Confidence 4788886 333 2344445444333333 34555444
No 475
>cd08465 PBP2_ToxR The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold. In soil bacterium Burkholderia glumae, ToxR regulates the toxABCDE and toxFGHI operons in the presence of toxoflavin as a coinducer. Additionally, the expression of both operons requires a transcriptional activator, ToxJ, whose expression is regulated by the TofI or TofR quorum-sensing system. The biosynthesis of toxoflavin is suggested to be synthesized in a pathway common to the synthesis of riboflavin. The topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After
Probab=27.31 E-value=71 Score=27.71 Aligned_cols=43 Identities=9% Similarity=0.024 Sum_probs=30.3
Q ss_pred chHHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEeec
Q 008863 490 FSIELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNYHD 535 (550)
Q Consensus 490 fciDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~~~ 535 (550)
+-.+++.++.+. .-+ +++....+.++.++..|.+|++|+|+..
T Consensus 14 ~l~~~l~~f~~~-~P~--i~l~i~~~~~~~~~~~L~~g~~Dl~i~~ 56 (200)
T cd08465 14 VLPALMRQLRAE-APG--IDLAVSQASREAMLAQVADGEIDLALGV 56 (200)
T ss_pred hhhHHHHHHHHH-CCC--cEEEEecCChHhHHHHHHCCCccEEEec
Confidence 334566666443 223 4455556789999999999999999973
No 476
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=27.20 E-value=1.4e+02 Score=21.77 Aligned_cols=32 Identities=13% Similarity=0.241 Sum_probs=22.7
Q ss_pred CeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEE
Q 008863 167 WRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEI 201 (550)
Q Consensus 167 w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v 201 (550)
-++|.+.+|+|.-| +.....+.+.+...| +++
T Consensus 46 ~~~Vii~~D~D~~G--~~~a~~i~~~l~~~g-i~v 77 (81)
T PF13662_consen 46 VKEVIIAFDNDKAG--EKAAQKIAKKLLPLG-IRV 77 (81)
T ss_dssp -SEEEEEEESSHHH--HHHHHHHHHHHG-------
T ss_pred CceEEEEeCcCHHH--HHHHHHHHHHHHhhc-ccc
Confidence 58999999999888 888899999888777 654
No 477
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=27.18 E-value=1.9e+02 Score=26.75 Aligned_cols=71 Identities=10% Similarity=0.094 Sum_probs=44.0
Q ss_pred CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHHHHHHHHHcC
Q 008863 177 NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIHLFTEANRMG 256 (550)
Q Consensus 177 ~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~il~~a~~~g 256 (550)
+.|. ....+.+.+.+++.| .++.... ... +.......++.+...+.+.||+...........++++.+.+
T Consensus 11 ~~~~--~~~~~~~~~~a~~~g-~~~~~~~---~~~----~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~ 80 (273)
T cd06309 11 SPWR--TAETKSIKDAAEKRG-FDLKFAD---AQQ----KQENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAG 80 (273)
T ss_pred CHHH--HHHHHHHHHHHHhcC-CEEEEeC---CCC----CHHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCC
Confidence 3444 667788888888888 7776532 111 22344567777777788888872333333345667777766
Q ss_pred C
Q 008863 257 L 257 (550)
Q Consensus 257 ~ 257 (550)
+
T Consensus 81 i 81 (273)
T cd06309 81 I 81 (273)
T ss_pred C
Confidence 5
No 478
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=27.12 E-value=5.7e+02 Score=25.05 Aligned_cols=95 Identities=13% Similarity=0.128 Sum_probs=55.3
Q ss_pred CeEEEEecCcHHhHHHHHHHHHHcCC-eEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHH
Q 008863 142 PYLIRMASNDSEQMKCIADLARKYNW-RRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAV 220 (550)
Q Consensus 142 ~~~~~~~p~~~~~~~al~~~l~~~~w-~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~ 220 (550)
|+-+...+. ....+.++++.++. +++.+|++...+ ....+.+.+.+.+.+ .+.. . +.+.. ..+..
T Consensus 11 p~~i~~G~g---~l~~l~~~l~~~~~~~~~livtd~~~~---~~~~~~l~~~l~~~~--~~~~-~-~~~~~----t~~~v 76 (350)
T PRK00843 11 PRDVVVGHG---VLDDIGDVCSDLKLTGRALIVTGPTTK---KIAGDRVEENLEDAG--DVEV-V-IVDEA----TMEEV 76 (350)
T ss_pred CCeEEECCC---HHHHHHHHHHHhCCCCeEEEEECCcHH---HHHHHHHHHHHHhcC--CeeE-E-eCCCC----CHHHH
Confidence 443344443 34556777877775 788888876654 234566777777654 1211 1 22222 45677
Q ss_pred HHHHHHhhcCCCeEEEEEcC-CHHHHHHHHH
Q 008863 221 RGELKKVQDKQSRVFIVLQA-SLDMTIHLFT 250 (550)
Q Consensus 221 ~~~l~~i~~~~~~~ii~~~~-~~~~~~~il~ 250 (550)
...++.+++.+.++||.+.+ +.-++..++.
