Query 008912
Match_columns 549
No_of_seqs 292 out of 2758
Neff 10.4
Searched_HMMs 46136
Date Thu Mar 28 18:08:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008912.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008912hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1054 Glutamate-gated AMPA-t 100.0 1.2E-55 2.7E-60 418.1 38.1 471 22-549 22-511 (897)
2 cd06365 PBP1_Pheromone_recepto 100.0 2.6E-52 5.7E-57 425.7 39.2 368 25-413 1-452 (469)
3 cd06374 PBP1_mGluR_groupI Liga 100.0 6E-52 1.3E-56 425.2 41.1 376 22-420 5-470 (472)
4 cd06375 PBP1_mGluR_groupII Lig 100.0 7.8E-52 1.7E-56 420.5 41.5 365 25-413 1-454 (458)
5 cd06364 PBP1_CaSR Ligand-bindi 100.0 3.2E-51 6.9E-56 420.2 42.0 374 22-414 8-494 (510)
6 cd06362 PBP1_mGluR Ligand bind 100.0 3.1E-51 6.8E-56 419.6 40.6 372 25-418 1-451 (452)
7 cd06392 PBP1_iGluR_delta_1 N-t 100.0 7.2E-51 1.6E-55 399.1 39.4 363 28-418 1-399 (400)
8 cd06376 PBP1_mGluR_groupIII Li 100.0 1E-50 2.2E-55 415.4 41.2 367 25-413 1-452 (463)
9 KOG4440 NMDA selective glutama 100.0 3.4E-51 7.4E-56 389.8 31.3 449 21-549 30-535 (993)
10 cd06393 PBP1_iGluR_Kainate_Glu 100.0 2.9E-50 6.2E-55 402.6 39.4 366 26-419 2-383 (384)
11 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 3.9E-50 8.4E-55 394.4 38.2 355 28-417 1-363 (364)
12 cd06361 PBP1_GPC6A_like Ligand 100.0 8.8E-50 1.9E-54 398.7 40.2 348 28-415 1-395 (403)
13 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 1.4E-49 3E-54 389.1 39.5 361 28-417 1-371 (372)
14 cd06379 PBP1_iGluR_NMDA_NR1 N- 100.0 2.5E-48 5.5E-53 388.5 41.3 341 19-414 12-364 (377)
15 cd06391 PBP1_iGluR_delta_2 N-t 100.0 2E-47 4.3E-52 379.1 40.3 364 28-418 1-399 (400)
16 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 3E-47 6.4E-52 375.8 39.6 361 28-418 1-370 (371)
17 KOG1056 Glutamate-gated metabo 100.0 1.6E-47 3.5E-52 390.4 38.4 393 22-457 27-495 (878)
18 cd06380 PBP1_iGluR_AMPA N-term 100.0 5.3E-47 1.1E-51 380.1 40.6 370 28-417 1-381 (382)
19 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 4.2E-47 9E-52 375.9 38.9 360 28-418 1-369 (370)
20 cd06367 PBP1_iGluR_NMDA N-term 100.0 2.1E-47 4.6E-52 380.2 36.3 339 26-413 2-351 (362)
21 cd06386 PBP1_NPR_C_like Ligand 100.0 4E-46 8.7E-51 372.5 40.0 351 31-414 4-379 (387)
22 cd06363 PBP1_Taste_receptor Li 100.0 3.6E-46 7.8E-51 376.5 39.4 354 22-414 2-396 (410)
23 cd06372 PBP1_GC_G_like Ligand- 100.0 3.5E-45 7.5E-50 367.9 39.2 358 28-415 1-387 (391)
24 cd06385 PBP1_NPR_A Ligand-bind 100.0 2.1E-45 4.6E-50 371.0 37.2 358 28-415 1-392 (405)
25 cd06370 PBP1_Speract_GC_like L 100.0 5.3E-45 1.2E-49 367.2 38.8 347 27-402 1-384 (404)
26 cd06366 PBP1_GABAb_receptor Li 100.0 1.1E-44 2.3E-49 359.5 37.7 338 28-418 1-347 (350)
27 KOG1053 Glutamate-gated NMDA-t 100.0 8.3E-44 1.8E-48 351.8 40.7 404 75-549 83-529 (1258)
28 cd06373 PBP1_NPR_like Ligand b 100.0 3.1E-44 6.6E-49 361.7 37.8 359 28-415 1-390 (396)
29 cd06352 PBP1_NPR_GC_like Ligan 100.0 8.1E-44 1.7E-48 358.6 39.3 360 28-415 1-383 (389)
30 cd06394 PBP1_iGluR_Kainate_KA1 100.0 7.8E-45 1.7E-49 350.2 29.0 323 28-418 1-332 (333)
31 cd06371 PBP1_sensory_GC_DEF_li 100.0 2.1E-43 4.5E-48 352.0 38.1 343 28-404 1-363 (382)
32 cd06384 PBP1_NPR_B Ligand-bind 100.0 1.3E-42 2.8E-47 349.5 39.2 357 28-415 1-393 (399)
33 cd06382 PBP1_iGluR_Kainate N-t 100.0 1.6E-43 3.5E-48 347.6 31.6 316 28-417 1-326 (327)
34 PF01094 ANF_receptor: Recepto 100.0 5.4E-42 1.2E-46 340.8 33.6 334 43-400 2-348 (348)
35 cd06368 PBP1_iGluR_non_NMDA_li 100.0 6.5E-40 1.4E-44 322.0 32.7 316 28-417 1-323 (324)
36 cd06381 PBP1_iGluR_delta_like 100.0 3.8E-39 8.2E-44 316.5 36.5 332 28-417 1-362 (363)
37 cd06377 PBP1_iGluR_NMDA_NR3 N- 100.0 6.2E-38 1.4E-42 301.8 37.5 344 22-419 14-376 (382)
38 PRK15404 leucine ABC transport 100.0 4.6E-38 1E-42 312.1 37.3 340 21-404 20-364 (369)
39 cd06342 PBP1_ABC_LIVBP_like Ty 100.0 8.7E-38 1.9E-42 308.5 35.4 328 28-399 1-334 (334)
40 cd06383 PBP1_iGluR_AMPA_Like N 100.0 5.4E-39 1.2E-43 316.0 25.6 327 37-391 8-352 (368)
41 cd06378 PBP1_iGluR_NMDA_NR2 N- 100.0 4.8E-38 1E-42 308.2 30.7 304 74-420 44-356 (362)
42 cd06350 PBP1_GPCR_family_C_lik 100.0 7.2E-38 1.6E-42 310.8 31.4 309 28-414 1-340 (348)
43 cd06345 PBP1_ABC_ligand_bindin 100.0 2.6E-36 5.7E-41 298.6 34.4 321 28-391 1-338 (344)
44 cd06338 PBP1_ABC_ligand_bindin 100.0 2.7E-36 5.8E-41 299.0 34.5 328 28-398 1-344 (345)
45 cd06346 PBP1_ABC_ligand_bindin 100.0 2.3E-36 5E-41 294.4 30.7 304 28-396 1-310 (312)
46 cd06348 PBP1_ABC_ligand_bindin 100.0 1.1E-35 2.4E-40 294.2 34.9 333 28-395 1-342 (344)
47 cd06340 PBP1_ABC_ligand_bindin 100.0 5.1E-35 1.1E-39 289.3 31.8 324 28-392 1-342 (347)
48 cd06351 PBP1_iGluR_N_LIVBP_lik 100.0 1.3E-34 2.7E-39 285.4 32.5 317 28-413 1-322 (328)
49 cd06355 PBP1_FmdD_like Peripla 100.0 8.4E-34 1.8E-38 280.4 34.9 336 28-406 1-343 (348)
50 cd06344 PBP1_ABC_ligand_bindin 100.0 3.2E-34 6.9E-39 282.1 31.5 320 28-392 1-327 (332)
51 COG0683 LivK ABC-type branched 100.0 1.1E-33 2.5E-38 280.1 34.1 338 24-402 8-355 (366)
52 cd06347 PBP1_ABC_ligand_bindin 100.0 1.5E-33 3.3E-38 278.3 34.6 320 28-392 1-329 (334)
53 TIGR03669 urea_ABC_arch urea A 100.0 2.4E-33 5.3E-38 277.5 35.3 341 27-412 1-349 (374)
54 cd06329 PBP1_SBP_like_3 Peripl 100.0 1E-33 2.2E-38 279.6 32.0 314 28-386 1-331 (342)
55 cd06331 PBP1_AmiC_like Type I 100.0 2E-33 4.3E-38 276.7 33.0 320 28-390 1-326 (333)
56 cd06343 PBP1_ABC_ligand_bindin 100.0 6.7E-33 1.5E-37 276.4 36.4 339 23-401 3-359 (362)
57 cd06349 PBP1_ABC_ligand_bindin 100.0 2E-32 4.3E-37 270.5 35.2 328 28-401 1-337 (340)
58 cd06330 PBP1_Arsenic_SBP_like 100.0 1.2E-32 2.5E-37 273.0 32.4 322 28-388 1-335 (346)
59 cd06327 PBP1_SBP_like_1 Peripl 100.0 8.1E-33 1.8E-37 272.5 30.9 318 28-390 1-328 (334)
60 TIGR03407 urea_ABC_UrtA urea A 100.0 3.7E-32 7.9E-37 269.7 35.4 318 27-387 1-325 (359)
61 cd06359 PBP1_Nba_like Type I p 100.0 2E-32 4.3E-37 269.5 32.9 324 28-397 1-331 (333)
62 cd06336 PBP1_ABC_ligand_bindin 100.0 9E-33 2E-37 273.2 30.4 324 28-393 1-343 (347)
63 PF13458 Peripla_BP_6: Peripla 100.0 4.6E-32 1E-36 268.8 31.1 332 26-400 1-339 (343)
64 cd06360 PBP1_alkylbenzenes_lik 100.0 1.5E-31 3.3E-36 264.1 34.0 324 28-393 1-331 (336)
65 cd06357 PBP1_AmiC Periplasmic 100.0 3.2E-31 7E-36 263.0 36.1 330 28-399 1-337 (360)
66 cd06328 PBP1_SBP_like_2 Peripl 100.0 4E-31 8.6E-36 259.8 32.8 314 28-386 1-322 (333)
67 cd06335 PBP1_ABC_ligand_bindin 100.0 4.7E-31 1E-35 261.0 33.0 318 28-387 1-336 (347)
68 KOG1055 GABA-B ion channel rec 100.0 8.3E-33 1.8E-37 273.6 20.0 368 23-415 38-431 (865)
69 cd06356 PBP1_Amide_Urea_BP_lik 100.0 1.1E-30 2.4E-35 256.7 33.5 318 28-388 1-325 (334)
70 cd06334 PBP1_ABC_ligand_bindin 100.0 8E-31 1.7E-35 258.5 31.9 330 28-387 1-346 (351)
71 cd06358 PBP1_NHase Type I peri 100.0 8.4E-31 1.8E-35 257.9 31.6 315 28-388 1-324 (333)
72 cd06332 PBP1_aromatic_compound 100.0 3E-30 6.4E-35 254.7 32.8 319 28-391 1-326 (333)
73 PF13433 Peripla_BP_5: Peripla 100.0 1.6E-29 3.5E-34 237.8 29.4 315 27-387 1-325 (363)
74 cd06337 PBP1_ABC_ligand_bindin 100.0 4.8E-29 1E-33 247.4 29.1 327 28-401 1-354 (357)
75 cd06269 PBP1_glutamate_recepto 100.0 6E-29 1.3E-33 241.3 28.1 224 28-259 1-235 (298)
76 cd06326 PBP1_STKc_like Type I 100.0 1.1E-27 2.4E-32 236.6 33.7 318 27-386 1-327 (336)
77 cd06339 PBP1_YraM_LppC_lipopro 100.0 1.8E-28 3.9E-33 240.8 24.2 302 28-389 1-329 (336)
78 cd06369 PBP1_GC_C_enterotoxin_ 100.0 1.8E-27 3.8E-32 223.1 29.0 324 41-415 18-366 (380)
79 cd04509 PBP1_ABC_transporter_G 100.0 4.2E-27 9.2E-32 228.4 27.4 280 28-320 1-290 (299)
80 TIGR03863 PQQ_ABC_bind ABC tra 100.0 5.3E-27 1.2E-31 228.9 26.2 291 41-390 11-307 (347)
81 cd06341 PBP1_ABC_ligand_bindin 100.0 8.3E-26 1.8E-30 223.5 30.0 319 28-390 1-332 (341)
82 cd06333 PBP1_ABC-type_HAAT_lik 100.0 1.7E-25 3.6E-30 218.4 30.5 279 28-322 1-293 (312)
83 KOG1052 Glutamate-gated kainat 99.9 1.2E-24 2.5E-29 232.6 29.1 293 210-549 5-307 (656)
84 cd06268 PBP1_ABC_transporter_L 99.9 3.1E-24 6.8E-29 208.1 29.1 280 28-322 1-287 (298)
85 cd01391 Periplasmic_Binding_Pr 99.7 3.6E-14 7.7E-19 134.8 24.8 216 28-257 1-220 (269)
86 PF10613 Lig_chan-Glu_bd: Liga 99.6 4.8E-16 1E-20 108.1 3.6 48 482-531 13-65 (65)
87 PF04348 LppC: LppC putative l 99.3 3.8E-10 8.1E-15 116.0 22.3 300 23-388 216-523 (536)
88 cd01537 PBP1_Repressors_Sugar_ 98.9 1.9E-07 4E-12 88.5 20.5 205 28-252 1-211 (264)
89 cd01536 PBP1_ABC_sugar_binding 98.8 2.4E-06 5.2E-11 81.1 23.0 206 28-253 1-214 (267)
90 cd06300 PBP1_ABC_sugar_binding 98.7 4.7E-06 1E-10 79.5 22.8 200 28-244 1-209 (272)
91 cd06267 PBP1_LacI_sugar_bindin 98.7 2.6E-06 5.7E-11 80.6 20.3 205 28-252 1-210 (264)
92 PRK11917 bifunctional adhesin/ 98.7 7.8E-08 1.7E-12 90.7 8.5 79 461-548 37-116 (259)
93 cd06325 PBP1_ABC_uncharacteriz 98.6 5E-06 1.1E-10 79.7 20.5 201 28-243 1-208 (281)
94 PRK10797 glutamate and asparta 98.6 8.4E-08 1.8E-12 92.4 7.5 76 461-548 39-121 (302)
95 cd06320 PBP1_allose_binding Pe 98.6 2.1E-05 4.7E-10 75.0 23.0 199 28-244 1-207 (275)
96 PRK15010 ABC transporter lysin 98.6 1.9E-07 4.1E-12 88.4 8.0 76 461-548 25-100 (260)
97 PRK15007 putative ABC transpor 98.5 1.9E-07 4.1E-12 87.5 7.8 76 461-548 20-95 (243)
98 PRK15437 histidine ABC transpo 98.5 2.1E-07 4.5E-12 88.0 7.7 76 461-548 25-100 (259)
99 PRK09495 glnH glutamine ABC tr 98.5 2.9E-07 6.3E-12 86.4 7.7 75 461-548 24-98 (247)
100 TIGR03870 ABC_MoxJ methanol ox 98.5 1.8E-07 3.9E-12 87.6 5.3 67 464-547 2-71 (246)
101 COG2984 ABC-type uncharacteriz 98.5 0.00012 2.6E-09 68.0 23.1 204 22-243 26-240 (322)
102 PRK10653 D-ribose transporter 98.4 0.00014 3E-09 70.3 24.7 222 1-243 3-231 (295)
103 PF00497 SBP_bac_3: Bacterial 98.4 2.9E-07 6.3E-12 84.9 5.3 73 464-548 1-73 (225)
104 cd06282 PBP1_GntR_like_2 Ligan 98.4 6.5E-05 1.4E-09 71.2 20.9 202 28-251 1-208 (266)
105 TIGR01096 3A0103s03R lysine-ar 98.3 1E-06 2.3E-11 82.8 7.4 75 462-548 24-98 (250)
106 COG3107 LppC Putative lipoprot 98.3 7.5E-05 1.6E-09 73.3 19.2 296 22-388 253-585 (604)
107 cd06323 PBP1_ribose_binding Pe 98.3 0.00021 4.5E-09 67.8 22.4 204 29-253 2-213 (268)
108 cd06273 PBP1_GntR_like_1 This 98.3 0.00014 3E-09 69.0 20.2 204 28-251 1-210 (268)
109 PRK11260 cystine transporter s 98.2 2.7E-06 5.8E-11 80.8 7.5 76 461-548 40-115 (266)
110 cd06317 PBP1_ABC_sugar_binding 98.2 0.00039 8.4E-09 66.3 21.7 201 28-244 1-212 (275)
111 cd06319 PBP1_ABC_sugar_binding 98.2 0.00047 1E-08 65.8 22.2 208 28-253 1-218 (277)
112 cd06310 PBP1_ABC_sugar_binding 98.2 0.0012 2.7E-08 62.8 24.4 210 28-254 1-217 (273)
113 PRK10859 membrane-bound lytic 98.1 4E-06 8.7E-11 86.4 6.7 75 461-548 42-116 (482)
114 cd06312 PBP1_ABC_sugar_binding 98.1 0.0013 2.8E-08 62.6 23.4 200 28-244 1-208 (271)
115 cd06305 PBP1_methylthioribose_ 98.1 0.00087 1.9E-08 63.8 22.3 208 28-254 1-217 (273)
116 cd06301 PBP1_rhizopine_binding 98.1 0.0019 4E-08 61.5 23.9 210 28-254 1-218 (272)
117 TIGR02995 ectoine_ehuB ectoine 98.1 6.2E-06 1.3E-10 78.7 6.3 76 461-548 32-107 (275)
118 cd01545 PBP1_SalR Ligand-bindi 98.1 0.00077 1.7E-08 64.0 20.8 207 29-254 2-215 (270)
119 COG0834 HisJ ABC-type amino ac 98.1 9.7E-06 2.1E-10 77.4 7.4 80 461-548 33-112 (275)
120 cd06309 PBP1_YtfQ_like Peripla 98.0 0.0018 3.9E-08 61.6 22.8 210 28-253 1-219 (273)
121 PRK10936 TMAO reductase system 98.0 0.0052 1.1E-07 60.7 26.2 208 24-253 44-262 (343)
122 PRK09959 hybrid sensory histid 98.0 1.3E-05 2.7E-10 93.1 8.1 78 461-548 55-132 (1197)
123 PF13407 Peripla_BP_4: Peripla 97.9 0.0027 5.9E-08 59.8 21.8 201 29-245 1-208 (257)
124 cd06298 PBP1_CcpA_like Ligand- 97.9 0.0015 3.2E-08 62.0 20.0 207 28-254 1-213 (268)
125 cd06284 PBP1_LacI_like_6 Ligan 97.9 0.0021 4.6E-08 60.8 21.1 198 29-247 2-204 (267)
126 PRK10355 xylF D-xylose transpo 97.9 0.0059 1.3E-07 59.9 24.3 219 4-244 6-236 (330)
127 cd06289 PBP1_MalI_like Ligand- 97.9 0.0026 5.6E-08 60.2 20.4 202 28-248 1-207 (268)
128 cd06303 PBP1_LuxPQ_Quorum_Sens 97.9 0.007 1.5E-07 57.8 23.5 214 28-254 1-224 (280)
129 TIGR02285 conserved hypothetic 97.9 3E-05 6.5E-10 73.7 6.8 75 461-549 17-92 (268)
130 PRK09701 D-allose transporter 97.9 0.02 4.3E-07 55.7 26.8 212 28-254 26-250 (311)
131 cd01540 PBP1_arabinose_binding 97.8 0.0094 2E-07 57.2 22.8 215 28-254 1-229 (289)
132 cd06275 PBP1_PurR Ligand-bindi 97.8 0.0051 1.1E-07 58.3 20.6 206 28-252 1-211 (269)
133 cd01539 PBP1_GGBP Periplasmic 97.8 0.012 2.6E-07 57.0 23.5 208 28-246 1-228 (303)
134 cd06321 PBP1_ABC_sugar_binding 97.8 0.011 2.3E-07 56.2 22.6 206 28-254 1-214 (271)
135 TIGR01481 ccpA catabolite cont 97.8 0.0063 1.4E-07 59.7 21.5 204 24-247 57-264 (329)
136 cd06271 PBP1_AglR_RafR_like Li 97.8 0.0051 1.1E-07 58.2 20.3 203 29-252 2-214 (268)
137 cd06322 PBP1_ABC_sugar_binding 97.7 0.023 5E-07 53.7 24.4 196 28-243 1-203 (267)
138 cd06288 PBP1_sucrose_transcrip 97.7 0.0055 1.2E-07 58.0 20.1 203 28-253 1-211 (269)
139 cd01575 PBP1_GntR Ligand-bindi 97.7 0.0088 1.9E-07 56.6 21.2 204 28-251 1-209 (268)
140 cd06311 PBP1_ABC_sugar_binding 97.7 0.021 4.6E-07 54.3 23.9 202 29-244 2-210 (274)
141 PF00532 Peripla_BP_1: Peripla 97.7 0.0054 1.2E-07 58.5 19.1 203 28-249 3-211 (279)
142 PRK15395 methyl-galactoside AB 97.7 0.041 9E-07 53.9 25.7 209 22-243 20-249 (330)
143 cd06293 PBP1_LacI_like_11 Liga 97.7 0.014 3E-07 55.4 21.8 205 28-252 1-210 (269)
144 cd06308 PBP1_sensor_kinase_lik 97.6 0.019 4.1E-07 54.5 22.1 208 28-255 1-217 (270)
145 cd06295 PBP1_CelR Ligand bindi 97.6 0.013 2.8E-07 55.8 20.6 206 26-251 3-218 (275)
146 cd01542 PBP1_TreR_like Ligand- 97.6 0.014 3E-07 54.9 20.6 200 29-253 2-207 (259)
147 cd06270 PBP1_GalS_like Ligand 97.6 0.018 3.8E-07 54.6 21.4 200 28-247 1-205 (268)
148 cd06324 PBP1_ABC_sugar_binding 97.6 0.027 5.9E-07 54.5 22.9 211 29-254 2-238 (305)
149 cd01538 PBP1_ABC_xylose_bindin 97.6 0.03 6.6E-07 53.7 22.9 199 28-245 1-216 (288)
150 COG1609 PurR Transcriptional r 97.6 0.021 4.6E-07 55.9 21.9 203 23-247 55-265 (333)
151 cd06283 PBP1_RegR_EndR_KdgR_li 97.6 0.024 5.2E-07 53.5 21.9 204 28-251 1-210 (267)
152 cd06281 PBP1_LacI_like_5 Ligan 97.6 0.0088 1.9E-07 56.7 18.7 201 28-249 1-206 (269)
153 cd01574 PBP1_LacI Ligand-bindi 97.5 0.033 7.2E-07 52.5 22.5 202 28-252 1-207 (264)
154 cd06306 PBP1_TorT-like TorT-li 97.5 0.038 8.2E-07 52.4 22.8 196 28-243 1-207 (268)
155 cd06285 PBP1_LacI_like_7 Ligan 97.5 0.02 4.4E-07 54.0 20.8 205 28-254 1-211 (265)
156 PRK10703 DNA-binding transcrip 97.5 0.018 3.8E-07 56.9 21.0 209 25-252 58-272 (341)
157 PRK10014 DNA-binding transcrip 97.5 0.024 5.3E-07 55.9 21.8 205 23-246 61-270 (342)
158 COG1879 RbsB ABC-type sugar tr 97.5 0.09 2E-06 51.3 25.5 216 22-252 29-250 (322)
159 cd06274 PBP1_FruR Ligand bindi 97.5 0.032 6.9E-07 52.7 21.7 206 28-252 1-211 (264)
160 cd06316 PBP1_ABC_sugar_binding 97.5 0.069 1.5E-06 51.4 24.3 212 28-254 1-219 (294)
161 cd06296 PBP1_CatR_like Ligand- 97.5 0.019 4E-07 54.4 19.9 207 28-254 1-214 (270)
162 PRK11303 DNA-binding transcrip 97.5 0.039 8.5E-07 54.0 22.6 206 24-251 59-270 (328)
163 cd06290 PBP1_LacI_like_9 Ligan 97.5 0.02 4.4E-07 54.0 19.9 201 28-248 1-205 (265)
164 cd06299 PBP1_LacI_like_13 Liga 97.5 0.021 4.6E-07 53.9 20.0 205 28-252 1-208 (265)
165 cd06278 PBP1_LacI_like_2 Ligan 97.5 0.026 5.6E-07 53.3 20.6 190 29-241 2-196 (266)
166 PRK15408 autoinducer 2-binding 97.4 0.13 2.8E-06 50.5 25.5 198 28-243 25-233 (336)
167 PRK10423 transcriptional repre 97.4 0.045 9.8E-07 53.6 21.9 209 23-252 53-268 (327)
168 cd06318 PBP1_ABC_sugar_binding 97.4 0.096 2.1E-06 49.9 23.5 200 28-244 1-215 (282)
169 cd06294 PBP1_ycjW_transcriptio 97.4 0.035 7.5E-07 52.6 20.2 206 28-253 1-218 (270)
170 TIGR02417 fruct_sucro_rep D-fr 97.4 0.049 1.1E-06 53.3 21.7 208 24-254 58-273 (327)
171 smart00062 PBPb Bacterial peri 97.4 0.00038 8.2E-09 63.1 6.3 73 463-547 1-73 (219)
172 cd06292 PBP1_LacI_like_10 Liga 97.3 0.059 1.3E-06 51.1 21.4 207 28-252 1-214 (273)
173 cd06277 PBP1_LacI_like_1 Ligan 97.3 0.052 1.1E-06 51.3 20.9 197 29-246 2-204 (268)
174 cd06314 PBP1_tmGBP Periplasmic 97.3 0.14 3.1E-06 48.4 23.8 204 28-253 1-212 (271)
175 cd00134 PBPb Bacterial peripla 97.3 0.00054 1.2E-08 62.2 6.8 72 465-548 2-73 (218)
176 cd06286 PBP1_CcpB_like Ligand- 97.3 0.036 7.8E-07 52.1 19.1 198 28-247 1-203 (260)
177 cd06280 PBP1_LacI_like_4 Ligan 97.3 0.062 1.3E-06 50.7 20.7 200 28-252 1-205 (263)
178 cd06313 PBP1_ABC_sugar_binding 97.3 0.072 1.6E-06 50.6 21.1 180 63-254 29-216 (272)
179 PRK09959 hybrid sensory histid 97.3 0.00058 1.3E-08 79.4 7.8 75 462-548 302-376 (1197)
180 PRK10727 DNA-binding transcrip 97.3 0.059 1.3E-06 53.2 21.0 208 23-251 56-269 (343)
181 cd06307 PBP1_uncharacterized_s 97.2 0.19 4E-06 47.7 23.7 210 28-254 1-219 (275)
182 cd06291 PBP1_Qymf_like Ligand 97.2 0.068 1.5E-06 50.4 20.5 194 28-247 1-201 (265)
183 cd01541 PBP1_AraR Ligand-bindi 97.2 0.061 1.3E-06 51.0 19.8 207 29-253 2-217 (273)
184 cd06272 PBP1_hexuronate_repres 97.2 0.059 1.3E-06 50.7 19.4 199 28-251 1-204 (261)
185 PF04392 ABC_sub_bind: ABC tra 97.2 0.034 7.3E-07 53.5 17.9 185 28-228 1-194 (294)
186 TIGR02955 TMAO_TorT TMAO reduc 97.2 0.15 3.2E-06 49.1 22.2 196 28-243 1-207 (295)
187 TIGR03871 ABC_peri_MoxJ_2 quin 97.1 0.00096 2.1E-08 61.8 6.6 62 464-539 2-63 (232)
188 cd06302 PBP1_LsrB_Quorum_Sensi 97.1 0.22 4.7E-06 48.1 23.2 209 28-253 1-218 (298)
189 cd06304 PBP1_BmpA_like Peripla 97.1 0.082 1.8E-06 49.8 19.8 199 28-242 1-202 (260)
190 cd06354 PBP1_BmpA_PnrA_like Pe 97.1 0.085 1.8E-06 49.9 19.9 200 28-242 1-206 (265)
191 cd06297 PBP1_LacI_like_12 Liga 97.1 0.091 2E-06 49.8 20.0 200 29-252 2-213 (269)
192 PRK09526 lacI lac repressor; R 97.0 0.23 5.1E-06 48.9 22.7 204 24-251 61-272 (342)
193 cd06279 PBP1_LacI_like_3 Ligan 97.0 0.14 3E-06 48.9 20.1 195 29-247 2-223 (283)
194 PRK14987 gluconate operon tran 97.0 0.2 4.4E-06 49.0 21.6 207 25-252 62-272 (331)
195 cd01543 PBP1_XylR Ligand-bindi 96.9 0.098 2.1E-06 49.4 18.3 203 28-254 1-207 (265)
196 PRK11041 DNA-binding transcrip 96.9 0.19 4.2E-06 48.6 20.5 211 23-253 32-247 (309)
197 PRK10401 DNA-binding transcrip 96.9 0.24 5.2E-06 48.9 21.4 207 24-251 57-269 (346)
198 PRK09492 treR trehalose repres 96.9 0.32 7E-06 47.2 22.0 193 24-243 60-256 (315)
199 TIGR02634 xylF D-xylose ABC tr 96.6 0.79 1.7E-05 44.2 22.3 171 63-244 28-209 (302)
200 cd01544 PBP1_GalR Ligand-bindi 96.3 0.76 1.6E-05 43.4 19.7 197 28-251 1-211 (270)
201 TIGR02405 trehalos_R_Ecol treh 96.1 1.5 3.2E-05 42.5 21.8 191 25-243 58-253 (311)
202 COG4623 Predicted soluble lyti 95.8 0.021 4.5E-07 54.2 6.0 74 461-547 22-95 (473)
203 cd06353 PBP1_BmpA_Med_like Per 95.5 1.5 3.3E-05 41.2 17.6 196 28-242 1-200 (258)
204 cd06315 PBP1_ABC_sugar_binding 95.3 2.7 5.9E-05 39.9 22.1 204 28-246 2-216 (280)
205 TIGR02637 RhaS rhamnose ABC tr 94.6 4.5 9.7E-05 38.9 24.3 162 73-244 38-210 (302)
206 TIGR02990 ectoine_eutA ectoine 94.4 0.52 1.1E-05 43.4 10.9 93 145-240 106-203 (239)
207 cd06287 PBP1_LacI_like_8 Ligan 94.4 4.7 0.0001 38.1 19.0 154 89-252 54-211 (269)
208 PRK10339 DNA-binding transcrip 92.9 9.8 0.00021 37.0 19.0 149 90-251 113-266 (327)
209 COG4213 XylF ABC-type xylose t 92.5 9.6 0.00021 35.9 18.4 208 21-244 20-242 (341)
210 COG1744 Med Uncharacterized AB 92.4 12 0.00026 36.8 20.4 209 22-243 30-244 (345)
211 COG1454 EutG Alcohol dehydroge 90.4 2.3 4.9E-05 42.0 9.9 92 147-240 17-110 (377)
212 TIGR00035 asp_race aspartate r 89.8 6.1 0.00013 36.3 11.9 45 76-121 59-104 (229)
213 PF03808 Glyco_tran_WecB: Glyc 89.7 8.1 0.00017 33.6 12.0 100 145-256 35-136 (172)
214 cd06276 PBP1_FucR_like Ligand- 89.6 17 0.00037 33.7 17.9 148 83-251 44-194 (247)
215 TIGR01098 3A0109s03R phosphate 89.6 0.59 1.3E-05 43.7 5.2 65 461-543 31-95 (254)
216 PF13377 Peripla_BP_3: Peripla 89.5 2.3 5.1E-05 36.2 8.5 98 151-252 1-101 (160)
217 PRK09860 putative alcohol dehy 89.0 2.7 5.9E-05 42.0 9.6 88 148-237 20-109 (383)
218 COG3473 Maleate cis-trans isom 88.4 17 0.00037 32.1 13.0 90 148-240 107-201 (238)
219 PRK15454 ethanol dehydrogenase 88.2 3.3 7.2E-05 41.6 9.6 86 148-235 38-125 (395)
220 cd08190 HOT Hydroxyacid-oxoaci 87.6 3.7 8E-05 41.6 9.6 86 148-235 12-99 (414)
221 PRK10624 L-1,2-propanediol oxi 87.4 4.1 8.9E-05 40.8 9.7 87 147-235 18-106 (382)
222 cd08192 Fe-ADH7 Iron-containin 87.2 4.2 9E-05 40.6 9.7 88 148-237 13-102 (370)
223 cd06353 PBP1_BmpA_Med_like Per 86.6 4.3 9.3E-05 38.1 8.9 86 28-122 122-207 (258)
224 cd08193 HVD 5-hydroxyvalerate 86.5 4.8 0.0001 40.2 9.6 88 148-237 15-104 (376)
225 KOG3857 Alcohol dehydrogenase, 85.7 7.3 0.00016 37.1 9.4 96 131-228 38-137 (465)
226 cd08551 Fe-ADH iron-containing 85.5 6.3 0.00014 39.3 10.0 88 148-237 12-101 (370)
227 cd08189 Fe-ADH5 Iron-containin 85.0 6.1 0.00013 39.4 9.6 89 148-238 15-105 (374)
228 TIGR02638 lactal_redase lactal 85.0 6.1 0.00013 39.5 9.5 87 147-235 17-105 (379)
229 cd06533 Glyco_transf_WecG_TagA 84.7 23 0.00051 30.7 11.9 101 143-255 31-133 (171)
230 cd08194 Fe-ADH6 Iron-containin 84.6 7 0.00015 39.0 9.8 86 148-235 12-99 (375)
231 PRK10200 putative racemase; Pr 84.4 17 0.00037 33.3 11.5 86 76-190 59-146 (230)
232 PF00465 Fe-ADH: Iron-containi 83.8 4.1 8.8E-05 40.6 7.7 89 148-240 12-102 (366)
233 cd08188 Fe-ADH4 Iron-containin 81.9 10 0.00022 37.9 9.7 87 147-235 16-104 (377)
234 cd08185 Fe-ADH1 Iron-containin 81.9 9.8 0.00021 38.0 9.7 87 148-237 15-104 (380)
235 PF12683 DUF3798: Protein of u 81.9 44 0.00095 31.1 17.1 208 25-242 1-223 (275)
236 cd08181 PPD-like 1,3-propanedi 81.0 12 0.00026 37.1 9.7 85 148-235 15-102 (357)
237 cd08176 LPO Lactadehyde:propan 79.9 11 0.00024 37.7 9.2 86 148-235 17-104 (377)
238 PF13685 Fe-ADH_2: Iron-contai 79.4 15 0.00032 34.2 9.0 99 149-254 9-108 (250)
239 cd08191 HHD 6-hydroxyhexanoate 79.3 15 0.00033 36.8 10.0 87 148-237 12-100 (386)
240 PRK00489 hisG ATP phosphoribos 78.3 1.5 3.2E-05 41.9 2.3 38 502-548 42-79 (287)
241 cd08170 GlyDH Glycerol dehydro 78.2 11 0.00023 37.3 8.5 83 148-235 12-96 (351)
242 cd08182 HEPD Hydroxyethylphosp 78.0 16 0.00034 36.4 9.6 85 148-237 12-98 (367)
243 cd08171 GlyDH-like2 Glycerol d 75.8 15 0.00032 36.2 8.6 85 148-236 12-98 (345)
244 PF13407 Peripla_BP_4: Peripla 75.4 9.4 0.0002 35.5 6.9 78 162-243 1-81 (257)
245 cd00001 PTS_IIB_man PTS_IIB, P 75.0 26 0.00057 29.6 8.7 81 146-236 12-92 (151)
246 cd07766 DHQ_Fe-ADH Dehydroquin 74.9 21 0.00045 34.9 9.4 87 148-238 12-100 (332)
247 PRK09756 PTS system N-acetylga 74.7 34 0.00074 29.2 9.3 80 146-236 17-97 (158)
248 cd08186 Fe-ADH8 Iron-containin 74.6 20 0.00044 35.8 9.4 88 148-237 12-105 (383)
249 PRK03692 putative UDP-N-acetyl 74.3 71 0.0015 29.6 12.0 87 145-240 92-179 (243)
250 TIGR00854 pts-sorbose PTS syst 74.2 29 0.00063 29.4 8.7 81 146-236 13-93 (151)
251 cd08187 BDH Butanol dehydrogen 74.1 21 0.00046 35.7 9.4 85 148-235 18-105 (382)
252 PRK11425 PTS system N-acetylga 73.5 34 0.00074 29.2 9.0 80 146-236 15-94 (157)
253 PF02608 Bmp: Basic membrane p 72.7 27 0.00058 33.7 9.4 88 28-122 128-220 (306)
254 cd08183 Fe-ADH2 Iron-containin 72.5 26 0.00056 35.0 9.5 82 148-236 12-95 (374)
255 COG1744 Med Uncharacterized AB 72.2 76 0.0016 31.2 12.4 76 25-106 160-235 (345)
256 PF02608 Bmp: Basic membrane p 72.2 96 0.0021 29.9 18.3 203 27-243 2-212 (306)
257 PRK09423 gldA glycerol dehydro 72.2 21 0.00046 35.5 8.8 83 148-235 19-103 (366)
258 cd02071 MM_CoA_mut_B12_BD meth 71.9 45 0.00097 27.0 9.2 72 164-243 4-79 (122)
259 cd06305 PBP1_methylthioribose_ 69.3 28 0.0006 32.6 8.7 78 162-244 2-82 (273)
260 COG0078 ArgF Ornithine carbamo 69.1 1.1E+02 0.0023 29.2 16.9 162 26-224 44-212 (310)
261 TIGR00696 wecB_tagA_cpsF bacte 69.0 79 0.0017 27.6 12.0 87 144-240 34-122 (177)
262 PF03830 PTSIIB_sorb: PTS syst 67.8 14 0.0003 31.3 5.5 82 146-237 13-94 (151)
263 cd06306 PBP1_TorT-like TorT-li 65.9 30 0.00065 32.4 8.1 80 161-243 1-82 (268)
264 PRK15116 sulfur acceptor prote 65.6 1.2E+02 0.0026 28.5 12.9 109 45-169 87-208 (268)
265 TIGR03431 PhnD phosphonate ABC 65.5 12 0.00026 35.7 5.3 40 493-540 48-87 (288)
266 cd08550 GlyDH-like Glycerol_de 65.2 39 0.00085 33.3 9.0 83 148-235 12-96 (349)
267 cd06301 PBP1_rhizopine_binding 64.9 31 0.00067 32.2 8.1 78 161-243 1-82 (272)
268 TIGR00315 cdhB CO dehydrogenas 64.5 90 0.002 26.8 9.7 47 84-130 20-70 (162)
269 PRK15408 autoinducer 2-binding 64.2 44 0.00095 32.8 9.1 82 158-243 22-106 (336)
270 TIGR02370 pyl_corrinoid methyl 63.8 77 0.0017 28.2 9.8 88 160-255 85-176 (197)
271 cd06312 PBP1_ABC_sugar_binding 63.2 37 0.00079 31.8 8.2 79 161-243 1-83 (271)
272 cd08175 G1PDH Glycerol-1-phosp 61.6 53 0.0011 32.4 9.1 87 148-236 12-100 (348)
273 cd06267 PBP1_LacI_sugar_bindin 61.2 36 0.00079 31.3 7.8 76 162-243 2-79 (264)
274 COG1464 NlpA ABC-type metal io 61.1 34 0.00074 31.7 7.0 47 25-82 29-75 (268)
275 cd00755 YgdL_like Family of ac 61.0 1.4E+02 0.0029 27.5 12.4 114 40-169 63-182 (231)
276 cd08178 AAD_C C-terminal alcoh 60.9 36 0.00077 34.3 7.9 78 157-236 19-98 (398)
277 PRK07475 hypothetical protein; 60.7 77 0.0017 29.4 9.5 44 76-120 62-106 (245)
278 PRK00945 acetyl-CoA decarbonyl 60.6 97 0.0021 26.8 9.3 48 83-130 26-78 (171)
279 cd01537 PBP1_Repressors_Sugar_ 60.6 33 0.00072 31.5 7.4 77 162-243 2-80 (264)
280 cd06310 PBP1_ABC_sugar_binding 60.1 46 0.00099 31.1 8.3 80 161-243 1-83 (273)
281 PRK00856 pyrB aspartate carbam 60.0 1.7E+02 0.0036 28.2 13.1 137 26-193 45-188 (305)
282 cd06289 PBP1_MalI_like Ligand- 59.0 49 0.0011 30.7 8.3 77 162-243 2-80 (268)
283 PF00625 Guanylate_kin: Guanyl 58.4 1.3E+02 0.0027 26.3 11.1 93 91-192 3-99 (183)
284 PF08139 LPAM_1: Prokaryotic m 58.3 6.8 0.00015 21.6 1.2 15 1-15 7-21 (25)
285 cd08180 PDD 1,3-propanediol de 57.5 40 0.00086 33.0 7.4 79 154-235 17-97 (332)
286 cd08177 MAR Maleylacetate redu 57.4 40 0.00086 33.1 7.4 84 148-236 12-97 (337)
287 cd01538 PBP1_ABC_xylose_bindin 56.7 72 0.0016 30.2 9.0 77 162-243 2-81 (288)
288 cd06282 PBP1_GntR_like_2 Ligan 56.4 54 0.0012 30.3 8.1 77 162-243 2-80 (266)
289 cd02067 B12-binding B12 bindin 56.2 88 0.0019 25.0 8.1 67 168-242 8-78 (119)
290 cd06303 PBP1_LuxPQ_Quorum_Sens 55.9 51 0.0011 31.1 7.8 80 162-242 2-84 (280)
291 cd06302 PBP1_LsrB_Quorum_Sensi 55.9 61 0.0013 30.9 8.4 78 162-243 2-82 (298)
292 PRK00002 aroB 3-dehydroquinate 55.8 1.6E+02 0.0035 29.1 11.4 87 148-237 20-113 (358)
293 cd08179 NADPH_BDH NADPH-depend 55.4 40 0.00087 33.6 7.2 80 155-236 19-101 (375)
294 cd03364 TOPRIM_DnaG_primases T 55.3 29 0.00063 25.4 4.7 42 150-192 35-76 (79)
295 cd01536 PBP1_ABC_sugar_binding 54.7 67 0.0015 29.6 8.4 77 161-242 1-80 (267)
296 cd01545 PBP1_SalR Ligand-bindi 53.8 68 0.0015 29.7 8.3 78 162-243 2-81 (270)
297 cd06322 PBP1_ABC_sugar_binding 53.4 73 0.0016 29.5 8.4 77 162-243 2-81 (267)
298 COG0563 Adk Adenylate kinase a 53.3 65 0.0014 28.2 7.3 29 93-121 3-31 (178)
299 PF08194 DIM: DIM protein; In 53.3 17 0.00036 22.0 2.4 14 18-31 17-30 (36)
300 PF06506 PrpR_N: Propionate ca 53.0 1.5E+02 0.0033 25.7 12.0 134 67-244 11-145 (176)
301 PRK15088 PTS system mannose-sp 52.8 1E+02 0.0022 30.0 9.1 81 146-236 176-256 (322)
302 COG1179 Dinucleotide-utilizing 52.8 1E+02 0.0022 28.3 8.3 85 40-140 82-167 (263)
303 cd06299 PBP1_LacI_like_13 Liga 52.7 84 0.0018 29.1 8.7 76 162-243 2-79 (265)
304 cd01540 PBP1_arabinose_binding 52.4 59 0.0013 30.7 7.7 76 162-243 2-80 (289)
305 TIGR00249 sixA phosphohistidin 52.3 94 0.002 26.3 8.0 96 139-239 23-120 (152)
306 PF13380 CoA_binding_2: CoA bi 52.3 27 0.00058 28.0 4.4 85 160-254 1-88 (116)
307 PRK15395 methyl-galactoside AB 52.2 1.9E+02 0.0041 28.1 11.3 124 24-156 160-293 (330)
308 cd06277 PBP1_LacI_like_1 Ligan 52.1 99 0.0021 28.7 9.1 75 162-243 2-81 (268)
309 KOG0025 Zn2+-binding dehydroge 51.8 95 0.0021 29.4 8.1 95 134-241 162-256 (354)
310 cd08549 G1PDH_related Glycerol 51.5 92 0.002 30.5 8.8 85 148-236 12-100 (332)
311 cd06318 PBP1_ABC_sugar_binding 51.1 75 0.0016 29.8 8.2 77 162-243 2-81 (282)
312 PRK09189 uroporphyrinogen-III 50.8 83 0.0018 29.0 8.1 87 145-239 102-190 (240)
313 PRK11063 metQ DL-methionine tr 50.6 54 0.0012 31.0 6.8 58 22-96 28-85 (271)
314 cd01539 PBP1_GGBP Periplasmic 50.4 94 0.002 29.7 8.8 78 161-243 1-83 (303)
315 PF00448 SRP54: SRP54-type pro 50.0 96 0.0021 27.6 8.0 65 159-228 29-93 (196)
316 cd06304 PBP1_BmpA_like Peripla 50.0 2.1E+02 0.0046 26.4 12.4 131 25-164 119-249 (260)
317 PRK09701 D-allose transporter 49.8 1.1E+02 0.0023 29.5 9.1 84 157-243 22-108 (311)
318 cd06320 PBP1_allose_binding Pe 49.6 88 0.0019 29.2 8.4 79 162-243 2-83 (275)
319 cd01391 Periplasmic_Binding_Pr 49.4 86 0.0019 28.5 8.2 78 161-243 1-83 (269)
320 PF04273 DUF442: Putative phos 49.3 1.3E+02 0.0029 23.8 9.4 84 153-238 22-106 (110)
321 cd08173 Gro1PDH Sn-glycerol-1- 49.0 1E+02 0.0022 30.2 8.8 82 149-236 14-98 (339)
322 PRK10936 TMAO reductase system 48.8 1E+02 0.0022 30.2 8.9 80 160-243 47-129 (343)
323 cd06281 PBP1_LacI_like_5 Ligan 48.8 99 0.0021 28.7 8.5 76 162-242 2-79 (269)
324 COG2984 ABC-type uncharacteriz 48.7 1.7E+02 0.0036 28.2 9.5 55 63-121 188-245 (322)
325 cd06300 PBP1_ABC_sugar_binding 48.6 97 0.0021 28.8 8.5 80 161-243 1-86 (272)
326 PF13362 Toprim_3: Toprim doma 48.6 63 0.0014 24.6 5.9 52 157-213 39-92 (96)
327 cd08184 Fe-ADH3 Iron-containin 47.9 1.4E+02 0.0029 29.5 9.4 83 148-236 12-101 (347)
328 PRK11303 DNA-binding transcrip 46.9 1.4E+02 0.003 28.8 9.5 80 159-243 61-142 (328)
329 PF13155 Toprim_2: Toprim-like 46.9 53 0.0012 25.0 5.2 41 147-187 35-75 (96)
330 cd08197 DOIS 2-deoxy-scyllo-in 46.9 2.6E+02 0.0056 27.6 11.2 102 148-254 12-119 (355)
331 COG3221 PhnD ABC-type phosphat 46.4 35 0.00077 32.7 4.9 40 492-539 55-94 (299)
332 TIGR00067 glut_race glutamate 46.2 1.6E+02 0.0036 27.4 9.2 126 85-228 54-182 (251)
333 cd06316 PBP1_ABC_sugar_binding 46.0 91 0.002 29.5 7.9 79 161-243 1-82 (294)
334 cd06295 PBP1_CelR Ligand bindi 46.0 1.3E+02 0.0027 28.1 8.8 77 159-243 3-88 (275)
335 cd06323 PBP1_ribose_binding Pe 45.6 1.1E+02 0.0025 28.2 8.4 77 162-243 2-81 (268)
336 TIGR01744 XPRTase xanthine pho 45.2 68 0.0015 28.4 6.2 70 51-121 5-79 (191)
337 cd02070 corrinoid_protein_B12- 45.1 2.3E+02 0.0049 25.3 10.5 87 160-254 83-173 (201)
338 PRK13054 lipid kinase; Reviewe 44.6 1.7E+02 0.0037 28.0 9.5 75 160-240 4-78 (300)
339 PF00205 TPP_enzyme_M: Thiamin 44.6 55 0.0012 27.0 5.3 56 82-138 2-61 (137)
340 PRK10014 DNA-binding transcrip 44.5 1.6E+02 0.0034 28.7 9.5 79 160-243 65-145 (342)
341 cd02069 methionine_synthase_B1 44.4 2.3E+02 0.0051 25.6 9.6 86 160-255 89-178 (213)
342 PRK00865 glutamate racemase; P 44.4 2.7E+02 0.0059 26.0 12.8 34 87-120 63-96 (261)
343 PF02310 B12-binding: B12 bind 44.3 1.6E+02 0.0035 23.3 10.6 50 169-226 10-59 (121)
344 PF04392 ABC_sub_bind: ABC tra 44.2 2E+02 0.0044 27.4 9.9 116 24-156 129-247 (294)
345 cd06278 PBP1_LacI_like_2 Ligan 44.0 1.1E+02 0.0024 28.1 8.1 75 162-243 2-78 (266)
346 TIGR02667 moaB_proteo molybden 43.8 1.8E+02 0.0038 25.0 8.4 66 158-227 3-72 (163)
347 PRK10653 D-ribose transporter 43.5 1.4E+02 0.0031 28.2 8.8 80 159-243 26-108 (295)
348 PRK11070 ssDNA exonuclease Rec 43.4 2.5E+02 0.0054 29.9 10.9 101 148-255 57-159 (575)
349 cd06315 PBP1_ABC_sugar_binding 43.3 1.7E+02 0.0037 27.4 9.3 79 160-243 1-82 (280)
350 PRK10355 xylF D-xylose transpo 43.0 1.6E+02 0.0034 28.7 9.1 79 159-242 25-106 (330)
351 cd08169 DHQ-like Dehydroquinat 43.0 3E+02 0.0065 27.1 11.0 88 148-238 12-105 (344)
352 PF08357 SEFIR: SEFIR domain; 42.8 58 0.0013 27.3 5.3 35 160-194 1-37 (150)
353 TIGR02637 RhaS rhamnose ABC tr 42.6 1.2E+02 0.0027 28.8 8.3 71 169-243 10-82 (302)
354 TIGR00177 molyb_syn molybdenum 42.5 1.5E+02 0.0033 24.7 7.7 48 175-227 28-75 (144)
355 cd01574 PBP1_LacI Ligand-bindi 42.5 1.6E+02 0.0034 27.2 8.8 62 162-227 2-65 (264)
356 PRK10481 hypothetical protein; 42.3 1.9E+02 0.0042 26.3 8.7 77 149-231 118-195 (224)
357 cd06319 PBP1_ABC_sugar_binding 42.3 1.2E+02 0.0027 28.1 8.2 77 162-243 2-81 (277)
358 cd06270 PBP1_GalS_like Ligand 41.8 1.6E+02 0.0034 27.3 8.8 76 162-243 2-79 (268)
359 cd00758 MoCF_BD MoCF_BD: molyb 41.8 1.4E+02 0.003 24.5 7.2 48 175-227 20-67 (133)
360 cd06317 PBP1_ABC_sugar_binding 41.8 1.3E+02 0.0029 27.8 8.3 77 162-243 2-82 (275)
361 TIGR03884 sel_bind_Methan sele 41.7 59 0.0013 23.4 4.1 41 61-101 9-52 (74)
362 PRK00843 egsA NAD(P)-dependent 41.7 1.6E+02 0.0034 29.1 8.9 82 148-235 22-106 (350)
363 PF00072 Response_reg: Respons 41.4 1.6E+02 0.0035 22.5 8.0 57 175-242 10-69 (112)
364 cd06296 PBP1_CatR_like Ligand- 41.3 1.4E+02 0.003 27.6 8.3 75 162-242 2-78 (270)
365 KOG0780 Signal recognition par 41.1 3.8E+02 0.0082 26.8 11.2 101 148-254 119-222 (483)
366 PRK11914 diacylglycerol kinase 40.9 2.1E+02 0.0045 27.5 9.4 78 156-239 5-85 (306)
367 COG0134 TrpC Indole-3-glycerol 40.6 98 0.0021 28.7 6.5 86 149-244 70-158 (254)
368 PF07302 AroM: AroM protein; 40.6 2.8E+02 0.0062 25.2 12.7 74 160-239 126-201 (221)
369 cd06324 PBP1_ABC_sugar_binding 40.4 1.2E+02 0.0027 28.9 7.9 77 162-243 2-83 (305)
370 cd06273 PBP1_GntR_like_1 This 40.4 1.6E+02 0.0034 27.2 8.5 76 162-243 2-79 (268)
371 TIGR01729 taurine_ABC_bnd taur 40.3 35 0.00075 32.7 4.0 37 498-542 21-57 (300)
372 TIGR00646 MG010 DNA primase-re 40.1 77 0.0017 28.6 5.7 57 152-213 147-203 (218)
373 cd06314 PBP1_tmGBP Periplasmic 39.9 1.3E+02 0.0028 28.0 7.8 75 162-240 2-78 (271)
374 TIGR00670 asp_carb_tr aspartat 39.9 3.5E+02 0.0076 26.0 14.2 136 27-193 40-182 (301)
375 PF00218 IGPS: Indole-3-glycer 39.8 2.7E+02 0.0058 26.0 9.4 87 148-244 71-160 (254)
376 cd01994 Alpha_ANH_like_IV This 39.8 2.7E+02 0.0059 24.7 12.5 102 103-228 46-147 (194)
377 PRK07239 bifunctional uroporph 39.6 2.8E+02 0.0061 27.6 10.5 96 146-242 127-224 (381)
378 COG1058 CinA Predicted nucleot 39.3 1.6E+02 0.0035 27.4 7.7 49 174-227 21-69 (255)
379 PRK00278 trpC indole-3-glycero 39.3 2.8E+02 0.0062 25.9 9.7 87 148-244 73-162 (260)
380 PRK03515 ornithine carbamoyltr 39.2 3.8E+02 0.0083 26.3 16.5 134 27-193 46-187 (336)
381 PRK05928 hemD uroporphyrinogen 39.0 1.8E+02 0.0038 26.7 8.5 78 157-242 123-200 (249)
382 PRK13805 bifunctional acetalde 39.0 5.8E+02 0.013 28.9 13.7 77 158-236 479-559 (862)
383 PRK13808 adenylate kinase; Pro 39.0 1.1E+02 0.0024 29.8 7.0 29 93-121 3-31 (333)
384 COG1609 PurR Transcriptional r 39.0 3.8E+02 0.0082 26.1 11.8 125 24-156 173-305 (333)
385 cd06274 PBP1_FruR Ligand bindi 38.9 1.8E+02 0.0038 26.9 8.5 76 162-243 2-79 (264)
386 PF12974 Phosphonate-bd: ABC t 38.8 40 0.00086 31.1 4.0 41 492-540 17-57 (243)
387 cd06291 PBP1_Qymf_like Ligand 38.7 3.1E+02 0.0068 25.1 11.0 122 26-156 112-241 (265)
388 PRK05752 uroporphyrinogen-III 38.7 1.6E+02 0.0035 27.3 8.1 88 143-238 109-201 (255)
389 cd06292 PBP1_LacI_like_10 Liga 38.3 2.1E+02 0.0045 26.5 9.0 77 162-243 2-84 (273)
390 TIGR00640 acid_CoA_mut_C methy 38.3 2.3E+02 0.0049 23.4 8.2 67 169-243 12-82 (132)
391 TIGR02417 fruct_sucro_rep D-fr 38.2 2.6E+02 0.0056 26.9 9.9 79 159-242 60-140 (327)
392 cd00886 MogA_MoaB MogA_MoaB fa 38.1 2.3E+02 0.0049 23.9 8.2 63 161-227 2-70 (152)
393 cd06321 PBP1_ABC_sugar_binding 37.8 1.6E+02 0.0034 27.3 8.1 77 162-243 2-83 (271)
394 TIGR00290 MJ0570_dom MJ0570-re 37.7 3.2E+02 0.0069 24.9 10.5 96 105-227 48-143 (223)
395 cd06285 PBP1_LacI_like_7 Ligan 37.6 2.1E+02 0.0045 26.4 8.8 76 162-243 2-79 (265)
396 PRK14529 adenylate kinase; Pro 37.2 1.6E+02 0.0034 26.9 7.4 29 93-121 3-31 (223)
397 cd06271 PBP1_AglR_RafR_like Li 37.0 1.6E+02 0.0034 27.1 7.9 68 169-242 15-82 (268)
398 TIGR00363 lipoprotein, YaeC fa 37.0 89 0.0019 29.2 5.9 58 22-96 15-72 (258)
399 PF01745 IPT: Isopentenyl tran 37.0 30 0.00065 31.1 2.6 31 91-121 2-32 (233)
400 PF02310 B12-binding: B12 bind 36.5 1.9E+02 0.0041 22.9 7.3 71 147-227 17-88 (121)
401 cd06307 PBP1_uncharacterized_s 36.2 1.5E+02 0.0033 27.6 7.7 80 161-243 1-84 (275)
402 PRK13957 indole-3-glycerol-pho 36.2 3.5E+02 0.0075 25.2 9.4 87 148-244 64-153 (247)
403 TIGR02634 xylF D-xylose ABC tr 35.8 1.5E+02 0.0033 28.3 7.6 71 168-243 9-80 (302)
404 PLN02821 1-hydroxy-2-methyl-2- 35.8 1.9E+02 0.004 29.5 8.0 57 65-121 335-394 (460)
405 PF13662 Toprim_4: Toprim doma 35.7 1.1E+02 0.0023 22.4 5.2 33 159-191 46-78 (81)
406 PF13207 AAA_17: AAA domain; P 35.5 41 0.00089 26.8 3.1 32 92-123 1-32 (121)
407 PF13671 AAA_33: AAA domain; P 35.5 47 0.001 27.4 3.6 30 92-121 1-30 (143)
408 cd01542 PBP1_TreR_like Ligand- 35.5 2E+02 0.0044 26.3 8.3 75 162-242 2-78 (259)
409 TIGR02122 TRAP_TAXI TRAP trans 35.4 72 0.0016 30.7 5.4 42 492-541 48-90 (320)
410 CHL00073 chlN photochlorophyll 35.3 1.8E+02 0.0039 29.9 8.1 140 92-244 195-339 (457)
411 PF00532 Peripla_BP_1: Peripla 35.2 1.3E+02 0.0028 28.5 6.9 65 160-230 2-68 (279)
412 PRK09219 xanthine phosphoribos 35.2 1.3E+02 0.0028 26.6 6.3 70 50-121 4-79 (189)
413 COG1794 RacX Aspartate racemas 35.2 2.2E+02 0.0048 25.9 7.6 86 76-191 59-146 (230)
414 cd01575 PBP1_GntR Ligand-bindi 35.1 1.9E+02 0.0042 26.5 8.2 75 162-242 2-78 (268)
415 PF01177 Asp_Glu_race: Asp/Glu 34.9 3.3E+02 0.0071 24.3 14.1 121 89-240 63-198 (216)
416 PF00731 AIRC: AIR carboxylase 34.7 2.8E+02 0.0061 23.4 8.6 68 161-232 2-69 (150)
417 cd08172 GlyDH-like1 Glycerol d 34.5 1.8E+02 0.0039 28.6 8.0 82 148-236 13-96 (347)
418 COG1638 DctP TRAP-type C4-dica 34.5 1.9E+02 0.0041 28.3 7.9 56 25-92 28-85 (332)
419 cd01569 PBEF_like pre-B-cell c 34.4 4.9E+02 0.011 26.2 10.7 101 145-250 239-359 (407)
420 COG1707 ACT domain-containing 34.4 1.9E+02 0.0042 24.6 6.7 79 42-122 94-175 (218)
421 PF02698 DUF218: DUF218 domain 34.2 2.6E+02 0.0056 23.4 8.0 91 81-189 26-123 (155)
422 cd06309 PBP1_YtfQ_like Peripla 34.2 1.2E+02 0.0026 28.2 6.6 71 168-243 10-81 (273)
423 PRK10386 curli assembly protei 34.0 71 0.0015 26.1 4.0 51 1-52 1-53 (130)
424 PRK00779 ornithine carbamoyltr 33.9 4.4E+02 0.0095 25.4 13.6 134 26-193 43-182 (304)
425 cd06578 HemD Uroporphyrinogen- 33.8 3.3E+02 0.0071 24.5 9.4 88 145-241 106-195 (239)
426 PRK15138 aldehyde reductase; P 33.3 2.2E+02 0.0048 28.5 8.5 82 148-235 20-104 (387)
427 COG4126 Hydantoin racemase [Am 33.2 1.6E+02 0.0035 26.6 6.4 45 75-121 49-97 (230)
428 PF01902 ATP_bind_4: ATP-bindi 33.1 2.3E+02 0.0049 25.8 7.7 94 107-227 50-143 (218)
429 cd06354 PBP1_BmpA_PnrA_like Pe 33.1 4E+02 0.0086 24.7 13.8 126 25-156 120-245 (265)
430 COG1419 FlhF Flagellar GTP-bin 33.1 2.8E+02 0.0061 27.8 8.7 84 135-229 205-292 (407)
431 COG5633 Predicted periplasmic 32.8 31 0.00067 27.3 1.7 19 1-19 1-19 (123)
432 TIGR03702 lip_kinase_YegS lipi 32.4 3.2E+02 0.007 26.0 9.2 73 162-240 2-74 (293)
433 COG1587 HemD Uroporphyrinogen- 32.3 3.1E+02 0.0068 25.3 8.8 91 144-242 106-198 (248)
434 COG1922 WecG Teichoic acid bio 32.2 3.1E+02 0.0067 25.5 8.4 98 145-255 95-195 (253)
435 PF02401 LYTB: LytB protein; 32.1 1.2E+02 0.0027 28.7 6.0 56 66-121 184-241 (281)
436 TIGR01359 UMP_CMP_kin_fam UMP- 32.1 55 0.0012 28.5 3.6 30 92-121 1-30 (183)
437 cd08195 DHQS Dehydroquinate sy 31.7 5E+02 0.011 25.4 11.4 91 150-242 14-111 (345)
438 TIGR01357 aroB 3-dehydroquinat 31.6 5E+02 0.011 25.4 10.7 89 150-242 13-107 (344)
439 cd06283 PBP1_RegR_EndR_KdgR_li 31.2 2.6E+02 0.0056 25.6 8.4 75 162-242 2-78 (267)
440 PF13377 Peripla_BP_3: Peripla 30.9 3.1E+02 0.0067 22.7 8.9 118 28-156 11-136 (160)
441 PRK02261 methylaspartate mutas 30.9 3.1E+02 0.0067 22.7 10.2 87 160-255 4-94 (137)
442 cd06298 PBP1_CcpA_like Ligand- 30.9 2.5E+02 0.0055 25.8 8.2 75 162-242 2-78 (268)
443 TIGR00147 lipid kinase, YegS/R 30.8 3.4E+02 0.0074 25.8 9.1 75 160-240 2-79 (293)
444 PF13607 Succ_CoA_lig: Succiny 30.7 3.1E+02 0.0068 22.7 8.4 77 161-244 3-81 (138)
445 PRK11118 putative monooxygenas 30.4 69 0.0015 24.6 3.2 40 29-72 5-44 (100)
446 PRK14987 gluconate operon tran 30.3 4.2E+02 0.0091 25.5 9.9 78 160-243 64-143 (331)
447 PRK13337 putative lipid kinase 30.3 4E+02 0.0086 25.6 9.5 74 160-240 2-79 (304)
448 TIGR01425 SRP54_euk signal rec 30.2 3.3E+02 0.0071 27.8 8.9 102 147-254 117-221 (429)
449 PLN02460 indole-3-glycerol-pho 29.8 2.2E+02 0.0047 27.8 7.2 87 148-244 142-232 (338)
450 PRK08811 uroporphyrinogen-III 29.7 2.9E+02 0.0063 26.0 8.2 87 145-239 123-210 (266)
451 cd06313 PBP1_ABC_sugar_binding 29.5 2.3E+02 0.0051 26.3 7.7 70 169-243 11-81 (272)
452 PRK14805 ornithine carbamoyltr 29.4 5.2E+02 0.011 24.9 16.2 133 27-193 39-177 (302)
453 PF02602 HEM4: Uroporphyrinoge 29.3 1.2E+02 0.0025 27.6 5.4 106 140-254 97-203 (231)
454 cd06294 PBP1_ycjW_transcriptio 29.3 2.9E+02 0.0063 25.4 8.3 69 169-243 16-84 (270)
455 cd06167 LabA_like LabA_like pr 29.2 3.3E+02 0.0072 22.5 11.3 67 174-242 52-123 (149)
456 COG4143 TbpA ABC-type thiamine 29.2 4.9E+02 0.011 25.2 9.3 92 1-107 1-97 (336)
457 KOG2792 Putative cytochrome C 29.2 2.2E+02 0.0047 26.4 6.7 68 42-116 157-224 (280)
458 PTZ00088 adenylate kinase 1; P 29.2 64 0.0014 29.6 3.5 29 93-121 9-37 (229)
459 cd06308 PBP1_sensor_kinase_lik 29.1 2.8E+02 0.0061 25.6 8.2 77 162-243 2-82 (270)
460 PF02729 OTCace_N: Aspartate/o 29.1 1.6E+02 0.0035 24.6 5.6 87 25-123 38-124 (142)
461 TIGR00644 recJ single-stranded 28.8 5.3E+02 0.011 27.3 10.7 90 147-243 44-136 (539)
462 PF09651 Cas_APE2256: CRISPR-a 28.7 3.4E+02 0.0073 22.5 9.8 48 146-193 6-56 (136)
463 cd03522 MoeA_like MoeA_like. T 28.7 3.8E+02 0.0082 25.9 8.8 68 157-228 157-229 (312)
464 cd06297 PBP1_LacI_like_12 Liga 28.6 2.9E+02 0.0062 25.6 8.2 75 162-243 2-79 (269)
465 PRK01045 ispH 4-hydroxy-3-meth 28.6 1E+02 0.0022 29.5 4.8 53 69-121 188-242 (298)
466 PF00070 Pyr_redox: Pyridine n 28.5 2.1E+02 0.0045 20.7 5.7 47 147-194 11-61 (80)
467 PF02601 Exonuc_VII_L: Exonucl 28.3 5.5E+02 0.012 24.8 10.7 90 26-125 14-117 (319)
468 cd06286 PBP1_CcpB_like Ligand- 28.0 3E+02 0.0066 25.1 8.2 61 162-227 2-64 (260)
469 PRK03670 competence damage-ind 27.9 3.8E+02 0.0082 25.0 8.4 49 175-227 21-69 (252)
470 PF00406 ADK: Adenylate kinase 27.9 50 0.0011 27.7 2.5 27 95-121 1-27 (151)
471 COG0541 Ffh Signal recognition 27.8 6.6E+02 0.014 25.5 10.9 103 147-255 117-222 (451)
472 PF03162 Y_phosphatase2: Tyros 27.8 3.9E+02 0.0085 22.9 8.7 84 134-226 12-98 (164)
473 PRK05452 anaerobic nitric oxid 27.6 7.1E+02 0.015 25.8 16.3 140 95-256 198-348 (479)
474 cd01541 PBP1_AraR Ligand-bindi 27.6 3.5E+02 0.0076 25.0 8.6 77 162-243 2-84 (273)
475 PF01936 NYN: NYN domain; Int 27.5 3E+02 0.0066 22.5 7.3 99 147-253 22-126 (146)
476 TIGR01481 ccpA catabolite cont 27.4 5.4E+02 0.012 24.6 10.1 64 158-226 58-123 (329)
477 PRK13010 purU formyltetrahydro 27.3 5.5E+02 0.012 24.5 14.3 92 91-188 10-119 (289)
478 cd06268 PBP1_ABC_transporter_L 27.3 4E+02 0.0087 24.6 9.1 79 162-243 2-91 (298)
479 COG2082 CobH Precorrin isomera 27.2 1.4E+02 0.0031 26.7 5.2 47 75-121 135-185 (210)
480 PF02570 CbiC: Precorrin-8X me 27.2 1.4E+02 0.003 26.6 5.0 47 75-121 126-176 (198)
481 cd01972 Nitrogenase_VnfE_like 27.1 3.7E+02 0.0081 27.3 9.0 146 91-244 162-319 (426)
482 PRK10848 phosphohistidine phos 27.1 3.8E+02 0.0082 22.8 7.8 96 139-239 23-120 (159)
483 PRK06975 bifunctional uroporph 26.9 4.9E+02 0.011 28.3 10.2 90 143-239 119-213 (656)
484 cd00578 L-fuc_L-ara-isomerases 26.8 7E+02 0.015 25.5 14.1 106 44-162 22-130 (452)
485 cd00338 Ser_Recombinase Serine 26.8 3.4E+02 0.0074 21.9 9.9 25 142-166 15-39 (137)
486 TIGR00216 ispH_lytB (E)-4-hydr 26.8 93 0.002 29.5 4.2 53 69-121 186-240 (280)
487 PRK12360 4-hydroxy-3-methylbut 26.8 1.1E+02 0.0023 29.1 4.6 52 70-121 188-241 (281)
488 PRK10586 putative oxidoreducta 26.7 3.2E+02 0.0069 27.1 8.2 75 148-229 23-97 (362)
489 PRK05954 precorrin-8X methylmu 26.6 1.5E+02 0.0032 26.5 5.1 67 42-121 108-178 (203)
490 cd06325 PBP1_ABC_uncharacteriz 26.5 5.2E+02 0.011 23.9 12.5 116 24-156 129-247 (281)
491 PRK08286 cbiC cobalt-precorrin 26.5 1.5E+02 0.0032 26.8 5.2 47 75-121 139-189 (214)
492 PRK14723 flhF flagellar biosyn 26.1 9.3E+02 0.02 26.7 12.0 18 488-505 587-604 (767)
493 cd03770 SR_TndX_transposase Se 26.0 1.6E+02 0.0035 24.4 5.2 45 492-538 24-73 (140)
494 PRK05575 cbiC precorrin-8X met 25.7 1.6E+02 0.0034 26.4 5.2 47 75-121 133-183 (204)
495 PF00763 THF_DHG_CYH: Tetrahyd 25.6 2.7E+02 0.0058 22.3 6.2 66 160-228 30-97 (117)
496 PRK00286 xseA exodeoxyribonucl 25.3 7.4E+02 0.016 25.3 10.9 89 26-124 135-233 (438)
497 cd06311 PBP1_ABC_sugar_binding 25.2 4E+02 0.0087 24.6 8.5 70 169-243 11-86 (274)
498 TIGR01351 adk adenylate kinase 25.0 82 0.0018 28.3 3.5 29 93-121 2-30 (210)
499 cd06287 PBP1_LacI_like_8 Ligan 24.9 5.6E+02 0.012 23.7 12.3 121 27-156 119-246 (269)
500 cd02071 MM_CoA_mut_B12_BD meth 24.4 3.7E+02 0.0081 21.5 7.6 97 138-244 5-104 (122)
No 1
>KOG1054 consensus Glutamate-gated AMPA-type ion channel receptor subunit GluR2 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=100.00 E-value=1.2e-55 Score=418.06 Aligned_cols=471 Identities=17% Similarity=0.254 Sum_probs=382.4
Q ss_pred CCCceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCC-CceEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEcCC
Q 008912 22 LKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLG-GRKLSITMHDAK-FNGFLSIMGALQFMETDTLAIVGPQ 99 (549)
Q Consensus 22 ~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~-g~~l~~~~~d~~-~~~~~a~~~~~~l~~~~v~aiiGp~ 99 (549)
..+..|.||++|+.+. .+...|+++|+...|....--+ -.+|.+++.... .++...+.+.|+.+++||.||+|.+
T Consensus 22 ~f~~tiqigglF~~n~---~qe~~Afr~~~~~~~~~~~~~~~pf~L~~~~d~~e~a~Sf~~tnafCsq~s~Gv~Aifg~y 98 (897)
T KOG1054|consen 22 AFPNTIQIGGLFPRNT---DQEHSAFRFAVQLYNTNQNTTEKPFKLNPHVDNLESANSFAVTNAFCSQFSRGVYAIFGFY 98 (897)
T ss_pred cCCCceeeccccCCcc---hHHHHHHHHHHHHhhcCCCCCCCCcccccccchhhhhhhHHHHHHHHHHHhhhHhhheecc
Confidence 5888999999999986 4667899999988886432110 144555544322 5788999999999999999999999
Q ss_pred CchHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHH
Q 008912 100 SAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTAL 179 (549)
Q Consensus 100 ~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l 179 (549)
.......+.++|+.+++|+|+++. |. +...++.+++.|+ +..++++++.|++|.++.++| |.+.|...++.+
T Consensus 99 d~ks~~~ltsfc~aLh~~~vtpsf--p~--~~~~~Fviq~RP~---l~~al~s~i~hy~W~~fv~ly-D~~rg~s~Lqai 170 (897)
T KOG1054|consen 99 DKKSVNTLTSFCGALHVSFVTPSF--PT--DGDNQFVIQMRPA---LKGALLSLIDHYKWEKFVYLY-DTDRGLSILQAI 170 (897)
T ss_pred cccchhhhhhhccceeeeeecccC--Cc--CCCceEEEEeCch---HHHHHHHHHHhcccceEEEEE-cccchHHHHHHH
Confidence 999999999999999999999743 22 2234788999997 458999999999999999999 455788899999
Q ss_pred HHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccc
Q 008912 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTF 259 (549)
Q Consensus 180 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 259 (549)
.+.+.++++.|.....-.+ .+...++.+++.+.....+.|+++|..+....++.++.+.+-...+|||++.+.....
T Consensus 171 ~~~a~~~nw~VtA~~v~~~---~d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il~q~i~~~k~~~~YHYvlaNl~f~d 247 (897)
T KOG1054|consen 171 MEAAAQNNWQVTAINVGNI---NDVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQVIELGKHVKGYHYVLANLGFTD 247 (897)
T ss_pred HHHHHhcCceEEEEEcCCc---ccHHHHHHHHHHHhccccceEEEEcccHHHHHHHHHHHHHhhhccceEEEEeeCCCch
Confidence 9999999999988654332 3456699999999988899999999999999999999998888899999999876655
Q ss_pred cCCCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcC------CCCCCCchhhhHhHHHHHHHHHHHHHHhcCC
Q 008912 260 IDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSN------GSIGLNPYGLYAYDTVWMIARALKLFLDQGN 333 (549)
Q Consensus 260 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~------~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~ 333 (549)
.+. +.......++.+|+..+.+.|..++|.++|+.... ...++...+++.|||+.++++|++.+.++..
T Consensus 248 ~dl-----~~f~~g~aNitgFqivn~~~~~~~k~~~~~~~l~~~~~~g~~~~~~k~tsAlthDailV~~eaf~~~~~q~~ 322 (897)
T KOG1054|consen 248 IDL-----ERFQHGGANITGFQIVNKNNPMVKKFIQRWKELDEREYPGASNDPIKYTSALTHDAILVMAEAFRSLRRQRI 322 (897)
T ss_pred hhH-----HHHhcCCcceeEEEEecCCChHHHHHHHHHhhhcccccCCCCCCCcchhhhhhhhHHHHHHHHHHHHHHhhh
Confidence 554 34556778899999999999999999999986542 2246677889999999999999999887654
Q ss_pred CccccCCccccCCCCCccccCC--ccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeCceeeEEeEe
Q 008912 334 TISFSNDTKLNGLGGGTLNLGA--LSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYW 411 (549)
Q Consensus 334 ~~~~~~~~~~~~~~~~~~~c~~--~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~~VG~w 411 (549)
... ..|...+|.. ..+|.+|..+.++|+++.++|+||+|+||..|.|++.+.+|+++..++. .++|.|
T Consensus 323 ~~~---------rRG~~GD~~an~~~p~~qG~~I~ralk~v~~eGLTGniqFd~~G~R~Nyt~~i~elk~~~~-rk~~~W 392 (897)
T KOG1054|consen 323 DIS---------RRGNAGDCLANPAVPWEQGIDIERALKQVQVEGLTGNIQFDKYGRRTNYTIDIVELKSNGS-RKVGYW 392 (897)
T ss_pred chh---------ccCCCccccCCCCCchhcchhHHHHHHheeecccccceeecccCccccceEEEEEeccCCc-ceeeee
Confidence 322 2355567764 5689999999999999999999999999999999999999999998887 999999
Q ss_pred eCCCCCcccCCcccccCCCCCCCCcccceeeEeCCCCcCCCccccccCCCCeEEEeecCcccccccE---EeecCcceee
Q 008912 412 SNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVWPGGVTSKPRGWVFPNNGRQLRIGVPNRVSYRDFV---FKVNGTDIVH 488 (549)
Q Consensus 412 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~~~~~~~v~~~~~~~~~~~~---~~~~~~~~~~ 488 (549)
+...|+.....+. +.. .+. ....+++.+|.+..+.||.+.. ..++|+++|+
T Consensus 393 ~e~~~fv~~~t~a-------------~~~------------~d~-~~~~n~tvvvttiL~spyvm~kkn~~~~egn~ryE 446 (897)
T KOG1054|consen 393 NEGEGFVPGSTVA-------------QSR------------NDQ-ASKENRTVVVTTILESPYVMLKKNHEQLEGNERYE 446 (897)
T ss_pred cccCceeeccccc-------------ccc------------ccc-cccccceEEEEEecCCchhHHHhhHHHhcCCcccc
Confidence 9988765432210 000 000 0113577888877766776543 2357899999
Q ss_pred eeeHHHHHHHHHhCCCCcCEEEEECCCCC-----CCCC-hHHHHHhHhcCcccEEecceEEeecccC
Q 008912 489 GYCIDVFLAAVRLLPYAVPYKFIPYGDGH-----KNPT-YSELINQITTGVSRILTKKVAQLTRVSL 549 (549)
Q Consensus 489 G~~idl~~~~~~~l~~~~~~~~~~~~dg~-----~~g~-~~gl~~~l~~~~~d~~~~~~ti~~~r~~ 549 (549)
||||||+.+||+..+++ |++..++||+ .|++ ||||||+|.+|+||+||++||||-+||.
T Consensus 447 GyCvdLa~~iAkhi~~~--Y~l~iv~dgkyGardaD~k~WnGMvGeLv~grAdiavApLTIt~~REe 511 (897)
T KOG1054|consen 447 GYCVDLAAEIAKHIGIK--YKLFIVGDGKYGARDADTKIWNGMVGELVYGRADIAVAPLTITLVREE 511 (897)
T ss_pred eeHHHHHHHHHHhcCce--EEEEEecCCcccccCCCcccccchhHHHhcCccceEEeeeeeehhhhh
Confidence 99999999999999999 9999999998 5677 9999999999999999999999999983
No 2
>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=2.6e-52 Score=425.74 Aligned_cols=368 Identities=23% Similarity=0.337 Sum_probs=304.5
Q ss_pred ceEEEEEEeccCC----------------------CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHH
Q 008912 25 EVLNVGAIFSFGT----------------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIM 82 (549)
Q Consensus 25 ~~i~IG~l~~~~~----------------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~ 82 (549)
|+|.||++||.|. ..|.+...|+.+|+++||+++.+|||++|++.++|+|+++..+++
T Consensus 1 Gdi~igglf~vh~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~Am~~Ai~~IN~~~~lLp~~~Lg~~i~dtc~~~~~a~~ 80 (469)
T cd06365 1 GDLVIGGFFPLYTLSGPFETDDWHPFSADLDFRLLLKNYQHVLALLFAIEEINKNPHLLPNISLGFHIYNVLHSDRKALE 80 (469)
T ss_pred CCeeEeceEEEEEeccccccccccCccccccccccchhhHHHHHHHHHHHHHhCCCCCCCCceEEEEEECCCCccHHHHH
Confidence 5799999999972 125567899999999999999999999999999999999999999
Q ss_pred HHHHHHh--------------cCcEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHH
Q 008912 83 GALQFME--------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLM 147 (549)
Q Consensus 83 ~~~~l~~--------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~ 147 (549)
.+.+++. .+++|+|||.+|..+.+++++++.++||+|+++++++.+++ .+|||+||+.|++..++
T Consensus 81 ~~~~~~~~~~~~~~~~~C~~~~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~sts~~lsd~~~yp~ffRt~psd~~q~ 160 (469)
T cd06365 81 SSLMWLSGEGETIPNYSCRRQRKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPFDPLLSDRVQFPSLYQMAPKDTSLP 160 (469)
T ss_pred HHHHHHhCCCcccCCccCCCCCceEEEEcCCccHHHHHHHHHhhhhcccceeeccCCccccchhhCCcceEecCCchhHH
Confidence 9999985 36999999999999999999999999999999999999998 57999999999999999
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.++++++++|+|++|++|+.+++||....+.|.+.+++.|+||+..+.++........++..++++++++++|+||+++.
T Consensus 161 ~ai~~li~~f~W~~Vaiv~~d~~yg~~~~~~~~~~~~~~gi~I~~~~~i~~~~~~~~~~~~~~l~~i~~~~arvIvl~~~ 240 (469)
T cd06365 161 LGMVSLMLHFSWTWVGLVISDDDRGEQFLSDLREEMQRNGICLAFVEKIPVNMQLYLTRAEKYYNQIMTSSAKVIIIYGD 240 (469)
T ss_pred HHHHHHHHhcCCeEEEEEEecChhHHHHHHHHHHHHHHCCeEEEEEEEecCCchhhHHHHHHHHHHhhcCCCeEEEEEcC
Confidence 99999999999999999999999999999999999999999999988887651111247888999999999999999999
Q ss_pred hHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHHH-----------
Q 008912 228 SRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSR----------- 296 (549)
Q Consensus 228 ~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~----------- 296 (549)
.+.+..++.++.+.+. .+++||+++.|....... ....+.+.|++++.++.+..+.+++|++.
T Consensus 241 ~~~~~~l~~~~~~~~~--~~~~wi~s~~w~~~~~~~----~~~~~~~~G~lg~~~~~~~~~~f~~fl~~l~~~~~~~npw 314 (469)
T cd06365 241 TDSLLEVSFRLWQYLL--IGKVWITTSQWDVTTSPK----DFTLNSFHGTLIFSHHHSEIPGFKDFLQTVNPSKYPEDIF 314 (469)
T ss_pred cHHHHHHHHHHHHhcc--CceEEEeecccccccccc----ccccceeeEEEEEEeccCcCcchHHHhhccCcccCCCccH
Confidence 8888777666655543 569999998876433221 22346789999999998888888877643
Q ss_pred ----HHhhcCCC----------C-----C------------CCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCccccC
Q 008912 297 ----WNTLSNGS----------I-----G------------LNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNG 345 (549)
Q Consensus 297 ----~~~~~~~~----------~-----~------------~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~ 345 (549)
|+..|++. . . ....+.++||||+++|||||++++|+...
T Consensus 315 ~~efwe~~f~c~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~v~dAVya~AhALh~~l~c~~~~---------- 384 (469)
T cd06365 315 LEKLWWIYFNCSLSKSSCKTLKNCLSNASLEWLPLHYFDMAMSEESYNVYNAVYAVAHALHEMLLQQVET---------- 384 (469)
T ss_pred HHhhHhHhcCcccCcCCccccCCCCCCccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHhhccC----------
Confidence 66555321 0 0 12246779999999999999999886532
Q ss_pred CCCCccccCCccccCchHHHHHHHHhccccccce-eeEEccCCCCCCCceEEEEEee----CceeeEEeEeeC
Q 008912 346 LGGGTLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSLLHPSYDIINVIE----HGYPQQIGYWSN 413 (549)
Q Consensus 346 ~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG-~v~fd~~g~r~~~~~~I~~~~~----~~~~~~VG~w~~ 413 (549)
.+..+|.. ... .+++|+++|++++|.|.+| .|.||+||++ ...|+|+|++. ...+++||.|++
T Consensus 385 --~~~~~~~~-~~~-~~~~l~~~l~~v~F~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~VG~~~~ 452 (469)
T cd06365 385 --QSENNGKR-LIF-LPWQLHSFLKNIQFKNPAGDEVNLNQKRKL-DTEYDILNYWNFPQGLGLKVKVGEFSP 452 (469)
T ss_pred --CCcCCCCC-CCc-cHHHHHHHHHhccccCCCCCEEEecCCCCc-CceeeEEEEEECCCCCEEEEEEEEEeC
Confidence 11234433 334 3889999999999999999 5999999996 68999999983 234699999985
No 3
>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=6e-52 Score=425.18 Aligned_cols=376 Identities=20% Similarity=0.312 Sum_probs=311.5
Q ss_pred CCCceEEEEEEeccCC-----------------CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHH
Q 008912 22 LKPEVLNVGAIFSFGT-----------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGA 84 (549)
Q Consensus 22 ~~~~~i~IG~l~~~~~-----------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~ 84 (549)
..+|+|.||++||.|. ..|.+...|+.+|+|+||++++||||++|++.++|+|+++..|++.+
T Consensus 5 ~~~Gd~~igglfpvh~~~~~~~~~~~~c~~~~~~~g~~~~~Am~~Aie~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~ 84 (472)
T cd06374 5 RMDGDIIIGALFSVHHQPAAEKVPERKCGEIREQYGIQRVEAMFHTLDRINADPVLLPNITLGCEIRDSCWHSSVALEQS 84 (472)
T ss_pred EecCCEEEEEEEecccccccCCCCCCCccccCcchhHHHHHHHHHHHHHHhCCcccCCCceeccEEEEcCCCchHHHHHH
Confidence 5789999999999983 13567789999999999999999999999999999999999999999
Q ss_pred HHHHh--------------------------cCcEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceE
Q 008912 85 LQFME--------------------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFV 137 (549)
Q Consensus 85 ~~l~~--------------------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~ 137 (549)
.+++. .+|.|||||.+|..+.+++++++.+++|+|+++++++.+++ ..|||+|
T Consensus 85 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~~ls~~~~~p~~f 164 (472)
T cd06374 85 IEFIRDSLISIRDEKDGVNPDGQSPGPNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYFL 164 (472)
T ss_pred HHHHhhcccccccccccccccCCCcccccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccCchhhcccccCCceE
Confidence 99885 27999999999999999999999999999999999999988 4799999
Q ss_pred EccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC
Q 008912 138 QTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM 217 (549)
Q Consensus 138 r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~ 217 (549)
|+.|++..++.++++++++|+|++|++||++++||....+.|.+.+++.|+||+....++.. ....++..++.+|++.
T Consensus 165 Rt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~--~~~~d~~~~l~~lk~~ 242 (472)
T cd06374 165 RVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYGESGMEAFKELAAHEGLCIAHSDKIYSN--AGEQSFDRLLRKLRSR 242 (472)
T ss_pred EcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHHHHHHHHHHHHHHHCCeeEEEEEEecCC--CchHHHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999988777543 3467899999999965
Q ss_pred --CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHH-
Q 008912 218 --EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFV- 294 (549)
Q Consensus 218 --~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~- 294 (549)
+++||++++....+..++++++++|+. .+++||+++.|....... ........|.+++.+..+..+.+++|+
T Consensus 243 ~~da~vvv~~~~~~~~~~~l~~a~~~g~~-~~~~wi~s~~~~~~~~~~----~~~~~~~~G~l~~~~~~~~~~~F~~~l~ 317 (472)
T cd06374 243 LPKARVVVCFCEGMTVRGLLMAMRRLGVG-GEFQLIGSDGWADRDDVV----EGYEEEAEGGITIKLQSPEVPSFDDYYL 317 (472)
T ss_pred CCCcEEEEEEechHHHHHHHHHHHHhcCC-CceEEEEecccccchHhh----hcchhhhheeEEEEecCCCCccHHHHHH
Confidence 566777778888899999999999986 568999999776431111 123456789999998888777777754
Q ss_pred --------------HHHHhhcCCCC-----C-------------------CCchhhhHhHHHHHHHHHHHHHHhcCCCcc
Q 008912 295 --------------SRWNTLSNGSI-----G-------------------LNPYGLYAYDTVWMIARALKLFLDQGNTIS 336 (549)
Q Consensus 295 --------------~~~~~~~~~~~-----~-------------------~~~~~~~~yDav~~~a~Al~~~~~~~~~~~ 336 (549)
+.|+..|++.. . ...+++++|||||++|+|||+++.+.+..
T Consensus 318 ~l~~~~~~~~~~~~~~w~~~f~c~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAVyaiA~ALh~~~~~~~~~- 396 (472)
T cd06374 318 KLRPETNTRNPWFREFWQHRFQCRLPGHPQENPNYIKICTGNESLDEQYVQDSKMGFVINAIYAMAHGLHNMHQDLCPG- 396 (472)
T ss_pred hCCcccCCCChHHHHHHHHhcCCCcCCccCcCCccCCCCCCcccccccccccceeHHHHHHHHHHHHHHHHHHHhhCCC-
Confidence 45666654321 0 01345689999999999999998655321
Q ss_pred ccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccce-eeEEccCCCCCCCceEEEEEee----CceeeEEeEe
Q 008912 337 FSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSLLHPSYDIINVIE----HGYPQQIGYW 411 (549)
Q Consensus 337 ~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG-~v~fd~~g~r~~~~~~I~~~~~----~~~~~~VG~w 411 (549)
....|...... ++..|.++|++++|+|++| +|.||++|++. ..|+|+|++. ...+++||.|
T Consensus 397 ------------~~~~c~~~~~~-~~~~l~~~l~~v~F~g~tG~~v~Fd~~G~~~-~~ydI~n~~~~~~~~~~~~~VG~w 462 (472)
T cd06374 397 ------------HVGLCDAMKPI-DGRKLLEYLLKTSFSGVSGEEVYFDENGDSP-GRYDIMNLQYTEDLRFDYINVGSW 462 (472)
T ss_pred ------------CCCCCcCCCCC-CHHHHHHHHHhCcccCCCCCeEEEcCCCCCC-CceEEEEEEECCCCCEEEEEEEEE
Confidence 11246543333 5999999999999999999 79999999975 6899999994 2235999999
Q ss_pred eCCCCCccc
Q 008912 412 SNYSGLSVV 420 (549)
Q Consensus 412 ~~~~~l~~~ 420 (549)
++. +|.++
T Consensus 463 ~~~-~l~~~ 470 (472)
T cd06374 463 HEG-DLGID 470 (472)
T ss_pred eCC-ccccc
Confidence 853 66553
No 4
>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=7.8e-52 Score=420.50 Aligned_cols=365 Identities=22% Similarity=0.339 Sum_probs=309.5
Q ss_pred ceEEEEEEeccCC-------------CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHh--
Q 008912 25 EVLNVGAIFSFGT-------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-- 89 (549)
Q Consensus 25 ~~i~IG~l~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~-- 89 (549)
|+|.||++||.|. ..|.+...|+.+|+++||+++++|||++|++.++|+|+++..+++.+.+++.
T Consensus 1 Gd~~igglFp~h~~~~~~~~C~~~~~~~g~~~~~Am~~AIe~IN~~~~lLp~~~Lg~~i~Dtc~~~~~a~~~~~~~i~~~ 80 (458)
T cd06375 1 GDLVLGGLFPVHEKGEGTEECGRINEDRGIQRLEAMLFAIDRINNDPRILPGIKLGVHILDTCSRDTYALEQSLEFVRAS 80 (458)
T ss_pred CCEEEEEEEEeeeCCCCCCCCcCccccchHHHHHHHHHHHHHHhCCCCCCCCceeccEEEecCCCcHHHHHHHHHHHhhh
Confidence 5799999999983 3477889999999999999999999999999999999999999999988873
Q ss_pred -----------------------cCcEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHH
Q 008912 90 -----------------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLY 145 (549)
Q Consensus 90 -----------------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~ 145 (549)
.+|.|||||.+|..+.+++++++.++||+|+++++++.+++ .+|||+||+.|++..
T Consensus 81 ~~~~~~~~~~C~~~~~~~~~~~~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~sts~~Ls~~~~~~~ffRt~psd~~ 160 (458)
T cd06375 81 LTKVDTSEYECPDGSYAVQENSPLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYASTSAKLSDKSRYDYFARTVPPDFY 160 (458)
T ss_pred hhcccccccccccCCccccccCCCCeEEEEcCCCchHHHHHHHHhhhccccceeeccCChhhcccccCCCeEEecCCcHH
Confidence 27999999999999999999999999999999999999998 579999999999999
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhc-CCCeEEEE
Q 008912 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVV 224 (549)
Q Consensus 146 ~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil 224 (549)
++.++++++++|+|++|++||++++||+...+.|.+.+++.|+||+..+.++.. ....++..+++++++ .++++||+
T Consensus 161 qa~ai~~ll~~~~W~~Vaii~~~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~--~~~~d~~~~l~~l~~~~~a~vVvl 238 (458)
T cd06375 161 QAKAMAEILRFFNWTYVSTVASEGDYGETGIEAFEQEARLRNICIATSEKVGRS--ADRKSYDSVIRKLLQKPNARVVVL 238 (458)
T ss_pred HHHHHHHHHHHCCCeEEEEEEeCchHHHHHHHHHHHHHHHCCeeEEEEEEecCC--CCHHHHHHHHHHHhccCCCEEEEE
Confidence 999999999999999999999999999999999999999999999988878754 446789999999875 68999999
Q ss_pred EcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHH---------
Q 008912 225 HGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVS--------- 295 (549)
Q Consensus 225 ~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~--------- 295 (549)
++...++..++++|.++|+. +.||+++.|....... ........|++++.+.....+.|++|++
T Consensus 239 ~~~~~~~~~ll~~a~~~g~~---~~wigs~~~~~~~~~~----~~~~~~~~G~i~~~~~~~~i~~f~~yl~~l~p~~~~~ 311 (458)
T cd06375 239 FTRSEDARELLAAAKRLNAS---FTWVASDGWGAQESIV----KGSEDVAEGAITIELASHPIPDFDRYFQSLTPETNTR 311 (458)
T ss_pred ecChHHHHHHHHHHHHcCCc---EEEEEeccccccchhh----hccchhhceEEEEEeccccchhHHHHHHhCCcCcCCC
Confidence 99999999999999999975 8999999886432111 1123567899999999888888887764
Q ss_pred ------HHHhhcCCCC----------------------CCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCccccCCC
Q 008912 296 ------RWNTLSNGSI----------------------GLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLG 347 (549)
Q Consensus 296 ------~~~~~~~~~~----------------------~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~ 347 (549)
.|+..|++.. .....+.++||||+++|||||+++++++..
T Consensus 312 n~w~~e~w~~~f~c~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~~AVyA~AhaLh~~l~~~c~~------------ 379 (458)
T cd06375 312 NPWFKDFWEQKFQCSLQNRDCANTTTNDKERLLDKVNYEQESKIMFVVNAVYAMAHALHNMQRDLCPN------------ 379 (458)
T ss_pred CcHHHHHHHHHcCCCCCCCCccCCCCCchhcccccCcccccchHHHHHHHHHHHHHHHHHHHHhcCCC------------
Confidence 4766665221 113457889999999999999999765431
Q ss_pred CCccccCCccccCchHHHH-HHHHhcccc-----ccce-eeEEccCCCCCCCceEEEEEee--C---ceeeEEeEeeC
Q 008912 348 GGTLNLGALSIFDGGKKFL-ANILQTNMT-----GLSG-PIHFNQDRSLLHPSYDIINVIE--H---GYPQQIGYWSN 413 (549)
Q Consensus 348 ~~~~~c~~~~~~~~~~~l~-~~l~~~~f~-----g~tG-~v~fd~~g~r~~~~~~I~~~~~--~---~~~~~VG~w~~ 413 (549)
....|.....++ +++|+ ++|++++|. |.+| +|.||++|+. ...|+|+|++. + ..+++||.|+.
T Consensus 380 -~~~~c~~~~~~~-~~~l~~~~L~~v~F~~~~~~~~~g~~v~Fd~nGd~-~~~YdI~n~q~~~~~~~~~~~~VG~w~~ 454 (458)
T cd06375 380 -TTKLCDAMKPLD-GKKLYKEYLLNVSFTAPFRPDLADSEVKFDSQGDG-LGRYNIFNYQRTGNSYGYRYVGVGAWAN 454 (458)
T ss_pred -CCCCCCCCCCCC-HHHHHHHHHHhccccccccCCCCCCeeEECCCCCC-CcceEEEEEEEcCCCCcEEEEEEEEEec
Confidence 113576655564 88999 599999999 9988 6999999995 68999999983 2 23589999964
No 5
>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=3.2e-51 Score=420.21 Aligned_cols=374 Identities=21% Similarity=0.297 Sum_probs=311.1
Q ss_pred CCCceEEEEEEeccCC----------------------CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHH
Q 008912 22 LKPEVLNVGAIFSFGT----------------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFL 79 (549)
Q Consensus 22 ~~~~~i~IG~l~~~~~----------------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~ 79 (549)
..+|+|.||++||.|. ..|.+...|+.+|+++||+++++||+++|++.++|+|+++..
T Consensus 8 ~~~Gd~~igglFpvh~~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~~lLp~i~Lg~~i~Dtc~~~~~ 87 (510)
T cd06364 8 QKKGDIILGGLFPIHFGVAAKDQDLKSRPESVECIRYNFRGFRWLQAMIFAIEEINNSPTLLPNITLGYRIFDTCNTVSK 87 (510)
T ss_pred eecCCEEEEEEEECcccccccccccccCCCCCcccccChhhHHHHHHHHHHHHHHhCCCccCCCCEEeEEEEccCCchHH
Confidence 5789999999999984 236778999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhc-------------------CcEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEc
Q 008912 80 SIMGALQFMET-------------------DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQT 139 (549)
Q Consensus 80 a~~~~~~l~~~-------------------~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~ 139 (549)
+++.+.+++.+ +|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..||++||+
T Consensus 88 a~~~a~~li~~~~~~~~~~~~~c~~~~~~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls~~~~yp~ffRt 167 (510)
T cd06364 88 ALEATLSFVAQNKIDSLNLDEFCNCSEHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLSNKNQFKSFLRT 167 (510)
T ss_pred HHHHHHHHHhcccccccccccccccCCCCCceEEEECCCchhHHHHHHHHhccccccccccccCCcccCCccccCCeeEc
Confidence 99999999764 2469999999999999999999999999999999999988 579999999
Q ss_pred cCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCC
Q 008912 140 APNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEA 219 (549)
Q Consensus 140 ~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~ 219 (549)
.|++..++.++++++++|+|++|++|+.+++||+...+.|.+.+++.|+||+..+.++.. ....++..++.+++++++
T Consensus 168 ~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~--~~~~d~~~~l~klk~~~a 245 (510)
T cd06364 168 IPNDEHQATAMADIIEYFRWNWVGTIAADDDYGRPGIEKFREEAEERDICIDFSELISQY--SDEEEIQRVVEVIQNSTA 245 (510)
T ss_pred CCChHHHHHHHHHHHHHcCCeEEEEEEecCcchHHHHHHHHHHHHHCCcEEEEEEEeCCC--CCHHHHHHHHHHHHhcCC
Confidence 999999999999999999999999999999999999999999999999999988777653 347789999999999999
Q ss_pred eEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHH----
Q 008912 220 RVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVS---- 295 (549)
Q Consensus 220 ~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~---- 295 (549)
++||+++...++..++++|+++|+. +++||+++.|........ ......+.|++++.+.....+.+++|++
T Consensus 246 ~vVvl~~~~~~~~~ll~qa~~~g~~--~~iwI~s~~w~~~~~~~~---~~~~~~~gg~lg~~~~~~~i~~f~~~l~~l~p 320 (510)
T cd06364 246 KVIVVFSSGPDLEPLIKEIVRRNIT--GKIWLASEAWASSSLIAM---PEYFDVMGGTIGFALKAGQIPGFREFLQKVHP 320 (510)
T ss_pred eEEEEEeCcHHHHHHHHHHHHhCCC--CcEEEEEchhhccccccc---CCccceeeEEEEEEECCCcCccHHHHHHhCCc
Confidence 9999999999999999999999975 579999987764322211 1234678889999888777776666553
Q ss_pred -----------HHHhhcCCCC-----C---------------------------------------------CCchhhhH
Q 008912 296 -----------RWNTLSNGSI-----G---------------------------------------------LNPYGLYA 314 (549)
Q Consensus 296 -----------~~~~~~~~~~-----~---------------------------------------------~~~~~~~~ 314 (549)
.|+..|++.. . ....+..+
T Consensus 321 ~~~~~~~~~~~~we~~f~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~~~~~v 400 (510)
T cd06364 321 KKSSHNGFAKEFWEETFNCYLEDSPKNALPVDTFLGHEESGDDSENGSTAFRPLCTGDENIASVETPYLDYTHLRISYNV 400 (510)
T ss_pred ccCCCChHHHHHHHHhcCCCCCCCcccccccccccccccccccccccccccCCCCCChhhhcccCCccccccchhhHHHH
Confidence 3666554220 0 01224669
Q ss_pred hHHHHHHHHHHHHHHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccce-eeEEccCCCCCCCc
Q 008912 315 YDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSLLHPS 393 (549)
Q Consensus 315 yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG-~v~fd~~g~r~~~~ 393 (549)
|||||++|||||+++.|..... ..+...|......+ +++|+++|++++|.|.+| .|.||++|+. ...
T Consensus 401 ~~AVyAvAhaLh~~~~c~~~~~----------~~~~~~c~~~~~~~-~~~l~~~L~~v~F~~~~g~~v~Fd~~Gd~-~~~ 468 (510)
T cd06364 401 YLAVYSIAHALQDIYTCTPGKG----------LFTNGSCADIKKVE-AWQVLKHLRHLNFTDNMGEQVRFDEGGDL-VGN 468 (510)
T ss_pred HHHHHHHHHHHHHHhcCCCCCC----------CccCCCCCCCCCCC-HHHHHHHHHhcEEecCCCCEEEEecCCCC-ccc
Confidence 9999999999999998753210 00113576644454 889999999999999998 6999999995 689
Q ss_pred eEEEEEee---Cc--eeeEEeEeeCC
Q 008912 394 YDIINVIE---HG--YPQQIGYWSNY 414 (549)
Q Consensus 394 ~~I~~~~~---~~--~~~~VG~w~~~ 414 (549)
|+|+|++. ++ .+++||.|++.
T Consensus 469 YdI~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 469 YSIINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred eeEEEeeecCCCCcEEEEEEEEEcCC
Confidence 99999983 22 35899999853
No 6
>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=3.1e-51 Score=419.59 Aligned_cols=372 Identities=22% Similarity=0.335 Sum_probs=308.9
Q ss_pred ceEEEEEEeccCC-------------CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHh--
Q 008912 25 EVLNVGAIFSFGT-------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-- 89 (549)
Q Consensus 25 ~~i~IG~l~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~-- 89 (549)
|++.||++||.|. ..|.....|+++|+++||+++++|||++|++.++|+|+++..+++.+.+++.
T Consensus 1 Gd~~igglfp~h~~~~~~~~c~~~~~~~G~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~a~~~a~~li~~~ 80 (452)
T cd06362 1 GDIILGGLFPVHSKGTGGEPCGEIKEQRGIQRLEAMLFALDEINNDPTLLPGITLGAHILDTCSRDTYALEQSLEFVRAS 80 (452)
T ss_pred CCeEEEEEEecccCCCCCCCCcCccccchHHHHHHHHHHHHHhhCCCCCCCCCeeCcEEEEeCCCchHHHHHHHHHHhhh
Confidence 5799999999983 2466779999999999999999999999999999999999999999988874
Q ss_pred ---------------------cCcEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHH
Q 008912 90 ---------------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLM 147 (549)
Q Consensus 90 ---------------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~ 147 (549)
.+|.+||||.+|..+.++++++..+++|+|+++++++.+++ ..|||+||+.|++..++
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~~ls~~~~~~~~fR~~p~d~~~~ 160 (452)
T cd06362 81 LTKIDDCVYCDGGSPPPNNSPKPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSPELSDKTRYDYFSRTVPPDSFQA 160 (452)
T ss_pred hhcCCccccccCCCcccccCCCCeEEEECCCCCchHHHHHHHhccccCcccccccCchhhccccccCCEEEecCChHHHH
Confidence 38999999999999999999999999999999999999987 57999999999999999
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhc-CCCeEEEEEc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHG 226 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~ 226 (549)
.++++++++|+|++|++|+++++||....+.|.+.+++.|+||+..+.++.. ....++..++++|++ .++++||+++
T Consensus 161 ~a~~~~l~~~~w~~vaii~~~~~~G~~~~~~~~~~~~~~gi~i~~~~~~~~~--~~~~d~~~~l~~l~~~~~a~viil~~ 238 (452)
T cd06362 161 QAMVDIVKAFNWTYVSTVASEGNYGEKGIEAFEKLAAERGICIAGSEKIPSS--ATEEEFDNIIRKLLSKPNARVVVLFC 238 (452)
T ss_pred HHHHHHHHHCCCcEEEEEEeCCHHHHHHHHHHHHHHHHCCeeEEEEEEcCCC--CCHHHHHHHHHHHhhcCCCeEEEEEc
Confidence 9999999999999999999999999999999999999999999988877754 357899999999987 5799999999
Q ss_pred chHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHH------------
Q 008912 227 YSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFV------------ 294 (549)
Q Consensus 227 ~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~------------ 294 (549)
...++..++++|+++|+. .++.||.++.|....... ........|++++.+.....+.+++|+
T Consensus 239 ~~~~~~~~~~~a~~~g~~-~~~~~i~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~i~~f~~~l~~l~~~~~~~~~ 313 (452)
T cd06362 239 REDDIRGLLAAAKRLNAE-GHFQWIASDGWGARNSVV----EGLEDVAEGAITIELQSAEVPGFDEYFLSLTPENNSRNP 313 (452)
T ss_pred ChHHHHHHHHHHHHcCCc-CceEEEEeccccccchhh----cccccccceEEEEEecccccccHHHHhhhCCcCcCCCCh
Confidence 999999999999999987 568999998775432110 122356788888877766555555433
Q ss_pred ---HHHHhhcCCC----------------------CCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCccccCCCCC
Q 008912 295 ---SRWNTLSNGS----------------------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGG 349 (549)
Q Consensus 295 ---~~~~~~~~~~----------------------~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~ 349 (549)
+.|+..+++. .....+++++||||+++|+|||+++.+++...
T Consensus 314 ~~~~~w~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~vyDAV~a~A~AL~~~l~~~~~~~------------- 380 (452)
T cd06362 314 WFREFWEQKFNCKLTGNGSTKDNTCCTERILLLSNYEQESKVQFVIDAVYAMAHALHNMHRDLCPGT------------- 380 (452)
T ss_pred HHHHHHHHhcCCCcCCCCccccCCCCccccccccccccccchhHHHHHHHHHHHHHHHHHHhhCCCC-------------
Confidence 3455444321 01234778899999999999999987653211
Q ss_pred ccccCCccccCchHHHHHHHHhccccccce-eeEEccCCCCCCCceEEEEEee---CceeeEEeEeeCCCCCc
Q 008912 350 TLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSLLHPSYDIINVIE---HGYPQQIGYWSNYSGLS 418 (549)
Q Consensus 350 ~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG-~v~fd~~g~r~~~~~~I~~~~~---~~~~~~VG~w~~~~~l~ 418 (549)
...|.... |.++++|.++|++++|.|++| +|.||++|+| ...|+|++++. ...+++||.|++..||+
T Consensus 381 ~~~c~~~~-~~~~~~l~~~l~~v~f~g~tg~~v~Fd~~G~~-~~~y~I~~~~~~~~~~~~~~VG~w~~~~~~~ 451 (452)
T cd06362 381 TGLCDAMK-PIDGRKLLFYLRNVSFSGLAGGPVRFDANGDG-PGRYDIFNYQRTNGKYDYVKVGSWKGELSLN 451 (452)
T ss_pred CCCCcCcc-CCCHHHHHHHHHhCCcCCCCCceEEECCCCCC-CCceEEEEEEEcCCceEEEEEEEEecccccC
Confidence 12365433 445999999999999999998 7999999997 46999999984 23459999999876653
No 7
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=100.00 E-value=7.2e-51 Score=399.08 Aligned_cols=363 Identities=20% Similarity=0.327 Sum_probs=290.2
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEE-ecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITM-HDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~-~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
.||+||+..+ ...+.||++|++++|.+..++++.+|.+++ .++.+|++.+.+++|++++++|.|||||.++..+..
T Consensus 1 ~iG~if~~~~---~~~~~af~~Av~~~N~~~~~l~~~~L~~~~~~~~~~d~F~~~~~ac~l~~~gV~AI~Gp~s~~~a~~ 77 (400)
T cd06392 1 HIGAIFEENA---AKDDRVFQLAVSDLSLNDDILQSEKITYSIKSIEANNPFQAVQEACDLMTQGILALVTSTGCASANA 77 (400)
T ss_pred CeeeccCCCc---hHHHHHHHHHHHHhccCccccCCceEEEEEEecCCCChhHHHHHHHHHHhcCeEEEECCCchhHHHH
Confidence 4899999865 356899999999999999999999999999 888899999999999999999999999999999999
Q ss_pred HHHhhhhcCCcEEecccC-----------CCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccch
Q 008912 107 LSHLANELQVPLLSFTAL-----------DPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNG 175 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~-----------~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~ 175 (549)
++++|+.++||+|+++.. +|.++..+ |.+.+.|+ ..+.+|+++++.+|+|++|++|| |+++|...
T Consensus 78 v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~--~~~~lrp~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~gl~~ 153 (400)
T cd06392 78 LQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEE--YTLAARPP-VRLNDVMLKLVTELRWQKFIVFY-DSEYDIRG 153 (400)
T ss_pred HHHHhccCcCCcEeecccccccccccccCCCCcCcCc--eeEEecCc-hHHHHHHHHHHHhCCCcEEEEEE-ECcccHHH
Confidence 999999999999998552 23333334 44556665 56788999999999999999999 78899999
Q ss_pred HHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC-------CeEEEEEcchHHHHHHHHHHHHcCCCCCCe
Q 008912 176 VTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME-------ARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 248 (549)
Q Consensus 176 ~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~-------~~viil~~~~~~~~~il~~a~~~g~~~~~~ 248 (549)
++.|.+.+.+.+..|.... +... ....+.+.++.++... -++||++|+++.+..+|++|.++||+..+|
T Consensus 154 lq~L~~~~~~~~~~I~~~~-v~~~---~~~~~~~~l~~~~~~~L~~~~~~~r~iVv~~s~~~~~~il~qA~~lgM~~~~y 229 (400)
T cd06392 154 LQSFLDQASRLGLDVSLQK-VDRN---ISRVFTNLFTTMKTEELNRYRDTLRRAILLLSPRGAQTFINEAVETNLASKDS 229 (400)
T ss_pred HHHHHHHHhhcCceEEEEE-cccC---cchhhhhHHHHHHHhhhhhccccceEEEEEcCcHHHHHHHHHHHHhCcccCCe
Confidence 9999999999999888654 2211 0112333344433322 489999999999999999999999999999
Q ss_pred EEEEeCCcccccCCCCcCChhhHhhcc-ceEEEeEecCCChhHHHHH----HHHHhhcCC---C--CCCCchhhhHhHHH
Q 008912 249 VWIATTWLSTFIDSKSPLSLKTAKSIL-GALTLRQHTPDSKRRRDFV----SRWNTLSNG---S--IGLNPYGLYAYDTV 318 (549)
Q Consensus 249 ~~i~~~~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~~~~~~~f~----~~~~~~~~~---~--~~~~~~~~~~yDav 318 (549)
+||++++.....+. .+...... ++++++.+.+......+|. .+|++.... . ..+..+++++||||
T Consensus 230 ~wI~t~~~~~~~dl-----~~~~~g~~~niT~~r~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~l~~~aalayDaV 304 (400)
T cd06392 230 HWVFVNEEISDTEI-----LELVHSALGRMTVIRQIFPLSKDNNQRCIRNNHRISSLLCDPQEGYLQMLQVSNLYLYDSV 304 (400)
T ss_pred EEEEecCCcccccH-----HHHhcccccceeeEEEecCCcHHHHHHHHHHHHHHHhhhcccccccccccchhHHHHHHHH
Confidence 99999987765444 23444444 5677998877776554443 566543321 1 14678899999999
Q ss_pred HHHHHHHHHHHhcCCCccccCCccccCCCCCcccc--CCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEE
Q 008912 319 WMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNL--GALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDI 396 (549)
Q Consensus 319 ~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c--~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I 396 (549)
+++|+|+++++...... ....+.| ....+|++|..|+++|++++|+|+||+|.||++|+|.++.|+|
T Consensus 305 ~~~A~Al~~ll~~~~~~-----------~~~~l~C~~~~~~~w~~G~~ll~~ik~v~f~GLTG~I~F~~~G~r~~~~ldI 373 (400)
T cd06392 305 LMLANAFHRKLEDRKWH-----------SMASLNCIRKSTKPWNGGRSMLETIKKGHITGLTGVMEFKEDGANPHVQFEI 373 (400)
T ss_pred HHHHHHHHHHhhccccC-----------CCCCCccCCCCCCCCCChHHHHHHHHhCCCccCccceeECCCCCCcCCceEE
Confidence 99999999876432221 1223578 4577999999999999999999999999999999999999999
Q ss_pred EEEe-----eCceeeEEeEeeCCCCCc
Q 008912 397 INVI-----EHGYPQQIGYWSNYSGLS 418 (549)
Q Consensus 397 ~~~~-----~~~~~~~VG~w~~~~~l~ 418 (549)
++++ |.|. ++||+|++..||+
T Consensus 374 i~l~~~~~~g~g~-~~iG~W~~~~gl~ 399 (400)
T cd06392 374 LGTSYSETFGKDV-RRLATWDSEKGLN 399 (400)
T ss_pred EeccccccCCCCc-eEeEEecCCCCCC
Confidence 9965 6667 9999999988763
No 8
>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=1e-50 Score=415.43 Aligned_cols=367 Identities=21% Similarity=0.343 Sum_probs=300.5
Q ss_pred ceEEEEEEeccC--C-----------CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHH---
Q 008912 25 EVLNVGAIFSFG--T-----------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFM--- 88 (549)
Q Consensus 25 ~~i~IG~l~~~~--~-----------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~--- 88 (549)
|+|+||++||.| . ..|.+...|+++|+++||+++++|||++|++.++|+|+++..+++.+..++
T Consensus 1 Gdi~igglfp~h~~~~~~~~c~~~~~~~g~~~~~a~~~Aie~IN~~~~iLpg~~L~~~i~D~~~~~~~~~~~a~~~~~~l 80 (463)
T cd06376 1 GDITLGGLFPVHARGPAGVPCGDIKKENGIHRLEAMLYALDQINSDPDLLPNVTLGARILDTCSRDTYALEQSLTFVQAL 80 (463)
T ss_pred CCeEEEEEEeeeeCCCCCCCccccccchhHHHHHHHHHHHHHhhCCCCCCCCceEccEEEeccCCcHHHHHHHHHHHhhh
Confidence 579999999998 1 146667899999999999999999999999999999998766665555432
Q ss_pred -h-------------------cCcEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHH
Q 008912 89 -E-------------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLM 147 (549)
Q Consensus 89 -~-------------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~ 147 (549)
. ++|.|||||.+|..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++
T Consensus 81 ~~~~~~~~~C~~~~~~~~~~~~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~ats~~ls~~~~~~~ffR~~p~d~~~~ 160 (463)
T cd06376 81 IQKDTSDVRCTNGEPPVFVKPEKVVGVIGASASSVSIMVANILRLFQIPQISYASTAPELSDDRRYDFFSRVVPPDSFQA 160 (463)
T ss_pred hhcccccCcCCCCCccccCCCCCeEEEECCCCchHHHHHHHHhccccCcccccccCChhhcccccCCceEEccCCHHHHH
Confidence 1 37999999999999999999999999999999999999987 57999999999999999
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhc-CeEEEEEEccCCCCCCChhhHHHHHHHHhc-CCCeEEEEE
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVH 225 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~ 225 (549)
.++++++++|+|++|++|+.+++||....+.|.+.+++. ++||.....++.. ....++..++++|++ +++++||++
T Consensus 161 ~ai~~~i~~~~w~~Vaii~~~~~yg~~~~~~~~~~~~~~g~~~v~~~~~i~~~--~~~~d~~~~l~~ik~~~~~~vIvl~ 238 (463)
T cd06376 161 QAMVDIVKALGWNYVSTLASEGNYGESGVEAFTQISREAGGVCIAQSIKIPRE--PRPGEFDKIIKRLLETPNARAVIIF 238 (463)
T ss_pred HHHHHHHHHcCCeEEEEEEeCChHHHHHHHHHHHHHHHcCCceEEEEEecCCC--CCHHHHHHHHHHHhccCCCeEEEEe
Confidence 999999999999999999999999999999999999887 4688766555443 457889999999986 799999999
Q ss_pred cchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHH----------
Q 008912 226 GYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVS---------- 295 (549)
Q Consensus 226 ~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~---------- 295 (549)
+...++..++++|+++|+.+ .|+||+++.|........ .....+.|.+++.+.....+.|++|..
T Consensus 239 ~~~~~~~~ll~~a~~~~~~g-~~~wig~d~~~~~~~~~~----~~~~~~~G~~~~~~~~~~~~~F~~~~~~l~~~~~~~~ 313 (463)
T cd06376 239 ANEDDIRRVLEAAKRANQVG-HFLWVGSDSWGAKISPIL----QQEDVAEGAITILPKRASIEGFDAYFTSRTLENNRRN 313 (463)
T ss_pred cChHHHHHHHHHHHhcCCcC-ceEEEEeccccccccccc----cCcceeeeEEEEEeccccchhHHHHHHhCCcccCCCC
Confidence 99999999999999999864 599999998764322211 122467899999888777777766554
Q ss_pred -----HHHhhcCCCCC--------------------------CCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCcccc
Q 008912 296 -----RWNTLSNGSIG--------------------------LNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLN 344 (549)
Q Consensus 296 -----~~~~~~~~~~~--------------------------~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~ 344 (549)
.|+..|++..+ ....++++||||+++|+|||+++++++..
T Consensus 314 ~~~~~~w~~~f~c~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~~~v~dAVyaiA~ALh~l~~~~c~~--------- 384 (463)
T cd06376 314 VWFAEFWEENFNCKLTISGSKKEDTDRKCTGQERIGRDSTYEQEGKVQFVIDAVYAMAHALHSMHKDLCPG--------- 384 (463)
T ss_pred cHHHHHHHHhCCCcccCCCCccccccCcCcchhhccccCcccccchhHHHHHHHHHHHHHHHHHHHhhCCC---------
Confidence 57776653211 01257789999999999999998665321
Q ss_pred CCCCCccccCCccccCchHHHHHHHHhccccccce-eeEEccCCCCCCCceEEEEEee----CceeeEEeEeeC
Q 008912 345 GLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSLLHPSYDIINVIE----HGYPQQIGYWSN 413 (549)
Q Consensus 345 ~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG-~v~fd~~g~r~~~~~~I~~~~~----~~~~~~VG~w~~ 413 (549)
....|.... |.++++|+++|++++|+|.+| +|.||++|++ ...|+|.+++. ...+++||.|++
T Consensus 385 ----~~~~C~~~~-~~~~~~l~~~L~~v~F~g~tg~~v~Fd~~G~~-~~~Ydi~n~q~~~~~~~~~~~VG~w~~ 452 (463)
T cd06376 385 ----YTGVCPEME-PADGKKLLKYIRAVNFNGSAGTPVMFNENGDA-PGRYDIFQYQITNTSSPGYRLIGQWTD 452 (463)
T ss_pred ----CCCCCccCC-CCCHHHHHHHHHhCCccCCCCCeEEeCCCCCC-CCceEEEEEEecCCCceeEEEEEEECC
Confidence 112476543 445999999999999999999 7999999997 46899999983 233599999975
No 9
>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=3.4e-51 Score=389.81 Aligned_cols=449 Identities=22% Similarity=0.354 Sum_probs=354.4
Q ss_pred CCCCceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEec--CCCChHHHHHHHHH-HHhcCcEEEEc
Q 008912 21 ALKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHD--AKFNGFLSIMGALQ-FMETDTLAIVG 97 (549)
Q Consensus 21 ~~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d--~~~~~~~a~~~~~~-l~~~~v~aiiG 97 (549)
+..++.++||++++.. ..+..+.-++.++|++.+ -.++.+.-.. ...++.+.+-.+|+ +++..|.+|+-
T Consensus 30 ~~np~t~nig~Vlst~-----~~ee~F~~t~~hln~~~~---s~k~~~~aksv~~d~n~i~t~~~VC~~li~~~vyav~v 101 (993)
T KOG4440|consen 30 ACNPKTVNIGAVLSTR-----KHEEMFRETVNHLNKRHG---SWKIQLNAKSVTHDPNAIQTALSVCEDLISSQVYAVLV 101 (993)
T ss_pred CCCccceeeeeeeech-----hHHHHHHHHHHHhhcccc---ceEEEEccccccCCCcHHHHHHHHHHHHHhhheeEEEe
Confidence 3678999999999875 357788999999997653 2444442221 23466777778885 56778888874
Q ss_pred --CCCch---HHHHHHHhhhhcCCcEEecccCCCCCCCC-CCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCc
Q 008912 98 --PQSAV---MAHVLSHLANELQVPLLSFTALDPTLSPL-QYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ 171 (549)
Q Consensus 98 --p~~s~---~~~~va~~~~~~~iP~Is~~~~~~~ls~~-~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~ 171 (549)
|..|. .-.++.-.++.+.||++.....+..+|++ .++.|+|+.|+.++|+.+..++|.+|.|++|.++.++|..