T Consensus 77 ~~~~~~~~~~~~d~IIaiGGGsv~D~ak~vA 107 (350)
T PRK00843 77 EKVEEKAKDVNAGFLIGVGGGKVIDVAKLAA 107 (350)
T ss_pred HHHHHHhhccCCCEEEEeCCchHHHHHHHHH
Confidence 78888888888898886122 2334444443
No 479
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=27.11 E-value=77 Score=29.03 Aligned_cols=41 Identities=17% Similarity=0.263 Sum_probs=30.7
Q ss_pred HHHHHHHHHhCCCCCCeEEEecCCChHHHHHhhhcccccEEeec
Q 008863 492 IELFRLVVDHLNYDLPYEFVPHDGVYDDLINGVYDKVNYFNYHD 535 (550)
Q Consensus 492 iDll~~la~~l~f~~~~~~~~~~g~w~Gmi~el~~~~ad~a~~~ 535 (550)
--|.+.|++.+|.+ ++++.. ..+..++..+.+|++|+++++
T Consensus 17 ~~l~~~L~~~~g~~--v~~~~~-~~~~~~~~~l~~g~~D~~~~~ 57 (243)
T PF12974_consen 17 APLADYLSKQLGVP--VELVPA-DDYAEFIEALRSGEIDLAFMG 57 (243)
T ss_dssp HHHHHHHHHHHTSE--EEEE---SSHHHHHHHHHTTS-SEEE--
T ss_pred HHHHHHHHHHhCCC--EEEEEc-CCHHHHHHHHHcCCccEEEEC
Confidence 46888889999888 666553 369999999999999999875
No 480
>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=27.09 E-value=3.4e+02 Score=24.88 Aligned_cols=76 Identities=8% Similarity=0.050 Sum_probs=45.8
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
+++|..+ +.|. ..+.+.+.+.+++.| ..+..... .. +.......++.+.+.+.|.||+ ....... .
T Consensus 2 igvi~p~~~~~~~--~~~~~g~~~~a~~~g-~~~~~~~~--~~-----~~~~~~~~i~~~~~~~vdgii~-~~~~~~~-~ 69 (268)
T cd06270 2 IGLVVSDLDGPFF--GPLLSGVESVARKAG-KHLIITAG--HH-----SAEKEREAIEFLLERRCDALIL-HSKALSD-D 69 (268)
T ss_pred EEEEEccccCcch--HHHHHHHHHHHHHCC-CEEEEEeC--CC-----chHHHHHHHHHHHHcCCCEEEE-ecCCCCH-H
Confidence 4555543 3455 677888888889888 77654321 11 2233456677777778998888 4432111 2
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
.++++.+.|.
T Consensus 70 ~~~~~~~~~i 79 (268)
T cd06270 70 ELIELAAQVP 79 (268)
T ss_pred HHHHHhhCCC
Confidence 2666776664
No 481
>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=26.88 E-value=4.8e+02 Score=23.68 Aligned_cols=97 Identities=7% Similarity=0.157 Sum_probs=60.6
Q ss_pred HHHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHH
Q 008863 111 AVVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLA 190 (550)
Q Consensus 111 ~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~ 190 (550)
..+...++..++|++..... . +.....+.+.+.++..+ +-.+...+-+. ........
T Consensus 48 ~~~~~qA~algipl~~~~~~---~---------------~~e~~~e~l~~~l~~~g---v~~vv~GdI~s--~~qr~~~e 104 (223)
T TIGR00290 48 HLTDLQAESIGIPLIKLYTE---G---------------TEEDEVEELKGILHTLD---VEAVVFGAIYS--EYQKTRIE 104 (223)
T ss_pred HHHHHHHHHcCCCeEEeecC---C---------------CccHHHHHHHHHHHHcC---CCEEEECCccc--HHHHHHHH
Confidence 44556778889998752221 0 11345677778887775 43344444433 55567778
Q ss_pred HHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCH
Q 008863 191 EALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASL 242 (550)
Q Consensus 191 ~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~ 242 (550)
....+.| ++..... ...|-...++++.+.+-+++|+ ....
T Consensus 105 ~v~~~lg-l~~~~PL----------W~~~~~~ll~e~i~~G~~aiIv-~v~a 144 (223)
T TIGR00290 105 RVCRELG-LKSFAPL----------WHRDPEKLMEEFVEEKFEARII-AVAA 144 (223)
T ss_pred HHHHhcC-CEEeccc----------cCCCHHHHHHHHHHcCCeEEEE-EEec
Confidence 8888888 7654332 2245567888888888888887 5443
No 482
>PRK06264 cbiC precorrin-8X methylmutase; Validated
Probab=26.76 E-value=1.2e+02 Score=27.08 Aligned_cols=72 Identities=19% Similarity=0.309 Sum_probs=46.6
Q ss_pred hhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcC--CeEEEEc-CCChHHHHHHHHhhccCCccEE
Q 008863 49 KQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKE--KVKVIAG-METWEETAVVAEIASRVQVPIL 125 (550)
Q Consensus 49 ~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~--~v~aiiG-~~~s~~~~~v~~~~~~~~iP~i 125 (550)
.+...|++.|.+++.. + +.+ -+|..+|+-.+++++.+. +...||| |..--.+......+...++|+|
T Consensus 113 TRs~aam~~a~~~~~~---~----Ivv---IGNAPTAL~~l~~li~~g~~~PalVIg~PVGFV~A~ESKe~L~~~~vP~I 182 (210)
T PRK06264 113 TRAVASMRLAKELIDG---G----IVV---IGNAPTALFEVIRLVKEEGIKPKLVVGVPVGFVKAAESKEALRNTNIPSI 182 (210)
T ss_pred cHHHHHHHHHHHHCCC---C----EEE---EECcHHHHHHHHHHHHhCCCCCcEEEEeCCccccHHHHHHHHHhCCCCEE
Confidence 3567888888887422 2 222 156678999999999743 4578887 5444333334444456789999
Q ss_pred eccCC
Q 008863 126 SFAAP 130 (550)
Q Consensus 126 s~~~~ 130 (550)
+.-.+
T Consensus 183 t~~Gr 187 (210)
T PRK06264 183 STIGP 187 (210)
T ss_pred EEecC
Confidence 86554
No 483
>PRK09973 putative outer membrane lipoprotein; Provisional
Probab=26.67 E-value=65 Score=23.92 Aligned_cols=21 Identities=14% Similarity=0.199 Sum_probs=14.0
Q ss_pred CcchhHHHHHHHHH-HHHhccc
Q 008863 1 MNRFFFLVLIIASE-LVFVSPG 21 (550)
Q Consensus 1 M~r~~~~~~~~~~~-~~~~~~~ 21 (550)
||+++++.++++++ ++.+|..
T Consensus 1 mk~klll~aviLs~~LLaGCAs 22 (85)
T PRK09973 1 MKTIFTVGAVVLATCLLSGCVN 22 (85)
T ss_pred CchhHHHHHHHHHHHHHHHcCC
Confidence 88887777777655 4556654
No 484
>PF13155 Toprim_2: Toprim-like
Probab=26.66 E-value=1.5e+02 Score=22.31 Aligned_cols=42 Identities=10% Similarity=0.236 Sum_probs=33.9
Q ss_pred hHHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCC
Q 008863 154 QMKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVS 197 (550)
Q Consensus 154 ~~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g 197 (550)
....+.+++...+-++|.+..++|.-| +...+.+.+.+...+
T Consensus 34 ~~~~~~~~l~~~~~~~i~l~~DnD~aG--~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 34 SEKQQIKFLKENPYKKIVLAFDNDEAG--RKAAEKLQKELKEEG 75 (96)
T ss_pred HHHHHHHHHHhCCCCcEEEEeCCCHHH--HHHHHHHHHHHHhhC
Confidence 346788888776658899999999888 889999998888753
No 485
>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=26.59 E-value=3.5e+02 Score=24.75 Aligned_cols=76 Identities=14% Similarity=0.089 Sum_probs=45.4
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
++++..+ +.|. ..+...+.+.+++.| ..+..... .. +.......++.+...+.+.|++.....+..
T Consensus 2 igvi~~~~~~~~~--~~~~~~~~~~~~~~g-~~~~~~~~-~~------~~~~~~~~i~~l~~~~vdgiii~~~~~~~~-- 69 (264)
T cd06274 2 IGLIIPDLENRSF--ARIAKRLEALARERG-YQLLIACS-DD------DPETERETVETLIARQVDALIVAGSLPPDD-- 69 (264)
T ss_pred EEEEeccccCchH--HHHHHHHHHHHHHCC-CEEEEEeC-CC------CHHHHHHHHHHHHHcCCCEEEEcCCCCchH--
Confidence 4555544 3455 677788888888888 77654321 11 223445677778888899888823332222
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
.++.+.+.+.