T Consensus 102 Sh~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~y~~vi~l~s~d~~ 181 (993)
T KOG4440|consen 102 SHPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDAIFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYSYNHVILLVSDDHE 181 (993)
T ss_pred cCCCCCCcccccccceeeccceeeeeeeeeehhhhhccCceeeeEeecCCCccchhHHHHHHHHHhhcceEEEEEccccc
Confidence 22222 12334456788999999998889999994 7999999999999999999999999999999999999999
Q ss_pred ccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 172 GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 172 g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
|+....+++..+++...+++....+.++ ..++...|-++|...+||+++..+.+++..+++.|..++|++.+|+||
T Consensus 182 gra~~~r~qt~~e~~~~~~e~v~~f~p~----~~~~t~~l~~~k~~~~rv~~~~as~dDA~~ifr~Ag~lnmTG~G~VWi 257 (993)
T KOG4440|consen 182 GRAAQKRLQTLLEERESKAEKVLQFDPG----TKNVTALLMEAKELEARVIILSASEDDAATIFRAAGMLNMTGSGYVWI 257 (993)
T ss_pred chhHHhHHHHHHHHHhhhhhhheecCcc----cchHHHHHhhhhhhhheeEEeecccchHHHHHHhhhhhcccCceEEEE
Confidence 9888888888887666666655566655 567888999999999999999999999999999999999999999999
Q ss_pred EeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhc
Q 008912 252 ATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQ 331 (549)
Q Consensus 252 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~ 331 (549)
.++..... .....|++|.+.....+ ..++.-|+|.++|.|++++++.
T Consensus 258 V~E~a~~~-----------nn~PdG~LGlqL~~~~~----------------------~~~hirDsv~vlasAv~e~~~~ 304 (993)
T KOG4440|consen 258 VGERAISG-----------NNLPDGILGLQLINGKN----------------------ESAHIRDSVGVLASAVHELLEK 304 (993)
T ss_pred Eecccccc-----------CCCCCceeeeEeecCcc----------------------ccceehhhHHHHHHHHHHHHhh
Confidence 99754322 13467899988754322 2456899999999999999875
Q ss_pred CCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhcc-ccccceeeEEccCCCCCCCceEEEEEeeCceeeEEeE
Q 008912 332 GNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTN-MTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGY 410 (549)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~-f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~~VG~ 410 (549)
..-. ..++.||++...|..+..|.+.+...+ ..|.||+|.||++|+|....|+|+|++.+...+.+|.
T Consensus 305 e~I~-----------~~P~~c~d~~~~w~~g~~l~~~l~s~~~~~g~TgrV~Fnd~gdRi~a~YdiiN~hq~rk~Vg~~~ 373 (993)
T KOG4440|consen 305 ENIT-----------DPPRGCVDNTNIWKTGPLLKRVLMSSKYADGVTGRVEFNDDGDRIFANYDIINLHQNRKLVGVGI 373 (993)
T ss_pred ccCC-----------CCCCcccCccchhcccHHHHHHHhhhcccCCcceeEEEcCCCceeeccceeEehhhhhhhhhhcc
Confidence 4321 234568888889988888988888755 5799999999999999999999999975444366666
Q ss_pred eeCCCCCcccCCcccccCCCCCCCCcccceeeEeCCCCcCCCccccccCCCCeEEEeecCcccccccEEe----------
Q 008912 411 WSNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVWPGGVTSKPRGWVFPNNGRQLRIGVPNRVSYRDFVFK---------- 480 (549)
Q Consensus 411 w~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~~~~~~~v~~~~~~~~~~~~~~---------- 480 (549)
|+... + ..+...|+|||+.+.+|.+...| ++||+.+..+.||+...-.
T Consensus 374 yd~~r-~------------------~~nd~~IiWpGg~~~KP~gi~~p---thLrivTi~~~PFVYv~p~~sd~~c~eef 431 (993)
T KOG4440|consen 374 YDGTR-V------------------IPNDRKIIWPGGETEKPRGIQMP---THLRIVTIHQEPFVYVKPTLSDGTCKEEF 431 (993)
T ss_pred cccee-e------------------ccCCceeecCCCCcCCCcccccc---ceeEEEEeccCCeEEEecCCCCcchhhhc
Confidence 65432 1 12345899999999999999876 5588888776666522100
Q ss_pred -----------ec-------------CcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCC------------CC-CChH
Q 008912 481 -----------VN-------------GTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGH------------KN-PTYS 523 (549)
Q Consensus 481 -----------~~-------------~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~------------~~-g~~~ 523 (549)
+. ...||.||||||+-++++.++|+ |+...++||+ .+ .+|+
T Consensus 432 ~~~~d~~~k~~c~gpn~s~p~s~~~t~~fCC~G~cIDLLi~Ls~~~Nft--yd~~l~~dg~fg~~~~vnnsseT~~kew~ 509 (993)
T KOG4440|consen 432 TVNGDPVKKVICTGPNDSSPGSPRHTVPFCCYGFCIDLLIKLSRTMNFT--YDVHLVADGKFGTQERVNNSSETNKKEWN 509 (993)
T ss_pred cccCCcccceeecCCCCCCCCCcccCcchhhhHHHHHHHHHHHHhhcce--EEEEEeecccccceeeeecccccccceeh
Confidence 00 14599999999999999999999 9999999997 12 3799
Q ss_pred HHHHhHhcCcccEEecceEEeecccC
Q 008912 524 ELINQITTGVSRILTKKVAQLTRVSL 549 (549)
Q Consensus 524 gl~~~l~~~~~d~~~~~~ti~~~r~~ 549 (549)
||||||.+|+|||+|+++|||+||+.
T Consensus 510 G~iGEL~~~~ADMivaplTINpERa~ 535 (993)
T KOG4440|consen 510 GMIGELLSGQADMIVAPLTINPERAQ 535 (993)
T ss_pred hhhhhhhCCccceEeeceeeChhhhh
Confidence 99999999999999999999999973
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=2.9e-50 Score=402.64 Aligned_cols=366 Identities=21% Similarity=0.326 Sum_probs=308.0
Q ss_pred eEEEEEEec-cC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEcCCC
Q 008912 26 VLNVGAIFS-FG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF-NGFLSIMGALQFMETDTLAIVGPQS 100 (549)
Q Consensus 26 ~i~IG~l~~-~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~-~~~~a~~~~~~l~~~~v~aiiGp~~ 100 (549)
.|+||++|| ++ +..|...+.|+++|+++||+++++||+..|.+.+.+.++ ++..+.+.+|+++.++|.|||||.+
T Consensus 2 ~i~IG~i~~~~tg~~~~~g~~~~~a~~~Av~~IN~~~~il~~~~l~~~~~~~~~~d~~~~~~~~~~~l~~~V~AiiGp~~ 81 (384)
T cd06393 2 VIRIGGIFEYLDGPNNQVMSAEELAFRFSANIINRNRTLLPNTTLTYDIQRIHFHDSFEATKKACDQLALGVVAIFGPSQ 81 (384)
T ss_pred eeeEEEeecCCcccccccCcHHHHHHHHHHHHhcCCCccCCCceEEEEEEecccccchhHHHHhhcccccCcEEEECCCC
Confidence 589999999 44 445677899999999999999999999999999998665 6668889999988889999999999
Q ss_pred chHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHH
Q 008912 101 AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALG 180 (549)
Q Consensus 101 s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~ 180 (549)
|..+.+++++++.++||+|+++++++.++++ .+|++|+.|++..++.++++++++|+|++|++||+++ .|...++.+.
T Consensus 82 S~~~~av~~i~~~~~iP~Is~~~t~~~lt~~-~~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~-~g~~~l~~~~ 159 (384)
T cd06393 82 GSCTNAVQSICNALEVPHIQLRWKHHPLDNK-DTFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDS-TGLIRLQELI 159 (384)
T ss_pred hHHHHHHHHHHhccCCCeEeccCCCcccCcc-ceeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCc-hhHHHHHHHH
Confidence 9999999999999999999999888888764 3577888899888999999999999999999999765 4666667788
Q ss_pred HHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCccccc
Q 008912 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFI 260 (549)
Q Consensus 181 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 260 (549)
+.+++.|++|... .++.+ ..+++.+|++||+.++++||+++....+..+++||+++||..+.|+|++++......
T Consensus 160 ~~~~~~g~~v~~~-~~~~~----~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~~~~~~~~~~~~~~ 234 (384)
T cd06393 160 MAPSRYNIRLKIR-QLPTD----SDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQAMAMGMMTEYYHFIFTTLDLYAL 234 (384)
T ss_pred HhhhccCceEEEE-ECCCC----chHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHHHHhccccCceEEEEccCccccc
Confidence 8888889998864 35533 679999999999999999999999999999999999999999999999888654443
Q ss_pred CCCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhh-cCCCC---------CCCchhhhHhHHHHHHHHHHHHHHh
Q 008912 261 DSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL-SNGSI---------GLNPYGLYAYDTVWMIARALKLFLD 330 (549)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~~~~---------~~~~~~~~~yDav~~~a~Al~~~~~ 330 (549)
+. ........+++++....+..+.+++|.+.|+++ ++... .+...++++||||+++++|++++..
T Consensus 235 ~~-----~~~~~~~~~it~~~~~~~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~aal~yDav~~~a~A~~~~~~ 309 (384)
T cd06393 235 DL-----EPYRYSGVNLTGFRILNVDNPHVSSIVEKWSMERLQAAPKPETGLLDGVMMTDAALLYDAVHMVSVCYQRAPQ 309 (384)
T ss_pred cc-----hhhhcCcceEEEEEecCCCcHHHHHHHHHHHhhhhccccccccccccccccchhHHhhhhHHHHHHHHhhhhh
Confidence 32 111123334678888888889999999999753 44211 1256799999999999999997532
Q ss_pred cCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEcc-CCCCCCCceEEEEEeeCceeeEEe
Q 008912 331 QGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQ-DRSLLHPSYDIINVIEHGYPQQIG 409 (549)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~-~g~r~~~~~~I~~~~~~~~~~~VG 409 (549)
.. ...+.|+...+|.+|..|.++|++++|+|+||++.||+ +|.|.++.|+|+++.++++ ++||
T Consensus 310 ~~---------------~~~~~c~~~~~w~~G~~i~~~l~~~~~~GltG~i~Fd~~~g~r~~~~~~i~~~~~~g~-~~vg 373 (384)
T cd06393 310 MT---------------VNSLQCHRHKAWRFGGRFMNFIKEAQWEGLTGRIVFNKTSGLRTDFDLDIISLKEDGL-EKVG 373 (384)
T ss_pred cC---------------CCCCCCCCCCCCcccHHHHHHHhheeecccccceEecCCCCeeeeeEEEEEEecCCcc-eeeE
Confidence 21 12457888889999999999999999999999999996 6899999999999998888 9999
Q ss_pred EeeCCCCCcc
Q 008912 410 YWSNYSGLSV 419 (549)
Q Consensus 410 ~w~~~~~l~~ 419 (549)
.|++..||++
T Consensus 374 ~W~~~~g~~~ 383 (384)
T cd06393 374 VWNPNTGLNI 383 (384)
T ss_pred EEcCCCCcCC
Confidence 9999988753
No 11
>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=3.9e-50 Score=394.38 Aligned_cols=355 Identities=19% Similarity=0.272 Sum_probs=297.4
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
+||+||+... ...+.||++|++++|.+..++|. ++ .. ...|++.+.+++|+++++||.|||||.++..+..+
T Consensus 1 ~iG~if~~~~---~~~~~af~~av~~~N~~~~l~~~--~~--~~-~~~dsf~~~~~~C~~~~~gV~AI~Gp~s~~~a~~v 72 (364)
T cd06390 1 QIGGLFPNQQ---SQEHAAFRFALSQLTEPPKLLPQ--ID--IV-NISDSFEMTYTFCSQFSKGVYAIFGFYDRKTVNML 72 (364)
T ss_pred CCceeeCCCC---hHHHHHHHHHHHHhccCcccccc--eE--Ee-ccccHHHHHHHHHHHhhcCceEEEccCChhHHHHH
Confidence 4899998864 45789999999999998755542 11 22 23589999999999999999999999999999999
Q ss_pred HHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcC
Q 008912 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIR 187 (549)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g 187 (549)
+++|+.++||+|+++. |..+ ..+|++++.|+ +.+|+++++++|+|++|++||+++ ||...++.|.+.+++.|
T Consensus 73 ~sic~~~~vP~i~~~~--~~~~--~~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g~~~lq~l~~~~~~~~ 144 (364)
T cd06390 73 TSFCGALHVCFITPSF--PVDT--SNQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RGLSVLQKVLDTAAEKN 144 (364)
T ss_pred HHhhcCCCCCceecCC--CCCC--CCceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-ccHHHHHHHHHhhhccC
Confidence 9999999999999744 3222 33568999997 899999999999999999999655 99999999999999999
Q ss_pred eEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCC
Q 008912 188 CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLS 267 (549)
Q Consensus 188 ~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~ 267 (549)
++|.....++.. ..+++.+|+++++.++++||++|+.+.+..+|+++.+.+|+..+|+||+++......+.
T Consensus 145 ~~I~~~~~~~~~----~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a~~~~~~~~gy~wI~t~l~~~~~~~----- 215 (364)
T cd06390 145 WQVTAVNILTTT----EEGYRKLFQDLDKKKERLIVVDCESERLNAILNQIIKLEKNGIGYHYILANLGFMDIDL----- 215 (364)
T ss_pred ceeeEEEeecCC----hHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHHHHhhccCCceEEEecCCCcccccH-----
Confidence 999877665532 56899999999999999999999999999999999888888999999999854433332
Q ss_pred hhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCC------CCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCc
Q 008912 268 LKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG------SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (549)
Q Consensus 268 ~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 341 (549)
........|+++++++.+..+.+++|..+|++.+.. ...+..+++++||||+++|+|++++...+...+.
T Consensus 216 ~~~~~~~~nitg~r~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~l~yDaV~~~A~A~~~l~~~~~~~~~---- 291 (364)
T cd06390 216 TKFRESGANVTGFQLVNYTDTTVSRIMQQWKNFDARDLPRVDWKRPKYTSALTYDGVRVMAEAFQNLRKQRIDISR---- 291 (364)
T ss_pred HHHhcCCcCceEEEEecCCCHHHHHHHHHHHhhccccCCCCCcCCcchHHHHHHHHHHHHHHHHHHHHHcCCCccc----
Confidence 345568899999999999999999999999876531 1246778999999999999999998654433211
Q ss_pred cccCCCCCccccCC--ccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeCceeeEEeEeeCCCCC
Q 008912 342 KLNGLGGGTLNLGA--LSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGL 417 (549)
Q Consensus 342 ~~~~~~~~~~~c~~--~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~~VG~w~~~~~l 417 (549)
.+....|.. ..+|.+|..|.++|++++|+|+||+|.||++|+|.++.|+|+++.+.+. ++||.|++..||
T Consensus 292 -----~~~~~~C~~~~~~~w~~G~~l~~~i~~~~f~GlTG~i~F~~~G~r~~~~~~I~~~~~~g~-~~vG~W~~~~g~ 363 (364)
T cd06390 292 -----RGNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEKGRRTNYTLHVIEMKHDGI-RKIGYWNEDEKL 363 (364)
T ss_pred -----CCCCCCCCCCCCCCCccHHHHHHHHHhhcccccccceeeCCCCCcccceEEEEEecCCcc-eEEEEECCCCCc
Confidence 122335753 4479999999999999999999999999999999999999999999998 999999998765
No 12
>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=8.8e-50 Score=398.71 Aligned_cols=348 Identities=21% Similarity=0.293 Sum_probs=291.9
Q ss_pred EEEEEeccCCC---------------------CchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHH
Q 008912 28 NVGAIFSFGTV---------------------NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQ 86 (549)
Q Consensus 28 ~IG~l~~~~~~---------------------~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~ 86 (549)
.||++||.|.. .|.+...|+.+|+|+||+++ +|||++|+++++|+|+++..+++.+.+
T Consensus 1 ~lgglf~vh~~~~~~~~~~~~~~~~~c~~~~~~g~~~~~am~~AieeIN~~~-~Lpg~~L~~~i~Dt~~~~~~a~~~a~~ 79 (403)
T cd06361 1 IIGGLFAIHEAMLSVEDTPSRPQIQECVGFEIKGFLQTLAMIHAIEMINNST-LLLGVTLGYEIYDTCSEVTTAMAAVLR 79 (403)
T ss_pred CEEEEEECcccccccccccCCCCCCcccccChhHHHHHHHHHHHHHHHhCCC-CCCCCEEceEEEeCCCChHHHHHHHHH
Confidence 38999999842 26678899999999999999 678999999999999999999999999
Q ss_pred HHhc-------------------CcEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHH
Q 008912 87 FMET-------------------DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYL 146 (549)
Q Consensus 87 l~~~-------------------~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~ 146 (549)
++++ +|.|||||.+|..+.+++++++.++||+|+++++++.+++ .+|||+||+.|++..+
T Consensus 80 li~~~~~~~~~~~~~c~~~~~~~~V~aVIG~~~S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~q 159 (403)
T cd06361 80 FLSKFNCSRSTVEFKCDYSQYVPRIKAVIGAGYSEISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQ 159 (403)
T ss_pred HHhhcccccccccccccCCCCCCCeEEEECCCcchHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhH
Confidence 9873 7999999999999999999999999999999999999998 5899999999999999
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCC---hhhHHHHHHHHhcCCCeEEE
Q 008912 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVT---ETDVRNELVKVRMMEARVIV 223 (549)
Q Consensus 147 ~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~---~~~~~~~l~~l~~~~~~vii 223 (549)
++++++++++|+|++|++|+++++||+...+.|.+.+++.|+||+..+.++...... ..++..+++.++++++++||
T Consensus 160 a~ai~~li~~~~w~~Vaii~~~d~yG~~~~~~f~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVv 239 (403)
T cd06361 160 TKAMAHLIKKSGWNWVGIIITDDDYGRSALETFIIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIV 239 (403)
T ss_pred HHHHHHHHHHcCCcEEEEEEecCchHHHHHHHHHHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEE
Confidence 999999999999999999999999999999999999999999999988887541011 14556666778889999999
Q ss_pred EEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCC
Q 008912 224 VHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG 303 (549)
Q Consensus 224 l~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~ 303 (549)
+++...++..++++|+++|+ +++||+++.|........ ........|.+++.+..+..+.+++|++. .+
T Consensus 240 v~~~~~~~~~l~~~a~~~g~---~~~wigs~~w~~~~~~~~---~~~~~~~~g~ig~~~~~~~~~~F~~~~~~---~~-- 308 (403)
T cd06361 240 VFARQFHVFLLFNKAIERNI---NKVWIASDNWSTAKKILT---DPNVKKIGKVVGFTFKSGNISSFHQFLKN---LL-- 308 (403)
T ss_pred EEeChHHHHHHHHHHHHhCC---CeEEEEECcccCcccccc---CCcccccceEEEEEecCCccchHHHHHHH---hh--
Confidence 99999999999999999997 689999998865322211 11224567889988877666665555443 32
Q ss_pred CCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEE
Q 008912 304 SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHF 383 (549)
Q Consensus 304 ~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~f 383 (549)
...+||||+++|+|||++..+. .|...... ++++|+++|++++|.|.+|++.|
T Consensus 309 -------~~~v~~AVyaiA~Al~~~~~~~-------------------~c~~~~~~-~~~~l~~~L~~~~f~g~~~~v~F 361 (403)
T cd06361 309 -------IHSIQLAVFALAHAIRDLCQER-------------------QCQNPNAF-QPWELLGQLKNVTFEDGGNMYHF 361 (403)
T ss_pred -------HHHHHHHHHHHHHHHHHhccCC-------------------CCCCCCCc-CHHHHHHHHheeEEecCCceEEE
Confidence 3468999999999999964321 25443334 38899999999999999889999
Q ss_pred ccCCCCCCCceEEEEEee---CceeeEEeEeeCCC
Q 008912 384 NQDRSLLHPSYDIINVIE---HGYPQQIGYWSNYS 415 (549)
Q Consensus 384 d~~g~r~~~~~~I~~~~~---~~~~~~VG~w~~~~ 415 (549)
|++|+. ...|+|++++. ...+++||.|++..
T Consensus 362 d~~gd~-~~~y~I~~~~~~~~~~~~~~vg~~~~~~ 395 (403)
T cd06361 362 DANGDL-NLGYDVVLWKEDNGHMTVTIMAEYDPQN 395 (403)
T ss_pred CCCCCC-CcceEEEEeEecCCcEEEEEEEEEeCCC
Confidence 999995 68899999984 23469999998865
No 13
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=100.00 E-value=1.4e-49 Score=389.12 Aligned_cols=361 Identities=16% Similarity=0.236 Sum_probs=301.9
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCC-ceEEEEEecC-CCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGG-RKLSITMHDA-KFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g-~~l~~~~~d~-~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~ 105 (549)
.||+||+.++ ...+.||++|++++|.+..+++. .+|.+.+... ..|++.+.+++|+++++||.||+||.++..+.
T Consensus 1 ~iG~iF~~~~---~~~~~aF~~Av~~~N~~~~~~~~~~~l~~~i~~~~~~dsf~~~~~~C~l~~~GV~AIfGp~~~~s~~ 77 (372)
T cd06387 1 SIGGLFMRNT---VQEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQFSRGVYAIFGFYDQMSMN 77 (372)
T ss_pred CcceeecCCc---HHHHHHHHHHHHHhcccccccccCeEEEEeeEEecCCChHHHHHHHHHHhhcccEEEEecCCHhHHH
Confidence 3899999765 35789999999999999877765 5888766543 45899999999999999999999999999999
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhh
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAE 185 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~ 185 (549)
+++++|+.++||+|.+... .+...++.+++.|+ +..|+++++++|+|++|++|| |+++|...++.|.+.++.
T Consensus 78 ~v~s~c~~~~iP~i~~~~~----~~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY-d~d~gl~~Lq~L~~~~~~ 149 (372)
T cd06387 78 TLTSFCGALHTSFITPSFP----TDADVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY-DTERGFSILQAIMEAAVQ 149 (372)
T ss_pred HHHHhhccccCCeeeeCCC----CCCCCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-cCchhHHHHHHHHHhhcc
Confidence 9999999999999987332 12334778999998 789999999999999999999 667888889999999998
Q ss_pred cCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCc
Q 008912 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSP 265 (549)
Q Consensus 186 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 265 (549)
.++.|......+.. ...+++.+++++++.+.++||++|+++.+..+|++|.++||+..+|+||+++......+.
T Consensus 150 ~~~~V~~~~v~~~~---~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a~e~gM~~~~y~~ilt~ld~~~~dl--- 223 (372)
T cd06387 150 NNWQVTARSVGNIK---DVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRGYHYMLANLGFTDISL--- 223 (372)
T ss_pred CCceEEEEEeccCC---chHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHcCccccceEEEEecCCcccccH---
Confidence 89888766543322 355789999999999999999999999999999999999999999999999876555444
Q ss_pred CChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCC------CCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccC
Q 008912 266 LSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG------SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (549)
Q Consensus 266 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~ 339 (549)
.+......+++++++..+..+..++|.++|++.+.. ...+..+++++||||+++|+|++++.........
T Consensus 224 --~~~~~g~~NItg~rl~~~~~~~~~~f~~~w~~~~~~~~~~~~~~~l~~~~al~yDaV~~~A~A~~~l~~~~~~~~~-- 299 (372)
T cd06387 224 --ERVMHGGANITGFQIVNNENPMVQQFLQRWVRLDEREFPEAKNSPLKYTSALTHDAILVIAEAFRYLRRQRVDVSR-- 299 (372)
T ss_pred --HHhccCCcceeEEEEecCCCchHHHHHHHHHhCCcccCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhcCCCccc--
Confidence 234445556999999999999999999999876531 1245678999999999999999998544322110
Q ss_pred CccccCCCCCccccCC--ccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeCceeeEEeEeeCCCCC
Q 008912 340 DTKLNGLGGGTLNLGA--LSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGL 417 (549)
Q Consensus 340 ~~~~~~~~~~~~~c~~--~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~~VG~w~~~~~l 417 (549)
.+.+..|.. ..+|.+|..|.++|++++|+|+||++.|+++|+|.++.|+|+++.+++. ++||.|++..|+
T Consensus 300 -------~~~~~~C~~~~~~~W~~G~~l~~~ik~v~~~GLTG~i~F~~~G~R~~~~ldIinl~~~g~-~kIG~W~~~~g~ 371 (372)
T cd06387 300 -------RGSAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFDTYGRRTNYTIDVYEMKPSGS-RKAGYWNEYERF 371 (372)
T ss_pred -------CCCCCCcCCCCCCCccchHHHHHHHHhcccCCCccceeeCCCCCcccceEEEEEecCCCc-eeEEEECCCCCc
Confidence 123346754 4589999999999999999999999999999999999999999999998 999999998775
No 14
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=100.00 E-value=2.5e-48 Score=388.50 Aligned_cols=341 Identities=21% Similarity=0.312 Sum_probs=279.4
Q ss_pred ccCCCCceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHH-HHhcCcEEEEc
Q 008912 19 QGALKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQ-FMETDTLAIVG 97 (549)
Q Consensus 19 ~~~~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~-l~~~~v~aiiG 97 (549)
.+++.+..|+||++||.+ ..+.++++|++++|++.+.+++.++.....+.+.++..+...+|+ |++++|.||||
T Consensus 12 ~~~~~~~~i~IG~i~~~~-----~~~~~~~~Ai~~~N~~~~~~~~~~l~~~~i~~~~~~~~~a~~~~~~Li~~~V~aii~ 86 (377)
T cd06379 12 RAGCSPKTVNIGAVLSNK-----KHEQEFKEAVNAANVERHGSRKIKLNATTITHDPNPIQTALSVCEQLISNQVYAVIV 86 (377)
T ss_pred ccCCCCcEEEEeEEecch-----hHHHHHHHHHHHHhhhhcCCcceeeccceEeecCChhhHHHHHHHHHhhcceEEEEE
Confidence 334557889999999843 578999999999999655434434443322224577777777774 67889999984
Q ss_pred -CC-Cch---HHHHHHHhhhhcCCcEEecccCCCCCCCC-CCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCc
Q 008912 98 -PQ-SAV---MAHVLSHLANELQVPLLSFTALDPTLSPL-QYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ 171 (549)
Q Consensus 98 -p~-~s~---~~~~va~~~~~~~iP~Is~~~~~~~ls~~-~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~ 171 (549)
+. ++. .+.+++.+++.++||+|+++++++.++++ .|||+||+.|++..++.++++++++++|++|++||++++|
T Consensus 87 ~~~~ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~~ 166 (377)
T cd06379 87 SHPPTSNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDHE 166 (377)
T ss_pred eCCCCCcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCcc
Confidence 33 332 46778889999999999999888888874 6999999999999999999999999999999999999999
Q ss_pred ccchHHHHHHHHhhcCe----EEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCC
Q 008912 172 GRNGVTALGDKLAEIRC----KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (549)
Q Consensus 172 g~~~~~~l~~~~~~~g~----~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~ 247 (549)
|....+.+++.+++.|+ +|+....++.. ..++...++++++.++++|++++..+++..++++|+++||++.+
T Consensus 167 g~~~~~~~~~~~~~~g~~~~~~v~~~~~~~~~----~~d~~~~l~~ik~~~~~vIvl~~~~~~~~~l~~qa~~~g~~~~~ 242 (377)
T cd06379 167 GRAAQKRFETLLEEREIEFKIKVEKVVEFEPG----EKNVTSLLQEAKELTSRVILLSASEDDAAVIYRNAGMLNMTGEG 242 (377)
T ss_pred hhHHHHHHHHHHHhcCCccceeeeEEEecCCc----hhhHHHHHHHHhhcCCeEEEEEcCHHHHHHHHHHHHHcCCCCCC
Confidence 99999999999999999 88877777644 67899999999999999999999999999999999999999999
Q ss_pred eEEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHH
Q 008912 248 YVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKL 327 (549)
Q Consensus 248 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~ 327 (549)
|+||.++.+... .....|++++++..+. .+++++||||+++|+|+++
T Consensus 243 ~~wi~t~~~~~~-----------~~~~~g~~g~~~~~~~----------------------~~~~~~yDAV~~~A~Al~~ 289 (377)
T cd06379 243 YVWIVSEQAGAA-----------RNAPDGVLGLQLINGK----------------------NESSHIRDAVAVLASAIQE 289 (377)
T ss_pred EEEEEecccccc-----------ccCCCceEEEEECCCC----------------------CHHHHHHHHHHHHHHHHHH
Confidence 999999987322 1345788888875421 2467899999999999999
Q ss_pred HHhcCCCccccCCccccCCCCCccccCCc-cccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeCceee
Q 008912 328 FLDQGNTISFSNDTKLNGLGGGTLNLGAL-SIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQ 406 (549)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~-~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~ 406 (549)
+.++... ......|... .+|..|..+.++|++++|+|+||+|.||++|+|....|+|+++++.++ +
T Consensus 290 ~~~~~~~------------~~~~~~c~~~~~~~~~g~~l~~~l~~v~f~G~tg~i~Fd~~Gd~~~~~~~I~~~~~~~~-~ 356 (377)
T cd06379 290 LFEKENI------------TEPPRECVGNTVIWETGPLFKRALMSSKYPGETGRVEFNDDGDRKFANYDIMNIQNRKL-V 356 (377)
T ss_pred HHcCCCC------------CCCCccccCCCCCCcchHHHHHHHHhCCcCCccCceEECCCCCccCccEEEEEecCCCc-e
Confidence 8763221 1112356543 258889999999999999999999999999999878999999998777 9
Q ss_pred EEeEeeCC
Q 008912 407 QIGYWSNY 414 (549)
Q Consensus 407 ~VG~w~~~ 414 (549)
+||.|++.
T Consensus 357 ~VG~w~~~ 364 (377)
T cd06379 357 QVGLYNGD 364 (377)
T ss_pred EeeEEcCc
Confidence 99999874
No 15
>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=2e-47 Score=379.11 Aligned_cols=364 Identities=22% Similarity=0.340 Sum_probs=291.3
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEE--EEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSI--TMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~--~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~ 105 (549)
+||+||+.++.. .+.|+++|+++||++..+||+.+|.+ .+.|++ |+..+.+++|++++++|.|||||.++..+.
T Consensus 1 ~IGaif~~~s~~---~~~Af~~Ai~~iN~~~~~l~~~~l~~~~~~~d~~-d~f~a~~~~c~l~~~gv~ai~Gp~~~~~~~ 76 (400)
T cd06391 1 HIGAIFDESAKK---DDEVFRMAVADLNQNNEILQTEKITVSVTFVDGN-NPFQAVQEACELMNQGILALVSSIGCTSAG 76 (400)
T ss_pred CcceeeccCCch---HHHHHHHHHHHhcCCccccCCCcceEEEEEeeCC-CcHHHHHHHHHHHhCCeEEEECCCcchHHH
Confidence 489999998743 46799999999999999999985555 888885 999999999999999999999998888889
Q ss_pred HHHHhhhhcCCcEEec----ccCC-----CCCCC--CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccc
Q 008912 106 VLSHLANELQVPLLSF----TALD-----PTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRN 174 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~----~~~~-----~~ls~--~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~ 174 (549)
.++++|+.++||+|++ ++++ +.+++ .+||+++| |+ ..+.+++++++++|+|++++++| ++++|..
T Consensus 77 ~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~r--p~-~~~~~ai~~li~~f~W~~v~i~~-d~~~~~~ 152 (400)
T cd06391 77 SLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVR--PP-VYLNDVILRVVTEYAWQKFIIFY-DTDYDIR 152 (400)
T ss_pred HHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEec--Ch-HHHHHHHHHHHHHcCCcEEEEEE-eCCccHH
Confidence 9999999999999974 3322 33443 35777777 54 67899999999999999999866 5668888
Q ss_pred hHHHHHHHHhhcCeEEEEEEccCCCCCCC---hhhHHH-HHHHHhc--CCCeEEEEEcchHHHHHHHHHHHHcCCCCCCe
Q 008912 175 GVTALGDKLAEIRCKISYKSALPPDQSVT---ETDVRN-ELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 248 (549)
Q Consensus 175 ~~~~l~~~~~~~g~~v~~~~~~~~~~~~~---~~~~~~-~l~~l~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~ 248 (549)
.++.+.+.+++.|+||..... ... .. ...++. .+++|++ ++.++||++|+.+.+..+|++|+++||++.+|
T Consensus 153 ~l~~l~~~~~~~~i~I~~~~~-~~~--~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~~~~~~ll~~a~~~gm~~~~y 229 (400)
T cd06391 153 GIQEFLDKVSQQGMDVALQKV-ENN--INKMITGLFRTMRIEELNRYRDTLRRAILVMNPATAKSFITEVVETNLVAFDC 229 (400)
T ss_pred HHHHHHHHHHHcCCeEEEEec-Ccc--hhhhhHHHHHHHHHHHHHhhcccccEEEEECCcHHHHHHHHHHHHcCCCCCCe
Confidence 999999999999999987432 211 00 012222 4556665 66799999999999999999999999999999
Q ss_pred EEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCC---------CCCCchhhhHhHHHH
Q 008912 249 VWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS---------IGLNPYGLYAYDTVW 319 (549)
Q Consensus 249 ~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~---------~~~~~~~~~~yDav~ 319 (549)
+||++++.....+..+ .....+.|+.+++++.+......+|..+|..++... ..+..+++++||||+
T Consensus 230 ~wi~t~~~~~~~dl~~----~~~~~~~~v~~~r~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~alayDaV~ 305 (400)
T cd06391 230 HWIIINEEISDMDVQE----LVRRSIGRLTIIRQTFPLPQNISQRCFRGNHRISSSLCDPKDPFAQMMEISNLYIYDTVL 305 (400)
T ss_pred EEEEeCccccccccch----HHhcccceEEEeccCCchHHHHHHHHHHHhhhccccccCccccccccccchhhHHHHHHH
Confidence 9999999887766532 223345677778877777677888888887665210 135678999999999
Q ss_pred HHHHHHHHHHhcCCCccccCCccccCCCCCccccCC--ccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEE
Q 008912 320 MIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGA--LSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDII 397 (549)
Q Consensus 320 ~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~--~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~ 397 (549)
++|+|++++....... ....+.|.. ..+|..|..|+++|++++|+|+||+|.|+++|+|.++.|+|+
T Consensus 306 ~~A~A~~~l~~~~~~~-----------~~~~~~c~~~~~~~w~~G~~ll~~i~~~~f~GlTG~i~f~~~g~r~~~~~dIi 374 (400)
T cd06391 306 LLANAFHKKLEDRKWH-----------SMASLSCIRKNSKPWQGGRSMLETIKKGGVSGLTGELEFNENGGNPNVHFEIL 374 (400)
T ss_pred HHHHHHHHHHhhcccc-----------CCCCcccccCCCCCCCChHHHHHHHHhcCcccceeceEECCCCCccCCceEEE
Confidence 9999999875332221 123456754 458999999999999999999999999999999999999999
Q ss_pred EEe-----eCceeeEEeEeeCCCCCc
Q 008912 398 NVI-----EHGYPQQIGYWSNYSGLS 418 (549)
Q Consensus 398 ~~~-----~~~~~~~VG~w~~~~~l~ 418 (549)
|+. ++|. ++||.|++..||+
T Consensus 375 n~~~~~~~~~g~-rkiG~Ws~~~gl~ 399 (400)
T cd06391 375 GTNYGEDLGRGV-RKLGCWNPITGLN 399 (400)
T ss_pred EeeccccCCCcc-eEEEEEcCCcCCC
Confidence 996 7888 9999999988763
No 16
>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=3e-47 Score=375.84 Aligned_cols=361 Identities=17% Similarity=0.246 Sum_probs=292.3
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCC-CceEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLG-GRKLSITMHDAK-FNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~-g~~l~~~~~d~~-~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~ 105 (549)
+||+||+..+ .+.+.||++|++.+|.+..+++ +.+|.+++.... .|++.+.+++|++++++|.|||||.+|..+.
T Consensus 1 ~iG~if~~~~---~~~~~af~~a~~~~n~~~~~~~~~~~l~~~~~~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~ss~~~~ 77 (371)
T cd06388 1 QIGGLFIRNT---DQEYTAFRLAIFLHNTSPNASEAPFNLVPHVDNIETANSFAVTNAFCSQYSRGVFAIFGLYDKRSVH 77 (371)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhhccccccccceEEeeeeeecCCCChhHHHHHHHHHHhCCceEEEecCCHHHHH
Confidence 4899999754 3568999999999998764543 357777665443 5899999999999999999999999999999
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhh
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAE 185 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~ 185 (549)
+++++|+.++||+|++++. +...+.|.+++.|+ +..++++++++|+|++|++||++ +++...++.|.+.+++
T Consensus 78 ~v~~i~~~~~IP~I~~~~~----~~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~vaiiYd~-~~~~~~lq~l~~~~~~ 149 (371)
T cd06388 78 TLTSFCSALHISLITPSFP----TEGESQFVLQLRPS---LRGALLSLLDHYEWNRFVFLYDT-DRGYSILQAIMEKAGQ 149 (371)
T ss_pred HHHHHhhCCCCCeeecCcc----ccCCCceEEEeChh---hhhHHHHHHHhcCceEEEEEecC-CccHHHHHHHHHhhHh
Confidence 9999999999999997543 12345566677776 56888889999999999999953 3555778999999999
Q ss_pred cCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCc
Q 008912 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSP 265 (549)
Q Consensus 186 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 265 (549)
.|+.|......+.. ..+++.+|++|+++++++||+.|+.+.+..+++||+++||+.++|+||+++......+.
T Consensus 150 ~g~~v~~~~~~~~~----~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l--- 222 (371)
T cd06388 150 NGWQVSAICVENFN----DASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQIVSVGKHVKGYHYIIANLGFKDISL--- 222 (371)
T ss_pred cCCeeeeEEeccCC----cHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHHHhcCccccceEEEEccCccccccH---
Confidence 99998875543322 55999999999999999999999999999999999999999999999998864333222
Q ss_pred CChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcC-----CCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCC
Q 008912 266 LSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSN-----GSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (549)
Q Consensus 266 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~-----~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~ 340 (549)
.+......++.+++...+..+..++|.++|.+.+. ....+...++++||||+++|+|++++........
T Consensus 223 --~~~~~g~~nitg~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~aAl~YDaV~l~a~A~~~l~~~~~~~~---- 296 (371)
T cd06388 223 --ERFMHGGANVTGFQLVDFNTPMVTKLMQRWKKLDQREYPGSESPPKYTSALTYDGVLVMAEAFRNLRRQKIDIS---- 296 (371)
T ss_pred --HHHhccCCceEEEEeecCCChhHHHHHHHHHhcCccccCCCCCCccchHHHHHHHHHHHHHHHHHHHhcCCCcc----
Confidence 22334455588998888888899999999977542 1125677899999999999999998754322110
Q ss_pred ccccCCCCCccccCC--ccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeCceeeEEeEeeCCCCCc
Q 008912 341 TKLNGLGGGTLNLGA--LSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLS 418 (549)
Q Consensus 341 ~~~~~~~~~~~~c~~--~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~~VG~w~~~~~l~ 418 (549)
..+.+..|.. ..+|.+|..|.++|++++|+|+||++.||++|+|.++.++|+++.++|. ++||.|++..||+
T Consensus 297 -----~~~~~~~C~~~~~~~w~~G~~i~~~lk~~~~~GlTG~i~Fd~~G~r~~~~l~Ii~l~~~g~-~kvG~W~~~~g~~ 370 (371)
T cd06388 297 -----RRGNAGDCLANPAAPWGQGIDMERTLKQVRIQGLTGNIQFDHYGRRVNYTMDVFELKSNGP-RKIGYWNDMDKLV 370 (371)
T ss_pred -----cCCCCCCcCCCCCCCCcccHHHHHHHHhcCcCCCccceeECCCCCcccceEEEEEccCCCc-eEEEEEcCCCCcc
Confidence 0122346743 5689999999999999999999999999999999988999999998898 9999999988764
No 17
>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=1.6e-47 Score=390.43 Aligned_cols=393 Identities=23% Similarity=0.392 Sum_probs=336.6
Q ss_pred CCCceEEEEEEeccCC-------------CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHH
Q 008912 22 LKPEVLNVGAIFSFGT-------------VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFM 88 (549)
Q Consensus 22 ~~~~~i~IG~l~~~~~-------------~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~ 88 (549)
..+++|.||++||.|. ..|.+...|+.+|+++||+ +.+|||.+|++.++|+|..+..|+++..+++
T Consensus 27 ~~~gdi~lgglFpvh~k~~~~~~cg~~~~~~gi~r~eAml~al~~iN~-~~lLp~~kLG~~i~DTCs~~t~aleqsl~Fv 105 (878)
T KOG1056|consen 27 RIPGDIILGGLFPVHEKGGGAPQCGRIREPRGIQRLEAMLFALDEINN-PDLLPNIKLGARILDTCSRSTYALEQSLSFV 105 (878)
T ss_pred cCCCCeEEcceeeecccCCCCCcccccccchhHHHHHHHHHHHHHhcC-cccCCCceeeeeEeeccCCcHHHHHhhHHHH
Confidence 5689999999999972 2366778999999999999 9999999999999999999999999999988
Q ss_pred hc-----------------CcEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHH
Q 008912 89 ET-----------------DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAI 150 (549)
Q Consensus 89 ~~-----------------~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai 150 (549)
.. .|.++||+..|..+.+++.++..++||||+|+++++.+++ .+|+||.|+.|+|..|++||
T Consensus 106 ~~~~~~~~~e~~c~~g~sp~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~Am 185 (878)
T KOG1056|consen 106 RASLTSDDSEVRCPDGYSPPVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQAM 185 (878)
T ss_pred HhcccCCCcceecCCCCCCceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchhhhceeeecCChHHHHHHH
Confidence 53 5899999999999999999999999999999999999999 59999999999999999999
Q ss_pred HHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhc-CCCeEEEEEcchH
Q 008912 151 AEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGYSR 229 (549)
Q Consensus 151 ~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~~~~ 229 (549)
++++++|+|++|..++++++||+.+.+.|.+..+++|+||...+.++.. ..+..+...++++.. .++++||+++..+
T Consensus 186 ~~il~~f~W~yVstv~s~~dYGE~Gieaf~~~a~~~~iCIa~s~ki~~~--~~~~~~~~~l~kl~~~~~a~vvV~F~~~~ 263 (878)
T KOG1056|consen 186 VDILKKFNWNYVSTVASEGDYGESGIEAFKEEAAERGICIAFSEKIYQL--SIEQEFDCVLRKLLETPNARVVVVFCRGE 263 (878)
T ss_pred HHHHHHhCeeEeeehhcCccchhhhHHHHHHhHHhcCceEEehhhcccc--cchhHHHHHHHHHhhcCCCeEEEEecCcc
Confidence 9999999999999999999999999999999999999999998777655 567788999999887 8899999999999
Q ss_pred HHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHHH-------------
Q 008912 230 TGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSR------------- 296 (549)
Q Consensus 230 ~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~------------- 296 (549)
+++.++++|+++++++ .++||+++.|....+.. ........|++++.+..+..+.+++|.+.
T Consensus 264 ~~r~~~~aa~~~n~~g-~~~wiaSd~W~~~~~~~----~~~e~~a~g~i~i~l~~~~v~~F~~y~~s~~p~nn~~n~w~~ 338 (878)
T KOG1056|consen 264 DARRLLKAARRANLTG-EFLWIASDGWASQNSPT----EAPEREAEGAITIKLASPQVPGFDRYFQSLHPENNRRNPWFA 338 (878)
T ss_pred hHHHHHHHHHHhCCCc-ceEEEecchhhccCChh----hhhhhhhceeEEEEecCCcchhHHHHHHhcCccccccCcccc
Confidence 9999999999999864 69999999988654332 12234788999999988888888777643
Q ss_pred --HHhhcCCCC--------------------------CCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCccccCCCC
Q 008912 297 --WNTLSNGSI--------------------------GLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGG 348 (549)
Q Consensus 297 --~~~~~~~~~--------------------------~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~ 348 (549)
|+..|++.. .-..-...++|||+++|+|||.+.++... +
T Consensus 339 e~w~~~f~C~l~~~~~~~~~~~~~Ct~~e~~~~~~~~~q~~k~~~Vi~aVya~A~aLh~m~~~lc~-------------~ 405 (878)
T KOG1056|consen 339 EFWEDKFNCSLPNSAFKNENLIRLCTAVERITLDSAYEQDSKVQFVIDAVYAMAHALHNMHQDLCP-------------G 405 (878)
T ss_pred hhhhhcccCCCCcccccchhhhhhcccchhhccccchhhhcccccHHHHHHHHHHHHHHHHHhhcC-------------C
Confidence 555554210 01123567899999999999999876543 2
Q ss_pred CccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeCc---eeeEEeEeeCCCCCcccCCccc
Q 008912 349 GTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHG---YPQQIGYWSNYSGLSVVPPEKL 425 (549)
Q Consensus 349 ~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~---~~~~VG~w~~~~~l~~~~~~~~ 425 (549)
....|..+...+ |+.|.+++++++|.+..|.+.||++|| ..+.|+|++++..+ .+..||.|+....|
T Consensus 406 ~~~~C~~m~~~d-g~~L~~~l~~vnF~~~~~~v~Fd~~gD-~~~~y~I~~~~~~~~~~~y~~vg~w~~~~~l-------- 475 (878)
T KOG1056|consen 406 TSGLCSAMKAID-GSLLLKYLLNVNFTGPAGSVRFDENGD-GPGRYDILNYQLTNGSYTYKEVGYWSEGLSL-------- 475 (878)
T ss_pred ccccCcCccccC-HHHHHhhhheeEEecCCCceeecCCCC-CccceeEEEeeccCCCccceeeeeecccccc--------
Confidence 345788887765 999999999999999999999999999 57999999998543 45999999886533
Q ss_pred ccCCCCCCCCcccceeeEeCCCCcCCCccccc
Q 008912 426 YRKPANRSSSNQHLYSVVWPGGVTSKPRGWVF 457 (549)
Q Consensus 426 ~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~ 457 (549)
+.+.+.|.++....|.|+|.
T Consensus 476 ------------~i~~~~w~~~~~~v~~S~CS 495 (878)
T KOG1056|consen 476 ------------NIEDLDWTTKPSGVPKSVCS 495 (878)
T ss_pred ------------cceeeeeccCCCCCcccccc
Confidence 23578899999889999984
No 18
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=100.00 E-value=5.3e-47 Score=380.15 Aligned_cols=370 Identities=18% Similarity=0.267 Sum_probs=298.7
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK-FNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~-~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
+||++|+.+. ...+.|+++|+++||.+..++++.+|.+++.++. +|+..+++++|++++++|.|||||.+|..+.+
T Consensus 1 ~iG~if~~~~---~~~~~a~~~Av~~iN~~~~~~~~~~l~~~~~~~~~~d~~~~~~~~c~ll~~~V~aiiGp~~s~~~~~ 77 (382)
T cd06380 1 PIGGLFDVDE---DQEYSAFRFAISQHNTNPNSTAPFKLLPHVDNLDTSDSFALTNAICSQLSRGVFAIFGSYDKSSVNT 77 (382)
T ss_pred CceeEECCCC---hHHHHHHHHHHHHhcccccccCCeeeeeeeeEecccchHHHHHHHHHHHhcCcEEEEecCcHHHHHH
Confidence 4899999983 6789999999999999877778888888787765 79999999999999999999999999999999
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhc
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI 186 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~ 186 (549)
++++++.++||+|+++++.+.++ ..++|+||+.|+. ..++++++++++|++|++||+++. +...++.+.+.+++.
T Consensus 78 ~~~~~~~~~iP~i~~~~~~~~l~-~~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~~~~~-~~~~~~~~~~~~~~~ 152 (382)
T cd06380 78 LTSYSDALHVPFITPSFPTNDLD-DGNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLYDSDR-GLLRLQQLLDYLREK 152 (382)
T ss_pred HHHHHhcCCCCeEecCCCcccCC-CCCcEEEEeccch---hHHHHHHHHhcCCeEEEEEECCCc-chHHHHHHHHHHhcc
Confidence 99999999999999988877764 3678999999863 468999999999999999997664 667778888888888
Q ss_pred C--eEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCC
Q 008912 187 R--CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKS 264 (549)
Q Consensus 187 g--~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 264 (549)
| +.|.... +... ....++..+|++||+.++++||+.+..+++..++++|+++||..++|+||++++.....+.
T Consensus 153 g~~i~v~~~~-~~~~--~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa~~~gm~~~~y~~i~~~~~~~~~~~-- 227 (382)
T cd06380 153 DNKWQVTARR-VDNV--TDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQIVDVGKNRKGYHYILANLGFDDIDL-- 227 (382)
T ss_pred CCceEEEEEE-ecCC--CcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHHHHhhhcccceEEEEccCCcccccH--
Confidence 8 6665432 3321 2357899999999999999999999999999999999999999999999998765444322
Q ss_pred cCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCC------CCCCchhhhHhHHHHHHHHHHHHHHhcCCCcccc
Q 008912 265 PLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (549)
Q Consensus 265 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~ 338 (549)
........++.++....+..+..++|.++|++.++.. ..+..+++++||||+++|+|++++.+.+......
T Consensus 228 ---~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~aYDav~~~a~Al~~~~~~~~~~~~~ 304 (382)
T cd06380 228 ---SKFLFGGVNITGFQLVDNTNPTVQKFLQRWKKLDPREWPGAGTSPIKYTAALAHDAVLVMAEAFRSLRRQRGSGRHR 304 (382)
T ss_pred ---HHhccCceeeEEEeccCCCCHHHHHHHHHHHhcCccccCcCCcCCcchHHHHHHHHHHHHHHHHHHHHHhccccccc
Confidence 1112233456777766667788999999999887521 2366789999999999999999986543211000
Q ss_pred CCccccCCCCCccccCC--ccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeCceeeEEeEeeCCCC
Q 008912 339 NDTKLNGLGGGTLNLGA--LSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSG 416 (549)
Q Consensus 339 ~~~~~~~~~~~~~~c~~--~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~~VG~w~~~~~ 416 (549)
.......+...|.. ..+|.+|..|.++|++++|+|++|+|.||++|+|.+..++|+++++++. ++||.|++..|
T Consensus 305 ---~~~~~~~~~~~C~~~~~~~~~~g~~i~~~l~~~~~~G~tG~i~Fd~~G~~~~~~~~i~~~~~~~~-~~vg~w~~~~g 380 (382)
T cd06380 305 ---IDISRRGNGGDCLANPAVPWEHGIDIERALKKVQFEGLTGNVQFDEFGQRTNYTLDVVELKTRGL-RKVGYWNEDDG 380 (382)
T ss_pred ---cccccCCCCCcCCCCCCCCccchHHHHHHHHhcccCCcccceEECCCCCcccccEEEEEecCCCc-eEEEEECCCcC
Confidence 00001123445753 3568889999999999999999999999999999888999999998787 99999999876
Q ss_pred C
Q 008912 417 L 417 (549)
Q Consensus 417 l 417 (549)
+
T Consensus 381 ~ 381 (382)
T cd06380 381 L 381 (382)
T ss_pred c
Confidence 4
No 19
>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=4.2e-47 Score=375.86 Aligned_cols=360 Identities=18% Similarity=0.278 Sum_probs=294.0
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecC-CCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDA-KFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~-~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
+||+||+... ...+.||++|++.+|.. +.+|.+++... ..|++.+.+++|+++++||.|||||.+|..+.+
T Consensus 1 ~ig~if~~~~---~~~~~af~~a~~~~n~~-----~~~l~~~~~~~~~~dsf~~~~~~C~~~~~GV~AI~Gp~ss~~~~~ 72 (370)
T cd06389 1 QIGGLFPRGA---DQEYSAFRVGMVQFSTS-----EFRLTPHIDNLEVANSFAVTNAFCSQFSRGVYAIFGFYDKKSVNT 72 (370)
T ss_pred CCceeecCCc---hHHHHHHHHHHHHhccc-----CceeeeeeEEecccchHHHHHHHHHHhhcCcEEEEecCCHHHHHH
Confidence 4899999765 35789999999999986 35777655433 358999999999999999999999999999999
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhc
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI 186 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~ 186 (549)
++++|+.++||+|+++++ ++..++|.+++.|+ +..++++++++|+|++|++||+ +++|...++.+.+.+++.
T Consensus 73 v~~i~~~~~IP~I~~~~~----~~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailYd-sd~gl~~lq~l~~~~~~~ 144 (370)
T cd06389 73 ITSFCGTLHVSFITPSFP----TDGTHPFVIQMRPD---LKGALLSLIEYYQWDKFAYLYD-SDRGLSTLQAVLDSAAEK 144 (370)
T ss_pred HHHhhccCCCCeeeecCC----CCCCCceEEEecch---hhhHHHHHHHhcCCcEEEEEec-CchHHHHHHHHHHhhccC
Confidence 999999999999997544 23357888899988 5799999999999999999997 569999999999999999
Q ss_pred CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcC
Q 008912 187 RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPL 266 (549)
Q Consensus 187 g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 266 (549)
|+.|...............+++.+|++|++.++++||+.|+.+.+..++++|.++||+.++|+||+++......+.
T Consensus 145 g~~V~~~~~~~i~~~~~~~d~~~~L~~ik~~~~~~Iil~~~~~~~~~il~qa~~~gm~~~~y~~il~~~~~~~~~l---- 220 (370)
T cd06389 145 KWQVTAINVGNINNDRKDEAYRSLFQDLENKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDGDL---- 220 (370)
T ss_pred CceEEEEEeecCCCccchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHHHHhCccccceEEEEccCCccccch----
Confidence 9887644321111012356899999999999999999999999999999999999999999999998764433222
Q ss_pred ChhhHhhccceEEEeEecCCChhHHHHHHHHHh----hcCC--CCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCC
Q 008912 267 SLKTAKSILGALTLRQHTPDSKRRRDFVSRWNT----LSNG--SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (549)
Q Consensus 267 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----~~~~--~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~ 340 (549)
........++.+++...+..+..++|.++|++ .+.. ...+...++++||||+++++|++++.........
T Consensus 221 -~~~~~~~~nitg~~~~~~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~aAl~yDAV~v~a~A~~~l~~~~~~~~~--- 296 (370)
T cd06389 221 -SKIQFGGANVSGFQIVDYDDPLVSKFIQRWSTLEEKEYPGAHTKTIKYTSALTYDAVQVMTEAFRNLRKQRIEISR--- 296 (370)
T ss_pred -hhhccCCcceEEEEEecCCCchHHHHHHHHHhcCccccCCCCCcCcchHHHHHHHHHHHHHHHHHHHHHcCCCccc---
Confidence 11222345688888888888999999999986 4421 2356788999999999999999998543322110
Q ss_pred ccccCCCCCccccCC--ccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeCceeeEEeEeeCCCCCc
Q 008912 341 TKLNGLGGGTLNLGA--LSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLS 418 (549)
Q Consensus 341 ~~~~~~~~~~~~c~~--~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~~VG~w~~~~~l~ 418 (549)
.+++..|.. ..+|.+|..|.++|++++|+|+||+|.||++|+|.++.++|+++++++. ++||.|++..||+
T Consensus 297 ------~~~~~~C~~~~~~~w~~G~~i~~~l~~~~~~GlTG~i~Fd~~G~r~~~~~~ii~l~~~g~-~kvG~W~~~~~~~ 369 (370)
T cd06389 297 ------RGNAGDCLANPAVPWGQGVEIERALKQVQVEGLTGNIKFDQNGKRINYTINVMELKSNGP-RKIGYWSEVDKMV 369 (370)
T ss_pred ------CCCCCCcCCCCCCCCCCcHHHHHHHHhcccCccccceEeCCCCccccceEEEEEecCCcc-eEEEEEcCCCCcc
Confidence 122346753 5689999999999999999999999999999999988999999998888 9999999988764
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=2.1e-47 Score=380.16 Aligned_cols=339 Identities=18% Similarity=0.260 Sum_probs=289.7
Q ss_pred eEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH-
Q 008912 26 VLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM- 103 (549)
Q Consensus 26 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~- 103 (549)
.|+||++||.+. .+.+++.|+..+|.+..+..+++++++..|+.+||.++++++|+++.+ +|.+|+||.+|..
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 589999999873 358999999999987755568999999999999999999999998865 8999999999998
Q ss_pred --HHHHHHhhhhcCCcEEecccCCCCC-CC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHH
Q 008912 104 --AHVLSHLANELQVPLLSFTALDPTL-SP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTAL 179 (549)
Q Consensus 104 --~~~va~~~~~~~iP~Is~~~~~~~l-s~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l 179 (549)
+.+++.+++.++||+|+++++++.+ ++ ..|||+||+.|++..+++++++++++|+|++|++||+++++|+...+.+
T Consensus 77 ~~~~~~~~v~~~~~iP~Is~~~~~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w~~vaii~~~~~~g~~~~~~l 156 (362)
T cd06367 77 AVAQILDFTSAQTRIPVVGISGRESIFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDWHQFSVVTSRDPGYRDFLDRV 156 (362)
T ss_pred chhhhhhhhhhhhcCcEEEeeccccccccCCCcccceEeecCcHHHHHHHHHHHHHHcCCeEEEEEEEcCcccHHHHHHH
Confidence 9999999999999999999998888 77 5799999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcCeE--EEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcc
Q 008912 180 GDKLAEIRCK--ISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (549)
Q Consensus 180 ~~~~~~~g~~--v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 257 (549)
++.+++.|+| +.....++.. ...++...+.++++.++++||++|+..++..++++|.++||+.++|+||+++.+.
T Consensus 157 ~~~l~~~g~~~~i~~~~~~~~~---~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g~~~~~~~wI~~~~~~ 233 (362)
T cd06367 157 ETTLEESFVGWEFQLVLTLDLS---DDDGDARLLRQLKKLESRVILLYCSKEEAERIFEAAASLGLTGPGYVWIVGELAL 233 (362)
T ss_pred HHHHHhcccceeeeeeEEeccC---CCcchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHHcCCCCCCcEEEECcccc
Confidence 9999999998 7666555543 1227788899999999999999999999999999999999999999999999876
Q ss_pred cccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccc
Q 008912 258 TFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISF 337 (549)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~ 337 (549)
.... .......|++++++..+ ..+.+++||||+++|+|+++++++.....
T Consensus 234 ~~~~-------~~~~~~~G~~g~~~~~~----------------------~~~~~~~~Dav~~~a~Al~~~~~~~~~~~- 283 (362)
T cd06367 234 GSGL-------APEGLPVGLLGVGLDTW----------------------YSLEARVRDAVAIVARAAESLLRDKGALP- 283 (362)
T ss_pred cccC-------CccCCCCeeEEEEeccc----------------------ccHHHHHHHHHHHHHHHHHHHHHhcCCCC-
Confidence 4211 12245678999987542 23477899999999999999987633211
Q ss_pred cCCccccCCCCCccccCCcc--ccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEe-eCceeeEEeEeeC
Q 008912 338 SNDTKLNGLGGGTLNLGALS--IFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI-EHGYPQQIGYWSN 413 (549)
Q Consensus 338 ~~~~~~~~~~~~~~~c~~~~--~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~-~~~~~~~VG~w~~ 413 (549)
.....|.... .|.+|..|.++|++++|.|.+|+|.||++|+|.++.|+|++++ +.++ ++||.|++
T Consensus 284 ----------~~~~~C~~~~~~~~~~g~~l~~~l~~~~f~G~tg~v~F~~~G~~~~~~~~I~~l~~~~~~-~~VG~W~~ 351 (362)
T cd06367 284 ----------EPPVNCYDTANKRESSGQYLARFLMNVTFDGETGDVSFNEDGYLSNPKLVIINLRRNRKW-ERVGSWEN 351 (362)
T ss_pred ----------CCCCCcCCCCCCCCCchHHHHHHHhcccccCCCCceeECCCcccccceEEEEEecCCCcc-eEEEEEcC
Confidence 1234576643 2778999999999999999999999999999988999999998 5565 99999975
No 21
>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=4e-46 Score=372.54 Aligned_cols=351 Identities=16% Similarity=0.236 Sum_probs=285.0
Q ss_pred EEeccCC---CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 31 AIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 31 ~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
+|+|.+. ......+.|+++|+++||+++++++|++|+++++|++|++..+.+.+..+..++|.|||||.||..+.++
T Consensus 4 ~l~p~~~~~~~~~~~~~~a~~lAie~IN~~~~ll~g~~l~~~~~d~~~~~~~~~~~~~~l~~~~v~aiiGp~~s~~~~~v 83 (387)
T cd06386 4 VLLPQNNSYLFSSARVAPAIEYAQRRLEANRLLFPGFRFNVHYEDSDCGNEALFSLVDRSCARKPDLILGPVCEYAAAPV 83 (387)
T ss_pred EECCCCCCcceehhhhHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCcCCchHHHHHHHHHHhhCCCEEECCCCccHHHHH
Confidence 5666542 2235678999999999999999989999999999999988766666666666799999999999999999
Q ss_pred HHhhhhcCCcEEecccCCCCCCC-C-CCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccch---HHHHHHH
Q 008912 108 SHLANELQVPLLSFTALDPTLSP-L-QYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNG---VTALGDK 182 (549)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~-~-~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~---~~~l~~~ 182 (549)
+++++.++||+|+++++++.+++ . .||++||+.|++..++.++++++++|+|++|++||+++++++.. .+.+.+.
T Consensus 84 a~ia~~~~iP~Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy~~~~~~~~~~~~~~~l~~~ 163 (387)
T cd06386 84 ARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVYEDDKQERNCYFTLEGVHHV 163 (387)
T ss_pred HHHHHhCCCcEEccccCchhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEEEcCCCCccceehHHHHHHH
Confidence 99999999999999998888876 3 68999999999999999999999999999999999999998776 8899999
Q ss_pred HhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccc---
Q 008912 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTF--- 259 (549)
Q Consensus 183 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~--- 259 (549)
+++.|++|+.....+. ...++..+|+++++.+ |+||++++.+.+..++++|+++||+..+|+||..+...+.
T Consensus 164 ~~~~gi~v~~~~~~~~----~~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A~~~gm~~~~yv~i~~d~~~~~~~~ 238 (387)
T cd06386 164 FQEEGYHMSIYPFDET----KDLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAAHRRGLTSGDYIFFNIELFNSSSYG 238 (387)
T ss_pred HHhcCceEEEEecCCC----CcccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCCEEEEEEecccccccC
Confidence 9999999987655442 2568999999999887 9999999999999999999999999999999999865311
Q ss_pred ---cCCCCcCChh---hHhhccceEEEeEecCCChhHHHHHHHHHhhcCC------CCCCCchhhhHhHHHHHHHHHHHH
Q 008912 260 ---IDSKSPLSLK---TAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG------SIGLNPYGLYAYDTVWMIARALKL 327 (549)
Q Consensus 260 ---~~~~~~~~~~---~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------~~~~~~~~~~~yDav~~~a~Al~~ 327 (549)
+...+..+.. ......|+.++ .+..+.+++|.+++++++.. ...++.+++++||||+++|+|+++
T Consensus 239 ~~~w~~~~~~~~~~~~a~~~~~~v~~~---~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~aa~~yDav~l~A~Al~~ 315 (387)
T cd06386 239 DGSWKRGDKHDFEAKQAYSSLNTVTLL---RTVKPEFEKFSMEVKSSVEKAGDLNDCDYVNMFVEGFHDAILLYALALHE 315 (387)
T ss_pred CCCCccCCCcCHHHHHHHHhheEEecc---CCCChHHHHHHHHHHHHHHhCCCCcccccchHHHHHHHHHHHHHHHHHHH
Confidence 1100111111 22334444443 34457788888888743321 112447889999999999999999
Q ss_pred HHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEe--eCcee
Q 008912 328 FLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI--EHGYP 405 (549)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~--~~~~~ 405 (549)
++..+.. +.+|..|.++|++++|+|++|.+.||++|+|. ..|.|+.++ +++.+
T Consensus 316 ~~~~g~~------------------------~~~g~~l~~~l~~~~f~G~tG~v~~d~~g~r~-~~~~v~~~~~~~~~~~ 370 (387)
T cd06386 316 VLKNGYS------------------------KKDGTKITQRMWNRTFEGIAGQVSIDANGDRY-GDFSVIAMTDVEAGTY 370 (387)
T ss_pred HhhCCCC------------------------CCCHHHHHHHHhCCceeeccccEEECCCCCcc-ccEEEEEccCCCCccE
Confidence 8754321 23599999999999999999999999999984 699999996 45556
Q ss_pred eEEeEeeCC
Q 008912 406 QQIGYWSNY 414 (549)
Q Consensus 406 ~~VG~w~~~ 414 (549)
+.||.|...
T Consensus 371 ~~~~~~~~~ 379 (387)
T cd06386 371 EVVGNYFGK 379 (387)
T ss_pred EEEeEEccc
Confidence 999999753
No 22
>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=3.6e-46 Score=376.45 Aligned_cols=354 Identities=25% Similarity=0.366 Sum_probs=294.6
Q ss_pred CCCceEEEEEEeccCCC---------------------CchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHH
Q 008912 22 LKPEVLNVGAIFSFGTV---------------------NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLS 80 (549)
Q Consensus 22 ~~~~~i~IG~l~~~~~~---------------------~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a 80 (549)
..++++.||++||.|.. .|.....|+++|+++||+++++|+|++|+++++|+|+ +..+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~g~~~~~a~~lAv~~IN~~ggil~g~~l~~~~~D~~~-~~~a 80 (410)
T cd06363 2 RLPGDYLLGGLFPLHYATSALPHRRPEPLDCSSYRFNLSGYRLFQAMRFAVEEINNSTSLLPGVTLGYEIFDHCS-DSAN 80 (410)
T ss_pred CCCCCEEEEEEeECcccccccccCCCCCccCccCccCHHHHHHHHHHHHHHHHHhCCCccCCCCeeceEEEecCC-cHHH
Confidence 46899999999999841 2556789999999999999999999999999999977 7779
Q ss_pred HHHHHHHHh----------------cCcEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCc
Q 008912 81 IMGALQFME----------------TDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPND 143 (549)
Q Consensus 81 ~~~~~~l~~----------------~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~ 143 (549)
++.+.+++. ++|.+||||.+|..+.+++++++.+++|+|+++++++.+++ ..|||+||+.|++
T Consensus 81 ~~~~~~li~~~~~~~~~~c~~~~~~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~~~~lt~~~~~~~~fr~~~~~ 160 (410)
T cd06363 81 FPPTLSLLSVNGSRIEPQCNYTNYQPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGASSEVLSNKELYPSFLRTVPSD 160 (410)
T ss_pred HHHHHHHHhccCcccCcccccccCCCCeEEEECCCccHHHHHHHHHhcccccccccccccCccccccccCCCeeEecCCc
Confidence 999999874 58999999999999999999999999999999998888887 5789999999999
Q ss_pred HHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEE
Q 008912 144 LYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 223 (549)
Q Consensus 144 ~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vii 223 (549)
..++.++++++.+++|++|++|+++++||....+.+.+.+++.|+++.....++... ....++..++.+|+++++++|+
T Consensus 161 ~~~~~al~~~l~~~~~k~vaii~~~~~~g~~~~~~~~~~l~~~gi~i~~~~~~~~~~-~~~~d~~~~l~~i~~~~~dvIi 239 (410)
T cd06363 161 KDQIEAMVQLLQEFGWNWVAFLGSDDEYGRDGLQLFSELIANTGICIAYQGLIPLDT-DPETDYQQILKQINQTKVNVIV 239 (410)
T ss_pred HHHHHHHHHHHHHCCCcEEEEEEeCChhHHHHHHHHHHHHHHCCeEEEEEEEecCCC-chHHHHHHHHHHHhcCCCeEEE
Confidence 999999999999999999999999999999999999999999999999887776420 2367899999999999999999
Q ss_pred EEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCC
Q 008912 224 VHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG 303 (549)
Q Consensus 224 l~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~ 303 (549)
+.+..+.+..++++++++|+. +..||+++.+........ ........+++++....+..+.+++|.+.
T Consensus 240 l~~~~~~~~~il~qa~~~g~~--~~~~i~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~f~~~------- 307 (410)
T cd06363 240 VFASRQPAEAFFNSVIQQNLT--GKVWIASEAWSLNDELPS---LPGIRNIGTVLGVAQQTVTIPGFSDFIYS------- 307 (410)
T ss_pred EEcChHHHHHHHHHHHhcCCC--CCEEEEeCcccccccccC---CccceeeccEEEEEeCCCCCccHHHHHHH-------
Confidence 999999999999999999985 348898876542211100 11112344677777777777788888876
Q ss_pred CCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEE
Q 008912 304 SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHF 383 (549)
Q Consensus 304 ~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~f 383 (549)
+++.+||||+++|+|+++++.++.. .|...... +++.|.++|++++|.|++|++.|
T Consensus 308 ------~~~~~YDaV~~~a~Al~~a~~~~~~-----------------~~~~~~~~-~~~~l~~~L~~~~~~g~~g~i~f 363 (410)
T cd06363 308 ------FAFSVYAAVYAVAHALHNVLQCGSG-----------------GCPKRVPV-YPWQLLEELKKVNFTLLGQTVRF 363 (410)
T ss_pred ------HHHHHHHHHHHHHHHHHHHhCCCCC-----------------CCCCCCCC-CHHHHHHHHhccEEecCCcEEEe
Confidence 3567899999999999999766432 23321222 47889999999999999999999
Q ss_pred ccCCCCCCCceEEEEEeeC---ceeeEEeEeeCC
Q 008912 384 NQDRSLLHPSYDIINVIEH---GYPQQIGYWSNY 414 (549)
Q Consensus 384 d~~g~r~~~~~~I~~~~~~---~~~~~VG~w~~~ 414 (549)
|++|++ ...|.|++++.. ..+++||.|++.
T Consensus 364 d~~G~~-~~~~~i~~~~~~~~~~~~~~vG~~~~~ 396 (410)
T cd06363 364 DENGDP-NFGYDIVVWWWDNSSGTFEEVGSYSFY 396 (410)
T ss_pred CCCCCC-ccceEEEEEEEcCCceeEEEEEEEECC
Confidence 999995 567999999532 245999999974
No 23
>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=3.5e-45 Score=367.94 Aligned_cols=358 Identities=18% Similarity=0.283 Sum_probs=281.6
Q ss_pred EEEEEeccCC---CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||++.|.+. ..+.....|+++|+++||+++++++|++|++.+.|++|++..++..+++++.+ +|.+||||.||..
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 4899998752 24556678999999999999999999999999999999999999999999875 9999999999999
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecC---Cccc--chHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD---DQGR--NGVT 177 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~---~~g~--~~~~ 177 (549)
+.+++++++.+++|+|+++++++.+++ ..||+++|+.|++..++.++++++++|+|++|++||+++ .++. ...+
T Consensus 81 ~~av~~va~~~~iP~is~~s~s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~vaii~~~~~~~~~~~~~~~~~ 160 (391)
T cd06372 81 AEVTGLLASQWNIPMFGFVGQTAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIGLFGGSSRDSSWDEVDELWK 160 (391)
T ss_pred HHHHHHHHhccCccEEEeecCCccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEEEEEeccccchhhhHHHHHH
Confidence 999999999999999999999999987 578999999999999999999999999999999998643 2331 1233
Q ss_pred HHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcc
Q 008912 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (549)
Q Consensus 178 ~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 257 (549)
.+.+.++ .++++.....++.. ..++...+.+.+++++|+||++++.+.+..++++|+++||..++|+||.+....
T Consensus 161 ~~~~~~~-~~~~i~~~~~~~~~----~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~~a~~~g~~~~~y~~i~~~~~~ 235 (391)
T cd06372 161 AVENQLK-FHFNITATVRYSSS----NPDLLQEKLRYISSVARVIILICSSEDAKAILQAAEKLGLMKGKFVFFLLQQFE 235 (391)
T ss_pred HHHHHHh-hCEEEEEEEecCCC----ChHHHHHHHHhhhccceEEEEEcChHHHHHHHHHHHHcCCCCCCEEEEEehhhc
Confidence 4444443 57888887776644 455555555555688999999999999999999999999988889999964322
Q ss_pred cccCCCCc---CChhhHhhccceEEEeEecCC-ChhHHHHHHHHHhhcCCCC---------CCCchhhhHhHHHHHHHHH
Q 008912 258 TFIDSKSP---LSLKTAKSILGALTLRQHTPD-SKRRRDFVSRWNTLSNGSI---------GLNPYGLYAYDTVWMIARA 324 (549)
Q Consensus 258 ~~~~~~~~---~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~---------~~~~~~~~~yDav~~~a~A 324 (549)
..+..... ........+.|++++.+..+. .+..++|.++|++++.... ....+++++||||+++|+|
T Consensus 236 ~~~w~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~~~~~~a~~~yDav~~~A~A 315 (391)
T cd06372 236 DNFWKEVLTDDQVQHLPKVYESVFLIAPSSYGGYSGGYEFRKQVYQKLKRPPFQSSLSSEEQVSPYSAYLHDAVLLYALA 315 (391)
T ss_pred CccccccCCCcchHHHHHHHhhEEEEecCCCCCCcchhHHHHHHHHHHhcCCccccccccccchHHHHHHHHHHHHHHHH
Confidence 11100000 012233467788877665432 3456678877776653111 2357889999999999999
Q ss_pred HHHHHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHH---hccccccceeeEEccCCCCCCCceEEEEEee
Q 008912 325 LKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANIL---QTNMTGLSGPIHFNQDRSLLHPSYDIINVIE 401 (549)
Q Consensus 325 l~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~---~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~ 401 (549)
++++++++. .|.+|..+.++|+ +++|+|+||+|.||++|+| .+.|.|++++.
T Consensus 316 l~~~~~~g~------------------------~~~~g~~l~~~l~~~~~~~f~G~tG~v~fd~~G~r-~~~y~i~~~~~ 370 (391)
T cd06372 316 VKEMLKAGK------------------------DFRNGRQLVSTLRGANQVELQGITGLVLLDEQGKR-QMDYSVYALQK 370 (391)
T ss_pred HHHHHhcCC------------------------CCCCHHHHHHHHhhccCceEeccceeEEECCCCCc-ceeEEEEeccc
Confidence 999876532 1335889999999 6899999999999999998 68999999985
Q ss_pred --C-ceeeEEeEeeCCC
Q 008912 402 --H-GYPQQIGYWSNYS 415 (549)
Q Consensus 402 --~-~~~~~VG~w~~~~ 415 (549)
. ..+++||.|+...
T Consensus 371 ~~~~~~~~~vg~~~~~~ 387 (391)
T cd06372 371 SGNSSLFLPFLHYDSHQ 387 (391)
T ss_pred cCCccceeeEEEecchh
Confidence 2 2369999998743
No 24
>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=2.1e-45 Score=371.04 Aligned_cols=358 Identities=17% Similarity=0.215 Sum_probs=285.9
Q ss_pred EEEEEeccCCC---Cc-hHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHH-----HHHH-HHhcCcEEEEc
Q 008912 28 NVGAIFSFGTV---NG-QVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIM-----GALQ-FMETDTLAIVG 97 (549)
Q Consensus 28 ~IG~l~~~~~~---~g-~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~-----~~~~-l~~~~v~aiiG 97 (549)
+||+++|++.. .| .....|+++|+++||+++++|+|++|++++.|+++++..+.. .+.+ ++.++|.+|||
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 58999998744 34 667899999999999999999999999999998765543322 2222 23569999999
Q ss_pred CCCchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEE-EEEecCCc-ccc
Q 008912 98 PQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVI-AIFNDDDQ-GRN 174 (549)
Q Consensus 98 p~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~-ii~~~~~~-g~~ 174 (549)
|.||..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++|+|++++ ++|.++.. ++.
T Consensus 81 p~~S~~~~~va~~a~~~~iP~Is~~a~~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~~~~~~~~~~ 160 (405)
T cd06385 81 PGCDYTASPVARFTTHWDVPLVTAGAPALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIYSDNKVDDRP 160 (405)
T ss_pred CCccchHHHHHHHHhccCCcEEccccChhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEEecCcccccc
Confidence 999999999999999999999999999888987 579999999999999999999999999999988 45654432 233
Q ss_pred ---hHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 175 ---GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 175 ---~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
..+.+.+.+++.|++|+.....+. +..++..+|+++++.. |+||+++....+..++++|.++||+.++|+||
T Consensus 161 ~~~~~~~l~~~~~~~gi~v~~~~~~~~----~~~d~~~~l~~ik~~~-~iii~~~~~~~~~~i~~~a~~~g~~~~~y~~i 235 (405)
T cd06385 161 CYFAMEGLYMELKKNNITVVDLVFEED----DLINYTTLLQDIKQKG-RVIYVCCSPDIFRRLMLQFWREGLPSEDYVFF 235 (405)
T ss_pred hHHHHHHHHHHHHhCCeEEEEeeccCC----chhhHHHHHHHHhhcc-eEEEEeCCHHHHHHHHHHHHHcCCCCCcEEEE
Confidence 458888899999999988753322 3678999999998754 99999999999999999999999999999999
Q ss_pred EeCCcccccCC---------CCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhh----cCCCC---CCCchhhhHh
Q 008912 252 ATTWLSTFIDS---------KSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL----SNGSI---GLNPYGLYAY 315 (549)
Q Consensus 252 ~~~~~~~~~~~---------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~~---~~~~~~~~~y 315 (549)
+++++...... .+..+.....++++++......+..+.+++|.++|+++ ++... .++.+++++|
T Consensus 236 ~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aa~~Y 315 (405)
T cd06385 236 YIDLFGASLQGPDPKRPWYRGDADDAAAREAFQSVKILTYKEPQNPEYKEFLSDLKTDAKEMFNFTVEDSLMNIIAGGFY 315 (405)
T ss_pred EeecchhhccCCCCCCCCCCCCcccHHHHHhhheeEEEeCCCCCChhHHHHHHHHHHHhhccCCCccchhhHHHHHHHHH
Confidence 98764322111 01111234567788887776666678899999999885 44221 1557888999
Q ss_pred HHHHHHHHHHHHHHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceE
Q 008912 316 DTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYD 395 (549)
Q Consensus 316 Dav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~ 395 (549)
|||+++|.|++++.+..+. +.+|..|.++|++++|+|++|.|.||++|+| ...|.
T Consensus 316 Dav~l~a~Al~~~~~~~~~------------------------~~~g~~i~~~l~~~~f~G~tG~v~fd~~G~r-~~~~~ 370 (405)
T cd06385 316 DGVMLYAHALNETMAKGGT------------------------RPPGTAITQRMWNRTFYGVTGFVKIDDNGDR-ETDFA 370 (405)
T ss_pred HHHHHHHHHHHHHHhcCCC------------------------CCCHHHHHHHhhCceEeeceeEEEEcCCCCE-eceeE
Confidence 9999999999998654321 3358999999999999999999999999998 47888
Q ss_pred EEEEe--eCceeeEEeEeeCCC
Q 008912 396 IINVI--EHGYPQQIGYWSNYS 415 (549)
Q Consensus 396 I~~~~--~~~~~~~VG~w~~~~ 415 (549)
+++++ .++.++.||.|+...
T Consensus 371 ~~~~~~~~~g~~~~v~~~~~~~ 392 (405)
T cd06385 371 LWDMTDTESGDFQVVSVYNGTQ 392 (405)
T ss_pred EEEccCCCCCcEEEEEEEcccC
Confidence 88764 234459999998643
No 25
>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=5.3e-45 Score=367.18 Aligned_cols=347 Identities=18% Similarity=0.286 Sum_probs=287.1
Q ss_pred EEEEEEeccCC----CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCch
Q 008912 27 LNVGAIFSFGT----VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAV 102 (549)
Q Consensus 27 i~IG~l~~~~~----~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~ 102 (549)
|+||++.|++. ..|.....|+++|+++||+++++++|++|++++.|+++++..+++.+++++.++|.+||||.+|.
T Consensus 1 i~iG~~~pltG~~~a~~G~~~~~a~~lAv~~IN~~ggil~g~~l~l~~~D~~~~~~~a~~~~~~li~~~v~aiiGp~~S~ 80 (404)
T cd06370 1 IKVGYLAEWTTDRTDRLGLPISGALTLAVEDVNADPNLLPGYKLQFEWVDTHGDEVLSIRAVSDWWKRGVVAFIGPECTC 80 (404)
T ss_pred CeeEecccccCCccccccccHHHHHHHHHHHHhCCCCCCCCCEEEEEEEecCCChHHHHHHHHHHHhcCceEEECCCchh
Confidence 68999999975 45888899999999999999999899999999999999999999999999999999999999984
Q ss_pred HHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHH
Q 008912 103 MAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD 181 (549)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~ 181 (549)
. +++.+++.++||+|+++++++.+++ ..||+|||+.|++..++.++++++++++|++|++|+++++||....+.+++
T Consensus 81 ~--~~a~i~~~~~iP~Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~g~~~~~~~~~ 158 (404)
T cd06370 81 T--TEARLAAAWNLPMISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYENDSKYSSVFETLKE 158 (404)
T ss_pred H--HHHHHHhhcCCcEEecccCCccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEecCcccHHHHHHHHH
Confidence 4 4567999999999999999888887 478999999999999999999999999999999999999999999999999
Q ss_pred HHhhcCeEEEEEEccCCCCC---CChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCC-CCCeEEEEeCCcc
Q 008912 182 KLAEIRCKISYKSALPPDQS---VTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMM-DSGYVWIATTWLS 257 (549)
Q Consensus 182 ~~~~~g~~v~~~~~~~~~~~---~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~-~~~~~~i~~~~~~ 257 (549)
.+++.|++|+..+.++.... ....++..++++++.. ++++|+++...++..++++|+++||. ..+|+||+.+...
T Consensus 159 ~~~~~g~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~~~~~~~~l~qa~~~g~~~~~~y~~i~~~~~~ 237 (404)
T cd06370 159 EAELRNITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVFIGEANELRQFLMSMLDEGLLESGDYMVLGVDIEY 237 (404)
T ss_pred HHHHcCCEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEEEcCHHHHHHHHHHHHHcCCCCCCcEEEEEEchhh
Confidence 99999999998887765310 0146788888888765 67888888778899999999999998 6889999876321
Q ss_pred ccc---------------CCCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCC------------CCCCCch
Q 008912 258 TFI---------------DSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNG------------SIGLNPY 310 (549)
Q Consensus 258 ~~~---------------~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~------------~~~~~~~ 310 (549)
... ............+++|++.+....+ .+.+++|.+.|++.+.. ...++.+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 316 (404)
T cd06370 238 YDRDSQDYYSLHRGFQSREYNRSDDEKALEAMKSVLIIVPTPV-SPDYDSFSIFVRKYNLEPPFNGDLGESELVLEIDIE 316 (404)
T ss_pred ccccchhhhhhhhhhccccccccccHHHHHHhHheEEEecCCC-CchHHHHHHHHHHhccCCCCccccccccccccccee
Confidence 110 1001111244457888887765444 66778899999876431 1235678
Q ss_pred hhhHhHHHHHHHHHHHHHHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccce-eeEEccCCCC
Q 008912 311 GLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSG-PIHFNQDRSL 389 (549)
Q Consensus 311 ~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG-~v~fd~~g~r 389 (549)
++++||||+++|+|++++++++... .++..|.++|++++|+|+|| +|.||++|+|
T Consensus 317 aa~~yDAv~~~a~Al~~~~~~~~~~------------------------~~g~~i~~~l~~~~f~GvtG~~v~fd~~G~~ 372 (404)
T cd06370 317 AAYLYDAVMLYAKALDETLLEGGDI------------------------YNGTAIVSHILNRTYRSITGFDMYIDENGDA 372 (404)
T ss_pred eehhHHHHHHHHHHHHHHHHhcCCC------------------------CCHHHHHHHHhCcccccccCceEEEcCCCCc
Confidence 8999999999999999987654321 14889999999999999999 8999999997
Q ss_pred CCCceEEEEEeeC
Q 008912 390 LHPSYDIINVIEH 402 (549)
Q Consensus 390 ~~~~~~I~~~~~~ 402 (549)
...|.|++++..
T Consensus 373 -~~~y~v~~~~~~ 384 (404)
T cd06370 373 -EGNYSVLALQPI 384 (404)
T ss_pred -ccceEEEEeccc
Confidence 588999999743
No 26
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=100.00 E-value=1.1e-44 Score=359.53 Aligned_cols=338 Identities=40% Similarity=0.712 Sum_probs=297.1
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~~~ 105 (549)
+||+++|++ +..|.....++++|+++||+++++++|++|+++++|+++++..+++.+++|+.+ +|.+||||.+|..+.
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 788899999999999999999977789999999999999999999999999987 999999999999999
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHh
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA 184 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~ 184 (549)
+++++++.+++|+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++|++|+.++++|....+.+.+.++
T Consensus 81 a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~ 160 (350)
T cd06366 81 FVAEVANEWNVPVLSFAATSPSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKFGWRRVATIYEDDDYGSGGLPDLVDALQ 160 (350)
T ss_pred HHHHHhhcCCeeEEeccCCCccccccccCCceEEcccchHhHHHHHHHHHHHCCCcEEEEEEEcCcccchhHHHHHHHHH
Confidence 9999999999999999998888865 568999999999999999999999999999999999999999999999999999
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCC-C
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS-K 263 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~-~ 263 (549)
+.|++|+....++.. ....++...+++++++++++|++++...++..++++++++|+....++||.++.+...+.. .
T Consensus 161 ~~g~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 238 (350)
T cd06366 161 EAGIEISYRAAFPPS--ANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAYKLGMMGKGYVWILTDWLSSNWWSSS 238 (350)
T ss_pred HcCCEEEEEeccCCC--CChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHHHcCCcCCCEEEEECcchhhhhccCC
Confidence 999999998888754 2357999999999999999999999999999999999999998888999998865543210 0
Q ss_pred CcCChhhHhhccceEEEeEecCC-ChhHHHHHHHHHhhcCCC----CCCCchhhhHhHHHHHHHHHHHHHHhcCCCcccc
Q 008912 264 SPLSLKTAKSILGALTLRQHTPD-SKRRRDFVSRWNTLSNGS----IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (549)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~----~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~ 338 (549)
............|++++..+.+. .+.+++|.++|+++++.. ..+..++++.|||+++
T Consensus 239 ~~~~~~~~~~~~gv~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~p~~~a~~~YDav~~------------------ 300 (350)
T cd06366 239 DCTDEEMLEAMQGVIGVRSYVPNSSMTLQEFTSRWRKRFGNENPELTEPSIYALYAYDAVWA------------------ 300 (350)
T ss_pred CCChHHHHHhhceEEEEeecccccCccHHHHHHHHHHHhcccCcCcCCCCcccchhhhheee------------------
Confidence 00113345678899999888777 788999999999988632 1477888999999988
Q ss_pred CCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeCceeeEEeEeeCCCCCc
Q 008912 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLS 418 (549)
Q Consensus 339 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~~VG~w~~~~~l~ 418 (549)
+.+|+|++|+|+||++|++.+..|+++++.++++ ++||.|++..|+.
T Consensus 301 --------------------------------~~~~~G~~G~v~fd~~~~~~~~~~~~~~~~~~~~-~~vg~~~~~~~~~ 347 (350)
T cd06366 301 --------------------------------STNFNGLSGPVQFDGGRRLASPAFEIINIIGKGY-RKIGFWSSESGLS 347 (350)
T ss_pred --------------------------------eceEEeeeeeEEEcCCCccCCcceEEEEecCCce-EEEEEEeCCCCcc
Confidence 1268899999999999998889999999987777 9999999877653
No 27
>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=8.3e-44 Score=351.82 Aligned_cols=404 Identities=16% Similarity=0.260 Sum_probs=304.2
Q ss_pred CChHHHHHHHHHHHhc-CcEEEEcCCCch---HHHHHHHhhhhcCCcEEecccCCC-CCCCC-CCCceEEccCCcHHHHH
Q 008912 75 FNGFLSIMGALQFMET-DTLAIVGPQSAV---MAHVLSHLANELQVPLLSFTALDP-TLSPL-QYPFFVQTAPNDLYLMS 148 (549)
Q Consensus 75 ~~~~~a~~~~~~l~~~-~v~aiiGp~~s~---~~~~va~~~~~~~iP~Is~~~~~~-~ls~~-~~~~~~r~~ps~~~~~~ 148 (549)
.||...+..+|+++.. +|.+|+-...|. ++..+--++...+||+|++.+.+. .++++ ....++++.||..+|++
T Consensus 83 tdPkSll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sieqqa~ 162 (1258)
T KOG1053|consen 83 TDPKSLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIEQQAQ 162 (1258)
T ss_pred CCHHHHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHHHHHH
Confidence 6899999999999986 899988765554 333334456678999999865543 34443 34578999999999999
Q ss_pred HHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhh--cCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc
Q 008912 149 AIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAE--IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (549)
Q Consensus 149 ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~--~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 226 (549)
++.++|..|+|..|++|.+.-+..+.++..+++.... .||.+.....+.+. ..+.......++|+.++.||+++|
T Consensus 163 Vml~iL~~ydW~~Fs~vtt~~pg~~~f~~~ir~~~d~s~vgwe~i~v~~l~~s---~~d~~a~~q~qLkki~a~VillyC 239 (1258)
T KOG1053|consen 163 VMLKILEEYDWYNFSLVTTQFPGNRTFVSLIRQTNDNSHVGWEMINVLTLDPS---TDDLLAKLQAQLKKIQAPVILLYC 239 (1258)
T ss_pred HHHHHHHHcCcceeEEEEeecCchHHHHHHHHHhhhhccccceeeeeeecCCC---CCchHHHHHHHHHhcCCcEEEEEe
Confidence 9999999999999999998887777777777777665 36666655555543 222233444566666799999999
Q ss_pred chHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCCCC
Q 008912 227 YSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIG 306 (549)
Q Consensus 227 ~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~ 306 (549)
+.+++..|+..|.++|+++++|+||++......-. .-.....|.+...... |+.
T Consensus 240 ~~eea~~IF~~A~q~Gl~g~~y~Wi~pqlv~g~~~-------~pa~~P~GLisv~~~~------------w~~------- 293 (1258)
T KOG1053|consen 240 SREEAERIFEEAEQAGLTGPGYVWIVPQLVEGLEP-------RPAEFPLGLISVSYDT------------WRY------- 293 (1258)
T ss_pred cHHHHHHHHHHHHhcCCcCCceEEEeehhccCCCC-------CCccCccceeeeeccc------------hhh-------
Confidence 99999999999999999999999999765433100 0123456666655422 221
Q ss_pred CCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCccccCCCCCccccCCcc--ccCchHHHHHHHHhccccccceeeEEc
Q 008912 307 LNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALS--IFDGGKKFLANILQTNMTGLSGPIHFN 384 (549)
Q Consensus 307 ~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~--~~~~~~~l~~~l~~~~f~g~tG~v~fd 384 (549)
...+.+-|+|-++|.|.+.++...+.. ..++.+|.... ....+..+.++|.|+.|+| +.++|+
T Consensus 294 --~l~~rVrdgvaiva~aa~s~~~~~~~l-----------p~~~~~C~~~~~~~~~~~~~l~r~l~NvT~~g--~~lsf~ 358 (1258)
T KOG1053|consen 294 --SLEARVRDGVAIVARAASSMLRIHGFL-----------PEPKMDCREQEETRLTSGETLHRFLANVTWDG--RDLSFN 358 (1258)
T ss_pred --hHHHHHhhhHHHHHHHHHHHHhhcccC-----------CCcccccccccCccccchhhhhhhhheeeecc--cceeec
Confidence 234678999999999999998775542 22345675422 2334889999999999999 789999
Q ss_pred cCCCCCCCceEEEEEeeCceeeEEeEeeCCCCCcccCCcccccCCCCCCCCcccceeeEeCCCCcCCCccccccCCCCeE
Q 008912 385 QDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVWPGGVTSKPRGWVFPNNGRQL 464 (549)
Q Consensus 385 ~~g~r~~~~~~I~~~~~~~~~~~VG~w~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~w~~~~~~~p~~~~~~~~~~~~ 464 (549)
++|..+..+.-++.+.++..|.+||.|...+ |.|. ...||.... ...+.+ +..+|
T Consensus 359 ~~g~~v~p~lvvI~l~~~r~We~VG~We~~~-L~M~--------------------y~vWPr~~~---~~q~~~-d~~HL 413 (1258)
T KOG1053|consen 359 EDGYLVHPNLVVIDLNRDRTWERVGSWENGT-LVMK--------------------YPVWPRYHK---FLQPVP-DKLHL 413 (1258)
T ss_pred CCceeeccceEEEecCCCcchheeceecCCe-EEEe--------------------ccccccccC---ccCCCC-Cccee
Confidence 9998888888888888888889999998764 4443 446873221 122222 33578
Q ss_pred EEeecCcccccccEEeec-----------------------------CcceeeeeeHHHHHHHHHhCCCCcCEEEEECCC
Q 008912 465 RIGVPNRVSYRDFVFKVN-----------------------------GTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGD 515 (549)
Q Consensus 465 ~v~~~~~~~~~~~~~~~~-----------------------------~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~d 515 (549)
+|+|..+.||+-.+.++. -..||+||||||+++||+.++|+ |++|+|.|
T Consensus 414 ~VvTLeE~PFVive~vDP~t~~C~~ntvpc~s~~~~t~ss~~~~~~tvKkCCkGfCIDiLkKlA~~v~Ft--YDLYlVtn 491 (1258)
T KOG1053|consen 414 TVVTLEERPFVIVEDVDPLTQTCVRNTVPCRSQLNSTFSSGDEANRTVKKCCKGFCIDILKKLARDVKFT--YDLYLVTN 491 (1258)
T ss_pred EEEEeccCCeEEEecCCCCcCcCCCCCCcchhhhhhccCCCccCCchHHhhhhhhhHHHHHHHHhhcCcc--eEEEEecC
Confidence 888777666653322210 16799999999999999999999 99999999
Q ss_pred CC----CCCChHHHHHhHhcCcccEEecceEEeecccC
Q 008912 516 GH----KNPTYSELINQITTGVSRILTKKVAQLTRVSL 549 (549)
Q Consensus 516 g~----~~g~~~gl~~~l~~~~~d~~~~~~ti~~~r~~ 549 (549)
|| .||.||||||+|..++|||||+++|||+||+.
T Consensus 492 GKhGkk~ng~WnGmIGev~~~rA~MAVgSltINeeRSe 529 (1258)
T KOG1053|consen 492 GKHGKKINGVWNGMIGEVVYQRADMAVGSLTINEERSE 529 (1258)
T ss_pred CcccceecCcchhhHHHHHhhhhheeeeeeEechhhhc
Confidence 98 78999999999999999999999999999984
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=3.1e-44 Score=361.73 Aligned_cols=359 Identities=17% Similarity=0.266 Sum_probs=293.5
Q ss_pred EEEEEeccCC----CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCC----ChHHHHHHHHHHH-hcCcEEEEcC
Q 008912 28 NVGAIFSFGT----VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF----NGFLSIMGALQFM-ETDTLAIVGP 98 (549)
Q Consensus 28 ~IG~l~~~~~----~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~----~~~~a~~~~~~l~-~~~v~aiiGp 98 (549)
+||+++|.+. ..|.....|+++|+++||+++++++|++|++++.|+++ ++..++..+.+++ .++|.+||||
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 4899999984 23456789999999999999998899999999999998 8899898888876 5599999999
Q ss_pred CCchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcc----c
Q 008912 99 QSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQG----R 173 (549)
Q Consensus 99 ~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g----~ 173 (549)
.||..+.+++++++.++||+|+++++++.+++ ..|||+||+.|++..++.++++++++++|++|++|+++++++ .
T Consensus 81 ~~S~~~~av~~~~~~~~ip~Is~~as~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~~~~~~ 160 (396)
T cd06373 81 GCEYAAAPVARFAAHWNVPVLTAGAPAAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAALLYHDDKNDDRPCY 160 (396)
T ss_pred CccchhHHHHHHHhcCCCceECccCCccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEEEEEECCCCCcchHH
Confidence 99999999999999999999999999888887 579999999999999999999999999999999999887764 4
Q ss_pred chHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEe
Q 008912 174 NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (549)
Q Consensus 174 ~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (549)
...+.+.+.+++.|++|.... +... ....++..+|+++++.. |+||+++....+..++++++++|+...+|+||..
T Consensus 161 ~~~~~~~~~~~~~g~~v~~~~-~~~~--~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa~~~g~~~~~yv~i~~ 236 (396)
T cd06373 161 FTLEGVYTVLKEENITVSDFP-FDED--KELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAAHRLGLTSGEYVFFNI 236 (396)
T ss_pred HHHHHHHHHHhhcCceeeEEe-ecCC--ccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHHHHcCCCCCcEEEEEE
Confidence 457888889998999987543 4322 11368999999999865 9999999999999999999999999999999997
Q ss_pred CCccccc------C--CCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhh----cCCC---CCCCchhhhHhHHH
Q 008912 254 TWLSTFI------D--SKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL----SNGS---IGLNPYGLYAYDTV 318 (549)
Q Consensus 254 ~~~~~~~------~--~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~---~~~~~~~~~~yDav 318 (549)
+...... . ..............+++.+....+..+.+++|.++|+++ ++.. ..+..+++.+||||
T Consensus 237 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav 316 (396)
T cd06373 237 DLFGSSLYGGGPWWWERGDEDDEKAKEAYQALMTITLREPDNPEYKEFSLEVKERAKKKFNTTSDDSLVNFFAGAFYDAV 316 (396)
T ss_pred ccchhhhccCCCCcCCCCCcccHHHHHHHHHheEEecCCCCChHHHHHHHHHHHHhhhcCCCCcchhHHHHHHHHHHHHH
Confidence 6542211 1 001111233456678888887777778899999999875 3311 13456788999999
Q ss_pred HHHHHHHHHHHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEE
Q 008912 319 WMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIIN 398 (549)
Q Consensus 319 ~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~ 398 (549)
+++++|++++..+.+. +.++..|.++|++++|+|++|.+.||++|+| ...|.|+.
T Consensus 317 ~~~a~Al~~~~~~~~~------------------------~~~~~~i~~~l~~~~f~G~tG~v~fd~~G~~-~~~~~v~~ 371 (396)
T cd06373 317 LLYALALNETLAEGGD------------------------PRDGTNITRRMWNRTFEGITGNVSIDENGDR-ESDFSLWD 371 (396)
T ss_pred HHHHHHHHHHHhccCC------------------------CCChHHHHHHhcCCceecccCceEeecCCcc-cceeeeee
Confidence 9999999998654321 1248899999999999999999999999997 47788877
Q ss_pred Ee--eCceeeEEeEeeCCC
Q 008912 399 VI--EHGYPQQIGYWSNYS 415 (549)
Q Consensus 399 ~~--~~~~~~~VG~w~~~~ 415 (549)
+. .++.++.+|.|++..
T Consensus 372 ~~~~~~g~~~~~~~~~~~~ 390 (396)
T cd06373 372 MTDTETGTFEVVANYNGSN 390 (396)
T ss_pred ccCCCCceEEEEeeccccc
Confidence 63 345569999998754
No 29
>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=8.1e-44 Score=358.57 Aligned_cols=360 Identities=20% Similarity=0.370 Sum_probs=307.5
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||+++|++ +..|.....|+++|+++||+++++++|++|++++.|+++++..+++.+.+++.+ +|.+||||.+|..
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 599999997 345778899999999999999977689999999999999999999999999865 9999999999999
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC-cccchHHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QGRNGVTALGD 181 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~-~g~~~~~~l~~ 181 (549)
+.++++++..+++|+|+++++++.+++ ..+||+||+.|++..++.++++++++++|++++++++++. ||....+.+.+
T Consensus 81 ~~a~~~~~~~~~ip~Is~~~~~~~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~~v~ii~~~~~~~g~~~~~~~~~ 160 (389)
T cd06352 81 CAPVARLAAHWNIPMISWGCVALSLSDKSEYPTLTRTLPPARKLGEAVLALLRWFNWHVAVVVYSDDSENCFFTLEALEA 160 (389)
T ss_pred HHHHHHHHhcCCCCEecccccccccCccccCCceeecCCcHHHHHHHHHHHHHHcCceEEEEEEecCCccHHHHHHHHHH
Confidence 999999999999999999988888876 4789999999999999999999999999999999998887 89999999999
Q ss_pred HHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccC
Q 008912 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (549)
Q Consensus 182 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (549)
.+++.|++|.....++.. ....++..+++++++.. ++|++++...++..++++++++|+...+++||..+.+.....
T Consensus 161 ~~~~~G~~v~~~~~~~~~--~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~~~~g~~~~~~~~i~~~~~~~~~~ 237 (389)
T cd06352 161 ALREFNLTVSHVVFMEDN--SGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAAHDLGLTSGDYVFILIDLFNYSLP 237 (389)
T ss_pred HHHhcCCeEEEEEEecCC--ccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEEehhccccc
Confidence 999999999988877743 12578999999999887 999999999999999999999999878899999876654321
Q ss_pred C--------CCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCC--------CCCCchhhhHhHHHHHHHHHH
Q 008912 262 S--------KSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS--------IGLNPYGLYAYDTVWMIARAL 325 (549)
Q Consensus 262 ~--------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~--------~~~~~~~~~~yDav~~~a~Al 325 (549)
. .....+.......|++++.+..+..+.+++|.++|+++++.. ..+..+++.+||||+++++|+
T Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~a~~~YDav~~~a~Al 317 (389)
T cd06352 238 YQNSYPWERGDGDDEKAKEAYDAVLTITLRPPDNPEYEEFSEEVKEAAKRPPFNTDAEPEQVSPYAGYLYDAVLLYAHAL 317 (389)
T ss_pred cCCCCCcccCCcccHHHHHHHHhheEEEecCCCCchHHHHHHHHHHHHhcccCccCCCccccchhhhhHHHHHHHHHHHH
Confidence 1 011123445677888888887777788999999999887521 245678999999999999999
Q ss_pred HHHHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeC-ce
Q 008912 326 KLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEH-GY 404 (549)
Q Consensus 326 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~-~~ 404 (549)
+++..++.. |.++..+.+.|++++|.|++|++.||++|+| ...|.|+++++. +.
T Consensus 318 ~~~~~~~~~------------------------~~~~~~v~~~l~~~~f~g~~G~v~fd~~G~~-~~~~~v~~~~~~~~~ 372 (389)
T cd06352 318 NETLAEGGD------------------------YNGGLIITRRMWNRTFSGITGPVTIDENGDR-EGDYSLLDLDSTGGQ 372 (389)
T ss_pred HHHHHhCCC------------------------CCchHHHHHHhcCcEEEeeeeeEEEcCCCCe-eeeEEEEEecCCCce
Confidence 998765321 2247889999999999999999999999998 478999999864 55
Q ss_pred eeEEeEeeCCC
Q 008912 405 PQQIGYWSNYS 415 (549)
Q Consensus 405 ~~~VG~w~~~~ 415 (549)
+..++.++...
T Consensus 373 ~~~~~~~~~~~ 383 (389)
T cd06352 373 LEVVYLYDTSS 383 (389)
T ss_pred EEEEEeccccc
Confidence 58888887654
No 30
>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=7.8e-45 Score=350.16 Aligned_cols=323 Identities=20% Similarity=0.301 Sum_probs=262.2
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChH-HHHHHHHHHHhcCcEEEEcCCCchH-HH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGF-LSIMGALQFMETDTLAIVGPQSAVM-AH 105 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~-~a~~~~~~l~~~~v~aiiGp~~s~~-~~ 105 (549)
+||+||+..+..|...+.|+++|++++|++++++++.+|++++.|...++. .+..++|++++++|.|||||.+|.. +.
T Consensus 1 ~iG~i~d~~s~~G~~~~~a~~lAv~~iN~~~~~~~~~~l~~~~~d~~~d~~f~~~~~~~~~l~~gV~AIiGp~ss~~~~~ 80 (333)
T cd06394 1 RIAAILDDPMECGRGERLALALARERINRAPERLGKARVEVDIFELLRDSQYETTDTMCQILPKGVVSVLGPSSSPASSS 80 (333)
T ss_pred CceeeecCCccccHHHHHHHHHHHHHhccCccccCCceeEEEEeeccccChHHHHHHHHHHHhcCeEEEECCCCchHHHH
Confidence 489999999989999999999999999999999877799999999988664 8888999999999999999999965 67
Q ss_pred HHHHhhhhcCCcEEecccCC-CCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHh
Q 008912 106 VLSHLANELQVPLLSFTALD-PTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA 184 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~-~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~ 184 (549)
+++++|+..+||+|+++... +.+...+|++ +++.|++..++.|+++++++|+|++|++||+++++ +..|++.++
T Consensus 81 ~v~~i~~~~~VP~Is~~~~~~~~~~~~~~~~-i~l~P~~~~~~~Ai~dli~~~~W~~v~~iYe~d~~----l~~L~~~l~ 155 (333)
T cd06394 81 IVSHICGEKEIPHFKVGPEETPKLQYLRFAS-VNLHPSNEDISVAVAGILNSFNYPTASLICAKAEC----LLRLEELLR 155 (333)
T ss_pred HHHHHhhccCCceEEeccccCcccccccceE-EEecCCHHHHHHHHHHHHHhcCCCEEEEEEeCcHH----HHHHHHHHH
Confidence 99999999999999986432 2222233333 89999999999999999999999999999998874 566666666
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCC
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKS 264 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~ 264 (549)
.... ....++........+++.+|++|+++++++||++|+.+.+..++++|+++||+.+.|+|++++......+.
T Consensus 156 ~~~~---~~~~i~~~~~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa~~lGm~~~~y~~i~T~l~~~~~~L-- 230 (333)
T cd06394 156 QFLI---SKETLSVRMLDDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKASELGMTSAFYKYILTTMDFPLLRL-- 230 (333)
T ss_pred hhcc---cCCceeeEEccCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHHHHcCCCCCceEEEEecCCcccccH--
Confidence 5432 11112211112356899999999999999999999999999999999999999999999999887654443
Q ss_pred cCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCC--C----CCCchhhhHhHHHHHHHHHHHHHHhcCCCcccc
Q 008912 265 PLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS--I----GLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (549)
Q Consensus 265 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~--~----~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~ 338 (549)
.+......++++|+..+++.+..++|.+.|++.+.+. . .....++++||||+++
T Consensus 231 ---~~~~~~~~niTgF~l~d~~~~~v~~f~~~~~~~~~~~~~~~~~~~~~~~~al~~D~v~~~----------------- 290 (333)
T cd06394 231 ---DSIVDDRSNILGFSMFNQSHAFYQEFIRSLNQSWRENCDHSPYTGPALSSALLFDAVYAV----------------- 290 (333)
T ss_pred ---HHhhcCCcceEEEEeecCCcHHHHHHHHHHHHhhhhhcccccCCCcccceeeecceEEEE-----------------
Confidence 2333446678999999999999999999888755211 1 1123455555555442
Q ss_pred CCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeCceeeEEeEeeCCCCCc
Q 008912 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLS 418 (549)
Q Consensus 339 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~~VG~w~~~~~l~ 418 (549)
|+||+|.||++|+|++..++|+++..+|. ++||.|++..||+
T Consensus 291 -------------------------------------glTg~i~f~~~g~R~~~~l~v~~l~~~g~-~kig~W~~~~gl~ 332 (333)
T cd06394 291 -------------------------------------GLTGRIEFNSKGQRSNYTLKILQKTRSGF-RQIGQWHSNETLS 332 (333)
T ss_pred -------------------------------------eeecceecCCCCcCcccEEEEEEecCCcc-eEEEEEeCCCCcC
Confidence 89999999999999999999999998898 9999999998874
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=2.1e-43 Score=352.05 Aligned_cols=343 Identities=19% Similarity=0.278 Sum_probs=277.0
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~ 104 (549)
+||++.|++ +..|...+.|+++|+++||+++++++|++|++++.|++|++..++..+..+ .++|.+||||.||..+
T Consensus 1 ~ig~~~p~sg~~~~~g~~~~~a~~lAie~iN~~g~il~g~~l~~~~~d~~~~~~~a~~~~~~~-~~~V~aviGp~~S~~~ 79 (382)
T cd06371 1 KVGVLGPWSCDPIFSKALPDVAARLAVSRINRDPSLSLGYWFDYVLLPEPCETSRALAAFLGY-EGYASAFVGPVNPGYC 79 (382)
T ss_pred CceEecCcccCchhhhhhHHHHHHHHHHHHhCCCCCCCCceEEEEEecCCCChhHHHHHHHcc-cCCceEEECCCCchHH
Confidence 589999986 344667889999999999999999889999999999999887666443332 4699999999999999
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHH
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~ 183 (549)
.+++++++.++||+|+++++++.+++ ..||+|+|+.|++ +.++++++++|+|++|++|+++++++....+.+.+.+
T Consensus 80 ~a~a~va~~~~iP~Is~~a~~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~~~~~~~~~~~~l~~~l 156 (382)
T cd06371 80 EAAALLAKEWDKALFSWGCVNYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSSPQDIWVETAQKLASAL 156 (382)
T ss_pred HHHHHHHHhcCceEEecccCchhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEecccchHHHHHHHHHHH
Confidence 99999999999999999999999987 5799999999876 4678899999999999999999999988999999999
Q ss_pred hhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC-CeEEEEEcch-----HHHHHHHHHHHHcCCCCCCeEEEEeCCcc
Q 008912 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMME-ARVIVVHGYS-----RTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (549)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~-----~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 257 (549)
++.|++|+....++.. ..++..+|++||+.+ +|+||+++.. .....++++|+++||+..+|+||.++...
T Consensus 157 ~~~gi~v~~~~~~~~~----~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~~y~~i~~d~~~ 232 (382)
T cd06371 157 RAHGLPVGLVTSMGPD----EKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDGRYVFIPYDTLL 232 (382)
T ss_pred HHCCCcEEEEEEecCC----HHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCCcEEEEEecccc
Confidence 9999999987777644 679999999999987 6999987765 67789999999999999999999988432
Q ss_pred ccc-----CCCC-cCChhhHhhccceEEEeEecCCChhHHHHHHHHHhh-cC---CCCCCCchhhhHhHHHHHHHHHHHH
Q 008912 258 TFI-----DSKS-PLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL-SN---GSIGLNPYGLYAYDTVWMIARALKL 327 (549)
Q Consensus 258 ~~~-----~~~~-~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~-~~---~~~~~~~~~~~~yDav~~~a~Al~~ 327 (549)
... .... ..+.....+..+++.+....+..+..+.|.+.|+.. ++ .......+++++|||++++|+|+++
T Consensus 233 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~YDav~~~a~Al~~ 312 (382)
T cd06371 233 YSLPYRNVSYPALRNNSKLRRAYDAVLTITMDSGEQSFYEAFRAAQERGEIPSDLEPEQVSPLFGTIYNSIYLLAHAVEN 312 (382)
T ss_pred ccCCCCCccccCCCCCHHHHHHhHhhEEEEecCCCCcHHHHHHHHHhcCCCCCCCCccccchhHHHHHHHHHHHHHHHHH
Confidence 110 0000 012334457788877766544445556666655321 11 1112345566789999999999999
Q ss_pred HHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeCce
Q 008912 328 FLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGY 404 (549)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~ 404 (549)
+++.+.. .++.++.++|++++|+|++|+|.||++|++ ...|.|+++++.+.
T Consensus 313 a~~~g~~-------------------------~d~~~l~~~l~~~~f~GvtG~v~fd~~g~~-~~~~~v~~~~~~~~ 363 (382)
T cd06371 313 ARAAGGG-------------------------VSGANLAQHTRNLEFQGFNQRLRTDSGGGG-QAPYVVLDTDGKGD 363 (382)
T ss_pred HHHhCCC-------------------------ccHHHHHHHHhCccccccceEEEecCCCCc-ccceEEEecCCCCC
Confidence 8765322 148899999999999999999999999997 69999999998665
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=1.3e-42 Score=349.55 Aligned_cols=357 Identities=15% Similarity=0.217 Sum_probs=280.4
Q ss_pred EEEEEeccCCC---Cc-hHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCCh----HHHHHHHHHH-HhcCcEEEEcC
Q 008912 28 NVGAIFSFGTV---NG-QVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNG----FLSIMGALQF-METDTLAIVGP 98 (549)
Q Consensus 28 ~IG~l~~~~~~---~g-~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~----~~a~~~~~~l-~~~~v~aiiGp 98 (549)
+||+++|.+.. .+ .....|+++|+|+||+++++++|++|++.++|+++++ ..+...+..+ +.+++.+||||
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 47888886522 11 3457899999999999999888999999999986553 3333223222 34688999999
Q ss_pred CCchHHHHHHHhhhhcCCcEEecccCCCCCCC--CCCCceEEccCCcHHHHHHHHHHHHHcCCc-EEEEEEecCCccc--
Q 008912 99 QSAVMAHVLSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWG-EVIAIFNDDDQGR-- 173 (549)
Q Consensus 99 ~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~--~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~-~v~ii~~~~~~g~-- 173 (549)
.||..+.+++++++.++||+|+++++++.+++ ..||++||+.|++..++.++..++++|+|+ ++++||.++..+.
T Consensus 81 ~~S~~~~av~~i~~~~~iP~Is~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaiiy~~~~~~~~~ 160 (399)
T cd06384 81 GCVYPTASVARFATHWRLPLITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALLYLDLKTDDRP 160 (399)
T ss_pred CCchHHHHHHHHHhhcCCcEEeeccchhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEEEecCCccCCc
Confidence 99999999999999999999999999888886 378999999999999999999999999999 6889986542221
Q ss_pred --chHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 174 --NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 174 --~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
...+.+.+.+++.|++|+....+.. ...++..+|++++. ++|+|++++....+..++++|+++||..++|+||
T Consensus 161 ~~~~~~~~~~~~~~~gi~v~~~~~~~~----~~~d~~~~l~~ik~-~~~vIi~~~~~~~~~~i~~qa~~~g~~~~~y~~i 235 (399)
T cd06384 161 HYFISEGVFLALQEENANVSAHPYHIE----KNSDIIEIIQFIKQ-NGRIVYICGPLETFLEIMLQAQREGLTPGDYVFF 235 (399)
T ss_pred ceEehHHHHHHHHhcCceEEEEEEecc----chhhHHHHHHHHhh-cccEEEEeCCchHHHHHHHHHHHcCCCCCcEEEE
Confidence 1356677788889999987655443 36789999999996 8999999999999999999999999999999999
Q ss_pred EeCCcccccC------C----CCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhh----cCCCCCC---CchhhhH
Q 008912 252 ATTWLSTFID------S----KSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTL----SNGSIGL---NPYGLYA 314 (549)
Q Consensus 252 ~~~~~~~~~~------~----~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~----~~~~~~~---~~~~~~~ 314 (549)
..++....+. . .+...+...+++++++.+....+..+.+++|.++|+++ ++....+ +.+++++
T Consensus 236 ~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~p~~~~~~aa~~ 315 (399)
T cd06384 236 YLDVFGESLRVKSPRESYKQMNHSSWTVLKEAFKSVFVITYREPENPEYKEFQRELHARAKEDFGVELEPSLMNFIAGCF 315 (399)
T ss_pred EehhcccccccCCCCccccCCCCcccHHHHHHHhheEEeecCCCCCchHHHHHHHHHHHHhhhcCCCcCcchHhhhhhhh
Confidence 8875442211 0 00001344567888988888887778899999999874 4432223 5668899
Q ss_pred hHHHHHHHHHHHHHHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCce
Q 008912 315 YDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSY 394 (549)
Q Consensus 315 yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~ 394 (549)
||||+++|.|++++++.++ .|.++..|.++|++++|+|++|++.||++|+| ...|
T Consensus 316 YDav~l~a~Al~~~~~~~~------------------------~~~~g~~i~~~l~~~~f~GvtG~v~fd~~G~r-~~~~ 370 (399)
T cd06384 316 YDGVMLYAMALNETLAEGG------------------------SQKDGLNITRKMQDRRFWGVTGLVSIDKNNDR-DIDF 370 (399)
T ss_pred HHHHHHHHHHHHHHHhcCC------------------------CCCCcHhHHHHHhCceeecceeEEEECCCCCc-ccce
Confidence 9999999999999865432 24358899999999999999999999999998 4677
Q ss_pred EEEEE---eeCceeeEEeEeeCCC
Q 008912 395 DIINV---IEHGYPQQIGYWSNYS 415 (549)
Q Consensus 395 ~I~~~---~~~~~~~~VG~w~~~~ 415 (549)
.++.+ +++. ++.||.|+..+
T Consensus 371 ~~~~~~~~~~g~-~~~v~~~~~~~ 393 (399)
T cd06384 371 DLWAMTDHETGK-YEVVAHYNGIT 393 (399)
T ss_pred EEEEeecCCCCe-EEEEEEEcCCC
Confidence 77444 4444 59999998754
No 33
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=100.00 E-value=1.6e-43 Score=347.55 Aligned_cols=316 Identities=22% Similarity=0.350 Sum_probs=266.9
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCC-CChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK-FNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~-~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
+||++|++ ..|...++|+++|+++||+++++++|++|++.+.|++ +++..+++.+|++++++|.+||||.+|..+.+
T Consensus 1 ~iG~i~~~--~~g~~~~~a~~lAv~~iN~~ggil~g~~l~~~~~d~~~~~~~~a~~~~~~li~~~V~aiiG~~~S~~~~a 78 (327)
T cd06382 1 RIGAIFDD--DDDSGEELAFRYAIDRINREKELLANTTLEYDIKRVKPDDSFETTKKVCDLLQQGVAAIFGPSSSEASSI 78 (327)
T ss_pred CeEEEecC--CCchHHHHHHHHHHHHhcccccccCCceEEEEEEEecCCCcHHHHHHhhhhhhcCcEEEECCCChhHHHH
Confidence 59999997 4578899999999999999999999999999999998 89999999999999889999999999999999
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhc
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI 186 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~ 186 (549)
++++++.+++|+|+++++++.++ .++++||+.|++..++.++++++++++|++|+++|++++++ ..+.+.+++.
T Consensus 79 v~~~~~~~~vP~Is~~~~~~~~~--~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~----~~l~~~~~~~ 152 (327)
T cd06382 79 VQSICDAKEIPHIQTRWDPEPKS--NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGL----LRLQELLQAF 152 (327)
T ss_pred HHHHHhccCCCceeccCCcCccc--cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHH----HHHHHHHHhh
Confidence 99999999999999887777665 45789999999999999999999999999999999887643 4455556555
Q ss_pred Ce---EEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCC
Q 008912 187 RC---KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (549)
Q Consensus 187 g~---~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (549)
+. .+.. ..+++. . +++.+|.+|+++++++|++++...++..++++|+++||..+.|+|++++......+..
T Consensus 153 ~~~g~~v~~-~~~~~~----~-d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa~~~g~~~~~~~~i~~~~~~~~~~l~ 226 (327)
T cd06382 153 GISGITITV-RQLDDD----L-DYRPLLKEIKNSGDNRIIIDCSADILIELLKQAQQVGMMSEYYHYIITNLDLHTLDLE 226 (327)
T ss_pred ccCCCeEEE-EEccCC----c-cHHHHHHHHHhcCceEEEEECCHHHHHHHHHHHHHhCccccceEEEEecCCccccchh
Confidence 54 4444 345543 4 8999999999999999999999999999999999999999999999988755443331
Q ss_pred CcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCC------CCCCchhhhHhHHHHHHHHHHHHHHhcCCCccc
Q 008912 264 SPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISF 337 (549)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~ 337 (549)
.......++++++...++.+.+++|.+.|+++++.. ..+..+++.+|||++++
T Consensus 227 -----~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~~a~~yDav~~~---------------- 285 (327)
T cd06382 227 -----DYRYSGVNITGFRLVDPDSPEVKEVIRSLELSWDEGCRILPSTGVTTESALMYDAVYLF---------------- 285 (327)
T ss_pred -----hhccCceeEEEEEEecCCchhHHHHHHHHHhhcccccccCCCCCcchhhhhhhceEEEe----------------
Confidence 122234467888888888889999999999988631 12556667777776653
Q ss_pred cCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeCceeeEEeEeeCCCCC
Q 008912 338 SNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGL 417 (549)
Q Consensus 338 ~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~~VG~w~~~~~l 417 (549)
|+||+|.||++|+|.+..|+|++++++++ ++||.|++..||
T Consensus 286 --------------------------------------g~tG~v~f~~~g~r~~~~~~~~~~~~~~~-~~vg~w~~~~~~ 326 (327)
T cd06382 286 --------------------------------------GLTGRIEFDSSGQRSNFTLDVIELTESGL-RKVGTWNSSEGL 326 (327)
T ss_pred --------------------------------------ecccceeeCCCCCEeeeEEEEEeccccCc-eEEEEECCCCCc
Confidence 88999999999999999999999997777 999999987764
No 34
>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure [].; PDB: 3SAJ_D 3Q41_B 3QEM_C 3QEK_A 3QEL_C 3MQ4_A 3QLV_G 3OM1_A 3QLU_A 3OM0_A ....