T Consensus 70 ~~~~~~~~~i 79 (264)
T cd06274 70 PYYLCQKAGL 79 (264)
T ss_pred HHHHHHhcCC
Confidence 2556666664
No 486
>PRK05953 precorrin-8X methylmutase; Validated
Probab=26.46 E-value=1.1e+02 Score=27.17 Aligned_cols=72 Identities=13% Similarity=0.167 Sum_probs=45.9
Q ss_pred hhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcC--CeEEEEc-CCChHHHHHHHHhhccCCccEE
Q 008863 49 KQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKE--KVKVIAG-METWEETAVVAEIASRVQVPIL 125 (550)
Q Consensus 49 ~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~--~v~aiiG-~~~s~~~~~v~~~~~~~~iP~i 125 (550)
.....|++.|.+++.. + ++. -+|..+|+-.+++++.+. +...||| |..--.+.-....+.+.++|+|
T Consensus 105 TRs~aam~~a~~~~~g---~----Ivv---IGNAPTAL~~l~~li~~g~~~PalVIG~PVGFV~AaESKe~L~~~~vP~I 174 (208)
T PRK05953 105 TRTAWGIETLARRYPE---A----IFV---IGQSQTALTALVELVEAEEIRPALVIATPAGFIDADDAKERLQDSLVPHI 174 (208)
T ss_pred CHHHHHHHHHHHHCCC---C----EEE---EeCcHHHHHHHHHHHHhcCCCCCEEEEeCCcccCcHHHHHHHHhCCCCEE
Confidence 4666788888776421 2 222 256678999999998743 4778887 5444434334444456789999
Q ss_pred eccCC
Q 008863 126 SFAAP 130 (550)
Q Consensus 126 s~~~~ 130 (550)
+.-..
T Consensus 175 t~~Gr 179 (208)
T PRK05953 175 TIDGR 179 (208)
T ss_pred EEeCC
Confidence 86654
No 487
>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=26.41 E-value=2.8e+02 Score=24.55 Aligned_cols=23 Identities=30% Similarity=0.423 Sum_probs=16.7
Q ss_pred CeEEEEcCCChHHHHHHHHhhcc
Q 008863 97 KVKVIAGMETWEETAVVAEIASR 119 (550)
Q Consensus 97 ~v~aiiG~~~s~~~~~v~~~~~~ 119 (550)
++.+++||..++=+..++.+|..
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~ 24 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAAR 24 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHH
T ss_pred EEEEEECCCCCchHhHHHHHHHH
Confidence 57899999888766666665543
No 488
>COG3919 Predicted ATP-grasp enzyme [General function prediction only]
Probab=26.32 E-value=3.2e+02 Score=25.88 Aligned_cols=90 Identities=19% Similarity=0.165 Sum_probs=57.0
Q ss_pred EEEcCCChHHHHHHHHhhccCCccEEeccCCCCCCcccCCC--CCeEEEEecCcHHhHHHHHHHHHHcCCeEEEEEEEcC
Q 008863 100 VIAGMETWEETAVVAEIASRVQVPILSFAAPAVTPLSMSRR--WPYLIRMASNDSEQMKCIADLARKYNWRRVAAIYEDN 177 (550)
Q Consensus 100 aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~--~~~~~~~~p~~~~~~~al~~~l~~~~w~~v~ii~~~~ 177 (550)
.|+|.. ..+.+++.-....+||+...++. .|..+-.+ .-..---.|.+......+.++..+-+-+...+|...|
T Consensus 7 iilGga--hgtlalARSfg~~~vpv~~ls~d--~plPt~Sr~vr~t~~w~gphd~gaiafLrd~Aekhglkg~LLva~GD 82 (415)
T COG3919 7 IILGGA--HGTLALARSFGEEFVPVLALSAD--GPLPTYSRIVRVTTHWNGPHDEGAIAFLRDFAEKHGLKGYLLVACGD 82 (415)
T ss_pred EEEccc--chhHHHHHhhccccceEEEEecC--CCCcchhhhheeeeccCCCCcccHHHHHHHHHhhcCcCceEEEecCC
Confidence 455543 33555666666667999888776 44422111 1111123477777788888888777888998998887
Q ss_pred CCCCcchhHHHHHHHHhcC
Q 008863 178 VYGGDSGKLALLAEALQNV 196 (550)
Q Consensus 178 ~~g~~~~~~~~l~~~l~~~ 196 (550)
.+ ..+....++.+...
T Consensus 83 ge---v~lvSq~reeLSa~ 98 (415)
T COG3919 83 GE---VLLVSQYREELSAF 98 (415)
T ss_pred ce---eeehHhhHHHHHHH
Confidence 65 45666677776653
No 489
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=26.25 E-value=3.1e+02 Score=21.36 Aligned_cols=72 Identities=15% Similarity=0.114 Sum_probs=37.1
Q ss_pred HHHhhhcCCeEEEE-cCCChH-HHHHHHHhhccCCccEEeccCCCCCCcccC-CCCCeEEEEecCcHHhHHHHHHHHH
Q 008863 89 AQELINKEKVKVIA-GMETWE-ETAVVAEIASRVQVPILSFAAPAVTPLSMS-RRWPYLIRMASNDSEQMKCIADLAR 163 (550)
Q Consensus 89 ~~~li~~~~v~aii-G~~~s~-~~~~v~~~~~~~~iP~is~~~~~~~~~~~~-~~~~~~~~~~p~~~~~~~al~~~l~ 163 (550)
+.+.+...++..|| ...+++ ...-+...|..+++|++.+... ..+.. -..++.--+.-.+.-.++.+.+++.
T Consensus 25 v~~aik~gk~~lVI~A~D~s~~~kkki~~~~~~~~vp~~~~~t~---~eLg~a~Gk~~~~~iai~d~g~a~~l~~~~~ 99 (104)
T PRK05583 25 CEEAIKKKKVYLIIISNDISENSKNKFKNYCNKYNIPYIEGYSK---EELGNAIGRDEIKILGVKDKNMAKKLLKLWN 99 (104)
T ss_pred HHHHHHcCCceEEEEeCCCCHhHHHHHHHHHHHcCCCEEEecCH---HHHHHHhCCCCeEEEEEeChHHHHHHHHHHH
Confidence 33444334444444 333333 4456888899999999887432 22211 1112344444445555666655554
No 490
>PLN02527 aspartate carbamoyltransferase
Probab=26.22 E-value=5.9e+02 Score=24.45 Aligned_cols=134 Identities=10% Similarity=0.073 Sum_probs=72.9
Q ss_pred EEEEEEEecCCccchhHHHHHHHHHHHHhcCCCCcEEEEEEe--cCCCCHHHHHHHHHHhhhcCCeEEEEc-CCChHHHH
Q 008863 35 TKIGAIVDANSQMGKQAITAMKIAVQNFNSDSRNHKLSLQIR--DHNRDPFQAATAAQELINKEKVKVIAG-METWEETA 111 (550)
Q Consensus 35 i~IG~i~~~~~~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~--d~~~~~~~a~~~~~~li~~~~v~aiiG-~~~s~~~~ 111 (550)
-.|+.+|...+ .+....|+.|+.++ ||..+.+... ++.-.-.+.++.+...++.- +.+|+- .....
T Consensus 40 k~v~llF~epS---tRTR~SFe~A~~~L----Gg~~i~l~~~~~~s~~~kgEs~~Dta~vls~y-~D~iviR~~~~~--- 108 (306)
T PLN02527 40 YLMATLFYEPS---TRTRLSFESAMKRL----GGEVLTTENAGEFSSAAKGETLEDTIRTVEGY-SDIIVLRHFESG--- 108 (306)
T ss_pred CEEEEEEcCCC---chhHHHHHHHHHHc----CCCEEEeCCCCCccccCCCcCHHHHHHHHHHh-CcEEEEECCChh---
Confidence 34787886653 58889999999998 5666665431 22211224444444444432 334442 22222
Q ss_pred HHHHhhccCCccEEeccCCCCCCcccCCCCCeEEEEecCcHHhHHHHHHHH---HHcC---CeEEEEEEEcCCCCCcchh
Q 008863 112 VVAEIASRVQVPILSFAAPAVTPLSMSRRWPYLIRMASNDSEQMKCIADLA---RKYN---WRRVAAIYEDNVYGGDSGK 185 (550)
Q Consensus 112 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~al~~~l---~~~~---w~~v~ii~~~~~~g~~~~~ 185 (550)
.+..+++...+|+|..+.. + .. +| .++++|++ +++| -.+|+++.+.. ++ ..
T Consensus 109 ~~~~~a~~~~vPVINa~~g--~-----~~-------HP-----tQ~LaDl~Ti~e~~g~l~g~kva~vGD~~-~~---rv 165 (306)
T PLN02527 109 AARRAAATAEIPVINAGDG--P-----GQ-------HP-----TQALLDVYTIQREIGRLDGIKVGLVGDLA-NG---RT 165 (306)
T ss_pred HHHHHHHhCCCCEEECCCC--C-----CC-------Ch-----HHHHHHHHHHHHHhCCcCCCEEEEECCCC-CC---hh
Confidence 3455667778999996543 0 11 12 36677764 3454 24777777532 21 24
Q ss_pred HHHHHHHHhcC-CCeEEEE
Q 008863 186 LALLAEALQNV-SSSEIQS 203 (550)
Q Consensus 186 ~~~l~~~l~~~-g~~~v~~ 203 (550)
...+...+... | +.+..