Probab=100.00 E-value=5.4e-42 Score=340.82 Aligned_cols=334 Identities=26% Similarity=0.468 Sum_probs=278.1
Q ss_pred HHHHHHHHHHHHHcCCCCCCCceEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 43 SRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF-NGFLSIMGALQFMETDTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 43 ~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~-~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
+..|+++|+++||++++++++++|++.+.|+|+ +........|.+..++|.+||||.|+..+.+++.+++.++||+|++
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 578999999999999999999999999999984 4555555556666679999999999999999999999999999999
Q ss_pred ccCCCCCCC-C-CCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcC-eEEEEEEccCC
Q 008912 122 TALDPTLSP-L-QYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIR-CKISYKSALPP 198 (549)
Q Consensus 122 ~~~~~~ls~-~-~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g-~~v~~~~~~~~ 198 (549)
+++++.+++ + .||+++|+.|++..+++++++++++|+|++|++||+++.+|....+.+.+.+++.+ .++......+.
T Consensus 82 ~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 161 (348)
T PF01094_consen 82 GSTSPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYSDDDYGNSLADSFQDLLRERGGICVAFISVVIS 161 (348)
T ss_dssp SGGSGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEESSHHHHHHHHHHHHHHHHHTTCEEEEEEEEET
T ss_pred cccccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeeccccccccccchhhhhhhcccccceecccccccc
Confidence 999999988 4 79999999999999999999999999999999999999998889999999999865 45544122222
Q ss_pred CCCCChhhHHHHHHHHhc--CCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccc
Q 008912 199 DQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILG 276 (549)
Q Consensus 199 ~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g 276 (549)
...+....++.+++ .++++||++++...+..++++|.++||...+|+||.++.+....... .........|
T Consensus 162 ----~~~~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a~~~~~~~~~~~~i~~~~~~~~~~~~---~~~~~~~~~~ 234 (348)
T PF01094_consen 162 ----SDSDAEELLKKLKEIKSGARVVILCSSPEDARQFLEAAYELGMTSGDYVWILTDLDNSSFWQN---NEDFREAFQG 234 (348)
T ss_dssp ----TTSHHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHHHHTTTSSTTSEEEEETTTTTTHTST---HCHHHCCHTT
T ss_pred ----cccchhhhhhhhhhccccceeeeeecccccccccccchhhhhccccceeEEeecccccccccc---cccccccccc
Confidence 23344555555555 89999999999999999999999999999999999999876543111 1355678899
Q ss_pred eEEEeEecCCChhHHHHHHHHHhhc------CCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCccccCCCCCc
Q 008912 277 ALTLRQHTPDSKRRRDFVSRWNTLS------NGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGT 350 (549)
Q Consensus 277 ~~~~~~~~~~~~~~~~f~~~~~~~~------~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (549)
+++++...+..+.+++|.+.|+... .....+..+++++||||+++++|++++.++++....
T Consensus 235 ~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~yDAv~~~a~al~~~~~~~~~~~~------------- 301 (348)
T PF01094_consen 235 VLGFTPPPPSSPEFEDFMKKWKESNNQSSTSGSDQEPSPYAAYAYDAVYLLAHALNRALQDGGPVTN------------- 301 (348)
T ss_dssp EEEEEESTTTSHHHHHHHHHHHTTTHTTTTTTTTSSGCHHHHHHHHHHHHHHHHHHHHHHHHSTTTS-------------
T ss_pred eeeeeeecccccchhhhhcccChhhccCcccccccccceeeeeehhhhHHHHHHHHHHHHhccCCCC-------------
Confidence 9999999888999999999998642 123456788999999999999999999876543210
Q ss_pred cccCCccccCchHHHHHHHHhccccccceeeEEcc-CCCCCCCceEEEEEe
Q 008912 351 LNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQ-DRSLLHPSYDIINVI 400 (549)
Q Consensus 351 ~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~-~g~r~~~~~~I~~~~ 400 (549)
....|.+|..+.++|++++|+|++|++.||+ +|+|.+..|+|+++|
T Consensus 302 ----~~~~~~~g~~l~~~l~~~~f~G~tG~v~f~~~~G~~~~~~~~i~~~~ 348 (348)
T PF01094_consen 302 ----GRNPWQNGSQLLKYLRNVSFEGLTGRVSFDSNDGDRTNYDYDILNMQ 348 (348)
T ss_dssp ----SSGTSTTHHHHHHHHHTEEEEETTEEEEEETTTSBEESEEEEEEEE-
T ss_pred ----CccccccHHHHHHHHhheeeeCCCCCEEEeCCCCCcCCCEEEEEECC
Confidence 1145778999999999999999999999999 999989999999875
No 35
>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=6.5e-40 Score=321.95 Aligned_cols=316 Identities=22% Similarity=0.359 Sum_probs=265.1
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecC-CCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDA-KFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~-~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
+||++|+.++ .....|+++|+++||++++++++.+|++.+.|+ .+++..+++.+|+++.++|.+||||.+|..+.+
T Consensus 1 ~iG~i~~~~~---~~~~~a~~lAv~~iN~~ggil~~~~l~~~~~d~~~~~~~~a~~~a~~li~~~V~aiiG~~~S~~~~a 77 (324)
T cd06368 1 RIGAIFDEDA---RQEELAFRFAIDRINTNEEILAKFTLVPDIDELNTNDSFELTNKACDLLSQGVAAIFGPSSSSSANT 77 (324)
T ss_pred CEEEEeCCCC---hHHHHHHHHHHHHhcccccccCCceeeeEEEEecCCChHHHHHHHHHHHhcCcEEEECCCCHHHHHH
Confidence 5999999986 678899999999999999999778999999997 489999999999999999999999999999999
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhc
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI 186 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~ 186 (549)
++++++.++||+|+++++++.++. ++.+++.|+...++.++++++++++|++|++||+++. +...++.+.+.+++.
T Consensus 78 v~~i~~~~~ip~is~~~~~~~~~~---~~~~~~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~-~~~~l~~~~~~~~~~ 153 (324)
T cd06368 78 VQSICDALEIPHITTSWSPNPKPR---QFTINLYPSMRDLSDALLDLIKYFGWRKFVYIYDSDE-GLLRLQELLDALSPK 153 (324)
T ss_pred HHHHHhccCCCcEEecCCcCCCCC---cceEEecCCHHHHHHHHHHHHHhcCCCEEEEEECCcH-hHHHHHHHHHhhccC
Confidence 999999999999999888877652 3445556777789999999999999999999997765 445567777778888
Q ss_pred CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcC
Q 008912 187 RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPL 266 (549)
Q Consensus 187 g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~ 266 (549)
|++|......+ . .++++.+|.++++.++++||+.+...++..++++++++||..+.|+||+++......+.
T Consensus 154 g~~v~~~~~~~-~----~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa~~~g~~~~~~~~i~~~~~~~~~~~---- 224 (324)
T cd06368 154 GIQVTVRRLDD-D----TDMYRPLLKEIKREKERRIILDCSPERLKEFLEQAVEVGMMSEYYHYILTNLDFHTLDL---- 224 (324)
T ss_pred CceEEEEEecC-C----chHHHHHHHHHhhccCceEEEECCHHHHHHHHHHHHHhccccCCcEEEEccCCccccch----
Confidence 99988765433 2 23899999999999999999999999999999999999998899999998765432221
Q ss_pred ChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCC------CCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCC
Q 008912 267 SLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGS------IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (549)
Q Consensus 267 ~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~------~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~ 340 (549)
........++.++....+..+..++|.++|++.++.. ..+..+++.+||||+++
T Consensus 225 -~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~p~~~aa~~yDav~~~------------------- 284 (324)
T cd06368 225 -ELFRYGGVNITGFRLVDPDNPEVQKFIQRWERSDHRICPGSGLKPIKTESALTYDAVLLF------------------- 284 (324)
T ss_pred -hhhhcCCceEEEEEEecCCChHHHHHHHHHHhccccccCCCCCCCcchhhHhhhcEEEEe-------------------
Confidence 1222344466777777778889999999999988631 25677788888888764
Q ss_pred ccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeCceeeEEeEeeCCCCC
Q 008912 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGL 417 (549)
Q Consensus 341 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~~VG~w~~~~~l 417 (549)
||+++||++|+|.++.++|+++.+++. ++||.|++..|+
T Consensus 285 -------------------------------------tg~~~f~~~g~~~~~~~~i~~~~~~~~-~~~g~W~~~~~~ 323 (324)
T cd06368 285 -------------------------------------TGRIQFDENGQRSNFTLDILELKEGGL-RKVGTWNPEDGL 323 (324)
T ss_pred -------------------------------------eeeeEeCCCCcCcceEEEEEEEcCCCc-eEEEEECCCCCC
Confidence 789999999999999999999998888 999999987653
No 36
>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=3.8e-39 Score=316.51 Aligned_cols=332 Identities=16% Similarity=0.186 Sum_probs=251.0
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
+||+||+.++.. ....-++.+|++++|+++++ .+..+.++.+|+.+|+.+++.++|++++++|.|||||.+|..+.++
T Consensus 1 ~IG~if~~~~~~-~~~af~~ala~~~iN~~gg~-~~~~i~~v~~dd~~d~~~a~~~~c~Li~~gV~AI~G~~~s~~~~av 78 (363)
T cd06381 1 HIGAIFSESALE-DDEVFAVAVIDLNINEQILQ-TEKITLSISFIDLNNHFDAVQEACDLMNQGILALVTSTGCASAIAL 78 (363)
T ss_pred CeeeeccCCcch-HHHHHHHHHHHhhccccccC-CccceeeeEeecCCChHHHHHHHHHHHhcCcEEEEecCChhHHHHH
Confidence 599999987532 23333344444566777765 4677888889999999999999999999999999999999999999
Q ss_pred HHhhhhcCCcEEecccCC---C-----CCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHH
Q 008912 108 SHLANELQVPLLSFTALD---P-----TLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTA 178 (549)
Q Consensus 108 a~~~~~~~iP~Is~~~~~---~-----~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~ 178 (549)
+++++..+||+|++.+.. + .+.+ ...+|.|++.|++ .+..++++++++|+|++|+++|++++ |...++.
T Consensus 79 ~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai~~lv~~~~wkkvavly~~d~-g~~~l~~ 156 (363)
T cd06381 79 QSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVMLRLVTEWRWQKFVYFYDNDY-DIRGLQE 156 (363)
T ss_pred HHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHHHHHHHhCCCeEEEEEEECCc-hHHHHHH
Confidence 999999999999965321 1 1111 1234666677774 68999999999999999999998775 6667788
Q ss_pred HHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHH-----h--cCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKV-----R--MMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 179 l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l-----~--~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
+.+.+++.|+.+.... ...+ ....+..+++.+ + ..+.++||++|+++.+..++++|.++||+..+|+||
T Consensus 157 ~~~~~~~~g~~v~~~~-~~~~---~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~~~~~~~l~~a~~~gm~~~~~~wi 232 (363)
T cd06381 157 FLDQLSRQGIDVLLQK-VDLN---ISKMATALFTTMRCEELNRYRDTLRRALLLLSPNGAYTFIDASVETNLAIKDSHWF 232 (363)
T ss_pred HHHHHHhcCceEEEEe-cccc---cchhhhhhhhHHHHHHHHhhcccceEEEEEcCcHHHHHHHHHHHHcCCCcCceEEE
Confidence 8888888888666432 2211 122233333333 2 445668899999999999999999999999999999
Q ss_pred EeCCcccc-cCCCCcCChhhHhhccceEEEeEecCCChhHH----HHHHHHHhhcCC----CCCCCchhhhHhHHHHHHH
Q 008912 252 ATTWLSTF-IDSKSPLSLKTAKSILGALTLRQHTPDSKRRR----DFVSRWNTLSNG----SIGLNPYGLYAYDTVWMIA 322 (549)
Q Consensus 252 ~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~----~f~~~~~~~~~~----~~~~~~~~~~~yDav~~~a 322 (549)
+++.+... .+. +.......|+++|+...+..+..+ +|.+.|+..... ...+...++++||||+++
T Consensus 233 ~~~~l~~~~~~l-----~~~~~~~~nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~yDaV~~~- 306 (363)
T cd06381 233 LINEEISDTEID-----ELVRYAHGRMTVIRQTFSKEKTNQRCLRNNHRISSLLCDPKDGYLQMLEISNLYIYDSVLLL- 306 (363)
T ss_pred Eeccccccchhh-----HHHhhcCccEEEEEEecCCcCchHHHHHHHHHHHHhhcCCCCCCCCChhHHHHHHHHHHHHH-
Confidence 87765542 222 345678899999999987766665 566667543321 123456799999999998
Q ss_pred HHHHHHHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeC
Q 008912 323 RALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEH 402 (549)
Q Consensus 323 ~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~ 402 (549)
.++|++++|+|+||+|.||++|.|.++.++|+++..+
T Consensus 307 -------------------------------------------~~~~~~~~~~GLTG~i~F~~~g~r~~~~l~i~~~~~~ 343 (363)
T cd06381 307 -------------------------------------------LETIKKGPITGLTGKLEFNEGGDNSNVQFEILGTGYS 343 (363)
T ss_pred -------------------------------------------HHHHHhcCccCcceeEEeCCCCCccccEEEEEEeccC
Confidence 1347778899999999999999999999999999844
Q ss_pred c-----eeeEEeEeeCCCCC
Q 008912 403 G-----YPQQIGYWSNYSGL 417 (549)
Q Consensus 403 ~-----~~~~VG~w~~~~~l 417 (549)
+ . +.||.|++..||
T Consensus 344 ~~~~~~~-~~~~~w~~~~~~ 362 (363)
T cd06381 344 ETLGKDG-RWLATWNPSKGL 362 (363)
T ss_pred Cccccce-EEeeeccCCCCC
Confidence 4 5 889999988765
No 37
>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=6.2e-38 Score=301.81 Aligned_cols=344 Identities=17% Similarity=0.157 Sum_probs=251.7
Q ss_pred CCCceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCC-CChHHHHHHHHHH-HhcCcEEEEcC-
Q 008912 22 LKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK-FNGFLSIMGALQF-METDTLAIVGP- 98 (549)
Q Consensus 22 ~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~-~~~~~a~~~~~~l-~~~~v~aiiGp- 98 (549)
..++.|+||++|+.. ...+.||++|++.+|.+..++++.+|++++.... .|++.+.+.+|++ +++||.||+||
T Consensus 14 ~~~~~i~iG~if~~~----~~~~~af~~Av~~~N~~~~l~~~~~L~~~~~~~~~~dsf~~~~~vC~~ll~~GV~AIfg~p 89 (382)
T cd06377 14 RIGHTVRLGALLVRA----PAPRDRVLAALARANRAPLLPYNLSLEVVAAAAPSRDPASLLRSVCQTVVVQGVSALLAFP 89 (382)
T ss_pred hcCCceeeeEEecCC----chHHHHHHHHHHHhccccccccCceeEEeEEEcCCCChHHHHHHHHHhHhhCCeEEEEecC
Confidence 456689999999976 2479999999999999988888899999887654 5999999999999 59999999994
Q ss_pred CCchHHHHHHHhhhhcCCcEEecccCCCCC-CCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHH
Q 008912 99 QSAVMAHVLSHLANELQVPLLSFTALDPTL-SPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVT 177 (549)
Q Consensus 99 ~~s~~~~~va~~~~~~~iP~Is~~~~~~~l-s~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~ 177 (549)
.++..+..+..+|+.++||+|++...++.. ++..+.+.+++.|+...++.|++++|++|+|++|++||+.+. | ..
T Consensus 90 ~s~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~-g---l~ 165 (382)
T cd06377 90 QTRPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRER-D---PT 165 (382)
T ss_pred CCHHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCc-C---HH
Confidence 777888999999999999999985544333 223333445679999999999999999999999999998876 3 33
Q ss_pred HHHHHHhhcC---e-EEEEEEccCCCCCCChhhH-HHHHHHHhcCC-CeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 178 ALGDKLAEIR---C-KISYKSALPPDQSVTETDV-RNELVKVRMME-ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 178 ~l~~~~~~~g---~-~v~~~~~~~~~~~~~~~~~-~~~l~~l~~~~-~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
.|++.++..+ + .+......+... .+..++ +.+|+++++.. +++|+++|+.+.+..+|+++.+ .|+||
T Consensus 166 ~lq~l~~~~~~~~~~~~i~v~~~~~~~-~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il~~~~~------~y~wI 238 (382)
T cd06377 166 GLLLLWTNHARFHLGSVLNLSRNDPST-ADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVLELTPP------GPHWI 238 (382)
T ss_pred HHHHHHHHhcccccCceEEEEeccCcc-CChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHHHhhcc------ceEEE
Confidence 3444444332 1 122222233210 023344 99999999999 9999999999999999988744 49999
Q ss_pred EeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhc
Q 008912 252 ATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQ 331 (549)
Q Consensus 252 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~ 331 (549)
+++.. +... ......-.|+++.. . .......+++||||+++|+|++.+...
T Consensus 239 v~~~~----~le~---~~~~g~nigLl~~~--~--------------------~~~~~l~ali~DAV~lvA~a~~~l~~~ 289 (382)
T cd06377 239 LGDPL----PPEA---LRTEGLPPGLLAHG--E--------------------TTQPPLEAYVQDALELVARAVGSATLV 289 (382)
T ss_pred EcCCc----Chhh---ccCCCCCceEEEEe--e--------------------cccccHHHHHHHHHHHHHHHHHHhhhc
Confidence 98721 1100 00011222333210 0 001123789999999999999986321
Q ss_pred CCCccccCCccccCCCCCccccCCc--c-ccCchHHHHHHHHhccccccceeeEEccCCCC--CCCceEEEEEe--eC--
Q 008912 332 GNTISFSNDTKLNGLGGGTLNLGAL--S-IFDGGKKFLANILQTNMTGLSGPIHFNQDRSL--LHPSYDIINVI--EH-- 402 (549)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~c~~~--~-~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r--~~~~~~I~~~~--~~-- 402 (549)
..... ...+..+|... . +|.+|..|.++|++++|+|.||+|.|+ .|.| +++.++|++++ ..
T Consensus 290 ~~~~~---------l~~~~~~C~~~~~~~~W~~G~~l~~~Lknv~~eGlTG~I~F~-~g~R~~~~~~l~I~~L~~~~~G~ 359 (382)
T cd06377 290 QPELA---------LIPATVNCMDLPTKGNESSGQYLARFLANTSFDGRTGPVWVT-GSSQVHSSRHFKVWSLRRDPVGQ 359 (382)
T ss_pred ccccc---------cCCCCCCcccCCCCCCCCchHHHHHHHHhCcccccceeEEEc-cCeeecccceEEEEEeccccCCC
Confidence 11111 12234688754 5 899999999999999999999999994 5778 78999999998 32
Q ss_pred ceeeEEeEeeCCCCCcc
Q 008912 403 GYPQQIGYWSNYSGLSV 419 (549)
Q Consensus 403 ~~~~~VG~w~~~~~l~~ 419 (549)
..|++||+|++...+.|
T Consensus 360 ~~W~kVG~W~~~~~~~~ 376 (382)
T cd06377 360 PTWTTVGSWQGGRKIVM 376 (382)
T ss_pred ccceEEEEecCCCceec
Confidence 35799999998654544
No 38
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=100.00 E-value=4.6e-38 Score=312.07 Aligned_cols=340 Identities=12% Similarity=0.154 Sum_probs=286.9
Q ss_pred CCCCceEEEEEEeccCC---CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc
Q 008912 21 ALKPEVLNVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG 97 (549)
Q Consensus 21 ~~~~~~i~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG 97 (549)
....++|+||++.|++. ..|.....++++|+++||+.+|+. |++|++++.|++++|..+.+.+.++++++|.+|||
T Consensus 20 ~~~~~~I~IG~l~plSG~~a~~G~~~~~g~~~av~~iNa~GGi~-G~~ielv~~D~~~~p~~a~~~~~~Li~~~V~~iiG 98 (369)
T PRK15404 20 AALADDIKIAIVGPMSGPVAQYGDMEFTGARQAIEDINAKGGIK-GDKLEGVEYDDACDPKQAVAVANKVVNDGIKYVIG 98 (369)
T ss_pred cccCCceEEEEeecCCCcchhcCHhHHHHHHHHHHHHHhcCCCC-CeEEEEEeecCCCCHHHHHHHHHHHHhCCceEEEc
Confidence 45667999999999984 457888999999999999999985 89999999999999999999999999989999999
Q ss_pred CCCchHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHH-HHcCCcEEEEEEecCCcccchH
Q 008912 98 PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRNGV 176 (549)
Q Consensus 98 p~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l-~~~~W~~v~ii~~~~~~g~~~~ 176 (549)
+.+|..+.+++++++..++|+|++.++++.+++..++|+||+.|.+..++.++++++ ++++|+++++|++++.||+...
T Consensus 99 ~~~s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g~~~~ 178 (369)
T PRK15404 99 HLCSSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYGEGLA 178 (369)
T ss_pred CCCchhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchhHHHH
Confidence 999999999999999999999999888888877668999999999999999999976 4569999999999999999999
Q ss_pred HHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCc
Q 008912 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWL 256 (549)
Q Consensus 177 ~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 256 (549)
+.+.+.+++.|++++....++.. ..|+..++.++++.++++|++.....+...++++++++|+.. .|+.+.+.
T Consensus 179 ~~~~~~~~~~G~~v~~~~~~~~g----~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~~~~G~~~---~~i~~~~~ 251 (369)
T PRK15404 179 RSVKDGLKKAGANVVFFEGITAG----DKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQAREAGLKT---QFMGPEGV 251 (369)
T ss_pred HHHHHHHHHcCCEEEEEEeeCCC----CCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHHHHCCCCC---eEEecCcC
Confidence 99999999999999988778754 678999999999999999998877788899999999999753 46766543
Q ss_pred ccccCCCCcCChhhHhhccceEEEeEe-cCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCc
Q 008912 257 STFIDSKSPLSLKTAKSILGALTLRQH-TPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTI 335 (549)
Q Consensus 257 ~~~~~~~~~~~~~~~~~~~g~~~~~~~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~ 335 (549)
.... .. ........|++...+. ....+..++|.+.|+++++ ..+..++...||++++++.|++++..
T Consensus 252 ~~~~-~~----~~~~~~~~Gv~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~Y~~~~~l~~Al~~aG~----- 319 (369)
T PRK15404 252 GNKS-LS----NIAGPASEGMLVTLPKRYDQDPANKAIVDAFKAKKQ--DPSGPFVWTTYAAVQSLAAGINRAGS----- 319 (369)
T ss_pred CCHH-HH----HhhhhhhcCcEEEccCCCccChhHHHHHHHHHHhcC--CCCccchHHHHHHHHHHHHHHHhhCC-----
Confidence 2210 00 1122456777765442 2345678899999998764 34455678899999999999998521
Q ss_pred cccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeCce
Q 008912 336 SFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGY 404 (549)
Q Consensus 336 ~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~ 404 (549)
. ++..|.++|++.+|+|++|++.|+++|++....|.|++|++++.
T Consensus 320 -----------------------~-~~~~l~~al~~~~~~~~~G~~~~~~~g~~~~~~~~i~~~~~~~~ 364 (369)
T PRK15404 320 -----------------------D-DPAKVAKYLKANTFDTVIGPLSWDEKGDLKGFEFGVFEWHADGT 364 (369)
T ss_pred -----------------------C-CHHHHHHHHHhCCCCcceEeeEECCCCCcccCCEEEEEEEcCCe
Confidence 0 37889999999999999999999999988788999999987765
No 39
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=100.00 E-value=8.7e-38 Score=308.50 Aligned_cols=328 Identities=17% Similarity=0.201 Sum_probs=280.6
Q ss_pred EEEEEeccCC---CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 008912 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (549)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~ 104 (549)
+||++.|++. ..|.....++++|++++|+++++ +|++|++++.|+++++..+.+.+.++++++|.+|+||.++..+
T Consensus 1 ~iG~~~p~sG~~~~~g~~~~~g~~~a~~~iN~~ggi-~g~~i~~~~~D~~~~~~~~~~~~~~li~~~v~aiiG~~~s~~~ 79 (334)
T cd06342 1 KIGVAGPLTGPNAALGKDIKNGAQLAVEDINAKGGG-KGVKLELVVEDDQADPKQAVAVAQKLVDDGVVGVVGHLNSGVT 79 (334)
T ss_pred CeeEeccCCCcchhhcHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCChHHHHHHHHHHHhCCceEEECCCccHhH
Confidence 5999999984 45778899999999999999887 5999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHH-HHcCCcEEEEEEecCCcccchHHHHHHHH
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l-~~~~W~~v~ii~~~~~~g~~~~~~l~~~~ 183 (549)
.+++++++..+||+|++++.++.+.+..|+++||+.|++..++.++++++ ++++|++|++++.++++|....+.+.+.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~ 159 (334)
T cd06342 80 IPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYGQGLADEFKKAL 159 (334)
T ss_pred HHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchhhHHHHHHHHHH
Confidence 99999999999999998877666665668999999999999999999986 56899999999999999999999999999
Q ss_pred hhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCC
Q 008912 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (549)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (549)
++.|++|.....++.. ..++...+.++++.++++|++.+...+...+++++++.|+. ..|+..+.+......
T Consensus 160 ~~~g~~v~~~~~~~~~----~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~~~~g~~---~~~~~~~~~~~~~~~- 231 (334)
T cd06342 160 KAAGGKVVAREGTTDG----ATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQMRQLGLK---APFMGGDGLCDPEFI- 231 (334)
T ss_pred HHcCCEEEEEecCCCC----CccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHHHHcCCC---CcEEecCccCCHHHH-
Confidence 9999999998877754 67899999999999999999999999999999999999974 356666543211000
Q ss_pred CcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCc
Q 008912 264 SPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (549)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 341 (549)
........|++......+ ..+..++|.++|.++++ ..++.++...||+++++++|++++. .
T Consensus 232 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~yda~~~~~~al~~~~----~------- 294 (334)
T cd06342 232 ----KIAGDAAEGTYATFPGGPLEKMPAGKAFVARYKAKFG--DPPGAYAPYAYDAANVLAEAIKKAG----S------- 294 (334)
T ss_pred ----HHhhHhhCCcEEEecCCCCCCChHHHHHHHHHHHHhC--CCCchhHHHHHHHHHHHHHHHHHhC----C-------
Confidence 112245677777665544 36788999999998886 3457788999999999999999861 0
Q ss_pred cccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEE
Q 008912 342 KLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 399 (549)
Q Consensus 342 ~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~ 399 (549)
. ++..+.++|++.+|+|++|+++|+++|++.+..|+|+||
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 1 378999999999999999999999999999999999875
No 40
>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=5.4e-39 Score=316.03 Aligned_cols=327 Identities=16% Similarity=0.155 Sum_probs=244.2
Q ss_pred CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecC------C-CChHHHHHHHHHHHhcCc--EEEEcCCCchHHHHH
Q 008912 37 TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDA------K-FNGFLSIMGALQFMETDT--LAIVGPQSAVMAHVL 107 (549)
Q Consensus 37 ~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~------~-~~~~~a~~~~~~l~~~~v--~aiiGp~~s~~~~~v 107 (549)
...|...+.|+++|++++|++. +.+|...+.+. . .+...+.+++|+++++++ .|||||.++..+..+
T Consensus 8 ~~~~~~~~~A~~~Av~~~N~~~----~~~l~~~~~~~~~~~~~~~~d~~~~~~~~C~~~~~gv~~~AIiGp~ss~~a~~V 83 (368)
T cd06383 8 EDDNDVYKQIIDDALSYINRNI----GTGLSVVHQQVETNAEVNRNDVKVALIEVCDKADSAIVPHLVLDTTTCGDASEI 83 (368)
T ss_pred ccchHHHHHHHHHHHHHHhcCC----CCceEEEEecccccccccCCcHHHHHHHHHHHHHccCCcEEEECCCcchhHHHH
Confidence 3467889999999999999985 56777777666 4 467788888999999988 899999999999999
Q ss_pred HHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHH-HHhhc
Q 008912 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD-KLAEI 186 (549)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~-~~~~~ 186 (549)
+++|+.++||+|+++.. ..++.+|||++|+.|++..+.+|+++++++|+|++|++||+++.........+.. .....
T Consensus 84 ~si~~~~~IP~Is~s~~--~~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl~~~l~~~l~~~~~~~ 161 (368)
T cd06383 84 KSVTGALGIPTFSASYG--QEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVMDHKYKSLLQNWPTRH 161 (368)
T ss_pred HHHHhccCCCEEEccCC--CcCcccCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchhhHHHHHHHHhHHhcC
Confidence 99999999999997443 2333578999999999999999999999999999999999776533223333333 23334
Q ss_pred CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc-hHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCc
Q 008912 187 RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSP 265 (549)
Q Consensus 187 g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~ 265 (549)
++++. +.. ..+++..+++|++++.+.||+.|. ++.+..+|++|.++||++.+|+||++++.....+.
T Consensus 162 ~~~v~-----~~~----~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA~~lgm~~~~y~wilt~ld~~~~dl--- 229 (368)
T cd06383 162 VITII-----NSI----IDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQALAEGFMGRKYAWFLGNPDLGIYDD--- 229 (368)
T ss_pred CEEEE-----ecc----chhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHHHHcCCcCCceEEEEcCCCchhhhh---
Confidence 45543 111 346889999999988866666666 59999999999999999999999999987655443
Q ss_pred CChhhHhhccceEEEeEecCCChhHHHHHHHHHhhc--C-CCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCcc
Q 008912 266 LSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLS--N-GSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTK 342 (549)
Q Consensus 266 ~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~--~-~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~ 342 (549)
+.......++.++++........+.+.+.|.... + ........++++||||++++.|++++........+.
T Consensus 230 --~~~~~~~~Nitgfrl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aL~~Dav~~~~~a~~~l~~~~~~~~~~---- 303 (368)
T cd06383 230 --LSCQLRNASIFVTRPMMDYQSSVRGALLRTDEPTLRPVFYFEWAFRLFLAYDAVLAVGEWPRRMRKKRVEDGST---- 303 (368)
T ss_pred --hhhccccCcEEEeeccccchhhhccceeeccCCccCchhHHHHHHHHHHHHHHHHHhccccchhheeeccCCCc----
Confidence 2334456789999997666655577777663211 0 001233568999999999999999863211111100
Q ss_pred ccCCCCCccccCCc---ccc-CchHHHHHHHHhccccccceeeEEccCCCCCC
Q 008912 343 LNGLGGGTLNLGAL---SIF-DGGKKFLANILQTNMTGLSGPIHFNQDRSLLH 391 (549)
Q Consensus 343 ~~~~~~~~~~c~~~---~~~-~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~ 391 (549)
+.....|... .+| .+|..+.++|+.++|+|+||+|.||++|.|.+
T Consensus 304 ----~~~~~~~~g~~~~~~w~~~g~~~~~~~k~~~~~gltG~i~f~~~g~R~~ 352 (368)
T cd06383 304 ----GTSVLPGFGISPESPLMTLQSSPFNGSSEIKFEMLAGRVAIDEGSSVST 352 (368)
T ss_pred ----CccccCCCCCCcccchhhcccccccCccceeEeeecCeEEEecCceeee
Confidence 1122345443 256 66779999999999999999999999998853
No 41
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=100.00 E-value=4.8e-38 Score=308.22 Aligned_cols=304 Identities=15% Similarity=0.227 Sum_probs=236.7
Q ss_pred CCChHHHHHHHHHHHhc-CcEEEE-cCCCch--HHHHHHHhhhhcCCcEEecccCCC-CCCC-CCCCceEEccCCcHHHH
Q 008912 74 KFNGFLSIMGALQFMET-DTLAIV-GPQSAV--MAHVLSHLANELQVPLLSFTALDP-TLSP-LQYPFFVQTAPNDLYLM 147 (549)
Q Consensus 74 ~~~~~~a~~~~~~l~~~-~v~aii-Gp~~s~--~~~~va~~~~~~~iP~Is~~~~~~-~ls~-~~~~~~~r~~ps~~~~~ 147 (549)
..||...+.++|+++.+ +|.|+| ||.++. .+..++.+++.++||+|++++.++ .+++ ..+|||+|+.|++..|+
T Consensus 44 ~~d~~~~~~~vC~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~~Psd~~q~ 123 (362)
T cd06378 44 ETDPKSILTQLCDLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQFGPSIEQQA 123 (362)
T ss_pred CCCHHHHHHHHHHHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEecccccccccCCCCCceEEEeCCCHHHHH
Confidence 46899999999999977 699766 999987 445677777789999999976654 5566 57999999999999999
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.|+++++++|+|++|++||++++.+....+.+++.+...++|+.....++... .........++++++.++++||++|+
T Consensus 124 ~Ai~~Ii~~f~W~~v~iV~~~~~g~~~~~~~l~~~~~~~~~~~~i~~~~~~~~-~~~~~~~~~l~~lk~~~arViVl~~s 202 (362)
T cd06378 124 AVMLKIMEEYDWHAFSVVTSRFPGYDDFVSAVRTTVDNSFVGWELQSVLTLDM-SDDDGDARTQRQLKKLESQVILLYCS 202 (362)
T ss_pred HHHHHHHHHCCCeEEEEEEEcCCCHHHHHHHHHHHHhhcccceeEEEEEeecc-CCCcchHHHHHHHHhcCCCEEEEECC
Confidence 99999999999999999999888777777788877776666654443333221 12234678889999999999999999
Q ss_pred hHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCCCCC
Q 008912 228 SRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGL 307 (549)
Q Consensus 228 ~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~ 307 (549)
.+.+..++++|.++||++.+|+||++++.....+.. ......|++++.. ++|+.
T Consensus 203 ~~~a~~if~~A~~~gm~g~~yvWI~t~~~~~~~~~~------~~~~~~G~i~v~~------------~~w~~-------- 256 (362)
T cd06378 203 KEEAEYIFRAARSAGLTGPGYVWIVPSLVLGNTDLG------PSEFPVGLISVSY------------DGWRY-------- 256 (362)
T ss_pred HHHHHHHHHHHHHcCCcCCCeEEEecccccCCCccc------cccCCcceEeecc------------ccccc--------
Confidence 999999999999999999999999999766542210 1133466666542 22321
Q ss_pred CchhhhHhHHHHHHHHHHHHHHhcCCCccccCCccccCCCCCccccCC-cc-ccCchHHHHHHHHhccccccceeeEEcc
Q 008912 308 NPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGA-LS-IFDGGKKFLANILQTNMTGLSGPIHFNQ 385 (549)
Q Consensus 308 ~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~-~~-~~~~~~~l~~~l~~~~f~g~tG~v~fd~ 385 (549)
...+.+||||+++|+|++.+++.....+ ..+.+|.. .. +|.+|..|+++|++++|+|. +|+|++
T Consensus 257 -~~~a~~~DaV~vva~Al~~l~~~~~~~~-----------~~~~~C~~~~~~~~~~G~~l~~~l~~v~~~G~--~i~F~~ 322 (362)
T cd06378 257 -SLRARVRDGVAIIATGASAMLRQHGFIP-----------EAKGSCYGQAEKRDLPPNTLHRYMMNVTWEGR--DLSFTE 322 (362)
T ss_pred -cHHHHHHHHHHHHHHHHHHHHhccCCCC-----------CCCCCcCCCCCCCCCchHHHHHHhhcceECCC--ceeECC
Confidence 1256789999999999999875433221 22346754 22 48889999999999999996 999999
Q ss_pred CCCCCCCceEEEEEeeC-ceeeEEeEeeCCCCCccc
Q 008912 386 DRSLLHPSYDIINVIEH-GYPQQIGYWSNYSGLSVV 420 (549)
Q Consensus 386 ~g~r~~~~~~I~~~~~~-~~~~~VG~w~~~~~l~~~ 420 (549)
+|+|.++.|+|++++++ ++ ++||.|+++ +|.|.
T Consensus 323 ~G~r~~~~ldIinl~~~~g~-~kVG~W~~~-~L~~~ 356 (362)
T cd06378 323 DGYLVNPKLVVISLNKERVW-EEVGKWENG-SLRLK 356 (362)
T ss_pred CCeEccceEEEEEecCCCCc-eEEEEEcCC-eEEEe
Confidence 99999999999999964 66 999999854 56553
No 42
>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=7.2e-38 Score=310.77 Aligned_cols=309 Identities=31% Similarity=0.498 Sum_probs=260.0
Q ss_pred EEEEEeccCCC-------------CchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc----
Q 008912 28 NVGAIFSFGTV-------------NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET---- 90 (549)
Q Consensus 28 ~IG~l~~~~~~-------------~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~---- 90 (549)
.||++||++.. .|.....++.+|+++||+++++++|++|++++.|+|+++..+++.+++++.+
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 48999999852 2455678999999999999999999999999999999999999999999975
Q ss_pred ----------CcEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCC
Q 008912 91 ----------DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGW 159 (549)
Q Consensus 91 ----------~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W 159 (549)
+|.+||||.+|..+.+++++++.+++|+|+++++++.+++ ..|||+||+.|++..++.++++++++++|
T Consensus 81 ~~~~~~~~~~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~~ 160 (348)
T cd06350 81 TPPYSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHFGW 160 (348)
T ss_pred CCCCcCCCCCceEEEECCCccHHHHHHHHHHhcCcCceecccCCChhhccccccCCeeEecCCcHHHHHHHHHHHHHCCC
Confidence 9999999999999999999999999999999999988876 57899999999999999999999999999
Q ss_pred cEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 160 ~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
++|++|+.+++||....+.+.+.+++.|++|+....++.. ....++..++++++++++++|++++...++..++++++
T Consensus 161 ~~v~~l~~~~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~--~~~~d~~~~l~~l~~~~~~vvv~~~~~~~~~~~~~~a~ 238 (348)
T cd06350 161 TWVGLVYSDDDYGRSGLSDLEEELEKNGICIAFVEAIPPS--STEEDIKRILKKLKSSTARVIVVFGDEDDALRLFCEAY 238 (348)
T ss_pred eEEEEEEecchhHHHHHHHHHHHHHHCCCcEEEEEEccCC--CcHHHHHHHHHHHHhCCCcEEEEEeCcHHHHHHHHHHH
Confidence 9999999999999999999999999999999998888754 23678999999999999999999999999999999999
Q ss_pred HcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHH
Q 008912 240 RLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVW 319 (549)
Q Consensus 240 ~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~ 319 (549)
++|+ ... .|++.+.+....... ........|++++..+.+.....+.|.+.|++ +++.+||||+
T Consensus 239 ~~g~-~~~-~~i~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~----------~~~~~YDav~ 302 (348)
T cd06350 239 KLGM-TGK-YWIISTDWDTSTCLL----LFTLDAFQGVLGFSGHAPRSGEIPGFKDFLRK----------YAYNVYDAVY 302 (348)
T ss_pred HhCC-CCe-EEEEEccccCccccc----cCCcceeeeEEEEEEEeecCCcCCChHHHHHH----------HHHHHHhhee
Confidence 9998 344 455554443321110 12235678888888777655445556666654 4677888876
Q ss_pred HHHHHHHHHHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEE
Q 008912 320 MIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 399 (549)
Q Consensus 320 ~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~ 399 (549)
+ .+.|+++|+| ...|+|.++
T Consensus 303 ~-----------------------------------------------------------~v~f~~~gd~-~~~~~i~~~ 322 (348)
T cd06350 303 A-----------------------------------------------------------EVKFDENGDR-LASYDIINW 322 (348)
T ss_pred E-----------------------------------------------------------EEEecCCCCc-ccceeEEEE
Confidence 6 5789999997 577999998
Q ss_pred ee---CceeeEEeEeeCC
Q 008912 400 IE---HGYPQQIGYWSNY 414 (549)
Q Consensus 400 ~~---~~~~~~VG~w~~~ 414 (549)
+. ...+++||.|++.
T Consensus 323 ~~~~~~~~~~~vg~~~~~ 340 (348)
T cd06350 323 QIFPGGGGFVKVGFWDPQ 340 (348)
T ss_pred EEcCCcEEEEEEEEEcCC
Confidence 75 3555999999873
No 43
>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=2.6e-36 Score=298.58 Aligned_cols=321 Identities=17% Similarity=0.231 Sum_probs=268.5
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||+++|++ +..|.....++++|++++|+++++ +|+++++++.|+++++..+++.+++++.+ +|.+||||.+|..
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~~A~~~iN~~ggi-~g~~v~l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~ 79 (344)
T cd06345 1 KIGVLAPLSGGASTTGEAMWNGAELAAEEINAAGGI-LGRKVELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYSSEV 79 (344)
T ss_pred CeeEEEecCCcccccCHHHHHHHHHHHHHHHHcCCC-CCceEEEEEecCCCCHHHHHHHHHHHhccCCceEEECCcchHH
Confidence 589999998 456889999999999999999988 58999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCC----CCCCceEEccCCcHHHHHHHHHHHHH-----cCCcEEEEEEecCCcccc
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSP----LQYPFFVQTAPNDLYLMSAIAEMVSY-----FGWGEVIAIFNDDDQGRN 174 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~----~~~~~~~r~~ps~~~~~~ai~~~l~~-----~~W~~v~ii~~~~~~g~~ 174 (549)
+.+++++++.+++|+|+++++++.+++ ..++++||+.|++..+..++++++.+ ++|++|++++.++.||..
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g~~ 159 (344)
T cd06345 80 VLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWGKG 159 (344)
T ss_pred HHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhhhH
Confidence 999999999999999998888777763 46899999999999999999999876 899999999999999999
Q ss_pred hHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 008912 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (549)
Q Consensus 175 ~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (549)
..+.++..+++.|++|+....++.. ..++..++.+|+++++++|++.+...+...+++++.+.|+... ++...
T Consensus 160 ~~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~ 232 (344)
T cd06345 160 IDAGIKALLPEAGLEVVSVERFSPD----TTDFTPILQQIKAADPDVIIAGFSGNVGVLFTQQWAEQKVPIP---TIGIS 232 (344)
T ss_pred HHHHHHHHHHHcCCeEEEEEecCCC----CCchHHHHHHHHhcCCCEEEEeecCchHHHHHHHHHHcCCCCc---eEEec
Confidence 9999999999999999987777644 6689999999999999999999999889999999999997432 33332
Q ss_pred CcccccCCCCcCChhhHhhccceEEEeEec----CCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHh
Q 008912 255 WLSTFIDSKSPLSLKTAKSILGALTLRQHT----PDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLD 330 (549)
Q Consensus 255 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~----~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 330 (549)
.+....... ........+.+....+. ...+..++|.++|+++++ ..++.++...||+++++++|++++..
T Consensus 233 ~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g--~~p~~~~~~~yda~~~l~~A~~~ag~ 306 (344)
T cd06345 233 VEGNSPAFW----KATNGAGNYVITAESGAPGVEAITDKTVPFTEAYEAKFG--GPPNYMGASTYDSIYILAEAIERAGS 306 (344)
T ss_pred CCcCCHHHH----HhhchhcceEEeecccccCccCCCHHHHHHHHHHHHHhC--CCCcccchHHHHHHHHHHHHHHHhcC
Confidence 221100000 11123345555443332 246778999999999886 45778889999999999999998521
Q ss_pred cCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCC
Q 008912 331 QGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLH 391 (549)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~ 391 (549)
.++..+.++|++++|+|++|+|+||++|++..
T Consensus 307 -----------------------------~~~~~i~~al~~~~~~g~~G~i~f~~~g~~~~ 338 (344)
T cd06345 307 -----------------------------TDGDALVEALEKTDFVGTAGRIQFYGDDSAFA 338 (344)
T ss_pred -----------------------------CCHHHHHHHHHhCCCcCCceeEEECCCCCcCc
Confidence 13788999999999999999999999999753
No 44
>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=2.7e-36 Score=299.03 Aligned_cols=328 Identities=14% Similarity=0.211 Sum_probs=273.4
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCC---CCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVL---GGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQS 100 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il---~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~ 100 (549)
+||+++|++ +..|.....++++|+++||+++|+. .|++|+++++|+++++..+++.+.+++++ +|.+||||.+
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 599999998 4557788999999999999988763 47999999999999999999999999986 9999999999
Q ss_pred chHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcC--CcEEEEEEecCCcccchHHH
Q 008912 101 AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG--WGEVIAIFNDDDQGRNGVTA 178 (549)
Q Consensus 101 s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~--W~~v~ii~~~~~~g~~~~~~ 178 (549)
|..+.+++++++..++|+|+++++++.+....+|++||+.|++..++.++++++.+++ |+++++|+.+++++....+.
T Consensus 81 s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~ 160 (345)
T cd06338 81 SGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFSQDVAEG 160 (345)
T ss_pred chhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHH
Confidence 9999999999999999999998877766655689999999999999999999999988 99999999999999999999
Q ss_pred HHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCccc
Q 008912 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLST 258 (549)
Q Consensus 179 l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~ 258 (549)
+.+.+++.|++|.....++.. .+++..++++|++.++++|++.+...+...+++++++.|+..+ ..+........
T Consensus 161 ~~~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~ 235 (345)
T cd06338 161 AREKAEAAGLEVVYDETYPPG----TADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQMKELGYNPK-ALYMTVGPAFP 235 (345)
T ss_pred HHHHHHHcCCEEEEEeccCCC----ccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCCC-EEEEecCCCcH
Confidence 999999999999987777754 5789999999999999999999999999999999999998643 33222211111
Q ss_pred ccCCCCcCChhhHhhccceEEEeEecCC-------ChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhc
Q 008912 259 FIDSKSPLSLKTAKSILGALTLRQHTPD-------SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQ 331 (549)
Q Consensus 259 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~ 331 (549)
.+. ........|+++...+.+. .+..+.|.++|+++++. .+..++...||+++++++|++++..
T Consensus 236 ~~~------~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--~p~~~~~~~y~a~~~~~~a~~~ag~- 306 (345)
T cd06338 236 AFV------KALGADAEGVFGPTQWTPALDYKDDLFPSAAEFAAAYKEKYGK--APDYHAAGAYAAGQVLQEAVERAGS- 306 (345)
T ss_pred HHH------HHHhhhhCceeecceeccCcccccccCccHHHHHHHHHHHhCC--CCCcccHHHHHHHHHHHHHHHHhCC-
Confidence 110 1122345677776555443 36689999999999873 3666788899999999999998521
Q ss_pred CCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEE
Q 008912 332 GNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIIN 398 (549)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~ 398 (549)
. ++..+.++|++++|+|++|++.|+++|++.. .+.+++
T Consensus 307 ---------------------------~-~~~~v~~al~~~~~~~~~G~~~f~~~~~~~~-~~~~~~ 344 (345)
T cd06338 307 ---------------------------L-DPAAVRDALASNDFDTFYGPIKFDETGQNNH-PMTVVQ 344 (345)
T ss_pred ---------------------------C-CHHHHHHHHHhCCCcccccCeeECCCCCcCC-Cceeee
Confidence 0 3788999999999999999999999998744 555554
No 45
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=2.3e-36 Score=294.43 Aligned_cols=304 Identities=18% Similarity=0.253 Sum_probs=259.2
Q ss_pred EEEEEeccCC---CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||++.|++. ..|.....++++|+++||+++|+ .|++|+++++|+++++..+++.+.+|+.+ +|.+||||.+|..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~lA~~~iN~~ggi-~G~~iel~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~ 79 (312)
T cd06346 1 KIGILLPLTGDLASYGPPMADAAELAVKEVNAAGGV-LGEPVTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGV 79 (312)
T ss_pred CceeeccCCCchhhcChhHHHHHHHHHHHHHHhCCC-CCceEEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchh
Confidence 6999999984 45778899999999999999999 59999999999999999999999999986 9999999999999
Q ss_pred HHHH-HHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHH
Q 008912 104 AHVL-SHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD 181 (549)
Q Consensus 104 ~~~v-a~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~ 181 (549)
+.++ ++++...++|+|+++++++.+++ ..++|+||+.|++..++.++++++.+++|+++++|+.+++||+...+.+++
T Consensus 80 ~~a~~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~vail~~~~~~g~~~~~~~~~ 159 (312)
T cd06346 80 TIAALTSVAVPNGVVMISPSSTSPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSVATTYINNDYGVGLADAFTK 159 (312)
T ss_pred hHhhhhhhhccCCcEEEecCCCCccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeEEEEEccCchhhHHHHHHHH
Confidence 9999 99999999999999888888887 457899999999999999999999999999999999999999999999999
Q ss_pred HHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccC
Q 008912 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (549)
Q Consensus 182 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (549)
.+++.|++|+....+++. .+|+..++.++++.++++|++.+.+.+...++++++++|+.. .|+.++.......
T Consensus 160 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~---~~~~~~~~~~~~~ 232 (312)
T cd06346 160 AFEALGGTVTNVVAHEEG----KSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSAYEQGLFD---KFLLTDGMKSDSF 232 (312)
T ss_pred HHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCCCC---ceEeeccccChHH
Confidence 999999999988888755 788999999999999999999999999999999999999743 3666554322110
Q ss_pred CCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCc
Q 008912 262 SKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (549)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 341 (549)
.. ........|+++..+..+ .+..++|.++|+++|+ ..++.+++..||+++++++|
T Consensus 233 ~~----~~~~~~~~g~~~~~~~~~-~~~~~~f~~~~~~~~g--~~p~~~~~~~Yd~~~~l~~A----------------- 288 (312)
T cd06346 233 LP----ADGGYILAGSYGTSPGAG-GPGLEAFTSAYKAAYG--ESPSAFADQSYDAAALLALA----------------- 288 (312)
T ss_pred HH----hhhHHHhCCcEEccCCCC-chhHHHHHHHHHHHhC--CCCCccchhhHHHHHHHHHH-----------------
Confidence 10 111235677776655433 3778999999999997 45778889999999998654
Q ss_pred cccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEE
Q 008912 342 KLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDI 396 (549)
Q Consensus 342 ~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I 396 (549)
|.|++|++.|+++|++. ..|+-
T Consensus 289 --------------------------------~~g~~g~~~f~~~g~~~-~~~~~ 310 (312)
T cd06346 289 --------------------------------YQGASGVVDFDENGDVA-GSYDE 310 (312)
T ss_pred --------------------------------hCCCccceeeCCCCCcc-cceee
Confidence 56899999999999874 35653
No 46
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.1e-35 Score=294.24 Aligned_cols=333 Identities=19% Similarity=0.250 Sum_probs=268.8
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||+++|++ +..|.....++++|+++||++++++ |++|++++.|++++|..+.+.+++++++ +|.+|+||.+|..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~~a~~~iNa~ggi~-G~~v~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~ 79 (344)
T cd06348 1 PLGVALALTGNAALYGQEQLAGLKLAEDRFNQAGGVN-GRPIKLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQ 79 (344)
T ss_pred CeeEEEeccCchhhcCHhHHHHHHHHHHHHhhcCCcC-CcEEEEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHH
Confidence 699999998 4568889999999999999999985 8999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHH-HHHHHHHHHHc-CCcEEEEEEecCC-cccchHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYL-MSAIAEMVSYF-GWGEVIAIFNDDD-QGRNGVTALG 180 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~-~~ai~~~l~~~-~W~~v~ii~~~~~-~g~~~~~~l~ 180 (549)
+.++.++++..++|+|+++++.+.+. ..++|+||+.+++..+ ..++..+++++ +|+++++||.+++ ||......++
T Consensus 80 ~~a~~~~~~~~~ip~i~~~~~~~~~~-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~g~~~~~~~~ 158 (344)
T cd06348 80 AFAADPIAERAGVPVVGPSNTAKGIP-EIGPYVFRVSAPEAVVAPAAIAAALKLNPGIKRVAVFYAQDDAFSVSETEIFQ 158 (344)
T ss_pred HHhhhHHHHhCCCCEEeccCCCCCcC-CCCCeEEEccCcHHHHHHHHHHHHHHHhcCCeEEEEEEeCCchHHHHHHHHHH
Confidence 99999999999999999877665543 3468999998776554 44555667788 9999999997554 9999999999
Q ss_pred HHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCccccc
Q 008912 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFI 260 (549)
Q Consensus 181 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 260 (549)
+.+++.|++++....++.. ..++..++.+++++++++|++.+.+.++..+++++.+.|+.. .|+....+....
T Consensus 159 ~~~~~~g~~v~~~~~~~~~----~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~~~~g~~~---~~~~~~~~~~~~ 231 (344)
T cd06348 159 KALRDQGLNLVTVQTFQTG----DTDFQAQITAVLNSKPDLIVISALAADGGNLVRQLRELGYNG---LIVGGNGFNTPN 231 (344)
T ss_pred HHHHHcCCEEEEEEeeCCC----CCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHHHHcCCCC---ceeccccccCHH
Confidence 9999999999988888754 678999999999999999999999999999999999999853 245443322111
Q ss_pred CCCCcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCcccc
Q 008912 261 DSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (549)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~ 338 (549)
.. ........|++....+.+ ..+..++|.+.|+++++ ..++.++...||+++++++|++++..++....+
T Consensus 232 -~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g--~~p~~~~~~~yda~~~~~~A~~~a~~~~~~~~~- 303 (344)
T cd06348 232 -VF----PVCQAACDGVLVAQAYSPENDTPVNRDFVEAYKKKYG--KAPPQFSAQAFDAVQVVAEALKRLNQKQKLAEL- 303 (344)
T ss_pred -HH----HhhhHhhcCeEEEeeccCCCCCHHHHHHHHHHHHHHC--CCccHHHHHHHHHHHHHHHHHHHhcCCCccccc-
Confidence 10 122345677777665544 34668999999998886 456678889999999999999998643221000
Q ss_pred CCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceE
Q 008912 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYD 395 (549)
Q Consensus 339 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~ 395 (549)
+.+| .+..|.++|++++|+|++|+|.||++|++....|-
T Consensus 304 -----------~~~~-------~~~~l~~~l~~~~~~g~~G~v~f~~~g~~~~~~~~ 342 (344)
T cd06348 304 -----------PLPE-------LRTALNAALLSGQYDTPLGEISFTPDGEVLQKAFY 342 (344)
T ss_pred -----------hhhh-------HHHHHHHHHhccCCccceeeeEECCCCCcccCcee
Confidence 0011 26789999999999999999999999998766653
No 47
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=5.1e-35 Score=289.29 Aligned_cols=324 Identities=18% Similarity=0.254 Sum_probs=268.8
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCC--CCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCc
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRV--LGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSA 101 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~i--l~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s 101 (549)
+||++.|++ +..|.....++++|+++||+.+|+ ++|++|+++++|+++++..+++.+++++++ +|.+|+||.+|
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 599999998 356788899999999999999973 479999999999999999999999999988 99999999999
Q ss_pred hHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc------CCcEEEEEEecCCcccch
Q 008912 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF------GWGEVIAIFNDDDQGRNG 175 (549)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~------~W~~v~ii~~~~~~g~~~ 175 (549)
..+.+++++++..++|+|+++++++.+++..+||+||+.|++..++.++++++.++ +|+++++|+.++.||...
T Consensus 81 ~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~~~~~~~v~~l~~~~~~g~~~ 160 (347)
T cd06340 81 AVTLAASQVAERYGVPFVVDGAVSDSITERGFKYTFRITPHDGMFTRDMFDFLKDLNEKTGKPLKTVALVHEDTEFGTSV 160 (347)
T ss_pred HhHHHHHHHHHHhCCCEEeccccchHHhhcCCceEEecCCChHHHHHHHHHHHHHhhHhcCCCCceEEEEecCchHhHHH
Confidence 99999999999999999998888777776668999999999999999999999876 459999999999999999
Q ss_pred HHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCC
Q 008912 176 VTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTW 255 (549)
Q Consensus 176 ~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 255 (549)
.+.+...+++.|++|+....++.. ..++..++.+++++++++|++.+...++..+++++++.|+... .++....+
T Consensus 161 ~~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~ 235 (347)
T cd06340 161 AEAIKKFAKERGFEIVEDISYPAN----ARDLTSEVLKLKAANPDAILPASYTNDAILLVRTMKEQRVEPK-AVYSVGGG 235 (347)
T ss_pred HHHHHHHHHHcCCEEEEeeccCCC----CcchHHHHHHHHhcCCCEEEEcccchhHHHHHHHHHHcCCCCc-EEEecCCC
Confidence 999999999999999988888754 6789999999999999999999999999999999999998532 22222221
Q ss_pred cccccCCCCcCChhhHhhccceEEEeEecCC-ChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCC
Q 008912 256 LSTFIDSKSPLSLKTAKSILGALTLRQHTPD-SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNT 334 (549)
Q Consensus 256 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~ 334 (549)
....... ........|++...++.+. .+..++|.++|+++++ ..++.++...||+++++++|++++..
T Consensus 236 ~~~~~~~-----~~~g~~~~g~~~~~~~~~~~~~~~~~f~~~y~~~~~--~~~~~~~~~~Y~a~~~l~~A~~~ag~---- 304 (347)
T cd06340 236 AEDPSFV-----KALGKDAEGILTRNEWSDPKDPMAKDLNKRFKARFG--VDLSGNSARAYTAVLVIADALERAGS---- 304 (347)
T ss_pred cCcHHHH-----HHhhHhhheEEeccccCCCCChHHHHHHHHHHHHhC--CCCChHHHHHHHHHHHHHHHHHHhcC----
Confidence 1111000 1223456787777655443 5778999999999987 34778889999999999999998621
Q ss_pred ccccCCccccCCCCCccccCCccccCchHHHH--HHHHhcccc---ccceeeEEccCCCCCCC
Q 008912 335 ISFSNDTKLNGLGGGTLNLGALSIFDGGKKFL--ANILQTNMT---GLSGPIHFNQDRSLLHP 392 (549)
Q Consensus 335 ~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~--~~l~~~~f~---g~tG~v~fd~~g~r~~~ 392 (549)
. ++..+. .+|++..+. +.+|++.||++|+..+.
T Consensus 305 ------------------------~-~~~~v~~~~~~~~~~~~~~~~~~g~~~f~~~g~~~~~ 342 (347)
T cd06340 305 ------------------------A-DPEKIRDLAALASTSGEDLIMPYGPIKFDAKGQNTNA 342 (347)
T ss_pred ------------------------C-CHHHHHHHHHhccCCccccccCCCCeeECCCCCcccc
Confidence 1 366777 488777765 46789999999986543
No 48
>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=1.3e-34 Score=285.35 Aligned_cols=317 Identities=23% Similarity=0.355 Sum_probs=247.1
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCC-CChHHHHHHHHHHH-hcCcEEEEcCCCchHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK-FNGFLSIMGALQFM-ETDTLAIVGPQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~-~~~~~a~~~~~~l~-~~~v~aiiGp~~s~~~~ 105 (549)
+||++|+... ...+.|+++|++++|..++++++..+.+.+.+.+ +++..+++.+|+++ .++|.+||||.++..+.
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 4899999865 5678999999999999999887777777766655 79999999999999 77999999999999999
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHh
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA 184 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~ 184 (549)
+++++++.++||+|+++++.+.+++ ..++++||+.|++..+++++++++.+++|++|++||+++++. ..++.+.+...
T Consensus 78 ~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~-~~l~~~~~~~~ 156 (328)
T cd06351 78 AVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGL-SRLQELLDESG 156 (328)
T ss_pred HHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHH-HHHHHHHHhhc
Confidence 9999999999999999888777765 568999999999999999999999999999999999888733 23333333333
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCC-eEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCC
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEA-RVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~-~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (549)
..+..+... .+... .++++..++++++.++ ++|++++..+.+..++++|.++||+..+|+||+++......+.
T Consensus 157 ~~~~~v~~~-~~~~~----~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a~~~gm~~~~~~~i~~~~~~~~~d~- 230 (328)
T cd06351 157 IKGIQVTVR-RLDLD----DDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQAVELGMMGYGYHWILTNLDLSDIDL- 230 (328)
T ss_pred ccCceEEEE-EecCC----chhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHHHHhccccCCcEEEEecCCccccch-
Confidence 334444443 34433 3378999999999888 5555555548999999999999999999999999977654433
Q ss_pred CcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCccc
Q 008912 264 SPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKL 343 (549)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~ 343 (549)
........|+++++...+..+..++|..+|..... ........++++.++..+
T Consensus 231 ----~~~~~~~~~i~g~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~d~~------------------- 283 (328)
T cd06351 231 ----EPFQYGPANITGFRLVDPDSPDVSQFLQRWLEESP----GVNLRAPIYDAALLYDAV------------------- 283 (328)
T ss_pred ----hhhccCCcceEEEEEeCCCchHHHHHHHhhhhccC----CCCcCccchhhHhhhcEE-------------------
Confidence 23445778999999999999999999999843221 111111223333222000
Q ss_pred cCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEe-eCceeeEEeEeeC
Q 008912 344 NGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI-EHGYPQQIGYWSN 413 (549)
Q Consensus 344 ~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~-~~~~~~~VG~w~~ 413 (549)
+. . ||.+.||++|+|.++.++|++++ ..++ ++||.|+.
T Consensus 284 ---------------~~-~---------------tg~i~f~~~g~r~~~~l~i~~l~~~~~~-~~vg~W~~ 322 (328)
T cd06351 284 ---------------LL-L---------------TGTVSFDEDGVRSNFTLDIIELNRSRGW-RKVGTWNG 322 (328)
T ss_pred ---------------EE-E---------------EeeEEECCCCcccceEEEEEEecCCCCc-eEEEEecC
Confidence 00 0 89999999999999999999998 6666 99999984
No 49
>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=8.4e-34 Score=280.37 Aligned_cols=336 Identities=15% Similarity=0.137 Sum_probs=269.3
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||++.|++ +..|.....++++|+++||+++|++ |++|+++++|++++|..+++.+.+|+++ +|.+|+|+.+|..
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iN~~GGi~-G~~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~ 79 (348)
T cd06355 1 KVGILHSLSGTMAISETTLKDAELLAIEEINAAGGVL-GRKIEAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWTSAS 79 (348)
T ss_pred CeEEEEcCCCcccccchhHHHHHHHHHHHHHhcCCCC-CcEEEEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccchhh
Confidence 599999998 4567888999999999999999996 8999999999999999999999999975 8999999999999
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHH-cCCcEEEEEEecCCcccchHHHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFNDDDQGRNGVTALGDK 182 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~-~~W~~v~ii~~~~~~g~~~~~~l~~~ 182 (549)
+.++.++++..++|+|++..... ....||+||+.+.+..++..+++++.. .++++|++++.|++||....+.+++.
T Consensus 80 ~~a~~~~~~~~~~~~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~d~~~g~~~~~~~~~~ 156 (348)
T cd06355 80 RKAVLPVFERHNGLLFYPVQYEG---LEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGSDYVYPRTANKILKAQ 156 (348)
T ss_pred HHHHHHHHhccCCceecCCCccC---CCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECCcchHHHHHHHHHHHH
Confidence 99999999999999998643211 134689999999998888889898775 57999999999999999999999999
Q ss_pred HhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCC
Q 008912 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (549)
Q Consensus 183 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (549)
+++.|++|+....++.. ..|+..++.++++.++++|++...+..+..+++++++.|+......++........+..
T Consensus 157 ~~~~G~~vv~~~~~~~~----~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~ 232 (348)
T cd06355 157 LESLGGEVVGEEYLPLG----HTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQLKAAGITASKVPVLSFSVAEEELRG 232 (348)
T ss_pred HHHcCCeEEeeEEecCC----hhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHcCCCccCCeeEEccccHHHHhh
Confidence 99999999988888755 78999999999999999999998888999999999999986444445544322111110
Q ss_pred CCcCChhhHhhccceEEEeEe--cCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCC
Q 008912 263 KSPLSLKTAKSILGALTLRQH--TPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (549)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~ 340 (549)
.......|++....+ ....+..++|.++|+++++....+..++...||++++++.|++++..
T Consensus 233 ------~g~~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~g~~~~~~~~a~~~Y~a~~~~~~Al~~ag~---------- 296 (348)
T cd06355 233 ------IGPENLAGHYAAWNYFQSVDTPENKKFVAAFKARYGQDRVTNDPMEAAYIGVYLWKQAVEKAGS---------- 296 (348)
T ss_pred ------cChHhhcCCEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHhCC----------
Confidence 011345666554332 23557789999999999874434456678899999999999998621
Q ss_pred ccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEeeCceee
Q 008912 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQ 406 (549)
Q Consensus 341 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~ 406 (549)
. ++..|.++|++++|++..|.++|++.++.....+.|.+++.++.++
T Consensus 297 ------------------~-~~~~i~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~i~~~~~~g~~~ 343 (348)
T cd06355 297 ------------------F-DVDKVRAALPGQSFDAPEGPVTVDPANHHLWKPVRIGRIQADGQFE 343 (348)
T ss_pred ------------------C-CHHHHHHHhccCcccCCCcceEeecCCCeeeeeeEEEEEcCCCcEE
Confidence 1 3789999999999999999999998543334455566665333334
No 50
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=3.2e-34 Score=282.09 Aligned_cols=320 Identities=17% Similarity=0.148 Sum_probs=262.1
Q ss_pred EEEEEeccC--CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchHH
Q 008912 28 NVGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVMA 104 (549)
Q Consensus 28 ~IG~l~~~~--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~~ 104 (549)
+||++.|++ +..|.....++++|+++||+.+|+ +|++|++++.|++++|..+++.+.+|+.+ +|.+|+|+.+|..+
T Consensus 1 ~iG~~~p~sG~a~~G~~~~~g~~lA~~~iNa~ggi-~G~~ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~ 79 (332)
T cd06344 1 TIAVVVPIGKNPNLAEEILRGVAQAQTEINLQGGI-NGKLLKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDAT 79 (332)
T ss_pred CeEEEEecCCChhhHHHHHHHHHHHHHHHHhcCCC-CCCeEEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHH
Confidence 489999998 456778899999999999999998 49999999999999999999999999976 99999999999999
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcC-CcEEEEEEecCC-cccchHHHHHHH
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG-WGEVIAIFNDDD-QGRNGVTALGDK 182 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~-W~~v~ii~~~~~-~g~~~~~~l~~~ 182 (549)
.+++++++..++|+|+++++++.++ ..++|+||+.|++..++.++++++++.+ |+++++|+.++. ||+...+.+.+.
T Consensus 80 ~a~~~~~~~~~ip~i~~~a~~~~lt-~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g~~~~~~~~~~ 158 (332)
T cd06344 80 LAALDIYQKAKLVLISPTSTSVKLS-NPGPYFFRTVPSNAVAARALAKYLKKKNKIKKVAIFYNSTSPYSQSLKQEFTSA 158 (332)
T ss_pred HHHHHHHhhcCceEEccCcCchhhc-CCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEEEEeCCCchHhHHHHHHHHHH
Confidence 9999999999999999877777776 3579999999999999999999999886 999999998876 999999999999
Q ss_pred Hhh-cCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccC
Q 008912 183 LAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (549)
Q Consensus 183 ~~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (549)
+++ .|.++.....++. ...++...+.++++.++++|++.+.......+++++.+.+. ...++.++.+... .
T Consensus 159 ~~~~~g~~v~~~~~~~~----~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~~---~~~i~~~~~~~~~-~ 230 (332)
T cd06344 159 LLERGGGIVVTPCDLSS----PDFNANTAVSQAINNGATVLVLFPDTDTLDKALEVAKANKG---RLTLLGGDSLYTP-D 230 (332)
T ss_pred HHHhcCCeeeeeccCCC----CCCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHHHHhcCC---CceEEecccccCH-H
Confidence 998 5888876544442 24567889999999999999999988888889999887663 2334444433211 1
Q ss_pred CCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCc
Q 008912 262 SKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (549)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 341 (549)
.. ........|+++..++.+..+..++|.+.|+++++ ..++.++...||+++++++|++++...
T Consensus 231 ~~----~~~~~~~~G~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~a~~~Yda~~~l~~A~~~ag~~---------- 294 (332)
T cd06344 231 TL----LDGGKDLEGLVLAVPWHPLASPNSPFAKLAQQLWG--GDVSWRTATAYDATKALIAALSQGPTR---------- 294 (332)
T ss_pred HH----HhchhhhcCeEEEEecccccccchHHHHHHHHHhc--CCchHHHHhHHHHHHHHHHHHHhCCCh----------
Confidence 00 11224567888877777766778999999999987 457788999999999999999975211
Q ss_pred cccCCCCCccccCCccccCchHHHH-HHHHhccccccceeeEEccCCCCCCC
Q 008912 342 KLNGLGGGTLNLGALSIFDGGKKFL-ANILQTNMTGLSGPIHFNQDRSLLHP 392 (549)
Q Consensus 342 ~~~~~~~~~~~c~~~~~~~~~~~l~-~~l~~~~f~g~tG~v~fd~~g~r~~~ 392 (549)
++..+. ..+++..|+|..|++.||++|++...
T Consensus 295 -------------------~~~~~~~~~~~~~~~~g~~g~i~f~~~g~~~~~ 327 (332)
T cd06344 295 -------------------EGVQQVELSLRNFSVQGATGKIKFLPSGDRNGQ 327 (332)
T ss_pred -------------------hhhhhhhhhcccccccCCCceeEeCCCCcccCc
Confidence 133444 57778889999999999999997543
No 51
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=100.00 E-value=1.1e-33 Score=280.07 Aligned_cols=338 Identities=20% Similarity=0.274 Sum_probs=276.0
Q ss_pred CceEEEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCC
Q 008912 24 PEVLNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-TDTLAIVGPQ 99 (549)
Q Consensus 24 ~~~i~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~-~~v~aiiGp~ 99 (549)
.++|+||++.|++ +..|.....++++|+++||+.+|++ |++|++++.|+.++|..+++.+.+|+. ++|.+|||+.
T Consensus 8 a~~IkIGv~~plsG~~A~~G~~~~~ga~lAv~~iNa~Ggi~-G~~velv~~D~~~dp~~a~~~A~~li~~~~V~~vvG~~ 86 (366)
T COG0683 8 ADTIKIGVVLPLSGPAAAYGQQIKNGAELAVEEINAAGGIL-GRKVELVVEDDASDPATAAAVARKLITQDGVDAVVGPT 86 (366)
T ss_pred cCceEEEEEecCCchhhhhChHHHHHHHHHHHHHhhhCCcC-CceEEEEEecCCCChHHHHHHHHHHHhhcCceEEEEec
Confidence 4589999999997 5578899999999999999999986 777999999999999999999999888 5999999999
Q ss_pred CchHHHHHHHhhhhcCCcEEecccCCCCCCCCC-CCceEEccCCcHHHHHHHHHHHHH-cCCcEEEEEEecCCcccchHH
Q 008912 100 SAVMAHVLSHLANELQVPLLSFTALDPTLSPLQ-YPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFNDDDQGRNGVT 177 (549)
Q Consensus 100 ~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~-~~~~~r~~ps~~~~~~ai~~~l~~-~~W~~v~ii~~~~~~g~~~~~ 177 (549)
+|..+.++.++++..++|+|+++++++.+.... .+++||+.|++..++.++++++.. ++.++|++|++++.||+...+
T Consensus 87 ~S~~~~a~~~v~~~~~i~~i~p~st~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v~ii~~~~~yg~~~~~ 166 (366)
T COG0683 87 TSGVALAASPVAEEAGVPLISPSATAPQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRVAIIGDDYAYGEGLAD 166 (366)
T ss_pred cCcccccchhhHhhcCceEEeecCCCCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcEEEEEeCCCCcchhHHH
Confidence 999999999999999999999999888876643 355999999999999999999875 455699999999999999999
Q ss_pred HHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcc
Q 008912 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (549)
Q Consensus 178 ~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 257 (549)
.+++.+++.|+++.....+.+. ..++..++.+++++++++|++.+...+...+++++++.|+... ..++......
T Consensus 167 ~~~~~l~~~G~~~~~~~~~~~~----~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~~~~G~~~~-~~~~~~~~~~ 241 (366)
T COG0683 167 AFKAALKALGGEVVVEEVYAPG----DTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQAREQGLKAK-LIGGDGAGTA 241 (366)
T ss_pred HHHHHHHhCCCeEEEEEeeCCC----CCChHHHHHHHHhcCCCEEEECCCCccchHHHHHHHHcCCCCc-cccccccCch
Confidence 9999999999986555556644 4459999999999999999999999999999999999997643 2333222111
Q ss_pred cccCCCCcCChhhHhhccc-eEE-EeEecC-CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCC
Q 008912 258 TFIDSKSPLSLKTAKSILG-ALT-LRQHTP-DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNT 334 (549)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~g-~~~-~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~ 334 (549)
..... ......+ .+. .....+ ..|..+.|.++|+++++....++.++...||++++++.|++++.. .
T Consensus 242 ~~~~~-------~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~y~a~~~~~~ai~~a~~-~-- 311 (366)
T COG0683 242 EFEEI-------AGAGGAGAGLLATAYSTPDDSPANKKFVEAYKAKYGDPAAPSYFAAAAYDAVKLLAKAIEKAGK-S-- 311 (366)
T ss_pred hhhhh-------cccCccccEEEEecccccccCcchHHHHHHHHHHhCCCCCcccchHHHHHHHHHHHHHHHHHhc-C--
Confidence 11100 1111222 222 222222 345677799999999985566677899999999999999999743 1
Q ss_pred ccccCCccccCCCCCccccCCccccCchHHHHHHHHhcc-ccccceeeEEccCCCCCCCceEEEEEeeC
Q 008912 335 ISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTN-MTGLSGPIHFNQDRSLLHPSYDIINVIEH 402 (549)
Q Consensus 335 ~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~-f~g~tG~v~fd~~g~r~~~~~~I~~~~~~ 402 (549)
. ++..+.++|+... +.+.+|.+.||++|++....+.|.+++..
T Consensus 312 ------------------------~-d~~~v~~al~~~~~~~~~~G~v~~~~~~~~~~~~~~i~~~~~~ 355 (366)
T COG0683 312 ------------------------S-DREAVAEALKGGKFFDTAGGPVTFDEKGDRGSKPVYVGQVQKG 355 (366)
T ss_pred ------------------------C-CHHHHHHHHhhCCCCccCCcceeECCCCCcCCCceEEEEEEec
Confidence 1 3778999999887 68999999999999999899999888743
No 52
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=100.00 E-value=1.5e-33 Score=278.25 Aligned_cols=320 Identities=15% Similarity=0.269 Sum_probs=265.5
Q ss_pred EEEEEeccCC---CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||+++|++. ..|.....++++|+++||+++|+ +|++|++++.|+++++..+++.+++++++ +|.+||||.++..
T Consensus 1 ~iG~~~~~sG~~~~~g~~~~~g~~~a~~~iN~~ggi-~g~~l~~~~~D~~~~~~~~~~~~~~li~~~~v~aiiG~~~s~~ 79 (334)
T cd06347 1 KIGVNLPLTGDVAAYGQSEKNGAKLAVKEINAAGGV-LGKKIELVVEDNKSDKEEAANAATRLIDQDKVVAIIGPVTSGA 79 (334)
T ss_pred CeeEEecCCchhhhcCHhHHHHHHHHHHHHHhcCCC-CCeeEEEEEecCCCChHHHHHHHHHHhcccCeEEEEcCCccHh
Confidence 5999999984 45677889999999999999987 58999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHH-HHcCCcEEEEEEecC-CcccchHHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDD-DQGRNGVTALGD 181 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l-~~~~W~~v~ii~~~~-~~g~~~~~~l~~ 181 (549)
+.+++++++..+||+|+++++.+.+++. .+++||+.|++..++.++++++ ++++|++|++|+.++ +|+....+.++.
T Consensus 80 ~~~v~~~~~~~~ip~i~~~~~~~~~~~~-~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~~~~~~~~~ 158 (334)
T cd06347 80 TLAAGPIAEDAKVPMITPSATNPKVTQG-KDYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYSKGLAKAFKE 158 (334)
T ss_pred HHHhHHHHHHCCCeEEcCCCCCCCcccC-CCeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchhHHHHHHHHH
Confidence 9999999999999999998777666653 2489999999988999999987 567999999999875 788888889999
Q ss_pred HHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccC
Q 008912 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (549)
Q Consensus 182 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (549)
.+++.|++++....++.. ..++...++++++.++++|++.+.......+++++.+.|+. ..|+.++.|.....
T Consensus 159 ~~~~~g~~v~~~~~~~~~----~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~---~~i~~~~~~~~~~~ 231 (334)
T cd06347 159 AFKKLGGEIVAEETFNAG----DTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQARELGIK---VPILGGDGWDSPKL 231 (334)
T ss_pred HHHHcCCEEEEEEEecCC----CCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHHHHcCCC---CcEEecccccCHHH
Confidence 999999999988777754 56799999999999999999999999999999999998863 35776665543210
Q ss_pred CCCcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccC
Q 008912 262 SKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (549)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~ 339 (549)
. ........|+.....+.+ ..+..++|.+.|+++++ ..+..++...||+++++++|++++..
T Consensus 232 ~-----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~yda~~~~~~Al~~ag~--------- 295 (334)
T cd06347 232 E-----EAGGAAAEGVYFTTHFSADDPTPKAKKFVKAYKAKYG--KEPDAFAALGYDAYYLLADAIERAGS--------- 295 (334)
T ss_pred H-----HHHHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC--CCcchhHHHHHHHHHHHHHHHHHhCC---------
Confidence 0 122346777766655444 35778999999998886 45777888999999999999987421
Q ss_pred CccccCCCCCccccCCccccCchHHHHHHHHhc-cccccceeeEEccCCCCCCC
Q 008912 340 DTKLNGLGGGTLNLGALSIFDGGKKFLANILQT-NMTGLSGPIHFNQDRSLLHP 392 (549)
Q Consensus 340 ~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~-~f~g~tG~v~fd~~g~r~~~ 392 (549)
. ++..+.+.|++. .|+|++|++.|+++|+....
T Consensus 296 -------------------~-~~~~v~~~l~~~~~~~g~~G~v~f~~~g~~~~~ 329 (334)
T cd06347 296 -------------------T-DPEAIRDALAKTKDFDGVTGKITIDENGNPVKS 329 (334)
T ss_pred -------------------C-CHHHHHHHHHhCCCcccceeeeEECCCCCcCCC
Confidence 0 377888888765 69999999999999886433
No 53
>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=2.4e-33 Score=277.50 Aligned_cols=341 Identities=9% Similarity=0.047 Sum_probs=267.4
Q ss_pred EEEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCch
Q 008912 27 LNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (549)
Q Consensus 27 i~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~ 102 (549)
|+||++.|++ +..|....+++++|+++||+++|++ |++|+++++|++++|..+++.+.+|+.+ +|.+|||+.+|.
T Consensus 1 IkIG~~~plSG~~a~~G~~~~~G~~lAv~~iNa~GGi~-Gr~ielv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~ 79 (374)
T TIGR03669 1 IKLGVLEDRSGNFALVGTPKWHASQLAIEEINKSGGIL-GRQIELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSA 79 (374)
T ss_pred CEEEEEeCCCCCchhccHHHHHHHHHHHHHHHhcCCCC-CceeEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchH
Confidence 6899999998 4567889999999999999999996 8999999999999999999999999975 899999999999
Q ss_pred HHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHH
Q 008912 103 MAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD 181 (549)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~ 181 (549)
.+.++.+++...++|+|.... ... ...+|+||+.|++..++.++++++....-+++++|+.+++||+.....+..
T Consensus 80 ~~~A~~~~~~~~~~~~i~~~~----~~~~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g~~va~l~~d~~~g~~~~~~~~~ 155 (374)
T TIGR03669 80 TREAIRPIIDRNEQLYFYTNQ----YEGGVCDEYTFAVGATARQQLGTVVPYMVEEYGKKIYTIAADYNFGQLSADWVRV 155 (374)
T ss_pred HHHHHHHHHHhcCceEEcCcc----cccccCCCCEEEcCCChHHHHHHHHHHHHHcCCCeEEEEcCCcHHHHHHHHHHHH
Confidence 999999999999999996421 122 235899999999999999999998754336899999999999999999999
Q ss_pred HHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccC
Q 008912 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (549)
Q Consensus 182 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (549)
.+++.|++++....++.+ ..|+..++.+|+++++++|++.....+...++++++++|+..+ ++..........
T Consensus 156 ~~~~~G~~vv~~~~~~~g----~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~~~~G~~~~---~~~~~~~~~~~~ 228 (374)
T TIGR03669 156 IAKENGAEVVGEEFIPLS----VSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQAASANLNLP---MGTSTAMAQGYE 228 (374)
T ss_pred HHHHcCCeEEeEEecCCC----cchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHHHHcCCCCc---ccchhhhhhhhh
Confidence 999999999988888755 7899999999999999999998888888899999999998533 222111111000
Q ss_pred CCCcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccC
Q 008912 262 SKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (549)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~ 339 (549)
.. ........|+++...+.+ ..+..++|.+.|+++|+....+..++...||+++++++|++++.+
T Consensus 229 ~~----~~~~~~~~g~~~~~~~~~~~~~~~~~~F~~~y~~~~g~~p~~~~~a~~~Yda~~~l~~Ai~~AGs--------- 295 (374)
T TIGR03669 229 HK----RFEPPALKDVYAGVNYMEEIDTPENEAFVERFYAKFPDAPYINQEAENNYFSVYMYKQAVEEAGT--------- 295 (374)
T ss_pred hh----hcCchhhCCcEEeeeccccCCCHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHhCC---------
Confidence 00 001123456655544433 457789999999999864333456678899999999999998621
Q ss_pred CccccCCCCCccccCCccccCchHHHHHHHHh-ccccccceeeEEccCCCCCCCceEEEEEeeCceeeEEeEee
Q 008912 340 DTKLNGLGGGTLNLGALSIFDGGKKFLANILQ-TNMTGLSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWS 412 (549)
Q Consensus 340 ~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~-~~f~g~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~~VG~w~ 412 (549)
. ++..+.++|++ ..|.++.|+++||++++.....+.|.+++.++.+..+..|.
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 1 37889999997 57999999999998765444445566665444334444443
No 54
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=100.00 E-value=1e-33 Score=279.56 Aligned_cols=314 Identities=18% Similarity=0.181 Sum_probs=264.5
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~ 104 (549)
+||++.|++ +..|.....++++|+++||+.+|++ |++|+++++|+++++..+++.++++++++|.+||||.+|..+
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 KIGVIDPLSGPFASLGELVRRGLQLAADEINAKGGVD-GRPIELVEEDNKGSPQEALRKAQKAIDDGVRLVVQGNSSSVA 79 (342)
T ss_pred CeeeeccCCCCcccccHHHHHHHHHHHHHHHhcCCcC-CeEEEEEeccCCCChHHHHHHHHHHHHhCCeEEEcccchHHH
Confidence 589999997 3467888999999999999999985 899999999999999999999999999999999999999999
Q ss_pred HHH-------HHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcC-CcEEEEEEecCCcccch
Q 008912 105 HVL-------SHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFG-WGEVIAIFNDDDQGRNG 175 (549)
Q Consensus 105 ~~v-------a~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~-W~~v~ii~~~~~~g~~~ 175 (549)
.++ ++++..+++|+|+++++++.+++ +.++|+||+.|++..++.++++++.+.+ |+++++++.++.||...
T Consensus 80 ~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g~~~ 159 (342)
T cd06329 80 LALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWGQDV 159 (342)
T ss_pred HHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcceEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHHHHH
Confidence 988 78888999999998877777776 4679999999999999999999998876 99999999999999999
Q ss_pred HHHHHHHHhh--cCeEEEEEEccCCCCCCCh-hhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 176 VTALGDKLAE--IRCKISYKSALPPDQSVTE-TDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 176 ~~~l~~~~~~--~g~~v~~~~~~~~~~~~~~-~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
.+.+.+.+++ .|++|+....++.. . +|+..++.++++.++++|++.....+...+++++++.|+.. .++.
T Consensus 160 ~~~~~~~~~~~~~G~~vv~~~~~~~~----~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~---~~~~ 232 (342)
T cd06329 160 AAAFKAMLAAKRPDIQIVGEDLHPLG----KVKDFSPYVAKIKASGADTVITGNWGNDLLLLVKQAADAGLKL---PFYT 232 (342)
T ss_pred HHHHHHHHHhhcCCcEEeceeccCCC----CCCchHHHHHHHHHcCCCEEEEcccCchHHHHHHHHHHcCCCc---eEEe
Confidence 9999999999 99999887777644 5 78999999999999999999888888899999999999843 2444
Q ss_pred eCCcccccCCCCcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHh
Q 008912 253 TTWLSTFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLD 330 (549)
Q Consensus 253 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~ 330 (549)
.......+ . ........|.+....+.+ ..+..++|.++|+++++ ..++.++...||+++++++|+++...
T Consensus 233 ~~~~~~~~-~-----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~y~~~~~~~~a~~~ag~ 304 (342)
T cd06329 233 PYLDQPGN-P-----AALGEAGLGLVVAVAYWHPNDTPANRAFVEAFKAKYG--RVPDYYEGQAYNGIQMLADAIEKAGS 304 (342)
T ss_pred ccccchhH-H-----HhhcccccceEEeeeccCCCCCHHHHHHHHHHHHHhC--CCCCchHHHHHHHHHHHHHHHHHhCC
Confidence 43322211 0 122234567666555433 35778999999998886 45677788999999999999997411
Q ss_pred cCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccC
Q 008912 331 QGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQD 386 (549)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~ 386 (549)
- ++..+.++|++++|++..|++.|++.
T Consensus 305 ----------------------------~-~~~~v~~al~~~~~~~~~g~~~~~~~ 331 (342)
T cd06329 305 ----------------------------T-DPEAVAKALEGMEVDTPVGPVTMRAS 331 (342)
T ss_pred ----------------------------C-CHHHHHHHHhCCccccCCCCeEEccc
Confidence 0 37889999999999999999999863
No 55
>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=2e-33 Score=276.75 Aligned_cols=320 Identities=15% Similarity=0.133 Sum_probs=264.3
Q ss_pred EEEEEeccCC---CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||+++|++. ..|.....++++|+++||+++|+ .|++|+++++|++++|..+++.+++|+++ +|.+|+|+.+|..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~gGi-~G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~ 79 (333)
T cd06331 1 KIGLLFSLSGPAAISEPSLRNAALLAIEEINAAGGI-LGRPLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSAS 79 (333)
T ss_pred CeEEEecCCCccccccHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHH
Confidence 5999999983 45778899999999999999998 48999999999999999999999999987 9999999999999
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~ 183 (549)
+.++.++++..++|+|++...... ...+++||+.|+...++.++++++...+|++|++|+.++.||+.....+.+.+
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~~~~ 156 (333)
T cd06331 80 RKAVLPVVERGRGLLFYPTQYEGG---ECSPNVFYTGATPNQQLLPLIPYLMEKYGKRFYLIGSDYVWPRESNRIARALL 156 (333)
T ss_pred HHHHHHHHHhcCceEEeCCCCCCC---cCCCCeEEccCChHHhHHHHHHHHHHhcCCeEEEECCCchhHHHHHHHHHHHH
Confidence 999999999999999986543221 23589999999999999999998877679999999999999999999999999
Q ss_pred hhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCC
Q 008912 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (549)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (549)
++.|.+|+....++.. .+|+..++.++++.++++|++.+...+...+++++.+.|+..... ++........ ...
T Consensus 157 ~~~G~~vv~~~~~~~~----~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~~~-~~~~~~~~~~-~~~ 230 (333)
T cd06331 157 EELGGEVVGEEYLPLG----TSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQFAAAGLDADRI-PILSLTLDEN-ELA 230 (333)
T ss_pred HHcCCEEEEEEEecCC----cccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHHcCCCcCCC-eeEEcccchh-hhh
Confidence 9999999988888855 688999999999999999999999999999999999999863333 3333222111 110
Q ss_pred CcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCc
Q 008912 264 SPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (549)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 341 (549)
........|++...++.+ ..+..+.|.++|+++++....++.++...||++++++.|++++..
T Consensus 231 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~A~~~ag~----------- 295 (333)
T cd06331 231 ----AIGAEAAEGHYSAASYFQSLDTPENKAFVARYRARYGDDAVINSPAEAAYEAVYLWAAAVEKAGS----------- 295 (333)
T ss_pred ----ccChhhhCCcEeechhhhhcCChhHHHHHHHHHHHcCCCcCCCchhHHHHHHHHHHHHHHHHcCC-----------
Confidence 011134567777655433 356788999999988864335678889999999999999998411
Q ss_pred cccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCC
Q 008912 342 KLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLL 390 (549)
Q Consensus 342 ~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~ 390 (549)
. ++..|.++|++++|+|++|.+.|++++++.
T Consensus 296 -----------------~-~~~~l~~al~~~~~~~~~G~i~f~~~~~~~ 326 (333)
T cd06331 296 -----------------T-DPEAVRAALEGVSFDAPQGPVRIDPDNHHT 326 (333)
T ss_pred -----------------C-CHHHHHHHhhcCcccCCCCceEecCCCCcc
Confidence 0 378899999999999999999999988764
No 56
>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=6.7e-33 Score=276.38 Aligned_cols=339 Identities=14% Similarity=0.196 Sum_probs=276.4
Q ss_pred CCceEEEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcC
Q 008912 23 KPEVLNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGP 98 (549)
Q Consensus 23 ~~~~i~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp 98 (549)
.+++|+||+++|++ +..|.....++++|++++|+.+|++ |++|+++++|+++++..+++.+.+++.+ +|.+|||+
T Consensus 3 ~~~~i~iG~~~~~sG~~a~~g~~~~~g~~~a~~~~Na~gGi~-G~~i~l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~ 81 (362)
T cd06343 3 TDTEIKIGNTMPLSGPASAYGVIGRTGAAYFFMINNDQGGIN-GRKIELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGG 81 (362)
T ss_pred CCceEEEeeccCCCCchhhhcHHHHHHHHHHHHHHHhcCCcC-CeEEEEEEecCCCChHHHHHHHHHHHhhcCeEEEEec
Confidence 35789999999998 3457788999999999999999985 8999999999999999999999999975 99999999
Q ss_pred CCchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHH-HHcCCcEEEEEEecCCcccchH
Q 008912 99 QSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRNGV 176 (549)
Q Consensus 99 ~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l-~~~~W~~v~ii~~~~~~g~~~~ 176 (549)
.+|..+.+++++++..++|+|++.++.+.+++ +.+||+||+.|++..++.++++++ ++++|+++++|+.++.||....
T Consensus 82 ~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g~~~~ 161 (362)
T cd06343 82 LGTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFGKDYL 161 (362)
T ss_pred CCcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHHHHHH
Confidence 99999999999999999999998777677776 378999999999999999999975 5689999999999999999999
Q ss_pred HHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCc
Q 008912 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWL 256 (549)
Q Consensus 177 ~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 256 (549)
+.+.+.+++.|++++....++.. .+++..++.++++.++++|++.+...+...+++++++.|+... ++..+.+
T Consensus 162 ~~~~~~~~~~G~~vv~~~~~~~~----~~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~ 234 (362)
T cd06343 162 KGLKDGLGDAGLEIVAETSYEVT----EPDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKAAELGWKPT---FLLSSVS 234 (362)
T ss_pred HHHHHHHHHcCCeEEEEeeecCC----CccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHHcCCCce---EEEEecc
Confidence 99999999999999988888754 6789999999999999999999999999999999999997632 5555433
Q ss_pred ccccC-CCCcCChhhHhhccceEEEeEec-------CCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHH
Q 008912 257 STFID-SKSPLSLKTAKSILGALTLRQHT-------PDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLF 328 (549)
Q Consensus 257 ~~~~~-~~~~~~~~~~~~~~g~~~~~~~~-------~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~ 328 (549)
..... .. ........|++....+. ...+..++|.+.|+++++....++.+....||++.++++|++++
T Consensus 235 ~~~~~~~~----~~~~~~~~g~~~~~~~~~~~~p~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~a~~~a 310 (362)
T cd06343 235 ASVASVLK----PAGLEAAEGVIAAAYLKDPTDPAWADDPGVKEFIAFYKKYFPEGDPPDTYAVYGYAAAETLVKVLKQA 310 (362)
T ss_pred cccHHHHH----HhhhHhhCceEEEEEecCCCccccccCHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHHh
Confidence 22110 10 11123466776655432 23567889999999888643357788889999999999999985
Q ss_pred HhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccc---cc-cceeeEEccCCCCCCCceEEEEEee
Q 008912 329 LDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNM---TG-LSGPIHFNQDRSLLHPSYDIINVIE 401 (549)
Q Consensus 329 ~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f---~g-~tG~v~fd~~g~r~~~~~~I~~~~~ 401 (549)
.. . . ++..+.++|+++++ .+ ..|++.|++++++....+.|.++++
T Consensus 311 g~---~------------------------~-~~~~v~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~ 359 (362)
T cd06343 311 GD---D------------------------L-TRENIMKQAESLKDVLPDLLPGIRINTSPDDHLPIEQMQLMRFEG 359 (362)
T ss_pred CC---C------------------------C-CHHHHHHHHHhCCCCCccccCccceecCccccccceeEEEEEEec
Confidence 21 0 1 37889999999987 33 3358999876655555666666653
No 57
>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=2e-32 Score=270.52 Aligned_cols=328 Identities=18% Similarity=0.230 Sum_probs=265.4
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||++.|++ +..|.....++++|++++|+++|+ +|++|+++++|+++++..+.+.+.+|+.+ +|.+|+|+.+|..
T Consensus 1 ~IG~~~plsG~~a~~G~~~~~g~~~a~~~iN~~ggi-~G~~i~l~~~D~~~~~~~a~~~a~~li~~~~V~~i~G~~~s~~ 79 (340)
T cd06349 1 LIGVAGPLTGDNAQYGTQWKRAFDLALDEINAAGGV-GGRPLNIVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDFSSGV 79 (340)
T ss_pred CeeEEecCCCcchhcCccHHHHHHHHHHHHHhhCCc-CCeEEEEEEeCCCCChHHHHHHHHHHhccCCeEEEECCCccHh
Confidence 699999998 456888999999999999999999 59999999999999999999999999976 8999999999999
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHH-HHcCCcEEEEEEecCCcccchHHHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l-~~~~W~~v~ii~~~~~~g~~~~~~l~~~ 182 (549)
+.+++++++..++|+|+++++.+.+++ ..+|+||+.|++..+..++++++ ++++|+++++++.+++||....+.+.+.
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~ 158 (340)
T cd06349 80 SMAASPIYQRAGLVQLSPTNSHPDFTK-GGDFIFRNSTSQAIEAPLLADYAVKDLGFKKVAILSVNTDWGRTSADIFVKA 158 (340)
T ss_pred HHHhHHHHHhCCCeEEecCCCCCcccc-CCCeEEEccCCcHHHHHHHHHHHHHHcCCcEEEEEecCChHhHHHHHHHHHH
Confidence 999999999999999998777666654 35899999999999999999986 6789999999999999999999999999
Q ss_pred HhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCC
Q 008912 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (549)
Q Consensus 183 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (549)
+++.|++++....+++. ..++...+.+++.+++++|++.+...+...+++++.+.|+..+ ++...........
T Consensus 159 ~~~~g~~v~~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~~~ 231 (340)
T cd06349 159 AEKLGGQVVAHEEYVPG----EKDFRPTITRLRDANPDAIILISYYNDGAPIARQARAVGLDIP---VVASSSVYSPKFI 231 (340)
T ss_pred HHHcCCEEEEEEEeCCC----CCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCCCCc---EEccCCcCCHHHH
Confidence 99999999987777754 6789999999999999999999999999999999999997532 4443322111000
Q ss_pred CCcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCC
Q 008912 263 KSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (549)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~ 340 (549)
........|++....+.+ ..+..++|.++|+++++ ..++.++...||++.++++|++++.. .
T Consensus 232 -----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~p~~~~~~~y~~~~~~~~a~~~ag~---~------ 295 (340)
T cd06349 232 -----ELGGDAVEGVYTPTAFFPGDPRPEVQSFVSAYEAKYG--AQPDAFAAQAYDAVGILAAAVRRAGT---D------ 295 (340)
T ss_pred -----HHhHHHhCCcEEecccCCCCCCHHHHHHHHHHHHHHC--CCcchhhhhHHHHHHHHHHHHHHhCC---C------
Confidence 112235678777665544 35678999999988886 34677889999999999999998521 0
Q ss_pred ccccCCCCCccccCCccccCchHHHHHH-HHhccccccceeeEEccC-CCCCCCceEEEEEee
Q 008912 341 TKLNGLGGGTLNLGALSIFDGGKKFLAN-ILQTNMTGLSGPIHFNQD-RSLLHPSYDIINVIE 401 (549)
Q Consensus 341 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~-l~~~~f~g~tG~v~fd~~-g~r~~~~~~I~~~~~ 401 (549)
....+... +.+..+.+.+|.++|+++ ++. ...|.++.+++
T Consensus 296 --------------------~~~~~~~~~~~~~~~~~~~g~i~~~~~~~~~-~~~~~~~~~~~ 337 (340)
T cd06349 296 --------------------RRAARDGFAKAEDVYSGVTGSTKFDPNTRRV-IKRFVPLVVRN 337 (340)
T ss_pred --------------------CHHHHHHHHHhccCcccceEeEEECCCCCCc-cCceEEEEEeC
Confidence 12223232 245567899999999987 554 34676666543
No 58
>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=1.2e-32 Score=272.97 Aligned_cols=322 Identities=17% Similarity=0.147 Sum_probs=262.9
Q ss_pred EEEEEeccCCC---CchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFGTV---NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~~~---~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||+++|++.. .|.....++++|+++||+++++ +|++|++++.|+++++..+++.+++++.+ +|.+||||.++..
T Consensus 1 ~iG~l~p~sG~~a~~g~~~~~g~~~a~~~iN~~ggi-~G~~v~~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~s~~ 79 (346)
T cd06330 1 KIGVITFLSGRAAIFGEPARNGAELAVEEINAAGGI-GGRKIELVVRDEAGKPDEAIREARELVENEGVDMLIGLISSGV 79 (346)
T ss_pred CeeEEeecCCchhhhcHHHHHHHHHHHHHHhhcCCc-CCeEEEEEEecCCCCHHHHHHHHHHHHhccCCcEEEcccchHH
Confidence 59999999844 4778899999999999999988 58999999999999999999999999997 9999999999999
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcC--CcEEEEEEecCCcccchHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFG--WGEVIAIFNDDDQGRNGVTALG 180 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~--W~~v~ii~~~~~~g~~~~~~l~ 180 (549)
+.+++++++..++|+|++.++++.+.+ ..++++||+.|++..+..++++++++++ |++|++|+.++++|....+.++
T Consensus 80 ~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~ 159 (346)
T cd06330 80 ALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYGQDAWADFK 159 (346)
T ss_pred HHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHHHHHHHHHH
Confidence 999999999999999998877777766 4689999999999999999999998874 9999999999999999999999
Q ss_pred HHHhhcCe--EEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCccc
Q 008912 181 DKLAEIRC--KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLST 258 (549)
Q Consensus 181 ~~~~~~g~--~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~ 258 (549)
+.+++.|+ .++....++. ..+++...+.+|+..++++|++.+...+...+++++++.|+.. +..|+.+.....
T Consensus 160 ~~~~~~g~~~~~v~~~~~~~----~~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~ 234 (346)
T cd06330 160 AALKRLRPDVEVVSEQWPKL----GAPDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQANARGLFD-GTTVVLTLTGAP 234 (346)
T ss_pred HHHHHhCCCCeecccccCCC----CCcccHHHHHHHHhcCCCEEEEecccccHHHHHHHHHhcCccc-CceEEeeccchh
Confidence 99998854 4444433332 3678999999999999999999988888999999999999854 567777664332
Q ss_pred ccCCCCcCChhhHhhccceEEEeE--ecC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCC
Q 008912 259 FIDSKSPLSLKTAKSILGALTLRQ--HTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNT 334 (549)
Q Consensus 259 ~~~~~~~~~~~~~~~~~g~~~~~~--~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~ 334 (549)
.+. ........|++.... +.. ..+..++|.++|+++++ ..++.++...||+++++++|++++.....
T Consensus 235 ~~~------~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~g--~~p~~~~~~~y~a~~~l~~a~~~a~~~~~- 305 (346)
T cd06330 235 ELA------PLGDEMPEGVIIGGRGPYFIPPDTPENKAFVDAYQEKYG--DYPTYGAYGAYQAVMALAAAVEKAGATDG- 305 (346)
T ss_pred hhh------hhhcccCCceEEeccccCCCCCCChHHHHHHHHHHHHHC--CCCChHHHHHHHHHHHHHHHHHHhcCCCC-
Confidence 211 111234456544332 111 46778999999999886 45667788999999999999998643211
Q ss_pred ccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCC
Q 008912 335 ISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRS 388 (549)
Q Consensus 335 ~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~ 388 (549)
..+ ...+.++|++++|.|+.|++.|+++.+
T Consensus 306 -----------------------~~~-~~~v~~al~~~~~~~~~G~~~f~~~~~ 335 (346)
T cd06330 306 -----------------------GAP-PEQIAAALEGLSFETPGGPITMRAADH 335 (346)
T ss_pred -----------------------CCc-HHHHHHHHcCCCccCCCCceeeecCCC
Confidence 011 257999999999999999999988543
No 59
>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=8.1e-33 Score=272.49 Aligned_cols=318 Identities=16% Similarity=0.138 Sum_probs=264.8
Q ss_pred EEEEEeccCCCC----chHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCch
Q 008912 28 NVGAIFSFGTVN----GQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (549)
Q Consensus 28 ~IG~l~~~~~~~----g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~ 102 (549)
+||+++|++... |.....++++|+++|| +|+ .|++|+++++|++++|..+++.+.+++++ +|.+|||+.+|.
T Consensus 1 ~IG~l~plsG~~~a~~g~~~~~g~~la~~~iN--ggi-~G~~v~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~ 77 (334)
T cd06327 1 KIGVLTDMSGVYADAEGKGSVEAAELAVEDFG--GGV-LGRPIELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSA 77 (334)
T ss_pred CcccccCCCCcCccccCHHHHHHHHHHHHHhc--CCc-cCeEEEEEEecCCCCchHHHHHHHHHHhhcCceEEECCccHH
Confidence 589999997444 7788999999999999 777 48999999999999999999999999987 999999999999
Q ss_pred HHHHHHHhhhhcCCcEEecccCCCCCCCC-CCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHH
Q 008912 103 MAHVLSHLANELQVPLLSFTALDPTLSPL-QYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD 181 (549)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~-~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~ 181 (549)
.+.+++++++..++|+|+++++++.+++. .+||+||+.|++..++.++++++...+++++++++.++.||+.....+++
T Consensus 78 ~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~ 157 (334)
T cd06327 78 VALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFGHSLERDARK 157 (334)
T ss_pred HHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHhHHHHHHHHH
Confidence 99999999999999999998888777763 47999999999999999999998887899999999999999999999999
Q ss_pred HHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccC
Q 008912 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (549)
Q Consensus 182 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (549)
.+++.|++++....++.. .+++..++.+++..++++|++.+.......+++++++.|+.. ...++....+.....
T Consensus 158 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~ 232 (334)
T cd06327 158 VVKANGGKVVGSVRHPLG----TSDFSSYLLQAQASGADVLVLANAGADTVNAIKQAAEFGLTK-GQKLAGLLLFLTDVH 232 (334)
T ss_pred HHHhcCCEEcCcccCCCC----CccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHHHHhCCcc-CCcEEEecccHHHHH
Confidence 999999999988777754 678999999999999999999999999999999999999752 333333322211100
Q ss_pred CCCcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccC
Q 008912 262 SKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (549)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~ 339 (549)
........|++...++.+ ..+..++|.+.|+++++ ..+..++...||+++++++|++++...
T Consensus 233 ------~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g--~~p~~~~~~~Y~~~~~~~~A~~~ag~~-------- 296 (334)
T cd06327 233 ------SLGLDAAQGLYLTTAWYWDLPNDETRAFVKRFQAKYG--KMPSMVQAGAYSAVLHYLKAVEAAGTD-------- 296 (334)
T ss_pred ------hhchhhhcCeEEeeeccccCCCHHHHHHHHHHHHHHC--cCCCcHHHHHHHHHHHHHHHHHHHCCC--------
Confidence 011235677777665533 36778999999999986 347778889999999999999986221
Q ss_pred CccccCCCCCccccCCccccCchHHHHHHHHhcc-ccccceeeEEcc-CCCCC
Q 008912 340 DTKLNGLGGGTLNLGALSIFDGGKKFLANILQTN-MTGLSGPIHFNQ-DRSLL 390 (549)
Q Consensus 340 ~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~-f~g~tG~v~fd~-~g~r~ 390 (549)
++..+.++|+++. +++..|+++|+. +|+..
T Consensus 297 ---------------------~~~~v~~al~~~~~~~~~~g~~~~~~~~~~~~ 328 (334)
T cd06327 297 ---------------------DADKVVAKMKETPIYDLFAGNGYIRACDHQMV 328 (334)
T ss_pred ---------------------ChHHHHHhccccceeccCCCCceeeccccchh
Confidence 3567999999986 588889999987 66543
No 60
>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-32 Score=269.69 Aligned_cols=318 Identities=14% Similarity=0.120 Sum_probs=256.9
Q ss_pred EEEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCch
Q 008912 27 LNVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (549)
Q Consensus 27 i~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~ 102 (549)
|+||++.|++ +..|.....++++|+++||+++|++ |++|+++++|+.++|..+++.+.+|+++ +|.+|+|+.+|.
T Consensus 1 I~IG~l~plsG~~a~~g~~~~~g~~lav~~iN~~GGi~-G~~i~l~~~Dd~~~p~~a~~~a~~Lv~~~~V~~iiG~~~S~ 79 (359)
T TIGR03407 1 IKVGILHSLSGTMAISETTLKDAELMAIEEINASGGVL-GKKIEPVVEDGASDWPTFAEKARKLITQDKVAAVFGCWTSA 79 (359)
T ss_pred CeEEEEeCCCCchhhcchhHHHHHHHHHHHHHhcCCCC-CcEEEEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCCcHH
Confidence 6899999998 3567778999999999999999996 8999999999999999999999999975 899999999999
Q ss_pred HHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHH-cCCcEEEEEEecCCcccchHHHHHH
Q 008912 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFNDDDQGRNGVTALGD 181 (549)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~-~~W~~v~ii~~~~~~g~~~~~~l~~ 181 (549)
.+.++.+++...++|++.+.... .+...|++||+.+++..++.++++++.. .|.+++++++.+++||....+.+++
T Consensus 80 ~~~a~~~~~~~~~~~~i~~~~~~---~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l~~d~~~g~~~~~~~~~ 156 (359)
T TIGR03407 80 SRKAVLPVFEENNGLLFYPVQYE---GEECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLLGSDYVFPRTANKIIKA 156 (359)
T ss_pred HHHHHHHHHhccCCceEeCCccc---CcccCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEecCccHHHHHHHHHHHH
Confidence 99999999999999999764211 1234689999999999999999998876 5999999999999999998889999
Q ss_pred HHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccC
Q 008912 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFID 261 (549)
Q Consensus 182 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~ 261 (549)
.+++.|++++....++.. ..|+..++.+|++.++++|++.........+++++++.|+......++..........
T Consensus 157 ~~~~~G~~vv~~~~~~~~----~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~ 232 (359)
T TIGR03407 157 YLKSLGGTVVGEDYTPLG----HTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQLKNAGITAKDVPVVSFSVAEEEIR 232 (359)
T ss_pred HHHHcCCEEEeeEEecCC----hHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHHHHHcCCCccCCcEEEeecCHHHHh
Confidence 999999999888777754 7899999999999999999988777778889999999998643333444332211111
Q ss_pred CCCcCChhhHhhccceEEEeEe--cCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccC
Q 008912 262 SKSPLSLKTAKSILGALTLRQH--TPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (549)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~--~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~ 339 (549)
. .......|+.....+ ....+..++|.++|+++++....+..++...||++.+++.|++++.+
T Consensus 233 ~------~g~~~~~G~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~y~a~~~~~~A~~~ag~--------- 297 (359)
T TIGR03407 233 G------IGPENLVGHLAAWNYFQSVDTPANKKFVKAFKAKYGDDRVTNDPMEAAYLGVYLWKAAVEKAGS--------- 297 (359)
T ss_pred h------cChHhhCCeEEeccchhcCCCHHHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHhCC---------
Confidence 0 011345676543222 23557789999999998864333344566789999999999998621
Q ss_pred CccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCC
Q 008912 340 DTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDR 387 (549)
Q Consensus 340 ~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g 387 (549)
. ++..+.++|++++|+++.|+++|++++
T Consensus 298 -------------------~-~~~~i~~al~~~~~~~~~G~i~f~~~~ 325 (359)
T TIGR03407 298 -------------------F-DVDAVRDAAIGIEFDAPEGKVKVDGKN 325 (359)
T ss_pred -------------------C-CHHHHHHHhcCCcccCCCccEEEeCCC
Confidence 1 378899999999999999999999844
No 61
>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=2e-32 Score=269.46 Aligned_cols=324 Identities=14% Similarity=0.188 Sum_probs=261.1
Q ss_pred EEEEEeccCC---CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||+++|++. ..|.....++++|++++| +++ .|++|+++++|+++++..+++.+.+|+.+ +|.+|+|+.+|..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~lAv~~in--ggi-~G~~i~l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~ 77 (333)
T cd06359 1 KIGFITTLSGPAAALGQDMRDGFQLALKQLG--GKL-GGLPVEVVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNV 77 (333)
T ss_pred CeEEEEecccchhhhhHHHHHHHHHHHHHhC--Ccc-CCEEEEEEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHH
Confidence 5999999984 456778999999999998 566 59999999999999999999999999976 9999999999999
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~ 182 (549)
+.++++++...++|+|+++++.+.+.+ ..++|+||+.|++..+..++++++...+|+++++++.++++|+...+.+...
T Consensus 78 ~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g~~~~~~~~~~ 157 (333)
T cd06359 78 LLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAGKDALAGFKRT 157 (333)
T ss_pred HHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhhHHHHHHHHHH
Confidence 999999999999999998766555655 3579999999999999999999999999999999999999999888888776
Q ss_pred HhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCC
Q 008912 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (549)
Q Consensus 183 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (549)
++ .++.....++. ..+|+..++.+++++++++|++.........++++++++|+.. ...++........ ..
T Consensus 158 ~~---~~v~~~~~~~~----~~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~-~~~~~~~~~~~~~-~~ 228 (333)
T cd06359 158 FK---GEVVGEVYTKL----GQLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQYRQAGLKK-DIPLYSPGFSDEE-DT 228 (333)
T ss_pred hC---ceeeeeecCCC----CCcchHHHHHHHHhCCCCEEEEEccCccHHHHHHHHHHcCccc-CCeeeccCcccCH-HH
Confidence 64 34555555553 3678999999999999999999888888899999999999742 3345554433211 00
Q ss_pred CCcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCC
Q 008912 263 KSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (549)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~ 340 (549)
. ........|++....+.+ ..+..++|.+.|+++++ ..+..++...||+++++++|++++...
T Consensus 229 ~----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~yda~~~~~~A~~~ag~~--------- 293 (333)
T cd06359 229 L----PAVGDAALGLYNTAQWAPDLDNPANKKFVADFEKKYG--RLPTLYAAQAYDAAQLLDSAVRKVGGN--------- 293 (333)
T ss_pred H----HhcchhhcCeeeccccCCCCCCHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHHHHHHHHHHhcCC---------
Confidence 0 112245677777665554 45788999999999986 457788899999999999999986211
Q ss_pred ccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEE
Q 008912 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDII 397 (549)
Q Consensus 341 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~ 397 (549)
..++..+.++|+++.|+|++|++.|+++|+. ...+.++
T Consensus 294 ------------------~~~~~~v~~al~~~~~~~~~G~~~~~~~~~~-~~~~~~~ 331 (333)
T cd06359 294 ------------------LSDKDALRAALRAADFKSVRGAFRFGTNHFP-IQDFYLR 331 (333)
T ss_pred ------------------CCCHHHHHHHHhcCccccCccceEECCCCCc-ceeEEEE
Confidence 0037889999999999999999999998874 3444443
No 62
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=9e-33 Score=273.23 Aligned_cols=324 Identities=17% Similarity=0.183 Sum_probs=263.9
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCC-CC--ceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCC
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVL-GG--RKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQS 100 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il-~g--~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~ 100 (549)
+||++.|++ +..|.....++++|++++|+++|++ +| ++|+++++|++++|..+.+.+.+++++ +|.+|||+.+
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 589999998 4457788999999999999999986 45 589999999999999999999999977 9999999999
Q ss_pred chHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHH
Q 008912 101 AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALG 180 (549)
Q Consensus 101 s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~ 180 (549)
+..+.. +++++..++|+|++.+.++.++...++|+||+.|++..++.++++++.+.+|++|++|+.|+.||+...+.++
T Consensus 81 s~~~~~-~~~~~~~~ip~i~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~ 159 (347)
T cd06336 81 GGITAA-QQITERNKVLLLTAYSSDLSIDTAGNPLTFRVPPIYNVYGVPFLAYAKKPGGKKVALLGPNDAYGQPWVAAYK 159 (347)
T ss_pred Cchhhh-hhhhhhcCceEEeccCCcccccccCCceEEEecCCchhHHHHHHHHHhhcCCceEEEEccCCchhHHHHHHHH
Confidence 998888 9999999999999988888776555789999999999999999999988999999999999999999999999
Q ss_pred HHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchH-HHHHHHHHHHHcCCCCCCeEEEEeCCcccc
Q 008912 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFDVAQRLGMMDSGYVWIATTWLSTF 259 (549)
Q Consensus 181 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~il~~a~~~g~~~~~~~~i~~~~~~~~ 259 (549)
+.+++.|++++....++.. ..|+..++.+++++++++|++.+... +...+++++++.|+... ..++........
T Consensus 160 ~~l~~~G~~vv~~~~~~~~----~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~~~~~~ 234 (347)
T cd06336 160 AAWEAAGGKVVSEEPYDPG----TTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQARELGFKGG-FLSCTGDKYDEL 234 (347)
T ss_pred HHHHHcCCEEeeecccCCC----CcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHHHHcCCCcc-EEeccCCCchHH
Confidence 9999999999988777754 78999999999999999999998888 99999999999997642 222211111110
Q ss_pred cCCCCcCChhhHhhccceEEEeEecC----CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCc
Q 008912 260 IDSKSPLSLKTAKSILGALTLRQHTP----DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTI 335 (549)
Q Consensus 260 ~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~ 335 (549)
.. ........|++...+..+ ..+..++|.++|+++++. .+..+....||++.++++|++++...
T Consensus 235 ~~------~~~~~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~--~p~~~~~~~y~~~~~~~~Al~~ag~~---- 302 (347)
T cd06336 235 LV------ATGADFMEGVYFQFPDVDDPALAFPRAKAFVEEYKKRYGE--PPNSEAAVSYDAVYILKAAMEAAGSV---- 302 (347)
T ss_pred HH------HhcHHhhCceEEEeecccccccCCHHHHHHHHHHHHHHCC--CCcHHHHHHHHHHHHHHHHHHhcCCC----
Confidence 10 111245678777766544 467789999999999863 47778889999999999999985211
Q ss_pred cccCCccccCCCCCccccCCccccCchHHHHHHHHh-------ccccccceeeEEccCCCCCCCc
Q 008912 336 SFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQ-------TNMTGLSGPIHFNQDRSLLHPS 393 (549)
Q Consensus 336 ~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~-------~~f~g~tG~v~fd~~g~r~~~~ 393 (549)
+....+...++. ..|.+..|.+.||++|+.+.+.
T Consensus 303 ------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 343 (347)
T cd06336 303 ------------------------DDTAAVAALAAMLGVGKPAFGYARWWGKELFGVNGALVGPW 343 (347)
T ss_pred ------------------------CcHHHHHHHhhccCCCcCccccccccccccccCCCccccCc
Confidence 012333333332 5688899999999999976543
No 63
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=100.00 E-value=4.6e-32 Score=268.77 Aligned_cols=332 Identities=21% Similarity=0.301 Sum_probs=270.7
Q ss_pred eEEEEEEeccCCC---CchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCCCc
Q 008912 26 VLNVGAIFSFGTV---NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-TDTLAIVGPQSA 101 (549)
Q Consensus 26 ~i~IG~l~~~~~~---~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~-~~v~aiiGp~~s 101 (549)
+|+||+++|++.. .|.....++++|++++|+++|++ |++|+++++|+.+++..+.+.+.++++ ++|.+|||+.++
T Consensus 1 ~i~IG~~~~~sG~~a~~g~~~~~g~~~a~~~~N~~ggi~-G~~i~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s 79 (343)
T PF13458_consen 1 PIKIGVLVPLSGPFAPYGQDFLRGAELAVDEINAAGGIN-GRKIELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSS 79 (343)
T ss_dssp SEEEEEEE-SSSTTHHHHHHHHHHHHHHHHHHHHTTEET-TEEEEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSH
T ss_pred CEEEEEEECCCChhhhhhHHHHHHHHHHHHHHHHhCCcC-CccceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCc
Confidence 5899999999854 46678999999999999999995 899999999999999999999999998 799999999999
Q ss_pred hHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHH-HcCCcEEEEEEecCCcccchHHHHH
Q 008912 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVS-YFGWGEVIAIFNDDDQGRNGVTALG 180 (549)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~-~~~W~~v~ii~~~~~~g~~~~~~l~ 180 (549)
..+.++++++...++|+|++++..+ ...++|+||+.|++..++.++++++. +++.+++++|+.++++|+...+.+.
T Consensus 80 ~~~~~~~~~~~~~~ip~i~~~~~~~---~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~~~~~g~~~~~~~~ 156 (343)
T PF13458_consen 80 AQAEAVAPIAEEAGIPYISPSASSP---SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYPDDPYGRSLAEAFR 156 (343)
T ss_dssp HHHHHHHHHHHHHT-EEEESSGGGG---TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCcEEEEeeccCC---CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEecCchhhhHHHHHHH
Confidence 9999999999999999999654332 24578999999999999999999865 5899999999999999999999999
Q ss_pred HHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCccccc
Q 008912 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFI 260 (549)
Q Consensus 181 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 260 (549)
+.+++.|++++....++.. ..++..+++++++.++++|++.+.+.++..+++++.+.|+..+.+.......+...+
T Consensus 157 ~~~~~~G~~vv~~~~~~~~----~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 232 (343)
T PF13458_consen 157 KALEAAGGKVVGEIRYPPG----DTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQLGLKPPRIPLFGTSLDDASL 232 (343)
T ss_dssp HHHHHTTCEEEEEEEE-TT----SSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHTTGCSCTEEEEEGGGSSHHH
T ss_pred HHHhhcCceeccceecccc----cccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhhccccccceeeccccCcHHH
Confidence 9999999998877778755 689999999999999999999999999999999999998764333333333222111
Q ss_pred CCCCcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCcccc
Q 008912 261 DSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (549)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~ 338 (549)
. ........|++....+.+ ..+..++|.++|++.++....++.++...||++.+++.|++++. .
T Consensus 233 ~------~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yda~~~~~~al~~~g----~---- 298 (343)
T PF13458_consen 233 Q------QLGGDALEGVYIVSPWFPDPDSPAVKQFQERYRAAYGEEPPPSLYAAQGYDAARLLAQALERAG----S---- 298 (343)
T ss_dssp H------HHHGGGGTTEEEEESGGGTGGSHHHHHHHHHHHHHHSSTGGTCHHHHHHHHHHHHHHHHHHHHT----S----
T ss_pred H------HhhhhhccCceeecccCCCCCCHHHHHHHHHHHHHcCCCCCCchhHHHHHHHHHHHHHHHHHhC----C----
Confidence 1 111235778887776554 45778999999999997533478889999999999999999861 1
Q ss_pred CCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEe
Q 008912 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI 400 (549)
Q Consensus 339 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~ 400 (549)
. ++..+.++|++++|+|+.|++.|++.+......+.|++++
T Consensus 299 --------------------~-~~~~v~~al~~~~~~g~~g~~~~~~~~~~~~~~~~i~~v~ 339 (343)
T PF13458_consen 299 --------------------L-DREAVREALESLKYDGLFGPISFDPPDHQANKPVYIVQVK 339 (343)
T ss_dssp --------------------H-HHHHHHHHHHTSEEEETTEEEEEETTTSBEEEEEEEEEEE
T ss_pred --------------------C-CHHHHHHHHHhCCCcccccceEEeCCCCccccCeEEEEEe
Confidence 1 4889999999999999999999976555566777787776
No 64
>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=1.5e-31 Score=264.11 Aligned_cols=324 Identities=16% Similarity=0.209 Sum_probs=269.4
Q ss_pred EEEEEeccCCC---CchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCCCchH
Q 008912 28 NVGAIFSFGTV---NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-TDTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~~~---~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~-~~v~aiiGp~~s~~ 103 (549)
+||+++|++.. .|.....++++|++++| +++ .|++|+++++|+.+++..+.+.+.+++. ++|.+|||+.++..