T Consensus 166 ~~Sl~~~~~~~~g-~~v~~ 183 (306)
T PLN02527 166 VRSLAYLLAKYED-VKIYF 183 (306)
T ss_pred HHHHHHHHHhcCC-CEEEE
Confidence 55555565554 6 65543
No 491
>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=26.21 E-value=2.9e+02 Score=25.60 Aligned_cols=66 Identities=8% Similarity=0.010 Sum_probs=43.4
Q ss_pred chhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcC-CHHHHHHHHHHHHHcCC
Q 008863 183 SGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQA-SLDMTIHLFTEANRMGL 257 (550)
Q Consensus 183 ~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~-~~~~~~~il~~a~~~g~ 257 (550)
....+.+.+.+.+.| ..+..... .. +.......++.+.+.+.+.||+ .. ........++++.+.++
T Consensus 15 ~~~~~gi~~~~~~~G-~~~~~~~~--~~-----d~~~~~~~i~~~~~~~vdgiii-~~~~~~~~~~~i~~~~~~~i 81 (272)
T cd06313 15 AQGKQAADEAGKLLG-VDVTWYGG--AL-----DAVKQVAAIENMASQGWDFIAV-DPLGIGTLTEAVQKAIARGI 81 (272)
T ss_pred HHHHHHHHHHHHHcC-CEEEEecC--CC-----CHHHHHHHHHHHHHcCCCEEEE-cCCChHHhHHHHHHHHHCCC
Confidence 566777888888888 77765321 11 2234556777777778898888 54 33445667777777765
No 492
>cd08184 Fe-ADH3 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the iron-containing alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron or zinc ions. Members of this family are mainly found in bacteria.
Probab=26.12 E-value=4.3e+02 Score=25.93 Aligned_cols=85 Identities=9% Similarity=0.007 Sum_probs=49.3
Q ss_pred HHHHHHHHHHcCC--eEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcC--
Q 008863 155 MKCIADLARKYNW--RRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDK-- 230 (550)
Q Consensus 155 ~~al~~~l~~~~w--~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~-- 230 (550)
...+.++++.++. +++.++++..- .. ..+.+.+++.| +.+.....+.+.. ..++..+..+..++.
T Consensus 11 l~~l~~~~~~~g~~~~~~lvvtd~~~----~~--~~v~~~L~~~g-~~~~~f~~v~~nP----t~~~v~~~~~~~~~~~~ 79 (347)
T cd08184 11 FDQLNDLLAPKRKNKDPAVFFVDDVF----QG--KDLISRLPVES-EDMIIWVDATEEP----KTDQIDALTAQVKSFDG 79 (347)
T ss_pred HHHHHHHHHHcCCCCCeEEEEECcch----hh--hHHHHHHHhcC-CcEEEEcCCCCCc----CHHHHHHHHHHHHhhCC
Confidence 3556777777763 56666673222 21 55677787777 6544333344332 445677777778776
Q ss_pred -CCeEEEEEcCC--HHHHHHHHHH
Q 008863 231 -QSRVFIVLQAS--LDMTIHLFTE 251 (550)
Q Consensus 231 -~~~~ii~~~~~--~~~~~~il~~ 251 (550)
++|.||- .+. .-++.+.+..
T Consensus 80 ~~~D~IIa-iGGGS~iD~AKaia~ 102 (347)
T cd08184 80 KLPCAIVG-IGGGSTLDVAKAVSN 102 (347)
T ss_pred CCCCEEEE-eCCcHHHHHHHHHHH
Confidence 8999996 333 3344444433
No 493
>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=26.00 E-value=3.5e+02 Score=24.74 Aligned_cols=76 Identities=13% Similarity=0.133 Sum_probs=46.4
Q ss_pred EEEEEEc--CCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeEEEEEcCCHHHHHH
Q 008863 170 VAAIYED--NVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRVFIVLQASLDMTIH 247 (550)
Q Consensus 170 v~ii~~~--~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ii~~~~~~~~~~~ 247 (550)
|+++..+ +.|. ..+.+.+.+.+++.| ..+.... ... +.....+.++.+...+.|.|++ ....... .
T Consensus 2 igvi~p~~~~~~~--~~~~~gi~~~~~~~~-~~~~~~~---~~~----~~~~~~~~i~~l~~~~~dgiii-~~~~~~~-~ 69 (265)
T cd06285 2 IGVLVPRLTDTVM--ATMYEGIEEAAAERG-YSTFVAN---TGD----NPDAQRRAIEMLLDRRVDGLIL-GDARSDD-H 69 (265)
T ss_pred EEEEeCCCCCccH--HHHHHHHHHHHHHCC-CEEEEEe---CCC----CHHHHHHHHHHHHHcCCCEEEE-ecCCCCh-H
Confidence 5666654 3455 777788888888888 7764321 111 2234456677777788898887 4322222 3
Q ss_pred HHHHHHHcCC
Q 008863 248 LFTEANRMGL 257 (550)
Q Consensus 248 il~~a~~~g~ 257 (550)
.++++.+.+.