T Consensus 1 ~IG~l~p~sG~~a~~g~~~~~g~~~a~~~~~--~~i-~G~~i~l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~s~~ 77 (336)
T cd06360 1 KVGLLLPYSGTYAALGEDITRGFELALQEAG--GKL-GGREVEFVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVHSGE 77 (336)
T ss_pred CeEEEEecccchHhhcHhHHHHHHHHHHHhC--CCc-CCEEEEEEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCccHh
Confidence 58999999844 45788999999999986 344 6999999999999999999999999987 49999999999988
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCCC-CCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSPL-QYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~-~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~ 182 (549)
+.++.+.+...++|+|+++++++.+++. .+|++||+.|++..++..+++++.+.+|+++++++.++.+|+...+.+.+.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~ 157 (336)
T cd06360 78 ALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEA 157 (336)
T ss_pred HHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 8888999999999999998877777763 479999999999999999999999999999999999999999999999999
Q ss_pred HhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCC
Q 008912 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (549)
Q Consensus 183 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (549)
+++.|+++.....++.. .+|+..++.++++.++++|++.....++..+++++.+.|+.. ...|+.++.+......
T Consensus 158 ~~~~G~~v~~~~~~~~~----~~d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~ 232 (336)
T cd06360 158 FTEAGGKIVKELWVPFG----TSDFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQYDAAGLKA-KIPLIGSGFLTDGTTL 232 (336)
T ss_pred HHHcCCEEEEEEecCCC----CcchHHHHHHHHhcCCCEEEEecccccHHHHHHHHHHcCCcc-CCeEEecccccCHHHH
Confidence 99999999877767644 679999999999999999999888889999999999999742 3355655443221111
Q ss_pred CCcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCC
Q 008912 263 KSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (549)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~ 340 (549)
........|++...++.+ ..+..+.|.+.|+++++ ..++.++...||+++++++|++++....
T Consensus 233 -----~~~g~~~~g~~~~~~~~~~~~~~~~~~f~~~y~~~~~--~~~~~~~~~~yda~~~~~~A~~~a~~~~-------- 297 (336)
T cd06360 233 -----GAAGEAAEGVITALHYADTLDNPANQAFVKAYRAAYP--DTPSVYAVQGYDAGQALILALEAVGGDL-------- 297 (336)
T ss_pred -----HhhHhhhcCceeccccCCCCCCHHHHHHHHHHHHHhC--CCccHHHHHHHHHHHHHHHHHHHhCCCC--------
Confidence 223356677776665443 45778999999999987 4677889999999999999999962210
Q ss_pred ccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCc
Q 008912 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPS 393 (549)
Q Consensus 341 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~ 393 (549)
.++..+.++|+++.|.|..|+++|+++|++....
T Consensus 298 -------------------~~~~~v~~al~~~~~~~~~g~~~f~~~~~~~~~~ 331 (336)
T cd06360 298 -------------------SDGQALIAAMAAAKIDSPRGPFTLDKAHNPIQDN 331 (336)
T ss_pred -------------------CCHHHHHHHHhcCCccCCCcceEECCCCCcccce
Confidence 0367899999999999999999999999876543
No 65
>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=3.2e-31 Score=263.04 Aligned_cols=330 Identities=17% Similarity=0.119 Sum_probs=263.5
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCCCchH
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-TDTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~-~~v~aiiGp~~s~~ 103 (549)
+||+++|++ +..|.....++++|+++||+++|++ |++|+++++|+.++|..++..+.+|++ ++|.+|+|+.+|..
T Consensus 1 kIG~~~plSG~~a~~g~~~~~g~~la~~~iN~~GGi~-G~~ielv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~ 79 (360)
T cd06357 1 RVGVLFSRTGVTAAIERSQRNGALLAIEEINAAGGVL-GRELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSS 79 (360)
T ss_pred CeEEEEcCCCCchhccHHHHHHHHHHHHHHhhcCCCC-CeEEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHH
Confidence 699999998 5578889999999999999999985 899999999999999999999999997 59999999999999
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~ 183 (549)
+.++.++++..++|++++++... + ...+++|++.++...+..++++++...+-+++++|+.|+.||+...+.+.+.+
T Consensus 80 ~~a~~~~~~~~~~~~~~~~~~~~-~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~d~~~g~~~~~~~~~~~ 156 (360)
T cd06357 80 RKAVLPVVERHDALLWYPTLYEG-F--EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVFLVGSNYIYPYESNRIMRDLL 156 (360)
T ss_pred HHHHHHHHHhcCceEEeCCCccC-C--cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEEEECCCCcchHHHHHHHHHHH
Confidence 99999999999999998654221 1 22367888888777778889998877666899999999999999999999999
Q ss_pred hhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCC-cccccCC
Q 008912 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTW-LSTFIDS 262 (549)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~-~~~~~~~ 262 (549)
++.|++++....++.. ....|+..++.+++++++++|++.+....+..++++++++|+... ...+.+.. ....+.
T Consensus 157 ~~~G~~vv~~~~~~~~--~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~~~~~~- 232 (360)
T cd06357 157 EQRGGEVLGERYLPLG--ASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAYAAAGFDPA-RMPIASLTTSEAEVA- 232 (360)
T ss_pred HHcCCEEEEEEEecCC--CchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHHHHcCCCcc-CceeEEeeccHHHHh-
Confidence 9999998876555533 347899999999999999999999999999999999999998643 23333322 111111
Q ss_pred CCcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCC
Q 008912 263 KSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (549)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~ 340 (549)
....+...|+++...+.+ ..+..++|.+.|+++++....++.++...||+++++++|++++..
T Consensus 233 -----~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~g~~~~~~~~~~~~yda~~~l~~Al~~ag~---------- 297 (360)
T cd06357 233 -----AMGAEAAAGHITAAPYFSSIDTPANRAFVARYRARFGEDAPVSACAEAAYFQVHLFARALQRAGS---------- 297 (360)
T ss_pred -----hcchHhhCCcEEecccccccCChhHHHHHHHHHHHcCCCCCCCcHHHHHHHHHHHHHHHHHHcCC----------
Confidence 111245678777655432 457789999999999874333567788999999999999998521
Q ss_pred ccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEE
Q 008912 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINV 399 (549)
Q Consensus 341 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~ 399 (549)
. ++..+.++|++++|++..|.+.|++.++.......+.++
T Consensus 298 ------------------~-~~~~v~~aL~~~~~~~~~g~~~f~~~~~~~~~~~~~~~~ 337 (360)
T cd06357 298 ------------------D-DPEDVLAALLGFSFDAPQGPVRIDPDNNHTYLWPRIARV 337 (360)
T ss_pred ------------------C-CHHHHHHHhccCcccCCCcceEEeCCCCeeeeeeEEEEE
Confidence 0 377899999999999999999999865433333444455
No 66
>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=4e-31 Score=259.78 Aligned_cols=314 Identities=15% Similarity=0.116 Sum_probs=253.6
Q ss_pred EEEEEeccCC---CCchHHHHHHHHHHHHHHc-CCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCch
Q 008912 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINS-DPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (549)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~-~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~ 102 (549)
+||++.|++. ..|.....++++|++++|+ .+++ +|++|++++.|++++|..++..+.+|+.+ +|.+|+|+.+|.
T Consensus 1 ~IG~~~~lsG~~a~~G~~~~~g~~lav~~inn~~ggi-~G~~i~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~ 79 (333)
T cd06328 1 KIGLITDLSGPLAAYGKQTLTGFMLGLEYATGGTMQV-DGRPIEVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSG 79 (333)
T ss_pred CeEEEEecCCchhhhhHHHHHHHHHHHHHHHhcCCCc-CCEEEEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcH
Confidence 5999999984 4677889999999999965 5666 59999999999999999999999999998 999999999999
Q ss_pred HHHHHHHhhhhcCCcEEecccCCCCCCCC-CCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHH
Q 008912 103 MAHVLSHLANELQVPLLSFTALDPTLSPL-QYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGD 181 (549)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~-~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~ 181 (549)
.+.++.++++..++|+|++.++++.+... .++|+||+.+++..+...+++++... +++|++|+.+++||+...+.+++
T Consensus 80 ~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v~~i~~~~~~g~~~~~~~~~ 158 (333)
T cd06328 80 VALAVLPVAEENKKILIVEPAAADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKIATLAQDYAFGRDGVAAFKA 158 (333)
T ss_pred HHHHHHHHHHHhCCcEEecCCCCchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeEEEEecCccccHHHHHHHHH
Confidence 99999999999999999987777777663 46899999988888888888887766 89999999999999999999999
Q ss_pred HHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchH-HHHHHHHHHHHcCCCCCCeEEEEeCCccccc
Q 008912 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVFDVAQRLGMMDSGYVWIATTWLSTFI 260 (549)
Q Consensus 182 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 260 (549)
.+++.|++++....+++. ..|+...+.+++++++++|++...+. ....+++++...|+... ...........
T Consensus 159 ~~~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~~~~~g~~~~---~~~~~~~~~~~ 231 (333)
T cd06328 159 ALEKLGAAIVTEEYAPTD----TTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQMGVLGYGIE---ITLAGDILANL 231 (333)
T ss_pred HHHhCCCEEeeeeeCCCC----CcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHHhhhhcCCCe---EEecccccCcc
Confidence 999999999988888755 77899999999999999998875554 56667777777665421 11111111111
Q ss_pred CCCCcCChhhHhhccceEEEeEec-CCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccC
Q 008912 261 DSKSPLSLKTAKSILGALTLRQHT-PDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSN 339 (549)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~ 339 (549)
.. ........+......+. +..+..+.|.++|+++++ ..++.++...||++.++++|++++..
T Consensus 232 ~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~y~~~~g--~~p~~~~~~~y~a~~~l~~Ai~~ag~--------- 295 (333)
T cd06328 232 TM-----YKAGPGMSGASYYYHYFLPKNPVNDWLVEEHKARFG--SPPDLFTAGGMSAAIAVVEALEETGD--------- 295 (333)
T ss_pred cc-----ccccccccceeeeecCCCCCCHHHHHHHHHHHHHhC--CCcchhhHHHHHHHHHHHHHHHHhCC---------
Confidence 10 01122344555444433 566778899999999986 45777889999999999999998620
Q ss_pred CccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccC
Q 008912 340 DTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQD 386 (549)
Q Consensus 340 ~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~ 386 (549)
. ++..+.++|++.+|+++.|+++|+.+
T Consensus 296 -------------------~-~~~~v~~aL~~~~~~~~~g~~~f~~~ 322 (333)
T cd06328 296 -------------------T-DTEALIAAMEGMSFETPKGTMTFRKE 322 (333)
T ss_pred -------------------C-CHHHHHHHHhCCeeecCCCceEECcc
Confidence 1 37889999999999999999999953
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=4.7e-31 Score=260.96 Aligned_cols=318 Identities=18% Similarity=0.227 Sum_probs=255.6
Q ss_pred EEEEEeccCC---CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||.++|++. ..|.....++++|++++|+++|+. |++|+++++|+++++..+.+.+.+|+++ +|.+|+|+.+|..
T Consensus 1 ~IG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~-G~~i~lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~ 79 (347)
T cd06335 1 KIGVDADFSGGSAPSGVSIRRGARLAIDEINAAGGVL-GRKLELVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPV 79 (347)
T ss_pred CeeeecCccCccccccHHHHHHHHHHHHHHHhcCCcC-CeEEEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHH
Confidence 5999999984 567888999999999999999985 8999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCC--CCCCceEEccCCcHHHHHHHHHHHH-HcCCcEEEEEEecCCcccchHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVS-YFGWGEVIAIFNDDDQGRNGVTALG 180 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~--~~~~~~~r~~ps~~~~~~ai~~~l~-~~~W~~v~ii~~~~~~g~~~~~~l~ 180 (549)
+.+++.+++..+||+|++.++.+.+++ ..++|+||+.|++..++.++++++. +.+|++|+++|.+++||+.....+.
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~ 159 (347)
T cd06335 80 ALANLEFIQQNKIPLIGPWAAGTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKKVALLLDNTGWGRSNRKDLT 159 (347)
T ss_pred HHhhhHHHHhcCCcEEecCCCCcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCeEEEEeccCchhhhHHHHHH
Confidence 999999999999999998777666654 3468999999999999999999875 4669999999999999999999999
Q ss_pred HHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCccccc
Q 008912 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFI 260 (549)
Q Consensus 181 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~ 260 (549)
+.+++.|+++.....++.. ..++...+.+|++.++++|++.+.......+++++++.|+.. .++..+.....
T Consensus 160 ~~~~~~G~~v~~~~~~~~~----~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~~~g~~~----~~~~~~~~~~~ 231 (347)
T cd06335 160 AALAARGLKPVAVEWFNWG----DKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGMAKLGWKV----PIISHWGLSGG 231 (347)
T ss_pred HHHHHcCCeeEEEeeecCC----CccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHHHHcCCCC----cEecccCCcCc
Confidence 9999999999988888755 678999999999999999999999999999999999999743 22222111110
Q ss_pred CCCCcCChhhHhhccceEEEeEec---CCChhHHHHHHHHHhhcCCCC----CCCchhhhHhHHHHHHHHHHHHHHhcCC
Q 008912 261 DSKSPLSLKTAKSILGALTLRQHT---PDSKRRRDFVSRWNTLSNGSI----GLNPYGLYAYDTVWMIARALKLFLDQGN 333 (549)
Q Consensus 261 ~~~~~~~~~~~~~~~g~~~~~~~~---~~~~~~~~f~~~~~~~~~~~~----~~~~~~~~~yDav~~~a~Al~~~~~~~~ 333 (549)
... ........|++....+. +..+..++|.++|+++++... .++.++..+||+++++++|++++...
T Consensus 232 ~~~----~~~g~~~~g~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~aYd~~~~l~~A~~~ag~~-- 305 (347)
T cd06335 232 NFI----EGAGPAANDALMIQTFIFEPPSNPKAKAFLAAYHKKYPEKKPADIPAPVGAAHAYDAVHLLAAAIKQAGST-- 305 (347)
T ss_pred hhh----hccchhhcCcEEEEeeccccCCCHHHHHHHHHHHHHhCCCcccccCcchhHHHHHHHHHHHHHHHHHhcCC--
Confidence 110 11123456766554322 246788999999999986432 34556778999999999999985210
Q ss_pred CccccCCccccCCCCCccccCCccccCchHHHHHHHHhcc--cccccee--eEEccCC
Q 008912 334 TISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTN--MTGLSGP--IHFNQDR 387 (549)
Q Consensus 334 ~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~--f~g~tG~--v~fd~~g 387 (549)
....+.++|+++. +.|+.|. +.|++..
T Consensus 306 ---------------------------~~~~v~~al~~~~~~~~G~~~~~~~~~~~~~ 336 (347)
T cd06335 306 ---------------------------DGRAIKRALENLKKPVEGLVKTYDKPFSKED 336 (347)
T ss_pred ---------------------------CHHHHHHHHHhccCCceeeecccCCCCChhh
Confidence 2467889998764 6677763 4576543
No 68
>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=100.00 E-value=8.3e-33 Score=273.64 Aligned_cols=368 Identities=19% Similarity=0.303 Sum_probs=291.0
Q ss_pred CCceEEEEEEeccCC-----CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc--CcEEE
Q 008912 23 KPEVLNVGAIFSFGT-----VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET--DTLAI 95 (549)
Q Consensus 23 ~~~~i~IG~l~~~~~-----~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~--~v~ai 95 (549)
..-+..+++++|+.. ..|.....|+++|++++|+++.||||+.|.++..|++|++..+++...+++-. .-..+
T Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~g~~~~Pav~~Al~~vn~~~~ilp~y~L~~~~~ds~C~~~~g~k~~fdll~~~p~k~ml 117 (865)
T KOG1055|consen 38 SRCPRRIVGIGPLGPGSGGWPGGQACLPAVELALEDVNSRSDILPGYRLKLIHHDSECDPGQGTKALYDLLYNGPNKLML 117 (865)
T ss_pred CCCCceeeeeecCccccCCCcCcccccHHHHHHHHHhhccccccCCcEEEEEeccccCCccccHHHHHHHHHcCCchhee
Confidence 334788999999862 33567799999999999999999999999999999999999999999999876 45667
Q ss_pred EcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccc
Q 008912 96 VGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRN 174 (549)
Q Consensus 96 iGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~ 174 (549)
+|+ |+..+..++.-+..|+.-+++|++++|.+++ ++||++||+.||+.......+.++++|+|++|+.++....-...
T Consensus 118 l~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~f~~ 196 (865)
T KOG1055|consen 118 LGG-CSSVTTLIAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEVFSS 196 (865)
T ss_pred ccC-CCCcchHHHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhhhcc
Confidence 777 9999999999999999999999999999999 68999999999999999999999999999999999988877777
Q ss_pred hHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 008912 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (549)
Q Consensus 175 ~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (549)
..+.+...+.+.+++++.+..+. .|....++.++....|+|+-..+...++.+++++++.+|.+..|+|+...
T Consensus 197 ~~~dl~~~~~~~~ieiv~~qsf~-------~dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~Y~~~myg~ky~w~~~g 269 (865)
T KOG1055|consen 197 TLNDLEARLKEAGIEIVFRQSFS-------SDPADSVKNLKRQDARIIVGLFYETEARKVFCEAYKERLYGRKYVWFLIG 269 (865)
T ss_pred hHHHHHHhhhccccEEEEeeccc-------cCHHHHHhhccccchhheeccchHhhhhHHHHhhchhhcccceeEEEEEE
Confidence 88889989999999998876543 34556788999889999999999999999999999999999999999988
Q ss_pred CcccccC-----CCCcCChhhHhhccceEEEeEecCCC--------hhHHHHHHHHHhhcC---CCCCCCchhhhHhHHH
Q 008912 255 WLSTFID-----SKSPLSLKTAKSILGALTLRQHTPDS--------KRRRDFVSRWNTLSN---GSIGLNPYGLYAYDTV 318 (549)
Q Consensus 255 ~~~~~~~-----~~~~~~~~~~~~~~g~~~~~~~~~~~--------~~~~~f~~~~~~~~~---~~~~~~~~~~~~yDav 318 (549)
+....+. .....-++...+..|.+++.....+. -..+.|+..+..... ..........++|||+
T Consensus 270 ~y~d~w~ev~~~~~~ctveem~~A~eg~~s~e~~pl~~~~~~tisg~T~~~~l~~~~~~r~~~~~~~~~~~~~~~ayd~I 349 (865)
T KOG1055|consen 270 WYADNWWEITHPSENCTVEEMTEAAEGHITTEFVMLSPANITTISGMTAQEFLEELTKYRKRHPEETGGFQEAPLAYDAI 349 (865)
T ss_pred eeccchhhccCchhhhhHHHHHHHHhhheeeeeeccccccceeeccchhHHHHHHHHhhhccccccccCcccCchHHHHH
Confidence 6554432 11111245567888888775432111 123445544433221 1223445678899999
Q ss_pred HHHHHHHHHHHhcCCCccccCCccccCCCCCccccCCcccc--CchHHHHHHHHhccccccceeeEEccCCCCCCCceEE
Q 008912 319 WMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIF--DGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDI 396 (549)
Q Consensus 319 ~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~--~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I 396 (549)
|++|+|++++.........+ ...+... .-...|.++|.+++|.|++|.|.|.. |+|. +...|
T Consensus 350 wa~ala~n~t~e~l~~~~~~--------------l~~f~y~~k~i~d~i~eamn~tsF~GvsG~V~F~~-geR~-a~t~i 413 (865)
T KOG1055|consen 350 WALALALNKTMEGLGRSHVR--------------LEDFNYNNKTIADQIYEAMNSTSFEGVSGHVVFSN-GERM-ALTLI 413 (865)
T ss_pred HHHHHHHHHHHhcCCcccee--------------ccccchhhhHHHHHHHHHhhcccccccccceEecc-hhhH-HHHHH
Confidence 99999999987654211100 0011111 12578999999999999999999987 9984 66678
Q ss_pred EEEeeCceeeEEeEeeCCC
Q 008912 397 INVIEHGYPQQIGYWSNYS 415 (549)
Q Consensus 397 ~~~~~~~~~~~VG~w~~~~ 415 (549)
-+++++.. +++|.|+...
T Consensus 414 eQ~qdg~y-~k~g~Yds~~ 431 (865)
T KOG1055|consen 414 EQFQDGKY-KKIGYYDSTK 431 (865)
T ss_pred HHHhCCce-Eeeccccccc
Confidence 88888777 9999998764
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=1.1e-30 Score=256.70 Aligned_cols=318 Identities=13% Similarity=0.099 Sum_probs=255.5
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||++.|++ +..|.....++++|+++||+.+|++ |++|+++.+|++++|..+++.+.+|+.+ +|.+|||+.+|..
T Consensus 1 ~IG~~~~lSG~~a~~G~~~~~g~~la~~~iNa~gGi~-Gr~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~ 79 (334)
T cd06356 1 KVGSLEDRSGNFALYGTPKVHATQLAVDEINASGGIL-GREVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSAS 79 (334)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCCC-CceEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHH
Confidence 599999998 4568889999999999999999985 8999999999999999999999999975 9999999999999
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~ 183 (549)
+.++.++++..++|+|....... +...+|+||+.+++..++.++++++...+-+++++|+.+++||......+.+.+
T Consensus 80 ~~a~~~~~~~~~vp~i~~~~~~~---~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d~~~g~~~~~~~~~~~ 156 (334)
T cd06356 80 REAIRPIMDRTKQLYFYTTQYEG---GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAADYNFGQISAEWVRKIV 156 (334)
T ss_pred HHHHHHHHHhcCceEEeCCCccC---CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCCchhhHHHHHHHHHHH
Confidence 99999999999999998533221 123489999999999999999999887655889999999999999999999999
Q ss_pred hhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCC
Q 008912 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (549)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (549)
++.|++++....++.. ..|++..+.+++..++++|++.........+++++++.|+ .. ...+............
T Consensus 157 ~~~G~~vv~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~-~~-~~~~~~~~~~~~~~~~ 230 (334)
T cd06356 157 EENGGEVVGEEFIPLD----VSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQWAAAGL-GN-IPMASSTLGAQGYEHK 230 (334)
T ss_pred HHcCCEEEeeeecCCC----chhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHHHHHcCC-cc-CceeeeecccchhHHh
Confidence 9999999988888754 7899999999999999999998888888899999999997 11 1122221110000000
Q ss_pred CcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCc
Q 008912 264 SPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDT 341 (549)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~ 341 (549)
........|++....+.+ ..+..++|.+.|+++++....++..+...||+++++++|++++.+
T Consensus 231 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~p~~~~~~~~~y~a~~~~~~A~~~ag~----------- 295 (334)
T cd06356 231 ----RLKPPALKDMYATANYIEELDTPANKAFVERFRAKFPDAPYINEEAENNYEAIYLYKEAVEKAGT----------- 295 (334)
T ss_pred ----ccCchhcCCeEEecchhhhcCCHHHHHHHHHHHHHcCCCCCCCchhHHHHHHHHHHHHHHHHHCC-----------
Confidence 001134567666554332 356789999999999864222357789999999999999998621
Q ss_pred cccCCCCCccccCCccccCchHHHHHHHHh-ccccccceeeEEccCCC
Q 008912 342 KLNGLGGGTLNLGALSIFDGGKKFLANILQ-TNMTGLSGPIHFNQDRS 388 (549)
Q Consensus 342 ~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~-~~f~g~tG~v~fd~~g~ 388 (549)
. ++..|.++|++ ..|+++.|++.|++.++
T Consensus 296 -----------------~-~~~~v~~aL~~~~~~~~~~g~~~~~~~~h 325 (334)
T cd06356 296 -----------------T-DRDAVIEALESGLVCDGPEGKVCIDGKTH 325 (334)
T ss_pred -----------------C-CHHHHHHHHHhCCceeCCCceEEEecCCC
Confidence 1 37889999997 57899999999997544
No 70
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=100.00 E-value=8e-31 Score=258.47 Aligned_cols=330 Identities=15% Similarity=0.174 Sum_probs=261.3
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||++.|++ +..|.....++++|+++||+.+|++ |++|+++++|++++|..+++.+.+|+.+ +|.+|+ +.+|..
T Consensus 1 kIG~~~plsG~~a~~G~~~~~g~~la~~~iNa~GGI~-Gr~ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~-~~~S~~ 78 (351)
T cd06334 1 KVGLLADRTGPTAFVGIPYAAGFADYFKYINEDGGIN-GVKLEWEECDTGYEVPRGVECYERLKGEDGAVAFQ-GWSTGI 78 (351)
T ss_pred CCCccccCCCcccccChhHHHHHHHHHHHHHHcCCcC-CeEEEEEEecCCCCcHHHHHHHHHHhccCCcEEEe-cCcHHH
Confidence 589999998 4567889999999999999999995 8999999999999999999999999988 787765 578888
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcC-----CcEEEEEEecCCcccchHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFG-----WGEVIAIFNDDDQGRNGVT 177 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~-----W~~v~ii~~~~~~g~~~~~ 177 (549)
+.++++++...++|+|+++++.+.+++ ..++|+||+.|++..++.++++++...+ .++|++|+.+++||....+
T Consensus 79 ~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~ 158 (351)
T cd06334 79 TEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIE 158 (351)
T ss_pred HHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHH
Confidence 999999999999999998766666664 5689999999999999999999987765 6999999999999999999
Q ss_pred HHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcc
Q 008912 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (549)
Q Consensus 178 ~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 257 (549)
.+.+.+++.|++|+....++.. .+|+..++.++++.++++|++.....+...++++++++|+.. .|+...+..
T Consensus 159 ~~~~~~~~~G~~vv~~~~~~~~----~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~~~~G~~~---~~~~~~~~~ 231 (351)
T cd06334 159 ALKALAEKLGFEVVLEPVPPPG----PNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEAKRVGLDD---KFIGNWWSG 231 (351)
T ss_pred HHHHHHHHcCCeeeeeccCCCC----cccHHHHHHHHHHcCCCEEEEecccchHHHHHHHHHHcCCCc---eEEEeeccC
Confidence 9999999999999988877754 789999999999999999999999999999999999999742 255443322
Q ss_pred cccCCCCcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCCC----CCCchhhhHhHHHHHHHHHHHHHHhc
Q 008912 258 TFIDSKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSI----GLNPYGLYAYDTVWMIARALKLFLDQ 331 (549)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~----~~~~~~~~~yDav~~~a~Al~~~~~~ 331 (549)
..... ........|+++..++.+ +.|..++|.+.|+++++... .++.++...||++++++.|++++.+.
T Consensus 232 ~~~~~-----~~~g~~~~g~~~~~~~~~~~~~p~~~~f~~~~~~~~~~~~~~~~~~~~~~~~gy~a~~~l~~Al~~ag~~ 306 (351)
T cd06334 232 DEEDV-----KPAGDAAKGYKGVTPFAGGADDPVGKEIVKEVYDKGKGSGNDKEIGSVYYNRGVVNAMIMVEAIRRAQEK 306 (351)
T ss_pred cHHHH-----HHhhhhhcCcEEeecccCCCCchHHHHHHHHHHHccCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHh
Confidence 11000 122245677776655433 56889999999999886321 34577889999999999999998765
Q ss_pred CCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCC
Q 008912 332 GNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDR 387 (549)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g 387 (549)
.......+. ...+ +-..-.+.+++....|+.|+++|...-
T Consensus 307 ~~~~~~~~~---------------~~~~-~~~~~~~~~~~~~~~g~~~~~~~~~~d 346 (351)
T cd06334 307 GGETTIAGE---------------EQLE-NLKLDAARLEELGAEGLGPPVSVSCDD 346 (351)
T ss_pred cCCCCCcHH---------------HHHH-hhhhhhhhhhhcCcccccCCceecccc
Confidence 432110000 0000 012334566677788999999997643
No 71
>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=8.4e-31 Score=257.90 Aligned_cols=315 Identities=15% Similarity=0.162 Sum_probs=255.7
Q ss_pred EEEEEeccCC---CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||++.|++. ..|.....++++|+++||+.+|+. |++|+++++|++++|..+++.+.+|+.+ +|.+|||+.+|..
T Consensus 1 kIG~~~plsG~~a~~g~~~~~g~~la~~~iN~~gGi~-G~~i~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~ 79 (333)
T cd06358 1 RIGLLVPLSGPAGIFGPSCEAAAELAVEEINAAGGIL-GREVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAV 79 (333)
T ss_pred CeEEEecCcCchhhcchhHHHHHHHHHHHHHhcCCcC-CcEEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHH
Confidence 5999999984 368888999999999999999995 8999999999999999999999999987 8999999999999
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHH-HHcCCcEEEEEEecCCcccchHHHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV-SYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l-~~~~W~~v~ii~~~~~~g~~~~~~l~~~ 182 (549)
+.++.++++ .++|+|++.+.... ..++++||+.+++..++.++++++ +..+|++|++++.++.||+...+.++..
T Consensus 80 a~a~~~~~~-~~vp~i~~~~~~~~---~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g~~~~~~~~~~ 155 (333)
T cd06358 80 RNAVAPVVA-GRVPYVYTSLYEGG---ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWPRGSLAAAKRY 155 (333)
T ss_pred HHHHHHHHh-cCceEEeCCCcCCC---CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhhHHHHHHHHHH
Confidence 999999999 99999997443221 235899999999888887777776 5579999999999999999999999999
Q ss_pred HhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeC-CcccccC
Q 008912 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT-WLSTFID 261 (549)
Q Consensus 183 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~-~~~~~~~ 261 (549)
+++.|+.|+....++.. ..|+..++.++++.++++|++.........+++++++.|+..+ ++... .+.....
T Consensus 156 ~~~~G~~v~~~~~~~~~----~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~~~~G~~~~---~~~~~~~~~~~~~ 228 (333)
T cd06358 156 IAELGGEVVGEEYVPLG----TTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQFAAAGLRDR---ILRLSPLMDENML 228 (333)
T ss_pred HHHcCCEEeeeeeecCC----hHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHHHHHcCCCcc---CceeecccCHHHH
Confidence 99999999987777754 7899999999999999999998888888899999999998643 22221 1111100
Q ss_pred CCCcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCC-CCCCchhhhHhHHHHHHHHHHHHHHhcCCCcccc
Q 008912 262 SKSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGS-IGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (549)
Q Consensus 262 ~~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~-~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~ 338 (549)
. ........|++....+.+ ..+..++|.+.|+++++.. ..+..++...||+++++++|+++...
T Consensus 229 ~-----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~g~~~~~~~~~~~~~yda~~~~~~A~~~ag~-------- 295 (333)
T cd06358 229 L-----ASGAEAAEGLYSSSGYFASLQTPANAAFLARYRARFGDDAPPLNSLSESCYEAVHALAAAAERAGS-------- 295 (333)
T ss_pred H-----hcChHhhCCcEEeccchhhcCCHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHHHHHhCC--------
Confidence 0 001134567666544333 5678899999999998743 23566788899999999999987411
Q ss_pred CCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCC
Q 008912 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRS 388 (549)
Q Consensus 339 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~ 388 (549)
. ++..|.++|++++|+|.+|.+.|++++.
T Consensus 296 --------------------~-~~~~v~~al~~~~~~~~~G~~~~~~~~~ 324 (333)
T cd06358 296 --------------------L-DPEALIAALEDVSYDGPRGTVTMRGRHA 324 (333)
T ss_pred --------------------C-CHHHHHHHhccCeeeCCCcceEEccccc
Confidence 1 3788999999999999999999998864
No 72
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=100.00 E-value=3e-30 Score=254.71 Aligned_cols=319 Identities=17% Similarity=0.251 Sum_probs=258.5
Q ss_pred EEEEEeccCCC---CchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFGTV---NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~~~---~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||+++|++.. .|.....++++|++++| +++ .|++++++++|+.+++..+.+.+.+++.+ +|.+|||+.++..
T Consensus 1 ~IG~~~~~sg~~~~~g~~~~~g~~~a~~~~~--~~i-~G~~i~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~ 77 (333)
T cd06332 1 KIGLLTTLSGPYAALGQDIRDGFELALKQLG--GKL-GGRPVEVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNV 77 (333)
T ss_pred CeEEEeeccCchHhhhHHHHHHHHHHHHHhC--CCc-CCeEEEEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHH
Confidence 59999999844 46678999999999997 455 69999999999999999999999999987 9999999999988
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCCC-CCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSPL-QYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~-~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~ 182 (549)
..++.+.+...++|+|++++..+.+++. .+|++||+.|++..++..+++++...+|+++++|+.++.++....+.+.+.
T Consensus 78 ~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~~~~~~~~~~~ 157 (333)
T cd06332 78 ALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAGKDAVAGFKRT 157 (333)
T ss_pred HHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchhHHHHHHHHHh
Confidence 8888899999999999987776667663 479999999999999999999999999999999999899998888888888
Q ss_pred HhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCC
Q 008912 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (549)
Q Consensus 183 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (549)
++ ..+.....++.. ..++...++++++.++++|++.........+++++++.|+.. ...++.+..+......
T Consensus 158 ~~---~~~~~~~~~~~~----~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~~~~~~~~~ 229 (333)
T cd06332 158 FK---GEVVEEVYTPLG----QLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQYDQAGLKK-KIPLYGPGFLTDQDTL 229 (333)
T ss_pred hc---EEEeeEEecCCC----CcchHHHHHHHHhcCCCEEEEecccchHHHHHHHHHHcCccc-CCceeccCCCCCHHHH
Confidence 77 355555555533 557888999999999999999888788899999999999742 3456665543322100
Q ss_pred CCcCChhhHhhccceEEEeEecC--CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCC
Q 008912 263 KSPLSLKTAKSILGALTLRQHTP--DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSND 340 (549)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~ 340 (549)
........|++...++.+ ..+..++|.+.|+++++ ..+..++...||++++++.|++++...
T Consensus 230 -----~~~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~yda~~~~~~a~~~ag~~--------- 293 (333)
T cd06332 230 -----PAQGDAAVGVLTALHWAPDLDNPANKRFVAAYKAAYG--RVPSVYAAQGYDAAQLLDAALRAVGGD--------- 293 (333)
T ss_pred -----HhhchhhcCeeeeeccCCCCCCHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHHHHHHHHHHhcCC---------
Confidence 122345677777666544 35778999999999987 346778889999999999999986211
Q ss_pred ccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCC
Q 008912 341 TKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLH 391 (549)
Q Consensus 341 ~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~ 391 (549)
..++..+.++|++++|+|++|++.|+++|+...
T Consensus 294 ------------------~~~~~~v~~al~~~~~~~~~g~i~f~~~~~~~~ 326 (333)
T cd06332 294 ------------------LSDKDALRAALRAADFDSPRGPFKFNPNHNPIQ 326 (333)
T ss_pred ------------------CCCHHHHHHHHhcCceecCccceeECCCCCccc
Confidence 013678999999999999999999999988543
No 73
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=99.97 E-value=1.6e-29 Score=237.79 Aligned_cols=315 Identities=15% Similarity=0.112 Sum_probs=226.8
Q ss_pred EEEEEEeccCCCC---chHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCCCch
Q 008912 27 LNVGAIFSFGTVN---GQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-TDTLAIVGPQSAV 102 (549)
Q Consensus 27 i~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~-~~v~aiiGp~~s~ 102 (549)
|+||+|++++... ......+..+|++|||++||++ |++|+.+++|.++|+....+.+.+|+. ++|.+|||.++|.
T Consensus 1 ikVGiL~S~tG~~a~~e~~~~~~~~lAI~eINa~GGvl-G~~le~v~~Dp~Sd~~~ya~~A~~Li~~d~V~~ifGc~TSa 79 (363)
T PF13433_consen 1 IKVGILHSLTGTMAISERSLLDGALLAIEEINAAGGVL-GRQLEPVIYDPASDPSTYAEKAEKLIREDGVRAIFGCYTSA 79 (363)
T ss_dssp --EEEE--SSSTTHHHHHHHHHHHHHHHHHHHCTTTBT-TB--EEEEE--TT-HHHHHHHHHHHHHHS---EEEE--SHH
T ss_pred CeEEEEEeCCCchHhhhHHHHHHHHHHHHHHHhcCCcC-CeEEEEEEECCCCCHHHHHHHHHHHHHhCCccEEEecchhh
Confidence 6899999998654 3466899999999999999997 899999999999999999999999986 5999999999999
Q ss_pred HHHHHHHhhhhcCCcEEecccCCCCCCC--CCCCceEEccCCcHHHHHHHHHH-HHHcCCcEEEEEEecCCcccchHHHH
Q 008912 103 MAHVLSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEM-VSYFGWGEVIAIFNDDDQGRNGVTAL 179 (549)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~--~~~~~~~r~~ps~~~~~~ai~~~-l~~~~W~~v~ii~~~~~~g~~~~~~l 179 (549)
+-.++.++.+.++-+++.+. .-+ ...|+++-+......+...++++ +.++|-+++.+|.+|..|++..-.-+
T Consensus 80 sRKaVlPvvE~~~~LL~Yp~-----~YEG~E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~pre~Nri~ 154 (363)
T PF13433_consen 80 SRKAVLPVVERHNALLFYPT-----QYEGFECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYPRESNRII 154 (363)
T ss_dssp HHHHHHHHHHHCT-EEEE-S-------------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHHHHHHHHH
T ss_pred hHHHHHHHHHhcCceEEecc-----ccccccCCCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccchHHHHHHH
Confidence 99999999999999998742 222 34589999987777777777776 56788899999999999999999999
Q ss_pred HHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcc-c
Q 008912 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS-T 258 (549)
Q Consensus 180 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~-~ 258 (549)
++.+++.|++|.....+|.+ .+++..++++|++.++++|+-...++....|+++.++.|+... .+-|.+.... .
T Consensus 155 r~~l~~~GgevvgE~Y~plg----~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~~aG~~~~-~~Pi~S~~~~E~ 229 (363)
T PF13433_consen 155 RDLLEARGGEVVGERYLPLG----ATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYAAAGLDPE-RIPIASLSTSEA 229 (363)
T ss_dssp HHHHHHTT-EEEEEEEE-S-----HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHHHHH-SSS----EEESS--HH
T ss_pred HHHHHHcCCEEEEEEEecCC----chhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHHHcCCCcc-cCeEEEEecCHH
Confidence 99999999999999999966 7999999999999999999999999999999999999998744 4555554322 2
Q ss_pred ccCCCCcCChhhHhhccceEEEeEec--CCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCcc
Q 008912 259 FIDSKSPLSLKTAKSILGALTLRQHT--PDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTIS 336 (549)
Q Consensus 259 ~~~~~~~~~~~~~~~~~g~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~ 336 (549)
.... ...+...|.+....+- -++|..++|+++|+++|+.+..++.....+|.+|+++|+|++++..
T Consensus 230 E~~~------~g~~~~~Gh~~~~~YFqsidtp~N~~Fv~~~~~~~g~~~v~s~~~eaaY~~v~l~a~Av~~ags------ 297 (363)
T PF13433_consen 230 ELAA------MGAEAAAGHYTSAPYFQSIDTPENQAFVARFRARYGDDRVTSDPMEAAYFQVHLWAQAVEKAGS------ 297 (363)
T ss_dssp HHTT------S-HHHHTT-EEEES--TT-SSHHHHHHHHHHHTTS-TT----HHHHHHHHHHHHHHHHHHHHTS------
T ss_pred HHhh------cChhhcCCcEEeehhhhhCCcHHHHHHHHHHHHHhCCCCCCCcHHHHHHHHHHHHHHHHHHhCC------
Confidence 2211 1124677888776643 3578999999999999987667777888899999999999999721
Q ss_pred ccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCC
Q 008912 337 FSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDR 387 (549)
Q Consensus 337 ~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g 387 (549)
. +...++++|.+.+|+...|.|++|+..
T Consensus 298 ----------------------~-d~~~vr~al~g~~~~aP~G~v~id~~n 325 (363)
T PF13433_consen 298 ----------------------D-DPEAVREALAGQSFDAPQGRVRIDPDN 325 (363)
T ss_dssp -------------------------HHHHHHHHTT--EEETTEEEEE-TTT
T ss_pred ----------------------C-CHHHHHHHhcCCeecCCCcceEEcCCC
Confidence 1 488999999999999999999999843
No 74
>cd06337 PBP1_ABC_ligand_binding_like_4 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.97 E-value=4.8e-29 Score=247.37 Aligned_cols=327 Identities=12% Similarity=0.089 Sum_probs=250.8
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCC--ceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCc
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGG--RKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSA 101 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g--~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s 101 (549)
+||.+.|++ +..|.....++++++++||..+++ .| ++|+++++|++++|..+++.+.+|+++ +|.+|||+.+|
T Consensus 1 kIG~~~~lSG~~a~~G~~~~~~~~~~~~~in~g~~i-~G~~~~i~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s 79 (357)
T cd06337 1 KIGYVSPRTGPLAAFGEADPWVLETMRSALADGLVV-GGSTYEVEIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTP 79 (357)
T ss_pred CcceeccCcCcccccccchHHHHHHHHHHhcCCeeE-CCceeEEEEEEecCCCCHHHHHHHHHHHHhccCccEEEecCCc
Confidence 589999998 455777888999999999955444 35 589999999999999999999999987 99999999999
Q ss_pred hHHHHHHHhhhhcCCcEEecccCCCCC------C-CCCCCceEEccCCcHHHHHHHHHHHHHcC-CcEEEEEEecCCccc
Q 008912 102 VMAHVLSHLANELQVPLLSFTALDPTL------S-PLQYPFFVQTAPNDLYLMSAIAEMVSYFG-WGEVIAIFNDDDQGR 173 (549)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~l------s-~~~~~~~~r~~ps~~~~~~ai~~~l~~~~-W~~v~ii~~~~~~g~ 173 (549)
..+.+++++++..+||+|++.+..+.+ . ...++|+||+.+++..+..+++++++..+ ++++++++.++.||.
T Consensus 80 ~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g~ 159 (357)
T cd06337 80 DTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDGN 159 (357)
T ss_pred chhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchhH
Confidence 999999999999999999864432111 1 12378999999988888889998888888 999999999999998
Q ss_pred chHHHHH---HHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEE
Q 008912 174 NGVTALG---DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVW 250 (549)
Q Consensus 174 ~~~~~l~---~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~ 250 (549)
...+.+. +.+++.|++++....++++ .+|+..++.+|+++++++|++.+.+.++..++++++++|+..+ +
T Consensus 160 ~~~~~~~~~~~~~~~~G~~vv~~~~~~~~----~~D~~~~v~~ik~a~pD~v~~~~~~~~~~~~~~~~~~~G~~~~---~ 232 (357)
T cd06337 160 AFADPVIGLPAALADAGYKLVDPGRFEPG----TDDFSSQINAFKREGVDIVTGFAIPPDFATFWRQAAQAGFKPK---I 232 (357)
T ss_pred HHHHhhhcccHHHHhCCcEEecccccCCC----CCcHHHHHHHHHhcCCCEEEeCCCccHHHHHHHHHHHCCCCCC---e
Confidence 7666554 5667789999988888865 7789999999999999999999999999999999999997543 2
Q ss_pred EEe-CCc-ccccCCCCcCChhhHhhccceEEEeEecCC--------ChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHH
Q 008912 251 IAT-TWL-STFIDSKSPLSLKTAKSILGALTLRQHTPD--------SKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWM 320 (549)
Q Consensus 251 i~~-~~~-~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--------~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~ 320 (549)
+.. ... .... . ........|++....+.+. .+..++|.++|+++++ ..+.....+.|+++++
T Consensus 233 ~~~~~~~~~~~~-~-----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~g--~~~~~~~~~~~~~~~~ 304 (357)
T cd06337 233 VTIAKALLFPED-V-----EALGDRGDGMSTEVWWSPSHPFRSSLTGQSAAELADAYEAATG--RQWTQPLGYAHALFEV 304 (357)
T ss_pred EEEeccccCHHH-H-----HHhhhhhcCccccceeccCCCcccccCCccHHHHHHHHHHHhC--CCccCcchHHHHHHHH
Confidence 322 111 1110 0 1112234565544333222 2347899999999886 3345556778999999
Q ss_pred HHHHHHHHHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEe
Q 008912 321 IARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI 400 (549)
Q Consensus 321 ~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~ 400 (549)
++.|++++... .++..|.++|++++|+++.|++.|+++ . ..+..|+.+.
T Consensus 305 l~~Ai~~Ags~----------------------------~d~~~v~~aL~~~~~~~~~G~~~f~~~--~-~~~~~~~~~~ 353 (357)
T cd06337 305 GVKALVRADDP----------------------------DDPAAVADAIATLKLDTVVGPVDFGNS--P-IKNVAKTPLV 353 (357)
T ss_pred HHHHHHHcCCC----------------------------CCHHHHHHHHHcCCcccceeeeecCCC--C-Cccccccccc
Confidence 99999985211 137789999999999999999999875 2 2344555554
Q ss_pred e
Q 008912 401 E 401 (549)
Q Consensus 401 ~ 401 (549)
+
T Consensus 354 ~ 354 (357)
T cd06337 354 G 354 (357)
T ss_pred c
Confidence 4
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=6e-29 Score=241.29 Aligned_cols=224 Identities=30% Similarity=0.501 Sum_probs=202.6
Q ss_pred EEEEEeccCC-----CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHh-----cCcEEEEc
Q 008912 28 NVGAIFSFGT-----VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-----TDTLAIVG 97 (549)
Q Consensus 28 ~IG~l~~~~~-----~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~-----~~v~aiiG 97 (549)
+||++|+.+. ..+.....++.+|++++|.. ++|++|++.+.|+++++..+...+.+++. +++.+|||
T Consensus 1 ~iG~~f~~~~~~~~~~~~~~~~~~~~~~~~~~n~~---~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~v~aiiG 77 (298)
T cd06269 1 RIGGLFPLHSGGRFGEEGAFRAAAALFAVEEINND---LPNTTLGYEIYDSCCSPSDAFSAALDLCSLLEKSRGVVAVIG 77 (298)
T ss_pred CEEEEeecccccccCHHHHHHHHHHHHHHHHHhcc---CCCCeeeeEEEecCCChHHHHHHHHHHHhcCCCCCceEEEEC
Confidence 4899999874 23456688999999999998 57999999999999988888888888876 48999999
Q ss_pred CCCchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchH
Q 008912 98 PQSAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGV 176 (549)
Q Consensus 98 p~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~ 176 (549)
|.++..+.+++++++.+++|+|+++++++.+++ ..+|+++|+.|++..+++++++++++++|++|+++|++++++....
T Consensus 78 ~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~~~~~~~~~ 157 (298)
T cd06269 78 PSSSSSAEAVASLLGALHIPQISYSATSPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSDDDYGRRLL 157 (298)
T ss_pred CCCchHHHHHHHHhccCCCcEEecccCchhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEecchhhHHHH
Confidence 999999999999999999999999988888887 5789999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCc
Q 008912 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWL 256 (549)
Q Consensus 177 ~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 256 (549)
+.+.+.+++.|+++.....++.. ..++...++++++.++++||+++..+.+..+++++.++||. .+++||+++.|
T Consensus 158 ~~~~~~~~~~~~~v~~~~~~~~~----~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g~~-~~~~~i~~~~~ 232 (298)
T cd06269 158 ELLEEELEKNGICVAFVESIPDG----SEDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELGMM-TGYHWIITDLW 232 (298)
T ss_pred HHHHHHHHHCCeeEEEEEEcCCC----HHHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcCCC-CCeEEEEEChh
Confidence 99999999999999988877744 47899999999999999999999999999999999999998 89999999987
Q ss_pred ccc
Q 008912 257 STF 259 (549)
Q Consensus 257 ~~~ 259 (549)
...
T Consensus 233 ~~~ 235 (298)
T cd06269 233 LTS 235 (298)
T ss_pred hcc
Confidence 643
No 76
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=99.97 E-value=1.1e-27 Score=236.63 Aligned_cols=318 Identities=14% Similarity=0.155 Sum_probs=251.6
Q ss_pred EEEEEEeccCC---CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCch
Q 008912 27 LNVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAV 102 (549)
Q Consensus 27 i~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~ 102 (549)
|+||++.|++. ..|.....++++|+++||+.+++ .|++|++...|+++++..+.+.+.+++++ +|.+|||+.++.
T Consensus 1 i~IG~~~~lsG~~a~~g~~~~~~~~~a~~~iN~~ggi-~G~~v~l~~~D~~~d~~~~~~~~~~l~~~~~v~avig~~~s~ 79 (336)
T cd06326 1 IVLGQSAPLSGPAAALGRAYRAGAQAYFDAVNAAGGV-NGRKIELVTLDDGYEPERTVANTRKLIEDDKVFALFGYVGTP 79 (336)
T ss_pred CEEEEeccCCCcchhhHHHHHHHHHHHHHHHHhcCCc-CCceEEEEEeCCCCChHHHHHHHHHHHhhcCcEEEEeCCCch
Confidence 68999999984 44677899999999999999988 59999999999999999999999999986 999999998888
Q ss_pred HHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHH
Q 008912 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (549)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~ 182 (549)
.+.++..++...++|+|++++.++.++....+++||+.++....+..+++++.+.||+++++|+.++.++....+.+++.
T Consensus 80 ~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~~~~~~~~~~~ 159 (336)
T cd06326 80 TTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFGKDGLAGVEKA 159 (336)
T ss_pred hHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcchHHHHHHHHHH
Confidence 78888899999999999986555544433468999999999999999999999999999999999888999999999999
Q ss_pred HhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCC
Q 008912 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (549)
Q Consensus 183 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (549)
+++.|+++.....++.. ..++...+.++++.++++|++..+...+..++++++++|+.. ...+ ..........
T Consensus 160 ~~~~G~~~~~~~~~~~~----~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G~~~-~~~~--~~~~~~~~~~ 232 (336)
T cd06326 160 LAARGLKPVATASYERN----TADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAGGGA-QFYN--LSFVGADALA 232 (336)
T ss_pred HHHcCCCeEEEEeecCC----cccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcCCCC-cEEE--EeccCHHHHH
Confidence 99999988776666643 567889999999888999999888888999999999999853 2222 2221111000
Q ss_pred CCcCChhhHhhccceEEEeE----ecCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCcccc
Q 008912 263 KSPLSLKTAKSILGALTLRQ----HTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (549)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~----~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~ 338 (549)
........|++.... .....+..++|.+.|+++++. ..++.+....||+++++++|++++.. .
T Consensus 233 -----~~~g~~~~g~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~~~~y~~~~~~~~a~~~~g~---~---- 299 (336)
T cd06326 233 -----RLLGEYARGVIVTQVVPNPWSRTLPIVREYQAAMKAYGPG-APPSYVSLEGYIAAKVLVEALRRAGP---D---- 299 (336)
T ss_pred -----HHhhhhhcceEEEEEecCccccCCHHHHHHHHHHHhhCCC-CCCCeeeehhHHHHHHHHHHHHHcCC---C----
Confidence 112234566654322 122356788999999988752 35667788899999999999997421 0
Q ss_pred CCccccCCCCCccccCCccccCchHHHHHHHHhcccc-ccceeeEEccC
Q 008912 339 NDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMT-GLSGPIHFNQD 386 (549)
Q Consensus 339 ~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~-g~tG~v~fd~~ 386 (549)
- ++..+.++|++++.. +..+.+.|++.
T Consensus 300 --------------------~-~~~~v~~al~~~~~~~~~g~~~~~~~~ 327 (336)
T cd06326 300 --------------------P-TRESLLAALEAMGKFDLGGFRLDFSPG 327 (336)
T ss_pred --------------------C-CHHHHHHHHHhcCCCCCCCeEEecCcc
Confidence 0 378999999998864 44448999763
No 77
>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=1.8e-28 Score=240.76 Aligned_cols=302 Identities=15% Similarity=0.129 Sum_probs=238.3
Q ss_pred EEEEEeccCCC---CchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 008912 28 NVGAIFSFGTV---NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (549)
Q Consensus 28 ~IG~l~~~~~~---~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~ 104 (549)
+||+++|++.. .|.....++++|++++| |++++++++|+.+ +..+++.+.+++.++|.+||||.+|..+
T Consensus 1 kIG~l~plsG~~a~~g~~~~~g~~lA~~~in-------G~~i~l~~~D~~~-~~~a~~~~~~li~~~V~~iiG~~~s~~~ 72 (336)
T cd06339 1 RIALLLPLSGPLASVGQAIRNGFLAALYDLN-------GASIELRVYDTAG-AAGAAAAARQAVAEGADIIVGPLLKENV 72 (336)
T ss_pred CeEEEEcCCCcchHHHHHHHHHHHHHHHhcc-------CCCceEEEEeCCC-cccHHHHHHHHHHcCCCEEEccCCHHHH
Confidence 58999999854 57778999999999999 6889999999999 9999999999998899999999999999
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHh
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA 184 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~ 184 (549)
.++++++...++|+|++++..+ +.. .+++||+.+++..++.++++++...+++++++++.++.||....+.|.+.++
T Consensus 73 ~a~~~~~~~~~ip~i~~~~~~~-~~~--~~~~f~~~~~~~~~~~~~~~~~~~~g~k~vaii~~~~~~g~~~~~~f~~~~~ 149 (336)
T cd06339 73 AALAAAAAELGVPVLALNNDES-VAA--GPNLFYFGLSPEDEARRAAEYARSQGKRRPLVLAPDGAYGQRVADAFRQAWQ 149 (336)
T ss_pred HHHHhhhccCCCCEEEccCCcc-ccC--CCCEEEecCChHHHHHHHHHHHHhcCccceEEEecCChHHHHHHHHHHHHHH
Confidence 9999999999999999754433 222 5889999999999999999999888999999999999999999999999999
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC---------------------CCeEEEEEcchH-HHHHHHHHHHHcC
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM---------------------EARVIVVHGYSR-TGLMVFDVAQRLG 242 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---------------------~~~viil~~~~~-~~~~il~~a~~~g 242 (549)
+.|++|+....++.+ ..++..++.+|+.. +++.|++.+.+. .+..+.+++...+
T Consensus 150 ~~G~~vv~~~~~~~~----~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~~~ 225 (336)
T cd06339 150 QLGGTVVAIESYDPS----PTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDAVALPDGEARLIKPQLLFYY 225 (336)
T ss_pred HcCCceeeeEecCCC----HHHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEEEecChhhhhhhcchhhhhc
Confidence 999999988888755 78999999999987 899999887776 6666766766554
Q ss_pred CCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCCCCC-CchhhhHhHHHHHH
Q 008912 243 MMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGL-NPYGLYAYDTVWMI 321 (549)
Q Consensus 243 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~yDav~~~ 321 (549)
....+-.+++++.+...... ........|++..... .....+|.+.|+++++ ..| ..+++..|||+.++
T Consensus 226 ~~~~~~~~~g~~~~~~~~~~-----~~~g~~~~g~~~~~~~---~~~~~~f~~~y~~~~~--~~p~~~~~a~~YDa~~l~ 295 (336)
T cd06339 226 GVPGDVPLYGTSRWYSGTPA-----PLRDPDLNGAWFADPP---WLLDANFELRYRAAYG--WPPLSRLAALGYDAYALA 295 (336)
T ss_pred cCcCCCCEEEeccccCCCCC-----cccCcccCCcEEeCCC---cccCcchhhhHHHHhc--CCCCchHHHHHHhHHHHH
Confidence 31123456777665543111 1112345666544431 1123478889998886 456 78899999999998
Q ss_pred HHHHHHHHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHHH-hccccccceeeEEccCCCC
Q 008912 322 ARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANIL-QTNMTGLSGPIHFNQDRSL 389 (549)
Q Consensus 322 a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~-~~~f~g~tG~v~fd~~g~r 389 (549)
+.++++... .. ++. ...|+|++|+++|+++|+.
T Consensus 296 ~~~~~~~~~------------------------------~~-----al~~~~~~~g~~G~~~f~~~g~~ 329 (336)
T cd06339 296 AALAQLGQG------------------------------DA-----ALTPGAGFSGVTGVLRLDPDGVI 329 (336)
T ss_pred HHHHHcccc------------------------------cc-----ccCCCCccccCcceEEECCCCeE
Confidence 877665210 01 333 3469999999999999874
No 78
>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=99.96 E-value=1.8e-27 Score=223.08 Aligned_cols=324 Identities=14% Similarity=0.180 Sum_probs=242.2
Q ss_pred hHHHHHHHHHHHHHHcCCCCCCCceEEE----------EEecCCC--ChHHHHHHHHHHHhc--CcEEEEcCCCchHHHH
Q 008912 41 QVSRIAMKAAQDDINSDPRVLGGRKLSI----------TMHDAKF--NGFLSIMGALQFMET--DTLAIVGPQSAVMAHV 106 (549)
Q Consensus 41 ~~~~~a~~~Av~~iN~~~~il~g~~l~~----------~~~d~~~--~~~~a~~~~~~l~~~--~v~aiiGp~~s~~~~~ 106 (549)
...+.|++.|++.+++.. ..+|..+.+ ++.+..| +.-++++...+|... .-.+++||.|..++.+
T Consensus 18 ~~v~~av~~a~~~~~~~~-~~~g~~f~~~a~~~~~~~~~y~~~~C~sstceg~~~l~~l~~~~~~gcv~lGP~CtYat~~ 96 (380)
T cd06369 18 KFVKEAVEEAIEIVAERL-AEAGLNVTVNANFEGFNTSLYRSRGCRSSTCEGVELLKKLSVTGRLGCVLLGPSCTYATFQ 96 (380)
T ss_pred HHHHHHHHHHHHHHHhhh-hccCceEEEEEeeeccccceeccCCCCcccchHHHHHHHHHhcCccCcEEEcCccceehhh
Confidence 356889999999887754 335777776 5555544 445777887888765 6789999999999999
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHH------HHcCCcEEEEEEecCCcccch---HH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV------SYFGWGEVIAIFNDDDQGRNG---VT 177 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l------~~~~W~~v~ii~~~~~~g~~~---~~ 177 (549)
++.+...|++|+||-++.. ++-..++++.|+.|+...++..+.++. ++++|+++. ||.++...++. +.
T Consensus 97 ~~~~~~~~~~P~ISaGsfg--lscd~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~~i~ 173 (380)
T cd06369 97 MVDDEFNLSLPIISAGSFG--LSCDYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTEDCFWYIN 173 (380)
T ss_pred hhhhhhcCCCceEeccccc--cCCCchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-EEcCCCCccceeeEhH
Confidence 9999999999999976644 343345689999999999999999999 489998665 99877544443 34
Q ss_pred HHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcc
Q 008912 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (549)
Q Consensus 178 ~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 257 (549)
.+....+..+..+.+...+. ..+++...+++.+ .++||||+++++.+.++++.+ ++...+|++|..+...
T Consensus 174 al~a~~~~f~~~~~~~~~l~-----~~~~~~~il~~~~-~~sRIiImCG~p~~ir~lm~~----~~~~gDYVf~~IDlF~ 243 (380)
T cd06369 174 ALEAGVAYFSSALKFKELLR-----TEEELQKLLTDKN-RKSNVIIMCGTPEDIVNLKGD----RAVAEDIVIILIDLFN 243 (380)
T ss_pred hhhhhhhhhhhcccceeeec-----CchhHHHHHHHhc-cCccEEEEeCCHHHHHHHHhc----CccCCCEEEEEEeccc
Confidence 44444444444444333332 2467888888876 567999999999999999886 3445799999998765
Q ss_pred cccCCCCcCChhhHhhccceEEEeEecCCChhHHHHHHHHHhhcCCCCCCC-chhhhHhHHHHHHHHHHHHHHhcCCCcc
Q 008912 258 TFIDSKSPLSLKTAKSILGALTLRQHTPDSKRRRDFVSRWNTLSNGSIGLN-PYGLYAYDTVWMIARALKLFLDQGNTIS 336 (549)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~yDav~~~a~Al~~~~~~~~~~~ 336 (549)
..... +.....+++.++.+++..|+.+.++++ ..++ .... .+++..||||+++|+||+++++.+++.
T Consensus 244 ~sy~~----d~~a~~amqsVLvIT~~~p~~~~~~~~-----~~fn--~~l~~~~aa~fyDaVLLYa~AL~EtL~~G~~~- 311 (380)
T cd06369 244 DVYYE----NTTSPPYMRNVLVLTLPPRNSTNNSSF-----TTDN--SLLKDDYVAAYHDGVLLFGHVLKKFLESQEGV- 311 (380)
T ss_pred chhcc----CcchHHHHhceEEEecCCCCCcccccC-----CCCC--cchHHHHHHHHHHHHHHHHHHHHHHHHhCCCC-
Confidence 44321 123456789999998877766554431 1121 2222 788999999999999999999876541
Q ss_pred ccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCCCCCCceEEEEEe-eCceeeEEeEeeCCC
Q 008912 337 FSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRSLLHPSYDIINVI-EHGYPQQIGYWSNYS 415 (549)
Q Consensus 337 ~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~r~~~~~~I~~~~-~~~~~~~VG~w~~~~ 415 (549)
.+..+.+.|+|.+|+|++|+|.+|++||| ..+|.++... ..+.++.||.|+...
T Consensus 312 ------------------------~~~~I~~~m~NrTF~GitG~V~IDeNGDR-d~dfsLl~ms~~tg~y~vV~~y~t~~ 366 (380)
T cd06369 312 ------------------------QTFSFINEFRNISFEGAGGPYTLDEYGDR-DVNFTLLYTSTDTSKYKVLFEFDTST 366 (380)
T ss_pred ------------------------CcHHHHHHHhCcceecCCCceEeCCCCCc-cCceEEEEeeCCCCCeEEEEEEECCC
Confidence 14789999999999999999999999998 7999999886 345559999998754
No 79
>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=99.96 E-value=4.2e-27 Score=228.37 Aligned_cols=280 Identities=23% Similarity=0.349 Sum_probs=231.9
Q ss_pred EEEEEeccCC---CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||+++|++. ..|.....++++|++++|+++++ +|+++++++.|+++++..+.+.+.+++.+ +|.+|||+.++..
T Consensus 1 ~IG~i~p~~g~~~~~~~~~~~~~~~a~~~~n~~~g~-~g~~~~~~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~~~~ 79 (299)
T cd04509 1 KIGVLFPLSGPYAEYGAFRLAGAQLAVEEINAKGGI-PGRKLELVIYDDQSDPARALAAARRLCQQEGVDALVGPVSSGV 79 (299)
T ss_pred CeeEEEcCCCcchhcCHHHHHHHHHHHHHHHhcCCC-CCcEEEEEEecCCCCHHHHHHHHHHHhcccCceEEEcCCCcHH
Confidence 5999999984 46778899999999999999876 69999999999999999999999999998 9999999999988
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~ 182 (549)
+.+++.++..++||+|++.+..+.+++ ..+|++|++.|+...++..+++++.+++|+++++++.++.++....+.+.+.
T Consensus 80 ~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~ 159 (299)
T cd04509 80 ALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYGRGLLEAFKAA 159 (299)
T ss_pred HHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHHHHHHHHHHHH
Confidence 888999999999999998877666654 4689999999999999999999999999999999999888888889999999
Q ss_pred HhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCC
Q 008912 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (549)
Q Consensus 183 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (549)
+++.|+++.....++.. .+++...++++++.++++|+++++...+..+++++++.|+. .++.|+..+.+......
T Consensus 160 ~~~~g~~i~~~~~~~~~----~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~g~~-~~~~~i~~~~~~~~~~~ 234 (299)
T cd04509 160 FKKKGGTVVGEEYYPLG----TTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAAEAGLT-GGYPILGITLGLSDVLL 234 (299)
T ss_pred HHHcCCEEEEEecCCCC----CccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHHHcCCC-CCCcEEecccccCHHHH
Confidence 99999998876666543 46788899999888889999988889999999999999988 78999998876543211
Q ss_pred CCcCChhhHhhccceEEEeEecCCCh--hHHHHH---HHHHhhcCCCCCCCchhhhHhHHHHH
Q 008912 263 KSPLSLKTAKSILGALTLRQHTPDSK--RRRDFV---SRWNTLSNGSIGLNPYGLYAYDTVWM 320 (549)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~~~~--~~~~f~---~~~~~~~~~~~~~~~~~~~~yDav~~ 320 (549)
........|.++.....+..+ ..+.|. ..++..++ ..++.++..+||++++
T Consensus 235 -----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~yda~~~ 290 (299)
T cd04509 235 -----EAGGEAAEGVLTGTPYFPGDPPPESFFFVRAAAREKKKYE--DQPDYFAALAYDAVLL 290 (299)
T ss_pred -----HHhHHhhcCcEEeeccCCCCCChHHHHHHhHHHHHHHHhC--CCCChhhhhhcceeee
Confidence 123356778888776554333 233333 33444433 5678889999999988
No 80
>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=5.3e-27 Score=228.86 Aligned_cols=291 Identities=15% Similarity=0.130 Sum_probs=222.8
Q ss_pred hHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHHHHhhhhcCCcEEe
Q 008912 41 QVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVLSHLANELQVPLLS 120 (549)
Q Consensus 41 ~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is 120 (549)
....+++++|+++||+.||++ |++|+++..|. ++|..+++.+.++++++|.+|+|+.+|..+.++.+++...++|+|+
T Consensus 11 ~~~~~ga~lAveeiNaaGGv~-G~~ielv~~D~-~~p~~a~~~a~~Li~~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i~ 88 (347)
T TIGR03863 11 DRGLDGARLAIEDNNTTGRFL-GQTFTLDEVAV-RTPEDLVAALKALLAQGVRFFVLDLPAAALLALADAAKAKGALLFN 88 (347)
T ss_pred chHHHHHHHHHHHHHhhCCcC-CceEEEEEccC-CCHHHHHHHHHHHHHCCCCEEEecCChHHHHHHHHHHHhCCcEEEe
Confidence 467899999999999999997 89999999985 6899999999999988999999999999999999999999999999
Q ss_pred cccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCC
Q 008912 121 FTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPD 199 (549)
Q Consensus 121 ~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~ 199 (549)
++++++.++. ..++|+||+.|++..++.++++++...+.+++++|+.+++||....+.+++.+++.|++|+..+.++..
T Consensus 89 ~~a~~~~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkvaii~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~ 168 (347)
T TIGR03863 89 AGAPDDALRGADCRANLLHTLPSRAMLADALAQYLAAKRWRRILLIQGPLPADALYADAFRRSAKRFGAKIVAERPFTFS 168 (347)
T ss_pred CCCCChHHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEEEEEeCCCcccHHHHHHHHHHHHHCCCEEEEeEEeccC
Confidence 9888888876 457899999999999999999999888999999999999999999999999999999999988877754
Q ss_pred CCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEE
Q 008912 200 QSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALT 279 (549)
Q Consensus 200 ~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 279 (549)
.....+++.......+.+++++|++.....+....+... .++ ... . ....|+..
T Consensus 169 ~~~~~~d~s~~~~~~~~s~pDvv~~~~~~~~~~~~~~~~----------~~~-~~~------~---------~g~~G~~~ 222 (347)
T TIGR03863 169 GDPRRTDQSEVPLFTQGADYDVVVVADEAGEFARYLPYA----------TWL-PRP------V---------AGSAGLVP 222 (347)
T ss_pred CchhhhhcccCceeecCCCCCEEEEecchhhHhhhcccc----------ccc-ccc------c---------ccccCccc
Confidence 111123433222223347899999865543321111000 000 000 0 01112211
Q ss_pred EeE-ecCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCccccCCCCCccccCCccc
Q 008912 280 LRQ-HTPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSI 358 (549)
Q Consensus 280 ~~~-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~ 358 (549)
... +..+.+..++|.++|+++++ ..|...++..||++++++.|++++.+.
T Consensus 223 ~~~~~~~~~~~~~~f~~~f~~~~g--~~p~~~~a~aY~av~~~a~Ai~~AGs~--------------------------- 273 (347)
T TIGR03863 223 TAWHRAWERWGATQLQSRFEKLAG--RPMTELDYAAWLAVRAVGEAVTRTRSA--------------------------- 273 (347)
T ss_pred cccCCcccchhHHHHHHHHHHHhC--CCCChHHHHHHHHHHHHHHHHHHhcCC---------------------------
Confidence 111 11233567899999999986 456777888999999999999997321
Q ss_pred cCchHHHHHHHHhccc--cccce-eeEEcc-CCCCC
Q 008912 359 FDGGKKFLANILQTNM--TGLSG-PIHFNQ-DRSLL 390 (549)
Q Consensus 359 ~~~~~~l~~~l~~~~f--~g~tG-~v~fd~-~g~r~ 390 (549)
++..+.++|+++.+ .+..| +++|.+ +|+..
T Consensus 274 --d~~aV~~aL~~~~~~~~~~~g~~~~~R~~Dhq~~ 307 (347)
T TIGR03863 274 --DPATLRDYLLSDEFELAGFKGRPLSFRPWDGQLR 307 (347)
T ss_pred --CHHHHHHHHcCCCceecccCCCcceeeCCCcccc
Confidence 48899999999887 46777 699986 66643
No 81
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.95 E-value=8.3e-26 Score=223.47 Aligned_cols=319 Identities=12% Similarity=0.053 Sum_probs=246.6
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||+++|++ +..|.....++++|++++|+.+|+. |+++++++.|+.+++..+.+.+.+++++ +|.+|||+.++..
T Consensus 1 ~IGv~~p~sG~~a~~g~~~~~g~~~a~~~~N~~Ggi~-G~~i~lv~~D~~~~~~~~~~~~~~li~~~~V~~iig~~~s~~ 79 (341)
T cd06341 1 KIGLLYPDTGVAAVSFPGARAGADAAAGYANAAGGIA-GRPIEYVWCDDQGDPASAAACARDLVEDDKVVAVVGGSSGAG 79 (341)
T ss_pred CeEEEecCCCchhhccHHHHHHHHHHHHHHHhcCCcC-CceEEEEEecCCCChhHHHHHHHHHHHhcCceEEEecccccc
Confidence 599999997 3567889999999999999999984 8999999999999999999999999988 9999999998877
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC-cccchHHHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QGRNGVTALGDK 182 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~-~g~~~~~~l~~~ 182 (549)
..++ +.+...++|+|++.+.++.+.+ .++.|++.+++..++..+++++...+.+++++|+.++. +|......+++.
T Consensus 80 ~~~~-~~~~~~~ip~v~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~~~~g~~~~~~~~~~ 156 (341)
T cd06341 80 GSAL-PYLAGAGIPVIGGAGTSAWELT--SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTALSAAVSAAAALLARS 156 (341)
T ss_pred hhHH-HHHhhcCCceecCCCCCchhhc--CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCCcHHHHHHHHHHHHH
Confidence 6666 8888999999998666554443 47788998888889999999999999999999987665 899999999999
Q ss_pred HhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCC
Q 008912 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDS 262 (549)
Q Consensus 183 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~ 262 (549)
+++.|+.+.....++.. ..++...+.++++.++++|++......+..++++++++|+..+. +...........
T Consensus 157 ~~~~G~~v~~~~~~~~~----~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~~---~~~~~~~~~~~~ 229 (341)
T cd06341 157 LAAAGVSVAGIVVITAT----APDPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAAGLTPKV---VLSGTCYDPALL 229 (341)
T ss_pred HHHcCCccccccccCCC----CCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHcCCCCCE---EEecCCCCHHHH
Confidence 99999998776655543 56888999999999999999998888999999999999986542 222211111000
Q ss_pred CCcCChhhHhhccceEEEeEecC---CChhHHHHHHHHHhhcCC-CCCCCchhhhHhHHHHHHHHHHHHHHhcCCCcccc
Q 008912 263 KSPLSLKTAKSILGALTLRQHTP---DSKRRRDFVSRWNTLSNG-SIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFS 338 (549)
Q Consensus 263 ~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~f~~~~~~~~~~-~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~ 338 (549)
........|++....+.+ ..|..+.|.+.+++.... ...++.++..+||+++++++|++++...
T Consensus 230 -----~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~yda~~~~~~a~~~ag~~------- 297 (341)
T cd06341 230 -----AAPGPALAGVYIAVFYRPFESGTPAVALYLAAMARYAPQLDPPEQGFALIGYIAADLFLRGLSGAGGC------- 297 (341)
T ss_pred -----HhcCcccCceEEEeeeccccCCCHHHHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHHHHhcCCC-------
Confidence 122346778777666544 457777887765543321 1357788999999999999999996211
Q ss_pred CCccccCCCCCccccCCccccCchHH-HHHHHHhcccccccee---eEEccCCCCC
Q 008912 339 NDTKLNGLGGGTLNLGALSIFDGGKK-FLANILQTNMTGLSGP---IHFNQDRSLL 390 (549)
Q Consensus 339 ~~~~~~~~~~~~~~c~~~~~~~~~~~-l~~~l~~~~f~g~tG~---v~fd~~g~r~ 390 (549)
.++.. +.++|++++.....|. +.+..++.+.
T Consensus 298 ---------------------~~~~~~v~~al~~~~~~~~~g~~~~~~~~~~~~~~ 332 (341)
T cd06341 298 ---------------------PTRASQFLRALRAVTDYDAGGLTPPCDGKAGPGRP 332 (341)
T ss_pred ---------------------CChHHHHHHHhhcCCCCCCCCcccCccCccCCCCC
Confidence 02566 9999999986554442 3333444433
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=1.7e-25 Score=218.45 Aligned_cols=279 Identities=20% Similarity=0.272 Sum_probs=221.9
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchH
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVM 103 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~ 103 (549)
+||+++|++ +..|.....++++|+++||+ +++ +|+++++.+.|+++++..+.+.+.+++.+ +|.+|||+.++..
T Consensus 1 ~IG~~~~lsG~~~~~g~~~~~g~~~a~~~iN~-ggi-~g~~i~l~~~d~~~~~~~a~~~~~~li~~~~v~~vig~~~s~~ 78 (312)
T cd06333 1 KIGAILSLTGPAASLGIPEKKTLELLPDEINA-GGI-GGEKVELIVLDDGSDPTKAVTNARKLIEEDKVDAIIGPSTTPA 78 (312)
T ss_pred CeeEEeecCCcchhhCHHHHHHHHHHHHHHhc-CCc-CCeEEEEEEecCCCCHHHHHHHHHHHHhhCCeEEEECCCCCHH
Confidence 599999998 45577889999999999999 887 59999999999999999999999999975 9999999988887
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKL 183 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~ 183 (549)
+.++.+++...++|+|++.++.+.+. ...+++||+.|++...+..+++++.+.||+++++++.++.++....+.+.+.+
T Consensus 79 ~~~~~~~~~~~~vP~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~~~~~~~~~~~~ 157 (312)
T cd06333 79 TMAVAPVAEEAKTPMISLAPAAAIVE-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALA 157 (312)
T ss_pred HHHHHHHHHhcCCCEEEccCCccccC-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHHHHHHHHHHHHH
Confidence 77888899999999999876544332 34578999999999999999999999999999999988888888889999999
Q ss_pred hhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCC
Q 008912 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (549)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (549)
++.|+++.....++.. ..++...+.+++..++++|++......+..+++++++.|+..+ ++..+........
T Consensus 158 ~~~G~~v~~~~~~~~~----~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~l~~~g~~~p---~~~~~~~~~~~~~- 229 (312)
T cd06333 158 PKYGIEVVADERYGRT----DTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKNLRERGYKGP---IYQTHGVASPDFL- 229 (312)
T ss_pred HHcCCEEEEEEeeCCC----CcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHHHHHcCCCCC---EEeecCcCcHHHH-
Confidence 9999998876666544 4567888888888889999998877777889999999987543 3333322111000
Q ss_pred CcCChhhHhhccceEEEeEe------cC----CChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHH
Q 008912 264 SPLSLKTAKSILGALTLRQH------TP----DSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIA 322 (549)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~------~~----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a 322 (549)
........|++....+ .| ..+..++|.++|+++++. ..+..+++..||++++++
T Consensus 230 ----~~~g~~~~g~~~~~~~~~~~~~~p~~~~~~~~~~~f~~~~~~~~g~-~~~~~~~~~~Yda~~~~~ 293 (312)
T cd06333 230 ----RLAGKAAEGAILPAGPVLVADQLPDSDPQKKVALDFVKAYEAKYGA-GSVSTFGGHAYDALLLLA 293 (312)
T ss_pred ----HHhhHhhcCcEeecccceeeeeCCCCCcchHHHHHHHHHHHHHhCC-CCCCchhHHHHHHHHHHH
Confidence 1223456776654321 12 235689999999998862 237778999999999998
No 83
>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=99.94 E-value=1.2e-24 Score=232.59 Aligned_cols=293 Identities=31% Similarity=0.555 Sum_probs=237.1
Q ss_pred HHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEEEeEecCCChh
Q 008912 210 ELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQHTPDSKR 289 (549)
Q Consensus 210 ~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 289 (549)
.+..++....+++++++.+..+..++.++.++||...+|+|+.++......+.... ....+...+.+....+.+....
T Consensus 5 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~a~~~~~~~~~~~~i~t~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~s~~ 82 (656)
T KOG1052|consen 5 LLLKLKAMRTRVFVLHMFPILALAIFSQAEELGMMQFGYVWILTNLLTDALDLDEL--YSLIDVMNGVLGLRGHIPRSEL 82 (656)
T ss_pred HHHHhhccCceEEEEeCCHHHHHHHHHHHHHhCccccCeEEEEEecchhhhccccc--ccchhheeeEEeeccCCCccHH
Confidence 34455557789999999988899999999999999999999999977665544321 2334567788888888888888
Q ss_pred HHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHHH
Q 008912 290 RRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANI 369 (549)
Q Consensus 290 ~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l 369 (549)
.++|..+|+.. ......++..+||+++++|.|.++.... . ....+|.....|.++..+.+.+
T Consensus 83 ~~~~~~~~~~~---~~~~~~~~~~~~D~~~~~a~~~~~~~~~-~--------------~~~~~~~~~~~~~~~~~~~~~~ 144 (656)
T KOG1052|consen 83 LQNFVTRWQTS---NVELLVYALWAYDAIQALARAVESLLNI-G--------------NLSLSCGRNNSWLDALGVFNFG 144 (656)
T ss_pred HHHHHHHHhhc---cccccchhhHHHHHHHHHHHHHHHhhcC-C--------------CCceecCCCCcccchhHHHHHH
Confidence 89999999865 1346677899999999999999998651 1 2245676656777788999988
Q ss_pred Hhccccc---cceeeEEccCCCCCCCceEEEEEeeCceeeEEeEeeCCCCCcccCCcccccCCCCCCCCcccceeeEeCC
Q 008912 370 LQTNMTG---LSGPIHFNQDRSLLHPSYDIINVIEHGYPQQIGYWSNYSGLSVVPPEKLYRKPANRSSSNQHLYSVVWPG 446 (549)
Q Consensus 370 ~~~~f~g---~tG~v~fd~~g~r~~~~~~I~~~~~~~~~~~VG~w~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~w~~ 446 (549)
+.....+ .+|.+.++.++.+....|+|++..+.+. ..||.|++..| ..|.||+
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~n~~~~~~-~~ig~W~~~~~-----------------------~~i~~~~ 200 (656)
T KOG1052|consen 145 KKLLVVNLSGVTGQFQFFRGGLLEYFKYEILNLNGSGE-RRIGYWYPRGG-----------------------ENISWPG 200 (656)
T ss_pred HhhhhhccccceeEEEecCCCccccceEEEEEecCcCc-eeEEEecCCCC-----------------------ceeeccC
Confidence 8876544 4567888888888899999999998887 77999998753 2678999
Q ss_pred CCcCCCccccccCCCCeEEEeecCcccccccEEe---ecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCC----CC
Q 008912 447 GVTSKPRGWVFPNNGRQLRIGVPNRVSYRDFVFK---VNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGH----KN 519 (549)
Q Consensus 447 ~~~~~p~~~~~~~~~~~~~v~~~~~~~~~~~~~~---~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~----~~ 519 (549)
.....|..+-.+..+++++|+++...||..+... ..++.+++||||||++++++.|+|+ |+++.++|++ ++
T Consensus 201 ~~~~~~~~~~~~~~~~~l~v~~~~~~P~~~~~~~~~~~~~~~~~~G~~idll~~l~~~l~f~--~~~~~~~~~~g~~~~~ 278 (656)
T KOG1052|consen 201 KDYFVPKGWFFPTNGKPLRVGVVTEPPFVDLVEDLAILNGNDRIEGFEIDLLQALAKRLNFS--YEIIFVPDGSGSRDPN 278 (656)
T ss_pred CcccCcCCccccCCCceEEEEEeccCCceeeeecccccCCCCccceEEehHHHHHHHhCCCc--eEEEEcCCCCCCCCCC
Confidence 9888888877665578999999988787776553 2356799999999999999999999 9999999875 44
Q ss_pred CChHHHHHhHhcCcccEEecceEEeecccC
Q 008912 520 PTYSELINQITTGVSRILTKKVAQLTRVSL 549 (549)
Q Consensus 520 g~~~gl~~~l~~~~~d~~~~~~ti~~~r~~ 549 (549)
|.|+||+++|.+|+||++ +++|||++|+.
T Consensus 279 g~~~g~v~~l~~~~advg-~~~tit~~R~~ 307 (656)
T KOG1052|consen 279 GNWDGLVGQLVDGEADVG-ADITITPERSK 307 (656)
T ss_pred CChhHHHHHHhcCccccc-cceEEeecccc
Confidence 899999999999999999 99999999974
No 84
>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=99.94 E-value=3.1e-24 Score=208.09 Aligned_cols=280 Identities=21% Similarity=0.327 Sum_probs=229.9
Q ss_pred EEEEEeccC---CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 008912 28 NVGAIFSFG---TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (549)
Q Consensus 28 ~IG~l~~~~---~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~ 104 (549)
+||+++|++ +..|.....+++.|++++|+.+++ +|+++++.++|+++++..+.+.+.+++++++.+||||.++..+
T Consensus 1 ~ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~-~g~~v~~~~~d~~~~~~~~~~~~~~l~~~~v~~iig~~~~~~~ 79 (298)
T cd06268 1 KIGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGI-LGRKIELVVEDTQGDPEAAAAAARELVDDGVDAVIGPLSSGVA 79 (298)
T ss_pred CeeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCC-CCeEEEEEEecCCCCHHHHHHHHHHHHhCCceEEEcCCcchhH
Confidence 589999997 456778899999999999999987 5999999999999999999999999999999999999999888
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcC-CcEEEEEEecCCcccchHHHHHHHH
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFG-WGEVIAIFNDDDQGRNGVTALGDKL 183 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~-W~~v~ii~~~~~~g~~~~~~l~~~~ 183 (549)
..+.+.+...+||+|++.+..+.+.+..++++|++.|+...++.++++++...+ |+++++|+.++.++....+.+.+.+
T Consensus 80 ~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~~~~~~~~~~~ 159 (298)
T cd06268 80 LAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYGRGLAAAFREAL 159 (298)
T ss_pred HhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchhHHHHHHHHHHH
Confidence 889999999999999987766554433578999999999999999999999988 9999999999889989999999999
Q ss_pred hhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcccccCCC
Q 008912 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLSTFIDSK 263 (549)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~~~~~~~ 263 (549)
++.|+++.....++.. ..++...+.+++..++++|++.+.+..+..+++++++.|+ +..|+..+.+......
T Consensus 160 ~~~g~~i~~~~~~~~~----~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~~g~---~~~~~~~~~~~~~~~~- 231 (298)
T cd06268 160 KKLGGEVVAEETYPPG----ATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQAREAGL---KVPIVGGDGAAAPALL- 231 (298)
T ss_pred HHcCCEEEEEeccCCC----CccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHHcCC---CCcEEecCccCCHHHH-
Confidence 9999998876666543 4578888999998888999998888889999999999886 4567777655432111
Q ss_pred CcCChhhHhhccceEEEeEecCC--ChhHHHHH-HHHHhhcCCCCCCCchhhhHhHHHHHHH
Q 008912 264 SPLSLKTAKSILGALTLRQHTPD--SKRRRDFV-SRWNTLSNGSIGLNPYGLYAYDTVWMIA 322 (549)
Q Consensus 264 ~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~f~-~~~~~~~~~~~~~~~~~~~~yDav~~~a 322 (549)
........|++...++.+. .+....|. +.|++.++ ..++.++...||++.+++
T Consensus 232 ----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~y~~~~~~~ 287 (298)
T cd06268 232 ----ELAGDAAEGVLGTTPYAPDDDDPAAAAFFQKAFKAKYG--RPPDSYAAAAYDAVRLLA 287 (298)
T ss_pred ----HhhhHhhCCcEEeccCCCCCCChhhhHHHHHHHHHHhC--CCcccchHHHHHHHHHHc
Confidence 1123456777777665443 23344454 67777765 567888999999999998
No 85
>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=99.66 E-value=3.6e-14 Score=134.81 Aligned_cols=216 Identities=20% Similarity=0.309 Sum_probs=171.2
Q ss_pred EEEEEeccC--CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 008912 28 NVGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~ 105 (549)
+||+++|.+ ...+.....+++.|++++ |..+++.+.|+++++....+.+.++..++++++|++.++....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~--------g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~ 72 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEI--------GRGLEVILADSQSDPERALEALRDLIQQGVDGIIGPPSSSSAL 72 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHh--------CCceEEEEecCCCCHHHHHHHHHHHHHcCCCEEEecCCCHHHH
Confidence 589999987 444556677888888776 4678888999999888888888888888999999998887766
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecC-CcccchHHHHHHHHh
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD-DQGRNGVTALGDKLA 184 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~-~~g~~~~~~l~~~~~ 184 (549)
.+...+...++|+|++....+... .+++++++.|+....++.+++++.+++|+++++++.+. ..+....+.+++.++
T Consensus 73 ~~~~~~~~~~ip~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~ 150 (269)
T cd01391 73 AVVELAAAAGIPVVSLDATAPDLT--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALK 150 (269)
T ss_pred HHHHHHHHcCCcEEEecCCCCccC--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchhhHHHHHHHHHHH
Confidence 678888999999999876554433 46889999999999999999999999999999999877 566777888888998
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC-CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcc
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM-EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~-~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 257 (549)
+.|+++......+.. ...++....+.+++. ++++|++.++ ..+..+++++.+.|+...++.|+..+.+.
T Consensus 151 ~~~~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~~~~~g~~~~~~~ii~~~~~~ 220 (269)
T cd01391 151 KAGIEVVAIEYGDLD---TEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKAAREAGLTPGDISIIGFDGSP 220 (269)
T ss_pred hcCcEEEeccccCCC---ccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHHHHHcCCCCCCCEEEeccccc
Confidence 888776544333322 224667777777766 6788888776 88889999999999875567777776554
No 86
>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=99.60 E-value=4.8e-16 Score=108.10 Aligned_cols=48 Identities=27% Similarity=0.587 Sum_probs=42.3
Q ss_pred cCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCC-----CCCChHHHHHhHhc
Q 008912 482 NGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGH-----KNPTYSELINQITT 531 (549)
Q Consensus 482 ~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~-----~~g~~~gl~~~l~~ 531 (549)
.++.||+||||||+++||+.|+|+ |+++.++||+ ++|+||||||+|++
T Consensus 13 ~g~~~~eGyciDll~~la~~l~F~--y~i~~~~Dg~yG~~~~~g~W~GmiGeli~ 65 (65)
T PF10613_consen 13 TGNDRYEGYCIDLLEELAEELNFT--YEIYLVPDGKYGSKNPNGSWNGMIGELIR 65 (65)
T ss_dssp BGGGGEESHHHHHHHHHHHHHT-E--EEEEE-TTS--EEBETTSEBEHHHHHHHT
T ss_pred CCCccEEEEHHHHHHHHHHHcCCe--EEEEECCCCCCcCcCCCCcCcCHHHHhcC
Confidence 478899999999999999999999 9999999987 78999999999974
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=99.30 E-value=3.8e-10 Score=116.00 Aligned_cols=300 Identities=14% Similarity=0.132 Sum_probs=155.7
Q ss_pred CCceEEEEEEeccCCCC---chHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCC
Q 008912 23 KPEVLNVGAIFSFGTVN---GQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQ 99 (549)
Q Consensus 23 ~~~~i~IG~l~~~~~~~---g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~ 99 (549)
...+-+|++++|+++.. |..++.+|..|. +.. .+.+.++.++|+..++. .....+.+.+|+..||||.
T Consensus 216 ~~~~~~IavLLPlsG~~a~~~~aI~~G~~aA~---~~~----~~~~~~l~~~Dt~~~~~--~~~~~~a~~~ga~~ViGPL 286 (536)
T PF04348_consen 216 PAPPQRIAVLLPLSGRLARAGQAIRDGFLAAY---YAD----ADSRPELRFYDTNADSA--DALYQQAVADGADFVIGPL 286 (536)
T ss_dssp ------EEEEE--SSTTHHHHHHHHHHHHHHH----------TT--S-EEEEETTTS-H--HHHHHHHHHTT--EEE---
T ss_pred cCCccCEEEEeCCCCchhHHHHHHHHHHHHhh---ccc----ccCCCceEEecCCCCCH--HHHHHHHHHcCCCEEEcCC
Confidence 34466899999998654 455677777776 122 13456788889876633 3345566678999999999
Q ss_pred CchHHHHHHHhhhh--cCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHH
Q 008912 100 SAVMAHVLSHLANE--LQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVT 177 (549)
Q Consensus 100 ~s~~~~~va~~~~~--~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~ 177 (549)
.-.....++..-.. ..+|++.....+.. . .-+.+|.+.-+....++-+++.+..-|+++..|++.++++|....+
T Consensus 287 ~k~~V~~l~~~~~~~~~~vp~LaLN~~~~~-~--~~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g~R~~~ 363 (536)
T PF04348_consen 287 LKSNVEALAQLPQLQAQPVPVLALNQPDNS-Q--APPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWGQRMAE 363 (536)
T ss_dssp SHHHHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHHHHHHH
T ss_pred CHHHHHHHHhcCcccccCCceeeccCCCcc-c--CccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHHHHHHH
Confidence 99888877766442 48999987544332 1 1234555555566778999999999999999999999999999999
Q ss_pred HHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCcc
Q 008912 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWLS 257 (549)
Q Consensus 178 ~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~~ 257 (549)
.|.+.+++.|..+.....+.. ..++...++.-...+.|.|++...+.+++.+--...-. . ..+--.+.++...
T Consensus 364 aF~~~W~~~gg~~~~~~~~~~-----~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~ikP~l~~~-~-a~~lPvyatS~~~ 436 (536)
T PF04348_consen 364 AFNQQWQALGGQVAEVSYYGS-----PADLQAAIQPRRRQDIDAIFLVANPEQARLIKPQLDFH-F-AGDLPVYATSRSY 436 (536)
T ss_dssp HHHHHHHHHHSS--EEEEESS-----TTHHHHHHHHS--TT--EEEE---HHHHHHHHHHHTT--T--TT-EEEE-GGG-
T ss_pred HHHHHHHHcCCCceeeEecCC-----HHHHHHHHhhcCCCCCCEEEEeCCHHHHHHHhhhcccc-c-CCCCCEEEecccc
Confidence 999999999887766555542 45777777755556789999999998888776555321 1 1222222222211
Q ss_pred cccCCCCcCChhhHhhccceEEEeEe---cCCChhHHHHHHHHHhhcCCCCCCCchhhhHhHHHHHHHHHHHHHHhcCCC
Q 008912 258 TFIDSKSPLSLKTAKSILGALTLRQH---TPDSKRRRDFVSRWNTLSNGSIGLNPYGLYAYDTVWMIARALKLFLDQGNT 334 (549)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~g~~~~~~~---~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~yDav~~~a~Al~~~~~~~~~ 334 (549)
... .+......+.|+...... .+..+..+.+...|.... .......+..|||..++.
T Consensus 437 ~g~-----~~~~~~~dL~gv~f~d~Pwll~~~~~~~~~~~~~~~~~~---~~~~RL~AlG~DA~~L~~------------ 496 (536)
T PF04348_consen 437 SGS-----PNPSQDRDLNGVRFSDMPWLLDPNSPLRQQLAALWPNAS---NSLQRLYALGIDAYRLAP------------ 496 (536)
T ss_dssp -HH-----T-HHHHHHTTT-EEEE-GGGG---SHHHHHHH-HHTTT----HHHHHHHHHHHHHHHHHH------------
T ss_pred CCC-----CCcchhhhhcCCEEeccccccCCCchHHHHHHhhccCCc---cHHHHHHHHHHHHHHHHH------------
Confidence 110 012334567888777553 223333444444443211 011122344455544431
Q ss_pred ccccCCccccCCCCCccccCCccccCchHHHHHHHHhccccccceeeEEccCCC
Q 008912 335 ISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLANILQTNMTGLSGPIHFNQDRS 388 (549)
Q Consensus 335 ~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~l~~~~f~g~tG~v~fd~~g~ 388 (549)
...-++.+....+.|.||.+++|++|.
T Consensus 497 ---------------------------~l~~l~~~~~~~~~G~TG~L~~~~~g~ 523 (536)
T PF04348_consen 497 ---------------------------RLPQLRQFPGYRLDGLTGQLSLDEDGR 523 (536)
T ss_dssp ---------------------------THHHHHHSTT--EEETTEEEEE-TT-B
T ss_pred ---------------------------HHHHHhhCCCCcccCCceeEEECCCCe
Confidence 111233344557899999999999985
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=98.91 E-value=1.9e-07 Score=88.50 Aligned_cols=205 Identities=10% Similarity=0.050 Sum_probs=136.6
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
+||+++|.. .........+++.+.++ . |+ ++.+.+...++....+.+.+++.++++++|+.........
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~----~----g~--~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~ 70 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKA----A----GY--QVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPT 70 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHH----c----CC--eEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchh
Confidence 589999885 33344555666666655 1 34 4556677777777777777888889999998665544443
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHHHHHh
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~~~~~ 184 (549)
....+...++|+|.+....+. ..+++++.+.+...+..+++++...+-++++++..+.. ++....+.+.+.++
T Consensus 71 ~~~~l~~~~ip~v~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~~~~~~ 145 (264)
T cd01537 71 IVKLARKAGIPVVLVDRDIPD-----GDRVPSVGSDNEQAGYLAGEHLAEKGHRRIALLAGPLGSSTARERVAGFKDALK 145 (264)
T ss_pred HHHHhhhcCCCEEEeccCCCC-----CcccceEecCcHHHHHHHHHHHHHhcCCcEEEEECCCCCCcHHHHHHHHHHHHH
Confidence 567778889999997654432 24556777788888999999999999999999987544 55566788888888
Q ss_pred hcC-eEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 185 EIR-CKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 185 ~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
+.| ..+....... .+..+....+.++.+.+ +++|+.. +...+..+++++.+.|+..++.+-|.
T Consensus 146 ~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~i~~~-~~~~a~~~~~~~~~~g~~i~~~i~i~ 211 (264)
T cd01537 146 EAGPIEIVLVQEGD----WDAEKGYQAAEELLTAHPDPTAIFAA-NDDMALGALRALREAGLRVPDDISVI 211 (264)
T ss_pred HcCCcChhhhccCC----CCHHHHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHHHHHHHhCCCCCCCeEEE
Confidence 777 3332222222 22445566777776665 4444443 33456668888888887544444444
No 89
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=98.78 E-value=2.4e-06 Score=81.11 Aligned_cols=206 Identities=12% Similarity=0.058 Sum_probs=131.8
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCC-chHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQS-AVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~-s~~~~ 105 (549)
+||+++|.. .........+++.+.++ .|+ ++.+.++..++....+.+.+++.+++.+||+... .....
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~--------~g~--~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~ 70 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKE--------LGV--ELIVLDAQNDVSKQIQQIEDLIAQGVDGIIISPVDSAALT 70 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHh--------cCc--eEEEECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHH
Confidence 589999874 33444556666666666 134 4455666667777777777888889999986433 33333
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecCC--cccchHHHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD--QGRNGVTALGD 181 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~--~g~~~~~~l~~ 181 (549)
.....+...++|+|......+. .+.+..+.+++...+..+++.+... |-+++++++.+.. ++....+.|.+
T Consensus 71 ~~~~~l~~~~ip~V~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 145 (267)
T cd01536 71 PALKKANAAGIPVVTVDSDIDG-----GNRLAYVGTDNYEAGRLAGEYLAKLLGGKGKVAIIEGPPGSSNAQERVKGFRD 145 (267)
T ss_pred HHHHHHHHCCCcEEEecCCCCc-----cceeEEEecCHHHHHHHHHHHHHHHhCCCceEEEEEcccccchHHHHHHHHHH
Confidence 3445566789999997543321 1334556677777788888888777 8899999986543 56667788889
Q ss_pred HHhhcC-eEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeE-EEEEcchHHHHHHHHHHHHcCCCCCCeEEEEe
Q 008912 182 KLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMMEARV-IVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (549)
Q Consensus 182 ~~~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (549)
.+++.+ .++....... ....+..+.+.++.+..++. +|++++...+..+++++++.|+. .+...+..
T Consensus 146 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~-~~i~ivg~ 214 (267)
T cd01536 146 ALKEYPDIEIVAVQDGN----WDREKALQAMEDLLQANPDIDAIFAANDSMALGAVAALKAAGRK-GDVKIVGV 214 (267)
T ss_pred HHHhCCCcEEEEEecCC----CcHHHHHHHHHHHHHhCCCccEEEEecCCchHHHHHHHHhcCCC-CCceEEec
Confidence 888884 6654332222 12344556667765544433 33344446677788999988875 34333333
No 90
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=98.71 E-value=4.7e-06 Score=79.48 Aligned_cols=200 Identities=14% Similarity=0.067 Sum_probs=129.8
Q ss_pred EEEEEeccCCC-CchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCc-hHHH
Q 008912 28 NVGAIFSFGTV-NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA-VMAH 105 (549)
Q Consensus 28 ~IG~l~~~~~~-~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s-~~~~ 105 (549)
|||+++|.... +-.....+++.+.++ .+. .|+++++.+.|+..++....+...+++.+++++||....+ ....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~----~~~-~g~~~~l~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~ 75 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKE----LKK-AGLISEFIVTSADGDVAQQIADIRNLIAQGVDAIIINPASPTALN 75 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHh----hhc-cCCeeEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhH
Confidence 58999976432 112233444444433 211 2677888899988888888888888888899999984443 3233
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecC--CcccchHHHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD--DQGRNGVTALGD 181 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~--~~g~~~~~~l~~ 181 (549)
.....+...++|+|...... .. +.+.++.++....+..+++.+... +-+++++|.... ..+....+.+++
T Consensus 76 ~~l~~~~~~~iPvv~~~~~~---~~---~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~g~~~ 149 (272)
T cd06300 76 PVIEEACEAGIPVVSFDGTV---TT---PCAYNVNEDQAEFGKQGAEWLVKELGGKGNVLVVRGLAGHPVDEDRYAGAKE 149 (272)
T ss_pred HHHHHHHHCCCeEEEEecCC---CC---CceeEecCCHHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchHHHHHHHHH
Confidence 34455667899999975322 11 345678888888889999888776 788999997432 334456677888
Q ss_pred HHhhcC-eEEEEEEccCCCCCCChhhHHHHHHHHhcCCC--eEEEEEcchHHHHHHHHHHHHcCCC
Q 008912 182 KLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMMEA--RVIVVHGYSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 182 ~~~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~--~viil~~~~~~~~~il~~a~~~g~~ 244 (549)
.+++.+ +.+......+ .+..+..+.+.++.++.+ ++|+... .. +..+++.+++.|+.
T Consensus 150 a~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~i~~~~-d~-A~g~~~al~~~g~~ 209 (272)
T cd06300 150 VLKEYPGIKIVGEVYGD----WDQAVAQKAVADFLASNPDVDGIWTQG-GD-AVGAVQAFEQAGRD 209 (272)
T ss_pred HHHHCCCcEEEeecCCC----CCHHHHHHHHHHHHHhCCCcCEEEecC-CC-cHHHHHHHHHcCCC
Confidence 888877 7665322111 223455666777665544 4433333 33 88899999998874
No 91
>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=98.69 E-value=2.6e-06 Score=80.61 Aligned_cols=205 Identities=10% Similarity=0.015 Sum_probs=130.6
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
+||++.|.. ..+......+++.+.++ .|+++. +.+...++....+.+.+++.+++.++|....+.....
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~--------~g~~~~--~~~~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~ 70 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAARE--------AGYSVL--LCNSDEDPEKEREALELLLSRRVDGIILAPSRLDDEL 70 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHH--------cCCEEE--EEcCCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH
Confidence 478899885 33333444555555544 144544 4566677777788888888889999887555544444
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHHHHHh
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~~~~~ 184 (549)
...+...++|+|......+. +.+..+.++....++.+++.+...|.+++++++.+.. ++....+.+.+.++
T Consensus 71 -~~~~~~~~ipvv~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~g~~~~~~ 143 (264)
T cd06267 71 -LEELAALGIPVVLVDRPLDG------LGVDSVGIDNRAGAYLAVEHLIELGHRRIAFIGGPPDLSTARERLEGYREALE 143 (264)
T ss_pred -HHHHHHcCCCEEEecccccC------CCCCEEeeccHHHHHHHHHHHHHCCCceEEEecCCCccchHHHHHHHHHHHHH
Confidence 56678899999997554321 3345566677778888889988889999999986543 45566677888888
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
+.+..+......... .........+.++.... .+.|+. .+...+..+++++++.|+..++.+.|.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~~-~~~~~a~~~~~al~~~g~~~~~~i~i~ 210 (264)
T cd06267 144 EAGIPLDEELIVEGD--FSEESGYEAARELLASGERPTAIFA-ANDLMAIGALRALRELGLRVPEDVSVV 210 (264)
T ss_pred HcCCCCCcceEEecc--cchhhHHHHHHHHHhcCCCCcEEEE-cCcHHHHHHHHHHHHhCCCCCCceEEE
Confidence 877533221112211 12344556666665554 455554 344556678888888887544444443
No 92
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed
Probab=98.66 E-value=7.8e-08 Score=90.67 Aligned_cols=79 Identities=15% Similarity=0.148 Sum_probs=67.2
Q ss_pred CCeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhC-CCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEec
Q 008912 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLL-PYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTK 539 (549)
Q Consensus 461 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l-~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~ 539 (549)
.++|+|++.. .++||......++.+.||++||++++++.| |.++.++++.+ +|...+..|.+|++|++++
T Consensus 37 ~g~l~vg~~~--~~pP~~~~~~~~g~~~G~~vdl~~~ia~~llg~~~~~~~~~~-------~~~~~~~~l~~g~~D~~~~ 107 (259)
T PRK11917 37 KGQLIVGVKN--DVPHYALLDQATGEIKGFEIDVAKLLAKSILGDDKKIKLVAV-------NAKTRGPLLDNGSVDAVIA 107 (259)
T ss_pred CCEEEEEECC--CCCCceeeeCCCCceeEeeHHHHHHHHHHhcCCCccEEEEEc-------ChhhHHHHHHCCCccEEEe
Confidence 5789999864 677887654446789999999999999994 76544888888 8899999999999999999
Q ss_pred ceEEeeccc
Q 008912 540 KVAQLTRVS 548 (549)
Q Consensus 540 ~~ti~~~r~ 548 (549)
++++|+||+
T Consensus 108 ~~~~t~eR~ 116 (259)
T PRK11917 108 TFTITPERK 116 (259)
T ss_pred cccCChhhh
Confidence 999999996
No 93
>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=98.63 E-value=5e-06 Score=79.65 Aligned_cols=201 Identities=16% Similarity=0.132 Sum_probs=129.3
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
+||++.+..... +...+.-..+++++.+..+ |.++.+.+.|+..++....+...++.++++.+||+..++. ....
T Consensus 1 ~igv~~~~~~~~---~~~~~~gi~~~~~~~g~~~-g~~v~l~~~~~~~~~~~~~~~~~~l~~~~vd~iI~~~~~~-~~~~ 75 (281)
T cd06325 1 KVGILQLVEHPA---LDAARKGFKDGLKEAGYKE-GKNVKIDYQNAQGDQSNLPTIARKFVADKPDLIVAIATPA-AQAA 75 (281)
T ss_pred CeEEecCCCCcc---hHHHHHHHHHHHHHhCccC-CceEEEEEecCCCCHHHHHHHHHHHHhcCCCEEEEcCcHH-HHHH
Confidence 589999865433 2333333445666666654 7899999999988888888888888888999999865432 2222
Q ss_pred HHhhhhcCCcEEecccCCCCCCC----CCCCceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecCC-cccchHHHHH
Q 008912 108 SHLANELQVPLLSFTALDPTLSP----LQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD-QGRNGVTALG 180 (549)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~----~~~~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~-~g~~~~~~l~ 180 (549)
.....++|+|.++..++.... ...+....+..++...+..+++++... |.+++++++.+.. ++....+.+.
T Consensus 76 --~~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~ 153 (281)
T cd06325 76 --ANATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELK 153 (281)
T ss_pred --HHcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHH
Confidence 245679999987644331110 011111222334455567778888775 9999999986543 5556678888
Q ss_pred HHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCC
Q 008912 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (549)
Q Consensus 181 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~ 243 (549)
+.+++.|+.+.... .. ...++...++++... +++|++..+ ..+..+++++.+.++
T Consensus 154 ~~~~~~g~~~~~~~-~~-----~~~~~~~~~~~~~~~-~dai~~~~d-~~a~~~~~~~~~~~~ 208 (281)
T cd06325 154 KAAAKLGIEVVEAT-VS-----SSNDVQQAAQSLAGK-VDAIYVPTD-NTVASAMEAVVKVAN 208 (281)
T ss_pred HHHHhCCCEEEEEe-cC-----CHHHHHHHHHHhccc-CCEEEEcCc-hhHHhHHHHHHHHHH
Confidence 88988898776532 11 244566777777643 566665444 456667777777664
No 94
>PRK10797 glutamate and aspartate transporter subunit; Provisional
Probab=98.61 E-value=8.4e-08 Score=92.44 Aligned_cols=76 Identities=21% Similarity=0.188 Sum_probs=63.3
Q ss_pred CCeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHH----hCC---CCcCEEEEECCCCCCCCChHHHHHhHhcCc
Q 008912 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVR----LLP---YAVPYKFIPYGDGHKNPTYSELINQITTGV 533 (549)
Q Consensus 461 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~----~l~---~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~ 533 (549)
.+.|+|++.. .|+||.+.. .++.+.||+|||++++++ +|| ++ ++++++ .|..++..|..|+
T Consensus 39 ~g~L~Vg~~~--~~pP~~f~~-~~g~~~G~didl~~~ia~~l~~~lg~~~~~--~~~v~~-------~~~~~i~~L~~G~ 106 (302)
T PRK10797 39 NGVIVVGHRE--SSVPFSYYD-NQQKVVGYSQDYSNAIVEAVKKKLNKPDLQ--VKLIPI-------TSQNRIPLLQNGT 106 (302)
T ss_pred CCeEEEEEcC--CCCCcceEC-CCCCEeeecHHHHHHHHHHHHHhhCCCCce--EEEEEc-------ChHhHHHHHHCCC
Confidence 5779999864 567776654 356799999998888766 454 66 999999 8999999999999
Q ss_pred ccEEecceEEeeccc
Q 008912 534 SRILTKKVAQLTRVS 548 (549)
Q Consensus 534 ~d~~~~~~ti~~~r~ 548 (549)
+||+++++++|++|+
T Consensus 107 ~Di~~~~~~~t~eR~ 121 (302)
T PRK10797 107 FDFECGSTTNNLERQ 121 (302)
T ss_pred ccEEecCCccCcchh
Confidence 999999999999996
No 95
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=98.57 E-value=2.1e-05 Score=75.03 Aligned_cols=199 Identities=9% Similarity=0.024 Sum_probs=120.8
Q ss_pred EEEEEecc-CCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCchHHH
Q 008912 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~-~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aii-Gp~~s~~~~ 105 (549)
+||++.|. +..+-.....+++.+.++ .|+++.+...+...++....+....++.+++.++| .|..+....
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 72 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKK--------LGVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLV 72 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHH--------hCCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhH
Confidence 58999985 332222334445444444 26677776666666776666677778888898854 554444333
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecCC--cccchHHHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD--QGRNGVTALGD 181 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~--~g~~~~~~l~~ 181 (549)
.....+...++|+|.+.... .....+ .+.++....++.+++.+... |.++++++..... ......+.+.+
T Consensus 73 ~~~~~~~~~~iPvV~~~~~~---~~~~~~---~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~ 146 (275)
T cd06320 73 PAVERAKKKGIPVVNVNDKL---IPNATA---FVGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTE 146 (275)
T ss_pred HHHHHHHHCCCeEEEECCCC---CCccce---EEecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHH
Confidence 44456677899999874321 111112 24667777788888888776 8999999975332 23444577888
Q ss_pred HHhhc-CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc-chHHHHHHHHHHHHcCCC
Q 008912 182 KLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG-YSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 182 ~~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~-~~~~~~~il~~a~~~g~~ 244 (549)
.+++. |+.+....... ....+....++++.+..+++-.+++ +...+..+++.+++.|+.
T Consensus 147 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~ 207 (275)
T cd06320 147 AIKKASGIEVVASQPAD----WDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQ 207 (275)
T ss_pred HHhhCCCcEEEEecCCC----ccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCC
Confidence 89888 88765432111 1233444556665544444433444 445566688888888874
No 96
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional
Probab=98.55 E-value=1.9e-07 Score=88.38 Aligned_cols=76 Identities=14% Similarity=0.228 Sum_probs=66.8
Q ss_pred CCeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecc
Q 008912 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKK 540 (549)
Q Consensus 461 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~ 540 (549)
.++++|++.. .|+||....+ ++.+.||.+||++++++.+|.+ ++++.. .|+.++..+..|++|+++++
T Consensus 25 ~~~l~v~~~~--~~pPf~~~~~-~g~~~G~~vdl~~~ia~~lg~~--~~~~~~-------~~~~~~~~l~~g~~Di~~~~ 92 (260)
T PRK15010 25 PETVRIGTDT--TYAPFSSKDA-KGDFVGFDIDLGNEMCKRMQVK--CTWVAS-------DFDALIPSLKAKKIDAIISS 92 (260)
T ss_pred CCeEEEEecC--CcCCceeECC-CCCEEeeeHHHHHHHHHHhCCc--eEEEeC-------CHHHHHHHHHCCCCCEEEec
Confidence 4778888753 5778877543 5789999999999999999999 999988 99999999999999999999
Q ss_pred eEEeeccc
Q 008912 541 VAQLTRVS 548 (549)
Q Consensus 541 ~ti~~~r~ 548 (549)
+++|++|+
T Consensus 93 ~~~t~eR~ 100 (260)
T PRK15010 93 LSITDKRQ 100 (260)
T ss_pred CcCCHHHH
Confidence 99999996
No 97
>PRK15007 putative ABC transporter arginine-biding protein; Provisional
Probab=98.54 E-value=1.9e-07 Score=87.46 Aligned_cols=76 Identities=13% Similarity=0.185 Sum_probs=66.1
Q ss_pred CCeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecc
Q 008912 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKK 540 (549)
Q Consensus 461 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~ 540 (549)
.++|+|++.. .|+||.+.. .++.++||++|+++++++.+|++ ++++.. .|+.++..|..|++|+++++
T Consensus 20 ~~~l~v~~~~--~~~P~~~~~-~~g~~~G~~~dl~~~i~~~lg~~--~~~~~~-------~~~~~~~~l~~g~~D~~~~~ 87 (243)
T PRK15007 20 AETIRFATEA--SYPPFESID-ANNQIVGFDVDLAQALCKEIDAT--CTFSNQ-------AFDSLIPSLKFRRVEAVMAG 87 (243)
T ss_pred CCcEEEEeCC--CCCCceeeC-CCCCEEeeeHHHHHHHHHHhCCc--EEEEeC-------CHHHHhHHHhCCCcCEEEEc
Confidence 4679998853 567776654 36789999999999999999999 999888 89999999999999999988
Q ss_pred eEEeeccc
Q 008912 541 VAQLTRVS 548 (549)
Q Consensus 541 ~ti~~~r~ 548 (549)
++.|++|+
T Consensus 88 ~~~~~~r~ 95 (243)
T PRK15007 88 MDITPERE 95 (243)
T ss_pred CccCHHHh
Confidence 99999986
No 98
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional
Probab=98.53 E-value=2.1e-07 Score=88.03 Aligned_cols=76 Identities=16% Similarity=0.248 Sum_probs=65.8
Q ss_pred CCeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecc
Q 008912 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKK 540 (549)
Q Consensus 461 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~ 540 (549)
.++|+|++.. .|+||...+ .++.+.||++|+++++++.+|.+ ++++.. +|+.++..+.+|++|+++++
T Consensus 25 ~~~l~v~~~~--~~~P~~~~~-~~g~~~G~~vdi~~~ia~~lg~~--i~~~~~-------pw~~~~~~l~~g~~D~~~~~ 92 (259)
T PRK15437 25 PQNIRIGTDP--TYAPFESKN-SQGELVGFDIDLAKELCKRINTQ--CTFVEN-------PLDALIPSLKAKKIDAIMSS 92 (259)
T ss_pred CCeEEEEeCC--CCCCcceeC-CCCCEEeeeHHHHHHHHHHcCCc--eEEEeC-------CHHHHHHHHHCCCCCEEEec
Confidence 4678888742 466776643 35789999999999999999999 999998 99999999999999999999
Q ss_pred eEEeeccc
Q 008912 541 VAQLTRVS 548 (549)
Q Consensus 541 ~ti~~~r~ 548 (549)
++.|++|+
T Consensus 93 ~~~t~eR~ 100 (259)
T PRK15437 93 LSITEKRQ 100 (259)
T ss_pred CCCCHHHh
Confidence 99999996
No 99
>PRK09495 glnH glutamine ABC transporter periplasmic protein; Reviewed
Probab=98.50 E-value=2.9e-07 Score=86.39 Aligned_cols=75 Identities=20% Similarity=0.348 Sum_probs=65.1
Q ss_pred CCeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecc
Q 008912 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKK 540 (549)
Q Consensus 461 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~ 540 (549)
.++++|++.. .|+||... .++.+.||.+||++++++.+|.+ ++++.. +|++++..|.+|++|+++++
T Consensus 24 ~~~l~v~~~~--~~~P~~~~--~~g~~~G~~vdl~~~ia~~lg~~--~~~~~~-------~~~~~~~~l~~G~vDi~~~~ 90 (247)
T PRK09495 24 DKKLVVATDT--AFVPFEFK--QGDKYVGFDIDLWAAIAKELKLD--YTLKPM-------DFSGIIPALQTKNVDLALAG 90 (247)
T ss_pred CCeEEEEeCC--CCCCeeec--CCCceEEEeHHHHHHHHHHhCCc--eEEEeC-------CHHHHHHHHhCCCcCEEEec
Confidence 5788998753 56777653 35678999999999999999999 999888 89999999999999999989
Q ss_pred eEEeeccc
Q 008912 541 VAQLTRVS 548 (549)
Q Consensus 541 ~ti~~~r~ 548 (549)
++.|++|+
T Consensus 91 ~~~t~~R~ 98 (247)
T PRK09495 91 ITITDERK 98 (247)
T ss_pred CccCHHHH
Confidence 99999986
No 100
>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=98.46 E-value=1.8e-07 Score=87.57 Aligned_cols=67 Identities=9% Similarity=0.092 Sum_probs=57.6
Q ss_pred EEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHH---HhHhcCcccEEecc
Q 008912 464 LRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELI---NQITTGVSRILTKK 540 (549)
Q Consensus 464 ~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~---~~l~~~~~d~~~~~ 540 (549)
|+|++.. .|+||.+.. + .||++||+++||++||++ ++++.. +|++++ ..|.+|++|+++ +
T Consensus 2 l~vg~~~--~~pPf~~~~---~--~Gfdvdl~~~ia~~lg~~--~~~~~~-------~~~~~~~~~~~L~~g~~Dii~-~ 64 (246)
T TIGR03870 2 LRVCAAT--KEAPYSTKD---G--SGFENKIAAALAAAMGRK--VVFVWL-------AKPAIYLVRDGLDKKLCDVVL-G 64 (246)
T ss_pred eEEEeCC--CCCCCccCC---C--CcchHHHHHHHHHHhCCC--eEEEEe-------ccchhhHHHHHHhcCCccEEE-e
Confidence 6787754 677877642 2 799999999999999999 999999 999987 699999999998 5
Q ss_pred eEEeecc
Q 008912 541 VAQLTRV 547 (549)
Q Consensus 541 ~ti~~~r 547 (549)
+++|++|
T Consensus 65 ~~~t~~r 71 (246)
T TIGR03870 65 LDTGDPR 71 (246)
T ss_pred CCCChHH
Confidence 9999888
No 101
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=98.45 E-value=0.00012 Score=68.00 Aligned_cols=204 Identities=15% Similarity=0.118 Sum_probs=132.9
Q ss_pred CCCceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCc-eEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCC
Q 008912 22 LKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGR-KLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQS 100 (549)
Q Consensus 22 ~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~-~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~ 100 (549)
...+.++||+....+.+.-.....+++-|+.+. |. .+++.+...++++..+...++++..++.++|++-.+
T Consensus 26 ~~~~~~~VaI~~~veHpaLd~~~~G~~~aLk~~--------G~~n~~i~~~na~~~~~~a~~iarql~~~~~dviv~i~t 97 (322)
T COG2984 26 AAADQITVAITQFVEHPALDAAREGVKEALKDA--------GYKNVKIDYQNAQGDLGTAAQIARQLVGDKPDVIVAIAT 97 (322)
T ss_pred ccccceeEEEEEeecchhHHHHHHHHHHHHHhc--------CccCeEEEeecCCCChHHHHHHHHHhhcCCCcEEEecCC
Confidence 456677788888876433334455665555553 23 678888888899999999999999888877777444
Q ss_pred chHHHHHHHhhhhcCCcEEecccCCCCCCC--CC--CCceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecCC-ccc
Q 008912 101 AVMAHVLSHLANELQVPLLSFTALDPTLSP--LQ--YPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD-QGR 173 (549)
Q Consensus 101 s~~~~~va~~~~~~~iP~Is~~~~~~~ls~--~~--~~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~-~g~ 173 (549)
. .+.++.. .-.++|+|-.+.+++.-.. +. -|----+.-||..-..--++++++. +-++++++|..++ ...
T Consensus 98 p-~Aq~~~s--~~~~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns~ 174 (322)
T COG2984 98 P-AAQALVS--ATKTIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANSV 174 (322)
T ss_pred H-HHHHHHH--hcCCCCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCcccH
Confidence 3 3333332 2234999987777653221 11 1212223334444445556666663 7899999998664 677
Q ss_pred chHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch---HHHHHHHHHHHHcCC
Q 008912 174 NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS---RTGLMVFDVAQRLGM 243 (549)
Q Consensus 174 ~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~---~~~~~il~~a~~~g~ 243 (549)
...+.+...+++.|++|.... ++ +..+....++.+. .+.++|++.++. .....+++.|.+.+.
T Consensus 175 ~l~eelk~~A~~~Gl~vve~~-v~-----~~ndi~~a~~~l~-g~~d~i~~p~dn~i~s~~~~l~~~a~~~ki 240 (322)
T COG2984 175 SLVEELKKEARKAGLEVVEAA-VT-----SVNDIPRAVQALL-GKVDVIYIPTDNLIVSAIESLLQVANKAKI 240 (322)
T ss_pred HHHHHHHHHHHHCCCEEEEEe-cC-----cccccHHHHHHhc-CCCcEEEEecchHHHHHHHHHHHHHHHhCC
Confidence 788999999999999987543 22 2345556666665 567888887775 345566777776554
No 102
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=98.43 E-value=0.00014 Score=70.28 Aligned_cols=222 Identities=14% Similarity=0.077 Sum_probs=123.9
Q ss_pred CchhHHHHHHHHhhhcccccCCCCceEEEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHH
Q 008912 1 MNLWWLVSIFSFCIGTAIQGALKPEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFL 79 (549)
Q Consensus 1 m~~~~~~~~~~~~~~~~~~~~~~~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~ 79 (549)
|+|+.+++...++- |+........-.||+++|.. .++-.....+++.+.++ .|+++ .+.++..++..
T Consensus 3 ~~~~~~~~~~~~~~--~~~~~~~~~~~~I~vi~~~~~~~f~~~~~~~i~~~~~~--------~G~~~--~~~~~~~d~~~ 70 (295)
T PRK10653 3 MKKLATLVSAVALS--ATVSANAMAKDTIALVVSTLNNPFFVSLKDGAQKEADK--------LGYNL--VVLDSQNNPAK 70 (295)
T ss_pred hHHHHHHHHHHHHH--HhcCCccccCCeEEEEecCCCChHHHHHHHHHHHHHHH--------cCCeE--EEecCCCCHHH
Confidence 55555543333322 23333333456899999853 33223445555555555 24444 34566667766
Q ss_pred HHHHHHHHHhcCcEEEE-cCCCchHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc-
Q 008912 80 SIMGALQFMETDTLAIV-GPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF- 157 (549)
Q Consensus 80 a~~~~~~l~~~~v~aii-Gp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~- 157 (549)
..+....++.+++.++| +|..+.........+...++|+|.+.... .+ .+.+..+.+....-+..+++.+...
T Consensus 71 ~~~~~~~l~~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~---~~--~~~~~~V~~D~~~~g~~~~~~l~~~~ 145 (295)
T PRK10653 71 ELANVQDLTVRGTKILLINPTDSDAVGNAVKMANQANIPVITLDRGA---TK--GEVVSHIASDNVAGGKMAGDFIAKKL 145 (295)
T ss_pred HHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHHCCCCEEEEccCC---CC--CceeeEEccChHHHHHHHHHHHHHHh
Confidence 66666677777887444 55544443344566677899999975321 11 1233455666666667777776654
Q ss_pred CCc-EEEEEEecC--CcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEE-EcchHHHHH
Q 008912 158 GWG-EVIAIFNDD--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVV-HGYSRTGLM 233 (549)
Q Consensus 158 ~W~-~v~ii~~~~--~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil-~~~~~~~~~ 233 (549)
+.+ ++.++..+. .......+.+.+.+++.|+.+.... ... .+..+....+.++.++.++.-.+ +.+...+..
T Consensus 146 ~~~~~i~~~~~~~~~~~~~~R~~gf~~al~~~g~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g 221 (295)
T PRK10653 146 GEGAKVIQLEGIAGTSAARERGEGFKQAVAAHKFNVLASQ--PAD--FDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALG 221 (295)
T ss_pred CCCceEEEEEccCCCccHHHHHHHHHHHHhhCCCEEEEec--CCC--CCHHHHHHHHHHHHHhCCCcCEEEECCChhHHH
Confidence 543 566555322 2234566788889998887764321 111 12233344555555444443333 344455556
Q ss_pred HHHHHHHcCC
Q 008912 234 VFDVAQRLGM 243 (549)
Q Consensus 234 il~~a~~~g~ 243 (549)
+++++++.|+
T Consensus 222 ~l~al~~~G~ 231 (295)
T PRK10653 222 ALRALQTAGK 231 (295)
T ss_pred HHHHHHHcCC
Confidence 8899999886
No 103
>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=98.41 E-value=2.9e-07 Score=84.87 Aligned_cols=73 Identities=22% Similarity=0.414 Sum_probs=63.1
Q ss_pred EEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecceEE
Q 008912 464 LRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKKVAQ 543 (549)
Q Consensus 464 ~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~~ti 543 (549)
|||++.. .|+||..... ++...|+++|+++++++.+|++ ++++.. +|+.++..|.+|++|++++++++
T Consensus 1 l~V~~~~--~~~P~~~~~~-~~~~~G~~~dl~~~i~~~~g~~--~~~~~~-------~~~~~~~~l~~g~~D~~~~~~~~ 68 (225)
T PF00497_consen 1 LRVGVDE--DYPPFSYIDE-DGEPSGIDVDLLRAIAKRLGIK--IEFVPM-------PWSRLLEMLENGKADIIIGGLSI 68 (225)
T ss_dssp EEEEEES--EBTTTBEEET-TSEEESHHHHHHHHHHHHHTCE--EEEEEE-------EGGGHHHHHHTTSSSEEESSEB-
T ss_pred CEEEEcC--CCCCeEEECC-CCCEEEEhHHHHHHHHhhcccc--cceeec-------ccccccccccccccccccccccc
Confidence 5777743 5667766554 6789999999999999999999 999998 99999999999999999999999
Q ss_pred eeccc
Q 008912 544 LTRVS 548 (549)
Q Consensus 544 ~~~r~ 548 (549)
|++|+
T Consensus 69 ~~~r~ 73 (225)
T PF00497_consen 69 TPERA 73 (225)
T ss_dssp BHHHH
T ss_pred ccccc
Confidence 99985
No 104
>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=98.38 E-value=6.5e-05 Score=71.20 Aligned_cols=202 Identities=10% Similarity=0.099 Sum_probs=120.7
Q ss_pred EEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
.||+++|... .+......++..+.++ .|+.+.+ .++..++....+...+++.++++++|....+.....
T Consensus 1 ~igvv~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 70 (266)
T cd06282 1 TVGVVLPSLANPVFAECVQGIQEEARA--------AGYSLLL--ATTDYDAEREADAVETLLRQRVDGLILTVADAATSP 70 (266)
T ss_pred CeEEEeCCCCcchHHHHHHHHHHHHHH--------CCCEEEE--eeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCCchH
Confidence 3788888642 2222333444444433 1455554 455566666667777777889999986433322233
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEec---CCcccchHHHHHHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND---DDQGRNGVTALGDKL 183 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~---~~~g~~~~~~l~~~~ 183 (549)
....+...++|+|......+ ...+++ .......+..+++++...|.++++++..+ .+++....+.+.+.+
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~----~~~~~v---~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 143 (266)
T cd06282 71 ALDLLDAERVPYVLAYNDPQ----PGRPSV---SVDNRAAARDVAQALAALGHRRIAMLAGRLAASDRARQRYAGYRAAM 143 (266)
T ss_pred HHHHHhhCCCCEEEEeccCC----CCCCEE---eeCcHHHHHHHHHHHHHcCcccEEEeccccccCchHHHHHHHHHHHH
Confidence 45667788999998743221 123332 35667788889999988899999999743 224555678888888
Q ss_pred hhcCeEEEEEEccCCCCCCChhhHHHHHHHH-hcC-CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 184 AEIRCKISYKSALPPDQSVTETDVRNELVKV-RMM-EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l-~~~-~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
++.|+.+......+ ....+....+.++ ++. .++.|+. ++...+..+++++++.|+..++.+-+
T Consensus 144 ~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~~p~di~v 208 (266)
T cd06282 144 RAAGLAPLPPVEIP----FNTAALPSALLALLTAHPAPTAIFC-SNDLLALAVIRALRRLGLRVPDDLSV 208 (266)
T ss_pred HHcCCCCCccccCC----CcHHHHHHHHHHHhcCCCCCCEEEE-CCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 88887543322222 1122233344443 333 3455444 55666778899999998754443433
No 105
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein.
Probab=98.35 E-value=1e-06 Score=82.82 Aligned_cols=75 Identities=17% Similarity=0.284 Sum_probs=65.2
Q ss_pred CeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecce
Q 008912 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKKV 541 (549)
Q Consensus 462 ~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~~ 541 (549)
++++|++.. .|+||.... .+++++||++|+++++++.+|++ +++++. +|+.++..|.+|++|++++++
T Consensus 24 ~~l~v~~~~--~~~P~~~~~-~~g~~~G~~~dl~~~i~~~lg~~--~~~~~~-------~~~~~~~~l~~G~~D~~~~~~ 91 (250)
T TIGR01096 24 GSVRIGTET--GYPPFESKD-ANGKLVGFDVDLAKALCKRMKAK--CKFVEQ-------NFDGLIPSLKAKKVDAIMATM 91 (250)
T ss_pred CeEEEEECC--CCCCceEEC-CCCCEEeehHHHHHHHHHHhCCe--EEEEeC-------CHHHHHHHHhCCCcCEEEecC
Confidence 689998743 567776643 36789999999999999999999 999998 999999999999999999888
Q ss_pred EEeeccc
Q 008912 542 AQLTRVS 548 (549)
Q Consensus 542 ti~~~r~ 548 (549)
+.|++|+
T Consensus 92 ~~~~~r~ 98 (250)
T TIGR01096 92 SITPKRQ 98 (250)
T ss_pred ccCHHHh
Confidence 8888885
No 106
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=98.32 E-value=7.5e-05 Score=73.26 Aligned_cols=296 Identities=10% Similarity=0.109 Sum_probs=175.0
Q ss_pred CCCceEEEEEEeccCC---CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHH-hcCcEEEEc
Q 008912 22 LKPEVLNVGAIFSFGT---VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFM-ETDTLAIVG 97 (549)
Q Consensus 22 ~~~~~i~IG~l~~~~~---~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~-~~~v~aiiG 97 (549)
.+..+-+|+.++|++. ..|.....+|..|.. -+.. .++-..++.++|+...+.. .+...+ ..|+..|+|
T Consensus 253 ~~~~~skiALLLPLtG~~a~~a~~IqdGF~aA~~-~~~~---~~~~~~~~~i~dT~~~~l~---~i~aqaqq~G~~~VVG 325 (604)
T COG3107 253 SQASPSKIALLLPLTGQAAVFARTIQDGFLAAKN-APAT---QTAQVAELKIYDTSAQPLD---AILAQAQQDGADFVVG 325 (604)
T ss_pred ccCCchheeEEeccCChhHHHHHHHHHHHHHhcc-Cccc---CCccccceeeccCCcccHH---HHHHHHHhcCCcEEec
Confidence 3456778999999984 345566777776655 1111 1333377888888776654 333333 459999999
Q ss_pred CCCchHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHH
Q 008912 98 PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVT 177 (549)
Q Consensus 98 p~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~ 177 (549)
|.--.....+..--. ..||++....++. +. ..+.+....-+.+..++..++.+-.-|.+...++...+++|+...+
T Consensus 326 PLlK~nVe~L~~~~q-~~i~vLALN~~~n--~r-~~~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlvPr~~lG~Rv~~ 401 (604)
T COG3107 326 PLLKPNVEALLASNQ-QPIPVLALNQPEN--SR-NPAQLCYFALSPEDEARDAANHLWDQGKRNPLVLVPRNDLGDRVAN 401 (604)
T ss_pred cccchhHHHHHhCcC-CCCceeeecCCcc--cc-CcccceeeecChhHHHHHHHHHHHHccccCceEEecchHHHHHHHH
Confidence 999887776654333 6788887533221 11 2233333333444567889999999999999999999999999999
Q ss_pred HHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHH-----------------------HHHhcCC-CeEEEEEcchHHHHH
Q 008912 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNEL-----------------------VKVRMME-ARVIVVHGYSRTGLM 233 (549)
Q Consensus 178 ~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l-----------------------~~l~~~~-~~viil~~~~~~~~~ 233 (549)
.|.+++++.|...+....+.. ..++..-+ ..+++.. .+.|++...+.++..
T Consensus 402 AF~~~Wq~~gg~~v~~~~fg~-----~~~l~~~i~~~a~ir~~~~p~~~~~~~g~~~~p~~~~d~iDaVyivAtp~el~~ 476 (604)
T COG3107 402 AFNQEWQKLGGGTVLQQKFGS-----TSELRQGINDGAGIRLTGLPADLTTTNGLQTPPLDDQDTIDAVYIVATPSELAL 476 (604)
T ss_pred HHHHHHHHhcCCchhHhhcCc-----HHHHHhhcccccceeecCCccchhcccCCCCCCcccccccceEEEEecchhHhH
Confidence 999999998874333222211 11111111 1112222 677888888877776
Q ss_pred HHHHHHHcCCCCCCeEEEEeCCcccccCCCCcCChhhHhhccceEEEeE---ecCCChhHHHHHHHHHhhcCCCCCCCch
Q 008912 234 VFDVAQRLGMMDSGYVWIATTWLSTFIDSKSPLSLKTAKSILGALTLRQ---HTPDSKRRRDFVSRWNTLSNGSIGLNPY 310 (549)
Q Consensus 234 il~~a~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~---~~~~~~~~~~f~~~~~~~~~~~~~~~~~ 310 (549)
+--...-.+.....-.|-.+...... . ..+....++|+..... ..+..|.++.....|..
T Consensus 477 IKP~ia~~~~~~~~p~yaSSr~~~gT-~-----~P~~~~~m~GiqysdiP~l~~~~~p~~qq~a~~~p~----------- 539 (604)
T COG3107 477 IKPMIAMANGSDSPPLYASSRSSQGT-N-----GPDFRLEMEGIQYSDIPWLAQPNPPLMQQAAAAWPN----------- 539 (604)
T ss_pred HhhHHHhhcCCCCcceeeeccccccC-C-----CccHHHhccCccccCCchhcCCCchHHHHHHHhcCC-----------
Confidence 54444433322221223222211111 0 1233445666554322 24556677777777664
Q ss_pred hhhHhHHHHHHHHHHHHHHhcCCCccccCCccccCCCCCccccCCccccCchHHHHHH------HHhccccccceeeEEc
Q 008912 311 GLYAYDTVWMIARALKLFLDQGNTISFSNDTKLNGLGGGTLNLGALSIFDGGKKFLAN------ILQTNMTGLSGPIHFN 384 (549)
Q Consensus 311 ~~~~yDav~~~a~Al~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~l~~~------l~~~~f~g~tG~v~fd 384 (549)
-|..+.++|.+++.- .|..+ ..+-.++|+||.++.|
T Consensus 540 ---~~sl~RLyAmGvDAw-----------------------------------rLan~f~elrqV~G~~i~G~TG~Lsad 581 (604)
T COG3107 540 ---DYSLARLYAMGVDAW-----------------------------------RLANHFSELRQVPGYQIDGLTGTLSAD 581 (604)
T ss_pred ---chHHHHHHHhcchHH-----------------------------------HHHHHhHHhhcCCCcccccccceeecC
Confidence 255666777666542 22222 2233578999999999
Q ss_pred cCCC
Q 008912 385 QDRS 388 (549)
Q Consensus 385 ~~g~ 388 (549)
+++.
T Consensus 582 ~~c~ 585 (604)
T COG3107 582 PDCV 585 (604)
T ss_pred CCce
Confidence 9874
No 107
>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=98.31 E-value=0.00021 Score=67.82 Aligned_cols=204 Identities=13% Similarity=0.090 Sum_probs=118.7
Q ss_pred EEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCchHHHH
Q 008912 29 VGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAHV 106 (549)
Q Consensus 29 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aii-Gp~~s~~~~~ 106 (549)
||+++|.. ..+......++..+.++ .|+.+ .+.++..++....+...+++.++++++| ++..+.....
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~--------~g~~v--~~~~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~ 71 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKE--------LGYEL--TVLDAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVP 71 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHH--------cCceE--EecCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHH
Confidence 78888753 33333445555555555 14444 4556666777667777777788898844 5554443333
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecC--CcccchHHHHHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDD--DQGRNGVTALGDK 182 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~--~~g~~~~~~l~~~ 182 (549)
....+...++|+|......+. ...+-.+..+....+..+++.+... |-+++++++.+. ..+....+.+.+.
T Consensus 72 ~l~~l~~~~ipvv~~~~~~~~-----~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~ 146 (268)
T cd06323 72 AVKAANEAGIPVFTIDREANG-----GEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHEV 146 (268)
T ss_pred HHHHHHHCCCcEEEEccCCCC-----CceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHH
Confidence 444456789999997543221 1223345566666778888888776 789999997632 3455566778888
Q ss_pred Hhhc-CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeE-EEEEcchHHHHHHHHHHHHcCCCCCCeEEEEe
Q 008912 183 LAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMMEARV-IVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (549)
Q Consensus 183 ~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (549)
+++. |+.+....... .+..+....+.++.+..++. .|++.+...+..+++++++.|+ .+...++.
T Consensus 147 l~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~--~di~iig~ 213 (268)
T cd06323 147 VDKYPGLKVVASQPAD----FDRAKGLNVMENILQAHPDIKGVFAQNDEMALGAIEALKAAGK--DDVKVVGF 213 (268)
T ss_pred HHhCCCcEEEecccCC----CCHHHHHHHHHHHHHHCCCcCEEEEcCCchHHHHHHHHHHcCC--CCcEEEEe
Confidence 8874 77654321111 11223333444544333332 2333444555568888888887 34444443
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=98.27 E-value=0.00014 Score=69.05 Aligned_cols=204 Identities=17% Similarity=0.128 Sum_probs=120.7
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
.||+++|.. ..+......++..++++ .|+.+. +.++..++....+....+++++++++|--.... ...
T Consensus 1 ~i~vv~p~~~~~~~~~~~~~i~~~~~~--------~g~~~~--~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~-~~~ 69 (268)
T cd06273 1 TIGAIVPTLDNAIFARVIQAFQETLAA--------HGYTLL--VASSGYDLDREYAQARKLLERGVDGLALIGLDH-SPA 69 (268)
T ss_pred CeEEEeCCCCCchHHHHHHHHHHHHHH--------CCCEEE--EecCCCCHHHHHHHHHHHHhcCCCEEEEeCCCC-CHH
Confidence 489999863 22223334444444444 244444 467777777777777788888887766421111 223
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecC---CcccchHHHHHHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD---DQGRNGVTALGDKL 183 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~---~~g~~~~~~l~~~~ 183 (549)
....+...++|+|......+ ....++ +.......+..+++.+...|.+++++|.... ..+......|.+.+
T Consensus 70 ~~~~l~~~~iPvv~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l 143 (268)
T cd06273 70 LLDLLARRGVPYVATWNYSP---DSPYPC---VGFDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRARARRAGVRAAL 143 (268)
T ss_pred HHHHHHhCCCCEEEEcCCCC---CCCCCE---EEeChHHHHHHHHHHHHHCCCCeEEEEeccccCCccHHHHHHHHHHHH
Confidence 34456778999998754322 112233 3456777888899988888999999997432 23455678888899
Q ss_pred hhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
++.++.+.....+... ....+....+.++.+. .+++|+. ++...+..+++.+++.|+..++.+-+
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~~~~~~l~~~g~~~p~~i~v 210 (268)
T cd06273 144 AEAGLELPELWQVEAP--YSIADGRAALRQLLEQPPRPTAVIC-GNDVLALGALYEARRLGLSVPEDLSI 210 (268)
T ss_pred HHcCCCCCHHHeeeCC--CcHHHHHHHHHHHHcCCCCCCEEEE-cChHHHHHHHHHHHHcCCCCCCceEE
Confidence 8887543321111111 1122334455555433 3555554 55566777888888888765444433
No 109
>PRK11260 cystine transporter subunit; Provisional
Probab=98.24 E-value=2.7e-06 Score=80.79 Aligned_cols=76 Identities=13% Similarity=0.258 Sum_probs=65.7
Q ss_pred CCeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecc
Q 008912 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKK 540 (549)
Q Consensus 461 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~ 540 (549)
.++++|++.. .|+|+.... +++.+.||.+|+++++++.+|++ ++++.. .|..+...|.+|++|+++++
T Consensus 40 ~~~l~v~~~~--~~~P~~~~~-~~g~~~G~~~dl~~~i~~~lg~~--~e~~~~-------~~~~~~~~l~~G~~D~~~~~ 107 (266)
T PRK11260 40 RGTLLVGLEG--TYPPFSFQG-EDGKLTGFEVEFAEALAKHLGVK--ASLKPT-------KWDGMLASLDSKRIDVVINQ 107 (266)
T ss_pred CCeEEEEeCC--CcCCceEEC-CCCCEEEehHHHHHHHHHHHCCe--EEEEeC-------CHHHHHHHHhcCCCCEEEec
Confidence 5789998743 567776543 46779999999999999999999 999988 89999999999999999988
Q ss_pred eEEeeccc
Q 008912 541 VAQLTRVS 548 (549)
Q Consensus 541 ~ti~~~r~ 548 (549)
++++++|+
T Consensus 108 ~~~~~~r~ 115 (266)
T PRK11260 108 VTISDERK 115 (266)
T ss_pred cccCHHHH
Confidence 99999885
No 110
>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=98.20 E-value=0.00039 Score=66.26 Aligned_cols=201 Identities=14% Similarity=0.143 Sum_probs=115.1
Q ss_pred EEEEEeccC--CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHH
Q 008912 28 NVGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMA 104 (549)
Q Consensus 28 ~IG~l~~~~--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~ 104 (549)
.||+++|.. ..+......+++.+.++ .|+.+ .+.++..++....+....++.++++++|- +..+...
T Consensus 1 ~i~vi~p~~~~~~~~~~~~~g~~~~~~~--------~g~~~--~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~ 70 (275)
T cd06317 1 TIGYTQNNVGSHSYQTTYNKAFQAAAEE--------DGVEV--IVLDANGDVARQAAQVEDLIAQKVDGIILWPTDGQAY 70 (275)
T ss_pred CeEEEecccCCCHHHHHHHHHHHHHHHh--------cCCEE--EEEcCCcCHHHHHHHHHHHHHcCCCEEEEecCCcccc
Confidence 378888863 33344455666666665 14444 45666667777777777778889998865 4433333
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEc-cCCcHHHHHHHHHHHHHc--CCcEEEEEEecCCc--ccchHHHH
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQT-APNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ--GRNGVTAL 179 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~-~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~~--g~~~~~~l 179 (549)
......+...++|+|...... .....++.+.. .+.....+...++.+.+. |-++++++.....+ +....+.+
T Consensus 71 ~~~l~~~~~~~iPvV~~~~~~---~~~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~ 147 (275)
T cd06317 71 IPGLRKAKQAGIPVVITNSNI---SEKGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQKGF 147 (275)
T ss_pred HHHHHHHHHCCCcEEEeCCCC---CCCccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHHHH
Confidence 334455677899999864322 12223443222 344555666677776554 66899999754333 33445778
Q ss_pred HHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHH-hc--CCCeEEEEEcchHHHHHHHHHHHHcCCC
Q 008912 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKV-RM--MEARVIVVHGYSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 180 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l-~~--~~~~viil~~~~~~~~~il~~a~~~g~~ 244 (549)
++.+++.|..+......... ....+....++++ .+ ..++.|+. ++...+..+++++++.|+.
T Consensus 148 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~ 212 (275)
T cd06317 148 EDELAEVCPGVEVLDTQPAD--WDREKAQVAMEALITKFGDDIDGVYA-GDDNMARGALNAAKEAGLA 212 (275)
T ss_pred HHHHHhhCCCCEEEeccCCC--CCHHHHHHHHHHHHHhCCCCccEEEE-CCCcHHHHHHHHHHhcCCc
Confidence 88888876433222111111 1122222334443 22 23455554 4445577889999998875
No 111
>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=98.20 E-value=0.00047 Score=65.81 Aligned_cols=208 Identities=11% Similarity=0.051 Sum_probs=117.9
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCchHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aii-Gp~~s~~~~~ 106 (549)
+||+++|.... .+...+..++++.=++ .|+++ .+.++..++....+...+++..+++++| ++..+.....
T Consensus 1 ~i~vi~~~~~~---~~~~~~~~~i~~~~~~----~g~~~--~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~ 71 (277)
T cd06319 1 QIAYIVSDLRI---PFWQIMGRGVKSKAKA----LGYDA--VELSAENSAKKELENLRTAIDKGVSGIIISPTNSSAAVT 71 (277)
T ss_pred CeEEEeCCCCc---hHHHHHHHHHHHHHHh----cCCeE--EEecCCCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHH
Confidence 47888886421 2223333333332222 14444 4556667777667777777788888885 5655544445
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc------CCcEEEEEEecC--CcccchHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF------GWGEVIAIFNDD--DQGRNGVTA 178 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~------~W~~v~ii~~~~--~~g~~~~~~ 178 (549)
....+...++|+|.+.... .+ ..++..+.++....+..+++++... |-++++++.... ..+....+.
T Consensus 72 ~l~~~~~~~ipvV~~~~~~---~~--~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~~~r~~g 146 (277)
T cd06319 72 LLKLAAQAKIPVVIADIGA---EG--GDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNGQKRTKG 146 (277)
T ss_pred HHHHHHHCCCCEEEEecCC---CC--CceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccHHHHHHH
Confidence 5566778899999864321 11 1233445566666566677665543 568999987432 345566788
Q ss_pred HHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEE-EEcchHHHHHHHHHHHHcCCCCCCeEEEEe
Q 008912 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV-VHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (549)
Q Consensus 179 l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vii-l~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (549)
+++.+++.|+.+..... ... .+.......++++.++.++... ++.....+..+++++++.|+. .+...++.
T Consensus 147 f~~~l~~~~~~~~~~~~-~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~-~di~vvg~ 218 (277)
T cd06319 147 FKEAMKEAGCDLAGIRQ-QKD--FSYQETFDYTNDLLTANPDIRAIWLQGSDRYQGALDAIATAGKT-GKVLLICF 218 (277)
T ss_pred HHHHHHhcCCceEeecc-CCC--CCHHHHHHHHHHHHHhCCCCCEEEECCCccchHHHHHHHHcCCC-CCEEEEEc
Confidence 88999988876542211 111 1223334455555444444323 333444456788899998975 33333333
No 112
>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=98.17 E-value=0.0012 Score=62.75 Aligned_cols=210 Identities=10% Similarity=-0.034 Sum_probs=117.3
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCc-hHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA-VMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s-~~~~~ 106 (549)
|||++.|.-. ..+..-+..++++.-++ .|+++.+...+...++....+....++.++++++|-.... .....
T Consensus 1 ~Igvi~~~~~---~~~~~~~~~g~~~~~~~----~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~ 73 (273)
T cd06310 1 KIALVPKGTT---SDFWQAVKAGAEAAAKE----LGVKVTFQGPASETDVAGQVNLLENAIARGPDAILLAPTDAKALVP 73 (273)
T ss_pred CeEEEecCCC---cHHHHHHHHHHHHHHHH----cCCEEEEecCccCCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHH
Confidence 6899987632 12222223333332222 2566665543334567666677777888899888863333 22233
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecCCc--ccchHHHHHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ--GRNGVTALGDK 182 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~~--g~~~~~~l~~~ 182 (549)
....+...++|+|...... .+. ..+-.+.+.....+..+++.+... |.++++++.....+ .....+.+++.
T Consensus 74 ~l~~~~~~~ipvV~~~~~~---~~~--~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~a 148 (273)
T cd06310 74 PLKEAKDAGIPVVLIDSGL---NSD--IAVSFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLEG 148 (273)
T ss_pred HHHHHHHCCCCEEEecCCC---CCC--cceEEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHHH
Confidence 3344456899999874321 110 112224455656678888888776 89999999744332 23355777888
Q ss_pred Hhhc-CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeE-EEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 008912 183 LAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMMEARV-IVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (549)
Q Consensus 183 ~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (549)
+++. |+.+.... ... ....+-...+.++.+...++ .|++.+...+..+++.+++.|+. .+...++.+
T Consensus 149 ~~~~~~~~~~~~~-~~~---~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~l~~~g~~-~di~vig~d 217 (273)
T cd06310 149 LKEYPGIEIVATQ-YSD---SDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARAVRQAGKA-GKVKVVGFD 217 (273)
T ss_pred HHhCCCcEEEecc-cCC---cCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHHHHhcCCC-CCeEEEEeC
Confidence 8887 77654311 111 11223334555554333333 33444556677789999998875 444444443
No 113
>PRK10859 membrane-bound lytic transglycosylase F; Provisional
Probab=98.13 E-value=4e-06 Score=86.36 Aligned_cols=75 Identities=12% Similarity=0.193 Sum_probs=60.8
Q ss_pred CCeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecc
Q 008912 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKK 540 (549)
Q Consensus 461 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~ 540 (549)
.++|+|++.. .| +.....+++ ..||.+||++++++.+|++ ++++.. .+|+.++..|.+|++|+++++
T Consensus 42 ~g~LrVg~~~-~P---~~~~~~~~~-~~G~~~DLl~~ia~~LGv~--~e~v~~------~~~~~ll~aL~~G~iDi~~~~ 108 (482)
T PRK10859 42 RGELRVGTIN-SP---LTYYIGNDG-PTGFEYELAKRFADYLGVK--LEIKVR------DNISQLFDALDKGKADLAAAG 108 (482)
T ss_pred CCEEEEEEec-CC---CeeEecCCC-cccHHHHHHHHHHHHhCCc--EEEEec------CCHHHHHHHHhCCCCCEEecc
Confidence 5789999865 23 222222333 4999999999999999999 998844 279999999999999999999
Q ss_pred eEEeeccc
Q 008912 541 VAQLTRVS 548 (549)
Q Consensus 541 ~ti~~~r~ 548 (549)
+++|++|+
T Consensus 109 lt~T~eR~ 116 (482)
T PRK10859 109 LTYTPERL 116 (482)
T ss_pred CcCChhhh
Confidence 99999996
No 114
>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=98.12 E-value=0.0013 Score=62.58 Aligned_cols=200 Identities=12% Similarity=0.048 Sum_probs=121.0
Q ss_pred EEEEEeccC--CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCc-hHH
Q 008912 28 NVGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA-VMA 104 (549)
Q Consensus 28 ~IG~l~~~~--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s-~~~ 104 (549)
+||++.|.. ..+......+++.+.++ .|+.+.+...+. .++....+...+++..++.++|..... ...
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~--------~g~~v~~~~~~~-~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~ 71 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKD--------LGVDVEYRGPET-FDVADMARLIEAAIAAKPDGIVVTIPDPDAL 71 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHH--------hCCEEEEECCCC-CCHHHHHHHHHHHHHhCCCEEEEeCCChHHh
Confidence 588888864 33333455666666665 255655443332 267666677777888899988863332 222
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHH-cCCcEEEEEEecC--CcccchHHHHHH
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFNDD--DQGRNGVTALGD 181 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~-~~W~~v~ii~~~~--~~g~~~~~~l~~ 181 (549)
......+...++|+|......+... ..+.+..+..+....+..+++.+.+ .|-++++++..+. ..+....+.+.+
T Consensus 72 ~~~l~~~~~~~ipvV~~~~~~~~~~--~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~g~~~~~~~~~r~~g~~~ 149 (271)
T cd06312 72 DPAIKRAVAAGIPVISFNAGDPKYK--ELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCVIHEPGNVTLEDRCAGFAD 149 (271)
T ss_pred HHHHHHHHHCCCeEEEeCCCCCccc--cccceEEeccChHHHHHHHHHHHHHhcCCCeEEEEecCCCCccHHHHHHHHHH
Confidence 3333445678999999753222111 1234566777888899999999988 8999999887432 334556778888
Q ss_pred HHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHcCCC
Q 008912 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 182 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~g~~ 244 (549)
.+++.++.+... ... .+.......++++.+.. .+.|+. .+...+..+++.+++.|+.
T Consensus 150 ~~~~~~~~~~~~---~~~--~~~~~~~~~~~~~l~~~~~~~aI~~-~~d~~a~g~~~al~~~g~~ 208 (271)
T cd06312 150 GLGGAGITEEVI---ETG--ADPTEVASRIAAYLRANPDVDAVLT-LGAPSAAPAAKALKQAGLK 208 (271)
T ss_pred HHHhcCceeeEe---ecC--CCHHHHHHHHHHHHHhCCCccEEEE-eCCccchHHHHHHHhcCCC
Confidence 888877654321 111 11223344455543332 344433 4445566778888888875
No 115
>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=98.12 E-value=0.00087 Score=63.76 Aligned_cols=208 Identities=14% Similarity=0.012 Sum_probs=119.1
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcC-CCchHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGP-QSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp-~~s~~~~ 105 (549)
+||+++|.. ..+......+++-+.++ .|+.+. +.++..++....+....++..++++||.. ..+....
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~--~~~~~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~ 70 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEA--------LGGDLR--VYDAGGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLK 70 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHH--------cCCEEE--EECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhH
Confidence 478888853 22223344555555444 245544 45667777777777777888899999874 3333333
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHH--cCCcEEEEEEecC-CcccchHHHHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY--FGWGEVIAIFNDD-DQGRNGVTALGDK 182 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~--~~W~~v~ii~~~~-~~g~~~~~~l~~~ 182 (549)
.+...+...++|+|.+....+. +.+..+.++....++.+++.+.. .|.++++++...+ .........+.+.
T Consensus 71 ~~i~~~~~~~ipvV~~~~~~~~------~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~g~~~~ 144 (273)
T cd06305 71 PWVKRALDAGIPVVAFDVDSDN------PKVNNTTQDDYSLARLSLDQLVKDLGGKGNVGYVNVAGFPPLDRRYDVWQAV 144 (273)
T ss_pred HHHHHHHHcCCCEEEecCCCCC------CccceeeechHHHHHHHHHHHHHHhCCCCCEEEEEccCCchHHHHHHHHHHH
Confidence 4445567789999987442211 22334556777788888888776 5889999997532 1223344566777
Q ss_pred HhhcC-eEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeE---EEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 008912 183 LAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMMEARV---IVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (549)
Q Consensus 183 ~~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v---iil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (549)
+++.+ +.+......... ....+....++++....+++ .|++.+...+..++..+++.|+.. +...++.+
T Consensus 145 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~-di~iig~d 217 (273)
T cd06305 145 LKAYPGIKEVAELGDVSN--NTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEAGRTD-EIKIYGVD 217 (273)
T ss_pred HHHCCCcEEecccccccc--cchhHHHHHHHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHcCCCC-CceEEEec
Confidence 77766 554332111111 11223334555544333433 333344556677888888888752 33444443
No 116
>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=98.09 E-value=0.0019 Score=61.46 Aligned_cols=210 Identities=13% Similarity=0.106 Sum_probs=120.1
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCchHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aii-Gp~~s~~~~~ 106 (549)
+||+++|... ..+...+..++++.-+. . .|+ .+.+.++..++....+....+++.+++++| .|..+.....
T Consensus 1 ~igvi~~~~~---~~~~~~~~~gi~~~~~~--~-~~~--~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~ 72 (272)
T cd06301 1 KIGVSMANFD---DNFLTLLRNAMKEHAKV--L-GGV--ELQFEDAKNDVATQLSQVENFIAQGVDAIIVVPVDTAATAP 72 (272)
T ss_pred CeeEeecccC---CHHHHHHHHHHHHHHHH--c-CCc--EEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhHH
Confidence 5899998632 12333333333333222 0 134 444566666777777777778888999886 4555444445
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecCC--cccchHHHHHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD--QGRNGVTALGDK 182 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~--~g~~~~~~l~~~ 182 (549)
+...+...++|+|......+.. .+.+..+..+....+..+++.|... +-++++++..... ......+.|.+.
T Consensus 73 ~~~~l~~~~iPvv~~~~~~~~~----~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~~~R~~gf~~~ 148 (272)
T cd06301 73 IVKAANAAGIPLVYVNRRPENA----PKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVAILMGPLGQSAQIDRTKGVEEV 148 (272)
T ss_pred HHHHHHHCCCeEEEecCCCCCC----CCeeEEEecChHHHHHHHHHHHHHHhCCCccEEEEECCCCCccHHHHHHHHHHH
Confidence 5555688899999874322111 1234456677777788888887665 4469998875432 234456778888
Q ss_pred HhhcC-eEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 008912 183 LAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (549)
Q Consensus 183 ~~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (549)
+++.| ..+... .... .........++++.+. .++.| ++.+...+..+++.+++.|....+...++.+
T Consensus 149 l~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d 218 (272)
T cd06301 149 LAKYPDIKVVEE--QTAN--WSRAEAMDLMENWLSSGGKIDAV-VANNDEMALGAIMALKAAGKSDKDVPVAGID 218 (272)
T ss_pred HHHCCCcEEEec--CCCC--ccHHHHHHHHHHHHHhCCCCCEE-EECCCchHHHHHHHHHHcCCCCCCcEEEeeC
Confidence 88877 433321 1111 1122223444444322 34543 4445556667888999989763354455443
No 117
>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=98.07 E-value=6.2e-06 Score=78.71 Aligned_cols=76 Identities=18% Similarity=0.120 Sum_probs=63.7
Q ss_pred CCeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecc
Q 008912 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKK 540 (549)
Q Consensus 461 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~ 540 (549)
.++|+|++. .|+||.... .++.+.||.+||++++++.+|++. ++++.. +|+.++..|..|++|+++.+
T Consensus 32 ~~~l~v~~~---~~pP~~~~~-~~g~~~G~~~dl~~~i~~~lg~~~-~~~~~~-------~w~~~~~~l~~G~~Di~~~~ 99 (275)
T TIGR02995 32 QGFARIAIA---NEPPFTYVG-ADGKVSGAAPDVARAIFKRLGIAD-VNASIT-------EYGALIPGLQAGRFDAIAAG 99 (275)
T ss_pred CCcEEEEcc---CCCCceeEC-CCCceecchHHHHHHHHHHhCCCc-eeeccC-------CHHHHHHHHHCCCcCEEeec
Confidence 578999875 356776543 356789999999999999999851 567777 99999999999999999989
Q ss_pred eEEeeccc
Q 008912 541 VAQLTRVS 548 (549)
Q Consensus 541 ~ti~~~r~ 548 (549)
+++|++|+
T Consensus 100 ~~~t~eR~ 107 (275)
T TIGR02995 100 LFIKPERC 107 (275)
T ss_pred ccCCHHHH
Confidence 99999996
No 118
>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=98.07 E-value=0.00077 Score=63.99 Aligned_cols=207 Identities=14% Similarity=0.091 Sum_probs=119.3
Q ss_pred EEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHH-hcCcEEEEcCCCchHHHH
Q 008912 29 VGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFM-ETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 29 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~-~~~v~aiiGp~~s~~~~~ 106 (549)
||+++|.. ..+......+++.+.++ .|+.+.+...+.. .......+.+.+ ..+++++|..........
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~~~--~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~ 71 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRD--------TGYQLVIEPCDSG--SPDLAERVRALLQRSRVDGVILTPPLSDNPE 71 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHh--------CCCeEEEEeCCCC--chHHHHHHHHHHHHCCCCEEEEeCCCCCccH
Confidence 78899763 44445556676666654 2567766555432 222344555544 568999987543322234
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcc--cchHHHHHHHHh
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQG--RNGVTALGDKLA 184 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g--~~~~~~l~~~~~ 184 (549)
....+...++|+|......+. ..+++ +..+....+..+++.+...|.++++++..+..+. ......|.+.++
T Consensus 72 ~~~~~~~~~ipvv~i~~~~~~---~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~ 145 (270)
T cd01545 72 LLDLLDEAGVPYVRIAPGTPD---PDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDALA 145 (270)
T ss_pred HHHHHHhcCCCEEEEecCCCC---CCCCe---EEeccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHHH
Confidence 445566789999987543321 12232 3346666778888888888999999998554332 233566788888
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhc--CCCeEEEEEcchHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSG-YVWIATT 254 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 254 (549)
+.|+.+......... ....+-...++++.+ ..++.|+ +.+...+..+++.+++.|...++ ...++.+
T Consensus 146 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~-~~~d~~a~~~~~~~~~~g~~~p~~i~vig~d 215 (270)
T cd01545 146 EAGLPLDPELVAQGD--FTFESGLEAAEALLALPDRPTAIF-ASNDDMAAGVLAVAHRRGLRVPDDLSVVGFD 215 (270)
T ss_pred HcCCCCChhhEEeCC--CChhhHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 777654210001111 111222234444433 3455555 45556777899999998875443 3344443
No 119
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
Probab=98.06 E-value=9.7e-06 Score=77.41 Aligned_cols=80 Identities=19% Similarity=0.264 Sum_probs=64.5
Q ss_pred CCeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecc
Q 008912 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKK 540 (549)
Q Consensus 461 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~ 540 (549)
.+.++|++.. ..++||.......+.+.||++|+++++++.++.....++... .|++++..|..|++|+++++
T Consensus 33 ~~~~~v~~~~-~~~~p~~~~~~~~~~~~G~dvdl~~~ia~~l~~~~~~~~~~~-------~~~~~~~~l~~g~~D~~~~~ 104 (275)
T COG0834 33 RGKLRVGTEA-TYAPPFEFLDAKGGKLVGFDVDLAKAIAKRLGGDKKVEFVPV-------AWDGLIPALKAGKVDIIIAG 104 (275)
T ss_pred cCeEEEEecC-CCCCCcccccCCCCeEEeeeHHHHHHHHHHhCCcceeEEecc-------chhhhhHHHhcCCcCEEEec
Confidence 4667888764 234466665544358999999999999999888522677787 99999999999999999999
Q ss_pred eEEeeccc
Q 008912 541 VAQLTRVS 548 (549)
Q Consensus 541 ~ti~~~r~ 548 (549)
+++|.||.
T Consensus 105 ~~~t~er~ 112 (275)
T COG0834 105 MTITPERK 112 (275)
T ss_pred cccCHHHh
Confidence 99999875
No 120
>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=98.05 E-value=0.0018 Score=61.61 Aligned_cols=210 Identities=12% Similarity=0.052 Sum_probs=119.4
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~~ 106 (549)
.||++.|.-. ..+...+...+++.-++. |+++.+ .+...+...-.+....++.++++++|- +........
T Consensus 1 ~~g~~~~~~~---~~~~~~~~~~~~~~a~~~----g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~ 71 (273)
T cd06309 1 TVGFSQVGAE---SPWRTAETKSIKDAAEKR----GFDLKF--ADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWDP 71 (273)
T ss_pred CeeeccCCCC---CHHHHHHHHHHHHHHHhc----CCEEEE--eCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccchH
Confidence 3788888532 123333333333333321 455444 555556666666677778888888864 433332233
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecCC--cccchHHHHHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD--QGRNGVTALGDK 182 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~--~g~~~~~~l~~~ 182 (549)
....+...++|+|.+....+.. ...+++.++.+.....+..+++.+... +-++++++..+.. ......+.+.+.
T Consensus 72 ~i~~~~~~~iPvV~~~~~~~~~--~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~ 149 (273)
T cd06309 72 VLKEAKAAGIPVILVDRGVDVK--DDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAEV 149 (273)
T ss_pred HHHHHHHCCCCEEEEecCcCCc--cCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHHH
Confidence 3455677899999975432110 112456778888888888888888776 8889999975432 223446677888
Q ss_pred Hhhc-CeEEEEEEccCCCCCCChhhHHHHHHHHhcCC---CeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEe
Q 008912 183 LAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMME---ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (549)
Q Consensus 183 ~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~---~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (549)
+++. +..+.... ... ....+....++++.+.. +++| ++.+...+..+++.+++.|+..++-+.|.+
T Consensus 150 l~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~~aI-~~~~d~~a~g~~~a~~~~g~~ip~di~iig 219 (273)
T cd06309 150 IKKYPNMKIVASQ--TGD--FTRAKGKEVMEALLKAHGDDIDAV-YAHNDEMALGAIQAIKAAGKKPGKDIKIVS 219 (273)
T ss_pred HHHCCCCEEeecc--CCc--ccHHHHHHHHHHHHHhCCCCccEE-EECCcHHHHHHHHHHHHcCCCCCCCeEEEe
Confidence 8876 34443211 111 11233334455544332 3433 334445556688888888886544444443
No 121
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=98.03 E-value=0.0052 Score=60.67 Aligned_cols=208 Identities=9% Similarity=-0.019 Sum_probs=114.3
Q ss_pred CceEEEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCc
Q 008912 24 PEVLNVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSA 101 (549)
Q Consensus 24 ~~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s 101 (549)
...-+||+++|... .+-.....+++-+.++ .|+.+.+...+...+...-.+....++++++++||= |...
T Consensus 44 r~t~~Igvv~p~~~~~f~~~~~~gi~~aa~~--------~G~~l~i~~~~~~~~~~~q~~~i~~l~~~~vdgIIl~~~~~ 115 (343)
T PRK10936 44 KKAWKLCALYPHLKDSYWLSVNYGMVEEAKR--------LGVDLKVLEAGGYYNLAKQQQQLEQCVAWGADAILLGAVTP 115 (343)
T ss_pred CCCeEEEEEecCCCchHHHHHHHHHHHHHHH--------hCCEEEEEcCCCCCCHHHHHHHHHHHHHhCCCEEEEeCCCh
Confidence 35779999998743 2212233444444443 145555443222234444455566677788888774 4333
Q ss_pred hHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc-----CCcEEEEEEecCC--cccc
Q 008912 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-----GWGEVIAIFNDDD--QGRN 174 (549)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~-----~W~~v~ii~~~~~--~g~~ 174 (549)
....... .+...++|+|.+..... ++. ....+.+.....++..++.+... |-++++++..+.. ....
T Consensus 116 ~~~~~~l-~~~~~giPvV~~~~~~~--~~~---~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~~ 189 (343)
T PRK10936 116 DGLNPDL-ELQAANIPVIALVNGID--SPQ---VTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSKA 189 (343)
T ss_pred HHhHHHH-HHHHCCCCEEEecCCCC--Ccc---ceEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHHH
Confidence 3322222 45678999997632211 111 12335567777778788877665 4689998874322 2234
Q ss_pred hHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhc--CCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 175 ~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
..+.+++.+++.|+++.... ... .....-...++++.+ ...+.|+ +....+..+++.+++.|+. +.+.|.
T Consensus 190 R~~Gf~~~l~~~~i~~~~~~-~~~---~~~~~~~~~~~~~l~~~~~~~ai~--~~d~~A~ga~~al~~~g~~--~di~Vv 261 (343)
T PRK10936 190 VEQGFRAAIAGSDVRIVDIA-YGD---NDKELQRNLLQELLERHPDIDYIA--GSAVAAEAAIGELRGRNLT--DKIKLV 261 (343)
T ss_pred HHHHHHHHHhcCCCEEEEee-cCC---CcHHHHHHHHHHHHHhCCCccEEE--eCCHHHHHHHHHHHhcCCC--CCeEEE
Confidence 46677888888888765421 111 112222334444432 2356665 3445666788888888863 334444
Q ss_pred e
Q 008912 253 T 253 (549)
Q Consensus 253 ~ 253 (549)
+
T Consensus 262 g 262 (343)
T PRK10936 262 S 262 (343)
T ss_pred E
Confidence 3
No 122
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.99 E-value=1.3e-05 Score=93.11 Aligned_cols=78 Identities=15% Similarity=0.211 Sum_probs=65.6
Q ss_pred CCeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecc
Q 008912 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKK 540 (549)
Q Consensus 461 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~ 540 (549)
.++++|++.. +|.|+......+++++||.+|+++.|++.+|++ ++++.. .+|+.++..|.+|++||+++.
T Consensus 55 ~~~l~vgv~~--~~~p~~~~~~~~g~~~G~~~D~l~~ia~~lG~~--~e~v~~------~~~~~~l~~l~~g~iDl~~~~ 124 (1197)
T PRK09959 55 KKNLVIAVHK--SQTATLLHTDSQQRVRGINADYLNLLKRALNIK--LTLREY------ADHQKAMDALEEGEVDIVLSH 124 (1197)
T ss_pred CCeEEEEecC--CCCCCceeecCCCccceecHHHHHHHHHhcCCc--eEEEeC------CCHHHHHHHHHcCCCcEecCc
Confidence 5779999865 444443333357889999999999999999999 999875 379999999999999999999
Q ss_pred eEEeeccc
Q 008912 541 VAQLTRVS 548 (549)
Q Consensus 541 ~ti~~~r~ 548 (549)
+++|++|.
T Consensus 125 ~~~~~~r~ 132 (1197)
T PRK09959 125 LVASPPLN 132 (1197)
T ss_pred cccccccc
Confidence 99999986
No 123
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=97.94 E-value=0.0027 Score=59.75 Aligned_cols=201 Identities=15% Similarity=0.101 Sum_probs=129.6
Q ss_pred EEEEeccCCC-CchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCchHHHH
Q 008912 29 VGAIFSFGTV-NGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAHV 106 (549)
Q Consensus 29 IG~l~~~~~~-~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aii-Gp~~s~~~~~ 106 (549)
||++++.... +......+++-+.++. |..+.+. .+...++..-.+.+.+++++++++|| .|..+.....
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~--------g~~~~~~-~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~ 71 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKEL--------GYEVEIV-FDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAP 71 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHH--------TCEEEEE-EESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHc--------CCEEEEe-CCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHH
Confidence 6888888643 3345677888888774 4555555 78888898888888899999999888 5666655556
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCC--cEEEEEEecCCc--ccchHHHHHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGW--GEVIAIFNDDDQ--GRNGVTALGDK 182 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W--~~v~ii~~~~~~--g~~~~~~l~~~ 182 (549)
...-+...+||+|.+... .. ...+....+.++....+..+++++....- .++.++.....+ .....+.+.+.
T Consensus 72 ~l~~~~~~gIpvv~~d~~--~~--~~~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~ 147 (257)
T PF13407_consen 72 FLEKAKAAGIPVVTVDSD--EA--PDSPRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDA 147 (257)
T ss_dssp HHHHHHHTTSEEEEESST--HH--TTSTSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHH
T ss_pred HHHHHhhcCceEEEEecc--cc--ccccceeeeeccHHHHHHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHH
Confidence 666688889999997443 00 12244456667788889999999866433 577777543332 23456677777
Q ss_pred Hhhc-CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCC
Q 008912 183 LAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMD 245 (549)
Q Consensus 183 ~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~ 245 (549)
+++. ++++..... ... .........+.++...++-..|+++....+..+++.+++.|+..
T Consensus 148 l~~~~~~~~~~~~~-~~~--~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~~~ 208 (257)
T PF13407_consen 148 LKEYPGVEIVDEYE-YTD--WDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGRAG 208 (257)
T ss_dssp HHHCTTEEEEEEEE-ECT--TSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTCTT
T ss_pred Hhhcceeeeeeeee-ccC--CCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCCcc
Confidence 8773 566555322 211 23445555555544444333445566666777888888888743
No 124
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=97.94 E-value=0.0015 Score=61.98 Aligned_cols=207 Identities=10% Similarity=0.002 Sum_probs=118.2
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
.||+++|.. ..+-.....+++-+.++ .|+.+.+.. +..++..-.+....++..+++++|-..+.. ...
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~--------~g~~~~~~~--~~~~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~ 69 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATM--------YKYNIILSN--SDNDKEKELKVLNNLLAKQVDGIIFMGGKI-SEE 69 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHH--------cCCeEEEEe--CCCCHHHHHHHHHHHHHhcCCEEEEeCCCC-cHH
Confidence 378888863 22222233444443333 145555443 344565555666667777888888422211 123
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC---cccchHHHHHHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD---QGRNGVTALGDKL 183 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~---~g~~~~~~l~~~~ 183 (549)
+...+...++|+|.+....+ ....+ .+.+.....++.+++.+...|-++++++..+.. .+....+.|.+.+
T Consensus 70 ~~~~l~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~gf~~~~ 143 (268)
T cd06298 70 HREEFKRSPTPVVLAGSVDE---DNELP---SVNIDYKKAAFEATELLIKNGHKKIAFISGPLEDSINGDERLAGYKEAL 143 (268)
T ss_pred HHHHHhcCCCCEEEEccccC---CCCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeCCcccccchhHHHHHHHHHH
Confidence 44445667999998754321 11122 245567777888888888888899999975433 4556678888899
Q ss_pred hhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC-CeEEEEEcchHHHHHHHHHHHHcCCCCCCe-EEEEeC
Q 008912 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMME-ARVIVVHGYSRTGLMVFDVAQRLGMMDSGY-VWIATT 254 (549)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~~~~~~il~~a~~~g~~~~~~-~~i~~~ 254 (549)
++.|+.+......... .+.......++++.... +++|+. .+...+..+++.+++.|+..++. .++..+
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~ai~~-~~d~~a~~~~~~l~~~g~~vp~di~vvg~d 213 (268)
T cd06298 144 SEANIEFDESLIFEGD--YTYESGYELAEELLEDGKPTAAFV-TDDELAIGILNAAQDAGLKVPEDFEIIGFN 213 (268)
T ss_pred HHcCCCCCHHHeEeCC--CChhHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEEeec
Confidence 8888654211111111 11222334455555444 555554 45555778899999988765443 344443
No 125
>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=97.94 E-value=0.0021 Score=60.77 Aligned_cols=198 Identities=8% Similarity=-0.018 Sum_probs=111.5
Q ss_pred EEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 29 VGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 29 IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
||+++|... .+-.....+++-|.++ .|+.+ .+.|+..++....+....+..++++++|......... .
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~--------~g~~~--~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~-~ 70 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEARE--------AGYGV--LLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPT-A 70 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHH--------cCCeE--EEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHH-H
Confidence 788887643 2222334444444444 24555 4556666666555555666677899888632221212 2
Q ss_pred HHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecC--CcccchHHHHHHHHhh
Q 008912 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLAE 185 (549)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~--~~g~~~~~~l~~~~~~ 185 (549)
.... ..++|+|......+ . +.+..+..+....+..+++.+...|.++++++..+. ..+....+.|.+.+++
T Consensus 71 ~~~~-~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~~~~ 143 (267)
T cd06284 71 LTAL-AKLPPIVQACEYIP---G---LAVPSVSIDNVAAARLAVDHLISLGHRRIALITGPRDNPLARDRLEGYRQALAE 143 (267)
T ss_pred HHHH-hcCCCEEEEecccC---C---CCcceEEecccHHHHHHHHHHHHcCCceEEEEcCCccchhHHHHHHHHHHHHHH
Confidence 2333 34999998642211 1 122334556677788888888888999999997642 3445567788888888
Q ss_pred cCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCC
Q 008912 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (549)
Q Consensus 186 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~ 247 (549)
.|+.+......... .........++++.+. ..+.|+. .+...+..+++++++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~~~~a~g~~~al~~~g~~~p~ 204 (267)
T cd06284 144 AGLPADEELIQEGD--FSLESGYAAARRLLALPDRPTAIFC-FSDEMAIGAISALKELGLRVPE 204 (267)
T ss_pred cCCCCCcceEEeCC--CChHHHHHHHHHHHhCCCCCcEEEE-cCcHHHHHHHHHHHHcCCCCcc
Confidence 87543211111111 1122233444554333 3455544 4545567788888888875433
No 126
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=97.93 E-value=0.0059 Score=59.88 Aligned_cols=219 Identities=9% Similarity=-0.040 Sum_probs=120.7
Q ss_pred hHHHHHHHHhhhcccccCCCCceEEEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHH
Q 008912 4 WWLVSIFSFCIGTAIQGALKPEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIM 82 (549)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~ 82 (549)
+++.++..+++ .+.+...+..+||++.+.. ..+......+++-+.++ . |+.+.+ .++..++..-.+
T Consensus 6 ~~~~~~~~~~~---~~~~~~~~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~---~-----g~~l~i--~~~~~~~~~~~~ 72 (330)
T PRK10355 6 ILLTLCASLLL---TSVAAHAKEVKIGMAIDDLRLERWQKDRDIFVKKAES---L-----GAKVFV--QSANGNEETQMS 72 (330)
T ss_pred HHHHHHHHHHH---hhccccCCCceEEEEecCCCchHHHHHHHHHHHHHHH---c-----CCEEEE--ECCCCCHHHHHH
Confidence 34444444444 3333345689999999864 33333334444444443 2 455544 455556665556
Q ss_pred HHHHHHhcCcEEEEcCCCc-hHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcE
Q 008912 83 GALQFMETDTLAIVGPQSA-VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGE 161 (549)
Q Consensus 83 ~~~~l~~~~v~aiiGp~~s-~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~ 161 (549)
....+++++++++|=.... .........+...++|+|.+... ..+. +....+.++....++.+++.|...|-++
T Consensus 73 ~i~~l~~~~vDGiIi~~~~~~~~~~~l~~~~~~~iPvV~id~~---~~~~--~~~~~V~~D~~~~g~~a~~~L~~~g~~~ 147 (330)
T PRK10355 73 QIENMINRGVDVLVIIPYNGQVLSNVIKEAKQEGIKVLAYDRM---INNA--DIDFYISFDNEKVGELQAKALVDKVPQG 147 (330)
T ss_pred HHHHHHHcCCCEEEEeCCChhhHHHHHHHHHHCCCeEEEECCC---CCCC--CccEEEecCHHHHHHHHHHHHHHhcCCC
Confidence 6667777889888753322 22223334556778999987432 1111 1123466778888899999998888888
Q ss_pred EEEEEecCC---cccchHHHHHHHHhhc---C-eEEEEEEccCCCCCCChhhHHHHHHHHh-c--CCCeEEEEEcchHHH
Q 008912 162 VIAIFNDDD---QGRNGVTALGDKLAEI---R-CKISYKSALPPDQSVTETDVRNELVKVR-M--MEARVIVVHGYSRTG 231 (549)
Q Consensus 162 v~ii~~~~~---~g~~~~~~l~~~~~~~---g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~-~--~~~~viil~~~~~~~ 231 (549)
++++..... ......+.+.+.++++ | +.+....... . ....+-...++++. + ..++. |++.+...+
T Consensus 148 i~~i~~g~~~~~~~~~R~~gf~~~l~~~~~~~~i~~~~~~~~~-~--~~~~~~~~~~~~lL~~~~~~~~a-I~~~nD~~A 223 (330)
T PRK10355 148 NYFLMGGSPVDNNAKLFRAGQMKVLKPYIDSGKIKVVGDQWVD-G--WLPENALKIMENALTANNNKIDA-VVASNDATA 223 (330)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHhhhccCCCeEEecccCCC-C--CCHHHHHHHHHHHHHhCCCCccE-EEECCCchH
Confidence 766553221 2234456666666653 4 4432211111 1 11222233444432 2 23454 444555666
Q ss_pred HHHHHHHHHcCCC
Q 008912 232 LMVFDVAQRLGMM 244 (549)
Q Consensus 232 ~~il~~a~~~g~~ 244 (549)
..+++.++++|+.
T Consensus 224 ~g~l~al~~~g~~ 236 (330)
T PRK10355 224 GGAIQALSAQGLS 236 (330)
T ss_pred HHHHHHHHHCCCC
Confidence 6788899998875
No 127
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.87 E-value=0.0026 Score=60.25 Aligned_cols=202 Identities=10% Similarity=0.033 Sum_probs=114.8
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
.||+++|.. ..+-.....+++.+.++. |+++. +.++..++..-.+....+++++++++|...+......
T Consensus 1 ~I~vi~~~~~~~~~~~~~~g~~~~a~~~--------g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 70 (268)
T cd06289 1 TIGLVINDLTNPFFAELAAGLEEVLEEA--------GYTVF--LANSGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPD 70 (268)
T ss_pred CEEEEecCCCcchHHHHHHHHHHHHHHc--------CCeEE--EecCCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHH
Confidence 378888763 222234455665555542 45553 3444556655556666777789998887544332223
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHHHHHh
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~~~~~ 184 (549)
....+...++|+|.+....+ +...+ .+.++....+..+++.+...|-++++++..+.. ......+.|.+.++
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~ 144 (268)
T cd06289 71 LLKRLAESGIPVVLVAREVA---GAPFD---YVGPDNAAGARLATEHLISLGHRRIAFIGGLEDSSTRRERLAGYRAALA 144 (268)
T ss_pred HHHHHHhcCCCEEEEeccCC---CCCCC---EEeecchHHHHHHHHHHHHCCCCCEEEecCCccccchHHHHHHHHHHHH
Confidence 44556778999998743221 11122 244566667888888888888899998875332 34456678888888
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCe
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 248 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~ 248 (549)
+.|..+.....+... .........++++... ..++|+ +.+...+..+++.+++.|+..++-
T Consensus 145 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~i~-~~~~~~a~~~~~al~~~g~~~p~d 207 (268)
T cd06289 145 EAGLPFDSELVVEGP--PSRQGGAEAVAQLLDLPPRPTAIV-CFNDLVAFGAMSGLRRAGLTPGRD 207 (268)
T ss_pred HcCCCCCchhEEecC--cchhhHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcc
Confidence 777432111111111 1122223444444333 345444 344555667888888888764433
No 128
>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=97.87 E-value=0.007 Score=57.85 Aligned_cols=214 Identities=6% Similarity=-0.004 Sum_probs=113.3
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCC--CChHHHHHHHHHHHhcCcEEEEcCCCch-HH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK--FNGFLSIMGALQFMETDTLAIVGPQSAV-MA 104 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~--~~~~~a~~~~~~l~~~~v~aiiGp~~s~-~~ 104 (549)
+||+++|.... ...+...+.-..+...+. |+.+.+...++. .++..-.+....++.+++++||=...+. ..
T Consensus 1 ~Igvi~~~~~~-~~~~~~~~~~i~~~~~~~-----g~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~ 74 (280)
T cd06303 1 KIAVIYPGQQI-SDYWVRNIASFTARLEEL-----NIPYELTQFSSRPGIDHRLQSQQLNEALQSKPDYLIFTLDSLRHR 74 (280)
T ss_pred CeeEEecCccH-HHHHHHHHHHHHHHHHHc-----CCcEEEEEeccCcccCHHHHHHHHHHHHHcCCCEEEEcCCchhhH
Confidence 58999986310 011222222222333332 556666544432 2444445555567778898888633322 22
Q ss_pred HHHHHhhhhcCCcEEeccc-CCCCCCCCCCCceEEccCCcHHHHHHHHHHHHH--cCCcEEEEEEecC-CcccchHHHHH
Q 008912 105 HVLSHLANELQVPLLSFTA-LDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY--FGWGEVIAIFNDD-DQGRNGVTALG 180 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~-~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~--~~W~~v~ii~~~~-~~g~~~~~~l~ 180 (549)
..+..+ ...++|.|.... ..+.......+....+.+.....+..+++.|.. .|.++++++.... .......+.|.
T Consensus 75 ~~~~~l-~~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~~R~~gf~ 153 (280)
T cd06303 75 KLIERV-LASGKTKIILQNITTPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYISTARGDTFI 153 (280)
T ss_pred HHHHHH-HhCCCCeEEEeCCCCCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcchhHHHHHHH
Confidence 333443 345677766522 222100000122344566777777888888877 7899999997532 22334567778
Q ss_pred HHHhhc-CeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 008912 181 DKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (549)
Q Consensus 181 ~~~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (549)
+.+++. |+.+... .... .........++++.+.. .+. |++.+...+..+++.+++.|+. .+...++.+
T Consensus 154 ~al~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~nd~~A~g~l~al~~~G~~-~dv~vvg~d 224 (280)
T cd06303 154 DCVHARNNWTLTSE--FYTD--ATRQKAYQATSDILSNNPDVDF-IYACSTDIALGASDALKELGRE-DDILINGWG 224 (280)
T ss_pred HHHHhCCCceEEEe--ecCC--CCHHHHHHHHHHHHHhCCCCcE-EEECCcHHHHHHHHHHHHcCCC-CCcEEEecC
Confidence 888887 6654322 1111 12223334445543333 344 4455566677899999999975 444444443
No 129
>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=97.87 E-value=3e-05 Score=73.70 Aligned_cols=75 Identities=13% Similarity=0.222 Sum_probs=62.3
Q ss_pred CCeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhC-CCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEec
Q 008912 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLL-PYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTK 539 (549)
Q Consensus 461 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l-~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~ 539 (549)
.+++++++. .|+||.+.. +++...||.+|+++++++.+ +++ +++... +|++++..| .|+.|+++.
T Consensus 17 ~~~l~~~~~---~~pPf~~~~-~~~~~~G~~~~i~~~i~~~~~~~~--~~~~~~-------pw~r~l~~l-~~~~d~~~~ 82 (268)
T TIGR02285 17 KEAITWIVN---DFPPFFIFS-GPSKGRGVFDVILQEIRRALPQYE--HRFVRV-------SFARSLKEL-QGKGGVCTV 82 (268)
T ss_pred cceeEEEec---ccCCeeEeC-CCCCCCChHHHHHHHHHHHcCCCc--eeEEEC-------CHHHHHHHH-hcCCCeEEe
Confidence 467888774 466776643 45677999999999999998 888 999998 999999999 888888888
Q ss_pred ceEEeecccC
Q 008912 540 KVAQLTRVSL 549 (549)
Q Consensus 540 ~~ti~~~r~~ 549 (549)
++++|+||+.
T Consensus 83 ~~~~t~eR~~ 92 (268)
T TIGR02285 83 NLLRTPEREK 92 (268)
T ss_pred eccCCcchhh
Confidence 8999999973
No 130
>PRK09701 D-allose transporter subunit; Provisional
Probab=97.87 E-value=0.02 Score=55.67 Aligned_cols=212 Identities=11% Similarity=0.033 Sum_probs=116.2
Q ss_pred EEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHH-
Q 008912 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMA- 104 (549)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~- 104 (549)
.||+++|... ++-.....+++-+.++ .|+.+.+...+...+...-.+...+++.+++++||- +..+...
T Consensus 26 ~Igvi~~~~~~~f~~~~~~gi~~~a~~--------~g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~ 97 (311)
T PRK09701 26 EYAVVLKTLSNPFWVDMKKGIEDEAKT--------LGVSVDIFASPSEGDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLV 97 (311)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHH--------cCCeEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHH
Confidence 8999998642 2222233444333332 256666543344445555566666777888888875 3333222
Q ss_pred HHHHHhhhhcCCcEEecccCCCC--CCCCCCCceEEccCCcHHHHHHHHHHHHH-cCC--cEEEEEEecC--CcccchHH
Q 008912 105 HVLSHLANELQVPLLSFTALDPT--LSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGW--GEVIAIFNDD--DQGRNGVT 177 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~--ls~~~~~~~~r~~ps~~~~~~ai~~~l~~-~~W--~~v~ii~~~~--~~g~~~~~ 177 (549)
..+.. +...++|++.+....+. +..........+..+....+...++.+.. .|- ++++++.... .......+
T Consensus 98 ~~l~~-~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~ 176 (311)
T PRK09701 98 MPVAR-AWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRN 176 (311)
T ss_pred HHHHH-HHHCCCcEEEeCCCCCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHH
Confidence 23333 35689999998543221 11001112334667777788888888755 454 7998886433 22345567
Q ss_pred HHHHHHhhcC-eEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 008912 178 ALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (549)
Q Consensus 178 ~l~~~~~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (549)
.+.+.+++.| +.+.... ... .....-...++++.+. .++. |++.+...+..++..+++.|.. .+...++.+
T Consensus 177 Gf~~al~~~~~~~~~~~~--~~~--~~~~~~~~~~~~ll~~~~~~~~-I~~~~d~~A~g~~~al~~~G~~-~dv~vvg~d 250 (311)
T PRK09701 177 GATEAFKKASQIKLVASQ--PAD--WDRIKALDVATNVLQRNPNIKA-IYCANDTMAMGVAQAVANAGKT-GKVLVVGTD 250 (311)
T ss_pred HHHHHHHhCCCcEEEEec--CCC--CCHHHHHHHHHHHHHhCCCCCE-EEECCcchHHHHHHHHHHcCCC-CCEEEEEeC
Confidence 7888888777 6654321 111 1122233455555333 3444 4445555677788888888874 333334333
No 131
>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=97.78 E-value=0.0094 Score=57.20 Aligned_cols=215 Identities=11% Similarity=0.038 Sum_probs=114.8
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~ 105 (549)
+||+++|.. .++-.....+++.+.++ .|+++. +.+.. ++..-.+....++..++.+||= +..+....
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~--~~~~~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 69 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKE--------KGFTVV--KIDVP-DGEKVLSAIDNLGAQGAKGFVICVPDVKLGP 69 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHH--------cCCEEE--EccCC-CHHHHHHHHHHHHHcCCCEEEEccCchhhhH
Confidence 488888853 22323344555555554 255554 44444 5555555556677778887775 33333344
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHH----HcCC--cEEEEEEe-cC--CcccchH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVS----YFGW--GEVIAIFN-DD--DQGRNGV 176 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~----~~~W--~~v~ii~~-~~--~~g~~~~ 176 (549)
.....+...++|+|.+....+....+..+.+-.+..+....+...++++. ..|| +++++|.. .. .......
T Consensus 70 ~~~~~~~~~~iPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~~~~g~~~~~i~~i~~~~~~~~~~~~R~ 149 (289)
T cd01540 70 AIVAKAKAYNMKVVAVDDRLVDADGKPMEDVPHVGMSATKIGEQVGEAIADEMKKRGWDPKEVGALRITYDELDTAKPRT 149 (289)
T ss_pred HHHHHHHhCCCeEEEecCCCcccCCCccccceEecCCHHHHHHHHHHHHHHHHHhhcCCCcceEEEEecCCCCcchhhHH
Confidence 45566778999999874332111100112223344556655665555544 4677 78888752 22 2345567
Q ss_pred HHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeE-EEEEcchHHHHHHHHHHHHcCCCCCCeEEEEe
Q 008912 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARV-IVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (549)
Q Consensus 177 ~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~v-iil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (549)
+.+.+.+++.|+........+... .+.......++++..+. .+. .|++.+...+..+++.+.+.|....+...++.
T Consensus 150 ~G~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~al~~~g~~~~di~vig~ 228 (289)
T cd01540 150 DGALEALKAPGFPEANIFQAPQKT-TDTEGAFDAAASTLTKNPNVKNWIIYGLNDETVLGAVRATEQSGIAAADVIGVGI 228 (289)
T ss_pred HHHHHHHhcCCCCcceEecccccC-cchhhHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHHHHHHcCCCCcceEEEec
Confidence 788888888776532211111110 01112223444543332 343 45556666677888888999986334444443
Q ss_pred C
Q 008912 254 T 254 (549)
Q Consensus 254 ~ 254 (549)
+
T Consensus 229 d 229 (289)
T cd01540 229 N 229 (289)
T ss_pred C
Confidence 3
No 132
>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=97.77 E-value=0.0051 Score=58.33 Aligned_cols=206 Identities=9% Similarity=-0.036 Sum_probs=114.3
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
.||+++|.. ..+......+++-+.++ .|+++.+ .++..++..-.+....+..+++++||=.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (269)
T cd06275 1 TIGMLVTTSTNPFFAEVVRGVEQYCYR--------QGYNLIL--CNTEGDPERQRSYLRMLAQKRVDGLLVMCSEYDQPL 70 (269)
T ss_pred CEEEEeCCCCcchHHHHHHHHHHHHHH--------cCCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEecCCCChHH
Confidence 378888864 23333344555555444 2455543 445556665556666777778887774322222222
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHHHHHh
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~~~~~ 184 (549)
+..+....++|+|......+ +..+++ +.......++.+++.+...|-++++++..... ......+.|.+.++
T Consensus 71 ~~~l~~~~~ipvV~i~~~~~---~~~~~~---V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~ 144 (269)
T cd06275 71 LAMLERYRHIPMVVMDWGPE---DDFADK---IQDNSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMA 144 (269)
T ss_pred HHHHHhcCCCCEEEEecccC---CCCCCe---EeeCcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHH
Confidence 23343456999998753221 112232 34556667788888888889999999874322 23345677788888
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
+.|+.+......... .........++++.+.. .+. |++.+...+..+++.+++.|...++-+.+.
T Consensus 145 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vp~di~vv 211 (269)
T cd06275 145 EAGLPVNPGWIVEGD--FECEGGYEAMQRLLAQPKRPTA-VFCGNDLMAMGALCAAQEAGLRVPQDLSII 211 (269)
T ss_pred HcCCCCCHHHhccCC--CChHHHHHHHHHHHcCCCCCcE-EEECChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 877654321111111 11222334455544333 343 344455566678888888887544444443
No 133
>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=97.77 E-value=0.012 Score=56.95 Aligned_cols=208 Identities=10% Similarity=0.065 Sum_probs=109.5
Q ss_pred EEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCCchHHH
Q 008912 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aii-Gp~~s~~~~ 105 (549)
+||++.|... .+-.....+++-+.++. +..+.+.+.+...++..-.+....++..++.+|| .|..+....
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~--------~~g~~~~~~~~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~ 72 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKEN--------GGKVEFTFYDAKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQ 72 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhh--------CCCeeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHH
Confidence 5899998642 22223344444444443 1234455566666776666666677888888766 354443334
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc--CCc-----------EEEEEEecCC--
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWG-----------EVIAIFNDDD-- 170 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~--~W~-----------~v~ii~~~~~-- 170 (549)
.....+...++|+|.+....+...-....-+..+.++....++..+++|... +-+ .++++..+..
T Consensus 73 ~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~a~~l~~~~~~~~~~~~~~~~g~~~i~~~~g~~~~~ 152 (303)
T cd01539 73 TVINKAKQKNIPVIFFNREPEEEDIKSYDKAYYVGTDAEQSGILQGKLIADYWNANKDALDKNGDGIIQYVMLKGEPGHP 152 (303)
T ss_pred HHHHHHHHCCCCEEEeCCCCcccccccccccceeeecHHHHHHHHHHHHHHHhhccccccccCCCCceEEEEEEcCCCCc
Confidence 4445567789999987543211100111223445667766777777777553 211 2344443322
Q ss_pred cccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC-C--CeEEEEEcchHHHHHHHHHHHHcCCCCC
Q 008912 171 QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM-E--ARVIVVHGYSRTGLMVFDVAQRLGMMDS 246 (549)
Q Consensus 171 ~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~-~--~~viil~~~~~~~~~il~~a~~~g~~~~ 246 (549)
......+.+.+.+++.+..+......... .........++++... . .+.|+ +.+...+..+++++++.|...+
T Consensus 153 ~~~~R~~gf~~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~L~~~~~~~~ai~-~~~d~~a~g~~~al~~~g~~~p 228 (303)
T cd01539 153 DAIARTKYSIETLNDAGIKTEELASDTAN--WDRAQAKDKMDALLLKYGDKIEAVI-ANNDAMALGAIEALQKYGYNKG 228 (303)
T ss_pred hhhhhhhhHHHHHHhcCCCeEEEEeecCC--CCHHHHHHHHHHHHHhcCCCccEEE-ECCchHHHHHHHHHHHcCCCcC
Confidence 22334566788888887654332111111 1222233344554322 2 34433 3444455567888888887554
No 134
>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=97.76 E-value=0.011 Score=56.15 Aligned_cols=206 Identities=9% Similarity=-0.032 Sum_probs=114.7
Q ss_pred EEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 008912 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~ 105 (549)
+||+++|... .+-.....++.-+.++. |..+.+.+.++..++..-.+....++.++++++|= |.......
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~ 72 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKL--------NPGVKVTVVSADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIA 72 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHh--------CCCeEEEEccCCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhH
Confidence 4889998642 22223444555454443 23345555566666665555556667778877763 43332222
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecCC-cccchHHHHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD-QGRNGVTALGDK 182 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~-~g~~~~~~l~~~ 182 (549)
.....+...++|+|......+ + . ...+..+....++.+++.+... |.++++++..... ......+.+.+.
T Consensus 73 ~~i~~~~~~~ipvv~~~~~~~---~-~---~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~g~~~~~~~~R~~g~~~~ 145 (271)
T cd06321 73 PAVKRAQAAGIVVVAVDVAAE---G-A---DATVTTDNVQAGEISCQYLADRLGGKGNVAILNGPPVSAVLDRVAGCKAA 145 (271)
T ss_pred HHHHHHHHCCCeEEEecCCCC---C-c---cceeeechHHHHHHHHHHHHHHhCCCceEEEEeCCCCchHHHHHHHHHHH
Confidence 333344567999999854322 1 1 1235567777788888888887 9999999975432 233445677777
Q ss_pred Hhhc-CeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 008912 183 LAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (549)
Q Consensus 183 ~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (549)
+++. +++..... .... .+...-...++++.+. .++.|+. .+...+..+++.+++.|+ .+...++.+
T Consensus 146 ~~~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~--~di~v~g~d 214 (271)
T cd06321 146 LAKYPGIKLLSDD-QNGK--GSRDGGLRVMQGLLTRFPKLDGVFA-INDPTAIGADLAAKQAGR--NDIKITSVD 214 (271)
T ss_pred HHhCCCcEEEeee-cCCC--CChhhHHHHHHHHHHhCCCCCEEEE-CCchhHHHHHHHHHHcCC--CCcEEEEec
Confidence 8777 56432211 1111 1111222344444333 3455443 445566678888888886 355555544
No 135
>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=97.75 E-value=0.0063 Score=59.73 Aligned_cols=204 Identities=7% Similarity=0.012 Sum_probs=115.5
Q ss_pred CceEEEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCch
Q 008912 24 PEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAV 102 (549)
Q Consensus 24 ~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~ 102 (549)
...-.||+++|.. ..+-.....+++-+.++ .|+.+.+. +...++..-.+....+..++++++|--...
T Consensus 57 ~~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~--------~g~~~~i~--~~~~~~~~~~~~~~~l~~~~vdGiIi~~~~- 125 (329)
T TIGR01481 57 KRTTTVGVIIPDISNIYYAELARGIEDIATM--------YKYNIILS--NSDEDPEKEVQVLNTLLSKQVDGIIFMGGT- 125 (329)
T ss_pred CCCCEEEEEeCCCCchhHHHHHHHHHHHHHH--------cCCEEEEE--eCCCCHHHHHHHHHHHHhCCCCEEEEeCCC-
Confidence 3456899999853 22222333444433333 25555443 333444444445555667788887732111
Q ss_pred HHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC---cccchHHHH
Q 008912 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD---QGRNGVTAL 179 (549)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~---~g~~~~~~l 179 (549)
....+...+...++|+|......+ ...++ .+.+....-+..+++.|...|.++++++..... .+....+.|
T Consensus 126 ~~~~~~~~l~~~~iPvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~~R~~Gf 199 (329)
T TIGR01481 126 ITEKLREEFSRSPVPVVLAGTVDK---ENELP---SVNIDYKQATKEAVGELIAKGHKSIAFVGGPLSDSINGEDRLEGY 199 (329)
T ss_pred CChHHHHHHHhcCCCEEEEecCCC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEecCcccccchHHHHHHH
Confidence 112233455667999998743221 11223 344566666777888888889999999964321 235567788
Q ss_pred HHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCC
Q 008912 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (549)
Q Consensus 180 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~ 247 (549)
.+.+++.|+.+......... .....-...++++.+..++.|+. .+...+..+++.+++.|+..++
T Consensus 200 ~~~l~~~g~~~~~~~~~~~~--~~~~~~~~~~~~ll~~~p~ai~~-~~d~~A~g~~~al~~~g~~vP~ 264 (329)
T TIGR01481 200 KEALNKAGIQFGEDLVCEGK--YSYDAGYKAFAELKGSLPTAVFV-ASDEMAAGILNAAMDAGIKVPE 264 (329)
T ss_pred HHHHHHcCCCCCcceEEecC--CChHHHHHHHHHHhCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCC
Confidence 88888888754321111111 11222334555655555666554 4455677899999999976544
No 136
>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=97.75 E-value=0.0051 Score=58.22 Aligned_cols=203 Identities=12% Similarity=0.064 Sum_probs=112.7
Q ss_pred EEEEeccC-----CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCCCch
Q 008912 29 VGAIFSFG-----TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-TDTLAIVGPQSAV 102 (549)
Q Consensus 29 IG~l~~~~-----~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~-~~v~aiiGp~~s~ 102 (549)
||+++|.. ..+......+++.+.++ .|+.+.+...+.. ....+.+.+++. ++++++|...+..
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~~---~~~~~~~~~~~~~~~vdgiii~~~~~ 70 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAE--------HGYDLVLLPVDPD---EDPLEVYRRLVESGLVDGVIISRTRP 70 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHH--------CCceEEEecCCCc---HHHHHHHHHHHHcCCCCEEEEecCCC
Confidence 78898862 22222333444333333 2566666544332 233345566654 4788888643322
Q ss_pred HHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHH
Q 008912 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALG 180 (549)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~ 180 (549)
....+ ..+...++|+|.+....+ +..+++ +.++....+..+++.+...|-++++++..... .+....+.|.
T Consensus 71 ~~~~~-~~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~ 143 (268)
T cd06271 71 DDPRV-ALLLERGFPFVTHGRTEL---GDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFAQHRRAGYR 143 (268)
T ss_pred CChHH-HHHHhcCCCEEEECCcCC---CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEecCccccchHHHHHHHHH
Confidence 22223 445678999998743221 122343 33566677788888888889999999975432 2344567888
Q ss_pred HHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 181 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
+.+++.|..+.....+... .+.......++++.+. .+++|+. .+...+..+++.+++.|+..++.+-+.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~vp~~i~ii 214 (268)
T cd06271 144 RALAEAGLPLDPALIVSGD--MTEEGGYAAAAELLALPDRPTAIVC-SSELMALGVLAALAEAGLRPGRDVSVV 214 (268)
T ss_pred HHHHHhCCCCCCceEEeCC--CChHHHHHHHHHHHhCCCCCCEEEE-cCcHHHHHHHHHHHHhCCCCCcceeEE
Confidence 8888887653211111111 1222334455555333 2455544 445566678889999887655444443
No 137
>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=97.73 E-value=0.023 Score=53.73 Aligned_cols=196 Identities=14% Similarity=0.091 Sum_probs=111.5
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~~ 106 (549)
.||+++|... ..+...+...+++.=+. .|+.+ .+.++..++....+....+++++++++|- |........
T Consensus 1 ~i~~~~~~~~---~~~~~~~~~~i~~~~~~----~g~~~--~i~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~ 71 (267)
T cd06322 1 VIGASLLTQQ---HPFYIELANAMKEEAKK----QKVNL--IVSIANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRA 71 (267)
T ss_pred CeeEeecCcc---cHHHHHHHHHHHHHHHh----cCCEE--EEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHH
Confidence 3788888753 22223333333332222 24444 44566566766667777788889998876 443332233
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecCC-cccchHHHHHHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD-QGRNGVTALGDKL 183 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~-~g~~~~~~l~~~~ 183 (549)
....+...++|+|.+.... + ..+.+..+.+.....+...++++... |-+++++++..+. ......+.+++.+
T Consensus 72 ~~~~~~~~~ipvV~~~~~~----~-~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~ 146 (267)
T cd06322 72 AIAKAKKAGIPVITVDIAA----E-GVAVVSHVATDNYAGGVLAGELAAKVLNGKGQVAIIDYPTVQSVVDRVRGFKEAL 146 (267)
T ss_pred HHHHHHHCCCCEEEEcccC----C-CCceEEEEecChHHHHHHHHHHHHHHhCCCceEEEEecCCCccHHHHHHHHHHHH
Confidence 3344567899999974321 1 11223345666667777788888765 7789999974322 2334567788888
Q ss_pred hhc-CeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCC
Q 008912 184 AEI-RCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGM 243 (549)
Q Consensus 184 ~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~ 243 (549)
++. |+.+.... .. .........++++... +.++ |++.+...+..+++.+.+.|.
T Consensus 147 ~~~~~~~~~~~~---~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~al~~~g~ 203 (267)
T cd06322 147 ADYPNIKIVAVQ---PG--ITRAEALTAAQNILQANPDLDG-IFAFGDDAALGAVSAIKAAGR 203 (267)
T ss_pred HhCCCcEEEEec---CC--CChHHHHHHHHHHHHhCCCCCE-EEEcCCcHHHHHHHHHHHCCC
Confidence 887 77654321 11 1122233344444322 3444 344455566678888888886
No 138
>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=97.73 E-value=0.0055 Score=58.03 Aligned_cols=203 Identities=12% Similarity=0.038 Sum_probs=115.6
Q ss_pred EEEEEeccC--CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 008912 28 NVGAIFSFG--TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~--~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~ 105 (549)
.||+++|.. ..+......+++-+.++ .|+.+.+ .++..++..-.+....+...+++++|-.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~- 69 (269)
T cd06288 1 TIGLISDEIATTPFAVEIILGAQDAARE--------HGYLLLV--VNTGGDDELEAEAVEALLDHRVDGIIYATMYHRE- 69 (269)
T ss_pred CeEEEeCCCCCCccHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCh-
Confidence 389999874 33333444555555544 2455543 3444445444455556677788888864332211
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKL 183 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~~~~ 183 (549)
+.......++|+|......+. ..+ ..+.++....+..+++.+...|-++++++..+.. ......+.|.+.+
T Consensus 70 -~~~~~~~~~ipvv~~~~~~~~---~~~---~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~ 142 (269)
T cd06288 70 -VTLPPELLSVPTVLLNCYDAD---GAL---PSVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQAL 142 (269)
T ss_pred -hHHHHHhcCCCEEEEecccCC---CCC---CeEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHH
Confidence 122234578999987433221 122 3355677777888888888889999999975432 2344567788888
Q ss_pred hhcCeEEEE--EEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEe
Q 008912 184 AEIRCKISY--KSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (549)
Q Consensus 184 ~~~g~~v~~--~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (549)
++.++.+.. ...... +..+....++++.+. .++.|+ +.+...+..+++.+++.|+..++-+.+++
T Consensus 143 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~vp~di~v~g 211 (269)
T cd06288 143 AEAGIPFDPDLVVHGDW----SADDGYEAAAALLDLDDRPTAIF-CGNDRMAMGAYQALLERGLRIPQDVSVVG 211 (269)
T ss_pred HHcCCCCCHHHeEeCCC----ChHHHHHHHHHHHhCCCCCCEEE-EeCcHHHHHHHHHHHHcCCCCcccceEEe
Confidence 887754321 111111 122233445555433 345554 45555666788888888876544455443
No 139
>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=97.71 E-value=0.0088 Score=56.58 Aligned_cols=204 Identities=10% Similarity=0.033 Sum_probs=112.8
Q ss_pred EEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
.||+++|... ..-.....++.-+.++ .|+.+.+ .+...++..-.+....++.+++++||--..... ..
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~ 69 (268)
T cd01575 1 LVAVLVPSLSNSVFADVLQGISDVLEA--------AGYQLLL--GNTGYSPEREEELLRTLLSRRPAGLILTGLEHT-ER 69 (268)
T ss_pred CEEEEeCCCcchhHHHHHHHHHHHHHH--------cCCEEEE--ecCCCCchhHHHHHHHHHHcCCCEEEEeCCCCC-HH
Confidence 3788888642 2212233444444443 1455544 434445554455566677778888875322212 22
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHHHHHh
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~~~~~ 184 (549)
....+...++|+|......+ . +....+..+....+..+++.+...|-++++++..+.. ........+.+.++
T Consensus 70 ~~~~~~~~~ipvv~~~~~~~---~---~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~ 143 (268)
T cd01575 70 TRQLLRAAGIPVVEIMDLPP---D---PIDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALR 143 (268)
T ss_pred HHHHHHhcCCCEEEEecCCC---C---CCCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccHHHHHHHHHHHHH
Confidence 33345567999998643211 1 1122344566777888888988889999999986542 33345567888888
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
+.|............ .........++++.+. .++.|+ +++...+..+++.+.+.|...++.+-+
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~p~di~v 209 (268)
T cd01575 144 AAGLDPPLVVTTPEP--SSFALGRELLAELLARWPDLDAVF-CSNDDLALGALFECQRRGISVPEDIAI 209 (268)
T ss_pred HcCCCCCceeEeccC--CCHHHHHHHHHHHHhCCCCCCEEE-ECCcHHHHHHHHHHHHhCCCCCcceEE
Confidence 877532221111111 1122334455555433 345544 344555667888888888654444433
No 140
>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=97.71 E-value=0.021 Score=54.25 Aligned_cols=202 Identities=10% Similarity=0.003 Sum_probs=111.4
Q ss_pred EEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHHH
Q 008912 29 VGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAHV 106 (549)
Q Consensus 29 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~~ 106 (549)
||++.|.. ..+-.....+++-+.++..... .| +.+.+.+...++....+....++.+++++||- |........
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~---~g--~~~~~~~~~~~~~~~~~~~~~l~~~~vDgiii~~~~~~~~~~ 76 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAY---PD--VEFILVTASNDTEQQNAQQDLLINRKIDALVILPFESAPLTQ 76 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhC---CC--eEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhhHH
Confidence 77888653 3222344555555555543322 23 45555666555554444445577778887774 443333223
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecCC-cccchHHHHHHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD-QGRNGVTALGDKL 183 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~-~g~~~~~~l~~~~ 183 (549)
....+...+||+|......+ ... .....+.+.....+...++++... +-++++++..... ......+.|.+.+
T Consensus 77 ~i~~~~~~gIpvV~~d~~~~---~~~-~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~g~~~~~~~~R~~gf~~~l 152 (274)
T cd06311 77 PVAKAKKAGIFVVVVDRGLS---SPG-AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVLRGIPTPIDNERVDAFDAAI 152 (274)
T ss_pred HHHHHHHCCCeEEEEcCCCC---CCc-ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEEECCCCcchhHHHHHHHHHH
Confidence 23445678999998743211 110 112235666677778888887775 7889999875332 2234456788888
Q ss_pred hhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCC
Q 008912 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~ 244 (549)
++.++++... .... .+.......++++-.. ..+.|+. .+...+..+++.+++.|..
T Consensus 153 ~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~ 210 (274)
T cd06311 153 AKYPIKILDR--QYAN--WNRDDAFSVMQDLLTKFPKIDAVWA-HDDDMAVGVLAAIKQAGRT 210 (274)
T ss_pred hhCCcEEEec--cCCC--CcHHHHHHHHHHHHHhCCCcCEEEE-CCCcHHHHHHHHHHHcCCC
Confidence 8888665432 1111 1122233444443322 3455433 3444566788888888864
No 141
>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=97.68 E-value=0.0054 Score=58.48 Aligned_cols=203 Identities=10% Similarity=0.027 Sum_probs=124.1
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
.||+++|.-.. .....+..++++.=++ .|+.+-+ .++..++..- +....+.+++|+++|=.........+
T Consensus 3 ~IGvivp~~~n---pff~~ii~gIe~~a~~----~Gy~l~l--~~t~~~~~~e-~~i~~l~~~~vDGiI~~s~~~~~~~l 72 (279)
T PF00532_consen 3 TIGVIVPDISN---PFFAEIIRGIEQEARE----HGYQLLL--CNTGDDEEKE-EYIELLLQRRVDGIILASSENDDEEL 72 (279)
T ss_dssp EEEEEESSSTS---HHHHHHHHHHHHHHHH----TTCEEEE--EEETTTHHHH-HHHHHHHHTTSSEEEEESSSCTCHHH
T ss_pred EEEEEECCCCC---cHHHHHHHHHHHHHHH----cCCEEEE--ecCCCchHHH-HHHHHHHhcCCCEEEEecccCChHHH
Confidence 69999998632 2233333333332222 2666644 4445555554 66666777789888854333334566
Q ss_pred HHhhhhcCCcEEecccCCCCCCCC-CCCceEEccCCcHHHHHHHHHHHHHcCCcE-EEEEEecCCc--ccchHHHHHHHH
Q 008912 108 SHLANELQVPLLSFTALDPTLSPL-QYPFFVQTAPNDLYLMSAIAEMVSYFGWGE-VIAIFNDDDQ--GRNGVTALGDKL 183 (549)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~-~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~-v~ii~~~~~~--g~~~~~~l~~~~ 183 (549)
..+... ++|+|...... ... ..+++ ...+..-+..+++.|...|-++ |+++..+... .....+-+.+++
T Consensus 73 ~~~~~~-~iPvV~~~~~~---~~~~~~~~V---~~D~~~a~~~a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~Al 145 (279)
T PF00532_consen 73 RRLIKS-GIPVVLIDRYI---DNPEGVPSV---YIDNYEAGYEATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDAL 145 (279)
T ss_dssp HHHHHT-TSEEEEESS-S---CTTCTSCEE---EEEHHHHHHHHHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHHH
T ss_pred HHHHHc-CCCEEEEEecc---CCcccCCEE---EEcchHHHHHHHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHHH
Confidence 677766 99999864331 111 23433 2456666778888899999999 9999876543 344556688999
Q ss_pred hhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeE-EEEEcchHHHHHHHHHHHHcC-CCCCCeE
Q 008912 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARV-IVVHGYSRTGLMVFDVAQRLG-MMDSGYV 249 (549)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v-iil~~~~~~~~~il~~a~~~g-~~~~~~~ 249 (549)
++.|+++......... .+..+-...++++-+..+++ .|++++...+.-+++.+.+.| +..+.-+
T Consensus 146 ~~~Gl~~~~~~i~~~~--~~~~~g~~~~~~ll~~~p~idai~~~nd~~A~ga~~~l~~~gr~~ip~di 211 (279)
T PF00532_consen 146 KEAGLPIDEEWIFEGD--FDYESGYEAARELLESHPDIDAIFCANDMMAIGAIRALRERGRLKIPEDI 211 (279)
T ss_dssp HHTTSCEEEEEEEESS--SSHHHHHHHHHHHHHTSTT-SEEEESSHHHHHHHHHHHHHTT-TCTTTEE
T ss_pred HHcCCCCCcccccccC--CCHHHHHHHHHHHHhhCCCCEEEEEeCHHHHHHHHHHHHHcCCcccChhh
Confidence 9999866544333222 22333345566665555541 344566677778899999999 6666544
No 142
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=97.67 E-value=0.041 Score=53.94 Aligned_cols=209 Identities=10% Similarity=0.024 Sum_probs=107.1
Q ss_pred CCCceEEEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CC
Q 008912 22 LKPEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQ 99 (549)
Q Consensus 22 ~~~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~ 99 (549)
...++..||++++.. ..+-.....+++-+.+ +.+ +. .+.+.++..+.....+....+..++|.++|= +.
T Consensus 20 ~~~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~---~~g----~~--~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~ 90 (330)
T PRK15395 20 AAAADTRIGVTIYKYDDNFMSVVRKAIEKDAK---AAP----DV--QLLMNDSQNDQSKQNDQIDVLLAKGVKALAINLV 90 (330)
T ss_pred hhcCCceEEEEEecCcchHHHHHHHHHHHHHH---hcC----Ce--EEEEecCCCCHHHHHHHHHHHHHcCCCEEEEecc
Confidence 456678999999753 2222222333333333 322 23 3344455555555455555667778888774 33
Q ss_pred CchHHHHHHHhhhhcCCcEEecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHc------------CCcEEEEEE
Q 008912 100 SAVMAHVLSHLANELQVPLLSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYF------------GWGEVIAIF 166 (549)
Q Consensus 100 ~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~------------~W~~v~ii~ 166 (549)
.+.........+...++|+|.+....+ ... ...+-...+..+....++.+++++.++ |-.++++|.
T Consensus 91 ~~~~~~~~l~~l~~~giPvV~vd~~~~-~~~~~~~~~~~~V~~D~~~ag~~a~~~l~~~~~~~~~~~~~~~g~~~i~~i~ 169 (330)
T PRK15395 91 DPAAAPTVIEKARGQDVPVVFFNKEPS-RKALDSYDKAYYVGTDSKESGIIQGDLIAKHWKANPAWDLNKDGKIQYVLLK 169 (330)
T ss_pred CHHHHHHHHHHHHHCCCcEEEEcCCcc-ccccccccceeEEccChHHHHHHHHHHHHHHHhhccccccCCCCceEEEEEe
Confidence 333233333456678999999854321 110 011222335566666666655654432 323344454
Q ss_pred ecC--CcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC----CCeEEEEEcchHHHHHHHHHHHH
Q 008912 167 NDD--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM----EARVIVVHGYSRTGLMVFDVAQR 240 (549)
Q Consensus 167 ~~~--~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~----~~~viil~~~~~~~~~il~~a~~ 240 (549)
... .......+.+.+.+++.|+.+.... ..... .+...-...++++.+. .++.| ++++...+..+++.+++
T Consensus 170 g~~~~~~~~~R~~G~~~al~~~g~~~~~~~-~~~~~-~~~~~a~~~~~~~l~~~~~~~~~ai-~~~~d~~A~gvl~al~~ 246 (330)
T PRK15395 170 GEPGHPDAEARTTYVIKELNDKGIKTEQLQ-LDTAM-WDTAQAKDKMDAWLSGPNANKIEVV-IANNDAMAMGAVEALKA 246 (330)
T ss_pred cCCCCchHHHHHHHHHHHHHhcCCCeeeee-cccCC-cCHHHHHHHHHHHHhhCcCCCeeEE-EECCchHHHHHHHHHHh
Confidence 322 2233456777888888887644321 11110 1122223444554332 23433 34555666788888888
Q ss_pred cCC
Q 008912 241 LGM 243 (549)
Q Consensus 241 ~g~ 243 (549)
.|+
T Consensus 247 ~Gl 249 (330)
T PRK15395 247 HNK 249 (330)
T ss_pred cCC
Confidence 886
No 143
>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=97.67 E-value=0.014 Score=55.37 Aligned_cols=205 Identities=11% Similarity=0.001 Sum_probs=113.9
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
.||+++|.. ..+......++.-+.++ .|+.+.+. .+..++..-.+....+...++.++|--.+......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~--------~gy~v~~~--~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~ 70 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEADA--------RGLSLVLC--ATRNRPERELTYLRWLDTNHVDGLIFVTNRPDDGA 70 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHHH--------CCCEEEEE--eCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCCHHH
Confidence 478898853 32222334444444433 25666544 33335544444555566678888886332222233
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCc--ccchHHHHHHHHh
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ--GRNGVTALGDKLA 184 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~--g~~~~~~l~~~~~ 184 (549)
+..+. ..++|+|......+ +...+ .+.+.....+..+++.|...|-++++++...... .....+.|.+.++
T Consensus 71 ~~~~~-~~~~pvV~i~~~~~---~~~~~---~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~ 143 (269)
T cd06293 71 LAKLI-NSYGNIVLVDEDVP---GAKVP---KVFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALA 143 (269)
T ss_pred HHHHH-hcCCCEEEECCCCC---CCCCC---EEEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHH
Confidence 33433 35799998754322 11122 3556777888889999988899999999754332 2345677888888
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
+.|..+......... .........+.++.+. .++.|+. ++...+..+++.+.+.|...++-+-|.
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~vp~di~i~ 210 (269)
T cd06293 144 EAHIPEVPEYVCFGD--YTREFGRAAAAQLLARGDPPTAIFA-ASDEIAIGLLEVLRERGLSIPGDMSLV 210 (269)
T ss_pred HcCCCCChheEEecC--CCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEEE
Confidence 877643211111111 1122333445554332 3454444 455566678888989887655544444
No 144
>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=97.62 E-value=0.019 Score=54.47 Aligned_cols=208 Identities=13% Similarity=0.127 Sum_probs=116.5
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHH-HHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDD-INSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~-iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~ 105 (549)
+||+++|... ..+...+...+++ ..+.+ |+++. +.++..++..-.+....++..++++||= |.......
T Consensus 1 ~ig~~~~~~~---~~~~~~~~~~i~~~~~~~~----g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 71 (270)
T cd06308 1 VIGFSQCNLA---DPWRAAMNDEIQREASNYP----DVELI--IADAADDNSKQVADIENFIRQGVDLLIISPNEAAPLT 71 (270)
T ss_pred CEEEEeeCCC---CHHHHHHHHHHHHHHHhcC----CcEEE--EEcCCCCHHHHHHHHHHHHHhCCCEEEEecCchhhch
Confidence 4888887532 1222222233333 23222 45554 4455556666666666777778887764 33322222
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecCCc--ccchHHHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ--GRNGVTALGD 181 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~~--g~~~~~~l~~ 181 (549)
.....+...++|+|.+.... .+. .+...+..+....+...++.+... |-++++++...... .....+.+.+
T Consensus 72 ~~~~~~~~~~ipvV~~~~~~---~~~--~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~ 146 (270)
T cd06308 72 PVVEEAYRAGIPVILLDRKI---LSD--KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKE 146 (270)
T ss_pred HHHHHHHHCCCCEEEeCCCC---CCc--cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHH
Confidence 33334456899999875321 111 223345667777888888888775 88999999753322 2345677888
Q ss_pred HHhhc-CeEEEEEEccCCCCCCChhhHHHHHHHHhc--CCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCC
Q 008912 182 KLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTW 255 (549)
Q Consensus 182 ~~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 255 (549)
.++++ |+++.... .. . .........++++-+ ...+. |++.+...+..+++.+++.|+. .+...++.+.
T Consensus 147 ~l~~~~~~~~~~~~-~~-~--~~~~~~~~~~~~~l~~~~~~~a-I~~~~d~~a~g~~~al~~~g~~-~dv~vvg~d~ 217 (270)
T cd06308 147 ALSKYPKIKIVAQQ-DG-D--WLKEKAEEKMEELLQANPDIDL-VYAHNDPMALGAYLAAKRAGRE-KEIKFIGIDG 217 (270)
T ss_pred HHHHCCCCEEEEec-CC-C--ccHHHHHHHHHHHHHhCCCCcE-EEeCCcHHHHHHHHHHHHcCCC-CCcEEEEecC
Confidence 88888 77654321 11 1 112222233444422 23454 3445556677788999999976 5555555543
No 145
>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=97.60 E-value=0.013 Score=55.76 Aligned_cols=206 Identities=11% Similarity=0.079 Sum_probs=110.0
Q ss_pred eEEEEEEeccCC----CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHH-hcCcEEEEc-CC
Q 008912 26 VLNVGAIFSFGT----VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFM-ETDTLAIVG-PQ 99 (549)
Q Consensus 26 ~i~IG~l~~~~~----~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~-~~~v~aiiG-p~ 99 (549)
.=.||+++|... .....+...+.-++++.-+. .|+++.+...+. +. .+.+.+.+ .+++++||- +.
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~----~g~~~~v~~~~~--~~---~~~~~~~l~~~~~dgiii~~~ 73 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAE----RGYDLLLSFVSS--PD---RDWLARYLASGRADGVILIGQ 73 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHH----cCCEEEEEeCCc--hh---HHHHHHHHHhCCCCEEEEeCC
Confidence 346899998621 11222333333333333222 256666654332 21 23344444 458887763 22
Q ss_pred CchHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHH
Q 008912 100 SAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVT 177 (549)
Q Consensus 100 ~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~ 177 (549)
... ... ...+...++|+|.+....+ +..+ ..+.+.....+...++.+...|.++++++..+.. .+....+
T Consensus 74 ~~~-~~~-~~~~~~~~ipvV~~~~~~~---~~~~---~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~~r~~ 145 (275)
T cd06295 74 HDQ-DPL-PERLAETGLPFVVWGRPLP---GQPY---CYVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGEERLE 145 (275)
T ss_pred CCC-hHH-HHHHHhCCCCEEEECCccC---CCCC---CEEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhHHHHH
Confidence 222 222 3445678999998754322 1222 3355667778888999998899999999875432 2334567
Q ss_pred HHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 178 ~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
.|.+.+++.|..+......... .........+.++.++ .++.|+.. +...+..+++.+++.|...++-+.|
T Consensus 146 gf~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~-~~~~a~g~~~~l~~~g~~ip~~i~i 218 (275)
T cd06295 146 GYREALAEAGLPLDPRLVAPGD--FTEESGRAAMRALLERGPDFDAVFAA-SDLMALGALRALREAGRRVPEDVAV 218 (275)
T ss_pred HHHHHHHHcCCCCChhhEEecc--CCHHHHHHHHHHHHhCCCCCCEEEEC-CcHHHHHHHHHHHHhCCCCccceEE
Confidence 7888888877543211111111 1122233444444333 34554443 4455667888888888754444433
No 146
>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=97.60 E-value=0.014 Score=54.92 Aligned_cols=200 Identities=13% Similarity=0.063 Sum_probs=118.5
Q ss_pred EEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 29 VGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 29 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
||+++|.- .........+++.+.++ .|+++.+ .++..++..-.+...+++.++++++|....... ..+
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~ 70 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYE--------NGYQMLL--MNTNFSIEKEIEALELLARQKVDGIILLATTIT-DEH 70 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHH
Confidence 78888753 33323445566555554 2566544 444556666666677777889999886433322 234
Q ss_pred HHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecC---CcccchHHHHHHHHh
Q 008912 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD---DQGRNGVTALGDKLA 184 (549)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~---~~g~~~~~~l~~~~~ 184 (549)
...+...++|+|......+ ..+ .+.++....+..+++.+...+-++++++.... ..+....+.|++.++
T Consensus 71 ~~~~~~~~ipvv~~~~~~~-----~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~~~~~~~~~~~r~~gf~~~~~ 142 (259)
T cd01542 71 REAIKKLNVPVVVVGQDYP-----GIS---SVVYDDYGAGYELGEYLAQQGHKNIAYLGVSESDIAVGILRKQGYLDALK 142 (259)
T ss_pred HHHHhcCCCCEEEEeccCC-----CCC---EEEECcHHHHHHHHHHHHHcCCCcEEEEcCCcccchhHHHHHHHHHHHHH
Confidence 4555667899999753211 122 34566777888899998888889999886432 122455677888888
Q ss_pred hcCe-EEEEEEccCCCCCCChhhHHHHHHHHhcCC-CeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEe
Q 008912 185 EIRC-KISYKSALPPDQSVTETDVRNELVKVRMME-ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (549)
Q Consensus 185 ~~g~-~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (549)
+.|. .+.... -. .........+.++.+.. +++|+. .+...+..+++.+++.|+..++-+.+..
T Consensus 143 ~~~~~~~~~~~-~~----~~~~~~~~~~~~~l~~~~~~~i~~-~~d~~a~g~~~~l~~~g~~vp~di~v~g 207 (259)
T cd01542 143 EHGICPPNIVE-TD----FSYESAYEAAQELLEPQPPDAIVC-ATDTIALGAMKYLQELGRRIPEDISVAG 207 (259)
T ss_pred HcCCChHHeee-cc----CchhhHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 8776 211111 11 11222234454544333 454444 4455677888888888886555555554
No 147
>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=97.60 E-value=0.018 Score=54.58 Aligned_cols=200 Identities=13% Similarity=0.025 Sum_probs=113.5
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
.||+++|.- ..+-.....++.-+.++ . |+++.+.. +..++..-.+....++++++++||--.+......
T Consensus 1 ~igvi~p~~~~~~~~~~~~g~~~~a~~---~-----g~~~~~~~--~~~~~~~~~~~i~~~~~~~vdgii~~~~~~~~~~ 70 (268)
T cd06270 1 TIGLVVSDLDGPFFGPLLSGVESVARK---A-----GKHLIITA--GHHSAEKEREAIEFLLERRCDALILHSKALSDDE 70 (268)
T ss_pred CEEEEEccccCcchHHHHHHHHHHHHH---C-----CCEEEEEe--CCCchHHHHHHHHHHHHcCCCEEEEecCCCCHHH
Confidence 378899873 32323444555554444 2 45555433 3344444445555677788888886333222222
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCc--ccchHHHHHHHHh
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ--GRNGVTALGDKLA 184 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~--g~~~~~~l~~~~~ 184 (549)
+ ..+...++|+|.+....+ +..+++ +..+....++.+++.+...|-+++++|..+... .....+.|.+.++
T Consensus 71 ~-~~~~~~~ipvV~~~~~~~---~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 143 (268)
T cd06270 71 L-IELAAQVPPLVLINRHIP---GLADRC---IWLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALA 143 (268)
T ss_pred H-HHHhhCCCCEEEEeccCC---CCCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHH
Confidence 3 334567999998753222 112232 446677778889999988899999999754322 2344567788888
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHcCCCCCC
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~ 247 (549)
+.|+.+.....+... ....+....++++.+.. +++|+ +++...+..+++.+++.|+..++
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~ 205 (268)
T cd06270 144 EAGIALDESLIIEGD--FTEEGGYAAMQELLARGAPFTAVF-CANDEMAAGAISALREHGISVPQ 205 (268)
T ss_pred HcCCCCCcceEEECC--CCHHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCC
Confidence 877654211111111 12233445555554443 45444 44455667788888888875444
No 148
>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=97.58 E-value=0.027 Score=54.52 Aligned_cols=211 Identities=18% Similarity=0.118 Sum_probs=116.6
Q ss_pred EEEEeccC-C-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc--CcEEEEcCCCchHH
Q 008912 29 VGAIFSFG-T-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET--DTLAIVGPQSAVMA 104 (549)
Q Consensus 29 IG~l~~~~-~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~--~v~aiiGp~~s~~~ 104 (549)
||+++|.. . .+-.....+++.+.++ .|+.+.+. ++..+..........++++ ++.+||=-..+...
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~--------~g~~v~~~--~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~ 71 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADD--------LGIELEVL--YAERDRFLMLQQARTILQRPDKPDALIFTNEKSVA 71 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHh--------cCCeEEEE--eCCCCHHHHHHHHHHHHHhccCCCEEEEcCCccch
Confidence 78888764 2 2222333444444433 15555443 4455666666677788888 99887742222223
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCC-----C--CCC-CceEEccCCcHHHHHHHHHHHHHcCCcE--------EEEEEec
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLS-----P--LQY-PFFVQTAPNDLYLMSAIAEMVSYFGWGE--------VIAIFND 168 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls-----~--~~~-~~~~r~~ps~~~~~~ai~~~l~~~~W~~--------v~ii~~~ 168 (549)
......+...++|+|.+....+... . ..+ .++-.+.++....++.+++.|...+-++ ++++...
T Consensus 72 ~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~~ 151 (305)
T cd06324 72 PELLRLAEGAGVKLFLVNSGLTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISGD 151 (305)
T ss_pred HHHHHHHHhCCCeEEEEecCCCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeCC
Confidence 3334556678999998754322110 0 011 2244566778888888888887776653 7666533
Q ss_pred C--CcccchHHHHHHHHhhcC-eEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCC
Q 008912 169 D--DQGRNGVTALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGM 243 (549)
Q Consensus 169 ~--~~g~~~~~~l~~~~~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~ 243 (549)
. .......+.|++.+++.| ..+... .... .........++++.+. ..+.|+ +.+...+..+++++++.|+
T Consensus 152 ~~~~~~~~R~~Gf~~~~~~~g~~~~~~~--~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~g~~~al~~~g~ 226 (305)
T cd06324 152 PTTPAAILREAGLRRALAEHPDVRLRQV--VYAG--WSEDEAYEQAENLLKRYPDVRLIW-AANDQMAFGALRAAKEAGR 226 (305)
T ss_pred CCChHHHHHHHHHHHHHHHCCCceEeee--ecCC--CCHHHHHHHHHHHHHHCCCccEEE-ECCchHHHHHHHHHHHcCC
Confidence 2 223345667788888876 333221 1111 1222333445554333 345443 4455666788899999997
Q ss_pred CCCC-eEEEEeC
Q 008912 244 MDSG-YVWIATT 254 (549)
Q Consensus 244 ~~~~-~~~i~~~ 254 (549)
..++ ...++.+
T Consensus 227 ~vp~di~vig~D 238 (305)
T cd06324 227 KPGRDVLFGGVN 238 (305)
T ss_pred CcCCCEEEEecC
Confidence 6443 3344333
No 149
>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=97.58 E-value=0.03 Score=53.70 Aligned_cols=199 Identities=10% Similarity=0.044 Sum_probs=108.3
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~ 105 (549)
.||+++|.. ..+-.....+++-+.++ . |+.+. +.++..++..-.+...+++..++.+||- +..+....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~a~~---~-----g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~ 70 (288)
T cd01538 1 KIGLSLPTKTEERWIRDRPNFEAALKE---L-----GAEVI--VQNANGDPAKQISQIENMIAKGVDVLVIAPVDGEALA 70 (288)
T ss_pred CeEEEEeCCCcHHHHHHHHHHHHHHHH---c-----CCEEE--EECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhHH
Confidence 488999853 22222333444444333 1 44444 4555556666666667778888888774 33333223
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc------CCcEEEEEEecCC--cccchHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF------GWGEVIAIFNDDD--QGRNGVT 177 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~------~W~~v~ii~~~~~--~g~~~~~ 177 (549)
.....+...++|+|......+ +....+ .+..+....++.+++.+... |-++++++..+.. ......+
T Consensus 71 ~~l~~l~~~~ipvV~~~~~~~---~~~~~~--~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~ 145 (288)
T cd01538 71 SAVEKAADAGIPVIAYDRLIL---NSNVDY--YVSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFN 145 (288)
T ss_pred HHHHHHHHCCCCEEEECCCCC---CCCcce--EEEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHH
Confidence 334445668999998754322 111222 23445555667677776555 7889998875432 2233456
Q ss_pred HHHHHHhhcC----eEEEEEEccCCCCCCChhhHHHHHHHHhcCC---CeEEEEEcchHHHHHHHHHHHHcCCCC
Q 008912 178 ALGDKLAEIR----CKISYKSALPPDQSVTETDVRNELVKVRMME---ARVIVVHGYSRTGLMVFDVAQRLGMMD 245 (549)
Q Consensus 178 ~l~~~~~~~g----~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~---~~viil~~~~~~~~~il~~a~~~g~~~ 245 (549)
.|.+.+++.+ +.+... ..... .+...-...++++.+.. +++|+ +.....+..+++.+++.|+..
T Consensus 146 gf~~~l~~~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~~~I~-~~~d~~a~g~~~al~~~g~~~ 216 (288)
T cd01538 146 GAMSVLKPLIDSGKITIVGE-VATPD--WDPETAQKRMENALTANYNKVDGVL-AANDGTAGGAIAALKAAGLAG 216 (288)
T ss_pred HHHHHHHhccccCCeeEEec-cccCC--CCHHHHHHHHHHHHHhCCCCccEEE-eCCcHHHHHHHHHHHHcCCCC
Confidence 7778888876 443321 11111 11222234444443332 34333 344556677888888888754
No 150
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=97.57 E-value=0.021 Score=55.88 Aligned_cols=203 Identities=9% Similarity=0.009 Sum_probs=126.3
Q ss_pred CCceEEEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCc
Q 008912 23 KPEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA 101 (549)
Q Consensus 23 ~~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s 101 (549)
....-.||+++|.- ..+-.....+++.+.++ .|+.+-+ ..+..++..-.+....+..++|+++|=.. .
T Consensus 55 ~~~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~--------~gy~~~l--~~~~~~~~~e~~~~~~l~~~~vdGiIi~~-~ 123 (333)
T COG1609 55 TGRTKTIGLVVPDITNPFFAEILKGIEEAARE--------AGYSLLL--ANTDDDPEKEREYLETLLQKRVDGLILLG-E 123 (333)
T ss_pred hCCCCEEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEE--ECCCCCHHHHHHHHHHHHHcCCCEEEEec-C
Confidence 44677899999953 22222334444444443 2455444 44444555555555666677999988643 3
Q ss_pred hHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEec--CCcccchHHHH
Q 008912 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND--DDQGRNGVTAL 179 (549)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~--~~~g~~~~~~l 179 (549)
.........+...++|+|......+ + +.+-.+..++..-++.+++.|...|-+++++|... ...+....+.+
T Consensus 124 ~~~~~~~~~l~~~~~P~V~i~~~~~---~---~~~~~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf 197 (333)
T COG1609 124 RPNDSLLELLAAAGIPVVVIDRSPP---G---LGVPSVGIDNFAGAYLATEHLIELGHRRIAFIGGPLDSSASRERLEGY 197 (333)
T ss_pred CCCHHHHHHHHhcCCCEEEEeCCCc---c---CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEeCCCccccHhHHHHHH
Confidence 3334445666777999998754433 2 22234456788888999999999999999999976 33456778889
Q ss_pred HHHHhhcCeEE--EEEEccCCCCCCChhhHHHHHHHHhcCC---CeEEEEEcchHHHHHHHHHHHHcCCCCCC
Q 008912 180 GDKLAEIRCKI--SYKSALPPDQSVTETDVRNELVKVRMME---ARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (549)
Q Consensus 180 ~~~~~~~g~~v--~~~~~~~~~~~~~~~~~~~~l~~l~~~~---~~viil~~~~~~~~~il~~a~~~g~~~~~ 247 (549)
.+.+++.|+.. .....-. ....+-...+.++.... ++ .|++++...+..+++.+.+.|+..++
T Consensus 198 ~~al~~~~~~~~~~~i~~~~----~~~~~g~~~~~~ll~~~~~~pt-Aif~~nD~~Alg~l~~~~~~g~~vP~ 265 (333)
T COG1609 198 RAALREAGLPINPEWIVEGD----FSEESGYEAAERLLARGEPRPT-AIFCANDLMALGALRALRELGLRVPE 265 (333)
T ss_pred HHHHHHCCCCCCcceEEecC----CChHHHHHHHHHHHhcCCCCCc-EEEEcCcHHHHHHHHHHHHcCCCCCC
Confidence 99999999875 2221111 11223333444444322 44 44556667788899999999987554
No 151
>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=97.57 E-value=0.024 Score=53.50 Aligned_cols=204 Identities=10% Similarity=0.030 Sum_probs=113.9
Q ss_pred EEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
.||+++|... .+-.....+++-+.++ .|+.+. +.+...++..-.+....++..++++||-.........
T Consensus 1 ~igvi~~~~~~~~~~~~~~~i~~~a~~--------~g~~~~--~~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~~ 70 (267)
T cd06283 1 LIGVIVADITNPFSSLVLKGIEDVCRA--------HGYQVL--VCNSDNDPEKEKEYLESLLAYQVDGLIVNPTGNNKEL 70 (267)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHH--------cCCEEE--EEcCCCCHHHHHHHHHHHHHcCcCEEEEeCCCCChHH
Confidence 3788887642 2223445555555554 145553 3444445555555556677778887774222222223
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC-cc--cchHHHHHHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QG--RNGVTALGDKL 183 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~-~g--~~~~~~l~~~~ 183 (549)
+ ..+...++|+|.+....+ ....+ .+.......+..+++.+...|-++++++..... .. ....+.+.+.+
T Consensus 71 l-~~~~~~~ipvV~~~~~~~---~~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~g~~~~~ 143 (267)
T cd06283 71 Y-QRLAKNGKPVVLVDRKIP---ELGVD---TVTLDNYEAAKEAVDHLIEKGYERILFVTEPLDEISPRMERYEGFKEAL 143 (267)
T ss_pred H-HHHhcCCCCEEEEcCCCC---CCCCC---EEEeccHHHHHHHHHHHHHcCCCcEEEEecCccccccHHHHHHHHHHHH
Confidence 3 334567999999754321 11222 233456667888889998889999999975432 11 24556778888
Q ss_pred hhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
++.|............ .+.......++++.++. ++.|+. .+...+..+++.+++.|+..++-+.|
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~~l~~~g~~vp~di~v 210 (267)
T cd06283 144 AEHGIGVNEELIEIDD--EDADELDERLRQLLNKPKKKTAIFA-ANGLILLEVLKALKELGIRIPEDVGL 210 (267)
T ss_pred HHcCCCCCcceeEecc--cchHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCccceEE
Confidence 8777432111100111 11233445666665443 344444 44555667888888888764444444
No 152
>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=97.56 E-value=0.0088 Score=56.72 Aligned_cols=201 Identities=9% Similarity=-0.013 Sum_probs=113.3
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
.||+++|.. ..+-.....+++.+.++ .|+.+ .+.++..++....+....+..+++.++|--.+......
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~--------~g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~ 70 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRA--------AGYSL--LIANSLNDPERELEILRSFEQRRMDGIIIAPGDERDPE 70 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHH--------cCCEE--EEEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCCcHH
Confidence 478999853 33333445555555554 24554 34455556655555556666778888885333222244
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHHHHHh
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~~~~~ 184 (549)
+...+...++|+|......+ . ..++ +..+...-+...++.+...|-++++++..... .+....+.+.+.++
T Consensus 71 ~~~~~~~~~ipvV~i~~~~~--~--~~~~---V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~ 143 (269)
T cd06281 71 LVDALASLDLPIVLLDRDMG--G--GADA---VLFDHAAGMRQAVEYLISLGHRRIALVGGGSNTRPGRERLEGYKAAFA 143 (269)
T ss_pred HHHHHHhCCCCEEEEecccC--C--CCCE---EEECcHHHHHHHHHHHHHCCCcEEEEecCccccccHHHHHHHHHHHHH
Confidence 45566678999998754322 1 1232 33445555566777777779999998875432 22344567788888
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhc--CCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeE
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYV 249 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~ 249 (549)
+.|+.+......... . .......+.++.. ..++.|+ +.+...+..+++.+.+.|+..++-+
T Consensus 144 ~~~~~~~~~~~~~~~--~-~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~dv 206 (269)
T cd06281 144 AAGLPPDPALVRLST--P-AASGFDATRALLALPDRPTAII-AGGTQVLVGVLRALREAGLRIPRDL 206 (269)
T ss_pred HcCCCCCHHHeecCc--H-HHHHHHHHHHHHcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCcce
Confidence 887654211111111 1 1222334444432 2356665 3455566678888888887654433
No 153
>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=97.55 E-value=0.033 Score=52.49 Aligned_cols=202 Identities=9% Similarity=0.039 Sum_probs=111.9
Q ss_pred EEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 008912 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~ 105 (549)
.||+++|... ..-.....+++-+.++ .|+.+.+...+. .++..-.+....+++++++++|- +..... .