T Consensus 70 ~~~~~~~~~i 79 (265)
T cd06285 70 FLDELTRRGV 79 (265)
T ss_pred HHHHHHHcCC
Confidence 4667766654
No 494
>PF08139 LPAM_1: Prokaryotic membrane lipoprotein lipid attachment site; InterPro: IPR012640 In prokaryotes, membrane lipoproteins are synthesized with a precursor signal peptide, which is cleaved by a specific lipoprotein signal peptidase (signal peptidase II). The peptidase recognises a conserved sequence and cuts upstream of a cysteine residue to which a glyceride-fatty acid lipid is attached [,]. This lipid attachment site is found in homologues of the VirB proteins of type IV secretion systems (T4SS). Conjugal transfer across the cell envelope of Gram-negative bacteria is mediated by a supramolecular structure termed mating pair formation (Mpf) complex. Collectively, secretion pathways ancestrally related to bacterial conjugation systems are now known as T4SS. T4SS are involved in the delivery of effector molecules to eukaryotic target cells; each of these systems exports distinct DNA or protein substrates to effect a myriad of changes in host cell physiology during infection [].
Probab=25.87 E-value=53 Score=18.01 Aligned_cols=7 Identities=0% Similarity=-0.206 Sum_probs=3.4
Q ss_pred HHHHhcc
Q 008863 14 ELVFVSP 20 (550)
Q Consensus 14 ~~~~~~~ 20 (550)
+.+++|+
T Consensus 18 ~~LagCs 24 (25)
T PF08139_consen 18 FMLAGCS 24 (25)
T ss_pred HHHhhcc
Confidence 3455553
No 495
>PRK15240 resistance to complement killing; Provisional
Probab=25.84 E-value=73 Score=27.95 Aligned_cols=36 Identities=11% Similarity=0.241 Sum_probs=17.6
Q ss_pred CcchhHHHHHHHHHHHHhccccccccCCCCCCCcEEEEEEEe
Q 008863 1 MNRFFFLVLIIASELVFVSPGVESASTNVNIEEVTKIGAIVD 42 (550)
Q Consensus 1 M~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~IG~i~~ 42 (550)
|||.+++.++++++++.+.+.++++ ..++-+|..-.
T Consensus 1 Mkk~~~~~~~~~~~~~~~~~~a~a~------~~t~s~GYaq~ 36 (185)
T PRK15240 1 MKKIVLSSLLLSAAGLAAVPVAQAD------THSVSVGYAQS 36 (185)
T ss_pred CchhHHHHHHHHHHHhcchhhhccC------CCEEEEEEEEe
Confidence 8888665544333322212221111 15788888843
No 496
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=25.81 E-value=68 Score=27.35 Aligned_cols=31 Identities=26% Similarity=0.366 Sum_probs=26.1
Q ss_pred eEEEEcCCChHHHHHHHHhhccCCccEEecc
Q 008863 98 VKVIAGMETWEETAVVAEIASRVQVPILSFA 128 (550)
Q Consensus 98 v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~ 128 (550)
+.+|-|+..|+.+.....+++.+++|+++.+
T Consensus 2 ~ItIsG~pGsG~TTva~~lAe~~gl~~vsaG 32 (179)
T COG1102 2 VITISGLPGSGKTTVARELAEHLGLKLVSAG 32 (179)
T ss_pred EEEeccCCCCChhHHHHHHHHHhCCceeecc
Confidence 4567789889888888889999999999954
No 497
>TIGR00002 S16 ribosomal protein S16. This model describes ribosomal S16 of bacteria and organelles.
Probab=25.76 E-value=1.6e+02 Score=21.62 Aligned_cols=34 Identities=32% Similarity=0.395 Sum_probs=26.1
Q ss_pred EEEeCCCCCCCCceEEEEeeC-----Ce-eeEEEEEeCCC
Q 008863 372 IRFKDGELLNADTLRIVNVVG-----KK-YKELDFWLPNF 405 (550)
Q Consensus 372 i~f~~~g~~~~~~~~i~~~~~-----~~-~~~vG~w~~~~ 405 (550)
|++...|....+.|.|+-.+. +. .+.+|+|+|..
T Consensus 3 IRL~R~G~k~~PfYrIVv~d~r~~RdGk~iE~lG~YnP~~ 42 (78)
T TIGR00002 3 IRLKRGGRKKRPFYRIVVADSRSRRDGRYIEELGFYNPLT 42 (78)
T ss_pred EecccCCCCCCCeEEEEEEecCCCCCCCceeEeeeccCCC
Confidence 667778888889999998763 33 57799999853
No 498
>COG5510 Predicted small secreted protein [Function unknown]
Probab=25.65 E-value=22 Score=22.28 Aligned_cols=21 Identities=24% Similarity=0.423 Sum_probs=9.3
Q ss_pred CcchhHHHHHH--HHHHHHhccc
Q 008863 1 MNRFFFLVLII--ASELVFVSPG 21 (550)
Q Consensus 1 M~r~~~~~~~~--~~~~~~~~~~ 21 (550)
|||..++++++ ++.++++|..