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~--------~~~~~~~~~~~~-~~~~~~~~~~~~l~~~~vdgiii~~~~~~~-~ 70 (264)
T cd01574 1 TIGVVTTDLALHGPSSTLAAIESAARE--------AGYAVTLSMLAE-ADEEALRAAVRRLLAQRVDGVIVNAPLDDA-D 70 (264)
T ss_pred CEEEEeCCCCcccHHHHHHHHHHHHHH--------CCCeEEEEeCCC-CchHHHHHHHHHHHhcCCCEEEEeCCCCCh-H
Confidence 3789998642 2222334444444444 256665553322 23344444555566778888874 332222 2
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCc--ccchHHHHHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ--GRNGVTALGDKL 183 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~--g~~~~~~l~~~~ 183 (549)
.+.. ....++|+|...... . .. +..+.......++.+++.+...|-++++++..+... .....+.|.+.+
T Consensus 71 ~~~~-~~~~~ipvv~~~~~~---~-~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l 142 (264)
T cd01574 71 AALA-AAPADVPVVFVDGSP---S-PR---VSTVSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAAL 142 (264)
T ss_pred HHHH-HHhcCCCEEEEeccC---C-CC---CCEEEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHH
Confidence 3333 346789999975421 1 11 223455667788889999988999999998754332 223456677788
Q ss_pred hhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC-CeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMME-ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~-~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
++.|+.+..... .. .........++++..+. ++.| ++++...+..+++.+++.|...++-+-|+
T Consensus 143 ~~~~~~~~~~~~--~~--~~~~~~~~~~~~~l~~~~~~ai-~~~~d~~a~g~~~~~~~~g~~ip~~i~ii 207 (264)
T cd01574 143 EAAGIAPPPVLE--GD--WSAESGYRAGRELLREGDPTAV-FAANDQMALGVLRALHELGLRVPDDVSVV 207 (264)
T ss_pred HHCCCCcceeee--cC--CCHHHHHHHHHHHHhCCCCcEE-EEcCcHHHHHHHHHHHHcCCCCccceEEe
Confidence 777765542211 11 11223334455554333 4443 34455667778888888886544433333
No 154
>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=97.54 E-value=0.038 Score=52.38 Aligned_cols=196 Identities=11% Similarity=-0.031 Sum_probs=110.7
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~ 105 (549)
+||+++|.. ..+-.....+++-+.++. |+.+.+...+...+...-.+....+++.++.+||- |.......
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~--------g~~~~~~~~~~~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~ 72 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRL--------GVSLKLLEAGGYPNLAKQIAQLEDCAAWGADAILLGAVSPDGLN 72 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHc--------CCEEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHH
Confidence 589999863 222223344555544432 45554432222123444445566677778888874 33322222
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCC-----cEEEEEEecCC--cccchHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGW-----GEVIAIFNDDD--QGRNGVTA 178 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W-----~~v~ii~~~~~--~g~~~~~~ 178 (549)
.+ ..+...++|+|....... +. .....+..+....++.+++++...+- ++++++..... ......+.
T Consensus 73 ~~-~~~~~~giPvV~~~~~~~---~~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~~g 146 (268)
T cd06306 73 EI-LQQVAASIPVIALVNDIN---SP--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVKAVEKG 146 (268)
T ss_pred HH-HHHHHCCCCEEEeccCCC---Cc--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHHHHHHH
Confidence 23 345678999998632211 11 12234566777778888888877665 89999975332 23455677
Q ss_pred HHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCC
Q 008912 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGM 243 (549)
Q Consensus 179 l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~ 243 (549)
+.+.+++.++++.... ... .+...-...++++.+. ..++|+. ....+..+++.+++.|+
T Consensus 147 ~~~~~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~~i~~--~d~~a~~~~~~l~~~g~ 207 (268)
T cd06306 147 FRDALAGSAIEISAIK--YGD--TGKEVQRKLVEEALEAHPDIDYIVG--SAVAAEAAVGILRQRGL 207 (268)
T ss_pred HHHHHhhcCcEEeeec--cCC--ccHHHHHHHHHHHHHhCCCcCEEee--cchhhhHHHHHHHhcCC
Confidence 8888888888765421 111 1222333445554322 4566653 35667778888888886
No 155
>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=97.53 E-value=0.02 Score=54.04 Aligned_cols=205 Identities=10% Similarity=0.045 Sum_probs=114.2
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
.||+++|.. ..+-.....++.-+.++ .|+.+. +.++..++..-.+....+...++++||=..+......
T Consensus 1 ~igvi~p~~~~~~~~~~~~gi~~~~~~--------~~~~~~--~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~ 70 (265)
T cd06285 1 TIGVLVPRLTDTVMATMYEGIEEAAAE--------RGYSTF--VANTGDNPDAQRRAIEMLLDRRVDGLILGDARSDDHF 70 (265)
T ss_pred CEEEEeCCCCCccHHHHHHHHHHHHHH--------CCCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCChHH
Confidence 379999863 22222333444444333 245553 3444445555455555667778887773222222233
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHHHHHh
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~~~~~ 184 (549)
+ ..+...++|+|......+ .+++ +..+...-+...++.|...|-++++++..+.. ......+.|.+.++
T Consensus 71 ~-~~~~~~~iPvv~~~~~~~-----~~~~---V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~ 141 (265)
T cd06285 71 L-DELTRRGVPFVLVLRHAG-----TSPA---VTGDDVLGGRLATRHLLDLGHRRIAVLAGPDYASTARDRLAGFRAALA 141 (265)
T ss_pred H-HHHHHcCCCEEEEccCCC-----CCCE---EEeCcHHHHHHHHHHHHHCCCccEEEEeCCcccccHHHHHHHHHHHHH
Confidence 3 344668999998753221 1232 34566677788888888889999999975432 33455677788888
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCC-CeEEEEeC
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDS-GYVWIATT 254 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 254 (549)
+.|+.+.....+... .........++++... .++. |++.+...+..+++.+++.|+..+ +...++.+
T Consensus 142 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~~p~di~iig~d 211 (265)
T cd06285 142 EAGIEVPPERIVYSG--FDIEGGEAAAEKLLRSDSPPTA-IFAVNDFAAIGVMGAARDRGLRVPDDVALVGYN 211 (265)
T ss_pred HcCCCCChhhEEeCC--CCHHHHHHHHHHHHcCCCCCCE-EEEcCcHHHHHHHHHHHHcCCCCCcceEEEeec
Confidence 887654221111111 1122223445555333 2344 444555666788999999887543 33344433
No 156
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=97.53 E-value=0.018 Score=56.88 Aligned_cols=209 Identities=10% Similarity=0.013 Sum_probs=114.0
Q ss_pred ceEEEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchH
Q 008912 25 EVLNVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM 103 (549)
Q Consensus 25 ~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~ 103 (549)
..-.||+++|... .+-.....+++-+.++ .|+.+. +.++..++..-.+....++.+++++||--.....
T Consensus 58 ~~~~i~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~ 127 (341)
T PRK10703 58 HTKSIGLLATSSEAPYFAEIIEAVEKNCYQ--------KGYTLI--LCNAWNNLEKQRAYLSMLAQKRVDGLLVMCSEYP 127 (341)
T ss_pred CCCeEEEEeCCCCCchHHHHHHHHHHHHHH--------CCCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCC
Confidence 4458999998742 2222333444444443 144443 3344455555555566677778888774222222
Q ss_pred HHHHHHhhhh-cCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecC--CcccchHHHHH
Q 008912 104 AHVLSHLANE-LQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALG 180 (549)
Q Consensus 104 ~~~va~~~~~-~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~--~~g~~~~~~l~ 180 (549)
...+. .+.. .++|+|.+....+ +..+.. .+.+.....+...++.|...|-+++++|.... .......+.|.
T Consensus 128 ~~~~~-~l~~~~~iPvV~~d~~~~---~~~~~~--~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~ 201 (341)
T PRK10703 128 EPLLA-MLEEYRHIPMVVMDWGEA---KADFTD--AIIDNAFEGGYLAGRYLIERGHRDIGVIPGPLERNTGAGRLAGFM 201 (341)
T ss_pred HHHHH-HHHhcCCCCEEEEecccC---CcCCCC--eEEECcHHHHHHHHHHHHHCCCCcEEEEeCCccccchHHHHHHHH
Confidence 23333 3344 6999998743221 111112 23444455677788888778999999986432 23344567788
Q ss_pred HHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 181 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
+.+++.|+.+......... ....+....++++... .++.|+ +++...+..+++.+.+.|...++-+.|.
T Consensus 202 ~~l~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~a~g~~~al~~~g~~ip~dv~vv 272 (341)
T PRK10703 202 KAMEEANIKVPEEWIVQGD--FEPESGYEAMQQILSQKHRPTAVF-CGGDIMAMGAICAADEMGLRVPQDISVI 272 (341)
T ss_pred HHHHHcCCCCChHHeEeCC--CCHHHHHHHHHHHHhCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 8888888764321111111 1122334455554433 345554 4455566778889988887555444443
No 157
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=97.51 E-value=0.024 Score=55.88 Aligned_cols=205 Identities=10% Similarity=0.029 Sum_probs=113.4
Q ss_pred CCceEEEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCc
Q 008912 23 KPEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA 101 (549)
Q Consensus 23 ~~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s 101 (549)
....-.||+++|.. ..+......++.-+.+ +. |+.+-+ .++..++....+....++.+++++||-....
T Consensus 61 ~~~~~~Igvv~~~~~~~~~~~i~~gi~~~a~---~~-----g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~ 130 (342)
T PRK10014 61 GGQSGVIGLIVRDLSAPFYAELTAGLTEALE---AQ-----GRMVFL--LQGGKDGEQLAQRFSTLLNQGVDGVVIAGAA 130 (342)
T ss_pred cCCCCEEEEEeCCCccchHHHHHHHHHHHHH---Hc-----CCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCC
Confidence 34456899999863 2222233344444333 32 444433 3334455444455556667788888842222
Q ss_pred hHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCc--ccchHHHH
Q 008912 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ--GRNGVTAL 179 (549)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~--g~~~~~~l 179 (549)
.........+...++|+|...... ....+++ +.......+..+++.|...|.++++++..+... .....+.+
T Consensus 131 ~~~~~~~~~l~~~~iPvV~~~~~~---~~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf 204 (342)
T PRK10014 131 GSSDDLREMAEEKGIPVVFASRAS---YLDDVDT---VRPDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGY 204 (342)
T ss_pred CCcHHHHHHHhhcCCCEEEEecCC---CCCCCCE---EEeCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHH
Confidence 222334455567899999874321 1112232 455667778888888888999999999654322 23355678
Q ss_pred HHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHcCCCCC
Q 008912 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDS 246 (549)
Q Consensus 180 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~ 246 (549)
.+.+++.|+.+.....+... .........++++.+.. ++.|+ +.+...+..+++.+.+.|+..+
T Consensus 205 ~~al~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~~l~~~g~~vp 270 (342)
T PRK10014 205 CATLLKFGLPFHSEWVLECT--SSQKQAAEAITALLRHNPTISAVV-CYNETIAMGAWFGLLRAGRQSG 270 (342)
T ss_pred HHHHHHcCCCCCcceEecCC--CChHHHHHHHHHHHcCCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCC
Confidence 88888888754321111111 11222234444543333 34444 4555666778888888887544
No 158
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=97.50 E-value=0.09 Score=51.35 Aligned_cols=216 Identities=12% Similarity=0.090 Sum_probs=128.3
Q ss_pred CCCceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEE-cCCC
Q 008912 22 LKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV-GPQS 100 (549)
Q Consensus 22 ~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aii-Gp~~ 100 (549)
......+||++.+... ..+..++..++++.-+.- |....+...|...++..-++.+.+++.+++.+|+ .|.+
T Consensus 29 a~~~~~~i~~~~~~~~---~~f~~~~~~g~~~~a~~~----g~~~~~~~~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~d 101 (322)
T COG1879 29 AAAAGKTIGVVVPTLG---NPFFQAVRKGAEAAAKKL----GVVVAVVIADAQNDVAKQIAQIEDLIAQGVDAIIINPVD 101 (322)
T ss_pred HhccCceEEEEeccCC---ChHHHHHHHHHHHHHHHc----CCcEEEEecccccChHHHHHHHHHHHHcCCCEEEEcCCC
Confidence 3444488999998753 234455555555444332 2356677777778888888889999989997776 5888
Q ss_pred chHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHH-cC-CcEEEEEEecC--CcccchH
Q 008912 101 AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FG-WGEVIAIFNDD--DQGRNGV 176 (549)
Q Consensus 101 s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~-~~-W~~v~ii~~~~--~~g~~~~ 176 (549)
+........-+...+||+|.+....+.- ......+.......++..++++.+ ++ .-++.++.... .......
T Consensus 102 ~~~~~~~v~~a~~aGIpVv~~d~~~~~~----~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~~g~~~~~~~~~R~ 177 (322)
T COG1879 102 PDALTPAVKKAKAAGIPVVTVDSDIPGP----GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVLVGSPGNSSAEERV 177 (322)
T ss_pred hhhhHHHHHHHHHCCCcEEEEecCCCCC----CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEEecCCCCchHHHHH
Confidence 8888888888899999999975432211 122333334566666666777654 33 23455555332 2334556
Q ss_pred HHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 177 TALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 177 ~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
..+.+.+++.+..+........+ .+.+.-......+-...+++-.+++.. ..+.-..+.+++.|... .+++.
T Consensus 178 ~G~~~~l~~~~~~~~v~~~~~~~--~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~A~~~~g~~~--~v~v~ 250 (322)
T COG1879 178 KGFRDALKEHPPDIEVVDVQTGD--WDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQALKAAGRKG--DVVVV 250 (322)
T ss_pred hhHHHHHHhCCCcEEEeeccCCc--ccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHHHHHHcCCCC--ceEEE
Confidence 77888888876422222222211 123333445555555666766655554 34444556666677643 44544
No 159
>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=97.50 E-value=0.032 Score=52.69 Aligned_cols=206 Identities=10% Similarity=0.036 Sum_probs=114.7
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
.||+++|... ......+...+++.-+. .|+.+.+ .++..++..-.+....++.+++++||-.........+
T Consensus 1 ~igvi~~~~~---~~~~~~~~~~~~~~~~~----~g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~ 71 (264)
T cd06274 1 TIGLIIPDLE---NRSFARIAKRLEALARE----RGYQLLI--ACSDDDPETERETVETLIARQVDALIVAGSLPPDDPY 71 (264)
T ss_pred CEEEEecccc---CchHHHHHHHHHHHHHH----CCCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCchHHH
Confidence 3789998642 12233333334433322 2455544 3444466555566667778889888753332222223
Q ss_pred HHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHHHHHhh
Q 008912 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLAE 185 (549)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~~~~~~ 185 (549)
. .+...++|+|.+....+ +...++ +.......+..+++.+.+.|-++++++..... ......+.+.+.+++
T Consensus 72 ~-~~~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~ 144 (264)
T cd06274 72 Y-LCQKAGLPVVALDRPGD---PSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGLPELSPSRERLAGFRQALAD 144 (264)
T ss_pred H-HHHhcCCCEEEecCccC---CCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCCCcccchHHHHHHHHHHHHH
Confidence 3 34668899998743321 112233 34456666777888888888899999875432 234556788888888
Q ss_pred cCeEEEEEEccCCCCCCChhhHHHHHHHHhcC---CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 186 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
.|..+......... .+.......++++-.. .++.|+ +.+...+..+++.+++.|+..++-+.|+
T Consensus 145 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~-~~~d~~A~g~~~al~~~g~~ip~dv~v~ 211 (264)
T cd06274 145 AGLPVQPDWIYAEG--YSPESGYQLMAELLARLGRLPRALF-TTSYTLLEGVLRFLRERPGLAPSDLRIA 211 (264)
T ss_pred cCCCCCcceeecCC--CChHHHHHHHHHHHccCCCCCcEEE-EcChHHHHHHHHHHHHcCCCCCcceEEE
Confidence 87542211111111 1122233445554332 245554 4455567778888888887655545544
No 160
>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=97.49 E-value=0.069 Score=51.36 Aligned_cols=212 Identities=11% Similarity=0.038 Sum_probs=114.9
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~~ 106 (549)
|||+++|... ..+...+..++++.-++ .|+++.+. .+...++..-.+....++.+++++||= +........
T Consensus 1 ~i~~i~~~~~---~~~~~~~~~gi~~~a~~----~g~~~~~~-~~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~ 72 (294)
T cd06316 1 KAAIVMHTSG---SDWSNAQVRGAKDEFAK----LGIEVVAT-TDAQFDPAKQVADIETTISQKPDIIISIPVDPVSTAA 72 (294)
T ss_pred CeEEEecCCC---ChHHHHHHHHHHHHHHH----cCCEEEEe-cCCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhH
Confidence 5888887532 12333444444443332 25666433 344556666666667777888887764 433222233
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecCCc--ccchHHHHHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ--GRNGVTALGDK 182 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~~--g~~~~~~l~~~ 182 (549)
....+...++|+|.+....+.... .-.++..+..+....+..+++++... +-++++++..+.+. .....+.+.+.
T Consensus 73 ~i~~~~~~~iPvV~~~~~~~~~~~-~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~ 151 (294)
T cd06316 73 AYKKVAEAGIKLVFMDNVPSGLEH-GKDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKET 151 (294)
T ss_pred HHHHHHHcCCcEEEecCCCccccc-CcceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHHH
Confidence 345566789999987543222211 01233345566677778888888776 78899999754332 33445677777
Q ss_pred HhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 008912 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (549)
Q Consensus 183 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (549)
+++.+..+....... . .........++++... .++.|+ +.+...+..+++.+++.|+ .+...++.+
T Consensus 152 l~~~~~~~~~~~~~~-~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~--~di~vvg~d 219 (294)
T cd06316 152 IKKNYPDITIVAEKG-I--DGPSKAEDIANAMLTQNPDLKGIY-AVWDVPAEGVIAALRAAGR--DDIKVTTVD 219 (294)
T ss_pred HHHhCCCcEEEeecC-C--cchhHHHHHHHHHHHhCCCeeEEE-eCCCchhHHHHHHHHHcCC--CCceEEEeC
Confidence 776553222111111 1 1011222344444322 344444 3445567788999999886 344455444
No 161
>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=97.48 E-value=0.019 Score=54.44 Aligned_cols=207 Identities=11% Similarity=0.060 Sum_probs=114.4
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~ 105 (549)
.||++.|.. ..+-.....+++-+.++ .|+++.+ .++..++..-.+....++.++++++|- +.... ..
T Consensus 1 ~i~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~-~~ 69 (270)
T cd06296 1 LIGLVFPDLDSPWASEVLRGVEEAAAA--------AGYDVVL--SESGRRTSPERQWVERLSARRTDGVILVTPELT-SA 69 (270)
T ss_pred CeEEEECCCCCccHHHHHHHHHHHHHH--------cCCeEEE--ecCCCchHHHHHHHHHHHHcCCCEEEEecCCCC-hH
Confidence 378888763 33333444555444444 2555544 444444444444555667778888764 33322 22
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKL 183 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~~~~ 183 (549)
....+...++|+|.+..... ....++ .+.++....++..++.+...|.++++++..... ......+.|.+.+
T Consensus 70 -~~~~~~~~~ipvV~i~~~~~--~~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~ 143 (270)
T cd06296 70 -QRAALRRTGIPFVVVDPAGD--PDADVP---SVGATNWAGGLAATEHLLELGHRRIGFITGPPDLLCSRARLDGYRAAL 143 (270)
T ss_pred -HHHHHhcCCCCEEEEecccC--CCCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHH
Confidence 24445668999999754321 111223 345667777888888888889999999875322 2344567788888
Q ss_pred hhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 008912 184 AEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSG-YVWIATT 254 (549)
Q Consensus 184 ~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 254 (549)
++.++.+......... ...+.....++++.+. .+++|+ +.+...+..+++.+++.|...++ ...+..+
T Consensus 144 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~~l~~~g~~~p~~i~v~~~d 214 (270)
T cd06296 144 AEAGIPVDPALVREGD--FSTESGFRAAAELLALPERPTAIF-AGNDLMALGVYEAARERGLRIPEDLSVVGFD 214 (270)
T ss_pred HHcCCCCChHHheeCC--CCHHHHHHHHHHHHhCCCCCcEEE-EcCcHHHHHHHHHHHHhCCCCCCceEEEEEC
Confidence 8777644321111111 1122333444444333 234443 44555667788888888875443 3444443
No 162
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=97.47 E-value=0.039 Score=54.03 Aligned_cols=206 Identities=10% Similarity=-0.025 Sum_probs=113.8
Q ss_pred CceEEEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCC-c
Q 008912 24 PEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQS-A 101 (549)
Q Consensus 24 ~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~-s 101 (549)
...-.||+++|.. ..+-.....+++.+.++ .|+.+.+. .+..++..-.+....++.+++++||-... .
T Consensus 59 ~~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~--------~g~~~~~~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~ 128 (328)
T PRK11303 59 GRTRSIGLIIPDLENTSYARIAKYLERQARQ--------RGYQLLIA--CSDDQPDNEMRCAEHLLQRQVDALIVSTSLP 128 (328)
T ss_pred CCCceEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEcCCCC
Confidence 3456899999853 22222233444444333 25666553 33334444444455566778888775322 2
Q ss_pred hHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHH
Q 008912 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTAL 179 (549)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l 179 (549)
.....+. .+...++|+|...... ....+++ +..++...+..+++.|...|-++|+++..... ......+.|
T Consensus 129 ~~~~~~~-~l~~~~iPvV~v~~~~---~~~~~~~---V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~~~R~~Gf 201 (328)
T PRK11303 129 PEHPFYQ-RLQNDGLPIIALDRAL---DREHFTS---VVSDDQDDAEMLAESLLKFPAESILLLGALPELSVSFEREQGF 201 (328)
T ss_pred CChHHHH-HHHhcCCCEEEECCCC---CCCCCCE---EEeCCHHHHHHHHHHHHHCCCCeEEEEeCccccccHHHHHHHH
Confidence 2222233 3346799999874321 1122232 34566666777888888889999999975432 334556788
Q ss_pred HHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 180 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
.+.+++.|+.+.... ... ....+-...++++.+. .++.|+. .+...+..+++++.+.|+..++-+-|
T Consensus 202 ~~al~~~g~~~~~~~--~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~A~g~~~al~~~g~~vP~disv 270 (328)
T PRK11303 202 RQALKDDPREVHYLY--ANS--FEREAGAQLFEKWLETHPMPDALFT-TSYTLLQGVLDVLLERPGELPSDLAI 270 (328)
T ss_pred HHHHHHcCCCceEEE--eCC--CChHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 888888887543221 111 1122223345554433 3455444 44456677888888988765544433
No 163
>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=97.47 E-value=0.02 Score=54.04 Aligned_cols=201 Identities=10% Similarity=0.017 Sum_probs=108.2
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
.||+++|... ..+...+...+++.-++. |+.+.+ .++..++..-.+....+.+++++++|--.+......+
T Consensus 1 ~i~vi~~~~~---~~~~~~~~~gi~~~~~~~----gy~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~~ 71 (265)
T cd06290 1 TIGVLTQDFA---SPFYGRILKGMERGLNGS----GYSPII--ATGHWNQSRELEALELLKSRRVDALILLGGDLPEEEI 71 (265)
T ss_pred CEEEEECCCC---CchHHHHHHHHHHHHHHC----CCEEEE--EeCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCChHHH
Confidence 3788887632 122333333343332222 455544 3444555544445556677788888743222222223
Q ss_pred HHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHHHHHhh
Q 008912 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLAE 185 (549)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~~~~~~ 185 (549)
..+ . .++|+|......+ +...+ .+..+....+..+++.+...|-++++++..+.. ......+.+.+.+.+
T Consensus 72 ~~~-~-~~iPvV~i~~~~~---~~~~~---~V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~ 143 (265)
T cd06290 72 LAL-A-EEIPVLAVGRRVP---GPGAA---SIAVDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALEE 143 (265)
T ss_pred HHH-h-cCCCEEEECCCcC---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHHH
Confidence 333 2 4899998754321 11122 244566777788888888789999999875422 233456677778877
Q ss_pred cCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHcCCCCCCe
Q 008912 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGY 248 (549)
Q Consensus 186 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~ 248 (549)
.|+.+.....+... .........++++.+.. .+.|+ +++...+..+++.+++.|+..++.
T Consensus 144 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~aii-~~~~~~a~~~~~~l~~~g~~ip~d 205 (265)
T cd06290 144 AGLEVQPDLIVQGD--FEEESGLEAVEELLQRGPDFTAIF-AANDQTAYGARLALYRRGLRVPED 205 (265)
T ss_pred cCCCCCHHHEEecC--CCHHHHHHHHHHHHcCCCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcc
Confidence 77653211111111 11222234455554332 45444 455566777888888888764443
No 164
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=97.46 E-value=0.021 Score=53.89 Aligned_cols=205 Identities=13% Similarity=0.053 Sum_probs=112.2
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
.||+++|.. ..+-.....++.-+.++. |+.+.+. ++..++..-......++..++++||-.........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~~--------g~~~~~~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~ 70 (265)
T cd06299 1 TIGVIVPDIRNPYFASLATAIQDAASAA--------GYSTIIG--NSDENPETENRYLDNLLSQRVDGIIVVPHEQSAEQ 70 (265)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHHHHc--------CCEEEEE--eCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCChHH
Confidence 488999863 333334455555555441 4444443 34445554445555667778988885333222233
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHHHHHh
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~~~~~ 184 (549)
...+...++|+|......+ ...++++ .......+..+++.+...|-++|+++..... ......+.|.+.++
T Consensus 71 -~~~l~~~~ipvV~~~~~~~---~~~~~~v---~~d~~~~~~~~~~~l~~~g~~~I~~i~~~~~~~~~~~R~~gf~~~~~ 143 (265)
T cd06299 71 -LEDLLKRGIPVVFVDREIT---GSPIPFV---TSDPQPGMTEAVSLLVALGHKKIGYISGPQDTSTGRERLEAFRQACA 143 (265)
T ss_pred -HHHHHhCCCCEEEEecccC---CCCCCEE---EECcHHHHHHHHHHHHHcCCCcEEEEeCCCCcccHHHHHHHHHHHHH
Confidence 3444567999998754321 2223333 2344445556667777778899999865432 23344567888888
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
+.|..+......... .........++++.+..++.|+ +.+...+..+++.+++.|+..++-+.|+
T Consensus 144 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~av~-~~~d~~a~gv~~al~~~g~~vp~dv~v~ 208 (265)
T cd06299 144 SLGLEVNEDLVVLGG--YSQESGYAGATKLLDQGATAII-AGDSMMTIGAIRAIHDAGLVIGEDISLI 208 (265)
T ss_pred HCCCCCChHhEEecC--cchHHHHHHHHHHHcCCCCEEE-EcCcHHHHHHHHHHHHhCCCCCcceeEE
Confidence 877532211111111 1122233445555444466544 4555567788888888887654444443
No 165
>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=97.46 E-value=0.026 Score=53.28 Aligned_cols=190 Identities=12% Similarity=0.043 Sum_probs=105.5
Q ss_pred EEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 29 VGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 29 IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
||+++|... ++-.....++.-+.++ .|+.+.+...+. +. ...+...+++.++++++|--.+..... .
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~--~~-~~~~~i~~~~~~~vdgiii~~~~~~~~-~ 69 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQA--------RGYQPLLINTDD--DE-DLDAALRQLLQYRVDGVIVTSGTLSSE-L 69 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHH--------CCCeEEEEcCCC--CH-HHHHHHHHHHHcCCCEEEEecCCCCHH-H
Confidence 788887642 2222233343333322 256666554443 22 333445566777898888533322222 2
Q ss_pred HHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHHHHHhh
Q 008912 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLAE 185 (549)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~~~~~~ 185 (549)
...+...++|+|......+ + +.+..+.++....+..+++.+...|-++++++..+.. ......+.|.+.+++
T Consensus 70 ~~~~~~~~ipvV~~~~~~~---~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~ 143 (266)
T cd06278 70 AEECRRNGIPVVLINRYVD---G---PGVDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGPADTSTSRERERGFRDALAA 143 (266)
T ss_pred HHHHhhcCCCEEEECCccC---C---CCCCEEEEChHHHHHHHHHHHHHCCCceEEEEcCCCcccchHHHHHHHHHHHHH
Confidence 4455667999999743221 1 1223456677888888999998889999999985433 334456778888888
Q ss_pred cCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHc
Q 008912 186 IRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRL 241 (549)
Q Consensus 186 ~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~ 241 (549)
.|..+.... .... ........+.++.+. .+++|+. .+...+..+++.+++.
T Consensus 144 ~~~~~~~~~-~~~~---~~~~~~~~~~~~l~~~~~~~~i~~-~~~~~a~~~~~~l~~~ 196 (266)
T cd06278 144 AGVPVVVEE-AGDY---SYEGGYEAARRLLASRPRPDAIFC-ANDLLAIGVMDAARQE 196 (266)
T ss_pred cCCChhhhc-cCCC---CHHHHHHHHHHHHhcCCCCCEEEE-cCcHHHHHHHHHHHHh
Confidence 877532211 1111 122233344444333 3454444 3444555677777664
No 166
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=97.45 E-value=0.13 Score=50.53 Aligned_cols=198 Identities=12% Similarity=-0.050 Sum_probs=102.6
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~ 105 (549)
+|+.+.... .++-.....+++-+.++ .|+++.+. ..+..+...-.+....++.+++.+|+- |.......
T Consensus 25 ~i~~v~k~~~~pf~~~~~~Gi~~aa~~--------~G~~v~~~-~~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~ 95 (336)
T PRK15408 25 RIAFIPKLVGVGFFTSGGNGAKEAGKE--------LGVDVTYD-GPTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLC 95 (336)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHH--------hCCEEEEE-CCCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHH
Confidence 788888654 23222334455444443 25666542 223445555566777888889988875 44444444
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccC-CcHHHHHHHHHHHHHc---CCcEEEEEEecCCc--ccchHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAP-NDLYLMSAIAEMVSYF---GWGEVIAIFNDDDQ--GRNGVTAL 179 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~p-s~~~~~~ai~~~l~~~---~W~~v~ii~~~~~~--g~~~~~~l 179 (549)
....-+...+||+|++.+..+. +. . .+-+.. ++...+..+++++.+. +-.+++++...... .....+.+
T Consensus 96 ~~l~~a~~~gIpVV~~d~~~~~--~~--~-~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g~ 170 (336)
T PRK15408 96 PALKRAMQRGVKVLTWDSDTKP--EC--R-SYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKEA 170 (336)
T ss_pred HHHHHHHHCCCeEEEeCCCCCC--cc--c-eEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHHH
Confidence 5555677789999997543211 11 1 122222 2345666666776552 34688888643221 12233455
Q ss_pred HHHHhhc--CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc-chHHHHHHHHHHHHcCC
Q 008912 180 GDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG-YSRTGLMVFDVAQRLGM 243 (549)
Q Consensus 180 ~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~-~~~~~~~il~~a~~~g~ 243 (549)
.+.+.+. ++++.... .. . .+...-....+.+-.+.+++=.+++ +...+.-.++++++.|.
T Consensus 171 ~~~l~~~~p~~~vv~~~-~~-~--~d~~~a~~~~~~lL~~~pdi~aI~~~~~~~~~Ga~~Al~~~g~ 233 (336)
T PRK15408 171 KAKIAKEHPGWEIVTTQ-FG-Y--NDATKSLQTAEGILKAYPDLDAIIAPDANALPAAAQAAENLKR 233 (336)
T ss_pred HHHHHhhCCCCEEEeec-CC-C--CcHHHHHHHHHHHHHHCCCCcEEEECCCccHHHHHHHHHhCCC
Confidence 5555432 45555322 11 1 1222223345554444444333333 33333457777777775
No 167
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=97.39 E-value=0.045 Score=53.57 Aligned_cols=209 Identities=9% Similarity=0.014 Sum_probs=113.0
Q ss_pred CCceEEEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCC
Q 008912 23 KPEVLNVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQS 100 (549)
Q Consensus 23 ~~~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~ 100 (549)
....-.||+++|... .+-.....+++-+.++ .|+.+.+ .++..++..-.+....+.+++++++|= |..
T Consensus 53 ~~~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~l~~~~vdGiI~~~~~ 122 (327)
T PRK10423 53 LNQTRTIGMLITASTNPFYSELVRGVERSCFE--------RGYSLVL--CNTEGDEQRMNRNLETLMQKRVDGLLLLCTE 122 (327)
T ss_pred hCCCCeEEEEeCCCCCCcHHHHHHHHHHHHHH--------cCCEEEE--EeCCCCHHHHHHHHHHHHHcCCCEEEEeCCC
Confidence 345568999998642 2222334444444443 2555544 344445554445555666778888774 222
Q ss_pred chHHHHHHHhhhh-cCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecC--CcccchHH
Q 008912 101 AVMAHVLSHLANE-LQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVT 177 (549)
Q Consensus 101 s~~~~~va~~~~~-~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~--~~g~~~~~ 177 (549)
.. ... ...+.. .++|+|...... ....++ .+......-+..+++.|...|-+++++|.... .......+
T Consensus 123 ~~-~~~-~~~l~~~~~iPvV~i~~~~---~~~~~~---~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~ 194 (327)
T PRK10423 123 TH-QPS-REIMQRYPSVPTVMMDWAP---FDGDSD---LIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPARLRLE 194 (327)
T ss_pred cc-hhh-HHHHHhcCCCCEEEECCcc---CCCCCC---EEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccchHHHHH
Confidence 11 111 122233 489999874321 111111 23344445577788888888999999996432 23345567
Q ss_pred HHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 178 ~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
.|.+.+++.|+.+.....+... .....-...++++.+.. ++. |++++...+..+++.+++.|+..++-+-|+
T Consensus 195 Gf~~al~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~A~g~~~~l~~~g~~vP~dvsvi 268 (327)
T PRK10423 195 GYRAAMKRAGLNIPDGYEVTGD--FEFNGGFDAMQQLLALPLRPQA-VFTGNDAMAVGVYQALYQAGLSVPQDIAVI 268 (327)
T ss_pred HHHHHHHHcCCCCCcceEEeCC--CChHHHHHHHHHHhcCCCCCCE-EEEcCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 8888888888654221111111 11122233445544332 344 444555666788999999987655444443
No 168
>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=97.38 E-value=0.096 Score=49.92 Aligned_cols=200 Identities=14% Similarity=0.023 Sum_probs=108.6
Q ss_pred EEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 008912 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~ 105 (549)
+||+++|... .+......+++-+.++ . |+.+ .+.+...++..-.+....++..++++||- +..+....
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~---~-----g~~v--~~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~ 70 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKA---L-----GYEL--ISTDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLV 70 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHH---c-----CCEE--EEEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchH
Confidence 5888888642 1112233344444443 1 4444 34455556665556666777788887774 33322222
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHH-cCCc--EEEEEEecC--CcccchHHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWG--EVIAIFNDD--DQGRNGVTALG 180 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~-~~W~--~v~ii~~~~--~~g~~~~~~l~ 180 (549)
.....+...++|+|.+....+ + ..+.+..+..+....++.+++.|.. .|-+ +++++..+. ..+....+.|+
T Consensus 71 ~~i~~~~~~~iPvV~~~~~~~---~-~~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 146 (282)
T cd06318 71 PAVAAAKAAGVPVVVVDSSIN---L-EAGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIILLSGDAGNLVGQARRDGFL 146 (282)
T ss_pred HHHHHHHHCCCCEEEecCCCC---C-CcCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEEEECCCCCchHhHHHHhHH
Confidence 333445678999998754211 1 0122345666777778888888765 6754 888887432 33455667788
Q ss_pred HHHhhcCeE------EEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCC
Q 008912 181 DKLAEIRCK------ISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 181 ~~~~~~g~~------v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~ 244 (549)
+.+++.|+. .......... ....+....+.++... .++.|+ +.+...+..+++.+++.|+.
T Consensus 147 ~~l~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~al~~~g~~ 215 (282)
T cd06318 147 LGVSEAQLRKYGKTNFTIVAQGYGD--WTREGGLKAMEDLLVAHPDINVVY-SENDDMALGAMRVLAEAGKT 215 (282)
T ss_pred HHHhhCcccccccCCeEEEecCCCC--CCHHHHHHHHHHHHHhCCCcCEEE-ECCcchHHHHHHHHHHcCCC
Confidence 888887642 1111101111 1122223344444322 344443 34445667788999998874
No 169
>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=97.36 E-value=0.035 Score=52.56 Aligned_cols=206 Identities=13% Similarity=0.079 Sum_probs=109.7
Q ss_pred EEEEEeccC------CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHh-cCcEEEEcCCC
Q 008912 28 NVGAIFSFG------TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFME-TDTLAIVGPQS 100 (549)
Q Consensus 28 ~IG~l~~~~------~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~-~~v~aiiGp~~ 100 (549)
.||+++|.. ..+......+++-+.++ .|+++.+. +.. ++..-.+...+++. +++.+||-...
T Consensus 1 ~igli~p~~~~~~~~~~~~~~~~~~~~~~~~~--------~g~~~~~~--~~~-~~~~~~~~~~~~~~~~~~dgiii~~~ 69 (270)
T cd06294 1 TIGVVLPPSADEAFQNPFFIEVLRGISAVANE--------NGYDISLA--TGK-NEEELLEEVKKMIQQKRVDGFILLYS 69 (270)
T ss_pred CEEEEeCCccccCcCCCCHHHHHHHHHHHHHH--------CCCEEEEe--cCC-CcHHHHHHHHHHHHHcCcCEEEEecC
Confidence 378888852 22222334444444444 25566543 332 23333455555554 46877665322
Q ss_pred chHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCc--ccchHHH
Q 008912 101 AVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ--GRNGVTA 178 (549)
Q Consensus 101 s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~--g~~~~~~ 178 (549)
... ......+...++|+|.+....+ . .+.+..+.......++.+++.+...|-++++++.....+ .....+.
T Consensus 70 ~~~-~~~~~~~~~~~ipvV~~~~~~~---~--~~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~g 143 (270)
T cd06294 70 RED-DPIIDYLKEEKFPFVVIGKPED---D--KENITYVDNDNIQAGYDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQG 143 (270)
T ss_pred cCC-cHHHHHHHhcCCCEEEECCCCC---C--CCCCCeEEECcHHHHHHHHHHHHHcCCccEEEecCCcccHHHHHHHHH
Confidence 212 2223345667999998753221 1 011223445666677788888888899999999754332 2335677
Q ss_pred HHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHcCCCCCCe-EEEEe
Q 008912 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGY-VWIAT 253 (549)
Q Consensus 179 l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~-~~i~~ 253 (549)
|.+.+++.|+.+......... .........+.++.++. +++|+. .+...+..+++.+++.|+..++- ..++.
T Consensus 144 f~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al~~~g~~iP~dv~vig~ 218 (270)
T cd06294 144 YKQALEDHGIPDRNEVIISLD--FSEEGGYKALKKLLEQHPRPTAIVA-TDDLLALGVLKVLNELGLKVPEDLSIIGF 218 (270)
T ss_pred HHHHHHHcCCCCCcceEEecC--CchHHHHHHHHHHHhCCCCCCEEEE-CChHHHHHHHHHHHHcCCCCCcceEEEee
Confidence 888888887532111111111 11223344555544333 444443 45567778888989988764443 34433
No 170
>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=97.36 E-value=0.049 Score=53.33 Aligned_cols=208 Identities=7% Similarity=-0.022 Sum_probs=113.6
Q ss_pred CceEEEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCc
Q 008912 24 PEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSA 101 (549)
Q Consensus 24 ~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s 101 (549)
...-.||+++|.. ..+......+++-+.++ .|+.+.+. +...++..-.+....+..++++++|- |...
T Consensus 58 ~~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~--------~gy~~~i~--~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~ 127 (327)
T TIGR02417 58 GRSRTIGLVIPDLENYSYARIAKELEQQCRE--------AGYQLLIA--CSDDNPDQEKVVIENLLARQVDALIVASCMP 127 (327)
T ss_pred CCCceEEEEeCCCCCccHHHHHHHHHHHHHH--------CCCEEEEE--eCCCCHHHHHHHHHHHHHcCCCEEEEeCCCC
Confidence 3457899999853 22222333343333332 25666543 33334544444555566778888764 3322
Q ss_pred hHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHH
Q 008912 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTAL 179 (549)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l 179 (549)
.....+ ..+...++|+|......+ +..+++ +.+.+..-+..+++.|...|-++++++..... ......+.|
T Consensus 128 ~~~~~~-~~l~~~~iPvV~~~~~~~---~~~~~~---V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf 200 (327)
T TIGR02417 128 PEDAYY-QKLQNEGLPVVALDRSLD---DEHFCS---VISDDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGF 200 (327)
T ss_pred CChHHH-HHHHhcCCCEEEEccccC---CCCCCE---EEeCcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHH
Confidence 122333 334567999998753221 112232 34556666677778888889999999975432 234456778
Q ss_pred HHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC---CCeEEEEEcchHHHHHHHHHHHHcCCCCCC-eEEEEeC
Q 008912 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGMMDSG-YVWIATT 254 (549)
Q Consensus 180 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~il~~a~~~g~~~~~-~~~i~~~ 254 (549)
.+.+++.|+.+..... . . .....-...++++.+. .++.|+. .+...+..+++.+++.| ..++ ...++.+
T Consensus 201 ~~al~~~~~~~~~~~~-~-~--~~~~~~~~~~~~ll~~~~~~~~Ai~~-~~D~~A~g~~~al~~~g-~vP~dvsvigfd 273 (327)
T TIGR02417 201 RQALKQATLEVEWVYG-G-N--YSRESGYQMFAKLCARLGRLPQALFT-TSYTLLEGVLDYMLERP-LLDSQLHLATFG 273 (327)
T ss_pred HHHHHHcCCChHhEEe-C-C--CChHHHHHHHHHHHhcCCCCCcEEEE-cCcHHHHHHHHHHHHcC-CCCCcceEEEEC
Confidence 8888888864321111 1 1 1122223445555432 2455444 44556777889999988 5553 3444443
No 171
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=97.36 E-value=0.00038 Score=63.12 Aligned_cols=73 Identities=18% Similarity=0.376 Sum_probs=59.5
Q ss_pred eEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecceE
Q 008912 463 QLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKKVA 542 (549)
Q Consensus 463 ~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~~t 542 (549)
+|+|++.. .+.|+.... .++...||++|+++.+.+.+|++ +++... .|+.++..|.+|++|++++...
T Consensus 1 ~l~v~~~~--~~~p~~~~~-~~g~~~G~~~~~~~~~~~~~g~~--~~~~~~-------~~~~~~~~l~~g~~D~~~~~~~ 68 (219)
T smart00062 1 TLRVGTNG--DYPPFSFAD-EDGELTGFDVDLAKAIAKELGLK--VEFVEV-------SFDNLLTALKSGKIDVVAAGMT 68 (219)
T ss_pred CEEEEecC--CCCCcEEEC-CCCCcccchHHHHHHHHHHhCCe--EEEEec-------cHHHHHHHHHCCcccEEecccc
Confidence 36777742 556665543 35669999999999999999988 999888 8999999999999999998776
Q ss_pred Eeecc
Q 008912 543 QLTRV 547 (549)
Q Consensus 543 i~~~r 547 (549)
.+.+|
T Consensus 69 ~~~~~ 73 (219)
T smart00062 69 ITPER 73 (219)
T ss_pred CCHHH
Confidence 66655
No 172
>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=97.33 E-value=0.059 Score=51.08 Aligned_cols=207 Identities=14% Similarity=0.073 Sum_probs=115.1
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCC-ch--
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQS-AV-- 102 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~-s~-- 102 (549)
.||+++|.. ..+-.....+++-+.++ . |+.+.+ .++..++..-.+....++.++++++|= +.. ..
T Consensus 1 ~Igvi~~~~~~~~~~~~~~gi~~~~~~----~----g~~~~~--~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~ 70 (273)
T cd06292 1 LVGLLVPELSNPIFPAFAEAIEAALAQ----Y----GYTVLL--CNTYRGGVSEADYVEDLLARGVRGVVFISSLHADTH 70 (273)
T ss_pred CEEEEeCCCcCchHHHHHHHHHHHHHH----C----CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCccc
Confidence 378999864 22222334444444444 2 556543 444455555556667777788888774 222 11
Q ss_pred HHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHH
Q 008912 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALG 180 (549)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~ 180 (549)
........+...++|+|.+....+. ...++ .+..+....+..+++.|...|-++++++..... ......+.|.
T Consensus 71 ~~~~~i~~~~~~~ipvV~i~~~~~~--~~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~ 145 (273)
T cd06292 71 ADHSHYERLAERGLPVVLVNGRAPP--PLKVP---HVSTDDALAMRLAVRHLVALGHRRIGFASGPGRTVPRRRKIAGFR 145 (273)
T ss_pred chhHHHHHHHhCCCCEEEEcCCCCC--CCCCC---EEEECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHH
Confidence 1112223345679999997543221 01223 244567778888889988889999998875432 2344567788
Q ss_pred HHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 181 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
+.++++|+........... .+.......++++....+++|+ +.+...+..+++..++.|+..++-+-|.
T Consensus 146 ~~~~~~~~~~~~~~i~~~~--~~~~~~~~~~~~~l~~~~~ai~-~~~d~~a~g~~~~l~~~g~~ip~di~ii 214 (273)
T cd06292 146 AALEEAGLEPPEALVARGM--FSVEGGQAAAVELLGSGPTAIV-AASDLMALGAIRAARRRGLRVPEDVSVV 214 (273)
T ss_pred HHHHHcCCCCChhheEeCC--CCHHHHHHHHHHHhcCCCCEEE-EcCcHHHHHHHHHHHHcCCCCCcceEEE
Confidence 8888887532110001111 1122233444554433466544 4455566678888888887655444444
No 173
>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=97.33 E-value=0.052 Score=51.33 Aligned_cols=197 Identities=10% Similarity=0.011 Sum_probs=104.6
Q ss_pred EEEEeccC----CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 008912 29 VGAIFSFG----TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (549)
Q Consensus 29 IG~l~~~~----~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~ 104 (549)
||+++|.. ..+-.....+++-+.++ .|+++.+...|. +...-......+...++++||-......
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~--------~g~~~~~~~~~~--~~~~~~~~~~~l~~~~vdgiii~~~~~~- 70 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKK--------YGYNLILKFVSD--EDEEEFELPSFLEDGKVDGIILLGGIST- 70 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHH--------cCCEEEEEeCCC--ChHHHHHHHHHHHHCCCCEEEEeCCCCh-
Confidence 78888872 22222333344333333 256776665543 2222222233355678988885332222
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHHHH
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDK 182 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~~~ 182 (549)
.....+...++|+|......+ +...++ +..+....++..++.+...|.++++++..+.. ......+.|.+.
T Consensus 71 -~~~~~l~~~~ipvV~~~~~~~---~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~ 143 (268)
T cd06277 71 -EYIKEIKELGIPFVLVDHYIP---NEKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDPLYSPSFEERYEGYKKA 143 (268)
T ss_pred -HHHHHHhhcCCCEEEEccCCC---CCCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCCCCCcchHHHHHHHHHH
Confidence 224445667999998743322 112233 33455556677778888889999999975543 223455678888
Q ss_pred HhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCCCCC
Q 008912 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGMMDS 246 (549)
Q Consensus 183 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~~~~ 246 (549)
+++.|+.+......... ......+...++++. ..++. |++.+...+..+++.+.+.|+..+
T Consensus 144 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~-~~~~a-i~~~~d~~a~g~~~a~~~~g~~~p 204 (268)
T cd06277 144 LLDHGIPFNEDYDITEK-EEDEEDIGKFIDELK-PLPTA-FFCSNDGVAFLLIKVLKEMGIRVP 204 (268)
T ss_pred HHHcCCCCCcceEEEcc-hhHHHHHHHHHhcCC-CCCCE-EEECCcHHHHHHHHHHHHcCCCCC
Confidence 88887654321111100 011223333333322 12454 444455566777888888887543
No 174
>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=97.32 E-value=0.14 Score=48.44 Aligned_cols=204 Identities=9% Similarity=0.095 Sum_probs=106.3
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchH-HH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVM-AH 105 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~-~~ 105 (549)
+||+++....++-.....++.-+.++ .|+.+.+.. ++..+...-.+....+++.+|+++|= |..... ..
T Consensus 1 ~i~~v~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~-~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 71 (271)
T cd06314 1 TIAVVTNGASPFWKIAEAGVKAAGKE--------LGVDVEFVV-PQQGTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIP 71 (271)
T ss_pred CeEEEcCCCcHHHHHHHHHHHHHHHH--------cCCeEEEeC-CCCCCHHHHHHHHHHHHhcCCCEEEEecCChhHhHH
Confidence 47877755432222223333333333 245555442 23335555555666677778988874 433222 23
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecCC--cccchHHHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD--QGRNGVTALGD 181 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~--~g~~~~~~l~~ 181 (549)
.+..+ .. ++|+|......+ +. +.+..+.......++.+++.+... +-.+++++..... ......+.+.+
T Consensus 72 ~l~~~-~~-~ipvV~~~~~~~---~~--~~~~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~ 144 (271)
T cd06314 72 ALNKA-AA-GIKLITTDSDAP---DS--GRYVYIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKD 144 (271)
T ss_pred HHHHH-hc-CCCEEEecCCCC---cc--ceeEEEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHH
Confidence 34444 45 999999743211 11 112234556666778888887664 3446666664322 23455677888
Q ss_pred HHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEe
Q 008912 182 KLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (549)
Q Consensus 182 ~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (549)
.+++.|+.+.... .. . ....+....++++-+. .++.|+. .+...+..++..+++.|+. .+...++.
T Consensus 145 ~~~~~~~~~~~~~-~~-~--~~~~~~~~~~~~~l~~~~~~~~i~~-~~d~~a~~~~~al~~~g~~-~di~vig~ 212 (271)
T cd06314 145 AIKDSKIEIVDTR-GD-E--EDFAKAKSNAEDALNAHPDLKCMFG-LYAYNGPAIAEAVKAAGKL-GKVKIVGF 212 (271)
T ss_pred HHhcCCcEEEEEe-cC-c--cCHHHHHHHHHHHHHhCCCccEEEe-cCCccHHHHHHHHHHcCCC-CceEEEEe
Confidence 8888888765421 11 1 1122333445555333 2355443 3334445577788888875 34334433
No 175
>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=97.31 E-value=0.00054 Score=62.18 Aligned_cols=72 Identities=18% Similarity=0.399 Sum_probs=58.8
Q ss_pred EEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecceEEe
Q 008912 465 RIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKKVAQL 544 (549)
Q Consensus 465 ~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~~ti~ 544 (549)
+|++.. .++|+... .+++.+.|+++|+++.+++.++.+ ++++.. .|..+...|.+|++|++++..+.+
T Consensus 2 ~i~~~~--~~~p~~~~-~~~g~~~G~~~~~~~~~~~~~g~~--~~~~~~-------~~~~~~~~l~~g~~D~~~~~~~~~ 69 (218)
T cd00134 2 TVGTAG--TYPPFSFR-DANGELTGFDVDLAKAIAKELGVK--VKFVEV-------DWDGLITALKSGKVDLIAAGMTIT 69 (218)
T ss_pred EEecCC--CCCCeeEE-CCCCCEEeeeHHHHHHHHHHhCCe--EEEEeC-------CHHHHHHHHhcCCcCEEeecCcCC
Confidence 455543 44566554 356789999999999999999988 999999 799999999999999999887777
Q ss_pred eccc
Q 008912 545 TRVS 548 (549)
Q Consensus 545 ~~r~ 548 (549)
++|+
T Consensus 70 ~~~~ 73 (218)
T cd00134 70 PERA 73 (218)
T ss_pred HHHH
Confidence 7664
No 176
>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=97.28 E-value=0.036 Score=52.13 Aligned_cols=198 Identities=10% Similarity=0.035 Sum_probs=112.8
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
.||+++|.. ..+......+++.+.++ .|+.+.+. ++..++....+....+...++.++|=..+......
T Consensus 1 ~i~~i~~~~~~~~~~~i~~gi~~~~~~--------~g~~~~~~--~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~ 70 (260)
T cd06286 1 TIGVVLPYINHPYFSQLVDGIEKAALK--------HGYKVVLL--QTNYDKEKELEYLELLKTKQVDGLILCSRENDWEV 70 (260)
T ss_pred CEEEEeCCCCCchHHHHHHHHHHHHHH--------cCCEEEEE--eCCCChHHHHHHHHHHHHcCCCEEEEeCCCCCHHH
Confidence 378888863 33333445565555554 15666543 44455555555566667778887774322222334
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecC--CcccchHHHHHHHHh
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLA 184 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~--~~g~~~~~~l~~~~~ 184 (549)
+..+.+ .+ |++......+ ...+ .+.++....+..+++.+...|-++++++..+. .......+.|.+.++
T Consensus 71 ~~~~~~-~~-pvv~~~~~~~----~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~ 141 (260)
T cd06286 71 IEPYTK-YG-PIVLCEEYDS----KNIS---SVYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDALE 141 (260)
T ss_pred HHHHhc-CC-CEEEEecccC----CCCC---EEEECChHHHHHHHHHHHHCCCceEEEEcCCcccchhHHHHHHHHHHHH
Confidence 444443 34 8887642211 1123 34556777788888988888999999997543 233445677888888
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCC
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~ 247 (549)
+.|+.+.....+... ....+-...++++.+. .++.| ++++...+..+++.++++|+..++
T Consensus 142 ~~~~~~~~~~i~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~a~~~~~~l~~~g~~ip~ 203 (260)
T cd06286 142 EYGLTPDEEWIFEGC--FTIEDGERIGHQLLKMKDRPDAI-FTGSDEVAAGIITEAKKQGIRVPE 203 (260)
T ss_pred HcCCCCChHheEeCC--CCHHHHHHHHHHHHcCCCCCCEE-EEcchHHHHHHHHHHHHcCCCCCc
Confidence 887654221111111 1122334455555433 34544 455566677889999998875443
No 177
>cd06280 PBP1_LacI_like_4 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=97.28 E-value=0.062 Score=50.69 Aligned_cols=200 Identities=13% Similarity=0.082 Sum_probs=111.9
Q ss_pred EEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 008912 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~ 105 (549)
.||+++|... .+-.....++..++++ .|+++.+ .+...++..-.+....+..++++++|= |......
T Consensus 1 ~Ig~i~p~~~~~~~~~~~~~i~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~- 69 (263)
T cd06280 1 TVGLIVADIRNPFFTAVSRAVEDAAYR--------AGLRVIL--CNTDEDPEKEAMYLELMEEERVTGVIFAPTRATLR- 69 (263)
T ss_pred CEEEEecccccccHHHHHHHHHHHHHH--------CCCEEEE--EeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCCch-
Confidence 3889998753 2223344555555554 2566644 344445544444445566667877664 3222221
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC-cccchHHHHHHHHh
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QGRNGVTALGDKLA 184 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~-~g~~~~~~l~~~~~ 184 (549)
... +...++|+|......+ ...++++ ..+....+..+++.|...|-++++++..... ......+.+.+.++
T Consensus 70 -~~~-~~~~~iPvV~~~~~~~---~~~~~~v---~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~ 141 (263)
T cd06280 70 -RLA-ELRLSFPVVLIDRAGP---AGRVDAV---VLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMR 141 (263)
T ss_pred -HHH-HHhcCCCEEEECCCCC---CCCCCEE---EECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHH
Confidence 222 3456899998754322 2233432 3466667888888888889999999875322 22344677788888
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
+.|+..... .... ........++++... .+++ |++.+...+..+++.+++.|+..++-+.|.
T Consensus 142 ~~~~~~~~~-~~~~----~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~~p~di~ii 205 (263)
T cd06280 142 RHGLAPDAR-FVAP----TAEAAEAALAAWLAAPERPEA-LVASNGLLLLGALRAVRAAGLRIPQDLALA 205 (263)
T ss_pred HcCCCCChh-hccc----CHHHHHHHHHHHhcCCCCCcE-EEECCcHHHHHHHHHHHHcCCCCCCcEEEE
Confidence 877653221 1111 122223344444333 3444 444556667788999999997655444443
No 178
>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=97.27 E-value=0.072 Score=50.57 Aligned_cols=180 Identities=11% Similarity=0.107 Sum_probs=106.8
Q ss_pred CceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccC
Q 008912 63 GRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAP 141 (549)
Q Consensus 63 g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~p 141 (549)
|+.+.+ .++..++..-.+....++.+++.+||= |..+.........+...++|+|.+....+ +...+.+..+.+
T Consensus 29 G~~~~~--~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~---~~~~~~~~~v~~ 103 (272)
T cd06313 29 GVDVTW--YGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTLIA---PLQINVHSFLAP 103 (272)
T ss_pred CCEEEE--ecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCCCC---CCCCceEEEECC
Confidence 555554 455557777777777888888887775 43333333333445567999999754321 111122344667
Q ss_pred CcHHHHHHHHHHHHHc--CCcEEEEEEecCC--cccchHHHHHHHHhhcC-eEEEEEEccCCCCCCChhhHHHHHHHHhc
Q 008912 142 NDLYLMSAIAEMVSYF--GWGEVIAIFNDDD--QGRNGVTALGDKLAEIR-CKISYKSALPPDQSVTETDVRNELVKVRM 216 (549)
Q Consensus 142 s~~~~~~ai~~~l~~~--~W~~v~ii~~~~~--~g~~~~~~l~~~~~~~g-~~v~~~~~~~~~~~~~~~~~~~~l~~l~~ 216 (549)
.....+..+++.|... |.++++++..+.. ......+.|.+.+++.+ +++... .... .........++++.+
T Consensus 104 d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~l~ 179 (272)
T cd06313 104 DNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPAN--WDVSKAARIWETWLT 179 (272)
T ss_pred CcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCCC--CCHHHHHHHHHHHHH
Confidence 7787888899988777 8899999975432 23345778888888775 554331 1111 122333445555443
Q ss_pred CC--CeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 008912 217 ME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (549)
Q Consensus 217 ~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (549)
.. +++ |++.+...+..+++.+++.|+ .+...++.+
T Consensus 180 ~~~~~~a-i~~~nd~~a~g~~~al~~~g~--~di~vvgfd 216 (272)
T cd06313 180 KYPQLDG-AFCHNDSMALAAYQIMKAAGR--TKIVIGGVD 216 (272)
T ss_pred hCCCCCE-EEECCCcHHHHHHHHHHHcCC--CceEEEeec
Confidence 33 344 344555566778888888887 444444333
No 179
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.26 E-value=0.00058 Score=79.43 Aligned_cols=75 Identities=11% Similarity=0.006 Sum_probs=61.5
Q ss_pred CeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecce
Q 008912 462 RQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKKV 541 (549)
Q Consensus 462 ~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~~ 541 (549)
++++|++.. .|+||.+.+ .++.+.||.+|++++|++.+|++ |+++.. ..|..+...|.+|++|++. ++
T Consensus 302 ~~l~v~~~~--~~pP~~~~d-~~g~~~G~~~Dll~~i~~~~g~~--~~~v~~------~~~~~~~~~l~~g~~D~i~-~~ 369 (1197)
T PRK09959 302 PDLKVLENP--YSPPYSMTD-ENGSVRGVMGDILNIITLQTGLN--FSPITV------SHNIHAGTQLNPGGWDIIP-GA 369 (1197)
T ss_pred CceEEEcCC--CCCCeeEEC-CCCcEeeehHHHHHHHHHHHCCe--EEEEec------CCHHHHHHHHHCCCceEee-cc
Confidence 568887643 678888765 46789999999999999999999 999887 2466777889999999865 56
Q ss_pred EEeeccc
Q 008912 542 AQLTRVS 548 (549)
Q Consensus 542 ti~~~r~ 548 (549)
+.|++|.
T Consensus 370 ~~t~~r~ 376 (1197)
T PRK09959 370 IYSEDRE 376 (1197)
T ss_pred cCCcccc
Confidence 7898886
No 180
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=97.25 E-value=0.059 Score=53.19 Aligned_cols=208 Identities=13% Similarity=0.061 Sum_probs=111.0
Q ss_pred CCceEEEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCc
Q 008912 23 KPEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA 101 (549)
Q Consensus 23 ~~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s 101 (549)
....-.||+++|.- ..+-.....+++.+.++ . |+.+ .+.+...++..-.+....++.++++++|-....
T Consensus 56 ~~~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~---~-----g~~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~ 125 (343)
T PRK10727 56 QQSTETVGLVVGDVSDPFFGAMVKAVEQVAYH---T-----GNFL--LIGNGYHNEQKERQAIEQLIRHRCAALVVHAKM 125 (343)
T ss_pred hCCCCeEEEEeCCCCcchHHHHHHHHHHHHHH---c-----CCEE--EEEeCCCCHHHHHHHHHHHHhcCCCEEEEecCC
Confidence 34567899999852 22222233333333332 2 4444 334444455444455556677788887742221
Q ss_pred hHHHHHHHhhhhcCCc-EEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHH
Q 008912 102 VMAHVLSHLANELQVP-LLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTA 178 (549)
Q Consensus 102 ~~~~~va~~~~~~~iP-~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~ 178 (549)
.....+..+.. ++| +|......+ +...++ +.+.+..-+..+++.|...|-+++++|..... ......+.
T Consensus 126 ~~~~~~~~~~~--~~p~vV~i~~~~~---~~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~G 197 (343)
T PRK10727 126 IPDAELASLMK--QIPGMVLINRILP---GFENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQG 197 (343)
T ss_pred CChHHHHHHHh--cCCCEEEEecCCC---CCCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHH
Confidence 11223334333 677 676532211 111222 34556666777778888889999999975432 23455678
Q ss_pred HHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 179 l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
|.+.+++.|+.+......... .....-...++++.+.. ++.| ++.+...+..+++.++++|+..++-+-|
T Consensus 198 f~~al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~nD~~A~g~~~al~~~G~~vP~disV 269 (343)
T PRK10727 198 YYDALAESGIPANDRLVTFGE--PDESGGEQAMTELLGRGRNFTAV-ACYNDSMAAGAMGVLNDNGIDVPGEISL 269 (343)
T ss_pred HHHHHHHCCCCCChhhEEeCC--CChhHHHHHHHHHHhCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCcceeE
Confidence 888898888754221111111 11112223445543333 4444 4455566778899999999865544443
No 181
>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=97.24 E-value=0.19 Score=47.73 Aligned_cols=210 Identities=12% Similarity=0.058 Sum_probs=108.8
Q ss_pred EEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 008912 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~ 105 (549)
+||++.|... .+-.....++.-+.++.+.. ...+.....+ ..++..-.+....+.. +++++|- +.......
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~-----~~~~~~~~~~-~~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~ 73 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDA-----RIRVRIHFVE-SFDPAALAAALLRLGA-RSDGVALVAPDHPQVR 73 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhcc-----CceEEEEEcc-CCCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHH
Confidence 5888887642 22223344444444442211 1233333322 2345444445555556 8887763 43333322
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc-CC--cEEEEEEecCC--cccchHHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-GW--GEVIAIFNDDD--QGRNGVTALG 180 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~-~W--~~v~ii~~~~~--~g~~~~~~l~ 180 (549)
.....+...++|+|.+....+. ... +..+.......+...+++|.+. |. ++++++..... ......+.|.
T Consensus 74 ~~i~~~~~~~ipvV~~~~~~~~--~~~---~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~ 148 (275)
T cd06307 74 AAVARLAAAGVPVVTLVSDLPG--SPR---AGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFR 148 (275)
T ss_pred HHHHHHHHCCCcEEEEeCCCCC--Cce---eeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHH
Confidence 3334555689999987432211 111 2234555666677777777665 54 69998875432 2334567788
Q ss_pred HHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhc--CCCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 008912 181 DKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (549)
Q Consensus 181 ~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (549)
+.+++.+..+......... .+..+....++++.+ ..++.|+...+. +..+++.+++.|+. .+...++.+
T Consensus 149 ~a~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~--~~g~~~al~~~g~~-~di~Ivg~d 219 (275)
T cd06307 149 SVLREEFPGLRVLETLEGL--DDPARAYEATRKLLARHPDLVGIYNAGGG--NRGVIRALREAGRA-GKVVFVGHE 219 (275)
T ss_pred HHHHhhCCCcEEEeeccCC--CChHHHHHHHHHHHHhCCCceEEEECCCC--hHHHHHHHHHcCCC-CCcEEEEec
Confidence 8888776544332222211 122233345555432 245566555443 36788899998874 344444443
No 182
>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=0.068 Score=50.40 Aligned_cols=194 Identities=13% Similarity=0.073 Sum_probs=106.3
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~ 105 (549)
.||++.|.- ..+-.....+++-+.++ .|+++.+ .++..++..-.+....+...++.++|- +....
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~--- 67 (265)
T cd06291 1 LIGLIVPTISNPFFSELARAVEKELYK--------KGYKLIL--CNSDNDPEKEREYLEMLRQNQVDGIIAGTHNLG--- 67 (265)
T ss_pred CEEEEECCCCChhHHHHHHHHHHHHHH--------CCCeEEE--ecCCccHHHHHHHHHHHHHcCCCEEEEecCCcC---
Confidence 378888753 32222333444333333 2455543 444445554445555566668887774 32222
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC---cccchHHHHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD---QGRNGVTALGDK 182 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~---~g~~~~~~l~~~ 182 (549)
.. .+...++|+|......+ ..+++ +.++....+..+++.|...|.++++++..... ......+.|.+.
T Consensus 68 -~~-~~~~~gipvv~~~~~~~----~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~ 138 (265)
T cd06291 68 -IE-EYENIDLPIVSFDRYLS----ENIPI---VSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDV 138 (265)
T ss_pred -HH-HHhcCCCCEEEEeCCCC----CCCCe---EeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHH
Confidence 12 33467999998754322 12232 44555667788888888889999999874332 234556778888
Q ss_pred HhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHcCCCCCC
Q 008912 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSG 247 (549)
Q Consensus 183 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~ 247 (549)
+++.|+.+.... .... .........+.++.+.. .+.|+ +++...+..+++.+.+.|...++
T Consensus 139 l~~~~~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~~~~~al~~~g~~vp~ 201 (265)
T cd06291 139 LKENGLEVRIIE-IQEN--FDDAEKKEEIKELLEEYPDIDGIF-ASNDLTAILVLKEAQQRGIRVPE 201 (265)
T ss_pred HHHcCCCCChhe-eecc--ccchHHHHHHHHHHhCCCCCCEEE-ECChHHHHHHHHHHHHcCCCCCc
Confidence 888876543211 1111 11111233444443332 34443 34455667788888888875444
No 183
>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=97.19 E-value=0.061 Score=51.00 Aligned_cols=207 Identities=14% Similarity=0.143 Sum_probs=115.4
Q ss_pred EEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchH---H
Q 008912 29 VGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVM---A 104 (549)
Q Consensus 29 IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~---~ 104 (549)
||+++|... ..+...+...+++.-++. |+.+. +.++..++....+....++..+|+++|= |..+.. .
T Consensus 2 igvv~~~~~---~~~~~~~~~gi~~~~~~~----g~~~~--~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~ 72 (273)
T cd01541 2 IGVITTYIS---DYIFPSIIRGIESVLSEK----GYSLL--LASTNNDPERERKCLENMLSQGIDGLIIEPTKSALPNPN 72 (273)
T ss_pred eEEEeCCcc---chhHHHHHHHHHHHHHHc----CCEEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecccccccccc
Confidence 788887532 122333333344333332 45553 4455566766667777888889988873 332211 1
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC-cccchHHHHHHHH
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QGRNGVTALGDKL 183 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~-~g~~~~~~l~~~~ 183 (549)
......+...++|+|......+ +.. +..+..+....+..+++.+...|.++++++...+. .+....+.+.+.+
T Consensus 73 ~~~~~~~~~~~ipvV~~~~~~~---~~~---~~~V~~D~~~~g~~~~~~l~~~G~~~i~~l~~~~~~~~~~r~~g~~~~l 146 (273)
T cd01541 73 IDLYLKLEKLGIPYVFINASYE---ELN---FPSLVLDDEKGGYKATEYLIELGHRKIAGIFKADDLQGVKRMKGFIKAY 146 (273)
T ss_pred HHHHHHHHHCCCCEEEEecCCC---CCC---CCEEEECcHHHHHHHHHHHHHcCCcCEEEecCCCcccHHHHHHHHHHHH
Confidence 1222334667999998753321 111 22355667777888889888889999998874332 2334456677778
Q ss_pred hhcCeEEEEE--EccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEe
Q 008912 184 AEIRCKISYK--SALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (549)
Q Consensus 184 ~~~g~~v~~~--~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (549)
++.|..+... ...... .........++++.+. .+++| ++.+...+..+++.+++.|+..++-+-|.+
T Consensus 147 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~av-~~~~d~~a~g~~~al~~~g~~~p~dv~vvg 217 (273)
T cd01541 147 REHGIPFNPSNVITYTTE--EKEEKLFEKIKEILKRPERPTAI-VCYNDEIALRVIDLLKELGLKIPEDISVVG 217 (273)
T ss_pred HHcCCCCChHHEEecccc--chhhHHHHHHHHHHcCCCCCCEE-EEcCcHHHHHHHHHHHHcCCCCCCcEEEEE
Confidence 7777643211 111111 1112334455555433 34544 445556666788889998976555444443
No 184
>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=97.18 E-value=0.059 Score=50.73 Aligned_cols=199 Identities=14% Similarity=0.092 Sum_probs=107.1
Q ss_pred EEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
.||+++|... .+......+++-+.++ .|+.+.+...+ +.. .....+...++.++|-.........
T Consensus 1 ~igvv~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~~~~~---~~~---~~~~~l~~~~vdgii~~~~~~~~~~ 66 (261)
T cd06272 1 TIGLIWPSVSRVALTELVTGINQAISK--------NGYNMNVSITP---SLA---EAEDLFKENRFDGVIIFGESASDVE 66 (261)
T ss_pred CEEEEecCCCchhHHHHHHHHHHHHHH--------cCCEEEEEecc---cHH---HHHHHHHHcCcCEEEEeCCCCChHH
Confidence 3788998642 2222233344333332 25566665433 222 2233455668887774222222222
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHHHHHHh
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTALGDKLA 184 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l~~~~~ 184 (549)
+ ..+...++|+|......+ ..+++ +.......+..+++.+...|-++++++..... ........+.+.++
T Consensus 67 ~-~~~~~~~ipvV~~~~~~~----~~~~~---V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 138 (261)
T cd06272 67 Y-LYKIKLAIPVVSYGVDYD----LKYPI---VNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCD 138 (261)
T ss_pred H-HHHHHcCCCEEEEcccCC----CCCCE---EEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHH
Confidence 2 444578899998743222 12232 44566677788889888889999999975433 22344567788888
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
+.|+.+......... .........+.++.+.. +++ |++++...+..+++.+++.|+..++-+-+
T Consensus 139 ~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~~~~~~l~~~g~~vp~dv~v 204 (261)
T cd06272 139 ENGISISDSHIDVDG--LSAEGGDNAAKKLLKESDLPTA-IICGSYDIALGVLSALNKQGISIPEDIEI 204 (261)
T ss_pred HcCCCCCHHHeeeCC--CCHHHHHHHHHHHHcCCCCCCE-EEECCcHHHHHHHHHHHHhCCCCCCceEE
Confidence 887532211111111 11223334455544333 344 44455556777888888888764443433
No 185
>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=97.18 E-value=0.034 Score=53.51 Aligned_cols=185 Identities=10% Similarity=0.082 Sum_probs=104.2
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
+||++-..+.+.-.....|++-++++. + +.. ..+++.+.+..+++....+.+.++...+++.|+-- .+..+..+
T Consensus 1 ~v~i~~~~~~~~~~~~~~gf~~~L~~~---g-~~~-~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~~-gt~aa~~~ 74 (294)
T PF04392_consen 1 KVGILQFISHPALDDIVRGFKDGLKEL---G-YDE-KNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIAI-GTPAAQAL 74 (294)
T ss_dssp EEEEEESS--HHHHHHHHHHHHHHHHT---T---C-CCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEEE-SHHHHHHH
T ss_pred CeEEEEEeccHHHHHHHHHHHHHHHHc---C-Ccc-ccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEEe-CcHHHHHH
Confidence 577777776433234456666555543 2 223 56788888888998887777777777777777753 23444555
Q ss_pred HHhhhhcCCcEEecccCCCCCCC----CCC--CceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecCCc-ccchHHH
Q 008912 108 SHLANELQVPLLSFTALDPTLSP----LQY--PFFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDDQ-GRNGVTA 178 (549)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~----~~~--~~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~~-g~~~~~~ 178 (549)
....... +|+|-.+.++|...+ ... .++.-+. +......-+++++++ +-++++++|+++.- +....+.
T Consensus 75 ~~~~~~~-iPVVf~~V~dp~~~~l~~~~~~~~~nvTGv~--~~~~~~~~l~l~~~l~P~~k~igvl~~~~~~~~~~~~~~ 151 (294)
T PF04392_consen 75 AKHLKDD-IPVVFCGVSDPVGAGLVDSLDRPGKNVTGVS--ERPPIEKQLELIKKLFPDAKRIGVLYDPSEPNSVAQIEQ 151 (294)
T ss_dssp HHH-SS--S-EEEECES-TTTTTS-S-SSS--SSEEEEE--E---HHHHHHHHHHHSTT--EEEEEEETT-HHHHHHHHH
T ss_pred HHhcCCC-cEEEEEeccChhhhhccccccCCCCCEEEEE--CCcCHHHHHHHHHHhCCCCCEEEEEecCCCccHHHHHHH
Confidence 4443332 999987776664332 122 2444433 333445566666664 46899999976643 3456778
Q ss_pred HHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch
Q 008912 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (549)
Q Consensus 179 l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 228 (549)
+++.+++.|+++.... ++ +..++...++.+.. +.+++++..+.
T Consensus 152 ~~~~a~~~g~~l~~~~-v~-----~~~~~~~~~~~l~~-~~da~~~~~~~ 194 (294)
T PF04392_consen 152 LRKAAKKLGIELVEIP-VP-----SSEDLEQALEALAE-KVDALYLLPDN 194 (294)
T ss_dssp HHHHHHHTT-EEEEEE-ES-----SGGGHHHHHHHHCT-T-SEEEE-S-H
T ss_pred HHHHHHHcCCEEEEEe-cC-----cHhHHHHHHHHhhc-cCCEEEEECCc
Confidence 8888888999876543 22 35677788888754 45777775543
No 186
>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=97.15 E-value=0.15 Score=49.08 Aligned_cols=196 Identities=12% Similarity=0.005 Sum_probs=104.9
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchH-HH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVM-AH 105 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~-~~ 105 (549)
+||+++|... ......+...+++.=++ .|+.+.+...+...+...-.+....++++++++||- |..... ..
T Consensus 1 ~igvvvp~~~---n~f~~~~~~gi~~~a~~----~g~~v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 73 (295)
T TIGR02955 1 KLCALYPHLK---DSYWLSINYGMVEQAKH----LGVELKVLEAGGYPNLDKQLAQIEQCKSWGADAILLGTVSPEALNH 73 (295)
T ss_pred CeeEEecCCC---cHHHHHHHHHHHHHHHH----hCCEEEEEcCCCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhhH
Confidence 5899998632 12222223233332222 255665543332234555555666677889988874 322222 23
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc-C----CcEEEEEEecCC--cccchHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-G----WGEVIAIFNDDD--QGRNGVTA 178 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~-~----W~~v~ii~~~~~--~g~~~~~~ 178 (549)
.+..+ . .++|+|.+..... .+ ..+..+......-++.+++.|... . -.+++++..... ......+.
T Consensus 74 ~l~~~-~-~~iPvV~~~~~~~--~~---~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~~~R~~G 146 (295)
T TIGR02955 74 DLAQL-T-KSIPVFALVNQID--SN---QVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGTKPVTQG 146 (295)
T ss_pred HHHHH-h-cCCCEEEEecCCC--cc---ceeEEEeecHHHHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCchhHHHHH
Confidence 33333 3 4899997532111 11 123345566666677777777662 1 246999875432 34455778
Q ss_pred HHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCC
Q 008912 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGM 243 (549)
Q Consensus 179 l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~ 243 (549)
+++.+++.|+.+.... ... .....-...++++.+. ..++| +++...+..+++.+++.|+
T Consensus 147 f~~al~~~g~~~~~~~--~~~--~~~~~~~~~~~~~L~~~~~~d~i--~~~d~~a~g~l~al~~~g~ 207 (295)
T TIGR02955 147 FRAALEGSDVEISAIL--WAD--NDKELQRNLLQDLLKKHPDIDYL--VGSAVAAEAAISELRSLHM 207 (295)
T ss_pred HHHHHhcCCcEEEEEe--cCC--CcHHHHHHHHHHHHHhCCCcCEE--EeccHHHHHHHHHHHhhCc
Confidence 8888888887765321 111 1222333445554332 34643 4555567778888888775
No 187
>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=97.15 E-value=0.00096 Score=61.81 Aligned_cols=62 Identities=11% Similarity=0.110 Sum_probs=45.8
Q ss_pred EEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEec
Q 008912 464 LRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTK 539 (549)
Q Consensus 464 ~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~ 539 (549)
|||++.. .|+||... ...||++||++++++.+|++ ++++..+. .|.-++..|.+|++|++++
T Consensus 2 l~v~~~~--~~~P~~~~-----~~~G~~~el~~~i~~~~g~~--i~~~~~~~-----~~~~~~~~l~~g~~Di~~~ 63 (232)
T TIGR03871 2 LRVCADP--NNLPFSNE-----KGEGFENKIAQLLADDLGLP--LEYTWFPQ-----RRGFVRNTLNAGRCDVVIG 63 (232)
T ss_pred eEEEeCC--CCCCccCC-----CCCchHHHHHHHHHHHcCCc--eEEEecCc-----chhhHHHHHhcCCccEEEe
Confidence 5676643 45666432 24799999999999999999 88876611 2344577899999999876
No 188
>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=97.14 E-value=0.22 Score=48.06 Aligned_cols=209 Identities=8% Similarity=-0.046 Sum_probs=111.3
Q ss_pred EEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHH
Q 008912 28 NVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~ 105 (549)
+||++.+.. ..+-.....+++-+.++ .|+++.+. .+...++....+....++.+++.+||- +.......
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~--------~g~~v~~~-~~~~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~ 71 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKE--------LGVDAIYV-GPTTADAAGQVQIIEDLIAQGVDAIAVVPNDPDALE 71 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHH--------hCCeEEEE-CCCCCCHHHHHHHHHHHHhcCCCEEEEecCCHHHHH
Confidence 478888753 22222333444444443 24555532 233356666666666677778888875 33333223
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc-CC-cEEEEEEecCC--cccchHHHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-GW-GEVIAIFNDDD--QGRNGVTALGD 181 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~-~W-~~v~ii~~~~~--~g~~~~~~l~~ 181 (549)
.....+...++|+|.+....+. .+ ..+....+.....++.+++.+... +- ++++++..... ......+.|.+
T Consensus 72 ~~~~~~~~~~iPvV~v~~~~~~-~~---~~~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~ 147 (298)
T cd06302 72 PVLKKAREAGIKVVTHDSDVQP-DN---RDYDIEQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKA 147 (298)
T ss_pred HHHHHHHHCCCeEEEEcCCCCC-Cc---ceeEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHH
Confidence 3334456789999987532111 01 112334566777778888887776 43 69998875332 22344577888
Q ss_pred HHhhcCe-EEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEe
Q 008912 182 KLAEIRC-KISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (549)
Q Consensus 182 ~~~~~g~-~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (549)
.++++|. .+......... .....-...++++-.. .++.| ++.+...+..+++.+++.|+. .+...++.
T Consensus 148 ~l~~~g~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~D~~A~g~~~al~~~g~~-~dv~vvG~ 218 (298)
T cd06302 148 YQKEKYYPMLELVDRQYGD--DDADKSYQTAQELLKAYPDLKGI-IGPTSVGIPGAARAVEEAGLK-GKVAVTGL 218 (298)
T ss_pred HHhhcCCCCeEEeCcccCC--CCHHHHHHHHHHHHHhCCCceEE-EECCCcchhHHHHHHHhcCCC-CCEEEEEe
Confidence 8888762 12211111111 1122222344444322 23433 334456677788899998875 33333433
No 189
>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=97.13 E-value=0.082 Score=49.81 Aligned_cols=199 Identities=11% Similarity=0.043 Sum_probs=104.2
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
|||+++|... ....+...+..++++.-++. |+.+.+ .++. ++....+....+...++++||-.... ....+
T Consensus 1 ~Igvi~~~~~-~~~~f~~~l~~gi~~~~~~~----gy~~~~--~~~~-~~~~~~~~~~~l~~~~vdgiii~~~~-~~~~~ 71 (260)
T cd06304 1 KVALVYDGGG-GDKSFNQSAYEGLEKAEKEL----GVEVKY--VESV-EDADYEPNLRQLAAQGYDLIFGVGFG-FMDAV 71 (260)
T ss_pred CEEEEecCCC-CcchHHHHHHHHHHHHHHhc----CceEEE--EecC-CHHHHHHHHHHHHHcCCCEEEECCcc-hhHHH
Confidence 5899998511 11234445555555543332 455444 4433 44444445555666788877653222 22334
Q ss_pred HHhhhhc-CCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHc-CCcEEEEEEecC-CcccchHHHHHHHHh
Q 008912 108 SHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYF-GWGEVIAIFNDD-DQGRNGVTALGDKLA 184 (549)
Q Consensus 108 a~~~~~~-~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~-~W~~v~ii~~~~-~~g~~~~~~l~~~~~ 184 (549)
....... ++|++......+. ....+ .+......-++..+.++..+ |-+++++|.... .......+.|.+.++
T Consensus 72 ~~~~~~~~~ipvv~~~~~~~~--~~~~~---~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~~R~~Gf~~~~~ 146 (260)
T cd06304 72 EKVAKEYPDVKFAIIDGVVDA--PPNVA---SYVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEVNRFINGFAAGAK 146 (260)
T ss_pred HHHHHHCCCCEEEEecCccCC--CCCee---eeecchHHHHHHHHHHHHHhccCCceEEEeccccHHHHHHHHHHHHHHH
Confidence 4555444 7898886432211 01112 23334444445555666655 889999997532 222334567788888
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcC
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 242 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g 242 (549)
+.|............. .+...-...++++.+..+++| ++.+...+..++.+++++|
T Consensus 147 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~ai-~~~~d~~A~gv~~al~~~g 202 (260)
T cd06304 147 SVNPDITVLVIYTGSF-FDPAKGKEAALALIDQGADVI-FAAAGGTGPGVIQAAKEAG 202 (260)
T ss_pred HhCCCcEEEEEEecCc-cCcHHHHHHHHHHHhCCCCEE-EEcCCCCchHHHHHHHHcC
Confidence 8876433211111110 111223344555544456665 5555556667888888877
No 190
>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=97.13 E-value=0.085 Score=49.87 Aligned_cols=200 Identities=14% Similarity=0.021 Sum_probs=101.3
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
+||+++|............+..++++.=++ .|+.+.+. +.. ++..-.+....+.+++|++||--... .....
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~----~gy~~~i~--~~~-~~~~~~~~i~~l~~~~vdgiI~~~~~-~~~~~ 72 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKE----LGIEYKYV--ESK-SDADYEPNLEQLADAGYDLIVGVGFL-LADAL 72 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHH----cCCeEEEE--ecC-CHHHHHHHHHHHHhCCCCEEEEcCcc-hHHHH
Confidence 589999862111122333333344433333 25555554 222 33333445556677799999863222 22344
Q ss_pred HHhhhhc-CCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHH-cCCcEEEEEEecCCcccch-HHHHHHHHh
Q 008912 108 SHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY-FGWGEVIAIFNDDDQGRNG-VTALGDKLA 184 (549)
Q Consensus 108 a~~~~~~-~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~-~~W~~v~ii~~~~~~g~~~-~~~l~~~~~ 184 (549)
......+ ++|++......+ + .+.+-++......-+..+..++.. .|-++++++..+....... .+.+.+.++
T Consensus 73 ~~~~~~~~~~PiV~i~~~~~---~--~~~~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~~~~~~~~~r~~gf~~~~~ 147 (265)
T cd06354 73 KEVAKQYPDQKFAIIDAVVD---D--PPNVASIVFKEEEGSFLAGYLAALMTKTGKVGFIGGMDIPLIRRFEAGFEAGVK 147 (265)
T ss_pred HHHHHHCCCCEEEEEecccC---C--CCcEEEEEecchhHHHHHHHHHHhhcCCCeEEEEecccChHHHHHHHHHHHHHH
Confidence 5555555 899998753211 1 011222333344344444566654 3889999997533211112 256777787
Q ss_pred hcC---eEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcC
Q 008912 185 EIR---CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 242 (549)
Q Consensus 185 ~~g---~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g 242 (549)
+.| ..+......... .....+-...++++.+..+++|+. .+...+..+++.+++.|
T Consensus 148 ~~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ll~~~pdaI~~-~nd~~A~gv~~al~~~g 206 (265)
T cd06354 148 YVNPGVPDIEVLVQYAGS-FNDPAKGKEIAQAMYDQGADVIFA-AAGGTGNGVFQAAKEAG 206 (265)
T ss_pred HHhccCCCceEEEEEcCc-ccCHHHHHHHHHHHHHCCCcEEEE-CCCCCchHHHHHHHhcC
Confidence 777 543322111111 011122334455654445775444 45556667888888877
No 191
>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=97.11 E-value=0.091 Score=49.76 Aligned_cols=200 Identities=12% Similarity=-0.013 Sum_probs=109.5
Q ss_pred EEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHH-HHhcCcEEEEcCCCchHHHH
Q 008912 29 VGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQ-FMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 29 IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~-l~~~~v~aiiGp~~s~~~~~ 106 (549)
||+++|.. .++-.....++..+.++ .|+.+.+...+ .+ ....+...+ +...+|++||=-..... ..
T Consensus 2 Igvi~p~~~~~~~~~~~~~i~~~~~~--------~gy~~~~~~~~--~~-~~~~~~~~~~l~~~~vdgvi~~~~~~~-~~ 69 (269)
T cd06297 2 ISVLLPVVATEFYRRLLEGIEGALLE--------QRYDLALFPLL--SL-ARLKRYLESTTLAYLTDGLLLASYDLT-ER 69 (269)
T ss_pred EEEEeCCCcChhHHHHHHHHHHHHHH--------CCCEEEEEeCC--Cc-HHHHHHHHHHHHhcCCCEEEEecCccC-hH
Confidence 78888864 22222333444444444 25666665433 22 222233333 44567887775322222 23
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecC--C------cccchHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD--D------QGRNGVTA 178 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~--~------~g~~~~~~ 178 (549)
....+...++|+|......+ ..++ +.++...-+...++.|... .++++++.... . ......+.
T Consensus 70 ~~~~l~~~~iPvv~~~~~~~-----~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~~~R~~g 140 (269)
T cd06297 70 LAERRLPTERPVVLVDAENP-----RFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVFAERRAG 140 (269)
T ss_pred HHHHHhhcCCCEEEEccCCC-----CCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccHHHHHHH
Confidence 33445668999998754221 1232 3356777777788887777 89999886432 2 33455788
Q ss_pred HHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 179 LGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 179 l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
|++.+++.|+.+.....+... .+..+....+.++.+.. ++.|+ +.+...+..+++.+++.|...++-+.|.
T Consensus 141 f~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~a~g~~~~l~~~g~~vP~di~vv 213 (269)
T cd06297 141 FQQALKDAGRPFSPDLLAITD--HSEEGGRLAMRHLLEKASPPLAVF-ASADQQALGALQEAVELGLTVGEDVRVV 213 (269)
T ss_pred HHHHHHHcCCCCChhhEEeCC--CChhhHHHHHHHHHcCCCCCcEEE-EcCcHHHHHHHHHHHHcCCCCCCceEEE
Confidence 888888888754321111111 11223344555554332 34444 3455567788889999887655555444
No 192
>PRK09526 lacI lac repressor; Reviewed
Probab=97.02 E-value=0.23 Score=48.86 Aligned_cols=204 Identities=11% Similarity=0.070 Sum_probs=111.9
Q ss_pred CceEEEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc--CCC
Q 008912 24 PEVLNVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG--PQS 100 (549)
Q Consensus 24 ~~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG--p~~ 100 (549)
...-.||+++|... ..-.....+++-+.++ .|+.+.+...+. .+...-.+....+..++++++|- +..
T Consensus 61 ~~~~~Igvv~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~i~~~~~-~~~~~~~~~l~~l~~~~vdGiii~~~~~ 131 (342)
T PRK09526 61 KQSLTIGLATTSLALHAPSQIAAAIKSRADQ--------LGYSVVISMVER-SGVEACQAAVNELLAQRVSGVIINVPLE 131 (342)
T ss_pred CCCceEEEEeCCCCcccHHHHHHHHHHHHHH--------CCCEEEEEeCCC-ChHHHHHHHHHHHHhcCCCEEEEecCCC
Confidence 34567999998632 2212333444444333 256666543332 12233334445666778888774 333
Q ss_pred chHHHHHHHhh-hhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHH
Q 008912 101 AVMAHVLSHLA-NELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVT 177 (549)
Q Consensus 101 s~~~~~va~~~-~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~ 177 (549)
... +..+. ...++|+|.+... + +...+ .+.++...-+..+++.|...|-++++++..... ......+
T Consensus 132 ~~~---~~~~~~~~~~iPvV~~d~~-~---~~~~~---~V~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~ 201 (342)
T PRK09526 132 DAD---AEKIVADCADVPCLFLDVS-P---QSPVN---SVSFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLA 201 (342)
T ss_pred cch---HHHHHhhcCCCCEEEEecc-C---CCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHH
Confidence 222 22222 2358999987431 1 11122 345566667788888888889999999975432 2334566
Q ss_pred HHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 178 ~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
.|.+.+++.|+.+..... . . .....-...+.++... .++.| ++++...+..+++.+++.|+..++-+-|
T Consensus 202 Gf~~al~~~gi~~~~~~~-~-~--~~~~~~~~~~~~~l~~~~~~~ai-~~~~d~~A~g~~~al~~~g~~vP~disv 272 (342)
T PRK09526 202 GWLEYLTDYQLQPIAVRE-G-D--WSAMSGYQQTLQMLREGPVPSAI-LVANDQMALGVLRALHESGLRVPGQISV 272 (342)
T ss_pred HHHHHHHHcCCCcceEEe-C-C--CchHHHHHHHHHHhcCCCCCcEE-EEcCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 788888888875432211 1 1 1122222334444332 24444 4455566778899999999865544433
No 193
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.98 E-value=0.14 Score=48.94 Aligned_cols=195 Identities=11% Similarity=0.011 Sum_probs=107.0
Q ss_pred EEEEeccC------CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCch
Q 008912 29 VGAIFSFG------TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAV 102 (549)
Q Consensus 29 IG~l~~~~------~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~ 102 (549)
||+++|.. .++......++.-+.++ .|+.+.+...+. . .+....+...+++++|--....
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~--------~g~~~~~~~~~~---~---~~~~~~~~~~~~dgiii~~~~~ 67 (283)
T cd06279 2 VGVVLTDSLSYAFSDPVASQFLAGVAEVLDA--------AGVNLLLLPASS---E---DSDSALVVSALVDGFIVYGVPR 67 (283)
T ss_pred EEEEeCCcccccccCccHHHHHHHHHHHHHH--------CCCEEEEecCcc---H---HHHHHHHHhcCCCEEEEeCCCC
Confidence 78999862 22222233444333333 256665543322 1 1233455667888888633322
Q ss_pred HHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecC-------------
Q 008912 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD------------- 169 (549)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~------------- 169 (549)
.. .....+...++|+|......+ +.+-.+.......+...+++|...|-++++++..+.
T Consensus 68 ~~-~~~~~~~~~~ipvV~~~~~~~-------~~~~~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~~~~~~~~~~~~~~~ 139 (283)
T cd06279 68 DD-PLVAALLRRGLPVVVVDQPLP-------PGVPSVGIDDRAAAREAARHLLDLGHRRIGILGLRLGRDRNTGRVTDER 139 (283)
T ss_pred Ch-HHHHHHHHcCCCEEEEecCCC-------CCCCEEeeCcHHHHHHHHHHHHHcCCCcEEEecCccccccccccccccc
Confidence 22 233445678999998743221 112234566777888899999889999999997532
Q ss_pred ------CcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC--CeEEEEEcchHHHHHHHHHHHHc
Q 008912 170 ------DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME--ARVIVVHGYSRTGLMVFDVAQRL 241 (549)
Q Consensus 170 ------~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~--~~viil~~~~~~~~~il~~a~~~ 241 (549)
.......+.+.+.+++.|++......+.... .........++++..+. .++ |++++...+..+++.+++.
T Consensus 140 ~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~gv~~al~~~ 217 (283)
T cd06279 140 LASATFSVARERLEGYLEALEEAGIDISDVPIWEIPE-NDRASGEEAARELLDASPRPTA-ILCMSDVLALGALQVAREL 217 (283)
T ss_pred ccccccccHHHHHHHHHHHHHHcCCCCChheEEecCC-CchHHHHHHHHHHHcCCCCCcE-EEECCcHHHHHHHHHHHHc
Confidence 1123445677778887775432111111100 11233445555554333 344 3345556667788888888
Q ss_pred CCCCCC
Q 008912 242 GMMDSG 247 (549)
Q Consensus 242 g~~~~~ 247 (549)
|+..++
T Consensus 218 g~~ip~ 223 (283)
T cd06279 218 GLRVPE 223 (283)
T ss_pred CCCCCC
Confidence 875443
No 194
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=96.97 E-value=0.2 Score=49.05 Aligned_cols=207 Identities=7% Similarity=-0.004 Sum_probs=113.0
Q ss_pred ceEEEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchH
Q 008912 25 EVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM 103 (549)
Q Consensus 25 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~ 103 (549)
..-.||+++|.- .++-.....+++-+.++ .|+.+.+ .+...++..-.+....++.++++++|-......
T Consensus 62 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~--------~g~~~~~--~~~~~~~~~~~~~~~~~~~~~vdgiI~~~~~~~ 131 (331)
T PRK14987 62 TSRAIGVLLPSLTNQVFAEVLRGIESVTDA--------HGYQTML--AHYGYKPEMEQERLESMLSWNIDGLILTERTHT 131 (331)
T ss_pred CCCEEEEEeCCCcchhHHHHHHHHHHHHHH--------CCCEEEE--ecCCCCHHHHHHHHHHHHhcCCCEEEEcCCCCC
Confidence 445899999853 22222333444443333 2555544 344444544344445566778888875322212
Q ss_pred HHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC-cccchHHHHHHH
Q 008912 104 AHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QGRNGVTALGDK 182 (549)
Q Consensus 104 ~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~-~g~~~~~~l~~~ 182 (549)
. .....+...++|+|...... .+. ... .+.+....-+..+++.|...|-++++++..... ........|.+.
T Consensus 132 ~-~~~~~l~~~~iPvV~~~~~~---~~~-~~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~~~~~~~R~~Gf~~a 204 (331)
T PRK14987 132 P-RTLKMIEVAGIPVVELMDSQ---SPC-LDI--AVGFDNFEAARQMTTAIIARGHRHIAYLGARLDERTIIKQKGYEQA 204 (331)
T ss_pred H-HHHHHHHhCCCCEEEEecCC---CCC-CCc--eEEeCcHHHHHHHHHHHHHCCCceEEEEcCCCcccHHHHHHHHHHH
Confidence 2 22334566899999753211 111 111 355667777788888888899999999964322 223345777888
Q ss_pred HhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 183 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
+++.|+..... .+... .....-...++++.+. .++.|+ +.+...+..+++++++.|+..++-+-|.
T Consensus 205 l~~~g~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nD~~A~g~~~al~~~g~~vP~disvi 272 (331)
T PRK14987 205 MLDAGLVPYSV-MVEQS--SSYSSGIELIRQARREYPQLDGVF-CTNDDLAVGAAFECQRLGLKVPDDMAIA 272 (331)
T ss_pred HHHcCCCccce-eecCC--CChhhHHHHHHHHHhcCCCCCEEE-ECCcHHHHHHHHHHHHcCCCCCCccEEE
Confidence 88888631111 11111 1111223345555433 245444 4555667778889999998766544443
No 195
>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=96.92 E-value=0.098 Score=49.39 Aligned_cols=203 Identities=8% Similarity=0.016 Sum_probs=109.1
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
+||+++|.+..+......+++-+.++. + |+.+-+. .. +. .+....+..++++++|-...+. ..
T Consensus 1 ~ig~i~~~~~~~~~~~~~gi~~~~~~~---~----g~~~~~~--~~--~~---~~~~~~l~~~~vdGiI~~~~~~---~~ 63 (265)
T cd01543 1 RVALLVETSSSYGRGVLRGIARYAREH---G----PWSIYLE--PR--GL---QEPLRWLKDWQGDGIIARIDDP---EM 63 (265)
T ss_pred CeEEEecccchhhHHHHHHHHHHHHhc---C----CeEEEEe--cc--cc---hhhhhhccccccceEEEECCCH---HH
Confidence 489999865433333344444333331 2 4454332 22 11 2333445556888888533222 22
Q ss_pred HHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC-cccchHHHHHHHHhhc
Q 008912 108 SHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-QGRNGVTALGDKLAEI 186 (549)
Q Consensus 108 a~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~-~g~~~~~~l~~~~~~~ 186 (549)
...+...++|+|......+. +.+-++.......+..+++.+...|-++++++..... ......+.+.+.+++.
T Consensus 64 ~~~l~~~~~PvV~~~~~~~~------~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~~~~ 137 (265)
T cd01543 64 AEALQKLGIPVVDVSGSREK------PGIPRVTTDNAAIGRMAAEHFLERGFRHFAFYGLPGARWSDEREEAFRQLVAEA 137 (265)
T ss_pred HHHHhhCCCCEEEEeCccCC------CCCCEEeeCHHHHHHHHHHHHHHCCCcEEEEEcCCCCHHHHHHHHHHHHHHHHc
Confidence 23445679999987543211 1223456677777888888888889999999864432 1223456778888888
Q ss_pred CeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCC-CeEEEEeC
Q 008912 187 RCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDS-GYVWIATT 254 (549)
Q Consensus 187 g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~-~~~~i~~~ 254 (549)
|..+............+...-...++++-+. .+++ |++++...+..+++.+++.|+..+ +...++.+
T Consensus 138 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~a-i~~~~d~~a~g~~~~l~~~g~~vp~di~vigfd 207 (265)
T cd01543 138 GYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVG-IFACTDARARQLLEACRRAGIAVPEEVAVLGVD 207 (265)
T ss_pred CCccccccCccccccccHHHHHHHHHHHHhcCCCCcE-EEecChHHHHHHHHHHHHhCCCCCCceEEEeeC
Confidence 8765211110000001112223344444322 3444 444556667778888888887533 44444444
No 196
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=96.89 E-value=0.19 Score=48.59 Aligned_cols=211 Identities=10% Similarity=0.029 Sum_probs=113.5
Q ss_pred CCceEEEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCc
Q 008912 23 KPEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA 101 (549)
Q Consensus 23 ~~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s 101 (549)
..+.-.||+++|.. ..+...+..+++-+.++ . |+.+.+ .+...+...-......+...++++||=-...
T Consensus 32 ~~~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~---~-----g~~~~~--~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~ 101 (309)
T PRK11041 32 RNESRTILVIVPDICDPFFSEIIRGIEVTAAE---H-----GYLVLI--GDCAHQNQQEKTFVNLIITKQIDGMLLLGSR 101 (309)
T ss_pred cCCCcEEEEEeCCCcCccHHHHHHHHHHHHHH---C-----CCEEEE--EeCCCChHHHHHHHHHHHHcCCCEEEEecCC
Confidence 44557899999853 33333344555544444 1 455543 3444444444455556667788888742221
Q ss_pred hHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCc--ccchHHHH
Q 008912 102 VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ--GRNGVTAL 179 (549)
Q Consensus 102 ~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~--g~~~~~~l 179 (549)
....... .......|++......+. ..+++ +.......+...++.|.+.|-++++++...... .....+.|
T Consensus 102 ~~~~~~~-~~~~~~~pvv~~~~~~~~---~~~~~---V~~Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf 174 (309)
T PRK11041 102 LPFDASK-EEQRNLPPMVMANEFAPE---LELPT---VHIDNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGY 174 (309)
T ss_pred CChHHHH-HHHhcCCCEEEEccccCC---CCCCE---EEECcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHH
Confidence 1111111 122223467765332211 12232 445677777888888888899999999754322 33456778
Q ss_pred HHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEe
Q 008912 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (549)
Q Consensus 180 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (549)
.+.+++.|+.+......... .........+.++.+. ..+.|+. ++...+..+++..++.|+..++-++|++
T Consensus 175 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~-~~d~~a~gv~~al~~~g~~ip~di~vvg 247 (309)
T PRK11041 175 VQALRRCGITVDPQYIARGD--FTFEAGAKALKQLLDLPQPPTAVFC-HSDVMALGALSQAKRMGLRVPQDLSIIG 247 (309)
T ss_pred HHHHHHcCCCCCHHHeEeCC--CCHHHHHHHHHHHHcCCCCCCEEEE-cCcHHHHHHHHHHHHcCCCCCcceEEEE
Confidence 88888888754321111111 1122334455565443 2455554 4555566788888888875444444443
No 197
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=96.88 E-value=0.24 Score=48.90 Aligned_cols=207 Identities=7% Similarity=-0.036 Sum_probs=110.1
Q ss_pred CceEEEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCch
Q 008912 24 PEVLNVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAV 102 (549)
Q Consensus 24 ~~~i~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~ 102 (549)
...-.||+++|... .+......++.-+.++ .|+.+- +.+...++..-.+....+.+++++++|-.....
T Consensus 57 ~~~~~Igvi~~~~~~~f~~~l~~gi~~~~~~--------~gy~~~--~~~~~~~~~~~~~~i~~l~~~~vdGiIi~~~~~ 126 (346)
T PRK10401 57 QVSDTIGVVVMDVSDAFFGALVKAVDLVAQQ--------HQKYVL--IGNSYHEAEKERHAIEVLIRQRCNALIVHSKAL 126 (346)
T ss_pred CCCCEEEEEeCCCCCccHHHHHHHHHHHHHH--------CCCEEE--EEcCCCChHHHHHHHHHHHhcCCCEEEEeCCCC
Confidence 34567999998632 2222333444433333 144443 344444454444445556667888877422111
Q ss_pred HHHHHHHhhhhcCCc-EEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC--cccchHHHH
Q 008912 103 MAHVLSHLANELQVP-LLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD--QGRNGVTAL 179 (549)
Q Consensus 103 ~~~~va~~~~~~~iP-~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~--~g~~~~~~l 179 (549)
....+..+.. ++| ++......+ +..+++ +...+..-+...++.|...|-+++++|..... ......+.|
T Consensus 127 ~~~~~~~~~~--~~p~vV~i~~~~~---~~~~~~---V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf 198 (346)
T PRK10401 127 SDDELAQFMD--QIPGMVLINRVVP---GYAHRC---VCLDNVSGARMATRMLLNNGHQRIGYLSSSHGIEDDAMRRAGW 198 (346)
T ss_pred ChHHHHHHHh--cCCCEEEEecccC---CCCCCE---EEECcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcchHHHHHHH
Confidence 1222334443 355 676543211 111222 34456666777788888889999999975432 344567788
Q ss_pred HHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 180 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
.+.+++.|+.+......... .....-...++++.+. .++.|+ +.+...+..+++.+++.|+..++-+-|
T Consensus 199 ~~al~~~gi~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~nd~~A~g~~~al~~~G~~vP~disv 269 (346)
T PRK10401 199 MSALKEQGIIPPESWIGTGT--PDMQGGEAAMVELLGRNLQLTAVF-AYNDNMAAGALTALKDNGIAIPLHLSI 269 (346)
T ss_pred HHHHHHcCCCCChhheecCC--CChHHHHHHHHHHHcCCCCCcEEE-ECCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 88998888753221111111 1112222344454332 345444 455666778999999999865544443
No 198
>PRK09492 treR trehalose repressor; Provisional
Probab=96.87 E-value=0.32 Score=47.22 Aligned_cols=193 Identities=11% Similarity=-0.003 Sum_probs=109.4
Q ss_pred CceEEEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCch
Q 008912 24 PEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAV 102 (549)
Q Consensus 24 ~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~ 102 (549)
...-.||+++|.- ..+. ...+.-..+++++. |+.+ .+.++..++....+....+..++++++|-...+.
T Consensus 60 ~~~~~Ig~i~~~~~~~~~---~~~~~~i~~~~~~~-----gy~~--~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~ 129 (315)
T PRK09492 60 QSDKVVGIIVSRLDSLSE---NQAVRTMLPAFYEQ-----GYDP--IIMESQFSPEKVNEHLGVLKRRNVDGVILFGFTG 129 (315)
T ss_pred CCCCeEEEEecCCcCccc---HHHHHHHHHHHHHc-----CCeE--EEEecCCChHHHHHHHHHHHhcCCCEEEEeCCCc
Confidence 3456899999853 2222 22333334444443 4554 4445555555544555556667898888633221
Q ss_pred HHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEec-C--CcccchHHHH
Q 008912 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND-D--DQGRNGVTAL 179 (549)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~-~--~~g~~~~~~l 179 (549)
.. ......+++|++...... ..++ .+.++...-+..+++.|...|-++++++... . ..+....+.|
T Consensus 130 ~~---~~~l~~~~~pvv~i~~~~-----~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~~R~~Gf 198 (315)
T PRK09492 130 IT---EEMLAPWQDKLVLLARDA-----KGFS---SVCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTGKRRHQAY 198 (315)
T ss_pred cc---HHHHHhcCCCEEEEeccC-----CCCc---EEEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhHHHHHHHH
Confidence 11 123344577888764211 1122 3445666667778888888899999999632 2 2334567788
Q ss_pred HHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCC
Q 008912 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (549)
Q Consensus 180 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~ 243 (549)
.+.+++.|+.+... .... ....-...++++....++.|+. .+...+..+++.+++.|+
T Consensus 199 ~~al~~~g~~~~~~--~~~~---~~~~~~~~~~~~l~~~~~ai~~-~~D~~A~g~~~al~~~g~ 256 (315)
T PRK09492 199 LAFCKQHKLTPVAA--LGGL---SMQSGYELVAKVLTPETTALVC-ATDTLALGASKYLQEQGR 256 (315)
T ss_pred HHHHHHcCCCceee--cCCC---CchHHHHHHHHHhhcCCCEEEE-cCcHHHHHHHHHHHHcCC
Confidence 89999888864321 1111 1122223444444445666654 445667778899999886
No 199
>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=96.57 E-value=0.79 Score=44.22 Aligned_cols=171 Identities=11% Similarity=-0.020 Sum_probs=94.9
Q ss_pred CceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccC
Q 008912 63 GRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAP 141 (549)
Q Consensus 63 g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~p 141 (549)
|+.+ .+.++..++..-.+....++.+++.+||= +............+...++|+|.+....+ . .+....+..
T Consensus 28 g~~v--~~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~iPvV~~d~~~~---~--~~~~~~V~~ 100 (302)
T TIGR02634 28 GAKV--FVQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGIKVVAYDRLIN---D--ADIDFYLSF 100 (302)
T ss_pred CCEE--EEEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCCeEEEecCcCC---C--CCccEEEec
Confidence 4555 34556666666666777777888887774 33333333444556678999998743221 1 112234556
Q ss_pred CcHHHHHHHHHHHHHcCCc-EEEEEEecCC--cccchHHHHHHHHhhc----CeEEEEEEccCCCCCCChhhHHHHHHHH
Q 008912 142 NDLYLMSAIAEMVSYFGWG-EVIAIFNDDD--QGRNGVTALGDKLAEI----RCKISYKSALPPDQSVTETDVRNELVKV 214 (549)
Q Consensus 142 s~~~~~~ai~~~l~~~~W~-~v~ii~~~~~--~g~~~~~~l~~~~~~~----g~~v~~~~~~~~~~~~~~~~~~~~l~~l 214 (549)
+....+..+++.|...+-+ +++++..+.. ......+.+++.+++. ++.+....... . ....+....++++
T Consensus 101 d~~~~g~~~~~~L~~~g~~~~i~~i~g~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~~~~~-~--~~~~~~~~~~~~l 177 (302)
T TIGR02634 101 DNEKVGEMQARAVLEAAPKGNYFLMGGSPTDNNAKLLRGGQMKVLQPAIDSGDIKIVGDQWVD-G--WLPENALRIMENA 177 (302)
T ss_pred CHHHHHHHHHHHHHhhCCCCCEEEEeCCCCCcchHHHHHHHHHHHhhhccCCCeEEecCcCCC-C--CCHHHHHHHHHHH
Confidence 6777788888888777655 6777764322 2223345566666653 34432211111 1 1122334555554
Q ss_pred hc---CCCeEEEEEcchHHHHHHHHHHHHcCCC
Q 008912 215 RM---MEARVIVVHGYSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 215 ~~---~~~~viil~~~~~~~~~il~~a~~~g~~ 244 (549)
.. ..+++|+. .+...+..+++.+++.|+.
T Consensus 178 l~~~~~~~~aI~~-~~D~~A~g~~~al~~~g~~ 209 (302)
T TIGR02634 178 LTANDNKVDAVVA-SNDATAGGAIQALTAQGLA 209 (302)
T ss_pred HHhCCCCccEEEE-CCCchHHHHHHHHHHCCCC
Confidence 32 23454444 4445566788888888863
No 200
>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=96.28 E-value=0.76 Score=43.42 Aligned_cols=197 Identities=10% Similarity=0.004 Sum_probs=105.4
Q ss_pred EEEEEeccCC--CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCchHH
Q 008912 28 NVGAIFSFGT--VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAVMA 104 (549)
Q Consensus 28 ~IG~l~~~~~--~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~ 104 (549)
+||++.+.+. ..+......+..++++.-++. |+.+.+...+ .+. ....++++++|- +..+.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~~----g~~~~~~~~~--~~~--------~~~~~~vdgii~~~~~~~-- 64 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQEL----GIELTKFFRD--DDL--------LEILEDVDGIIAIGKFSQ-- 64 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHHc----CCEEEEEecc--chh--------HHhccCcCEEEEecCCCH--
Confidence 5888888442 122233344444444444332 5566554332 111 123457776663 22222
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCC-------cccchHH
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDD-------QGRNGVT 177 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~-------~g~~~~~ 177 (549)
.....+...++|+|..... ..+..+++ +..++...+..+++.+.+.|-++++++..... ......+
T Consensus 65 -~~~~~~~~~~~pvV~~~~~---~~~~~~~~---v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~R~~ 137 (270)
T cd01544 65 -EQLAKLAKLNPNLVFVDSN---PAPDGFDS---VVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIEDPRET 137 (270)
T ss_pred -HHHHHHHhhCCCEEEECCC---CCCCCCCE---EEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhhhHHHH
Confidence 2334455678999987432 12222332 44567777888888888889999999975432 2334467
Q ss_pred HHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC----CCeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEE
Q 008912 178 ALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM----EARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWI 251 (549)
Q Consensus 178 ~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~----~~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i 251 (549)
.+.+.+.+.|.. .....+... .+.......++++.+. .++ .|++++...+..+++.+++.|+..++-+.|
T Consensus 138 gf~~~~~~~~~~-~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~-ai~~~~d~~a~g~~~~l~~~g~~vp~di~v 211 (270)
T cd01544 138 AFREYMKEKGLY-DPELIYIGD--FTVESGYQLMKEALKSLGDNLPT-AFFIASDPMAIGALRALQEAGIKVPEDVSV 211 (270)
T ss_pred HHHHHHHHcCCC-ChheEeeCC--CCHHHHHHHHHHHHhccCCCCCC-EEEEcCcHHHHHHHHHHHHcCCCCCCceEE
Confidence 788888887741 100011111 1122223344443322 234 444456667888889999988765543443
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=96.09 E-value=1.5 Score=42.49 Aligned_cols=191 Identities=11% Similarity=-0.005 Sum_probs=105.4
Q ss_pred ceEEEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEc-CCCch
Q 008912 25 EVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVG-PQSAV 102 (549)
Q Consensus 25 ~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~ 102 (549)
..-.||+++|.- .........++ .+...+. |+.+-+ ..+..++....+....+...+++++|- |....
T Consensus 58 ~~~~Ig~i~~~~~~~~~~~~~~~i---~~~~~~~-----gy~~~i--~~~~~~~~~~~~~~~~l~~~~vdGvIi~~~~~~ 127 (311)
T TIGR02405 58 SDKVVAVIVSRLDSPSENLAVSGM---LPVFYTA-----GYDPII--MESQFSPQLTNEHLSVLQKRNVDGVILFGFTGC 127 (311)
T ss_pred CCCEEEEEeCCcccccHHHHHHHH---HHHHHHC-----CCeEEE--ecCCCChHHHHHHHHHHHhcCCCEEEEeCCCCC
Confidence 445799999852 22111222222 3333332 455433 344445544334444455668888774 22211
Q ss_pred HHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEec-C--CcccchHHHH
Q 008912 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND-D--DQGRNGVTAL 179 (549)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~-~--~~g~~~~~~l 179 (549)
... ....+++|++...... ..++ .+.++...-+..+++.|...|-+++++|... . ..+....+.+
T Consensus 128 ~~~----~l~~~~~p~V~i~~~~-----~~~~---~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~~R~~gf 195 (311)
T TIGR02405 128 DEE----ILESWNHKAVVIARDT-----GGFS---SVCYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTGLMRHNAY 195 (311)
T ss_pred CHH----HHHhcCCCEEEEecCC-----CCcc---EEEeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhHHHHHHHH
Confidence 111 2345678988764311 1122 3456677777788888888999999999632 2 2344567788
Q ss_pred HHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCC
Q 008912 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (549)
Q Consensus 180 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~ 243 (549)
.+.+++.|+..... ... .........++++.+.+++.| ++++...+..+++.+.+.|.
T Consensus 196 ~~a~~~~gi~~~~~---~~~--~~~~~~~~~~~~~l~~~~tAi-~~~~D~~A~g~~~~l~~~g~ 253 (311)
T TIGR02405 196 LAYCESANLEPIYQ---TGQ--LSHESGYVLTDKVLKPETTAL-VCATDTLALGAAKYLQELDR 253 (311)
T ss_pred HHHHHHcCCCceee---eCC--CCHHHHHHHHHHHHhcCCCEE-EECCcHHHHHHHHHHHHcCC
Confidence 99999988752211 111 112222334444433445555 45666677788899999885
No 202
>COG4623 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]
Probab=95.77 E-value=0.021 Score=54.25 Aligned_cols=74 Identities=16% Similarity=0.179 Sum_probs=59.6
Q ss_pred CCeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecc
Q 008912 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKK 540 (549)
Q Consensus 461 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~ 540 (549)
.+.|||+|... |-..| ..++.-.|+.-+|+++.|+.||.+ .++.+. ..-+.|+.+|.+|++|++.++
T Consensus 22 rGvLrV~tins-p~sy~----~~~~~p~G~eYelak~Fa~yLgV~--Lki~~~------~n~dqLf~aL~ng~~DL~Aag 88 (473)
T COG4623 22 RGVLRVSTINS-PLSYF----EDKGGPTGLEYELAKAFADYLGVK--LKIIPA------DNIDQLFDALDNGNADLAAAG 88 (473)
T ss_pred cCeEEEEeecC-cccee----ccCCCccchhHHHHHHHHHHhCCe--EEEEec------CCHHHHHHHHhCCCcceeccc
Confidence 57899998763 21221 234445699999999999999999 998877 246899999999999999999
Q ss_pred eEEeecc
Q 008912 541 VAQLTRV 547 (549)
Q Consensus 541 ~ti~~~r 547 (549)
++-.++|
T Consensus 89 l~~~~~~ 95 (473)
T COG4623 89 LLYNSER 95 (473)
T ss_pred ccCChhH
Confidence 9988877
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=95.48 E-value=1.5 Score=41.16 Aligned_cols=196 Identities=14% Similarity=0.072 Sum_probs=101.2
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
+||.+++-. .....+..++..+++++.++. |.++.+ .+...++....+.+.+++++++.+||+. ......++
T Consensus 1 kva~l~~g~-~~D~~~n~~~~~G~~~~~~~~----gv~~~~--~e~~~~~~~~~~~i~~~~~~g~dlIi~~-g~~~~~~~ 72 (258)
T cd06353 1 KVAFVYVGP-IGDQGWNYAHDEGRKAAEKAL----GVEVTY--VENVPEGADAERVLRELAAQGYDLIFGT-SFGFMDAA 72 (258)
T ss_pred CEEEEEeCC-CCccchhHHHHHHHHHHHHhc----CCeEEE--EecCCchHhHHHHHHHHHHcCCCEEEEC-chhhhHHH
Confidence 578888743 212334445555666665542 444444 4444456677777888888899999983 33445555
Q ss_pred HHhhhhc-CCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCc-ccchHHHHHHHHhh
Q 008912 108 SHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQ-GRNGVTALGDKLAE 185 (549)
Q Consensus 108 a~~~~~~-~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~-g~~~~~~l~~~~~~ 185 (549)
..++..+ ++.++...+..+ - +.-..+.|+... ...++-.++.++.. =.+|++|...... .......|..-++.
T Consensus 73 ~~vA~~~p~~~F~~~d~~~~-~-~Nv~~~~~~~~e-~~ylaG~~Aa~~t~--t~kVG~I~g~~~~~~~~~~~gF~~G~~~ 147 (258)
T cd06353 73 LKVAKEYPDVKFEHCSGYKT-A-PNVGSYFARIYE-GRYLAGVVAGKMTK--TNKVGYVAAFPIPEVVRGINAFALGARS 147 (258)
T ss_pred HHHHHHCCCCEEEECCCCCC-C-CCeeeEechhhH-HHHHHHHHHHHhhc--CCcEEEEcCcccHHHHHHHHHHHHHHHH
Confidence 6666555 444444322111 0 111123333332 22333344444443 3589988754321 12333455554443
Q ss_pred cC--eEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcC
Q 008912 186 IR--CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 242 (549)
Q Consensus 186 ~g--~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g 242 (549)
.+ +++... +... ..+...-....+.+.+.++++|+-.+.. ..+++++++.|
T Consensus 148 ~~p~~~v~~~--~~g~-~~D~~~a~~~a~~l~~~G~DvI~~~~~~---~g~~~aa~~~g 200 (258)
T cd06353 148 VNPDATVKVI--WTGS-WFDPAKEKEAALALIDQGADVIYQHTDS---PGVIQAAEEKG 200 (258)
T ss_pred HCCCcEEEEE--EecC-CCCcHHHHHHHHHHHHCCCcEEEecCCC---hHHHHHHHHhC
Confidence 33 333322 2111 0122233455566667899988777622 45777888765
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=95.32 E-value=2.7 Score=39.91 Aligned_cols=204 Identities=13% Similarity=0.038 Sum_probs=101.7
Q ss_pred EEEEEeccCC-CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCc-hH-H
Q 008912 28 NVGAIFSFGT-VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA-VM-A 104 (549)
Q Consensus 28 ~IG~l~~~~~-~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s-~~-~ 104 (549)
+||+++|... ++-.....++..+.++ . |+.+ .+.+...++..-.+....++.+++++||=.... .. .
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~---~-----gy~~--~~~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~ 71 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKA---I-----GWNL--RILDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ 71 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHH---c-----CcEE--EEECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH
Confidence 5888888632 2212233333333332 2 4444 344555566555556666777788887753222 21 2
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCCCCCCC-ceEEccCCcHHHHHHHHHHHHHc--CCcEEEEEEecCC-cccchHHHHH
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLSPLQYP-FFVQTAPNDLYLMSAIAEMVSYF--GWGEVIAIFNDDD-QGRNGVTALG 180 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~-~~~r~~ps~~~~~~ai~~~l~~~--~W~~v~ii~~~~~-~g~~~~~~l~ 180 (549)
..+ ..+...++|+|.+...... .....+ .+-.+.......+..+++.|... |-++++++..... ......+.++
T Consensus 72 ~~~-~~~~~~~iPvV~~d~~~~~-~~~~~~~~~~~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~~~~r~~~~~ 149 (280)
T cd06315 72 AEL-ELAQKAGIPVVGWHAGPEP-GPIEEPGIFYNVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSIAKAKANAMK 149 (280)
T ss_pred HHH-HHHHHCCCCEEEecCCCCC-CcccCCceeEEecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCccHHHHHHHHH
Confidence 333 3345679999987432111 000011 13345566777778888887776 8899988864321 1111123444
Q ss_pred HHHhhc-CeEEEEEEccCCCCCCChhhHHHHHHHHhcC---CCeEEEEEcchHHHHHHHHHHHHcCCCCC
Q 008912 181 DKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIVVHGYSRTGLMVFDVAQRLGMMDS 246 (549)
Q Consensus 181 ~~~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~viil~~~~~~~~~il~~a~~~g~~~~ 246 (549)
..++.. +..+......... .........++++.+. .++ .|++++...+..+++.+++.|+..+
T Consensus 150 ~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~-ai~~~~D~~A~g~~~~l~~~g~~~p 216 (280)
T cd06315 150 EIIEACKGCTVLSIEDVPIS--RTATRMPALTARLLQRYGDKWT-HSLAINDLYFDYMAPPLASAGRKAD 216 (280)
T ss_pred HHHHhCCCCEEEEecccCcc--hhhhhhHHHHHHHHHhcCcccc-eecccchhhhHHhHHHHHHhcccCC
Confidence 444332 2332111111111 1111111334444322 234 4445555667778888889887644
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=94.62 E-value=4.5 Score=38.88 Aligned_cols=162 Identities=7% Similarity=-0.055 Sum_probs=80.8
Q ss_pred CCCChHHHHHHHHHHHhcCcEEEEc-CCCchHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccC-CcHHHHHHH
Q 008912 73 AKFNGFLSIMGALQFMETDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAP-NDLYLMSAI 150 (549)
Q Consensus 73 ~~~~~~~a~~~~~~l~~~~v~aiiG-p~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~p-s~~~~~~ai 150 (549)
...++..-.+....++++++.+||- |..+.........+...+||+|.+....+. + .....+.. .....++..
T Consensus 38 ~~~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~giPvV~~~~~~~~--~---~~~~~v~~~Dn~~~g~~a 112 (302)
T TIGR02637 38 TGTTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRGIKVVTWDSGVAP--E---GRNLFLNQASADLIGRTQ 112 (302)
T ss_pred CCCCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCCEEEEeCCCCCC--C---ceeEEEecCCHHHHHHHH
Confidence 3456666666677777888887664 433333333334456689999987432211 1 12233333 333344444
Q ss_pred HHHHH-Hc-CCcEEEEEEecCCcc--cchHHHHHHHHhhcC---eEEEEEEccCCCCCCChhhHHHHHHHHhcCCC--eE
Q 008912 151 AEMVS-YF-GWGEVIAIFNDDDQG--RNGVTALGDKLAEIR---CKISYKSALPPDQSVTETDVRNELVKVRMMEA--RV 221 (549)
Q Consensus 151 ~~~l~-~~-~W~~v~ii~~~~~~g--~~~~~~l~~~~~~~g---~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~--~v 221 (549)
++.+. ++ +-.+|++|..+.... ....+.+.+.++++| .++.... ... .....-...++++.+..+ +.
T Consensus 113 a~~l~~~l~~~~~I~~i~g~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~--~~~--~~~~~~~~~~~~~L~~~~~~~a 188 (302)
T TIGR02637 113 VQLAAEQIGNGGEIAILSAASTATNQNAWIEIMKKELKDPKYPKVKLVATV--YGD--DDAQKSYQEAQGLLKSYPNLKG 188 (302)
T ss_pred HHHHHHHcCCCcEEEEEECCCCCccHHHHHHHHHHHHhhccCCCCEEEeee--cCC--chHHHHHHHHHHHHHhCCCccE
Confidence 44443 32 226898887543221 123455666665543 3332211 111 112233344555443333 44
Q ss_pred EEEEcchHHHHHHHHHHHHcCCC
Q 008912 222 IVVHGYSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 222 iil~~~~~~~~~il~~a~~~g~~ 244 (549)
|+. .....+..+++.+++.|..
T Consensus 189 i~~-~~d~~a~ga~~al~~~g~~ 210 (302)
T TIGR02637 189 IIA-PTTVGIKAAAQAVSDAKLI 210 (302)
T ss_pred EEe-CCCchHHHHHHHHHhcCCC
Confidence 443 3345566677778887753
No 206
>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=94.42 E-value=0.52 Score=43.38 Aligned_cols=93 Identities=8% Similarity=-0.009 Sum_probs=71.5
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCC---C--CChhhHHHHHHHHhcCCC
Q 008912 145 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQ---S--VTETDVRNELVKVRMMEA 219 (549)
Q Consensus 145 ~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~---~--~~~~~~~~~l~~l~~~~~ 219 (549)
.-+.|+.+-++++|-+|++++. +|-...-+.+.+.+++.|++|.....+.... . .+...+.+.++++...++
T Consensus 106 t~~~A~~~AL~alg~~RIalvT---PY~~~v~~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~a 182 (239)
T TIGR02990 106 TPSSAAVDGLAALGVRRISLLT---PYTPETSRPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDA 182 (239)
T ss_pred CHHHHHHHHHHHcCCCEEEEEC---CCcHHHHHHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCC
Confidence 3468899999999999999997 5777788999999999999998765444321 0 123455566666666789
Q ss_pred eEEEEEcchHHHHHHHHHHHH
Q 008912 220 RVIVVHGYSRTGLMVFDVAQR 240 (549)
Q Consensus 220 ~viil~~~~~~~~~il~~a~~ 240 (549)
+.|++.|..-....++.++.+
T Consensus 183 DAifisCTnLrt~~vi~~lE~ 203 (239)
T TIGR02990 183 DALFLSCTALRAATCAQRIEQ 203 (239)
T ss_pred CEEEEeCCCchhHHHHHHHHH
Confidence 999999998888888888854
No 207
>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=94.38 E-value=4.7 Score=38.07 Aligned_cols=154 Identities=9% Similarity=0.005 Sum_probs=87.4
Q ss_pred hcCcEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEec
Q 008912 89 ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 168 (549)
Q Consensus 89 ~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~ 168 (549)
..+++++|-.........+.. +...++|+|........ ...+++ +.......+..+++.+...|-+++++|...
T Consensus 54 ~~~vdgiIi~~~~~~~~~~~~-l~~~~iPvV~i~~~~~~--~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i~~~ 127 (269)
T cd06287 54 ALDIDGAILVEPMADDPQVAR-LRQRGIPVVSIGRPPGD--RTDVPY---VDLQSAATARMLLEHLRAQGARQIALIVGS 127 (269)
T ss_pred ccCcCeEEEecCCCCCHHHHH-HHHcCCCEEEeCCCCCC--CCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEEeCC
Confidence 557887664221111222333 45569999987542210 112333 334566667778888888899999999643
Q ss_pred C--CcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCC
Q 008912 169 D--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 169 ~--~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~ 244 (549)
. .........+.+.+++.|+...... .... ....+-...++++.+. .+++|+ +.+...+..+++.+++.|+.
T Consensus 128 ~~~~~~~~R~~gf~~a~~~~g~~~~~~~-~~~~--~~~~~~~~~~~~~l~~~~~~~ai~-~~~d~~A~gvl~al~~~gl~ 203 (269)
T cd06287 128 ARRNSYLEAEAAYRAFAAEHGMPPVVLR-VDEA--GGEEAGYAACAQLLAQHPDLDALC-VPVDAFAVGAVRAATELGRA 203 (269)
T ss_pred cccccHHHHHHHHHHHHHHcCCCcceeE-ecCC--CChHHHHHHHHHHHhCCCCCCEEE-EcCcHHHHHHHHHHHHcCCC
Confidence 2 2334456778888888887532211 1111 1122323445555433 345444 45666778899999999987
Q ss_pred CCCeEEEE
Q 008912 245 DSGYVWIA 252 (549)
Q Consensus 245 ~~~~~~i~ 252 (549)
.+.-+-|+
T Consensus 204 vP~dvsvi 211 (269)
T cd06287 204 VPDQLRVV 211 (269)
T ss_pred CCCceEEE
Confidence 66545444
No 208
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=92.90 E-value=9.8 Score=37.03 Aligned_cols=149 Identities=9% Similarity=0.021 Sum_probs=81.8
Q ss_pred cCcEEEEc-CCCchHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEec
Q 008912 90 TDTLAIVG-PQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFND 168 (549)
Q Consensus 90 ~~v~aiiG-p~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~ 168 (549)
.+++++|- |..+. .....+...++|++......+ ...++ .+.......+..+++.+...|.++++++...
T Consensus 113 ~~vDgiI~~~~~~~---~~~~~l~~~~~pvV~~~~~~~---~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~~~ 183 (327)
T PRK10339 113 KNVTGILIVGKPTP---ALRAAASALTDNICFIDFHEP---GSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIGGE 183 (327)
T ss_pred ccCCEEEEeCCCCH---HHHHHHHhcCCCEEEEeCCCC---CCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeCCc
Confidence 57777774 32222 233445567899998643211 11223 2445666667788888888899999999643
Q ss_pred CC--cccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHHHHHHcCCC
Q 008912 169 DD--QGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 169 ~~--~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~~a~~~g~~ 244 (549)
.. ........+.+.++..|+ +.....+... .........++++.+. .++. |++++...+..++++++++|+.
T Consensus 184 ~~~~~~~~R~~gf~~~~~~~g~-~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~a-i~~~~D~~A~g~~~al~~~g~~ 259 (327)
T PRK10339 184 DEPGKADIREVAFAEYGRLKQV-VREEDIWRGG--FSSSSGYELAKQMLAREDYPKA-LFVASDSIAIGVLRAIHERGLN 259 (327)
T ss_pred cccchhhHHHHHHHHHHHHcCC-CChhheeecC--cChhHHHHHHHHHHhCCCCCCE-EEECCcHHHHHHHHHHHHcCCC
Confidence 32 233445567777777775 1110001111 1112223344444332 2444 4445556677899999999976
Q ss_pred CCCeEEE
Q 008912 245 DSGYVWI 251 (549)
Q Consensus 245 ~~~~~~i 251 (549)
.++-+-|
T Consensus 260 vP~di~v 266 (327)
T PRK10339 260 IPQDISL 266 (327)
T ss_pred CCCceEE
Confidence 5443333
No 209
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=92.50 E-value=9.6 Score=35.95 Aligned_cols=208 Identities=9% Similarity=-0.006 Sum_probs=107.4
Q ss_pred CCCCceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcE-EEEcCC
Q 008912 21 ALKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTL-AIVGPQ 99 (549)
Q Consensus 21 ~~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~-aiiGp~ 99 (549)
+...++..||+..|.-.. .++..-=...++.++.- |.+..+... .++...-......++++++. .||++.
T Consensus 20 aa~~~d~~IGis~~d~~~--eRW~~D~~~~~~~~e~~-----g~k~~~q~A--~~~~~~Q~~qien~i~qg~~vlvi~a~ 90 (341)
T COG4213 20 AAAAKDGVIGISMPDLRS--ERWIKDRDAFVKKAEAL-----GAKVDVQSA--DGDEEKQLAQIENMINQGVKVLVIGAI 90 (341)
T ss_pred hhhccCCeEEEEcCChhH--hhhhhhhHHHHHHHHhc-----cchhhhhhh--ccChhHHHHHHHHHHhcCCCEEEEEec
Confidence 467788999999987422 23322222223333332 444444443 45666677788889999775 456899
Q ss_pred CchHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEcc--CCcHHHHHHHHHHHHHcC----CcEEEEEEecCC---
Q 008912 100 SAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTA--PNDLYLMSAIAEMVSYFG----WGEVIAIFNDDD--- 170 (549)
Q Consensus 100 ~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~--ps~~~~~~ai~~~l~~~~----W~~v~ii~~~~~--- 170 (549)
++.....+-..+...+||+|+| +....+..+.|....- ---..|+.++.+-++.-. |.-+.+=.+.++
T Consensus 91 d~~~l~~~i~~A~~~gikViaY---DRlI~n~dvd~YvsFDN~~VG~lQa~~l~~~lk~k~~~~~gn~~l~~GSp~DnNA 167 (341)
T COG4213 91 DGGVLSNAVEKAKSEGIKVIAY---DRLINNADVDFYVSFDNEKVGELQAKALVKGLKLKPLTSEGNYVLLGGSPDDNNA 167 (341)
T ss_pred cchhHHHHHHHHHHcCCeEEEe---ecccccCCccEEEEecchhHHHHHHHHHHHHhccCCCCCCCCEEEecCCCCCcch
Confidence 9999988889999999999998 2323333333333222 112234555544444332 333333222222
Q ss_pred -ccc-chHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHh-c--CCCeEEEEEcchHHHHHHHHHHHHcCCC
Q 008912 171 -QGR-NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVR-M--MEARVIVVHGYSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 171 -~g~-~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~-~--~~~~viil~~~~~~~~~il~~a~~~g~~ 244 (549)
+.. ...+-|+..+..-.+.+......+.- ..+.-...++.+- + .+.+.|+-.-+ ..+.-.+..+...|+.
T Consensus 168 ~lf~~G~m~VLkp~idsGkik~~Ge~~~d~W---~ps~Aq~~men~lta~~~~vdaVvA~nD-gtagGaI~aL~a~Gl~ 242 (341)
T COG4213 168 KLFFAGAMKVLKPLIDSGKIKVVGEQWTDGW---LPSNAQQIMENLLTANYNDIDAVVAPND-GTAGGAIAALKAQGLA 242 (341)
T ss_pred HHHHhcHHHHHHHHhhCCceEEeeecccccc---CHHHHHHHHHHHHhcccCceeEEEcCCC-chhHHHHHHHHhcccC
Confidence 111 12333444444434555444443322 1222223333332 2 23344444333 4455567777777875
No 210
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=92.41 E-value=12 Score=36.79 Aligned_cols=209 Identities=14% Similarity=0.051 Sum_probs=100.5
Q ss_pred CCCceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEec-CCC-ChHHHHHHHHHHHhcCcEEEEcCC
Q 008912 22 LKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHD-AKF-NGFLSIMGALQFMETDTLAIVGPQ 99 (549)
Q Consensus 22 ~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d-~~~-~~~~a~~~~~~l~~~~v~aiiGp~ 99 (549)
...++++..+++.........+.+....+++.+-++. |.+++....+ ... +.....+...++.+++...|++..
T Consensus 30 ~~~~~~~~~~~~~~g~~~D~s~n~~~~~g~~~~~~~~----g~~~~~~~~~~~~~~~~~~~~~~~~~~a~~g~~lI~~~g 105 (345)
T COG1744 30 AAAGKKKKVAVIDVGGIDDKSFNQSAYEGLLKAKKEL----GLKVETYYWEYVQSDSEADYERALRALAEDGYDLIFGTG 105 (345)
T ss_pred cccccceEEEEEecCCCCccchhHHHHHHHHHHHHHh----CCceEeeeeeecCCcchhHHHHHHHHHHhcCCCEEEEec
Confidence 3344444444444432222334444444555544443 3445553333 222 345555666667778888888754
Q ss_pred CchHHHHHHHhhhhc-CCcEEecccCCCCCCC--CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEe-cCCcccch
Q 008912 100 SAVMAHVLSHLANEL-QVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN-DDDQGRNG 175 (549)
Q Consensus 100 ~s~~~~~va~~~~~~-~iP~Is~~~~~~~ls~--~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~-~~~~g~~~ 175 (549)
.. ...++..++..+ ++.++-. +..... ....+.||..-... ++-.++..+.+ -.+++.|.. +-+--...
T Consensus 106 f~-~~d~~~~va~~~Pd~~F~ii---d~~~~~~~Nv~s~~f~~~egay-L~G~~AA~~sk--~~~vG~vgg~~~p~v~~f 178 (345)
T COG1744 106 FA-FSDALEKVAAEYPDVKFVII---DGVVKKEDNVASYVFREYEGAY-LAGVAAAKMSK--SGKVGFVGGMDIPEVNRF 178 (345)
T ss_pred cc-hhhHHHHHHHHCCCCEEEEe---cCccCCCCceEEEEeccccHHH-HHHHHHHHhhc--CCceeEEecccchhhHHH
Confidence 43 444555565555 4444433 222221 23456777664333 33333333333 234444443 22323344
Q ss_pred HHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCC
Q 008912 176 VTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (549)
Q Consensus 176 ~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~ 243 (549)
...|..-++..+-.+.....+... ..+...-......+.+.++|||+-.+.+.... ++.+|++.+.
T Consensus 179 ~~gF~~Gak~~np~i~v~v~~~gs-f~D~~k~k~~a~~li~~GaDVI~~~ag~~~~g-v~~~A~~~~~ 244 (345)
T COG1744 179 INGFLAGAKSVNPDIKVKVVYVGS-FSDPAKGKEAANALIDQGADVIYPAAGGTGVG-VFQAAKELGA 244 (345)
T ss_pred HHHHHHHHHhhCCCccEEEEEecC-ccChHHHHHHHHHHHhcCCCEEEecCCCCcch-HHHHHHHhCC
Confidence 555555555443322222111111 01222334577788889999998877665443 3336777664
No 211
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=90.38 E-value=2.3 Score=41.95 Aligned_cols=92 Identities=12% Similarity=0.092 Sum_probs=70.1
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc
Q 008912 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (549)
Q Consensus 147 ~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 226 (549)
.+.+.+.++.+|++++-||.+..-.....++.+.+.+++.|+.+.....+.+. ...+....-++.+++.++|.||-.+
T Consensus 17 l~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~v~p~--P~~~~v~~~~~~~~~~~~D~iIalG 94 (377)
T COG1454 17 LKELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDEVEPE--PTIETVEAGAEVAREFGPDTIIALG 94 (377)
T ss_pred HHHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeEEEecCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35677788889999999999776555668899999999999877665555555 5677788888999999999999876
Q ss_pred ch--HHHHHHHHHHHH
Q 008912 227 YS--RTGLMVFDVAQR 240 (549)
Q Consensus 227 ~~--~~~~~il~~a~~ 240 (549)
.+ -++.+.+.....
T Consensus 95 GGS~~D~AK~i~~~~~ 110 (377)
T COG1454 95 GGSVIDAAKAIALLAE 110 (377)
T ss_pred CccHHHHHHHHHHHhh
Confidence 55 455555544443
No 212
>TIGR00035 asp_race aspartate racemase.
Probab=89.83 E-value=6.1 Score=36.29 Aligned_cols=45 Identities=13% Similarity=0.194 Sum_probs=27.5
Q ss_pred ChHHHHHHHHHHHh-cCcEEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 76 NGFLSIMGALQFME-TDTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 76 ~~~~a~~~~~~l~~-~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
++...+..+.+.+. .++.+++=+.++.... +..+-+..++|+|+.
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 34444444444444 4898888777665443 445556678888863
No 213
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=89.70 E-value=8.1 Score=33.63 Aligned_cols=100 Identities=9% Similarity=-0.012 Sum_probs=66.9
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhc--CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEE
Q 008912 145 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVI 222 (549)
Q Consensus 145 ~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 222 (549)
++...+.+.+...++ ++.++..+.. .++.+.+.+++. |+.++....-+ -+..+...+++.|+++++++|
T Consensus 35 dl~~~l~~~~~~~~~-~ifllG~~~~----~~~~~~~~l~~~yP~l~ivg~~~g~----f~~~~~~~i~~~I~~~~pdiv 105 (172)
T PF03808_consen 35 DLFPDLLRRAEQRGK-RIFLLGGSEE----VLEKAAANLRRRYPGLRIVGYHHGY----FDEEEEEAIINRINASGPDIV 105 (172)
T ss_pred HHHHHHHHHHHHcCC-eEEEEeCCHH----HHHHHHHHHHHHCCCeEEEEecCCC----CChhhHHHHHHHHHHcCCCEE
Confidence 355666666666666 6667775553 566667777665 66666543222 135667888999999999999
Q ss_pred EEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCCc
Q 008912 223 VVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTWL 256 (549)
Q Consensus 223 il~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~~ 256 (549)
++.........++...++.. ... +|+..+..
T Consensus 106 ~vglG~PkQE~~~~~~~~~l--~~~-v~i~vG~~ 136 (172)
T PF03808_consen 106 FVGLGAPKQERWIARHRQRL--PAG-VIIGVGGA 136 (172)
T ss_pred EEECCCCHHHHHHHHHHHHC--CCC-EEEEECch
Confidence 99988877777776665532 222 77777643
No 214
>cd06276 PBP1_FucR_like Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. FcuR acts as an inducer of fucRRIAK and as a corepressor of another locus that regulates production of fucosylated glycans. FcuR and its close homologs in this group are a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes t
Probab=89.62 E-value=17 Score=33.66 Aligned_cols=148 Identities=9% Similarity=-0.015 Sum_probs=85.4
Q ss_pred HHHHHHhcCcEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHH--cCCc
Q 008912 83 GALQFMETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY--FGWG 160 (549)
Q Consensus 83 ~~~~l~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~--~~W~ 160 (549)
.+.+.++.++.++|=-............+...++|++......+. ...+++ +......-+..+++.+.. .|-+
T Consensus 44 ~~~~~~~~~vdGvIi~~~~~~~~~~~~~~~~~~~PvV~i~~~~~~--~~~~~~---V~~D~~~~~~~a~~~L~~~~~G~~ 118 (247)
T cd06276 44 NIISNTKGKYSGYVVMPHFKNEIQYFLLKKIPKEKLLILDHSIPE--GGEYSS---VAQDFEKAIYNALQEGLEKLKKYK 118 (247)
T ss_pred HHHHHHhcCCCEEEEecCCCCcHHHHHHhccCCCCEEEEcCcCCC--CCCCCe---EEEccHHHHHHHHHHHHHHhcCCC
Confidence 334445667877773212111122344555578999987532211 112232 444666667778888888 8999
Q ss_pred EEEEEEecC-CcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 161 EVIAIFNDD-DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 161 ~v~ii~~~~-~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
++++|.... ..+....+.+.+.+++.|+.... .. . ... ..+ ...+ .|++.+...+..+++.++
T Consensus 119 ~Ia~i~~~~~~~~~~R~~gf~~~l~~~g~~~~~---~~-~----~~~-----~~~--~~~~-ai~~~~d~~A~g~~~~l~ 182 (247)
T cd06276 119 KLILVFPNKTAIPKEIKRGFERFCKDYNIETEI---IN-D----YEN-----REI--EKGD-LYIILSDTDLVFLIKKAR 182 (247)
T ss_pred EEEEEecCccHhHHHHHHHHHHHHHHcCCCccc---cc-c----cch-----hhc--cCCc-EEEEeCHHHHHHHHHHHH
Confidence 999997543 23445677888888888875431 11 0 000 001 1224 455566777888999999
Q ss_pred HcCCCCCCeEEE
Q 008912 240 RLGMMDSGYVWI 251 (549)
Q Consensus 240 ~~g~~~~~~~~i 251 (549)
+.|+..++-+=|
T Consensus 183 ~~g~~iP~disv 194 (247)
T cd06276 183 ESGLLLGKDIGI 194 (247)
T ss_pred HcCCcCCceeEE
Confidence 999865543333
No 215
>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=89.57 E-value=0.59 Score=43.73 Aligned_cols=65 Identities=12% Similarity=0.038 Sum_probs=49.1
Q ss_pred CCeEEEeecCcccccccEEeecCcceeeeeeHHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecc
Q 008912 461 GRQLRIGVPNRVSYRDFVFKVNGTDIVHGYCIDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKK 540 (549)
Q Consensus 461 ~~~~~v~~~~~~~~~~~~~~~~~~~~~~G~~idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~ 540 (549)
.++|+|++.. .+.++ .+.++..++.+++++++|++ ++++.. ++|+.++..|.+|++|+++.+
T Consensus 31 ~~~l~vg~~~--~~~~~--------~~~~~~~~l~~~l~~~~g~~--v~~~~~------~~~~~~~~~l~~g~~Di~~~~ 92 (254)
T TIGR01098 31 PKELNFGILP--GENAS--------NLTRRWEPLADYLEKKLGIK--VQLFVA------TDYSAVIEAMRFGRVDIAWFG 92 (254)
T ss_pred CCceEEEECC--CCCHH--------HHHHHHHHHHHHHHHHhCCc--EEEEeC------CCHHHHHHHHHcCCccEEEEC
Confidence 3568888753 22221 23455679999999999999 888764 379999999999999999976
Q ss_pred eEE
Q 008912 541 VAQ 543 (549)
Q Consensus 541 ~ti 543 (549)
...
T Consensus 93 ~~~ 95 (254)
T TIGR01098 93 PSS 95 (254)
T ss_pred cHH
Confidence 543
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=89.47 E-value=2.3 Score=36.20 Aligned_cols=98 Identities=15% Similarity=0.175 Sum_probs=61.0
Q ss_pred HHHHHHcCCcEEEEEEecC--CcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHH-HHHhcCCCeEEEEEcc
Q 008912 151 AEMVSYFGWGEVIAIFNDD--DQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNEL-VKVRMMEARVIVVHGY 227 (549)
Q Consensus 151 ~~~l~~~~W~~v~ii~~~~--~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l-~~l~~~~~~viil~~~ 227 (549)
++.|...|-+++++|.... .+.....+.|.+.+++.|+........... ......... ..+++..++.|| +.+
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~~pdaii-~~~ 76 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSDD---DSEDAREAQLLWLRRLRPDAII-CSN 76 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESS---SHHHHHHHHHHHHHTCSSSEEE-ESS
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCC---cchhHHHHHHHHHhcCCCcEEE-EcC
Confidence 4677888999999999332 334455678888999999876544333322 222222222 234434556544 477
Q ss_pred hHHHHHHHHHHHHcCCCCCCeEEEE
Q 008912 228 SRTGLMVFDVAQRLGMMDSGYVWIA 252 (549)
Q Consensus 228 ~~~~~~il~~a~~~g~~~~~~~~i~ 252 (549)
...+..+++.+.+.|+..++-+.|.
T Consensus 77 ~~~a~~~~~~l~~~g~~vP~di~vv 101 (160)
T PF13377_consen 77 DRLALGVLRALRELGIRVPQDISVV 101 (160)
T ss_dssp HHHHHHHHHHHHHTTSCTTTTSEEE
T ss_pred HHHHHHHHHHHHHcCCcccccccEE
Confidence 7788889999999998655444443
No 217
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=88.96 E-value=2.7 Score=42.00 Aligned_cols=88 Identities=10% Similarity=0.094 Sum_probs=62.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.-+.+.++.+|.+++.++++.........+.+.+.+++.|+.+.....+.+. ...++.....+.+++.++|.||-.+.
T Consensus 20 ~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~n--p~~~~v~~~~~~~~~~~~D~IiaiGG 97 (383)
T PRK09860 20 TDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPN--PTTENVAAGLKLLKENNCDSVISLGG 97 (383)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 4577788999999999888643333346788999999999876543334434 45677888889999999999997655
Q ss_pred h--HHHHHHHHH
Q 008912 228 S--RTGLMVFDV 237 (549)
Q Consensus 228 ~--~~~~~il~~ 237 (549)
+ -++.+.+..
T Consensus 98 GS~iD~AK~ia~ 109 (383)
T PRK09860 98 GSPHDCAKGIAL 109 (383)
T ss_pred chHHHHHHHHHH
Confidence 4 344444433
No 218
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=88.41 E-value=17 Score=32.10 Aligned_cols=90 Identities=12% Similarity=0.003 Sum_probs=62.8
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCC--C---CChhhHHHHHHHHhcCCCeEE
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQ--S---VTETDVRNELVKVRMMEARVI 222 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~--~---~~~~~~~~~l~~l~~~~~~vi 222 (549)
.|+++-|+.++-+++.++. +|-...-+...+.++.+|+.|.....+.... . ......-++-+++..-++|.|
T Consensus 107 ~Avv~aL~al~a~ri~vlT---PY~~evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~Dai 183 (238)
T COG3473 107 TAVVEALNALGAQRISVLT---PYIDEVNQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADAI 183 (238)
T ss_pred HHHHHHHHhhCcceEEEec---cchhhhhhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCeE
Confidence 5778889999999999997 6666777888889999999988665443221 0 011123345566667788999
Q ss_pred EEEcchHHHHHHHHHHHH
Q 008912 223 VVHGYSRTGLMVFDVAQR 240 (549)
Q Consensus 223 il~~~~~~~~~il~~a~~ 240 (549)
++.|..-....++....+
T Consensus 184 FiSCTnlRt~eii~~lE~ 201 (238)
T COG3473 184 FISCTNLRTFEIIEKLER 201 (238)
T ss_pred EEEeeccccHHHHHHHHH
Confidence 998887666666655543
No 219
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=88.20 E-value=3.3 Score=41.57 Aligned_cols=86 Identities=12% Similarity=0.051 Sum_probs=61.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.-+.+.++.+|.+++.++.+..-......+.+.+.+++.|+.+.....+.+. .......+.++..++.++|.||-.+.
T Consensus 38 ~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~--P~~~~v~~~~~~~r~~~~D~IiavGG 115 (395)
T PRK15454 38 SSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGE--PCITDVCAAVAQLRESGCDGVIAFGG 115 (395)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 5567788899999988776544333345788999999999877544334433 44667888888999999999998776
Q ss_pred hH--HHHHHH
Q 008912 228 SR--TGLMVF 235 (549)
Q Consensus 228 ~~--~~~~il 235 (549)
+. ++.+.+
T Consensus 116 GS~iD~AKai 125 (395)
T PRK15454 116 GSVLDAAKAV 125 (395)
T ss_pred hHHHHHHHHH
Confidence 53 344443
No 220
>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=87.61 E-value=3.7 Score=41.57 Aligned_cols=86 Identities=9% Similarity=0.044 Sum_probs=61.4
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
+-+.++++.++.+++.+|++.........+.+.+.+++.|+.+.....+.+. .+.+.+...++.+++.+++.||-.+.
T Consensus 12 ~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 89 (414)
T cd08190 12 AEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVE--PTDESFKDAIAFAKKGQFDAFVAVGG 89 (414)
T ss_pred HHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 5567788999999999998665444445788899998888876543333433 45667788888888899999988765
Q ss_pred h--HHHHHHH
Q 008912 228 S--RTGLMVF 235 (549)
Q Consensus 228 ~--~~~~~il 235 (549)
+ -++.+.+
T Consensus 90 GSviD~AKai 99 (414)
T cd08190 90 GSVIDTAKAA 99 (414)
T ss_pred ccHHHHHHHH
Confidence 5 3444444
No 221
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=87.35 E-value=4.1 Score=40.76 Aligned_cols=87 Identities=13% Similarity=0.132 Sum_probs=60.8
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc
Q 008912 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (549)
Q Consensus 147 ~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 226 (549)
...+.+.++.++.+++.+|++....-....+.+.+.+++.|+.+.....+.+. ...+.....++.+++.+++.||-.+
T Consensus 18 l~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 95 (382)
T PRK10624 18 IGALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPN--PTIEVVKEGVEVFKASGADYLIAIG 95 (382)
T ss_pred HHHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35577888899999998888654333336788899999888876543334333 3466778888888888999988765
Q ss_pred ch--HHHHHHH
Q 008912 227 YS--RTGLMVF 235 (549)
Q Consensus 227 ~~--~~~~~il 235 (549)
.+ -++.+.+
T Consensus 96 GGS~iD~aK~i 106 (382)
T PRK10624 96 GGSPQDTCKAI 106 (382)
T ss_pred ChHHHHHHHHH
Confidence 54 3444443
No 222
>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=87.20 E-value=4.2 Score=40.56 Aligned_cols=88 Identities=13% Similarity=0.096 Sum_probs=62.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.-+.++++.++.+++.+|++.........+.+.+.+++.|+++.....+.+. .+...+...++..+..+++.||-.+.
T Consensus 13 ~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 90 (370)
T cd08192 13 KELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAALFDEVPPN--PTEAAVEAGLAAYRAGGCDGVIAFGG 90 (370)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4577788889999998888654433335788999999888877543334444 45667888888888899999997655
Q ss_pred h--HHHHHHHHH
Q 008912 228 S--RTGLMVFDV 237 (549)
Q Consensus 228 ~--~~~~~il~~ 237 (549)
+ -++.+++..
T Consensus 91 GSviD~aK~ia~ 102 (370)
T cd08192 91 GSALDLAKAVAL 102 (370)
T ss_pred chHHHHHHHHHH
Confidence 4 455555443
No 223
>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=86.58 E-value=4.3 Score=38.11 Aligned_cols=86 Identities=14% Similarity=0.121 Sum_probs=64.6
Q ss_pred EEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHH
Q 008912 28 NVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 28 ~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~v 107 (549)
+||.+-....+.-.....++...++..| |+.++...+..+..|+.++.+.+..++++++++|++.... ..+
T Consensus 122 kVG~I~g~~~~~~~~~~~gF~~G~~~~~------p~~~v~~~~~g~~~D~~~a~~~a~~l~~~G~DvI~~~~~~---~g~ 192 (258)
T cd06353 122 KVGYVAAFPIPEVVRGINAFALGARSVN------PDATVKVIWTGSWFDPAKEKEAALALIDQGADVIYQHTDS---PGV 192 (258)
T ss_pred cEEEEcCcccHHHHHHHHHHHHHHHHHC------CCcEEEEEEecCCCCcHHHHHHHHHHHHCCCcEEEecCCC---hHH
Confidence 6888877754433456788888888877 4567777777777899999999999999999988876522 345
Q ss_pred HHhhhhcCCcEEecc
Q 008912 108 SHLANELQVPLLSFT 122 (549)
Q Consensus 108 a~~~~~~~iP~Is~~ 122 (549)
...+...++..|.+.
T Consensus 193 ~~aa~~~g~~~IG~d 207 (258)
T cd06353 193 IQAAEEKGVYAIGYV 207 (258)
T ss_pred HHHHHHhCCEEEeec
Confidence 556667789888764
No 224
>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=86.46 E-value=4.8 Score=40.23 Aligned_cols=88 Identities=14% Similarity=0.123 Sum_probs=61.9
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
+-+.++++.++.+++.+|++.........+.+...+++.|+.+.....+.+. .+.+.+...++.+++.+++.||-.+.
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 92 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEVTVFDDVEAD--PPEAVVEAAVEAARAAGADGVIGFGG 92 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4567778888999998888654333345788888999888876543334443 45677888889999889999988766
Q ss_pred h--HHHHHHHHH
Q 008912 228 S--RTGLMVFDV 237 (549)
Q Consensus 228 ~--~~~~~il~~ 237 (549)
+ -++.+++..
T Consensus 93 Gs~iD~aK~ia~ 104 (376)
T cd08193 93 GSSMDVAKLVAV 104 (376)
T ss_pred chHHHHHHHHHH
Confidence 5 344444433
No 225
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=85.65 E-value=7.3 Score=37.14 Aligned_cols=96 Identities=13% Similarity=0.090 Sum_probs=71.2
Q ss_pred CCCCceEEccCCcHHHHHH----HHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhh
Q 008912 131 LQYPFFVQTAPNDLYLMSA----IAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETD 206 (549)
Q Consensus 131 ~~~~~~~r~~ps~~~~~~a----i~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~ 206 (549)
+.-+|.|-+.||....+.+ +..-++..|.|++.+|.+..-.-....+..++.++++|+.+.......+. .+..+
T Consensus 38 k~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~~vyD~v~~e--Ptv~s 115 (465)
T KOG3857|consen 38 KMMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINVEVYDKVQPE--PTVGS 115 (465)
T ss_pred ccceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCceEEecCccCC--Cchhh
Confidence 3456777778887766655 34457889999999998766544456788889999999998865555544 45677
Q ss_pred HHHHHHHHhcCCCeEEEEEcch
Q 008912 207 VRNELVKVRMMEARVIVVHGYS 228 (549)
Q Consensus 207 ~~~~l~~l~~~~~~viil~~~~ 228 (549)
+...++-.|+...+.+|-.+.+
T Consensus 116 ~~~alefak~~~fDs~vaiGGG 137 (465)
T KOG3857|consen 116 VTAALEFAKKKNFDSFVAIGGG 137 (465)
T ss_pred HHHHHHHHHhcccceEEEEcCc
Confidence 8888888888888888776554
No 226
>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=85.46 E-value=6.3 Score=39.25 Aligned_cols=88 Identities=11% Similarity=0.120 Sum_probs=62.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
+-+.++++.++.+++.+|++.........+.+.+.+++.|+.+.....+... .+.+++...++.++..+++.||-.+.
T Consensus 12 ~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~IiaiGG 89 (370)
T cd08551 12 EKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPN--PTLSNVDAAVAAYREEGCDGVIAVGG 89 (370)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 5677778889999999998654433356678889998888876543334433 45677888889998889999887655
Q ss_pred h--HHHHHHHHH
Q 008912 228 S--RTGLMVFDV 237 (549)
Q Consensus 228 ~--~~~~~il~~ 237 (549)
+ -++.+++..
T Consensus 90 Gs~~D~AK~va~ 101 (370)
T cd08551 90 GSVLDTAKAIAL 101 (370)
T ss_pred chHHHHHHHHHH
Confidence 4 445555543
No 227
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=85.00 E-value=6.1 Score=39.41 Aligned_cols=89 Identities=15% Similarity=0.136 Sum_probs=62.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
+-+.+.++.++-+++.+|++.........+.+.+.+++.|+.+.....+.+. ...+.....++.+++.+++.||-.+.
T Consensus 15 ~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 92 (374)
T cd08189 15 AQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPD--PTIENVEAGLALYRENGCDAILAVGG 92 (374)
T ss_pred HHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4567778888889998888654333335688889998888876544344444 45667888888999899999997655
Q ss_pred h--HHHHHHHHHH
Q 008912 228 S--RTGLMVFDVA 238 (549)
Q Consensus 228 ~--~~~~~il~~a 238 (549)
+ -++.+++...
T Consensus 93 GS~~D~aK~ia~~ 105 (374)
T cd08189 93 GSVIDCAKAIAAR 105 (374)
T ss_pred ccHHHHHHHHHHH
Confidence 4 4555554433
No 228
>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=84.97 E-value=6.1 Score=39.52 Aligned_cols=87 Identities=15% Similarity=0.139 Sum_probs=60.5
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc
Q 008912 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (549)
Q Consensus 147 ~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 226 (549)
...+.+.++.+|.+++.+|++....-....+.+.+.+++.|+.+.....+.+. ...+......+.+++.+++.||-.+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IiaiG 94 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPN--PTITVVKAGVAAFKASGADYLIAIG 94 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34567778889999998888654333336788889999888876543333333 4466778888888889999999776
Q ss_pred ch--HHHHHHH
Q 008912 227 YS--RTGLMVF 235 (549)
Q Consensus 227 ~~--~~~~~il 235 (549)
.+ -++.+.+
T Consensus 95 GGSviD~aKai 105 (379)
T TIGR02638 95 GGSPIDTAKAI 105 (379)
T ss_pred ChHHHHHHHHH
Confidence 54 3444443
No 229
>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=84.66 E-value=23 Score=30.69 Aligned_cols=101 Identities=13% Similarity=-0.027 Sum_probs=62.9
Q ss_pred cHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhc--CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCe
Q 008912 143 DLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEAR 220 (549)
Q Consensus 143 ~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~ 220 (549)
..++...+.+.+...+ .++.++....+ .++.+.+.+++. |+.++....-+- ...+-...++.|++++++
T Consensus 31 g~dl~~~ll~~~~~~~-~~v~llG~~~~----~~~~~~~~l~~~yp~l~i~g~~~g~~----~~~~~~~i~~~I~~~~pd 101 (171)
T cd06533 31 GSDLMPALLELAAQKG-LRVFLLGAKPE----VLEKAAERLRARYPGLKIVGYHHGYF----GPEEEEEIIERINASGAD 101 (171)
T ss_pred cHHHHHHHHHHHHHcC-CeEEEECCCHH----HHHHHHHHHHHHCCCcEEEEecCCCC----ChhhHHHHHHHHHHcCCC
Confidence 3345556666665555 56667765543 455555556554 677776432221 133334588999999999
Q ss_pred EEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCC
Q 008912 221 VIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTW 255 (549)
Q Consensus 221 viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 255 (549)
+|++.+.......++...++.. ..-+++..+.
T Consensus 102 iv~vglG~PkQE~~~~~~~~~l---~~~v~~~vG~ 133 (171)
T cd06533 102 ILFVGLGAPKQELWIARHKDRL---PVPVAIGVGG 133 (171)
T ss_pred EEEEECCCCHHHHHHHHHHHHC---CCCEEEEece
Confidence 9999988887777777766543 3345666543
No 230
>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=84.56 E-value=7 Score=39.00 Aligned_cols=86 Identities=12% Similarity=0.059 Sum_probs=61.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.-+.+.++.++.+++.+|++...+.....+.+.+.+++.|+.+.....+.+. .....+.+.++.++..+++.||-.+.
T Consensus 12 ~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 89 (375)
T cd08194 12 DETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSE--PTDESVEEGVKLAKEGGCDVIIALGG 89 (375)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4456777778889999998655443336788999999889877644444444 45667888888999899999997665
Q ss_pred h--HHHHHHH
Q 008912 228 S--RTGLMVF 235 (549)
Q Consensus 228 ~--~~~~~il 235 (549)
+ -++.+++
T Consensus 90 GS~~D~AKai 99 (375)
T cd08194 90 GSPIDTAKAI 99 (375)
T ss_pred chHHHHHHHH
Confidence 4 3444444
No 231
>PRK10200 putative racemase; Provisional
Probab=84.40 E-value=17 Score=33.32 Aligned_cols=86 Identities=12% Similarity=0.022 Sum_probs=51.4
Q ss_pred ChHHHHHHHHHHHhc-CcEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHH
Q 008912 76 NGFLSIMGALQFMET-DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV 154 (549)
Q Consensus 76 ~~~~a~~~~~~l~~~-~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l 154 (549)
++...+...++.+.+ |+.+++=|.++.... ...+-+..++|+|+. .++....+
T Consensus 59 ~~~~~l~~~~~~L~~~g~~~iviaCNTah~~-~~~l~~~~~iPii~i-------------------------i~~~~~~~ 112 (230)
T PRK10200 59 KTGDILAEAALGLQRAGAEGIVLCTNTMHKV-ADAIESRCSLPFLHI-------------------------ADATGRAI 112 (230)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEECCchHHHH-HHHHHHhCCCCEeeh-------------------------HHHHHHHH
Confidence 566666666666554 899999887776555 455666678888863 12233334
Q ss_pred HHcCCcEEEEEEecCCcccchHHHHHHHHhhc-CeEE
Q 008912 155 SYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI-RCKI 190 (549)
Q Consensus 155 ~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~-g~~v 190 (549)
+..+-++|+++..... -....+++.+.+. |+++
T Consensus 113 ~~~~~~~VglLaT~~T---i~s~~Y~~~l~~~~g~~~ 146 (230)
T PRK10200 113 TGAGMTRVALLGTRYT---MEQDFYRGRLTEQFSINC 146 (230)
T ss_pred HHcCCCeEEEeccHHH---HHHhHHHHHHHHhcCCeE
Confidence 4446677777775443 1233444554433 6554
No 232
>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=83.76 E-value=4.1 Score=40.55 Aligned_cols=89 Identities=17% Similarity=0.183 Sum_probs=64.4
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
..+.+.++.+| ++.+|++.........+.+.+.+++.|+.+.....+... ....++...++.+++.+++.||-.+.
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 87 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSKSGLVDRVLDALEEAGIEVQVFDGVGPN--PTLEDVDEAAEQARKFGADCIIAIGG 87 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHHHTHHHHHHHHHHHTTCEEEEEEEESSS---BHHHHHHHHHHHHHTTSSEEEEEES
T ss_pred HHHHHHHHhcC--CEEEEECchHHhCccHHHHHHHHhhCceEEEEEecCCCC--CcHHHHHHHHHHHHhcCCCEEEEcCC
Confidence 45667788887 998998763222336789999999999988665555555 56788899999999999999998776
Q ss_pred h--HHHHHHHHHHHH
Q 008912 228 S--RTGLMVFDVAQR 240 (549)
Q Consensus 228 ~--~~~~~il~~a~~ 240 (549)
+ -++.+++.....
T Consensus 88 GS~~D~aK~va~~~~ 102 (366)
T PF00465_consen 88 GSVMDAAKAVALLLA 102 (366)
T ss_dssp HHHHHHHHHHHHHHT
T ss_pred CCcCcHHHHHHhhcc
Confidence 5 345555555444
No 233
>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=81.94 E-value=10 Score=37.87 Aligned_cols=87 Identities=13% Similarity=0.043 Sum_probs=59.3
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc
Q 008912 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (549)
Q Consensus 147 ~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 226 (549)
...+.++++.++.+++.+|++.........+.+.+.+++.|+.+.....+... .......+.++.++..+++.||-.+
T Consensus 16 l~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IIaiG 93 (377)
T cd08188 16 LKLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPN--PRDEEVMAGAELYLENGCDVIIAVG 93 (377)
T ss_pred HHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35567778888999999888654333335678888888888766543333333 3456677888888888999999776
Q ss_pred ch--HHHHHHH
Q 008912 227 YS--RTGLMVF 235 (549)
Q Consensus 227 ~~--~~~~~il 235 (549)
.+ -++.+.+
T Consensus 94 GGsviD~AK~i 104 (377)
T cd08188 94 GGSPIDCAKGI 104 (377)
T ss_pred CchHHHHHHHH
Confidence 54 3444443
No 234
>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=81.93 E-value=9.8 Score=38.05 Aligned_cols=87 Identities=11% Similarity=0.081 Sum_probs=60.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCc-ccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQ-GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~-g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 226 (549)
.-+.++++.++ +++.+|++.... .....+.+.+.+++.|+.+.....+.+. ....+..+..+.+++.+++.||-.+
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IiavG 91 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPN--PTTTTVMEGAALAREEGCDFVVGLG 91 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCC--CCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 44667778788 999888865432 3456788888999888877543334444 4566788888888889999999765
Q ss_pred ch--HHHHHHHHH
Q 008912 227 YS--RTGLMVFDV 237 (549)
Q Consensus 227 ~~--~~~~~il~~ 237 (549)
.+ -++.+.+..
T Consensus 92 GGS~iD~aK~ia~ 104 (380)
T cd08185 92 GGSSMDTAKAIAF 104 (380)
T ss_pred CccHHHHHHHHHH
Confidence 54 445544433
No 235
>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=81.90 E-value=44 Score=31.05 Aligned_cols=208 Identities=9% Similarity=0.036 Sum_probs=108.6
Q ss_pred ceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCC--CChHHHHHHHHHHHhc-CcEEEEc-CCC
Q 008912 25 EVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK--FNGFLSIMGALQFMET-DTLAIVG-PQS 100 (549)
Q Consensus 25 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~--~~~~~a~~~~~~l~~~-~v~aiiG-p~~ 100 (549)
+.++||++.+..+. +....++++..+++--.. .|.-..+-+. .........+..|.++ .+-|||- ...
T Consensus 1 ~~~kIGivTgtvSq-~ed~~r~Ae~l~~~Yg~~-------~I~h~tyPdnf~~e~EttIskI~~lAdDp~mKaIVv~q~v 72 (275)
T PF12683_consen 1 EDYKIGIVTGTVSQ-SEDEYRGAEELIKKYGDV-------MIKHVTYPDNFMSEQETTISKIVSLADDPDMKAIVVSQAV 72 (275)
T ss_dssp --EEEEEEE--TTT--HHHHHHHHHHHHHHHHH-------EEEEEE--TTGGGCHHHHHHHHHGGGG-TTEEEEEEE-SS
T ss_pred CceEEEEEeCCccc-ChHHHHHHHHHHHHhCcc-------eEEEEeCCCcccchHHHHHHHHHHhccCCCccEEEEeCCC
Confidence 36899999877542 345567777777764332 4555554322 2344555555565555 5666553 344
Q ss_pred chHHHHHHHhhh-hcCCcEEecccCC-CCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchH--
Q 008912 101 AVMAHVLSHLAN-ELQVPLLSFTALD-PTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGV-- 176 (549)
Q Consensus 101 s~~~~~va~~~~-~~~iP~Is~~~~~-~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~-- 176 (549)
.+.+.+...+=+ +-.|..|+-.... |..-.+.-. +-+.+.....+..++...+.+|-+.++.+.....-+...+
T Consensus 73 pGt~~af~kIkekRpDIl~ia~~~~EDp~~i~~~aD--i~~~~D~~~~G~~i~~~Ak~mGAktFVh~sfprhms~~~l~~ 150 (275)
T PF12683_consen 73 PGTAEAFRKIKEKRPDILLIAGEPHEDPEVISSAAD--IVVNPDEISRGYTIVWAAKKMGAKTFVHYSFPRHMSYELLAR 150 (275)
T ss_dssp ---HHHHHHHHHH-TTSEEEESS--S-HHHHHHHSS--EEEE--HHHHHHHHHHHHHHTT-S-EEEEEETTGGGSHHHHH
T ss_pred cchHHHHHHHHhcCCCeEEEcCCCcCCHHHHhhccC--eEeccchhhccHHHHHHHHHcCCceEEEEechhhcchHHHHH
Confidence 455666666543 3467666632221 111011112 3444777788999999999999999988865554444443
Q ss_pred --HHHHHHHhhcCeEEEEEEccCCCCCCChhhH-----HHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcC
Q 008912 177 --TALGDKLAEIRCKISYKSALPPDQSVTETDV-----RNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 242 (549)
Q Consensus 177 --~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~-----~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g 242 (549)
+.+++..++.|++.+....-.+....+.... ..+-+.+++-+.++-+.++.......+++++.+.|
T Consensus 151 Rr~~M~~~C~~lGi~fv~~taPDP~sd~gv~gaqqfIlE~vp~~i~kYGkdtaff~TN~a~~epllk~~~~~g 223 (275)
T PF12683_consen 151 RRDIMEEACKDLGIKFVEVTAPDPTSDVGVAGAQQFILEDVPKWIKKYGKDTAFFCTNDAMTEPLLKQALEYG 223 (275)
T ss_dssp HHHHHHHHHHHCT--EEEEEE---SSTCHHHHHHHHHHHHHHHHHHHH-S--EEEESSHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHcCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHhCCceeEEecCccccHHHHHHHHHcC
Confidence 4455566778998887654433310111111 22334556678899999999888999999998876
No 236
>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=80.98 E-value=12 Score=37.11 Aligned_cols=85 Identities=7% Similarity=0.117 Sum_probs=58.6
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcc-cchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQG-RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g-~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 226 (549)
.-+.++++.++ +++.+|++...+- ....+.+.+.+++.|+.+.....+.+. .+.++..+..+.+++.+++.||-.+
T Consensus 15 ~~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavG 91 (357)
T cd08181 15 EKHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEEN--PSLETIMEAVEIAKKFNADFVIGIG 91 (357)
T ss_pred HHHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 34567788888 8998888654322 234678888898888876644334444 4567788888899999999999876
Q ss_pred chH--HHHHHH
Q 008912 227 YSR--TGLMVF 235 (549)
Q Consensus 227 ~~~--~~~~il 235 (549)
.+. ++.+.+
T Consensus 92 GGSviD~aK~i 102 (357)
T cd08181 92 GGSPLDAAKAI 102 (357)
T ss_pred CchHHHHHHHH
Confidence 653 444433
No 237
>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=79.85 E-value=11 Score=37.66 Aligned_cols=86 Identities=15% Similarity=0.182 Sum_probs=59.4
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
..+.+.++.++-+++.+|++.........+.+.+.+++.|+.+.....+.+. .+.....+..+.+++.+++.||-.+.
T Consensus 17 ~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 94 (377)
T cd08176 17 KEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPN--PTITNVKDGLAVFKKEGCDFIISIGG 94 (377)
T ss_pred HHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4567778888888998887544322246778889998888876543334333 45667888888888899999997665
Q ss_pred h--HHHHHHH
Q 008912 228 S--RTGLMVF 235 (549)
Q Consensus 228 ~--~~~~~il 235 (549)
+ -++.+.+
T Consensus 95 GS~iD~aK~i 104 (377)
T cd08176 95 GSPHDCAKAI 104 (377)
T ss_pred cHHHHHHHHH
Confidence 4 3444444
No 238
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=79.38 E-value=15 Score=34.20 Aligned_cols=99 Identities=16% Similarity=0.258 Sum_probs=55.6
Q ss_pred HHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch
Q 008912 149 AIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (549)
Q Consensus 149 ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 228 (549)
-+.+++++++.+++.+|++...+ ....+.+.+.++..|+.+......... .+.........+++..++++||-.+.+
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~-~~~g~~v~~~l~~~g~~v~~~~~~~~~--~~~~~~~~~~~~~~~~~~d~ii~vGgG 85 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY-KAAGEKVEESLKSAGIEVAVIEEFVGD--ADEDEVEKLVEALRPKDADLIIGVGGG 85 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH-HHHHHHHHHHHHTTT-EEEEEE-EE-----BHHHHHHHHTTS--TT--EEEEEESH
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH-HHHHHHHHHHHHHcCCeEEEEecCCCC--CCHHHHHHHHHHhcccCCCEEEEeCCc
Confidence 35678888889999999876643 344578888899999888743322222 234555566666666677877777666
Q ss_pred HHHHHHHHH-HHHcCCCCCCeEEEEeC
Q 008912 229 RTGLMVFDV-AQRLGMMDSGYVWIATT 254 (549)
Q Consensus 229 ~~~~~il~~-a~~~g~~~~~~~~i~~~ 254 (549)
. +..+-+. |.+++ ..|+-+-|.
T Consensus 86 ~-i~D~~K~~A~~~~---~p~isVPTa 108 (250)
T PF13685_consen 86 T-IIDIAKYAAFELG---IPFISVPTA 108 (250)
T ss_dssp H-HHHHHHHHHHHHT-----EEEEES-
T ss_pred H-HHHHHHHHHHhcC---CCEEEeccc
Confidence 4 3333333 44555 345666554
No 239
>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=79.27 E-value=15 Score=36.76 Aligned_cols=87 Identities=11% Similarity=0.172 Sum_probs=57.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.-+.++++.++ +++.+|++.........+.+.+.+++.|+.+.....+.+. ....+....++..++.+++.||-.+.
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~--~~~~~v~~~~~~~~~~~~D~IIaiGG 88 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAGTPVFAELVQALAAAGVEVEVFDGVLPD--LPRSELCDAASAAARAGPDVIIGLGG 88 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhhcchHHHHHHHHHHcCCeEEEECCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 44667788888 8998888544333356788888898888876543323322 23455666777778888999887765
Q ss_pred h--HHHHHHHHH
Q 008912 228 S--RTGLMVFDV 237 (549)
Q Consensus 228 ~--~~~~~il~~ 237 (549)
+ -++.+++..
T Consensus 89 GS~iD~aK~ia~ 100 (386)
T cd08191 89 GSCIDLAKIAGL 100 (386)
T ss_pred chHHHHHHHHHH
Confidence 4 345555443
No 240
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed
Probab=78.32 E-value=1.5 Score=41.93 Aligned_cols=38 Identities=8% Similarity=0.028 Sum_probs=32.7
Q ss_pred CCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecceEEeeccc
Q 008912 502 LPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKKVAQLTRVS 548 (549)
Q Consensus 502 l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~~ti~~~r~ 548 (549)
-+.+ .++... .|+.++..|.+|++|+++++++++.||.
T Consensus 42 p~~~--ie~~~~-------~~~~i~~~L~sG~vDlgi~g~~~~~er~ 79 (287)
T PRK00489 42 EDNP--IEVLFL-------RPDDIPGYVADGVVDLGITGEDLLEESG 79 (287)
T ss_pred CCCC--EEEEEE-------CcHHHHHHHHcCCCCEEEcchHHHHHCC
Confidence 3455 677777 8999999999999999999999998874
No 241
>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=78.19 E-value=11 Score=37.30 Aligned_cols=83 Identities=12% Similarity=0.124 Sum_probs=57.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.-+.++++.++ +++.+|++...+. ...+.+.+.+++.|+.+.+.. +... ....+.....+.+++.++|.||-.+.
T Consensus 12 ~~l~~~~~~~~-~r~livt~~~~~~-~~~~~v~~~L~~~~i~~~~~~-~~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 86 (351)
T cd08170 12 DELGEYLARLG-KRALIIADEFVLD-LVGAKIEESLAAAGIDARFEV-FGGE--CTRAEIERLAEIARDNGADVVIGIGG 86 (351)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHHH-HHHHHHHHHHHhCCCeEEEEE-eCCc--CCHHHHHHHHHHHhhcCCCEEEEecC
Confidence 44667777776 8998888544433 567888888988888776433 4433 34667888888888889999888766
Q ss_pred hH--HHHHHH
Q 008912 228 SR--TGLMVF 235 (549)
Q Consensus 228 ~~--~~~~il 235 (549)
+. ++.+++
T Consensus 87 GS~iD~aK~i 96 (351)
T cd08170 87 GKTLDTAKAV 96 (351)
T ss_pred chhhHHHHHH
Confidence 53 344444
No 242
>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=78.01 E-value=16 Score=36.37 Aligned_cols=85 Identities=11% Similarity=0.140 Sum_probs=58.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.-+.++++.++.+++.+|++...+ ....+.+.+++.|+.+.....+.+. .+.+...+.++.+++.+++.||-.+.
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~D~IIavGG 86 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA---IASGLTDILKPLGTLVVVFDDVQPN--PDLEDLAAGIRLLREFGPDAVLAVGG 86 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH---HHHHHHHHHHHcCCeEEEEcCcCCC--cCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 446677888899999999855443 4566777888888765543334433 34667788888888889999987665
Q ss_pred h--HHHHHHHHH
Q 008912 228 S--RTGLMVFDV 237 (549)
Q Consensus 228 ~--~~~~~il~~ 237 (549)
+ -++.+++..
T Consensus 87 Gs~~D~aK~ia~ 98 (367)
T cd08182 87 GSVLDTAKALAA 98 (367)
T ss_pred cHHHHHHHHHHH
Confidence 4 445555544
No 243
>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=75.81 E-value=15 Score=36.22 Aligned_cols=85 Identities=16% Similarity=0.121 Sum_probs=56.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.-+.+.++.++ +++.+|++...+ ....+.+.+.+++.|+.+.....+... ...+......+..++.+++.||-.+.
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~-~~~~~~v~~~l~~~~~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~iiavGG 87 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTAL-AAAKDKIKAALEQSGIEITDFIWYGGE--STYENVERLKKNPAVQEADMIFAVGG 87 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHH-HHHHHHHHHHHHHCCCeEEEEEecCCC--CCHHHHHHHHHHHhhcCCCEEEEeCC
Confidence 44566777777 899888854433 334677888888888876544444443 34666777778888888999987665
Q ss_pred h--HHHHHHHH
Q 008912 228 S--RTGLMVFD 236 (549)
Q Consensus 228 ~--~~~~~il~ 236 (549)
+ -++.+++.
T Consensus 88 Gs~~D~aK~ia 98 (345)
T cd08171 88 GKAIDTVKVLA 98 (345)
T ss_pred cHHHHHHHHHH
Confidence 5 34444443
No 244
>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=75.38 E-value=9.4 Score=35.51 Aligned_cols=78 Identities=9% Similarity=0.058 Sum_probs=54.6
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEE-cchHHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH-GYSRTGLMVFDVA 238 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~-~~~~~~~~il~~a 238 (549)
|++|.. ++.|.......+++.+++.|+.+... .+.. .+.......++++.+.+++.||+. .+......+++.+
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~--~~~~--~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~ 76 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGYEVEIV--FDAQ--NDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKA 76 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTCEEEEE--EEST--TTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHH
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCCEEEEe--CCCC--CCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHH
Confidence 345554 34566777888888899999888775 1211 234556677777777889988876 4556677899999
Q ss_pred HHcCC
Q 008912 239 QRLGM 243 (549)
Q Consensus 239 ~~~g~ 243 (549)
.+.|+
T Consensus 77 ~~~gI 81 (257)
T PF13407_consen 77 KAAGI 81 (257)
T ss_dssp HHTTS
T ss_pred hhcCc
Confidence 88875
No 245
>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=74.97 E-value=26 Score=29.65 Aligned_cols=81 Identities=11% Similarity=0.063 Sum_probs=57.2
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEE
Q 008912 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (549)
Q Consensus 146 ~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 225 (549)
.++.+..++++++-+++.++ +|........+.+...+...|+++.... ..+....+++-+..+.++++++
T Consensus 12 HGQV~~~W~~~~~~~~IvVv-dD~~A~D~~~k~~l~ma~P~gvk~~i~s---------ve~a~~~l~~~~~~~~~v~il~ 81 (151)
T cd00001 12 HGQVATTWTKELNANRIIVV-NDEVANDELRKTLLKLAAPPGVKLRIFT---------VEKAIEAINSPKYDKQRVFLLF 81 (151)
T ss_pred hhHhhhhhhcccCCCEEEEE-cccccCCHHHHHHHHhhCCCCCeEEEEE---------HHHHHHHHhCcCCCCceEEEEE
Confidence 57889999999999999655 4555555566677776666787766532 2344455555445667899999
Q ss_pred cchHHHHHHHH
Q 008912 226 GYSRTGLMVFD 236 (549)
Q Consensus 226 ~~~~~~~~il~ 236 (549)
-++.++..+++
T Consensus 82 k~~~~~~~l~~ 92 (151)
T cd00001 82 KNPQDVLRLVE 92 (151)
T ss_pred CCHHHHHHHHH
Confidence 99998887765
No 246
>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=74.93 E-value=21 Score=34.94 Aligned_cols=87 Identities=13% Similarity=0.186 Sum_probs=57.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.-+.+.++.++.+++.+|++..... ...+.+.+.+++. +.+.......+. .+.++....++.+++.+++.||-.+.
T Consensus 12 ~~l~~~~~~~g~~~~liv~~~~~~~-~~~~~v~~~l~~~-~~~~~~~~~~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 87 (332)
T cd07766 12 EKIGEEIKRGGFDRALVVSDEGVVK-GVGEKVADSLKKL-IAVHIFDGVGPN--PTFEEVKEAVERARAAEVDAVIAVGG 87 (332)
T ss_pred HHHHHHHHhcCCCeEEEEeCCchhh-hHHHHHHHHHHhc-CcEEEeCCcCCC--cCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 3466778888999999998554333 5667788888776 554433223322 34667788888888888999887665
Q ss_pred h--HHHHHHHHHH
Q 008912 228 S--RTGLMVFDVA 238 (549)
Q Consensus 228 ~--~~~~~il~~a 238 (549)
+ -++.+++...
T Consensus 88 Gs~~D~aK~ia~~ 100 (332)
T cd07766 88 GSTLDTAKAVAAL 100 (332)
T ss_pred chHHHHHHHHHHH
Confidence 4 4455555443
No 247
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=74.68 E-value=34 Score=29.21 Aligned_cols=80 Identities=11% Similarity=0.024 Sum_probs=56.1
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHh-hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEE
Q 008912 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA-EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVV 224 (549)
Q Consensus 146 ~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~-~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil 224 (549)
.++.+..++++++-+++.++ +|........+.+...+. ..|+++.... ..+....+++ +..+.+++++
T Consensus 17 HGQV~~~W~~~~~~~~IiVv-dD~vA~D~~~k~~lkma~~P~gvk~~i~s---------v~~a~~~l~~-~~~~~~vlvl 85 (158)
T PRK09756 17 HGQVGVTWTSTIGANLLVVV-DDVVANDDIQQKLMGITAETYGFGIRFFT---------IEKTINVIGK-AAPHQKIFLI 85 (158)
T ss_pred hHHHHHhhhcccCCCEEEEE-cchhcCCHHHHHHHHhcCCCCCCEEEEEE---------HHHHHHHHHh-ccCCceEEEE
Confidence 57888999999999999655 344444456666666555 5677766432 3345556666 5566789999
Q ss_pred EcchHHHHHHHH
Q 008912 225 HGYSRTGLMVFD 236 (549)
Q Consensus 225 ~~~~~~~~~il~ 236 (549)
+-++.++..+++
T Consensus 86 ~~~~~da~~l~~ 97 (158)
T PRK09756 86 CRTPQTVRKLVE 97 (158)
T ss_pred ECCHHHHHHHHH
Confidence 999998887765
No 248
>cd08186 Fe-ADH8 Iron-containing alcohol dehydrogenase. Type III Iron-containing alcohol dehydrogenases (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. The ADH of hyperthermophilic archaeon Thermococcus hydrothermalis oxidizes a series of primary aliphatic and aromatic alcohols preferentially from C2 to C8 but is also active towards methanol and glycerol and stereospecific for monoterpenes. It was suggested that the type III ADHs in microorganisms are involved in acetaldehyde detoxication rather than in alcohol turnover.
Probab=74.58 E-value=20 Score=35.83 Aligned_cols=88 Identities=14% Similarity=0.143 Sum_probs=58.9
Q ss_pred HHHHHHHHHc---CCcEEEEEEecCCcc-cchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEE
Q 008912 148 SAIAEMVSYF---GWGEVIAIFNDDDQG-RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 223 (549)
Q Consensus 148 ~ai~~~l~~~---~W~~v~ii~~~~~~g-~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vii 223 (549)
..+.++++.+ |.+++.+|++..... ....+.+.+.+++.|+.+.....+.+. .+.++....++.+++.+++.||
T Consensus 12 ~~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~II 89 (383)
T cd08186 12 EKIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPN--PTVDQVDEAAKLGREFGAQAVI 89 (383)
T ss_pred HHHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCC--CCHHHHHHHHHHHHHcCCCEEE
Confidence 4466667776 789998888544322 234678888898888866543334433 4567788888889988999988
Q ss_pred EEcch--HHHHHHHHH
Q 008912 224 VHGYS--RTGLMVFDV 237 (549)
Q Consensus 224 l~~~~--~~~~~il~~ 237 (549)
-.+.+ -++.+++..
T Consensus 90 aiGGGS~iD~aK~ia~ 105 (383)
T cd08186 90 AIGGGSPIDSAKSAAI 105 (383)
T ss_pred EeCCccHHHHHHHHHH
Confidence 76554 445555433
No 249
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=74.26 E-value=71 Score=29.58 Aligned_cols=87 Identities=13% Similarity=0.056 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhh-cCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEE
Q 008912 145 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 223 (549)
Q Consensus 145 ~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vii 223 (549)
++...+.+.....+ .++.++..+.. .++.+.+.+++ .|+.++.... +. -...+....+++|.++++++++
T Consensus 92 dl~~~ll~~~~~~~-~~v~llG~~~~----v~~~a~~~l~~~y~l~i~g~~~---Gy-f~~~e~~~i~~~I~~s~~dil~ 162 (243)
T PRK03692 92 DLWEALMARAGKEG-TPVFLVGGKPE----VLAQTEAKLRTQWNVNIVGSQD---GY-FTPEQRQALFERIHASGAKIVT 162 (243)
T ss_pred HHHHHHHHHHHhcC-CeEEEECCCHH----HHHHHHHHHHHHhCCEEEEEeC---CC-CCHHHHHHHHHHHHhcCCCEEE
Confidence 45566666666666 56767765443 45555555533 3777765431 11 1233456789999999999999
Q ss_pred EEcchHHHHHHHHHHHH
Q 008912 224 VHGYSRTGLMVFDVAQR 240 (549)
Q Consensus 224 l~~~~~~~~~il~~a~~ 240 (549)
+......-..++....+
T Consensus 163 VglG~PkQE~~~~~~~~ 179 (243)
T PRK03692 163 VAMGSPKQEIFMRDCRL 179 (243)
T ss_pred EECCCcHHHHHHHHHHH
Confidence 99887777777766544
No 250
>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=74.22 E-value=29 Score=29.40 Aligned_cols=81 Identities=15% Similarity=0.125 Sum_probs=56.8
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEE
Q 008912 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (549)
Q Consensus 146 ~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 225 (549)
.++.+..+.++++-+++.++ +|........+.+...+...|+++.... ..+....+++-+..+.++++++
T Consensus 13 HGQV~~~W~~~~~~~~IiVv-dD~~A~D~~~k~~lkma~P~gvk~~i~s---------ve~a~~~l~~~~~~~~~v~vl~ 82 (151)
T TIGR00854 13 HGQVGTTWTKVAGANRIIVV-NDDVANDEVRQTLMGIVAPTGFKVRFVS---------LEKTINVIHKPAYHDQTIFLLF 82 (151)
T ss_pred hhHhhhhhhcccCCCEEEEE-cccccCCHHHHHHHHhhCCCCCEEEEEE---------HHHHHHHHhCcCCCCceEEEEE
Confidence 57888889999999999655 4544455566777777766787766532 2344445555445567899999
Q ss_pred cchHHHHHHHH
Q 008912 226 GYSRTGLMVFD 236 (549)
Q Consensus 226 ~~~~~~~~il~ 236 (549)
-++.++..+++
T Consensus 83 k~~~da~~l~~ 93 (151)
T TIGR00854 83 RNPQDVLTLVE 93 (151)
T ss_pred CCHHHHHHHHH
Confidence 99998887764
No 251
>cd08187 BDH Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. The butanol dehydrogenase (BDH) is involved in the final step of the butanol formation pathway in anaerobic micro-organism. Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. Activity in the reverse direction was 50-fold lower than that in the forward direction. The NADH-BDH had higher activity with longer chained aldehydes and was inhibited by metabolites containing an adenine moiety. This protein family belongs to the so-called iron-containing alcohol dehydrogenase superfamily. Since members of this superfamily use different divalent ions, preferentially iron or zinc, it has been suggested to be renamed to family III metal-dependent polyol dehydrogenases.
Probab=74.11 E-value=21 Score=35.68 Aligned_cols=85 Identities=12% Similarity=0.157 Sum_probs=57.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCc-ccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQ-GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~-g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 226 (549)
..+.++++.++ +++.+|.+...+ .....+.+.+.+++.|+.+.....+.++ .........++.++..++|.||-.+
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 94 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPN--PRLETVREGIELCKEEKVDFILAVG 94 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCC--CCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 45667777775 899888754332 1234678888999888876544334433 4466778888889989999999766
Q ss_pred ch--HHHHHHH
Q 008912 227 YS--RTGLMVF 235 (549)
Q Consensus 227 ~~--~~~~~il 235 (549)
.+ -++.+++
T Consensus 95 GGS~iD~aK~i 105 (382)
T cd08187 95 GGSVIDSAKAI 105 (382)
T ss_pred ChHHHHHHHHH
Confidence 54 3444443
No 252
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=73.50 E-value=34 Score=29.19 Aligned_cols=80 Identities=11% Similarity=0.082 Sum_probs=56.8
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEE
Q 008912 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (549)
Q Consensus 146 ~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 225 (549)
.++.+..+.++++-+++.++ +|........+.+...+...|+++.... ..+....+++ +..+.++++++
T Consensus 15 HGQV~~~W~~~~~~~~IvVv-dD~~A~D~~~k~~l~ma~P~gvk~~i~s---------v~~a~~~l~~-~~~~~~v~il~ 83 (157)
T PRK11425 15 HGQVGVQWVGFAGANLVLVA-NDEVAEDPVQQNLMEMVLAEGIAVRFWT---------LQKVIDNIHR-AADRQKILLVC 83 (157)
T ss_pred hHHhhhhhhcccCCCEEEEE-cchhcCCHHHHHHHHhhCCCCCeEEEEE---------HHHHHHHHhc-cCCCceEEEEE
Confidence 57889999999999998655 4544455566666666666787766532 3355566666 55666899999
Q ss_pred cchHHHHHHHH
Q 008912 226 GYSRTGLMVFD 236 (549)
Q Consensus 226 ~~~~~~~~il~ 236 (549)
-++.++..+++
T Consensus 84 k~~~d~~~l~~ 94 (157)
T PRK11425 84 KTPADFLTLVK 94 (157)
T ss_pred CCHHHHHHHHH
Confidence 99998887764
No 253
>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=72.66 E-value=27 Score=33.72 Aligned_cols=88 Identities=13% Similarity=0.021 Sum_probs=60.4
Q ss_pred EEEEEe---ccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 008912 28 NVGAIF---SFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (549)
Q Consensus 28 ~IG~l~---~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~ 104 (549)
++|.+- ....+.-.....++...++.+| |+.++...+..+-.|+..+.+.+..++++++++|+.. .....
T Consensus 128 ~vg~ig~i~G~~~p~~~~~~~gF~~Ga~~~n------p~i~v~~~~~gs~~D~~~~~~~a~~li~~GaDvI~~~-ag~~~ 200 (306)
T PF02608_consen 128 KVGFIGDIGGMDIPPVNRFINGFIAGAKYVN------PDIKVNVSYTGSFNDPAKAKEAAEALIDQGADVIFPV-AGGSG 200 (306)
T ss_dssp EEEEEEEEES--SCTTHHHHHHHHHHHHHTT------TT-EEEEEE-SSSS-HHHHHHHHHHHHHTT-SEEEEE--CCCH
T ss_pred cccccccccCCCcHhHHHHHHHHHHHHHHhC------cCceEEEEEcCCcCchHHHHHHHHHHhhcCCeEEEEC-CCCCc
Confidence 444444 5544444567889999999988 5778888888888899999999999999999999872 23344
Q ss_pred HHHHHhhhhcCCc--EEecc
Q 008912 105 HVLSHLANELQVP--LLSFT 122 (549)
Q Consensus 105 ~~va~~~~~~~iP--~Is~~ 122 (549)
..+...+...+.. .|...
T Consensus 201 ~gv~~aa~e~g~~~~~IG~d 220 (306)
T PF02608_consen 201 QGVIQAAKEAGVYGYVIGVD 220 (306)
T ss_dssp HHHHHHHHHHTHETEEEEEE
T ss_pred hHHHHHHHHcCCceEEEEec
Confidence 5556667777777 77653
No 254
>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=72.45 E-value=26 Score=34.96 Aligned_cols=82 Identities=10% Similarity=0.103 Sum_probs=56.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.-+.++++.++ +++.+|++.... ..+.+.+.+++.|+.+.... +... ...+.+.+.++.+++.++|.||-.+.
T Consensus 12 ~~l~~~l~~~~-~r~livtd~~~~---~~~~v~~~L~~~g~~~~~~~-~~~~--p~~~~v~~~~~~~~~~~~D~IIaiGG 84 (374)
T cd08183 12 KELPALAAELG-RRVLLVTGASSL---RAAWLIEALRAAGIEVTHVV-VAGE--PSVELVDAAVAEARNAGCDVVIAIGG 84 (374)
T ss_pred HHHHHHHHHcC-CcEEEEECCchH---HHHHHHHHHHHcCCeEEEec-CCCC--cCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 34666777775 899888855433 67778888888888765433 3333 44667888888888899999998766
Q ss_pred h--HHHHHHHH
Q 008912 228 S--RTGLMVFD 236 (549)
Q Consensus 228 ~--~~~~~il~ 236 (549)
+ -++.+++.
T Consensus 85 GS~~D~aK~ia 95 (374)
T cd08183 85 GSVIDAGKAIA 95 (374)
T ss_pred chHHHHHHHHH
Confidence 5 34454443
No 255
>COG1744 Med Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]
Probab=72.24 E-value=76 Score=31.21 Aligned_cols=76 Identities=12% Similarity=0.010 Sum_probs=60.6
Q ss_pred ceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 008912 25 EVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (549)
Q Consensus 25 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~ 104 (549)
..-++|.+-.+..+.-.....++...++..|.+ .++...+..+-.|+.++.+.+..++++|+++|.....+...
T Consensus 160 k~~~vG~vgg~~~p~v~~f~~gF~~Gak~~np~------i~v~v~~~gsf~D~~k~k~~a~~li~~GaDVI~~~ag~~~~ 233 (345)
T COG1744 160 KSGKVGFVGGMDIPEVNRFINGFLAGAKSVNPD------IKVKVVYVGSFSDPAKGKEAANALIDQGADVIYPAAGGTGV 233 (345)
T ss_pred cCCceeEEecccchhhHHHHHHHHHHHHhhCCC------ccEEEEEecCccChHHHHHHHHHHHhcCCCEEEecCCCCcc
Confidence 366777777776555567789999999999864 67788888888899999999999999999999986655544
Q ss_pred HH
Q 008912 105 HV 106 (549)
Q Consensus 105 ~~ 106 (549)
..
T Consensus 234 gv 235 (345)
T COG1744 234 GV 235 (345)
T ss_pred hH
Confidence 43
No 256
>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=72.22 E-value=96 Score=29.88 Aligned_cols=203 Identities=12% Similarity=0.041 Sum_probs=100.0
Q ss_pred EEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCC-ChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 008912 27 LNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF-NGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (549)
Q Consensus 27 i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~-~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~ 105 (549)
.+++++++-.-.. ..+..++..+++++.++. +|. ++...+... ++....+...++.+++...||+... ....
T Consensus 2 ~~v~~~~~g~~~D-~g~n~~~~~G~~~~~~~~---~~i--~~~~~e~~~~~~~~~~~~~~~~~~~g~dlIi~~g~-~~~~ 74 (306)
T PF02608_consen 2 KKVALLDPGGIND-KGFNQSAYEGLKRAEKEL---DGI--EIIYVENVPETDADYEEAIRQLADQGYDLIIGHGF-EYSD 74 (306)
T ss_dssp EEEEEESSS-CCC-SSHHHHHHHHHHHHHHHC---TTE--EEEEEES-S-TCHHHHHHHHHHHHTT-SEEEEESG-GGHH
T ss_pred eEEEEEECCCCCC-ccHHHHHHHHHHHHHHHc---CCc--eEEEEecCCccHHHHHHHHHHHHHcCCCEEEEccH-HHHH
Confidence 4567777664221 233444455555555442 244 444444433 3555666667777889999998443 4445
Q ss_pred HHHHhhhhc-CCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEE---ecC-CcccchHHHHH
Q 008912 106 VLSHLANEL-QVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF---NDD-DQGRNGVTALG 180 (549)
Q Consensus 106 ~va~~~~~~-~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~---~~~-~~g~~~~~~l~ 180 (549)
++..++..+ ++-++...+....-.+.-..+.||..- ...++-.++.++.+- .++++|. ..+ +.-......|.
T Consensus 75 ~~~~vA~~yPd~~F~~~d~~~~~~~~Nv~~~~f~~~e-~~fLaG~~Aa~~tkt--~~vg~ig~i~G~~~p~~~~~~~gF~ 151 (306)
T PF02608_consen 75 ALQEVAKEYPDTKFIIIDGYIDAPEPNVISITFREEE-ASFLAGYLAALMTKT--GKVGFIGDIGGMDIPPVNRFINGFI 151 (306)
T ss_dssp HHHHHHTC-TTSEEEEESS---ST-TTEEEEEE-HHH-HHHHHHHHHHHHHSS--TEEEEEEEEES--SCTTHHHHHHHH
T ss_pred HHHHHHHHCCCCEEEEEecCcCCCCCcEEEEEccccc-hhHHHHHHHHHHhcc--CcccccccccCCCcHhHHHHHHHHH
Confidence 666777766 555555433222110111233444432 233444455555543 4777777 333 33334455566
Q ss_pred HHHhhcC--eEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCC
Q 008912 181 DKLAEIR--CKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (549)
Q Consensus 181 ~~~~~~g--~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~ 243 (549)
.-++..+ +++..... ..- .+...-...-+.+-..++++|+-.+.. ....++++|++.|.
T Consensus 152 ~Ga~~~np~i~v~~~~~-gs~--~D~~~~~~~a~~li~~GaDvI~~~ag~-~~~gv~~aa~e~g~ 212 (306)
T PF02608_consen 152 AGAKYVNPDIKVNVSYT-GSF--NDPAKAKEAAEALIDQGADVIFPVAGG-SGQGVIQAAKEAGV 212 (306)
T ss_dssp HHHHHTTTT-EEEEEE--SSS--S-HHHHHHHHHHHHHTT-SEEEEE-CC-CHHHHHHHHHHHTH
T ss_pred HHHHHhCcCceEEEEEc-CCc--CchHHHHHHHHHHhhcCCeEEEECCCC-CchHHHHHHHHcCC
Confidence 6665443 44433221 111 223334555566667899999886554 34457778888663
No 257
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=72.19 E-value=21 Score=35.47 Aligned_cols=83 Identities=8% Similarity=0.093 Sum_probs=56.9
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
..+.+.++.++ +++.+|++...+ ....+.+.+.+++.|+.+.+.. ++.. ...+.....++.+++.+++.||-.+.
T Consensus 19 ~~l~~~l~~~g-~~~livtd~~~~-~~~~~~v~~~l~~~~~~~~~~~-~~~e--p~~~~v~~~~~~~~~~~~d~IIavGG 93 (366)
T PRK09423 19 ARLGEYLKPLG-KRALVIADEFVL-GIVGDRVEASLKEAGLTVVFEV-FNGE--CSDNEIDRLVAIAEENGCDVVIGIGG 93 (366)
T ss_pred HHHHHHHHHcC-CEEEEEEChhHH-HHHHHHHHHHHHhCCCeEEEEE-eCCC--CCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 44667788888 999888854433 2366778888888888765433 3433 34567778888888888999988766
Q ss_pred h--HHHHHHH
Q 008912 228 S--RTGLMVF 235 (549)
Q Consensus 228 ~--~~~~~il 235 (549)
+ -++.+++
T Consensus 94 Gsv~D~aK~i 103 (366)
T PRK09423 94 GKTLDTAKAV 103 (366)
T ss_pred hHHHHHHHHH
Confidence 5 3444444
No 258
>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=71.94 E-value=45 Score=26.96 Aligned_cols=72 Identities=14% Similarity=0.114 Sum_probs=45.8
Q ss_pred EEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch----HHHHHHHHHHH
Q 008912 164 AIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS----RTGLMVFDVAQ 239 (549)
Q Consensus 164 ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~----~~~~~il~~a~ 239 (549)
+....++.......-+...++..|+.|..--.. ......++.+.+.++++|.+++.. ..+..++++.+
T Consensus 4 ~~~~~gd~H~lG~~~~~~~l~~~G~~vi~lG~~--------vp~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~ 75 (122)
T cd02071 4 VAKPGLDGHDRGAKVIARALRDAGFEVIYTGLR--------QTPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLR 75 (122)
T ss_pred EEecCCChhHHHHHHHHHHHHHCCCEEEECCCC--------CCHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHH
Confidence 333344444455667777788899988763321 123356677777889999997653 44566677777
Q ss_pred HcCC
Q 008912 240 RLGM 243 (549)
Q Consensus 240 ~~g~ 243 (549)
+.+.
T Consensus 76 ~~~~ 79 (122)
T cd02071 76 ELGA 79 (122)
T ss_pred hcCC
Confidence 7654
No 259
>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=69.34 E-value=28 Score=32.56 Aligned_cols=78 Identities=6% Similarity=0.017 Sum_probs=50.8
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc-hHHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVA 238 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~il~~a 238 (549)
|+++.. ++.|.....+.+.+.+++.|+++..... . .+.......++.+...+.+.||+... ......+++.+
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~----~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~~ 76 (273)
T cd06305 2 IAVVRYGGSGDFDQAYLAGTKAEAEALGGDLRVYDA-G----GDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKRA 76 (273)
T ss_pred eEEEeecCCCcHHHHHHHHHHHHHHHcCCEEEEECC-C----CCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHHH
Confidence 566655 4556667788888999999998776421 1 12333456666666678898888643 34445667777
Q ss_pred HHcCCC
Q 008912 239 QRLGMM 244 (549)
Q Consensus 239 ~~~g~~ 244 (549)
.+.|+.
T Consensus 77 ~~~~ip 82 (273)
T cd06305 77 LDAGIP 82 (273)
T ss_pred HHcCCC
Confidence 776643
No 260
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=69.11 E-value=1.1e+02 Score=29.20 Aligned_cols=162 Identities=17% Similarity=0.204 Sum_probs=96.1
Q ss_pred eEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 008912 26 VLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (549)
Q Consensus 26 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~ 105 (549)
.=.|+.||.-.+ .+-+-+|+.|+.++ +|..+-+..-+.+-.-.+.++-..+-+++-+++|.-=..+ -.
T Consensus 44 gk~laliFeK~S---TRTR~SFeva~~ql-------Gg~~~~l~~~~~Qlgr~Esi~DTArVLsr~~D~I~~R~~~--~~ 111 (310)
T COG0078 44 GKNLALIFEKTS---TRTRVSFEVAATQL-------GGHAIYLGPGDSQLGRGESIKDTARVLSRMVDAIMIRGFS--HE 111 (310)
T ss_pred CceEEEEecCCC---chhhhhHHHHHHHc-------CCCeEEeCCCccccCCCCcHHHHHHHHHhhhheEEEeccc--HH
Confidence 456899998876 35678899998885 3444444444444333344444555556666776643333 34
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHH---HHcC---CcEEEEEEecCCcccchHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV---SYFG---WGEVIAIFNDDDQGRNGVTAL 179 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l---~~~~---W~~v~ii~~~~~~g~~~~~~l 179 (549)
.+..++....+|+|.- |+|...| .+++++++ .|+| -.+++.+.+. ......+
T Consensus 112 ~ve~lA~~s~VPViNg------LtD~~HP------------~Q~LADl~Ti~E~~g~l~g~k~a~vGDg----NNv~nSl 169 (310)
T COG0078 112 TLEELAKYSGVPVING------LTDEFHP------------CQALADLMTIKEHFGSLKGLKLAYVGDG----NNVANSL 169 (310)
T ss_pred HHHHHHHhCCCceEcc------cccccCc------------HHHHHHHHHHHHhcCcccCcEEEEEcCc----chHHHHH
Confidence 6778899999999962 4442222 36666664 5554 4666666532 5678888
Q ss_pred HHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHH-hcCCCeEEEE
Q 008912 180 GDKLAEIRCKISYKSALPPDQSVTETDVRNELVKV-RMMEARVIVV 224 (549)
Q Consensus 180 ~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l-~~~~~~viil 224 (549)
.......|+.+.... |... ....++....+++ ++++..+.+.
T Consensus 170 ~~~~a~~G~dv~ia~--Pk~~-~p~~~~~~~a~~~a~~~g~~i~~t 212 (310)
T COG0078 170 LLAAAKLGMDVRIAT--PKGY-EPDPEVVEKAKENAKESGGKITLT 212 (310)
T ss_pred HHHHHHhCCeEEEEC--CCcC-CcCHHHHHHHHHHHHhcCCeEEEe
Confidence 888888998876542 2221 1133444444443 4455555444
No 261
>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=69.04 E-value=79 Score=27.61 Aligned_cols=87 Identities=15% Similarity=0.087 Sum_probs=56.4
Q ss_pred HHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhc--CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeE
Q 008912 144 LYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARV 221 (549)
Q Consensus 144 ~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v 221 (549)
.++...+.+.....+| ++.++..... .++.+.+.+++. |+.++.. ... -...+-...+++|.++++++
T Consensus 34 ~dl~~~l~~~~~~~~~-~vfllG~~~~----v~~~~~~~l~~~yP~l~i~g~--~g~---f~~~~~~~i~~~I~~s~~di 103 (177)
T TIGR00696 34 PDLMEELCQRAGKEKL-PIFLYGGKPD----VLQQLKVKLIKEYPKLKIVGA--FGP---LEPEERKAALAKIARSGAGI 103 (177)
T ss_pred HHHHHHHHHHHHHcCC-eEEEECCCHH----HHHHHHHHHHHHCCCCEEEEE--CCC---CChHHHHHHHHHHHHcCCCE
Confidence 3455666666666674 6767765543 556666666554 6777654 111 12334467889999999999
Q ss_pred EEEEcchHHHHHHHHHHHH
Q 008912 222 IVVHGYSRTGLMVFDVAQR 240 (549)
Q Consensus 222 iil~~~~~~~~~il~~a~~ 240 (549)
+++.+....-..++.+...
T Consensus 104 l~VglG~PkQE~~~~~~~~ 122 (177)
T TIGR00696 104 VFVGLGCPKQEIWMRNHRH 122 (177)
T ss_pred EEEEcCCcHhHHHHHHhHH
Confidence 9998887777777765533
No 262
>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=67.77 E-value=14 Score=31.31 Aligned_cols=82 Identities=15% Similarity=0.126 Sum_probs=59.2
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEE
Q 008912 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (549)
Q Consensus 146 ~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 225 (549)
.++.+..++++++-+++.++ +|........+.+...+...|+++.... .++....+++....+.++++++
T Consensus 13 HGQV~~~W~~~~~~~~IiVv-dD~~A~D~~~k~~l~ma~P~gvk~~i~s---------v~~a~~~l~~~~~~~~~v~ii~ 82 (151)
T PF03830_consen 13 HGQVATAWVKKLNANRIIVV-DDEVANDPFQKMILKMAAPAGVKLSIFS---------VEEAIEKLKKPEYSKKRVLIIV 82 (151)
T ss_dssp CTTHHHHHHHHHTTSEEEEE--HHHHHSHHHHHHHHHTSHTTSEEEEE----------HHHHHHHHCGGGGTTEEEEEEE
T ss_pred eeeeeEEEhhhcccCEEEEE-CHHHhcCHHHHHHHHHhhcCCCceEEEE---------HHHHHHHHHhcccCCceEEEEE
Confidence 46788899999999999665 4554555567777777767788776532 3455566666666778999999
Q ss_pred cchHHHHHHHHH
Q 008912 226 GYSRTGLMVFDV 237 (549)
Q Consensus 226 ~~~~~~~~il~~ 237 (549)
-++.++..+++.
T Consensus 83 k~~~d~~~l~~~ 94 (151)
T PF03830_consen 83 KSPEDALRLVEA 94 (151)
T ss_dssp SSHHHHHHHHHT
T ss_pred CCHHHHHHHHhc
Confidence 999988877754
No 263
>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=65.90 E-value=30 Score=32.38 Aligned_cols=80 Identities=10% Similarity=0.015 Sum_probs=50.0
Q ss_pred EEEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHH
Q 008912 161 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVA 238 (549)
Q Consensus 161 ~v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a 238 (549)
+|++|+.+ +.|.......+.+.+++.|..+.....-. . .........++.+...+++.||+..........+..+
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~~~~~~~~~-~--~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~~ 77 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLGVSLKLLEAGG-Y--PNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQQ 77 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcCCEEEEecCCC-C--CCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHHH
Confidence 35677753 45666777888888999998876642211 0 1123344667777778899888865433322256677
Q ss_pred HHcCC
Q 008912 239 QRLGM 243 (549)
Q Consensus 239 ~~~g~ 243 (549)
.+.|+
T Consensus 78 ~~~gi 82 (268)
T cd06306 78 VAASI 82 (268)
T ss_pred HHCCC
Confidence 77664
No 264
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=65.61 E-value=1.2e+02 Score=28.52 Aligned_cols=109 Identities=15% Similarity=0.181 Sum_probs=63.2
Q ss_pred HHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCc-hHHHHHHHhhhhcCCcEEeccc
Q 008912 45 IAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA-VMAHVLSHLANELQVPLLSFTA 123 (549)
Q Consensus 45 ~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s-~~~~~va~~~~~~~iP~Is~~~ 123 (549)
.++.-.+.+|| |+.+++.+ +...++. ...+++..+.+.||-...+ ..-..+...|...++|+|+.++
T Consensus 87 e~~~~rl~~IN------P~~~V~~i--~~~i~~e----~~~~ll~~~~D~VIdaiD~~~~k~~L~~~c~~~~ip~I~~gG 154 (268)
T PRK15116 87 EVMAERIRQIN------PECRVTVV--DDFITPD----NVAEYMSAGFSYVIDAIDSVRPKAALIAYCRRNKIPLVTTGG 154 (268)
T ss_pred HHHHHHHHhHC------CCcEEEEE--ecccChh----hHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHcCCCEEEECC
Confidence 34444555554 45565543 3222222 2334555568888876666 4556688899999999998755
Q ss_pred CCCCCCCCCCCceEEccC----CcHHHHHHHHHHHHH-cCCc-------EEEEEEecC
Q 008912 124 LDPTLSPLQYPFFVQTAP----NDLYLMSAIAEMVSY-FGWG-------EVIAIFNDD 169 (549)
Q Consensus 124 ~~~~ls~~~~~~~~r~~p----s~~~~~~ai~~~l~~-~~W~-------~v~ii~~~~ 169 (549)
....+. |..+++.- ....+++.+-..|++ +|.+ .+-+||+..
T Consensus 155 ag~k~d----p~~~~~~di~~t~~~pla~~~R~~lr~~~~~~~~~~~~~~~~~v~S~E 208 (268)
T PRK15116 155 AGGQID----PTQIQVVDLAKTIQDPLAAKLRERLKSDFGVVKNSKGKLGVDCVFSTE 208 (268)
T ss_pred cccCCC----CCeEEEEeeecccCChHHHHHHHHHHHhhCCCcccCccCCeEEEeCCC
Confidence 443333 44444431 123356666667776 6654 366677654
No 265
>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=65.50 E-value=12 Score=35.74 Aligned_cols=40 Identities=15% Similarity=0.042 Sum_probs=33.7
Q ss_pred HHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecc
Q 008912 493 DVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKK 540 (549)
Q Consensus 493 dl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~ 540 (549)
.+.+.+++.+|.+ .++... .+|..++..|.+|++|+++++
T Consensus 48 ~l~~~l~~~~g~~--v~~~~~------~~~~~~~~al~~g~~D~~~~~ 87 (288)
T TIGR03431 48 PLADYLSKKLGVK--VKLFFA------TDYAGVIEGMRFGKVDIAWYG 87 (288)
T ss_pred HHHHHHHHHhCCc--EEEEeC------CCHHHHHHHHHcCCccEEEEC
Confidence 4678899999999 886543 279999999999999999965
No 266
>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=65.17 E-value=39 Score=33.31 Aligned_cols=83 Identities=18% Similarity=0.169 Sum_probs=53.8
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.-+.++++.+| +++.+|++...+ ....+.+.+.+++.|+.+.... +... .........++.+++.+++.||-.+.
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~-~~~~~~v~~~l~~~~i~~~~~~-~~~~--p~~~~v~~~~~~~~~~~~d~IIavGG 86 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVL-KKSRPRFEAALAKSIIVVDVIV-FGGE--CSTEEVVKALCGAEEQEADVIIGVGG 86 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHH-HHHHHHHHHHHHhcCCeeEEEE-cCCC--CCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 44667788888 888888754332 2456778888888887543322 3322 23556777788888888998887665
Q ss_pred h--HHHHHHH
Q 008912 228 S--RTGLMVF 235 (549)
Q Consensus 228 ~--~~~~~il 235 (549)
+ -++.+++
T Consensus 87 Gs~~D~aK~i 96 (349)
T cd08550 87 GKTLDTAKAV 96 (349)
T ss_pred cHHHHHHHHH
Confidence 4 3444444
No 267
>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=64.90 E-value=31 Score=32.22 Aligned_cols=78 Identities=9% Similarity=0.048 Sum_probs=51.4
Q ss_pred EEEEEEec--CCcccchHHHHHHHHhh-cCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHH
Q 008912 161 EVIAIFND--DDQGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFD 236 (549)
Q Consensus 161 ~v~ii~~~--~~~g~~~~~~l~~~~~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~ 236 (549)
+|++|..+ ++|.....+.+.+.+++ .|+.+..... . .+.......++.+.+.+.+.||+.... .....++.
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~-~----~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~ 75 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGVELQFEDA-K----NDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVK 75 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCcEEEEeCC-C----CCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHH
Confidence 36677754 55667777888888888 8888776432 1 123455567777777788988876543 33456677
Q ss_pred HHHHcCC
Q 008912 237 VAQRLGM 243 (549)
Q Consensus 237 ~a~~~g~ 243 (549)
.+.+.++
T Consensus 76 ~l~~~~i 82 (272)
T cd06301 76 AANAAGI 82 (272)
T ss_pred HHHHCCC
Confidence 7766664
No 268
>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=64.47 E-value=90 Score=26.77 Aligned_cols=47 Identities=15% Similarity=0.320 Sum_probs=33.1
Q ss_pred HHHHHh--cCcEEEEcCCCc--hHHHHHHHhhhhcCCcEEecccCCCCCCC
Q 008912 84 ALQFME--TDTLAIVGPQSA--VMAHVLSHLANELQVPLLSFTALDPTLSP 130 (549)
Q Consensus 84 ~~~l~~--~~v~aiiGp~~s--~~~~~va~~~~~~~iP~Is~~~~~~~ls~ 130 (549)
+.+++. ++++.++|+... .....+..+++.+++|+++.......+.+
T Consensus 20 aa~lLk~AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~~~~~~~ 70 (162)
T TIGR00315 20 VAMMIKRAKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADTYRALIE 70 (162)
T ss_pred HHHHHHcCCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCcccccccc
Confidence 344444 489999997664 77888999999999999985433233433
No 269
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=64.24 E-value=44 Score=32.77 Aligned_cols=82 Identities=11% Similarity=0.057 Sum_probs=54.8
Q ss_pred CCcEEEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc-chHHHHHH
Q 008912 158 GWGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG-YSRTGLMV 234 (549)
Q Consensus 158 ~W~~v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~-~~~~~~~i 234 (549)
.-.+++++.. +.+|.....+.+.+.+++.|+++.... +.. .+...-...++.+...+.+.|++.. +...+...
T Consensus 22 ~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~~~--~~~--~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~ 97 (336)
T PRK15408 22 AAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTYDG--PTE--PSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPA 97 (336)
T ss_pred CCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEEEC--CCC--CCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHH
Confidence 3457888875 346766777788888889998876532 211 1223334667777778888888854 44555678
Q ss_pred HHHHHHcCC
Q 008912 235 FDVAQRLGM 243 (549)
Q Consensus 235 l~~a~~~g~ 243 (549)
++++.+.|+
T Consensus 98 l~~a~~~gI 106 (336)
T PRK15408 98 LKRAMQRGV 106 (336)
T ss_pred HHHHHHCCC
Confidence 888888775
No 270
>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=63.78 E-value=77 Score=28.24 Aligned_cols=88 Identities=14% Similarity=0.049 Sum_probs=53.9
Q ss_pred cEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc----hHHHHHHH
Q 008912 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY----SRTGLMVF 235 (549)
Q Consensus 160 ~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~----~~~~~~il 235 (549)
.+|.+....++...-+..-+...++..|++|.+- ..+ .....+++.+++.++++|.+.+. ...+..++
T Consensus 85 ~~vv~~t~~gd~H~lG~~~v~~~l~~~G~~vi~L---G~~-----vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~~~~i 156 (197)
T TIGR02370 85 GKVVCGVAEGDVHDIGKNIVVTMLRANGFDVIDL---GRD-----VPIDTVVEKVKKEKPLMLTGSALMTTTMYGQKDIN 156 (197)
T ss_pred CeEEEEeCCCchhHHHHHHHHHHHHhCCcEEEEC---CCC-----CCHHHHHHHHHHcCCCEEEEccccccCHHHHHHHH
Confidence 3555555555555566677777788888887752 211 12345566677777888887654 24566777
Q ss_pred HHHHHcCCCCCCeEEEEeCC
Q 008912 236 DVAQRLGMMDSGYVWIATTW 255 (549)
Q Consensus 236 ~~a~~~g~~~~~~~~i~~~~ 255 (549)
+++++.+....-.+|++...
T Consensus 157 ~~l~~~~~~~~v~i~vGG~~ 176 (197)
T TIGR02370 157 DKLKEEGYRDSVKFMVGGAP 176 (197)
T ss_pred HHHHHcCCCCCCEEEEEChh
Confidence 77777765433455555543
No 271
>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=63.19 E-value=37 Score=31.79 Aligned_cols=79 Identities=11% Similarity=0.051 Sum_probs=50.6
Q ss_pred EEEEEEec---CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHH
Q 008912 161 EVIAIFND---DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFD 236 (549)
Q Consensus 161 ~v~ii~~~---~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~ 236 (549)
+|++|..+ +.|.....+.+.+.+++.|..+..... .. .........++++...+.+.||+.... ......++
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g~~v~~~~~-~~---~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~ 76 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLGVDVEYRGP-ET---FDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIK 76 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhCCEEEEECC-CC---CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHH
Confidence 35666643 456777788888999999988765422 11 023445567777777788988886533 33445677
Q ss_pred HHHHcCC
Q 008912 237 VAQRLGM 243 (549)
Q Consensus 237 ~a~~~g~ 243 (549)
.+.+.|+
T Consensus 77 ~~~~~~i 83 (271)
T cd06312 77 RAVAAGI 83 (271)
T ss_pred HHHHCCC
Confidence 7766553
No 272
>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=61.55 E-value=53 Score=32.39 Aligned_cols=87 Identities=11% Similarity=0.154 Sum_probs=54.1
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.-+.++++.++.+++.+|++.... ....+.+.+.+++.|+.+............+.......++.+++ +++.||-.+.
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~-~~~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIGG 89 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTY-AAAGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVGS 89 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHH-HHHHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEECC
Confidence 446777888888999888844332 22357788888888886543322222101345566777777776 8888887655
Q ss_pred h--HHHHHHHH
Q 008912 228 S--RTGLMVFD 236 (549)
Q Consensus 228 ~--~~~~~il~ 236 (549)
+ -++.+++.
T Consensus 90 Gs~~D~aK~vA 100 (348)
T cd08175 90 GTINDITKYVS 100 (348)
T ss_pred cHHHHHHHHHH
Confidence 4 34444443
No 273
>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=61.24 E-value=36 Score=31.31 Aligned_cols=76 Identities=12% Similarity=0.083 Sum_probs=49.2
Q ss_pred EEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
|+++... ++|.......+++.+++.|+.+..... . .+.......++++...+.+.|++......... ++.+.
T Consensus 2 i~~v~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~ 75 (264)
T cd06267 2 IGVIVPDISNPFFAELLRGIEEAAREAGYSVLLCNS---D--EDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELA 75 (264)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHcCCEEEEEcC---C--CCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHH
Confidence 4566644 567777778888888888887765321 1 12334556677777778888888665544444 66676
Q ss_pred HcCC
Q 008912 240 RLGM 243 (549)
Q Consensus 240 ~~g~ 243 (549)
+.|+
T Consensus 76 ~~~i 79 (264)
T cd06267 76 ALGI 79 (264)
T ss_pred HcCC
Confidence 6664
No 274
>COG1464 NlpA ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]
Probab=61.06 E-value=34 Score=31.75 Aligned_cols=47 Identities=17% Similarity=0.184 Sum_probs=31.7
Q ss_pred ceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHH
Q 008912 25 EVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIM 82 (549)
Q Consensus 25 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~ 82 (549)
.+|+||+.--.++ ..++..++-+.++ .|++|+++.+.+-..|-.|+.
T Consensus 29 ~~I~vg~~~~p~a---~ile~~~k~~~~k--------~Gi~l~i~~FtDY~~PN~AL~ 75 (268)
T COG1464 29 KTIKVGATPGPHA---EILEVVVKPALKK--------KGLDLKIVEFTDYVQPNEALA 75 (268)
T ss_pred CcEEEeecCCchH---HHHHHHHHHHHHh--------cCceEEEEEecCCcchhHHHh
Confidence 5899997654442 3344455555554 378999999987777766554
No 275
>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=61.02 E-value=1.4e+02 Score=27.50 Aligned_cols=114 Identities=14% Similarity=0.108 Sum_probs=65.3
Q ss_pred chHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCc-hHHHHHHHhhhhcCCcE
Q 008912 40 GQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSA-VMAHVLSHLANELQVPL 118 (549)
Q Consensus 40 g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s-~~~~~va~~~~~~~iP~ 118 (549)
|..=..++.-.+.++| |..+++.... .-++ ....+++..+.+.||....+ ..-..+...|...++|+
T Consensus 63 G~~Kae~~~~~l~~in------P~~~V~~~~~--~i~~----~~~~~l~~~~~D~VvdaiD~~~~k~~L~~~c~~~~ip~ 130 (231)
T cd00755 63 GKPKVEVMAERIRDIN------PECEVDAVEE--FLTP----DNSEDLLGGDPDFVVDAIDSIRAKVALIAYCRKRKIPV 130 (231)
T ss_pred CCcHHHHHHHHHHHHC------CCcEEEEeee--ecCH----hHHHHHhcCCCCEEEEcCCCHHHHHHHHHHHHHhCCCE
Confidence 4333455555566665 4555554432 2222 23345555668888876555 44456788899999999
Q ss_pred EecccCCCCCCCCCCCceEEccCC----cHHHHHHHHHHHHHcCCc-EEEEEEecC
Q 008912 119 LSFTALDPTLSPLQYPFFVQTAPN----DLYLMSAIAEMVSYFGWG-EVIAIFNDD 169 (549)
Q Consensus 119 Is~~~~~~~ls~~~~~~~~r~~ps----~~~~~~ai~~~l~~~~W~-~v~ii~~~~ 169 (549)
|+..+....+ .|.-+|+..- ...+++.+-.-|++.+.. .+-+||+..
T Consensus 131 I~s~g~g~~~----dp~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v~S~E 182 (231)
T cd00755 131 ISSMGAGGKL----DPTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVVYSTE 182 (231)
T ss_pred EEEeCCcCCC----CCCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEEeCCC
Confidence 9865544333 2444554421 122455566666666654 577777654
No 276
>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=60.92 E-value=36 Score=34.31 Aligned_cols=78 Identities=15% Similarity=0.064 Sum_probs=53.4
Q ss_pred cCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch--HHHHHH
Q 008912 157 FGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS--RTGLMV 234 (549)
Q Consensus 157 ~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~--~~~~~i 234 (549)
.+.+++.+|++.........+.+.+.+++.|+.+.....+.+. .+.......++.+++.++++||-.+.+ -++.++
T Consensus 19 ~~~~k~liVtd~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD~AK~ 96 (398)
T cd08178 19 KGKKRAFIVTDRFMVKLGYVDKVIDVLKRRGVETEVFSDVEPD--PSLETVRKGLELMNSFKPDTIIALGGGSPMDAAKI 96 (398)
T ss_pred cCCCeEEEEcChhHHhCccHHHHHHHHHHCCCeEEEecCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCCccHHHHHHH
Confidence 4568998888544333336778889999889876544344444 456677888888888899999976554 455555
Q ss_pred HH
Q 008912 235 FD 236 (549)
Q Consensus 235 l~ 236 (549)
+.
T Consensus 97 iA 98 (398)
T cd08178 97 MW 98 (398)
T ss_pred HH
Confidence 54
No 277
>PRK07475 hypothetical protein; Provisional
Probab=60.72 E-value=77 Score=29.38 Aligned_cols=44 Identities=20% Similarity=0.200 Sum_probs=27.3
Q ss_pred ChHHHHHHHHHHH-hcCcEEEEcCCCchHHHHHHHhhhhcCCcEEe
Q 008912 76 NGFLSIMGALQFM-ETDTLAIVGPQSAVMAHVLSHLANELQVPLLS 120 (549)
Q Consensus 76 ~~~~a~~~~~~l~-~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is 120 (549)
++......+.+.+ ..++.+|+.+. .........+.+..++|+++
T Consensus 62 ~~~~~l~~aa~~L~~~G~d~I~~~C-gt~~~~~~~l~~~~~VPv~~ 106 (245)
T PRK07475 62 SLLDAFVAAARELEAEGVRAITTSC-GFLALFQRELAAALGVPVAT 106 (245)
T ss_pred cHHHHHHHHHHHHHHcCCCEEEech-HHHHHHHHHHHHHcCCCEec
Confidence 4554444444444 44999999865 33334445566678899886
No 278
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=60.61 E-value=97 Score=26.84 Aligned_cols=48 Identities=15% Similarity=0.134 Sum_probs=33.7
Q ss_pred HHHHHHh--cCcEEEEcCCCch---HHHHHHHhhhhcCCcEEecccCCCCCCC
Q 008912 83 GALQFME--TDTLAIVGPQSAV---MAHVLSHLANELQVPLLSFTALDPTLSP 130 (549)
Q Consensus 83 ~~~~l~~--~~v~aiiGp~~s~---~~~~va~~~~~~~iP~Is~~~~~~~ls~ 130 (549)
.+.+++. ++.+.++|..... ....+..+++.+++|+++.......|.+
T Consensus 26 ~aa~lI~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~~~~~~~~ 78 (171)
T PRK00945 26 IAAMMIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGGSYKGLID 78 (171)
T ss_pred HHHHHHHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEcccccccccc
Confidence 3444444 3899999976643 6677899999999999986544444444
No 279
>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=60.57 E-value=33 Score=31.53 Aligned_cols=77 Identities=8% Similarity=0.085 Sum_probs=46.6
Q ss_pred EEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
++++... ..++......+++.+++.|+.+..... . .........++++.+.+++.||+..........+..+.
T Consensus 2 ig~v~~~~~~~~~~~~~~g~~~~~~~~g~~l~~~~~---~--~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l~ 76 (264)
T cd01537 2 IGVLVPDLDNPFFAQVLKGIEEAAKAAGYQVLLANS---Q--NDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLAR 76 (264)
T ss_pred eEEEEcCCCChHHHHHHHHHHHHHHHcCCeEEEEeC---C--CCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHhh
Confidence 5666654 456667778888888888887665322 1 12334556677777677887777554333322455555
Q ss_pred HcCC
Q 008912 240 RLGM 243 (549)
Q Consensus 240 ~~g~ 243 (549)
+.+.
T Consensus 77 ~~~i 80 (264)
T cd01537 77 KAGI 80 (264)
T ss_pred hcCC
Confidence 5443
No 280
>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=60.07 E-value=46 Score=31.08 Aligned_cols=80 Identities=10% Similarity=0.068 Sum_probs=48.1
Q ss_pred EEEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHH-HHHHHHH
Q 008912 161 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT-GLMVFDV 237 (549)
Q Consensus 161 ~v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~-~~~il~~ 237 (549)
||++|..+ ++|.......+.+.+++.|+.+.....-.. .+.......++++...+.+.||+...... ....+..
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~ 77 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKELGVKVTFQGPASE---TDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKE 77 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHcCCEEEEecCccC---CCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHH
Confidence 46666644 456666778888888889988765432111 12333455666776677888887543332 3456666
Q ss_pred HHHcCC
Q 008912 238 AQRLGM 243 (549)
Q Consensus 238 a~~~g~ 243 (549)
+.+.++
T Consensus 78 ~~~~~i 83 (273)
T cd06310 78 AKDAGI 83 (273)
T ss_pred HHHCCC
Confidence 666553
No 281
>PRK00856 pyrB aspartate carbamoyltransferase catalytic subunit; Provisional
Probab=59.96 E-value=1.7e+02 Score=28.23 Aligned_cols=137 Identities=15% Similarity=0.157 Sum_probs=77.8
Q ss_pred eEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcC-cEEEEcCCCchHH
Q 008912 26 VLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETD-TLAIVGPQSAVMA 104 (549)
Q Consensus 26 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~-v~aiiGp~~s~~~ 104 (549)
.-.|+.+|...+ .+-+.+|+.|+.++ +|..+.+...++...-.+.++-..+.++.- +++|+-=.. ..
T Consensus 45 gk~~~~lF~~pS---TRTR~SFe~A~~~L-------Gg~~i~l~~~~~~~~kgEs~~Dta~vls~y~~D~iv~R~~--~~ 112 (305)
T PRK00856 45 GKTVANLFFEPS---TRTRLSFELAAKRL-------GADVINFSASTSSVSKGETLADTIRTLSAMGADAIVIRHP--QS 112 (305)
T ss_pred CcEEEEEeccCC---cchHHHHHHHHHHc-------CCcEEEeCCCcccCCCCcCHHHHHHHHHhcCCCEEEEeCC--Ch
Confidence 344777886644 46688999999885 344444433333333334455555556653 766664221 22
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHH---HHHcC-C--cEEEEEEecCCcccchHHH
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM---VSYFG-W--GEVIAIFNDDDQGRNGVTA 178 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~---l~~~~-W--~~v~ii~~~~~~g~~~~~~ 178 (549)
..+..++...++|+|.-+..+ ... | .++++++ .+++| + .+|+++. |..++ .....
T Consensus 113 ~~~~~~a~~~~vPVINa~~g~-----~~H-------P-----tQ~LaDl~Ti~e~~G~l~g~kv~~vG-D~~~~-~v~~S 173 (305)
T PRK00856 113 GAARLLAESSDVPVINAGDGS-----HQH-------P-----TQALLDLLTIREEFGRLEGLKVAIVG-DIKHS-RVARS 173 (305)
T ss_pred HHHHHHHHHCCCCEEECCCCC-----CCC-------c-----HHHHHHHHHHHHHhCCCCCCEEEEEC-CCCCC-cHHHH
Confidence 345666777889999843221 111 2 2555555 34555 3 4666665 32233 35666
Q ss_pred HHHHHhhcCeEEEEE
Q 008912 179 LGDKLAEIRCKISYK 193 (549)
Q Consensus 179 l~~~~~~~g~~v~~~ 193 (549)
+...+...|..+...
T Consensus 174 l~~~~~~~g~~~~~~ 188 (305)
T PRK00856 174 NIQALTRLGAEVRLI 188 (305)
T ss_pred HHHHHHHcCCEEEEE
Confidence 777788888876653
No 282
>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=59.00 E-value=49 Score=30.67 Aligned_cols=77 Identities=10% Similarity=0.020 Sum_probs=46.1
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
|++|.. .+.|.......+.+.+++.|+.+.... . . .+...-...++.+.+.+.+.|++..........++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~~~~~~--~-~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (268)
T cd06289 2 IGLVINDLTNPFFAELAAGLEEVLEEAGYTVFLAN--S-G--EDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLKRLA 76 (268)
T ss_pred EEEEecCCCcchHHHHHHHHHHHHHHcCCeEEEec--C-C--CChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHHHHH
Confidence 455554 345666677788888888888765431 1 1 12333456677777777888877654333334666676
Q ss_pred HcCC
Q 008912 240 RLGM 243 (549)
Q Consensus 240 ~~g~ 243 (549)
+.|+
T Consensus 77 ~~~i 80 (268)
T cd06289 77 ESGI 80 (268)
T ss_pred hcCC
Confidence 6554
No 283
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=58.42 E-value=1.3e+02 Score=26.31 Aligned_cols=93 Identities=16% Similarity=0.182 Sum_probs=47.9
Q ss_pred CcEEEEcCCCchHHHHHHHhhhhcC--CcE-EecccCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEE
Q 008912 91 DTLAIVGPQSAVMAHVLSHLANELQ--VPL-LSFTALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIF 166 (549)
Q Consensus 91 ~v~aiiGp~~s~~~~~va~~~~~~~--iP~-Is~~~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~ 166 (549)
++.+++||.+++-......++..+. .+. +++....|...+ ..-.|.|- +. +.+-++++.-..=...- +
T Consensus 3 r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~TTR~~r~~E~~g~~y~fv---s~----~~f~~~~~~~~fie~~~-~ 74 (183)
T PF00625_consen 3 RPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHTTRPPRPGEVDGVDYHFV---SK----EEFERMIKAGEFIEYGE-Y 74 (183)
T ss_dssp SEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEESS-GGTTS-TTTSEEE-----H----HHHHHHHHTTHEEEEEE-E
T ss_pred CEEEEECCCCCCHHHHHHHHHHhcccccccceeecccCCcccccCCcceEEE---ee----chhhhhhccccEEEEee-e
Confidence 6789999999987777777776553 333 333333333322 22344443 11 22333333322111111 4
Q ss_pred ecCCcccchHHHHHHHHhhcCeEEEE
Q 008912 167 NDDDQGRNGVTALGDKLAEIRCKISY 192 (549)
Q Consensus 167 ~~~~~g~~~~~~l~~~~~~~g~~v~~ 192 (549)
.+..||.. ...+...+++...++..
T Consensus 75 ~g~~YGt~-~~~i~~~~~~gk~~il~ 99 (183)
T PF00625_consen 75 DGNYYGTS-KSAIDKVLEEGKHCILD 99 (183)
T ss_dssp TTEEEEEE-HHHHHHHHHTTTEEEEE
T ss_pred cchhhhhc-cchhhHhhhcCCcEEEE
Confidence 45567744 57777777766666554
No 284
>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=58.29 E-value=6.8 Score=21.56 Aligned_cols=15 Identities=13% Similarity=0.144 Sum_probs=11.3
Q ss_pred CchhHHHHHHHHhhh
Q 008912 1 MNLWWLVSIFSFCIG 15 (549)
Q Consensus 1 m~~~~~~~~~~~~~~ 15 (549)
|||++.+++.++.|+
T Consensus 7 mKkil~~l~a~~~La 21 (25)
T PF08139_consen 7 MKKILFPLLALFMLA 21 (25)
T ss_pred HHHHHHHHHHHHHHh
Confidence 488888888777773
No 285
>cd08180 PDD 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism. 1,3-propanediol dehydrogenase (PPD) plays a role in glycerol metabolism of some bacteria in anaerobic conditions. In this degradation pathway, glycerol is converted in a two-step process to 1,3-propanediol (1,3-PD) which is then excreted into the extracellular medium. The first reaction involves the transformation of glycerol into 3-hydroxypropionaldehyde (3-HPA) by a coenzyme B-12-dependent dehydratase. The second reaction involves the dismutation of the 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol by the NADH-linked 1,3-propanediol dehydrogenase (PPD). The enzyme require iron ion for its function. Because many genes in this pathway are present in the pdu (propanediol utilisation) operon, they are also named pdu genes. PPD is a member of the iron-containing alcohol dehydrogenase superfamily. The PPD structure has a dehydroquinat
Probab=57.50 E-value=40 Score=33.00 Aligned_cols=79 Identities=11% Similarity=0.077 Sum_probs=49.5
Q ss_pred HHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch--HHH
Q 008912 154 VSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS--RTG 231 (549)
Q Consensus 154 l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~--~~~ 231 (549)
+..++.+++.+|++.........+.+.+.+++. +.+.....+.+. ...+...+.++.+++.+++.||-.+.+ -++
T Consensus 17 l~~~~~~~~lvv~~~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~d~IiaiGGGs~~D~ 93 (332)
T cd08180 17 LKELKNKRVLIVTDPFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPD--PPIEVVAKGIKKFLDFKPDIVIALGGGSAIDA 93 (332)
T ss_pred HHHhCCCeEEEEeCchhhhCccHHHHHHHHHhc-CcEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEECCchHHHH
Confidence 355666899888854433223567778888765 544332233333 346677788888888899999976554 344
Q ss_pred HHHH
Q 008912 232 LMVF 235 (549)
Q Consensus 232 ~~il 235 (549)
.+.+
T Consensus 94 aKa~ 97 (332)
T cd08180 94 AKAI 97 (332)
T ss_pred HHHH
Confidence 4444
No 286
>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=57.43 E-value=40 Score=33.06 Aligned_cols=84 Identities=11% Similarity=0.045 Sum_probs=54.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
+-+.+.++.++.+++.+|++...+-. ..+.+.+.+++.+..+ +. .+.+. ..........+.+++.+++.||-.+.
T Consensus 12 ~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~~~~-~~-~~~~~--p~~~~v~~~~~~~~~~~~d~IIaiGG 86 (337)
T cd08177 12 AALAAELERLGASRALVLTTPSLATK-LAERVASALGDRVAGT-FD-GAVMH--TPVEVTEAAVAAAREAGADGIVAIGG 86 (337)
T ss_pred HHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCCcEE-eC-CCCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 55778889999999988885543332 5566777777654332 21 22222 34567778888888888999887665
Q ss_pred h--HHHHHHHH
Q 008912 228 S--RTGLMVFD 236 (549)
Q Consensus 228 ~--~~~~~il~ 236 (549)
+ -++.+++.
T Consensus 87 Gs~iD~aK~ia 97 (337)
T cd08177 87 GSTIDLAKAIA 97 (337)
T ss_pred cHHHHHHHHHH
Confidence 4 34444443
No 287
>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=56.73 E-value=72 Score=30.20 Aligned_cols=77 Identities=9% Similarity=0.076 Sum_probs=51.3
Q ss_pred EEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc-hHHHHHHHHHH
Q 008912 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVA 238 (549)
Q Consensus 162 v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~il~~a 238 (549)
|++|..+ +.|.....+.+.+.+++.|+.+...... .........++.+...+++.||+... .......++++
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~~~-----~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l 76 (288)
T cd01538 2 IGLSLPTKTEERWIRDRPNFEAALKELGAEVIVQNAN-----GDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKA 76 (288)
T ss_pred eEEEEeCCCcHHHHHHHHHHHHHHHHcCCEEEEECCC-----CCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHH
Confidence 5666653 4566777888888999999887764321 12334456777777788888887643 34456677777
Q ss_pred HHcCC
Q 008912 239 QRLGM 243 (549)
Q Consensus 239 ~~~g~ 243 (549)
.+.|.
T Consensus 77 ~~~~i 81 (288)
T cd01538 77 ADAGI 81 (288)
T ss_pred HHCCC
Confidence 77664
No 288
>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=56.42 E-value=54 Score=30.31 Aligned_cols=77 Identities=4% Similarity=-0.008 Sum_probs=47.8
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
|+++.. +++|.....+.+.+.+++.|+.+..... . .+.......++++...+.+.||+.........+++.+.