T Consensus 2 mk~t~l~i~~vll~s~llaaCNT 24 (44)
T COG5510 2 MKKTILLIALVLLASTLLAACNT 24 (44)
T ss_pred chHHHHHHHHHHHHHHHHHHhhh
Confidence 55544433333 3334555644
No 499
>PRK15138 aldehyde reductase; Provisional
Probab=25.52 E-value=5e+02 Score=25.90 Aligned_cols=73 Identities=15% Similarity=0.231 Sum_probs=44.4
Q ss_pred HHHHHHHHHHcCCeEEEEEEEcCCCCCcchhHHHHHHHHhcCCCeEEEEEeecCCCCCCCCChHHHHHHHHHhhcCCCeE
Q 008863 155 MKCIADLARKYNWRRVAAIYEDNVYGGDSGKLALLAEALQNVSSSEIQSRLVLPPISSISDPKEAVRGELKKVQDKQSRV 234 (550)
Q Consensus 155 ~~al~~~l~~~~w~~v~ii~~~~~~g~~~~~~~~l~~~l~~~g~~~v~~~~~~~~~~~~~~~~~d~~~~l~~i~~~~~~~ 234 (550)
...+.++++. + +++.+++++...- .....+.+.+.+. + +.+.....+.+.. ..++.....+..++.++|.
T Consensus 19 ~~~l~~~l~~-~-~~~livt~~~~~~-~~g~~~~v~~~L~--~-~~~~~f~~v~~~p----~~~~v~~~~~~~~~~~~D~ 88 (387)
T PRK15138 19 IAGLREQIPA-D-ARVLITYGGGSVK-KTGVLDQVLDALK--G-MDVLEFGGIEPNP----TYETLMKAVKLVREEKITF 88 (387)
T ss_pred HHHHHHHHhc-C-CeEEEECCCchHH-hcCcHHHHHHHhc--C-CeEEEECCccCCC----CHHHHHHHHHHHHHcCCCE
Confidence 3445566665 3 7888887543210 0235567777775 5 5443332233332 4467778888888889999
Q ss_pred EEE
Q 008863 235 FIV 237 (550)
Q Consensus 235 ii~ 237 (550)
||-
T Consensus 89 IIa 91 (387)
T PRK15138 89 LLA 91 (387)
T ss_pred EEE
Confidence 996
No 500
>PF02514 CobN-Mg_chel: CobN/Magnesium Chelatase; InterPro: IPR003672 This family contains a domain common to the cobN protein and to magnesium protoporphyrin chelatase. CobN may play a role in cobalt insertion reactions and is implicated in the conversion of precorrin-2 to cobyrinic acid in cobalamin biosynthesis []. Magnesium protoporphyrin chelatase is involved in chlorophyll biosynthesis as the third subunit of light-independent protochlorophyllide reductase in bacteria and plants [].; GO: 0009058 biosynthetic process
Probab=25.45 E-value=1.1e+03 Score=27.44 Aligned_cols=91 Identities=13% Similarity=0.131 Sum_probs=49.0
Q ss_pred CcEEEEEEEecCC--ccchhHHHHHHHHHHHHhcCCCCcEEEEEEecCCCCHHHHHHHHHHhhhcCCeEEEEcCCChHH-
Q 008863 33 EVTKIGAIVDANS--QMGKQAITAMKIAVQNFNSDSRNHKLSLQIRDHNRDPFQAATAAQELINKEKVKVIAGMETWEE- 109 (550)
Q Consensus 33 ~~i~IG~i~~~~~--~~g~~~~~a~~~Av~~iN~~~~~~~l~~~~~d~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~- 109 (550)
..-+||+++..+. ........++--++++ . |..+-.++.....+...+++.....-.+..|.+||...+...
T Consensus 70 ~~P~VgIlfyrs~~~~g~~~~vdaLI~~LE~---~--G~nvipvf~~~~~~~~~~i~~~f~~~g~~~vDaIIn~~~f~l~ 144 (1098)
T PF02514_consen 70 NRPTVGILFYRSYWLSGNTAVVDALIRALEE---R--GLNVIPVFCSSGPDSQEAIEDYFMDDGKPRVDAIINLTGFSLG 144 (1098)
T ss_pred CCCEEEEEeehhhhhcCCcHHHHHHHHHHHH---C--CCeEEEEEecCccchHHHHHHHHhhcCCCCceEEEEcCccccC
Confidence 4567888887662 1122455566555554 2 555555554442233333333322222367888886433221
Q ss_pred ---HHHHHHhhccCCccEEecc
Q 008863 110 ---TAVVAEIASRVQVPILSFA 128 (550)
Q Consensus 110 ---~~~v~~~~~~~~iP~is~~ 128 (550)
......+....+||+|..-
T Consensus 145 ~~~~~~~~~~L~~LnVPVlq~i 166 (1098)
T PF02514_consen 145 GGPAGGAIELLKELNVPVLQAI 166 (1098)
T ss_pred CCCcchhHHHHHHCCCCEEEee
Confidence 1125668889999998654
Done!