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~----~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 76 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYSLLLATT-D----YDAEREADAVETLLRQRVDGLILTVADAATSPALDLLD 76 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCEEEEeeC-C----CCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHh
Confidence 455554 3456667778888889999988776432 1 12334456677777777888887543222234667777
Q ss_pred HcCC
Q 008912 240 RLGM 243 (549)
Q Consensus 240 ~~g~ 243 (549)
+.|+
T Consensus 77 ~~~i 80 (266)
T cd06282 77 AERV 80 (266)
T ss_pred hCCC
Confidence 7664
No 289
>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=56.18 E-value=88 Score=24.97 Aligned_cols=67 Identities=13% Similarity=0.111 Sum_probs=41.0
Q ss_pred cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc-h---HHHHHHHHHHHHcC
Q 008912 168 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-S---RTGLMVFDVAQRLG 242 (549)
Q Consensus 168 ~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~---~~~~~il~~a~~~g 242 (549)
..+.....+.-+...++..|++|..-. .. ......++.+.+.++++|.+.+. . ..+..++++.++.+
T Consensus 8 ~~e~H~lG~~~~~~~l~~~G~~V~~lg---~~-----~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~ 78 (119)
T cd02067 8 GGDGHDIGKNIVARALRDAGFEVIDLG---VD-----VPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAG 78 (119)
T ss_pred CCchhhHHHHHHHHHHHHCCCEEEECC---CC-----CCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcC
Confidence 344445566777778888888875422 11 12335566666778888888765 2 34556666666654
No 290
>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=55.88 E-value=51 Score=31.05 Aligned_cols=80 Identities=9% Similarity=0.079 Sum_probs=47.7
Q ss_pred EEEEEec---CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHH
Q 008912 162 VIAIFND---DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVA 238 (549)
Q Consensus 162 v~ii~~~---~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a 238 (549)
|++|..+ ++|.....+.+.+.+++.|..+......... ..+.......++.+...+.+.||+..........++.+
T Consensus 2 Igvi~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~l 80 (280)
T cd06303 2 IAVIYPGQQISDYWVRNIASFTARLEELNIPYELTQFSSRP-GIDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIERV 80 (280)
T ss_pred eeEEecCccHHHHHHHHHHHHHHHHHHcCCcEEEEEeccCc-ccCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHHH
Confidence 6677764 3566677788888888899776653211110 01123345667777778889888865433233455565
Q ss_pred HHcC
Q 008912 239 QRLG 242 (549)
Q Consensus 239 ~~~g 242 (549)
.+.+
T Consensus 81 ~~~~ 84 (280)
T cd06303 81 LASG 84 (280)
T ss_pred HhCC
Confidence 5544
No 291
>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=55.86 E-value=61 Score=30.91 Aligned_cols=78 Identities=9% Similarity=-0.017 Sum_probs=49.5
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVA 238 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~~a 238 (549)
|++|.. ++.|.......+++.+++.|+.+....... .+.......++.+...+++.||+.... ......++++
T Consensus 2 I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~v~~~~~~~----~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~ 77 (298)
T cd06302 2 IAFVPKVTGIPYFNRMEEGAKEAAKELGVDAIYVGPTT----ADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKA 77 (298)
T ss_pred EEEEEcCCCChHHHHHHHHHHHHHHHhCCeEEEECCCC----CCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHH
Confidence 455553 345666777888888999998876431111 123344566777777788888886433 3345677777
Q ss_pred HHcCC
Q 008912 239 QRLGM 243 (549)
Q Consensus 239 ~~~g~ 243 (549)
.+.++
T Consensus 78 ~~~~i 82 (298)
T cd06302 78 REAGI 82 (298)
T ss_pred HHCCC
Confidence 77664
No 292
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=55.84 E-value=1.6e+02 Score=29.15 Aligned_cols=87 Identities=7% Similarity=-0.046 Sum_probs=54.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEE--ccCCCCCCChhhHHHHHHHHhcCCC---eEE
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKS--ALPPDQSVTETDVRNELVKVRMMEA---RVI 222 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~--~~~~~~~~~~~~~~~~l~~l~~~~~---~vi 222 (549)
..+.++++.++++++.+|++... .....+.+.+.+++.|+.+.... ...+. .+...+...++.+++.+. +.|
T Consensus 20 ~~l~~~l~~~~~~~~livtd~~~-~~~~~~~v~~~L~~~gi~~~~~~~~~~e~~--~~~~~v~~~~~~~~~~~~~r~d~I 96 (358)
T PRK00002 20 SELGELLAPLKGKKVAIVTDETV-APLYLEKLRASLEAAGFEVDVVVLPDGEQY--KSLETLEKIYDALLEAGLDRSDTL 96 (358)
T ss_pred HHHHHHHHhcCCCeEEEEECCch-HHHHHHHHHHHHHhcCCceEEEEeCCCCCC--CCHHHHHHHHHHHHHcCCCCCCEE
Confidence 44666777788899999985543 33467778888888887654221 11222 345667777777776544 777
Q ss_pred EEEcch--HHHHHHHHH
Q 008912 223 VVHGYS--RTGLMVFDV 237 (549)
Q Consensus 223 il~~~~--~~~~~il~~ 237 (549)
|-.+.+ -++..++..
T Consensus 97 IavGGGsv~D~aK~iA~ 113 (358)
T PRK00002 97 IALGGGVIGDLAGFAAA 113 (358)
T ss_pred EEEcCcHHHHHHHHHHH
Confidence 776554 445555543
No 293
>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=55.43 E-value=40 Score=33.64 Aligned_cols=80 Identities=11% Similarity=0.039 Sum_probs=52.4
Q ss_pred HHcCCcEEEEEEecCCcc-cchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch--HHH
Q 008912 155 SYFGWGEVIAIFNDDDQG-RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS--RTG 231 (549)
Q Consensus 155 ~~~~W~~v~ii~~~~~~g-~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~--~~~ 231 (549)
..++.+++.+|++...+- ....+.+.+.+++.|+.+.....+.+. ...+.+.+.++.+++.+++.||-.+.+ -++
T Consensus 19 ~~~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~--p~~~~v~~~~~~~~~~~~D~IIavGGGSviD~ 96 (375)
T cd08179 19 KTLKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPD--PSVETVLKGAEAMREFEPDWIIALGGGSPIDA 96 (375)
T ss_pred HHhcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCCccHHHH
Confidence 334458898887543222 235577888888888876543333333 456678888889998999999987655 344
Q ss_pred HHHHH
Q 008912 232 LMVFD 236 (549)
Q Consensus 232 ~~il~ 236 (549)
.+.+.
T Consensus 97 AK~ia 101 (375)
T cd08179 97 AKAMW 101 (375)
T ss_pred HHHHH
Confidence 44443
No 294
>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=55.34 E-value=29 Score=25.41 Aligned_cols=42 Identities=21% Similarity=0.313 Sum_probs=33.6
Q ss_pred HHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEE
Q 008912 150 IAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISY 192 (549)
Q Consensus 150 i~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~ 192 (549)
..++++.+ -++|.+.+++|..|....+.+.+.+.+.|..+..
T Consensus 35 ~~~~L~~~-~~~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~~ 76 (79)
T cd03364 35 QAELLKRL-AKEVILAFDGDEAGQKAALRALELLLKLGLNVRV 76 (79)
T ss_pred HHHHHHhc-CCeEEEEECCCHHHHHHHHHHHHHHHHCCCeEEE
Confidence 35555555 6899999999999999999999999988876543
No 295
>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=54.70 E-value=67 Score=29.62 Aligned_cols=77 Identities=6% Similarity=-0.026 Sum_probs=48.5
Q ss_pred EEEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHHH
Q 008912 161 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDV 237 (549)
Q Consensus 161 ~v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~~ 237 (549)
+|++|..+ +.|.....+.+...+++.|+.+.....- .+.......++++...+.+.||+.... ......+..
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~~-----~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~~ 75 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGVELIVLDAQ-----NDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALKK 75 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCceEEEECCC-----CCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHHH
Confidence 36777754 4566777888888888889887664321 123344566777777788888876443 333345566
Q ss_pred HHHcC
Q 008912 238 AQRLG 242 (549)
Q Consensus 238 a~~~g 242 (549)
+.+.+
T Consensus 76 l~~~~ 80 (267)
T cd01536 76 ANAAG 80 (267)
T ss_pred HHHCC
Confidence 65544
No 296
>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=53.76 E-value=68 Score=29.74 Aligned_cols=78 Identities=4% Similarity=0.000 Sum_probs=45.4
Q ss_pred EEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
|+++..+ +.|.....+.+.+.+++.|..+.....-. . ........++.+...+.+.||+..........++.+.
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~-~---~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~ 77 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQLVIEPCDS-G---SPDLAERVRALLQRSRVDGVILTPPLSDNPELLDLLD 77 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCeEEEEeCCC-C---chHHHHHHHHHHHHCCCCEEEEeCCCCCccHHHHHHH
Confidence 4555543 45777777888888888888776543211 1 1223445555666677787777543222344556665
Q ss_pred HcCC
Q 008912 240 RLGM 243 (549)
Q Consensus 240 ~~g~ 243 (549)
+.++
T Consensus 78 ~~~i 81 (270)
T cd01545 78 EAGV 81 (270)
T ss_pred hcCC
Confidence 5553
No 297
>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=53.41 E-value=73 Score=29.55 Aligned_cols=77 Identities=10% Similarity=0.024 Sum_probs=48.6
Q ss_pred EEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc-hHHHHHHHHHH
Q 008912 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVA 238 (549)
Q Consensus 162 v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~il~~a 238 (549)
|+++..+ +.|.....+.+.+.+++.|+.+..... . .+.......++++...+.+.||+... .......++++
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~i~~~-~----~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~~ 76 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVNLIVSIA-N----QDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAKA 76 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCEEEEecC-C----CCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHH
Confidence 4455543 456677788888889999987765321 1 12334456677777778888888543 33335566777
Q ss_pred HHcCC
Q 008912 239 QRLGM 243 (549)
Q Consensus 239 ~~~g~ 243 (549)
.+.|+
T Consensus 77 ~~~~i 81 (267)
T cd06322 77 KKAGI 81 (267)
T ss_pred HHCCC
Confidence 66664
No 298
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=53.31 E-value=65 Score=28.16 Aligned_cols=29 Identities=31% Similarity=0.493 Sum_probs=25.5
Q ss_pred EEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 93 LAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 93 ~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
+.|+||..++-+-....+++.+++|+|+.
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlst 31 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDT 31 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcH
Confidence 57899999988888888999999999984
No 299
>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=53.26 E-value=17 Score=22.04 Aligned_cols=14 Identities=7% Similarity=0.062 Sum_probs=9.1
Q ss_pred cccCCCCceEEEEE
Q 008912 18 IQGALKPEVLNVGA 31 (549)
Q Consensus 18 ~~~~~~~~~i~IG~ 31 (549)
++....++.+.|.+
T Consensus 17 ~a~~~~pG~ViING 30 (36)
T PF08194_consen 17 AAVPATPGNVIING 30 (36)
T ss_pred hcccCCCCeEEECc
Confidence 33335688888865
No 300
>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=52.97 E-value=1.5e+02 Score=25.67 Aligned_cols=134 Identities=16% Similarity=0.207 Sum_probs=76.3
Q ss_pred EEEEecCCCChHHHHHHHHHH-HhcCcEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHH
Q 008912 67 SITMHDAKFNGFLSIMGALQF-METDTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLY 145 (549)
Q Consensus 67 ~~~~~d~~~~~~~a~~~~~~l-~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~ 145 (549)
++.+++ .+-..++..+.++ ..+++.+||.-.. .+. .+-+..++|+|... ++...
T Consensus 11 ~i~v~~--~~~e~~v~~a~~~~~~~g~dViIsRG~--ta~---~lr~~~~iPVV~I~------------------~s~~D 65 (176)
T PF06506_consen 11 EIDVIE--ASLEEAVEEARQLLESEGADVIISRGG--TAE---LLRKHVSIPVVEIP------------------ISGFD 65 (176)
T ss_dssp EEEEEE----HHHHHHHHHHHHTTTT-SEEEEEHH--HHH---HHHCC-SS-EEEE---------------------HHH
T ss_pred eEEEEE--ecHHHHHHHHHHhhHhcCCeEEEECCH--HHH---HHHHhCCCCEEEEC------------------CCHhH
Confidence 444443 4567888899998 7789999996322 222 33345589999752 22333
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEE
Q 008912 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (549)
Q Consensus 146 ~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 225 (549)
+.+++...- .+ -++++++....... ....+.+.+ |..+..... .+..++...+++++..+.++||=.
T Consensus 66 il~al~~a~-~~-~~~Iavv~~~~~~~--~~~~~~~ll---~~~i~~~~~------~~~~e~~~~i~~~~~~G~~viVGg 132 (176)
T PF06506_consen 66 ILRALAKAK-KY-GPKIAVVGYPNIIP--GLESIEELL---GVDIKIYPY------DSEEEIEAAIKQAKAEGVDVIVGG 132 (176)
T ss_dssp HHHHHHHCC-CC-TSEEEEEEESS-SC--CHHHHHHHH---T-EEEEEEE------SSHHHHHHHHHHHHHTT--EEEES
T ss_pred HHHHHHHHH-hc-CCcEEEEecccccH--HHHHHHHHh---CCceEEEEE------CCHHHHHHHHHHHHHcCCcEEECC
Confidence 445544433 23 38999988665432 355555555 555554332 236789999999999998887754
Q ss_pred cchHHHHHHHHHHHHcCCC
Q 008912 226 GYSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 226 ~~~~~~~~il~~a~~~g~~ 244 (549)
.. ..+.|.+.|+.
T Consensus 133 ~~------~~~~A~~~gl~ 145 (176)
T PF06506_consen 133 GV------VCRLARKLGLP 145 (176)
T ss_dssp HH------HHHHHHHTTSE
T ss_pred HH------HHHHHHHcCCc
Confidence 32 24566777753
No 301
>PRK15088 PTS system mannose-specific transporter subunits IIAB; Provisional
Probab=52.76 E-value=1e+02 Score=30.00 Aligned_cols=81 Identities=7% Similarity=0.005 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEE
Q 008912 146 LMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (549)
Q Consensus 146 ~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 225 (549)
.++++..+.++++-+++.++ +|........+.+...+.-.|+++.... ..+....+++-+..+.++++++
T Consensus 176 HGQV~~~W~~~~~~~~IiVv-dD~vA~D~~~k~~lk~A~P~gvk~~i~s---------v~~a~~~l~~~~~~~~~vlil~ 245 (322)
T PRK15088 176 HGQVATRWTKETNVSRIIVV-SDEVAADTVRKTLLTQVAPPGVTAHVVD---------VAKMIRVYNNPKYAGERVMLLF 245 (322)
T ss_pred hHHHHHHHhhccCCCEEEEe-CccccCCHHHHHHHHhcCCCCCeEEEEE---------HHHHHHHHhCCCCCCCeEEEEE
Confidence 57889999999999999655 4554455566677776766787776532 2234444544444567899999
Q ss_pred cchHHHHHHHH
Q 008912 226 GYSRTGLMVFD 236 (549)
Q Consensus 226 ~~~~~~~~il~ 236 (549)
-++.++..+++
T Consensus 246 k~p~d~~~l~~ 256 (322)
T PRK15088 246 TNPTDVERLVE 256 (322)
T ss_pred CCHHHHHHHHH
Confidence 99999887765
No 302
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=52.75 E-value=1e+02 Score=28.34 Aligned_cols=85 Identities=18% Similarity=0.195 Sum_probs=56.1
Q ss_pred chHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH-HHHHHhhhhcCCcE
Q 008912 40 GQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA-HVLSHLANELQVPL 118 (549)
Q Consensus 40 g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~-~~va~~~~~~~iP~ 118 (549)
|..=..+++-.+..|| |..++. ..+ .+-..+...+++..+.+.||-..++-.+ .++..+|...++|+
T Consensus 82 Gk~Kv~vm~eri~~In------P~c~V~--~~~----~f~t~en~~~~~~~~~DyvIDaiD~v~~Kv~Li~~c~~~ki~v 149 (263)
T COG1179 82 GKPKVEVMKERIKQIN------PECEVT--AIN----DFITEENLEDLLSKGFDYVIDAIDSVRAKVALIAYCRRNKIPV 149 (263)
T ss_pred ccHHHHHHHHHHHhhC------CCceEe--ehH----hhhCHhHHHHHhcCCCCEEEEchhhhHHHHHHHHHHHHcCCCE
Confidence 4444566666777776 444433 333 3333456677888899999987777444 45778899999999
Q ss_pred EecccCCCCCCCCCCCceEEcc
Q 008912 119 LSFTALDPTLSPLQYPFFVQTA 140 (549)
Q Consensus 119 Is~~~~~~~ls~~~~~~~~r~~ 140 (549)
||.++....+ .|+-+++.
T Consensus 150 Iss~Gag~k~----DPTri~v~ 167 (263)
T COG1179 150 ISSMGAGGKL----DPTRIQVA 167 (263)
T ss_pred EeeccccCCC----CCceEEee
Confidence 9976655443 36666665
No 303
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=52.66 E-value=84 Score=29.06 Aligned_cols=76 Identities=11% Similarity=0.009 Sum_probs=48.7
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
|++|.. +++|.....+.+.+.+++.|+.+..... . .+.......++.+...+.+.||+....... ..++++.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~----~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~-~~~~~l~ 75 (265)
T cd06299 2 IGVIVPDIRNPYFASLATAIQDAASAAGYSTIIGNS-D----ENPETENRYLDNLLSQRVDGIIVVPHEQSA-EQLEDLL 75 (265)
T ss_pred EEEEecCCCCccHHHHHHHHHHHHHHcCCEEEEEeC-C----CCHHHHHHHHHHHHhcCCCEEEEcCCCCCh-HHHHHHH
Confidence 556664 3456667778888888889988775432 1 123344567777877888888886543222 3467777
Q ss_pred HcCC
Q 008912 240 RLGM 243 (549)
Q Consensus 240 ~~g~ 243 (549)
+.+.
T Consensus 76 ~~~i 79 (265)
T cd06299 76 KRGI 79 (265)
T ss_pred hCCC
Confidence 7664
No 304
>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=52.36 E-value=59 Score=30.67 Aligned_cols=76 Identities=12% Similarity=0.031 Sum_probs=48.7
Q ss_pred EEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHHHH
Q 008912 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVA 238 (549)
Q Consensus 162 v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~~a 238 (549)
|++|..+ ++|.....+.+.+.+++.|..+...... . .......++++...+++.||+.... ......++++
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~--~----~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~~ 75 (289)
T cd01540 2 IGFIVKQPEEPWFQTEWKFAKKAAKEKGFTVVKIDVP--D----GEKVLSAIDNLGAQGAKGFVICVPDVKLGPAIVAKA 75 (289)
T ss_pred eeeecCCCCCcHHHHHHHHHHHHHHHcCCEEEEccCC--C----HHHHHHHHHHHHHcCCCEEEEccCchhhhHHHHHHH
Confidence 5666643 4566667788888889899887653211 1 2334456777777888888886543 3345667777
Q ss_pred HHcCC
Q 008912 239 QRLGM 243 (549)
Q Consensus 239 ~~~g~ 243 (549)
.+.|+
T Consensus 76 ~~~~i 80 (289)
T cd01540 76 KAYNM 80 (289)
T ss_pred HhCCC
Confidence 77664
No 305
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=52.35 E-value=94 Score=26.28 Aligned_cols=96 Identities=8% Similarity=-0.085 Sum_probs=53.3
Q ss_pred ccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCe--EEEEEEccCCCCCCChhhHHHHHHHHhc
Q 008912 139 TAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRC--KISYKSALPPDQSVTETDVRNELVKVRM 216 (549)
Q Consensus 139 ~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~--~v~~~~~~~~~~~~~~~~~~~~l~~l~~ 216 (549)
+.+.-..+++.+++.+...+...-.|+.+.-......++.+. +..+. .+.....+.+. ....++...++.+..
T Consensus 23 Lt~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l~---~~~~~~~~~~~~~~l~p~--~~~~~~~~~l~~~~~ 97 (152)
T TIGR00249 23 LTTNGCDESRLVAQWLKGQGVEIERILVSPFVRAEQTAEIVG---DCLNLPSSAEVLEGLTPC--GDIGLVSDYLEALTN 97 (152)
T ss_pred cCHHHHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHH---HHcCCCcceEEccCcCCC--CCHHHHHHHHHHHHh
Confidence 445556788889999988665433444444332222233332 23343 23322333322 334556667777665
Q ss_pred CCCeEEEEEcchHHHHHHHHHHH
Q 008912 217 MEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 217 ~~~~viil~~~~~~~~~il~~a~ 239 (549)
...+.+++.+....+..++..+.
T Consensus 98 ~~~~~vliVgH~P~i~~l~~~l~ 120 (152)
T TIGR00249 98 EGVASVLLVSHLPLVGYLVAELC 120 (152)
T ss_pred cCCCEEEEEeCCCCHHHHHHHHh
Confidence 44567777788878887877764
No 306
>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=52.32 E-value=27 Score=28.03 Aligned_cols=85 Identities=14% Similarity=0.085 Sum_probs=46.1
Q ss_pred cEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCC-CCChhhHHHHHHHHh--cCCCeEEEEEcchHHHHHHHH
Q 008912 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQ-SVTETDVRNELVKVR--MMEARVIVVHGYSRTGLMVFD 236 (549)
Q Consensus 160 ~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~-~~~~~~~~~~l~~l~--~~~~~viil~~~~~~~~~il~ 236 (549)
|++++|...+..+. ....+...+.+.|.+|.... |... ..... ....+. -...|.++++..+.....+++
T Consensus 1 ksiAVvGaS~~~~~-~g~~v~~~l~~~G~~v~~Vn--p~~~~i~G~~----~y~sl~e~p~~iDlavv~~~~~~~~~~v~ 73 (116)
T PF13380_consen 1 KSIAVVGASDNPGK-FGYRVLRNLKAAGYEVYPVN--PKGGEILGIK----CYPSLAEIPEPIDLAVVCVPPDKVPEIVD 73 (116)
T ss_dssp -EEEEET--SSTTS-HHHHHHHHHHHTT-EEEEES--TTCSEETTEE-----BSSGGGCSST-SEEEE-S-HHHHHHHHH
T ss_pred CEEEEEcccCCCCC-hHHHHHHHHHhCCCEEEEEC--CCceEECcEE----eeccccCCCCCCCEEEEEcCHHHHHHHHH
Confidence 46777775543332 33445555555776665432 1110 00111 122333 357899999999999999999
Q ss_pred HHHHcCCCCCCeEEEEeC
Q 008912 237 VAQRLGMMDSGYVWIATT 254 (549)
Q Consensus 237 ~a~~~g~~~~~~~~i~~~ 254 (549)
++.++| .+.+|+.++
T Consensus 74 ~~~~~g---~~~v~~~~g 88 (116)
T PF13380_consen 74 EAAALG---VKAVWLQPG 88 (116)
T ss_dssp HHHHHT----SEEEE-TT
T ss_pred HHHHcC---CCEEEEEcc
Confidence 999987 568999887
No 307
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=52.17 E-value=1.9e+02 Score=28.07 Aligned_cols=124 Identities=9% Similarity=0.012 Sum_probs=65.3
Q ss_pred CceEEEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEec-CCCChHHHHHHHHHHHhc----CcEEEEc
Q 008912 24 PEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHD-AKFNGFLSIMGALQFMET----DTLAIVG 97 (549)
Q Consensus 24 ~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d-~~~~~~~a~~~~~~l~~~----~v~aiiG 97 (549)
.+.+.++.+-... .........+++-|+++.+ .++.....+ ...+...+.+.+.+++++ .+.+|+.
T Consensus 160 ~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g--------~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~~ 231 (330)
T PRK15395 160 DGKIQYVLLKGEPGHPDAEARTTYVIKELNDKG--------IKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVIA 231 (330)
T ss_pred CCceEEEEEecCCCCchHHHHHHHHHHHHHhcC--------CCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEEE
Confidence 4677777664332 2223345677777776532 222222222 233455666777777764 4789997
Q ss_pred CCCchHHHHHHHhhhhc---CCcEEecccCCCCCCCCC-CCceEEccCCcHHHHHHHHHHHHH
Q 008912 98 PQSAVMAHVLSHLANEL---QVPLLSFTALDPTLSPLQ-YPFFVQTAPNDLYLMSAIAEMVSY 156 (549)
Q Consensus 98 p~~s~~~~~va~~~~~~---~iP~Is~~~~~~~ls~~~-~~~~~r~~ps~~~~~~ai~~~l~~ 156 (549)
..+.. +..+...+... .+|++++..........+ -+.+..+..+...+++..++++.+
T Consensus 232 ~~d~~-A~gvl~al~~~Gl~~vpVvg~D~~~~~~~~~~~g~~~ttv~~~~~~~G~~a~~~l~~ 293 (330)
T PRK15395 232 NNDAM-AMGAVEALKAHNKSSIPVFGVDALPEALALVKSGAMAGTVLNDANNQAKATFDLAKN 293 (330)
T ss_pred CCchH-HHHHHHHHHhcCCCCCeEEeeCCCHHHHHHHHhCCceEEEecCHHHHHHHHHHHHHH
Confidence 64443 33344444444 558777643221110011 133555556667778777777654
No 308
>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=52.09 E-value=99 Score=28.68 Aligned_cols=75 Identities=11% Similarity=0.021 Sum_probs=45.1
Q ss_pred EEEEEec-----CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHH
Q 008912 162 VIAIFND-----DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 236 (549)
Q Consensus 162 v~ii~~~-----~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~ 236 (549)
|+++..+ +.|.....+.+.+.+++.|..+..... ... .......++.+...+.+.||+...... ..++
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~~~----~~~~~~~~~~l~~~~vdgiii~~~~~~--~~~~ 74 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGYNLILKFV-SDE----DEEEFELPSFLEDGKVDGIILLGGIST--EYIK 74 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCCEEEEEeC-CCC----hHHHHHHHHHHHHCCCCEEEEeCCCCh--HHHH
Confidence 4555544 567777778888888888887765432 211 222334555566677888887654332 2356
Q ss_pred HHHHcCC
Q 008912 237 VAQRLGM 243 (549)
Q Consensus 237 ~a~~~g~ 243 (549)
.+.+.+.
T Consensus 75 ~l~~~~i 81 (268)
T cd06277 75 EIKELGI 81 (268)
T ss_pred HHhhcCC
Confidence 6666553
No 309
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=51.85 E-value=95 Score=29.36 Aligned_cols=95 Identities=8% Similarity=0.071 Sum_probs=63.6
Q ss_pred CceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHH
Q 008912 134 PFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVK 213 (549)
Q Consensus 134 ~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~ 213 (549)
.++.+-.. .+..++++.++.+++|.+.+.+|-+.+ ..+++.+.++..|.+.++++.--. +.++.. ..
T Consensus 162 D~vIQNga-nS~VG~~ViQlaka~GiktinvVRdR~-----~ieel~~~Lk~lGA~~ViTeeel~-----~~~~~k--~~ 228 (354)
T KOG0025|consen 162 DSVIQNGA-NSGVGQAVIQLAKALGIKTINVVRDRP-----NIEELKKQLKSLGATEVITEEELR-----DRKMKK--FK 228 (354)
T ss_pred CeeeecCc-ccHHHHHHHHHHHHhCcceEEEeecCc-----cHHHHHHHHHHcCCceEecHHHhc-----chhhhh--hh
Confidence 46666554 445789999999999999999998665 578899999998876655432110 111111 11
Q ss_pred HhcCCCeEEEEEcchHHHHHHHHHHHHc
Q 008912 214 VRMMEARVIVVHGYSRTGLMVFDVAQRL 241 (549)
Q Consensus 214 l~~~~~~viil~~~~~~~~~il~~a~~~ 241 (549)
...-.++.-+-+..+..+..+.+...+-
T Consensus 229 ~~~~~prLalNcVGGksa~~iar~L~~G 256 (354)
T KOG0025|consen 229 GDNPRPRLALNCVGGKSATEIARYLERG 256 (354)
T ss_pred ccCCCceEEEeccCchhHHHHHHHHhcC
Confidence 1234566666777778888888877653
No 310
>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=51.49 E-value=92 Score=30.46 Aligned_cols=85 Identities=8% Similarity=0.096 Sum_probs=53.2
Q ss_pred HHHHHHHHHcCC-cEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEE-ccCCCCCCChhhHHHHHHHHhcCCCeEEEEE
Q 008912 148 SAIAEMVSYFGW-GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKS-ALPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (549)
Q Consensus 148 ~ai~~~l~~~~W-~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~-~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 225 (549)
..+.++++.++. +++.+|++...+. ...+.+.+.+++.|+.+.... ...+. .+...+....+.+++ +.+.||-.
T Consensus 12 ~~l~~~~~~~~~~~kvlivtd~~~~~-~~~~~i~~~L~~~~~~~~i~~~~~~~~--p~~~~v~~~~~~~~~-~~d~IIai 87 (332)
T cd08549 12 NDIGPIINKIGVNSKIMIVCGNNTYK-VAGKEIIERLESNNFTKEVLERDSLLI--PDEYELGEVLIKLDK-DTEFLLGI 87 (332)
T ss_pred HHHHHHHHHcCCCCcEEEEECCcHHH-HHHHHHHHHHHHcCCeEEEEecCCCCC--CCHHHHHHHHHHhhc-CCCEEEEE
Confidence 446667777876 7888888554432 234778888888887554321 11222 245667777788877 88888876
Q ss_pred cch--HHHHHHHH
Q 008912 226 GYS--RTGLMVFD 236 (549)
Q Consensus 226 ~~~--~~~~~il~ 236 (549)
+.+ -++..++.
T Consensus 88 GGGsv~D~aK~iA 100 (332)
T cd08549 88 GSGTIIDLVKFVS 100 (332)
T ss_pred CCcHHHHHHHHHH
Confidence 654 45555553
No 311
>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=51.11 E-value=75 Score=29.79 Aligned_cols=77 Identities=8% Similarity=-0.031 Sum_probs=48.3
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVA 238 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~~a 238 (549)
|+++.. .+.|.......+.+.+++.|..+..... . .+...-...++.+...+++.||+.... +.....++.+
T Consensus 2 igv~~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~~---~--~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~ 76 (282)
T cd06318 2 IGFSQYTLNSPFFAALTEAAKAHAKALGYELISTDA---Q--GDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAA 76 (282)
T ss_pred eeEEeccccCHHHHHHHHHHHHHHHHcCCEEEEEcC---C--CCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHH
Confidence 455554 3456667778888889999988765322 1 123334567777888888888886432 3334566777
Q ss_pred HHcCC
Q 008912 239 QRLGM 243 (549)
Q Consensus 239 ~~~g~ 243 (549)
.+.|+
T Consensus 77 ~~~~i 81 (282)
T cd06318 77 KAAGV 81 (282)
T ss_pred HHCCC
Confidence 66554
No 312
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=50.75 E-value=83 Score=28.95 Aligned_cols=87 Identities=8% Similarity=-0.067 Sum_probs=51.0
Q ss_pred HHHHHHHHHHHHc--CCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEE
Q 008912 145 YLMSAIAEMVSYF--GWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVI 222 (549)
Q Consensus 145 ~~~~ai~~~l~~~--~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 222 (549)
..++.+++++... .-++|.++..+. ..+.+.+.+++.|..|.....|... ....+.......+++.+.++|
T Consensus 102 ~~~e~L~~~~~~~~~~~~~vL~~rg~~-----~r~~l~~~L~~~G~~v~~~~vY~~~--~~~~~~~~~~~~l~~~~~d~i 174 (240)
T PRK09189 102 GDGVRLAETVAAALAPTARLLYLAGRP-----RAPVFEDRLAAAGIPFRVAECYDML--PVMYSPATLSAILGGAPFDAV 174 (240)
T ss_pred CCHHHHHHHHHHhcCCCCcEEEeccCc-----ccchhHHHHHhCCCeeEEEEEEEee--cCCCChHHHHHHHhcCCCCEE
Confidence 3467788877653 446776665332 4467888899999887655444321 011122234455555566666
Q ss_pred EEEcchHHHHHHHHHHH
Q 008912 223 VVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 223 il~~~~~~~~~il~~a~ 239 (549)
++ .++..+..+++...
T Consensus 175 ~f-~S~~~~~~f~~~~~ 190 (240)
T PRK09189 175 LL-YSRVAARRFFALMR 190 (240)
T ss_pred EE-eCHHHHHHHHHHHh
Confidence 55 45667788877664
No 313
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=50.60 E-value=54 Score=30.99 Aligned_cols=58 Identities=16% Similarity=0.124 Sum_probs=31.6
Q ss_pred CCCceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEE
Q 008912 22 LKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV 96 (549)
Q Consensus 22 ~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aii 96 (549)
...++|+||..-..+. . ...++.+.+-++. |+++++..+++...+. ..+.++.+++..
T Consensus 28 ~~~~~I~IG~~~~~~~------~-~~~~~~~~l~~~~----G~~Vel~~f~~~~~~~------~ALa~GdID~~~ 85 (271)
T PRK11063 28 KDPNHIKVGVIVGAEQ------Q-VAEVAQKVAKEKY----GLDVELVTFNDYVLPN------EALSKGDIDANA 85 (271)
T ss_pred CCCCcEEEEeCCCChH------H-HHHHHHHHHHHhc----CCeEEEEEecCcHHHH------HHHHcCCcceec
Confidence 3445699998743221 1 2344444444432 6789999887543333 233355677744
No 314
>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=50.40 E-value=94 Score=29.72 Aligned_cols=78 Identities=10% Similarity=0.073 Sum_probs=49.7
Q ss_pred EEEEEEec--CCcccchHHHHHHHHhh--cCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc-chHHHHHHH
Q 008912 161 EVIAIFND--DDQGRNGVTALGDKLAE--IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG-YSRTGLMVF 235 (549)
Q Consensus 161 ~v~ii~~~--~~~g~~~~~~l~~~~~~--~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~-~~~~~~~il 235 (549)
+|++|..+ +.|.......+.+.+++ .|+.+..... . .........++++...+.+.||+.. +.......+
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~~~~~~~~---~--~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~~~ 75 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKVEFTFYDA---K--NNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQTVI 75 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCeeEEEecC---C--CCHHHHHHHHHHHHHcCCCEEEEecCchhhHHHHH
Confidence 35666643 45666667788888888 7777665321 1 1233445667778888899888754 334456677
Q ss_pred HHHHHcCC
Q 008912 236 DVAQRLGM 243 (549)
Q Consensus 236 ~~a~~~g~ 243 (549)
+.+.+.|+
T Consensus 76 ~~~~~~gi 83 (303)
T cd01539 76 NKAKQKNI 83 (303)
T ss_pred HHHHHCCC
Confidence 88877665
No 315
>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=50.05 E-value=96 Score=27.59 Aligned_cols=65 Identities=14% Similarity=0.033 Sum_probs=41.9
Q ss_pred CcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch
Q 008912 159 WGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (549)
Q Consensus 159 W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 228 (549)
-++|++|..| .|-....++++..++..|+.+....... .........+++.+..+.++|+++..+
T Consensus 29 ~~~v~lis~D-~~R~ga~eQL~~~a~~l~vp~~~~~~~~----~~~~~~~~~l~~~~~~~~D~vlIDT~G 93 (196)
T PF00448_consen 29 GKKVALISAD-TYRIGAVEQLKTYAEILGVPFYVARTES----DPAEIAREALEKFRKKGYDLVLIDTAG 93 (196)
T ss_dssp T--EEEEEES-TSSTHHHHHHHHHHHHHTEEEEESSTTS----CHHHHHHHHHHHHHHTTSSEEEEEE-S
T ss_pred cccceeecCC-CCCccHHHHHHHHHHHhccccchhhcch----hhHHHHHHHHHHHhhcCCCEEEEecCC
Confidence 5678888755 4656778999999999888765422111 112234566777777788999998764
No 316
>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=50.00 E-value=2.1e+02 Score=26.40 Aligned_cols=131 Identities=11% Similarity=0.007 Sum_probs=71.1
Q ss_pred ceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 008912 25 EVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (549)
Q Consensus 25 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~ 104 (549)
+.-+||.+.+...........++.-++++.+. +.+..........+...+.+.+.++++.+..+|+.......
T Consensus 119 g~~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai~~~~d~~A- 191 (260)
T cd06304 119 KTGKVGFVGGMPIPEVNRFINGFAAGAKSVNP------DITVLVIYTGSFFDPAKGKEAALALIDQGADVIFAAAGGTG- 191 (260)
T ss_pred cCCceEEEeccccHHHHHHHHHHHHHHHHhCC------CcEEEEEEecCccCcHHHHHHHHHHHhCCCCEEEEcCCCCc-
Confidence 44567777543222223446677777766432 22322222222223445666677777766788888554443
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEE
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIA 164 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~i 164 (549)
..+...+...++-++++... .......|-+..+..+...++.-.++.+..-.|+..-.
T Consensus 192 ~gv~~al~~~gv~vigfD~~--~~~~~~~p~lttv~~~~~~~~~~~~~~~~~~~~~~~~~ 249 (260)
T cd06304 192 PGVIQAAKEAGVYAIGVDSD--QSALAPDAVLTSAVKNVDVAVYDAIKAVLDGTWKGGVY 249 (260)
T ss_pred hHHHHHHHHcCCEEEeecCc--hhhhcCccEEEEEEeccHHHHHHHHHHHHcCCCCCcce
Confidence 33444444556666655332 22222346666666677777777777777666755433
No 317
>PRK09701 D-allose transporter subunit; Provisional
Probab=49.83 E-value=1.1e+02 Score=29.47 Aligned_cols=84 Identities=11% Similarity=0.070 Sum_probs=54.4
Q ss_pred cCCcEEEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHH
Q 008912 157 FGWGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLM 233 (549)
Q Consensus 157 ~~W~~v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~ 233 (549)
+.-..|++|..+ ++|.....+.+.+.+++.|+.+..... +.. .+.......++++...+++.||+.... .....
T Consensus 22 ~~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~v~~~~~-~~~--~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~ 98 (311)
T PRK09701 22 FAAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFAS-PSE--GDFQSQLQLFEDLSNKNYKGIAFAPLSSVNLVM 98 (311)
T ss_pred ccCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCeEEEecC-CCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHH
Confidence 556689999864 556777788888999999988765321 111 123344566777777788988886543 33334
Q ss_pred HHHHHHHcCC
Q 008912 234 VFDVAQRLGM 243 (549)
Q Consensus 234 il~~a~~~g~ 243 (549)
.+.++.+.|+
T Consensus 99 ~l~~~~~~gi 108 (311)
T PRK09701 99 PVARAWKKGI 108 (311)
T ss_pred HHHHHHHCCC
Confidence 4566666664
No 318
>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=49.58 E-value=88 Score=29.18 Aligned_cols=79 Identities=6% Similarity=0.019 Sum_probs=46.6
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVA 238 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~~a 238 (549)
+++|.. ++.|.....+.+.+.+++.|+.+.....-.. .+...-...++++...+.+.||+.... ......++.+
T Consensus 2 igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~~ 78 (275)
T cd06320 2 YGVVLKTLSNEFWRSLKEGYENEAKKLGVSVDIQAAPSE---GDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVERA 78 (275)
T ss_pred eeEEEecCCCHHHHHHHHHHHHHHHHhCCeEEEEccCCC---CCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHHH
Confidence 556654 3456666677888888888887765422111 122233456777777778887775432 3334456666
Q ss_pred HHcCC
Q 008912 239 QRLGM 243 (549)
Q Consensus 239 ~~~g~ 243 (549)
.+.+.
T Consensus 79 ~~~~i 83 (275)
T cd06320 79 KKKGI 83 (275)
T ss_pred HHCCC
Confidence 66554
No 319
>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=49.45 E-value=86 Score=28.50 Aligned_cols=78 Identities=12% Similarity=0.078 Sum_probs=48.7
Q ss_pred EEEEEEec---CCcccchHHHHHHHHhh--cCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHH
Q 008912 161 EVIAIFND---DDQGRNGVTALGDKLAE--IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVF 235 (549)
Q Consensus 161 ~v~ii~~~---~~~g~~~~~~l~~~~~~--~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il 235 (549)
+|++|... +.++......+...+++ .++++..... . ....+....++++...+.+.|++.........+.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~--~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~ 75 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEIGRGLEVILADS---Q--SDPERALEALRDLIQQGVDGIIGPPSSSSALAVV 75 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHhCCceEEEEecC---C--CCHHHHHHHHHHHHHcCCCEEEecCCCHHHHHHH
Confidence 35666653 35666667778888888 6766654322 1 1233566677777777888888876654444466
Q ss_pred HHHHHcCC
Q 008912 236 DVAQRLGM 243 (549)
Q Consensus 236 ~~a~~~g~ 243 (549)
..+.+.+.
T Consensus 76 ~~~~~~~i 83 (269)
T cd01391 76 ELAAAAGI 83 (269)
T ss_pred HHHHHcCC
Confidence 66666553
No 320
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=49.32 E-value=1.3e+02 Score=23.82 Aligned_cols=84 Identities=13% Similarity=0.124 Sum_probs=42.1
Q ss_pred HHHHcCCcEEEEEEecCCc-ccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHH
Q 008912 153 MVSYFGWGEVIAIFNDDDQ-GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTG 231 (549)
Q Consensus 153 ~l~~~~W~~v~ii~~~~~~-g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~ 231 (549)
-++..|.+.|.-+-.|.+- +.-....+.+.+++.|+...+.-..... .+..++..+.+.+......|.+.|-++..+
T Consensus 22 ~la~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~~~--~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra 99 (110)
T PF04273_consen 22 QLAAQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHIPVDGGA--ITEEDVEAFADALESLPKPVLAHCRSGTRA 99 (110)
T ss_dssp HHHHCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE----TTT----HHHHHHHHHHHHTTTTSEEEE-SCSHHH
T ss_pred HHHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEeecCCCC--CCHHHHHHHHHHHHhCCCCEEEECCCChhH
Confidence 4666999999877766432 3345567888899999886652211111 234555555555655544555555555655
Q ss_pred HHHHHHH
Q 008912 232 LMVFDVA 238 (549)
Q Consensus 232 ~~il~~a 238 (549)
..+...+
T Consensus 100 ~~l~~l~ 106 (110)
T PF04273_consen 100 SALWALA 106 (110)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 5554333
No 321
>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=48.96 E-value=1e+02 Score=30.18 Aligned_cols=82 Identities=13% Similarity=0.086 Sum_probs=53.2
Q ss_pred HHHHHHH-HcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 149 AIAEMVS-YFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 149 ai~~~l~-~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
-+.++++ ..+.+++.+|++... .....+.+.+.+++.| .+... +.+. .+.+.+...++.+++.++++||-.+.
T Consensus 14 ~l~~~l~~~~~~~~~liv~d~~~-~~~~~~~v~~~l~~~~-~~~~~--~~~~--~~~~~v~~~~~~~~~~~~d~iIaiGG 87 (339)
T cd08173 14 KIPNVLRDLLLGGRVLVVTGPTT-KSIAGKKVEALLEDEG-EVDVV--IVED--ATYEEVEKVESSARDIGADFVIGVGG 87 (339)
T ss_pred HHHHHHHHhCCCCeEEEEECCch-HHHHHHHHHHHHHhcC-CeEEE--EeCC--CCHHHHHHHHHHhhhcCCCEEEEeCC
Confidence 3566677 357799988885443 2345677888888777 44322 2222 34667788888888888898887665
Q ss_pred h--HHHHHHHH
Q 008912 228 S--RTGLMVFD 236 (549)
Q Consensus 228 ~--~~~~~il~ 236 (549)
+ -++..++.
T Consensus 88 Gs~~D~aK~~a 98 (339)
T cd08173 88 GRVIDVAKVAA 98 (339)
T ss_pred chHHHHHHHHH
Confidence 4 34444443
No 322
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=48.84 E-value=1e+02 Score=30.20 Aligned_cols=80 Identities=9% Similarity=-0.023 Sum_probs=50.9
Q ss_pred cEEEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHH
Q 008912 160 GEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFD 236 (549)
Q Consensus 160 ~~v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~ 236 (549)
+.|++|..+ +.|.....+.+++.+++.|..+.....-.. .+.......++.+...+.+.||+.... ......+
T Consensus 47 ~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~~---~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l- 122 (343)
T PRK10936 47 WKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGGY---YNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL- 122 (343)
T ss_pred eEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCCC---CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH-
Confidence 678888754 456666778888889999988776432111 123334566777777888988886543 3333455
Q ss_pred HHHHcCC
Q 008912 237 VAQRLGM 243 (549)
Q Consensus 237 ~a~~~g~ 243 (549)
++.+.|.
T Consensus 123 ~~~~~gi 129 (343)
T PRK10936 123 ELQAANI 129 (343)
T ss_pred HHHHCCC
Confidence 6666564
No 323
>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=48.80 E-value=99 Score=28.73 Aligned_cols=76 Identities=9% Similarity=0.024 Sum_probs=44.1
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
|++|.. ++.|.....+.+.+.+++.|..+.....- .+.......++.+...+.+.||+.........+++.++
T Consensus 2 Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~~-----~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~ 76 (269)
T cd06281 2 IGCLVSDITNPLLAQLFSGAEDRLRAAGYSLLIANSL-----NDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALA 76 (269)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEeCC-----CChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHH
Confidence 455654 34566666778888888888876654221 11233445666677677777777543322334555555
Q ss_pred HcC
Q 008912 240 RLG 242 (549)
Q Consensus 240 ~~g 242 (549)
+.+
T Consensus 77 ~~~ 79 (269)
T cd06281 77 SLD 79 (269)
T ss_pred hCC
Confidence 544
No 324
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=48.69 E-value=1.7e+02 Score=28.21 Aligned_cols=55 Identities=18% Similarity=0.191 Sum_probs=34.5
Q ss_pred CceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH---HHHhhhhcCCcEEec
Q 008912 63 GRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV---LSHLANELQVPLLSF 121 (549)
Q Consensus 63 g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~---va~~~~~~~iP~Is~ 121 (549)
|.++.-....+-.+. ..+.+.+.+++++|++|.+.....+ +...+...+||+|..
T Consensus 188 Gl~vve~~v~~~ndi----~~a~~~l~g~~d~i~~p~dn~i~s~~~~l~~~a~~~kiPli~s 245 (322)
T COG2984 188 GLEVVEAAVTSVNDI----PRAVQALLGKVDVIYIPTDNLIVSAIESLLQVANKAKIPLIAS 245 (322)
T ss_pred CCEEEEEecCccccc----HHHHHHhcCCCcEEEEecchHHHHHHHHHHHHHHHhCCCeecC
Confidence 455544444333332 2344445578999999988754444 456677889999974
No 325
>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=48.64 E-value=97 Score=28.84 Aligned_cols=80 Identities=9% Similarity=0.033 Sum_probs=46.7
Q ss_pred EEEEEEe--cCCcccchHHHHHHHHhhc---CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHH
Q 008912 161 EVIAIFN--DDDQGRNGVTALGDKLAEI---RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMV 234 (549)
Q Consensus 161 ~v~ii~~--~~~~g~~~~~~l~~~~~~~---g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~i 234 (549)
||+++.. ++.|.....+.+.+.+++. |..+..... ... .+.......++++...+.+.||+.... ......
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~~~~l~i~-~~~--~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~ 77 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGLISEFIVT-SAD--GDVAQQIADIRNLIAQGVDAIIINPASPTALNPV 77 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCCeeEEEEe-cCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHH
Confidence 3555553 2345556677777888888 764322221 111 123445677777777788888886543 333446
Q ss_pred HHHHHHcCC
Q 008912 235 FDVAQRLGM 243 (549)
Q Consensus 235 l~~a~~~g~ 243 (549)
+..+.+.|.
T Consensus 78 l~~~~~~~i 86 (272)
T cd06300 78 IEEACEAGI 86 (272)
T ss_pred HHHHHHCCC
Confidence 667766553
No 326
>PF13362 Toprim_3: Toprim domain
Probab=48.61 E-value=63 Score=24.63 Aligned_cols=52 Identities=17% Similarity=0.192 Sum_probs=38.3
Q ss_pred cCCcEEEEEEecCCc--ccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHH
Q 008912 157 FGWGEVIAIFNDDDQ--GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVK 213 (549)
Q Consensus 157 ~~W~~v~ii~~~~~~--g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~ 213 (549)
..+++|.|..++|.. |......+.+.+.+.|..+..... ++ ...|+.+.+++
T Consensus 39 ~~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~~~~~~p-~~----~g~D~ND~l~~ 92 (96)
T PF13362_consen 39 EPGRRVIIAADNDKANEGQKAAEKAAERLEAAGIAVSIVEP-GP----EGKDWNDLLQA 92 (96)
T ss_pred CCCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCeEEEECC-CC----CCchHHHHHHh
Confidence 367899888888877 888899999999988887766433 12 24577777664
No 327
>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=47.90 E-value=1.4e+02 Score=29.51 Aligned_cols=83 Identities=10% Similarity=-0.018 Sum_probs=51.3
Q ss_pred HHHHHHHHHcCC--cEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC---CCeEE
Q 008912 148 SAIAEMVSYFGW--GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVI 222 (549)
Q Consensus 148 ~ai~~~l~~~~W--~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~vi 222 (549)
..+.++++.++. +++.+|++.... ...+.+.+++.|+.+.....+.+. ....+.....+..++. ++|.|
T Consensus 12 ~~l~~~~~~~g~~~~~~lvvtd~~~~----~~~v~~~L~~~g~~~~~f~~v~~n--Pt~~~v~~~~~~~~~~~~~~~D~I 85 (347)
T cd08184 12 DQLNDLLAPKRKNKDPAVFFVDDVFQ----GKDLISRLPVESEDMIIWVDATEE--PKTDQIDALTAQVKSFDGKLPCAI 85 (347)
T ss_pred HHHHHHHHHcCCCCCeEEEEECcchh----hhHHHHHHHhcCCcEEEEcCCCCC--cCHHHHHHHHHHHHhhCCCCCCEE
Confidence 456677777764 567666632221 156677788777765543344444 4566677777888876 89999
Q ss_pred EEEcch--HHHHHHHH
Q 008912 223 VVHGYS--RTGLMVFD 236 (549)
Q Consensus 223 il~~~~--~~~~~il~ 236 (549)
|-.+.+ -++.+.+.
T Consensus 86 IaiGGGS~iD~AKaia 101 (347)
T cd08184 86 VGIGGGSTLDVAKAVS 101 (347)
T ss_pred EEeCCcHHHHHHHHHH
Confidence 876654 34444443
No 328
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=46.95 E-value=1.4e+02 Score=28.80 Aligned_cols=80 Identities=8% Similarity=-0.039 Sum_probs=48.2
Q ss_pred CcEEEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHH
Q 008912 159 WGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 236 (549)
Q Consensus 159 W~~v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~ 236 (549)
-+.|+++..+ ++|.....+.+.+.+++.|..+...... .....-...++.+...+.+.||+..........++
T Consensus 61 ~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~ 135 (328)
T PRK11303 61 TRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLIACSD-----DQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQ 135 (328)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeCC-----CCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHH
Confidence 4578887753 4566666778888888899887654321 11223345666776778888888643222233455
Q ss_pred HHHHcCC
Q 008912 237 VAQRLGM 243 (549)
Q Consensus 237 ~a~~~g~ 243 (549)
.+.+.++
T Consensus 136 ~l~~~~i 142 (328)
T PRK11303 136 RLQNDGL 142 (328)
T ss_pred HHHhcCC
Confidence 5555553
No 329
>PF13155 Toprim_2: Toprim-like
Probab=46.93 E-value=53 Score=24.96 Aligned_cols=41 Identities=17% Similarity=0.326 Sum_probs=35.0
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcC
Q 008912 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIR 187 (549)
Q Consensus 147 ~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g 187 (549)
...+.+++...+-++|.+..++|..|....+.+.+.+...+
T Consensus 35 ~~~~~~~l~~~~~~~i~l~~DnD~aG~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 35 EKQQIKFLKENPYKKIVLAFDNDEAGRKAAEKLQKELKEEG 75 (96)
T ss_pred HHHHHHHHHhCCCCcEEEEeCCCHHHHHHHHHHHHHHHhhC
Confidence 45788888776668899999999999999999999998876
No 330
>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=46.90 E-value=2.6e+02 Score=27.64 Aligned_cols=102 Identities=15% Similarity=0.109 Sum_probs=60.5
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCC-CCChhhHHHHHHHHhcCCCe---EEE
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQ-SVTETDVRNELVKVRMMEAR---VIV 223 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~-~~~~~~~~~~l~~l~~~~~~---vii 223 (549)
.-+.++++.++-+++.+|++...+ ....+.+.+.+++.|+.+... .++... ..+.+.+...++.+++.+.+ .||
T Consensus 12 ~~l~~~l~~~g~~rvlvVtd~~v~-~~~~~~l~~~L~~~g~~~~~~-~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~II 89 (355)
T cd08197 12 DSVLGYLPELNADKYLLVTDSNVE-DLYGHRLLEYLREAGAPVELL-SVPSGEEHKTLSTLSDLVERALALGATRRSVIV 89 (355)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhcCCceEEE-EeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEE
Confidence 335667777777899888865543 335677888888888764322 122211 12456677788888877776 777
Q ss_pred EEcch--HHHHHHHHHHHHcCCCCCCeEEEEeC
Q 008912 224 VHGYS--RTGLMVFDVAQRLGMMDSGYVWIATT 254 (549)
Q Consensus 224 l~~~~--~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (549)
-.+.+ -++..++......| ..++.|-|.
T Consensus 90 AvGGGsv~D~ak~~A~~~~rg---ip~I~IPTT 119 (355)
T cd08197 90 ALGGGVVGNIAGLLAALLFRG---IRLVHIPTT 119 (355)
T ss_pred EECCcHHHHHHHHHHHHhccC---CCEEEecCc
Confidence 65554 44555554333223 345555443
No 331
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=46.37 E-value=35 Score=32.66 Aligned_cols=40 Identities=15% Similarity=0.112 Sum_probs=33.7
Q ss_pred HHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEec
Q 008912 492 IDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTK 539 (549)
Q Consensus 492 idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~ 539 (549)
--|.+.|.+.+|+. .++...+ .++++|..|..|++|+|..
T Consensus 55 ~pl~~~L~~~lG~~--V~~~~a~------dy~~vieal~~g~~D~A~~ 94 (299)
T COG3221 55 APLADYLEKELGIP--VEFFVAT------DYAAVIEALRAGQVDIAWL 94 (299)
T ss_pred HHHHHHHHHHhCCc--eEEEecc------cHHHHHHHHhCCCeeEEec
Confidence 34577889999999 8888774 4999999999999998864
No 332
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=46.17 E-value=1.6e+02 Score=27.35 Aligned_cols=126 Identities=12% Similarity=-0.012 Sum_probs=66.0
Q ss_pred HHHH-hcCcEEEEcCCCchHHHHHHHhhhhcCCcEEecc-cCCCCCCC-CCCCceEEccCCcHHHHHHHHHHHHHcCCcE
Q 008912 85 LQFM-ETDTLAIVGPQSAVMAHVLSHLANELQVPLLSFT-ALDPTLSP-LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGE 161 (549)
Q Consensus 85 ~~l~-~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~-~~~~~ls~-~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~ 161 (549)
..|. +.++.+++=+.++..+.....+-+..++|+|..- .+...... .......=+..+........-+.+..++.+-
T Consensus 54 ~~L~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~iie~~v~~a~~~~~~~~IgvLAT~~Ti~s~~y~~~i~~~~~~~ 133 (251)
T TIGR00067 54 TFLKERHNIKLLVVACNTASALALEDLQRNFDFPVVGVIEPAIKAAIRLTANGRVLVIATNATIKSNAYHEALKEIANDL 133 (251)
T ss_pred HHHHHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEEeecHHHHHHHHHhCCCCeEEEEeCHHHHhhhHHHHHHHHhCCCC
Confidence 3344 4589999998888877778888888899999832 11111100 0111222222333444556666666666652
Q ss_pred EEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch
Q 008912 162 VIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (549)
Q Consensus 162 v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 228 (549)
. +.... ...+.... +.|. .... .....+...++.+++.+.+.+|+.|..
T Consensus 134 ~--v~~~~------~~~lv~~I-e~g~-------~~~~--~~~~~l~~~l~~l~~~~~d~lILGCTh 182 (251)
T TIGR00067 134 L--VEMLA------CPELVPLA-EAGL-------LGED--YALECLKRYLRPLLDTLPDTVVLGCTH 182 (251)
T ss_pred E--EEecC------CHHHHHHH-HcCC-------cCCH--HHHHHHHHHHHHHhcCCCCEEEECcCC
Confidence 2 22211 11122222 2221 1100 012346667777777788888887765
No 333
>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=45.99 E-value=91 Score=29.54 Aligned_cols=79 Identities=8% Similarity=0.149 Sum_probs=46.5
Q ss_pred EEEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHHH
Q 008912 161 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDV 237 (549)
Q Consensus 161 ~v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~~ 237 (549)
+|++|..+ ++|.......+.+.+++.|..+.... ... .+.......++.+...+++.||+.... .....++++
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~g~~~~~~~--~~~--~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~~~i~~ 76 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKLGIEVVATT--DAQ--FDPAKQVADIETTISQKPDIIISIPVDPVSTAAAYKK 76 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHcCCEEEEec--CCC--CCHHHHHHHHHHHHHhCCCEEEEcCCCchhhhHHHHH
Confidence 35666643 34545566777888888888775321 111 123334466666666778888775432 224566777
Q ss_pred HHHcCC
Q 008912 238 AQRLGM 243 (549)
Q Consensus 238 a~~~g~ 243 (549)
+.+.|+
T Consensus 77 ~~~~~i 82 (294)
T cd06316 77 VAEAGI 82 (294)
T ss_pred HHHcCC
Confidence 777664
No 334
>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=45.96 E-value=1.3e+02 Score=28.10 Aligned_cols=77 Identities=12% Similarity=0.015 Sum_probs=44.6
Q ss_pred CcEEEEEEec---------CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchH
Q 008912 159 WGEVIAIFND---------DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR 229 (549)
Q Consensus 159 W~~v~ii~~~---------~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~ 229 (549)
.+.|++|..+ ++|.....+.+.+.+++.|+.+..... . . . +.....+.+...+++.||+.....
T Consensus 3 s~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~~~v~~~-~-~----~-~~~~~~~~l~~~~~dgiii~~~~~ 75 (275)
T cd06295 3 TDTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGYDLLLSFV-S-S----P-DRDWLARYLASGRADGVILIGQHD 75 (275)
T ss_pred ceEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCCEEEEEeC-C-c----h-hHHHHHHHHHhCCCCEEEEeCCCC
Confidence 5677888753 234555667788888888888765321 1 1 1 223444455556788887754322
Q ss_pred HHHHHHHHHHHcCC
Q 008912 230 TGLMVFDVAQRLGM 243 (549)
Q Consensus 230 ~~~~il~~a~~~g~ 243 (549)
. ...++.+.+.|.
T Consensus 76 ~-~~~~~~~~~~~i 88 (275)
T cd06295 76 Q-DPLPERLAETGL 88 (275)
T ss_pred C-hHHHHHHHhCCC
Confidence 2 234666666654
No 335
>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=45.56 E-value=1.1e+02 Score=28.16 Aligned_cols=77 Identities=6% Similarity=0.039 Sum_probs=47.6
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVA 238 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~~a 238 (549)
|++|.. ++.|.....+.+.+.+++.|+.+.... .. .+.......++++...+.+.||+.... ......++.+
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~g~~v~~~~---~~--~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l 76 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKELGYELTVLD---AQ--NDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAA 76 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHcCceEEecC---CC--CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHH
Confidence 345553 355667777888888888888776422 11 223445567777777788887775432 2234566666
Q ss_pred HHcCC
Q 008912 239 QRLGM 243 (549)
Q Consensus 239 ~~~g~ 243 (549)
.+.+.
T Consensus 77 ~~~~i 81 (268)
T cd06323 77 NEAGI 81 (268)
T ss_pred HHCCC
Confidence 66553
No 336
>TIGR01744 XPRTase xanthine phosphoribosyltransferase. This model represent a xanthine-specific phosphoribosyltransferase of Bacillus subtilis and closely related proteins from other species, mostly from other Gram-positive bacteria. The adjacent gene is a xanthine transporter; B. subtilis can import xanthine for the purine salvage pathway or for catabolism to obtain nitrogen.
Probab=45.19 E-value=68 Score=28.43 Aligned_cols=70 Identities=19% Similarity=0.181 Sum_probs=45.6
Q ss_pred HHHHHcCCCCCCCceEEEEEe-cCCCChHHHHHHHHHHHh----cCcEEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 51 QDDINSDPRVLGGRKLSITMH-DAKFNGFLSIMGALQFME----TDTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 51 v~~iN~~~~il~g~~l~~~~~-d~~~~~~~a~~~~~~l~~----~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
.+.||+.+.++||--|....+ |.+.+|...-..+..+.+ .++.+|+|+.......+ ..++..+++|++-.
T Consensus 5 ~~~~~~~~~~~~~~~i~~~~~~~~~~~p~~l~~v~~~l~~~~~~~~~d~Vv~~ea~Gi~la-~~lA~~Lg~p~v~v 79 (191)
T TIGR01744 5 KQKIKEEGVVLPGGILKVDSFLNHQIDPKLMQEVGEEFARRFADDGITKIVTIEASGIAPA-IMTGLKLGVPVVFA 79 (191)
T ss_pred HHHHhcCCEEcCCCEEEEehhhccccCHHHHHHHHHHHHHHhccCCCCEEEEEccccHHHH-HHHHHHHCCCEEEE
Confidence 578899999999877776654 544566433333333322 27899999877765443 34566779999874
No 337
>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=45.10 E-value=2.3e+02 Score=25.30 Aligned_cols=87 Identities=13% Similarity=0.084 Sum_probs=52.0
Q ss_pred cEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc----hHHHHHHH
Q 008912 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY----SRTGLMVF 235 (549)
Q Consensus 160 ~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~----~~~~~~il 235 (549)
.+|.+.....+...-+..-+...++..|++|.+- ..+ .....+++.+++.++++|.+.+. ...+..++
T Consensus 83 ~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~l---G~~-----~p~~~l~~~~~~~~~d~v~lS~~~~~~~~~~~~~i 154 (201)
T cd02070 83 GKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDL---GRD-----VPPEEFVEAVKEHKPDILGLSALMTTTMGGMKEVI 154 (201)
T ss_pred CeEEEEecCCccchHHHHHHHHHHHHCCCEEEEC---CCC-----CCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHH
Confidence 3555555555555556677777888889887542 211 12345566667778888888763 24566677
Q ss_pred HHHHHcCCCCCCeEEEEeC
Q 008912 236 DVAQRLGMMDSGYVWIATT 254 (549)
Q Consensus 236 ~~a~~~g~~~~~~~~i~~~ 254 (549)
++.++.+....-.++++..
T Consensus 155 ~~lr~~~~~~~~~i~vGG~ 173 (201)
T cd02070 155 EALKEAGLRDKVKVMVGGA 173 (201)
T ss_pred HHHHHCCCCcCCeEEEECC
Confidence 7777765322334455443
No 338
>PRK13054 lipid kinase; Reviewed
Probab=44.64 E-value=1.7e+02 Score=28.03 Aligned_cols=75 Identities=12% Similarity=0.094 Sum_probs=45.4
Q ss_pred cEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 160 ~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
+++.+|+....-+......+...+.+.|+.+.....-. ..+...+.+++...+.++||+.+....+..++..+.
T Consensus 4 ~~~~~i~N~~~~~~~~~~~~~~~l~~~g~~~~v~~t~~------~~~a~~~a~~~~~~~~d~vvv~GGDGTl~evv~~l~ 77 (300)
T PRK13054 4 PKSLLILNGKSAGNEELREAVGLLREEGHTLHVRVTWE------KGDAARYVEEALALGVATVIAGGGDGTINEVATALA 77 (300)
T ss_pred ceEEEEECCCccchHHHHHHHHHHHHcCCEEEEEEecC------CCcHHHHHHHHHHcCCCEEEEECCccHHHHHHHHHH
Confidence 46777775433233445666677888888765432211 223445566655566788888777667777776665
Q ss_pred H
Q 008912 240 R 240 (549)
Q Consensus 240 ~ 240 (549)
+
T Consensus 78 ~ 78 (300)
T PRK13054 78 Q 78 (300)
T ss_pred h
Confidence 4
No 339
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=44.61 E-value=55 Score=26.98 Aligned_cols=56 Identities=18% Similarity=0.283 Sum_probs=38.8
Q ss_pred HHHHHHHhc--CcEEEEcCCCc--hHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEE
Q 008912 82 MGALQFMET--DTLAIVGPQSA--VMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQ 138 (549)
Q Consensus 82 ~~~~~l~~~--~v~aiiGp~~s--~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r 138 (549)
+++.+++.+ ++..++|.... .....+..+++.+++|+++....-..+. ...|.++-
T Consensus 2 ~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~kg~i~-~~hp~~~G 61 (137)
T PF00205_consen 2 DEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPMGKGVIP-EDHPLFLG 61 (137)
T ss_dssp HHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGGTTSST-TTSTTEEE
T ss_pred HHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCccccccC-CCCchhcc
Confidence 455666654 89999997666 7889999999999999997543333333 33466655
No 340
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=44.54 E-value=1.6e+02 Score=28.65 Aligned_cols=79 Identities=11% Similarity=0.074 Sum_probs=49.7
Q ss_pred cEEEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHH
Q 008912 160 GEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDV 237 (549)
Q Consensus 160 ~~v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~ 237 (549)
+.++++..+ ++|.....+.+.+.+++.|..+..... . .+.......++.+...+.+.||+..........+..
T Consensus 65 ~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~~-~----~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~ 139 (342)
T PRK10014 65 GVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQG-G----KDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREM 139 (342)
T ss_pred CEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEeC-C----CCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHH
Confidence 467888753 456667777888888888877654321 1 123344566777777788888886543333455666
Q ss_pred HHHcCC
Q 008912 238 AQRLGM 243 (549)
Q Consensus 238 a~~~g~ 243 (549)
+.+.+.
T Consensus 140 l~~~~i 145 (342)
T PRK10014 140 AEEKGI 145 (342)
T ss_pred HhhcCC
Confidence 666553
No 341
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=44.44 E-value=2.3e+02 Score=25.57 Aligned_cols=86 Identities=15% Similarity=0.103 Sum_probs=55.4
Q ss_pred cEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch----HHHHHHH
Q 008912 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS----RTGLMVF 235 (549)
Q Consensus 160 ~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~----~~~~~il 235 (549)
.++.+.....+...-+..-+...++..|++|.+- ..+ ......++.+++.++++|.+.+.. ..+..++
T Consensus 89 ~~vvl~t~~gd~HdiG~~iv~~~l~~~G~~Vi~L---G~~-----vp~e~~v~~~~~~~~~~V~lS~~~~~~~~~~~~~i 160 (213)
T cd02069 89 GKIVLATVKGDVHDIGKNLVGVILSNNGYEVIDL---GVM-----VPIEKILEAAKEHKADIIGLSGLLVPSLDEMVEVA 160 (213)
T ss_pred CeEEEEeCCCchhHHHHHHHHHHHHhCCCEEEEC---CCC-----CCHHHHHHHHHHcCCCEEEEccchhccHHHHHHHH
Confidence 3665555565666666777788888999988763 221 123345666677789998886543 4566777
Q ss_pred HHHHHcCCCCCCeEEEEeCC
Q 008912 236 DVAQRLGMMDSGYVWIATTW 255 (549)
Q Consensus 236 ~~a~~~g~~~~~~~~i~~~~ 255 (549)
++.++.+. .-.+|++...
T Consensus 161 ~~L~~~~~--~~~i~vGG~~ 178 (213)
T cd02069 161 EEMNRRGI--KIPLLIGGAA 178 (213)
T ss_pred HHHHhcCC--CCeEEEEChh
Confidence 77777664 4456666543
No 342
>PRK00865 glutamate racemase; Provisional
Probab=44.39 E-value=2.7e+02 Score=26.04 Aligned_cols=34 Identities=18% Similarity=0.288 Sum_probs=26.3
Q ss_pred HHhcCcEEEEcCCCchHHHHHHHhhhhcCCcEEe
Q 008912 87 FMETDTLAIVGPQSAVMAHVLSHLANELQVPLLS 120 (549)
Q Consensus 87 l~~~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is 120 (549)
+.+.++.+++=+.++..+.++..+-+..++|+|.
T Consensus 63 L~~~g~d~iVIaCNTa~~~~l~~lr~~~~iPvig 96 (261)
T PRK00865 63 LLEYGVKMLVIACNTASAVALPDLRERYDIPVVG 96 (261)
T ss_pred HHhCCCCEEEEeCchHHHHHHHHHHHhCCCCEEe
Confidence 3345899999888877766667777778999997
No 343
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=44.32 E-value=1.6e+02 Score=23.34 Aligned_cols=50 Identities=12% Similarity=0.050 Sum_probs=27.8
Q ss_pred CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc
Q 008912 169 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (549)
Q Consensus 169 ~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 226 (549)
...-...+..+...+++.|.++....... ......+.+++.++++|.+.+
T Consensus 10 ~~~~~lGl~~la~~l~~~G~~v~~~d~~~--------~~~~l~~~~~~~~pd~V~iS~ 59 (121)
T PF02310_consen 10 GEVHPLGLLYLAAYLRKAGHEVDILDANV--------PPEELVEALRAERPDVVGISV 59 (121)
T ss_dssp TSSTSHHHHHHHHHHHHTTBEEEEEESSB---------HHHHHHHHHHTTCSEEEEEE
T ss_pred CcchhHHHHHHHHHHHHCCCeEEEECCCC--------CHHHHHHHHhcCCCcEEEEEc
Confidence 33334456667777777777666432111 113445556666777777765
No 344
>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=44.17 E-value=2e+02 Score=27.38 Aligned_cols=116 Identities=15% Similarity=0.114 Sum_probs=56.3
Q ss_pred CceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchH
Q 008912 24 PEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM 103 (549)
Q Consensus 24 ~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~ 103 (549)
+.-=+||++++.+...+......++-+.+ + .|.++.....++..+. ..+.+.+.+++++++-+.+...
T Consensus 129 P~~k~igvl~~~~~~~~~~~~~~~~~~a~---~-----~g~~l~~~~v~~~~~~----~~~~~~l~~~~da~~~~~~~~~ 196 (294)
T PF04392_consen 129 PDAKRIGVLYDPSEPNSVAQIEQLRKAAK---K-----LGIELVEIPVPSSEDL----EQALEALAEKVDALYLLPDNLV 196 (294)
T ss_dssp TT--EEEEEEETT-HHHHHHHHHHHHHHH---H-----TT-EEEEEEESSGGGH----HHHHHHHCTT-SEEEE-S-HHH
T ss_pred CCCCEEEEEecCCCccHHHHHHHHHHHHH---H-----cCCEEEEEecCcHhHH----HHHHHHhhccCCEEEEECCcch
Confidence 44457999988764322222222222222 2 2556665555443333 2334445556666666555532
Q ss_pred H---HHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHH
Q 008912 104 A---HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY 156 (549)
Q Consensus 104 ~---~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~ 156 (549)
. ..+...+...++|+++.... ... ..-+....++...+++-.++++.+
T Consensus 197 ~~~~~~i~~~~~~~~iPv~~~~~~--~v~---~Gal~~~~~~~~~~G~~Aa~~a~~ 247 (294)
T PF04392_consen 197 DSNFEAILQLANEAKIPVFGSSDF--YVK---AGALGGYSVDYYEQGRQAAEMAVR 247 (294)
T ss_dssp HHTHHHHHHHCCCTT--EEESSHH--HHC---TT-SEEEE--HHHHHHHHHHHHHH
T ss_pred HhHHHHHHHHHHhcCCCEEECCHH--Hhc---CCcEEEEccCHHHHHHHHHHHHHH
Confidence 2 24566778889999985311 111 134566777888888888888766
No 345
>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=43.98 E-value=1.1e+02 Score=28.12 Aligned_cols=75 Identities=13% Similarity=0.109 Sum_probs=45.2
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
|+++.. ++.|.....+.+.+.+++.|+.+..... . ... +....++++...+.+.||+....... ..++.+.
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~----~~~-~~~~~i~~~~~~~vdgiii~~~~~~~-~~~~~~~ 74 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQARGYQPLLINT-D----DDE-DLDAALRQLLQYRVDGVIVTSGTLSS-ELAEECR 74 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHCCCeEEEEcC-C----CCH-HHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHh
Confidence 345554 3456666777888888888887765321 1 112 45566777777788888776432222 3466666
Q ss_pred HcCC
Q 008912 240 RLGM 243 (549)
Q Consensus 240 ~~g~ 243 (549)
+.|+
T Consensus 75 ~~~i 78 (266)
T cd06278 75 RNGI 78 (266)
T ss_pred hcCC
Confidence 6553
No 346
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=43.78 E-value=1.8e+02 Score=25.01 Aligned_cols=66 Identities=12% Similarity=0.115 Sum_probs=43.6
Q ss_pred CCcEEEEEEecCCcc---cchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhc-CCCeEEEEEcc
Q 008912 158 GWGEVIAIFNDDDQG---RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGY 227 (549)
Q Consensus 158 ~W~~v~ii~~~~~~g---~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~~ 227 (549)
..-++++|...|.-+ ......+...+++.|..+.....++. +...+...+++..+ .+.|+||+.+.
T Consensus 3 ~~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~D----d~~~i~~~l~~~~~~~~~DlVIttGG 72 (163)
T TIGR02667 3 IPLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVKD----DIYQIRAQVSAWIADPDVQVILITGG 72 (163)
T ss_pred CccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcCC----CHHHHHHHHHHHHhcCCCCEEEECCC
Confidence 345777776555322 22345777788889998887766663 36667777777643 56888888654
No 347
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=43.45 E-value=1.4e+02 Score=28.24 Aligned_cols=80 Identities=1% Similarity=-0.005 Sum_probs=50.3
Q ss_pred CcEEEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHH
Q 008912 159 WGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVF 235 (549)
Q Consensus 159 W~~v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il 235 (549)
-+.++++..+ ++|.......+.+.+++.|+.+..... . .+.......++++...+.+.|++.... ......+
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~~~~~~-~----~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l 100 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDS-Q----NNPAKELANVQDLTVRGTKILLINPTDSDAVGNAV 100 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeEEEecC-C----CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHH
Confidence 5678877753 456667778888889999988765321 1 123344566777776778877775433 3333556
Q ss_pred HHHHHcCC
Q 008912 236 DVAQRLGM 243 (549)
Q Consensus 236 ~~a~~~g~ 243 (549)
+.+.+.|.
T Consensus 101 ~~~~~~~i 108 (295)
T PRK10653 101 KMANQANI 108 (295)
T ss_pred HHHHHCCC
Confidence 67666554
No 348
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=43.45 E-value=2.5e+02 Score=29.89 Aligned_cols=101 Identities=15% Similarity=0.126 Sum_probs=61.7
Q ss_pred HHHHHHHHHc-CCcEEEEEEecCCcccchHHHHHHHHhhcCe-EEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEE
Q 008912 148 SAIAEMVSYF-GWGEVIAIFNDDDQGRNGVTALGDKLAEIRC-KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (549)
Q Consensus 148 ~ai~~~l~~~-~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~-~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 225 (549)
+++-.+.+.. +-++|.|..+-|..|.....-+...+++.|. .+.+. +|........--...++++...+.+.||..
T Consensus 57 ~a~~ri~~ai~~~e~I~I~gDyD~DGitstail~~~L~~~g~~~~~~~--IP~R~~eGYGl~~~~i~~~~~~~~~LiItv 134 (575)
T PRK11070 57 KAVELLYNALREGTRIIVVGDFDADGATSTALSVLALRSLGCSNVDYL--VPNRFEDGYGLSPEVVDQAHARGAQLIVTV 134 (575)
T ss_pred HHHHHHHHHHHCCCEEEEEEecCccHHHHHHHHHHHHHHcCCCceEEE--eCCCCcCCCCCCHHHHHHHHhcCCCEEEEE
Confidence 3444443332 3468877777777888888888888998887 45543 332110111111245667766677777776
Q ss_pred cchHHHHHHHHHHHHcCCCCCCeEEEEeCC
Q 008912 226 GYSRTGLMVFDVAQRLGMMDSGYVWIATTW 255 (549)
Q Consensus 226 ~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 255 (549)
-.+......+..|+++|+. .|.+|.
T Consensus 135 D~Gi~~~e~i~~a~~~gid-----vIVtDH 159 (575)
T PRK11070 135 DNGISSHAGVAHAHALGIP-----VLVTDH 159 (575)
T ss_pred cCCcCCHHHHHHHHHCCCC-----EEEECC
Confidence 5555566677788888875 455553
No 349
>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=43.25 E-value=1.7e+02 Score=27.42 Aligned_cols=79 Identities=14% Similarity=0.136 Sum_probs=49.6
Q ss_pred cEEEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHH
Q 008912 160 GEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFD 236 (549)
Q Consensus 160 ~~v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~ 236 (549)
++|++|..+ ++|.....+.+.+.+++.|..+..... . .+.+.....++.+...+.+.||+.... ......++
T Consensus 1 ~~ig~i~~~~~~~~~~~~~~gi~~~a~~~gy~~~~~~~-~----~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~ 75 (280)
T cd06315 1 KNIIFVASDLKNGGILGVGEGVREAAKAIGWNLRILDG-R----GSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELE 75 (280)
T ss_pred CeEEEEecccCCcHHHHHHHHHHHHHHHcCcEEEEECC-C----CCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHH
Confidence 457777754 445556778888888889988765321 1 123445577888888888988886543 22234455
Q ss_pred HHHHcCC
Q 008912 237 VAQRLGM 243 (549)
Q Consensus 237 ~a~~~g~ 243 (549)
.+.+.++
T Consensus 76 ~~~~~~i 82 (280)
T cd06315 76 LAQKAGI 82 (280)
T ss_pred HHHHCCC
Confidence 5655553
No 350
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=43.01 E-value=1.6e+02 Score=28.69 Aligned_cols=79 Identities=14% Similarity=0.074 Sum_probs=53.2
Q ss_pred CcEEEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchH-HHHHHH
Q 008912 159 WGEVIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR-TGLMVF 235 (549)
Q Consensus 159 W~~v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~-~~~~il 235 (549)
-.+|+++.. +++|+....+.+.+++++.|..+..... . .+.......++.+...+.+.||+..... .....+
T Consensus 25 ~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l~i~~~-~----~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~l 99 (330)
T PRK10355 25 EVKIGMAIDDLRLERWQKDRDIFVKKAESLGAKVFVQSA-N----GNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVI 99 (330)
T ss_pred CceEEEEecCCCchHHHHHHHHHHHHHHHcCCEEEEECC-C----CCHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHHH
Confidence 356777664 4567788888999999999988776422 1 1244456778888888899998875432 234556
Q ss_pred HHHHHcC
Q 008912 236 DVAQRLG 242 (549)
Q Consensus 236 ~~a~~~g 242 (549)
+.+.+.+
T Consensus 100 ~~~~~~~ 106 (330)
T PRK10355 100 KEAKQEG 106 (330)
T ss_pred HHHHHCC
Confidence 6666655
No 351
>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=43.00 E-value=3e+02 Score=27.06 Aligned_cols=88 Identities=10% Similarity=-0.021 Sum_probs=51.8
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhh-cCeEEEEEEccCCCCCCChhhHHHHHHHHhcC---CCeEEE
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMM---EARVIV 223 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~---~~~vii 223 (549)
.-+.++++.++-+++.+|.+.... ....+.+.+.+++ .++.+......... .+.+.+...++.+++. +.+.||
T Consensus 12 ~~l~~~~~~~~~~k~livtd~~v~-~~~~~~v~~~L~~~~~~~~~~~~~~e~~--k~~~~v~~~~~~~~~~~~~r~d~II 88 (344)
T cd08169 12 ESVESYTTRDLFDQYFFISDSGVA-DLIAHYIAEYLSKILPVHILVIEGGEEY--KTFETVTRILERAIALGANRRTAIV 88 (344)
T ss_pred HHHHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhhcCceEEEeCCCCCC--CCHHHHHHHHHHHHHcCCCCCcEEE
Confidence 345567777777899888754432 2456777777766 56554322112222 3455667777777753 378888
Q ss_pred EEcch--HHHHHHHHHH
Q 008912 224 VHGYS--RTGLMVFDVA 238 (549)
Q Consensus 224 l~~~~--~~~~~il~~a 238 (549)
-.+.+ -++..++...
T Consensus 89 aiGGGsv~D~ak~vA~~ 105 (344)
T cd08169 89 AVGGGATGDVAGFVAST 105 (344)
T ss_pred EECCcHHHHHHHHHHHH
Confidence 76554 4455555443
No 352
>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=42.84 E-value=58 Score=27.31 Aligned_cols=35 Identities=17% Similarity=0.236 Sum_probs=25.9
Q ss_pred cEEEEEEecCC-cccchHHHHHHHHhhc-CeEEEEEE
Q 008912 160 GEVIAIFNDDD-QGRNGVTALGDKLAEI-RCKISYKS 194 (549)
Q Consensus 160 ~~v~ii~~~~~-~g~~~~~~l~~~~~~~-g~~v~~~~ 194 (549)
++|.|+|+.|. ........|.+.|++. |+.|....
T Consensus 1 ~kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~ 37 (150)
T PF08357_consen 1 RKVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQ 37 (150)
T ss_pred CeEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecH
Confidence 47889998654 2345678888899988 98887654
No 353
>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=42.64 E-value=1.2e+02 Score=28.78 Aligned_cols=71 Identities=11% Similarity=0.110 Sum_probs=41.1
Q ss_pred CCcccchHHHHHHHHhhcCe-EEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc-hHHHHHHHHHHHHcCC
Q 008912 169 DDQGRNGVTALGDKLAEIRC-KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVAQRLGM 243 (549)
Q Consensus 169 ~~~g~~~~~~l~~~~~~~g~-~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~il~~a~~~g~ 243 (549)
++|.....+.+.+.+++.|. .+.... +.. .+.......++.+...+.+.||+... .......++++.+.|+
T Consensus 10 ~~f~~~~~~gi~~~a~~~g~~~~i~~~--~~~--~d~~~q~~~i~~l~~~~vdgiIi~~~~~~~~~~~l~~~~~~gi 82 (302)
T TIGR02637 10 NPFFEAANKGAEEAAKELGSVYIIYTG--PTG--TTAEGQIEVVNSLIAQKVDAIAISANDPDALVPALKKAMKRGI 82 (302)
T ss_pred CHHHHHHHHHHHHHHHHhCCeeEEEEC--CCC--CCHHHHHHHHHHHHHcCCCEEEEeCCChHHHHHHHHHHHHCCC
Confidence 45555666777788888884 333221 111 12333446677777777887777543 3344566777777664
No 354
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=42.48 E-value=1.5e+02 Score=24.70 Aligned_cols=48 Identities=27% Similarity=0.300 Sum_probs=34.2
Q ss_pred hHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 175 ~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
....+.+.+++.|.++.....++.+ ...+...++++.+ ++|+||..+.
T Consensus 28 n~~~l~~~l~~~G~~v~~~~~v~Dd----~~~i~~~l~~~~~-~~DliIttGG 75 (144)
T TIGR00177 28 NGPLLAALLEEAGFNVSRLGIVPDD----PEEIREILRKAVD-EADVVLTTGG 75 (144)
T ss_pred cHHHHHHHHHHCCCeEEEEeecCCC----HHHHHHHHHHHHh-CCCEEEECCC
Confidence 3557888888999988877666633 5667777777643 6788888654
No 355
>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=42.46 E-value=1.6e+02 Score=27.19 Aligned_cols=62 Identities=8% Similarity=0.081 Sum_probs=38.1
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
|++|.. ++.+.....+.+.+.+++.|+.+.....-. .........++.+.+.+.+.|++...
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l~~~~vdgiii~~~ 65 (264)
T cd01574 2 IGVVTTDLALHGPSSTLAAIESAAREAGYAVTLSMLAE----ADEEALRAAVRRLLAQRVDGVIVNAP 65 (264)
T ss_pred EEEEeCCCCcccHHHHHHHHHHHHHHCCCeEEEEeCCC----CchHHHHHHHHHHHhcCCCEEEEeCC
Confidence 455554 334566677888888888888766542211 11234456677777777888887544
No 356
>PRK10481 hypothetical protein; Provisional
Probab=42.28 E-value=1.9e+02 Score=26.32 Aligned_cols=77 Identities=17% Similarity=0.141 Sum_probs=47.1
Q ss_pred HHHHHHHHc-CCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 149 AIAEMVSYF-GWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 149 ai~~~l~~~-~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.+..++..+ +-++++++....+. .+.-.+.+.+.|..+.....-|.. .....+....++++..++++|++.|-
T Consensus 118 ~i~~lv~Al~~g~riGVitP~~~q----i~~~~~kw~~~G~~v~~~~aspy~--~~~~~l~~aa~~L~~~gaD~Ivl~C~ 191 (224)
T PRK10481 118 ILPPLVAAIVGGHQVGVIVPVEEQ----LAQQAQKWQVLQKPPVFALASPYH--GSEEELIDAGKELLDQGADVIVLDCL 191 (224)
T ss_pred hHHHHHHHhcCCCeEEEEEeCHHH----HHHHHHHHHhcCCceeEeecCCCC--CCHHHHHHHHHHhhcCCCCEEEEeCC
Confidence 334455443 44899999865442 223333344447776654432222 33456777888888899999999988
Q ss_pred hHHH
Q 008912 228 SRTG 231 (549)
Q Consensus 228 ~~~~ 231 (549)
+-..
T Consensus 192 G~~~ 195 (224)
T PRK10481 192 GYHQ 195 (224)
T ss_pred CcCH
Confidence 7443
No 357
>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=42.26 E-value=1.2e+02 Score=28.11 Aligned_cols=77 Identities=9% Similarity=-0.013 Sum_probs=46.4
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVA 238 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~~a 238 (549)
|++|.. +++|.......+.+.+++.|+.+..... . .+...-...++++...+.+.||+.... +.....+..+
T Consensus 2 i~vi~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~-~----~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l~~~ 76 (277)
T cd06319 2 IAYIVSDLRIPFWQIMGRGVKSKAKALGYDAVELSA-E----NSAKKELENLRTAIDKGVSGIIISPTNSSAAVTLLKLA 76 (277)
T ss_pred eEEEeCCCCchHHHHHHHHHHHHHHhcCCeEEEecC-C----CCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHHHHHHH
Confidence 555554 3456666777888888888887764321 1 123334456667766788888775433 2234566666
Q ss_pred HHcCC
Q 008912 239 QRLGM 243 (549)
Q Consensus 239 ~~~g~ 243 (549)
.+.+.
T Consensus 77 ~~~~i 81 (277)
T cd06319 77 AQAKI 81 (277)
T ss_pred HHCCC
Confidence 66553
No 358
>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=41.85 E-value=1.6e+02 Score=27.27 Aligned_cols=76 Identities=4% Similarity=-0.068 Sum_probs=46.2
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
|++|.. +++|.....+.+.+.+++.|+.+..... . .+...-...++.+...+.+.||+....... ..++++.
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~~~~~~~-~----~~~~~~~~~i~~~~~~~vdgii~~~~~~~~-~~~~~~~ 75 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKHLIITAG-H----HSAEKEREAIEFLLERRCDALILHSKALSD-DELIELA 75 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCEEEEEeC-C----CchHHHHHHHHHHHHcCCCEEEEecCCCCH-HHHHHHh
Confidence 344543 3566677788888888899988765332 1 112334566777777788888886543222 2266666
Q ss_pred HcCC
Q 008912 240 RLGM 243 (549)
Q Consensus 240 ~~g~ 243 (549)
+.|.
T Consensus 76 ~~~i 79 (268)
T cd06270 76 AQVP 79 (268)
T ss_pred hCCC
Confidence 6553
No 359
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=41.83 E-value=1.4e+02 Score=24.53 Aligned_cols=48 Identities=21% Similarity=0.439 Sum_probs=32.9
Q ss_pred hHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 175 ~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
....+...+++.|.++.....++. +...+.+.+++..+. +|+||..+.
T Consensus 20 n~~~l~~~l~~~G~~v~~~~~v~D----d~~~i~~~i~~~~~~-~DlvittGG 67 (133)
T cd00758 20 NGPALEALLEDLGCEVIYAGVVPD----DADSIRAALIEASRE-ADLVLTTGG 67 (133)
T ss_pred hHHHHHHHHHHCCCEEEEeeecCC----CHHHHHHHHHHHHhc-CCEEEECCC
Confidence 456777788889988876655552 356677777776544 788888654
No 360
>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=41.77 E-value=1.3e+02 Score=27.85 Aligned_cols=77 Identities=9% Similarity=-0.018 Sum_probs=48.3
Q ss_pred EEEEEe---cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHHH
Q 008912 162 VIAIFN---DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDV 237 (549)
Q Consensus 162 v~ii~~---~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~~ 237 (549)
|++|.. +++|+....+.+...+++.|+.+..... . .........++.+...+.+.||+.... +.....++.
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~~~~~~~-~----~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~ 76 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVEVIVLDA-N----GDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRK 76 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCEEEEEcC-C----cCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHH
Confidence 455553 3457777788888888889988765321 1 123344556777767788888776533 333456677
Q ss_pred HHHcCC
Q 008912 238 AQRLGM 243 (549)
Q Consensus 238 a~~~g~ 243 (549)
+.+.++
T Consensus 77 ~~~~~i 82 (275)
T cd06317 77 AKQAGI 82 (275)
T ss_pred HHHCCC
Confidence 766654
No 361
>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=41.73 E-value=59 Score=23.42 Aligned_cols=41 Identities=7% Similarity=-0.049 Sum_probs=27.9
Q ss_pred CCCceEEEEEe--cCCCChHHHHHHHHHHHhc-CcEEEEcCCCc
Q 008912 61 LGGRKLSITMH--DAKFNGFLSIMGALQFMET-DTLAIVGPQSA 101 (549)
Q Consensus 61 l~g~~l~~~~~--d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s 101 (549)
+||++|.+.-. -...|+..|.+.+.+...+ +..||||-.-.
T Consensus 9 i~G~ei~yl~iv~~~~~d~d~Al~eM~e~A~~lGAnAVVGvr~d 52 (74)
T TIGR03884 9 IPGLQLYYLGIVSTESDNVDEIVENLREKVKAKGGMGLIAFRIT 52 (74)
T ss_pred CCCeEEEEEEEEEEecCCHHHHHHHHHHHHHHcCCCEEEEEEEE
Confidence 47888765322 1223888888888877666 99999995433
No 362
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=41.71 E-value=1.6e+02 Score=29.06 Aligned_cols=82 Identities=11% Similarity=0.120 Sum_probs=53.1
Q ss_pred HHHHHHHHHcCC-cEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc
Q 008912 148 SAIAEMVSYFGW-GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (549)
Q Consensus 148 ~ai~~~l~~~~W-~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 226 (549)
.-+.++++.++. +++.+|.+...+. ...+.+.+.+++.| .+... +.+. .+.+.+...++.+++.+.++||-.+
T Consensus 22 ~~l~~~l~~~~~~~~~livtd~~~~~-~~~~~l~~~l~~~~-~~~~~--~~~~--~t~~~v~~~~~~~~~~~~d~IIaiG 95 (350)
T PRK00843 22 DDIGDVCSDLKLTGRALIVTGPTTKK-IAGDRVEENLEDAG-DVEVV--IVDE--ATMEEVEKVEEKAKDVNAGFLIGVG 95 (350)
T ss_pred HHHHHHHHHhCCCCeEEEEECCcHHH-HHHHHHHHHHHhcC-CeeEE--eCCC--CCHHHHHHHHHHhhccCCCEEEEeC
Confidence 446677888776 7888887554432 24567777787776 44322 2223 3566778888888888888888766
Q ss_pred ch--HHHHHHH
Q 008912 227 YS--RTGLMVF 235 (549)
Q Consensus 227 ~~--~~~~~il 235 (549)
.+ -++..++
T Consensus 96 GGsv~D~ak~v 106 (350)
T PRK00843 96 GGKVIDVAKLA 106 (350)
T ss_pred CchHHHHHHHH
Confidence 54 4455554
No 363
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=41.39 E-value=1.6e+02 Score=22.55 Aligned_cols=57 Identities=11% Similarity=0.145 Sum_probs=35.4
Q ss_pred hHHHHHHHHhhcCe-EEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc--hHHHHHHHHHHHHcC
Q 008912 175 GVTALGDKLAEIRC-KISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY--SRTGLMVFDVAQRLG 242 (549)
Q Consensus 175 ~~~~l~~~~~~~g~-~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~--~~~~~~il~~a~~~g 242 (549)
....++..++..|. .+... .+..+.++.+++..+++|++... ......++++.++.+
T Consensus 10 ~~~~l~~~l~~~~~~~v~~~-----------~~~~~~~~~~~~~~~d~iiid~~~~~~~~~~~~~~i~~~~ 69 (112)
T PF00072_consen 10 IRELLEKLLERAGYEEVTTA-----------SSGEEALELLKKHPPDLIIIDLELPDGDGLELLEQIRQIN 69 (112)
T ss_dssp HHHHHHHHHHHTTEEEEEEE-----------SSHHHHHHHHHHSTESEEEEESSSSSSBHHHHHHHHHHHT
T ss_pred HHHHHHHHHHhCCCCEEEEE-----------CCHHHHHHHhcccCceEEEEEeeecccccccccccccccc
Confidence 55666677776776 43321 12345566666677888888743 345667777777665
No 364
>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=41.29 E-value=1.4e+02 Score=27.65 Aligned_cols=75 Identities=9% Similarity=0.067 Sum_probs=45.4
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
++++.. ++.|.......+.+.+++.|+++...... .........++.+...+.+.||+....... ..++.+.
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~ 75 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAAGYDVVLSESG-----RRTSPERQWVERLSARRTDGVILVTPELTS-AQRAALR 75 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHcCCeEEEecCC-----CchHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHh
Confidence 455554 35677777888888888888887654321 112334456777777778877765432222 3466665
Q ss_pred HcC
Q 008912 240 RLG 242 (549)
Q Consensus 240 ~~g 242 (549)
+.+
T Consensus 76 ~~~ 78 (270)
T cd06296 76 RTG 78 (270)
T ss_pred cCC
Confidence 554
No 365
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=41.10 E-value=3.8e+02 Score=26.76 Aligned_cols=101 Identities=10% Similarity=0.089 Sum_probs=60.3
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.-++.++++-||+.. +|.. |.|-....+++...+.+.++.+.... ... ....-...-+++.|+.+.++||++.+
T Consensus 119 ~KlA~y~kkkG~K~~-Lvca-DTFRagAfDQLkqnA~k~~iP~ygsy--te~--dpv~ia~egv~~fKke~fdvIIvDTS 192 (483)
T KOG0780|consen 119 TKLAYYYKKKGYKVA-LVCA-DTFRAGAFDQLKQNATKARVPFYGSY--TEA--DPVKIASEGVDRFKKENFDVIIVDTS 192 (483)
T ss_pred HHHHHHHHhcCCcee-EEee-cccccchHHHHHHHhHhhCCeeEecc--ccc--chHHHHHHHHHHHHhcCCcEEEEeCC
Confidence 446667777788755 5553 44656677888888888887765532 111 11223455677888888999999887
Q ss_pred hH--HHHHHHHHHHHc-CCCCCCeEEEEeC
Q 008912 228 SR--TGLMVFDVAQRL-GMMDSGYVWIATT 254 (549)
Q Consensus 228 ~~--~~~~il~~a~~~-g~~~~~~~~i~~~ 254 (549)
+. .-..++.+..+. ....++-+.+..|
T Consensus 193 GRh~qe~sLfeEM~~v~~ai~Pd~vi~VmD 222 (483)
T KOG0780|consen 193 GRHKQEASLFEEMKQVSKAIKPDEIIFVMD 222 (483)
T ss_pred CchhhhHHHHHHHHHHHhhcCCCeEEEEEe
Confidence 63 333444444332 1223555555554
No 366
>PRK11914 diacylglycerol kinase; Reviewed
Probab=40.94 E-value=2.1e+02 Score=27.54 Aligned_cols=78 Identities=14% Similarity=0.069 Sum_probs=48.4
Q ss_pred HcCCcEEEEEEecCCc-c--cchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHH
Q 008912 156 YFGWGEVIAIFNDDDQ-G--RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGL 232 (549)
Q Consensus 156 ~~~W~~v~ii~~~~~~-g--~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~ 232 (549)
+..-+++.+|+....- | ....+++.+.+++.|..+.....- ...+...+.++....+.++||+.+....+.
T Consensus 5 ~~~~~~~~iI~NP~sG~g~~~~~~~~~~~~l~~~g~~~~~~~t~------~~~~~~~~a~~~~~~~~d~vvv~GGDGTi~ 78 (306)
T PRK11914 5 RHEIGKVTVLTNPLSGHGAAPHAAERAIARLHHRGVDVVEIVGT------DAHDARHLVAAALAKGTDALVVVGGDGVIS 78 (306)
T ss_pred cCCCceEEEEECCCCCCCcHHHHHHHHHHHHHHcCCeEEEEEeC------CHHHHHHHHHHHHhcCCCEEEEECCchHHH
Confidence 3455788888854321 2 233556777888888775543221 134566667666666778888777766777
Q ss_pred HHHHHHH
Q 008912 233 MVFDVAQ 239 (549)
Q Consensus 233 ~il~~a~ 239 (549)
.++..+.
T Consensus 79 evv~~l~ 85 (306)
T PRK11914 79 NALQVLA 85 (306)
T ss_pred HHhHHhc
Confidence 7776653
No 367
>COG0134 TrpC Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]
Probab=40.63 E-value=98 Score=28.73 Aligned_cols=86 Identities=17% Similarity=0.116 Sum_probs=63.1
Q ss_pred HHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc--
Q 008912 149 AIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG-- 226 (549)
Q Consensus 149 ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~-- 226 (549)
.++....++|-.-+++++ +..|.....+.++..-+...+.|.....+- + .-++...+..+++.|++..
T Consensus 70 ~ia~~Ye~~GAa~iSVLT-d~~~F~Gs~e~L~~v~~~v~~PvL~KDFii-D--------~yQI~~Ar~~GADavLLI~~~ 139 (254)
T COG0134 70 EIAKAYEEGGAAAISVLT-DPKYFQGSFEDLRAVRAAVDLPVLRKDFII-D--------PYQIYEARAAGADAVLLIVAA 139 (254)
T ss_pred HHHHHHHHhCCeEEEEec-CccccCCCHHHHHHHHHhcCCCeeeccCCC-C--------HHHHHHHHHcCcccHHHHHHh
Confidence 377778889999999998 445667777888777677777766544332 1 1356677778999888743
Q ss_pred -chHHHHHHHHHHHHcCCC
Q 008912 227 -YSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 227 -~~~~~~~il~~a~~~g~~ 244 (549)
+...+..++..|.++||.
T Consensus 140 L~~~~l~el~~~A~~LGm~ 158 (254)
T COG0134 140 LDDEQLEELVDRAHELGME 158 (254)
T ss_pred cCHHHHHHHHHHHHHcCCe
Confidence 456689999999999986
No 368
>PF07302 AroM: AroM protein; InterPro: IPR010843 This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL []. The function of this family is unknown.
Probab=40.60 E-value=2.8e+02 Score=25.17 Aligned_cols=74 Identities=14% Similarity=0.099 Sum_probs=48.4
Q ss_pred cEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch--HHHHHHHHH
Q 008912 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS--RTGLMVFDV 237 (549)
Q Consensus 160 ~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~--~~~~~il~~ 237 (549)
.++++|....+ -.....+.++..+..+.+...-|.. .+...+...-+++++.++++|+++|-+ ...++++++
T Consensus 126 ~~vGVivP~~e----Q~~~~~~kW~~l~~~~~~a~asPy~--~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r~~~~~ 199 (221)
T PF07302_consen 126 HQVGVIVPLPE----QIAQQAEKWQPLGNPVVVAAASPYE--GDEEELAAAARELAEQGADLIVLDCMGYTQEMRDIVQR 199 (221)
T ss_pred CeEEEEecCHH----HHHHHHHHHHhcCCCeEEEEeCCCC--CCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHHHHHHH
Confidence 79999996654 2333334444444444443333322 347778888899999999999998754 667777766
Q ss_pred HH
Q 008912 238 AQ 239 (549)
Q Consensus 238 a~ 239 (549)
+.
T Consensus 200 ~~ 201 (221)
T PF07302_consen 200 AL 201 (221)
T ss_pred Hh
Confidence 53
No 369
>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=40.39 E-value=1.2e+02 Score=28.91 Aligned_cols=77 Identities=5% Similarity=0.017 Sum_probs=43.8
Q ss_pred EEEEEec---CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC--CCeEEEEEcchHHHHHHHH
Q 008912 162 VIAIFND---DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM--EARVIVVHGYSRTGLMVFD 236 (549)
Q Consensus 162 v~ii~~~---~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~--~~~viil~~~~~~~~~il~ 236 (549)
|+++..+ +.|.......+++.+++.|..+..... . .+.......++.+... +.+.||+.........+++
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~g~~v~~~~~-~----~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~ 76 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDLGIELEVLYA-E----RDRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLR 76 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhcCCeEEEEeC-C----CCHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHH
Confidence 4455532 345556667777788888877655421 1 1223334556666666 7888777543323445566
Q ss_pred HHHHcCC
Q 008912 237 VAQRLGM 243 (549)
Q Consensus 237 ~a~~~g~ 243 (549)
.+.+.|+
T Consensus 77 ~~~~~gi 83 (305)
T cd06324 77 LAEGAGV 83 (305)
T ss_pred HHHhCCC
Confidence 6666553
No 370
>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=40.38 E-value=1.6e+02 Score=27.21 Aligned_cols=76 Identities=16% Similarity=0.118 Sum_probs=45.3
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
|+++.. ++.+.......+.+.+++.|..+.... .. .+.......++.+.+.+.+.|++..... ....++.+.
T Consensus 2 i~vv~p~~~~~~~~~~~~~i~~~~~~~g~~~~~~~---~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~-~~~~~~~l~ 75 (268)
T cd06273 2 IGAIVPTLDNAIFARVIQAFQETLAAHGYTLLVAS---SG--YDLDREYAQARKLLERGVDGLALIGLDH-SPALLDLLA 75 (268)
T ss_pred eEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEec---CC--CCHHHHHHHHHHHHhcCCCEEEEeCCCC-CHHHHHHHH
Confidence 456664 355666777888888888888776532 11 1233345667777777778777754321 224455555
Q ss_pred HcCC
Q 008912 240 RLGM 243 (549)
Q Consensus 240 ~~g~ 243 (549)
+.+.
T Consensus 76 ~~~i 79 (268)
T cd06273 76 RRGV 79 (268)
T ss_pred hCCC
Confidence 5553
No 371
>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=40.29 E-value=35 Score=32.73 Aligned_cols=37 Identities=8% Similarity=0.086 Sum_probs=29.6
Q ss_pred HHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecceE
Q 008912 498 AVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKKVA 542 (549)
Q Consensus 498 ~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~~t 542 (549)
+++++|++ ++++.. .+|..++..|.+|++|+++.+.+
T Consensus 21 ~~k~~Gl~--Ve~~~~------~~~~~~~~al~~G~iD~~~~~~~ 57 (300)
T TIGR01729 21 AAKEAGAT--IDWRKF------DSGADISTALASGNVPIGVIGSS 57 (300)
T ss_pred hHHhcCCe--eEEEec------CcHHHHHHHHHcCCCCEeccCCC
Confidence 55668999 888776 24789999999999999986543
No 372
>TIGR00646 MG010 DNA primase-related protein. The DNA primase DnaG of E. coli and its apparent orthologs in other eubacterial species are approximately 600 residues in length. Within this set, a conspicuous outlier in percent identity, as seen in a UPGMA difference tree, is the branch containing the Mycoplasmas. This lineage is also unique in containing the small, DNA primase-related protein modelled by this alignment, which is homologous to the central third of DNA primase. Several small regions of sequence similarity specifically to Mycoplasma sequences rather than to all DnaG homologs suggests that the divergence of this protein from DnaG post-dated the separation of bacterial lineages. The function of this DNA primase-related protein is unknown.
Probab=40.14 E-value=77 Score=28.62 Aligned_cols=57 Identities=12% Similarity=0.172 Sum_probs=41.0
Q ss_pred HHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHH
Q 008912 152 EMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVK 213 (549)
Q Consensus 152 ~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~ 213 (549)
.+++++.-++|.+.+++|..|+....+..+.+.+.|..+... .+|.. ..|+.+.+..
T Consensus 147 ~lLkr~~~~~Iil~~D~D~AG~~Aa~r~~~~L~~~G~~v~vv-~lP~~----~KDwNEllk~ 203 (218)
T TIGR00646 147 KFFKQKKIEKIFICFDNDFAGKNAAANLEEILKKAGFITKVI-EIKAA----AKDWNDLFLL 203 (218)
T ss_pred HHHhccCCCEEEEEeCCCHHHHHHHHHHHHHHHHCCCeEEEE-eCCCc----CCChhHHHHH
Confidence 345655567999999999999999988889998888775442 34422 4577776654
No 373
>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=39.94 E-value=1.3e+02 Score=28.04 Aligned_cols=75 Identities=9% Similarity=0.054 Sum_probs=45.3
Q ss_pred EEEEEe-cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHHHHH
Q 008912 162 VIAIFN-DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~-~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~~a~ 239 (549)
|++|.. .++|.......+.+.+++.|+.+.... +.. .........++.+...+.+.+|+.... ......++.+.
T Consensus 2 i~~v~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~--~~~--~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~ 77 (271)
T cd06314 2 IAVVTNGASPFWKIAEAGVKAAGKELGVDVEFVV--PQQ--GTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIPALNKAA 77 (271)
T ss_pred eEEEcCCCcHHHHHHHHHHHHHHHHcCCeEEEeC--CCC--CCHHHHHHHHHHHHhcCCCEEEEecCChhHhHHHHHHHh
Confidence 445542 345666777888888888888776542 111 123334566777777788888876443 23345666665
Q ss_pred H
Q 008912 240 R 240 (549)
Q Consensus 240 ~ 240 (549)
+
T Consensus 78 ~ 78 (271)
T cd06314 78 A 78 (271)
T ss_pred c
Confidence 5
No 374
>TIGR00670 asp_carb_tr aspartate carbamoyltransferase. Ornithine carbamoyltransferases are in the same superfamily and form an outgroup.
Probab=39.86 E-value=3.5e+02 Score=26.01 Aligned_cols=136 Identities=14% Similarity=0.170 Sum_probs=75.2
Q ss_pred EEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEE-ecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 008912 27 LNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITM-HDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (549)
Q Consensus 27 i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~-~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~ 105 (549)
-.++.+|-..+ .+-+.+|+.|+.++ +|..+.+.. .++...-.+.++-....++.-+++|+-=. ....
T Consensus 40 k~v~~lF~~pS---TRTR~SFe~A~~~L-------Gg~~i~l~~~~~s~~~kgEsi~Dta~vls~y~D~iviR~--~~~~ 107 (301)
T TIGR00670 40 KILANLFFEPS---TRTRLSFETAMKRL-------GGDVVNFSDSETSSVAKGETLADTIKTLSGYSDAIVIRH--PLEG 107 (301)
T ss_pred CEEEEEeccCC---chhHhHHHHHHHHc-------CCcEEEcCCCCcccCCCCcCHHHHHHHHHHhCCEEEEEC--Cchh
Confidence 34777786654 46688999999884 444454443 33332223344444444454455555311 1233
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHH---HHcC---CcEEEEEEecCCcccchHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV---SYFG---WGEVIAIFNDDDQGRNGVTAL 179 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l---~~~~---W~~v~ii~~~~~~g~~~~~~l 179 (549)
.+..+++...+|+|.-+..+ ... | .+++++++ .++| -.+|+++.+ ...+ .....+
T Consensus 108 ~~~~~a~~s~vPVINa~~g~-----~~H-------P-----tQ~LaDl~Ti~e~~g~l~g~~va~vGD-~~~~-~v~~Sl 168 (301)
T TIGR00670 108 AARLAAEVSEVPVINAGDGS-----NQH-------P-----TQTLLDLYTIYEEFGRLDGLKIALVGD-LKYG-RTVHSL 168 (301)
T ss_pred HHHHHHhhCCCCEEeCCCCC-----CCC-------c-----HHHHHHHHHHHHHhCCCCCCEEEEEcc-CCCC-cHHHHH
Confidence 45566777789999843211 011 2 25566653 4555 257777762 2112 456666
Q ss_pred HHHHhhcCeEEEEE
Q 008912 180 GDKLAEIRCKISYK 193 (549)
Q Consensus 180 ~~~~~~~g~~v~~~ 193 (549)
...+...|..+...
T Consensus 169 ~~~~a~~g~~v~~~ 182 (301)
T TIGR00670 169 AEALTRFGVEVYLI 182 (301)
T ss_pred HHHHHHcCCEEEEE
Confidence 77778888877654
No 375
>PF00218 IGPS: Indole-3-glycerol phosphate synthase; InterPro: IPR013798 Indole-3-glycerol phosphate synthase (4.1.1.48 from EC) (IGPS) catalyses the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyses N-(5'-phosphoribosyl)anthranilate isomerase (5.3.1.24 from EC) (PRAI) activity (see IPR001240 from INTERPRO), the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (2.4.2 from EC) (GATase) N-terminal domain (see IPR000991 from INTERPRO). A structure of the IGPS domain of the bifunctional enzyme from the mesophilic bacterium E. coli (eIGPS) has been compared with the monomeric indole-3-glycerol phosphate synthase from the hyperthermophilic archaeon Sulfolobus solfataricus (sIGPS). Both are single-domain (beta/alpha)8 barrel proteins, with one (eIGPS) or two (sIGPS) additional helices inserted before the first beta strand []. ; GO: 0004425 indole-3-glycerol-phosphate synthase activity; PDB: 1VC4_A 1PII_A 1JCM_P 1I4N_B 1J5T_A 3TSM_B 4FB7_A 3QJA_A 1JUL_A 2C3Z_A ....
Probab=39.80 E-value=2.7e+02 Score=26.01 Aligned_cols=87 Identities=11% Similarity=0.098 Sum_probs=55.7
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
..++......|-.-++++++.. |.....+.+...-+..++.+.....+-. .-++.+-+..+++.|++...
T Consensus 71 ~~~a~~y~~~GA~aiSVlTe~~-~F~Gs~~dL~~v~~~~~~PvL~KDFIid---------~~QI~eA~~~GADaVLLI~~ 140 (254)
T PF00218_consen 71 AEIAKAYEEAGAAAISVLTEPK-FFGGSLEDLRAVRKAVDLPVLRKDFIID---------PYQIYEARAAGADAVLLIAA 140 (254)
T ss_dssp HHHHHHHHHTT-SEEEEE--SC-CCHHHHHHHHHHHHHSSS-EEEES---S---------HHHHHHHHHTT-SEEEEEGG
T ss_pred HHHHHHHHhcCCCEEEEECCCC-CCCCCHHHHHHHHHHhCCCcccccCCCC---------HHHHHHHHHcCCCEeehhHH
Confidence 5566677778899999998554 5556667777666666777665443321 13566777789999998654
Q ss_pred ---hHHHHHHHHHHHHcCCC
Q 008912 228 ---SRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 228 ---~~~~~~il~~a~~~g~~ 244 (549)
......++..|.++||.
T Consensus 141 ~L~~~~l~~l~~~a~~lGle 160 (254)
T PF00218_consen 141 ILSDDQLEELLELAHSLGLE 160 (254)
T ss_dssp GSGHHHHHHHHHHHHHTT-E
T ss_pred hCCHHHHHHHHHHHHHcCCC
Confidence 45668999999999985
No 376
>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=39.77 E-value=2.7e+02 Score=24.69 Aligned_cols=102 Identities=11% Similarity=0.019 Sum_probs=60.8
Q ss_pred HHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHH
Q 008912 103 MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDK 182 (549)
Q Consensus 103 ~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~ 182 (549)
....+..++...++|++.... +. ++ ....+.+.+.++...-+.+-.|...+-+......++...
T Consensus 46 ~~e~~~~~A~~lgipl~~i~~-~~--~~-------------e~~~~~l~~~l~~~~~~g~~~vv~G~i~sd~~~~~~e~~ 109 (194)
T cd01994 46 NHELLELQAEAMGIPLIRIEI-SG--EE-------------EDEVEDLKELLRKLKEEGVDAVVFGAILSEYQRTRVERV 109 (194)
T ss_pred CHHHHHHHHHHcCCcEEEEeC-CC--Cc-------------hHHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHHH
Confidence 345567788899999886432 11 11 122244444444432112333444555555667788888
Q ss_pred HhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch
Q 008912 183 LAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (549)
Q Consensus 183 ~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 228 (549)
+.+.|+.....-+ ..+-..+++++-+.+-+++|+....
T Consensus 110 ~~~~gl~~~~PLW--------~~~~~~ll~e~~~~g~~~~iv~v~~ 147 (194)
T cd01994 110 CERLGLEPLAPLW--------GRDQEELLREMIEAGFKAIIIKVAA 147 (194)
T ss_pred HHHcCCEEEeccc--------CCCHHHHHHHHHHcCCeEEEEEecc
Confidence 8888887665322 2244568888888888888876544
No 377
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=39.57 E-value=2.8e+02 Score=27.63 Aligned_cols=96 Identities=4% Similarity=-0.026 Sum_probs=54.9
Q ss_pred HHHHHHHHHHHc--CCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEE
Q 008912 146 LMSAIAEMVSYF--GWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 223 (549)
Q Consensus 146 ~~~ai~~~l~~~--~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vii 223 (549)
.++.+++.+... .-++|.+......-|......+.+.+++.|..|.....|..............+..+.+...++|
T Consensus 127 ~~e~L~~~l~~~~~~g~~vli~~~~~~~~~~~~~~L~~~L~~~G~~V~~~~vY~~~~~~~~~~~~~~~~~l~~~~~d~v- 205 (381)
T PRK07239 127 SSAEVLEYLLEEGVAGKRIAVQLHGATDEWEPLPEFLEALRAAGAEVVPVPVYRWVPPPDPGPLDRLVDAIASRGLDAV- 205 (381)
T ss_pred ccHHHHHHHhcCCCCCCEEEEEcCCCccccCchHHHHHHHHHCCCEEEEeCcEEEcCCCChhHHHHHHHHHHcCCccEE-
Confidence 467777777653 34676654433122222346788899999988876544421100112223445566655455554
Q ss_pred EEcchHHHHHHHHHHHHcC
Q 008912 224 VHGYSRTGLMVFDVAQRLG 242 (549)
Q Consensus 224 l~~~~~~~~~il~~a~~~g 242 (549)
++.++..+..|+..+.+.+
T Consensus 206 ~FtS~stv~~f~~~l~~~~ 224 (381)
T PRK07239 206 TFTSAPAVAALLERAREMG 224 (381)
T ss_pred EEcCHHHHHHHHHHHHHcC
Confidence 4566778888888776554
No 378
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=39.31 E-value=1.6e+02 Score=27.44 Aligned_cols=49 Identities=16% Similarity=0.253 Sum_probs=39.8
Q ss_pred chHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 174 NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 174 ~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
...+.|.+.+.+.|+.+.....++. +..++.+.++.+.+. +|+||+.+.
T Consensus 21 tNa~~la~~L~~~G~~v~~~~~VgD----~~~~I~~~l~~a~~r-~D~vI~tGG 69 (255)
T COG1058 21 TNAAFLADELTELGVDLARITTVGD----NPDRIVEALREASER-ADVVITTGG 69 (255)
T ss_pred chHHHHHHHHHhcCceEEEEEecCC----CHHHHHHHHHHHHhC-CCEEEECCC
Confidence 4578899999999999998888874 477888888888776 899988654
No 379
>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed
Probab=39.26 E-value=2.8e+02 Score=25.93 Aligned_cols=87 Identities=16% Similarity=0.095 Sum_probs=58.5
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
..++......|-.-+.++++...|+ ...+.+...-+...+.|.....+. +.. ++......+++.|.+.+.
T Consensus 73 ~~~A~~~~~~GA~aisvlte~~~f~-g~~~~l~~v~~~v~iPvl~kdfi~--------~~~-qi~~a~~~GAD~VlLi~~ 142 (260)
T PRK00278 73 VEIAKAYEAGGAACLSVLTDERFFQ-GSLEYLRAARAAVSLPVLRKDFII--------DPY-QIYEARAAGADAILLIVA 142 (260)
T ss_pred HHHHHHHHhCCCeEEEEecccccCC-CCHHHHHHHHHhcCCCEEeeeecC--------CHH-HHHHHHHcCCCEEEEEec
Confidence 4566666777888888887655444 445666655555566666433221 112 577888899999998764
Q ss_pred h---HHHHHHHHHHHHcCCC
Q 008912 228 S---RTGLMVFDVAQRLGMM 244 (549)
Q Consensus 228 ~---~~~~~il~~a~~~g~~ 244 (549)
. ..+..+++.++++|+.
T Consensus 143 ~l~~~~l~~li~~a~~lGl~ 162 (260)
T PRK00278 143 ALDDEQLKELLDYAHSLGLD 162 (260)
T ss_pred cCCHHHHHHHHHHHHHcCCe
Confidence 3 5788999999998864
No 380
>PRK03515 ornithine carbamoyltransferase subunit I; Provisional
Probab=39.24 E-value=3.8e+02 Score=26.25 Aligned_cols=134 Identities=16% Similarity=0.097 Sum_probs=74.1
Q ss_pred EEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 27 LNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 27 i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
-.++.+|...+ .+-+.+|+.|+.++ +|..+.+...++...-.+.++-..+.++.-+++|+-= ......
T Consensus 46 k~l~~lF~epS---TRTR~SFe~A~~~L-------Gg~~i~l~~~~s~~~kgEsl~Dtarvls~y~D~Iv~R--~~~~~~ 113 (336)
T PRK03515 46 KNIALIFEKDS---TRTRCSFEVAAYDQ-------GARVTYLGPSGSQIGHKESIKDTARVLGRMYDGIQYR--GYGQEI 113 (336)
T ss_pred CEEEEEecCCC---hhHHHHHHHHHHHc-------CCcEEEeCCccccCCCCCCHHHHHHHHHHhCcEEEEE--eCChHH
Confidence 34777887654 46788999999884 3444444322222222334444444445434444421 122334
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHH---HHcC---Cc--EEEEEEecCCcccchHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV---SYFG---WG--EVIAIFNDDDQGRNGVTA 178 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l---~~~~---W~--~v~ii~~~~~~g~~~~~~ 178 (549)
+..++....+|+|.-. + +... | .+++++++ +++| ++ +|+++. |. .......
T Consensus 114 ~~~~a~~~~vPVINa~--~----~~~H-------P-----tQaLaDl~Ti~e~~g~~~l~g~~ia~vG--D~-~~~v~~S 172 (336)
T PRK03515 114 VETLAEYAGVPVWNGL--T----NEFH-------P-----TQLLADLLTMQEHLPGKAFNEMTLAYAG--DA-RNNMGNS 172 (336)
T ss_pred HHHHHHhCCCCEEECC--C----CCCC-------h-----HHHHHHHHHHHHHhCCCCcCCCEEEEeC--CC-cCcHHHH
Confidence 5667777889999732 1 1112 2 25666653 5564 33 666654 32 1236777
Q ss_pred HHHHHhhcCeEEEEE
Q 008912 179 LGDKLAEIRCKISYK 193 (549)
Q Consensus 179 l~~~~~~~g~~v~~~ 193 (549)
+...+...|..+...
T Consensus 173 l~~~~~~~g~~v~~~ 187 (336)
T PRK03515 173 LLEAAALTGLDLRLV 187 (336)
T ss_pred HHHHHHHcCCEEEEE
Confidence 777888888877654
No 381
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=39.02 E-value=1.8e+02 Score=26.66 Aligned_cols=78 Identities=21% Similarity=0.219 Sum_probs=44.0
Q ss_pred cCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHH
Q 008912 157 FGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 236 (549)
Q Consensus 157 ~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~ 236 (549)
...+++.++.... ....+.+.+++.|..+.....|... .........+..+.....++ |++.++..+..+++
T Consensus 123 ~~~~~ili~~~~~-----~~~~l~~~L~~~G~~v~~~~~Y~~~--~~~~~~~~~~~~~~~~~~d~-ivftS~~~v~~~~~ 194 (249)
T PRK05928 123 LKGKRVLYLRGNG-----GREVLGDTLEERGAEVDECEVYERV--PPKLDGAELLARLQSGEVDA-VIFTSPSTVRAFFS 194 (249)
T ss_pred cCCCEEEEECCCC-----CHHHHHHHHHHCCCEEeEEEEEEee--CCCCChHHHHHHHHhCCCCE-EEECCHHHHHHHHH
Confidence 3556776665333 4567888888888877654444322 11112233344444345555 45567777777877
Q ss_pred HHHHcC
Q 008912 237 VAQRLG 242 (549)
Q Consensus 237 ~a~~~g 242 (549)
.+.+.+
T Consensus 195 ~~~~~~ 200 (249)
T PRK05928 195 LAPELG 200 (249)
T ss_pred Hhcccc
Confidence 765544
No 382
>PRK13805 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional
Probab=38.98 E-value=5.8e+02 Score=28.89 Aligned_cols=77 Identities=18% Similarity=0.115 Sum_probs=52.2
Q ss_pred CCcEEEEEEecCCcccchHHHHHHHHh--hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch--HHHHH
Q 008912 158 GWGEVIAIFNDDDQGRNGVTALGDKLA--EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS--RTGLM 233 (549)
Q Consensus 158 ~W~~v~ii~~~~~~g~~~~~~l~~~~~--~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~--~~~~~ 233 (549)
+.+++.+|++.........+.+.+.++ +.|+.+.....+.+. .+.+.+.+.++.+++.+++.||-.+.+ -++.+
T Consensus 479 ~~~~~lvVtd~~~~~~g~~~~v~~~L~~~~~~i~~~~~~~v~~n--p~~~~v~~~~~~~~~~~~D~IIaiGGGSviD~AK 556 (862)
T PRK13805 479 GKKRAFIVTDRFMVELGYVDKVTDVLKKRENGVEYEVFSEVEPD--PTLSTVRKGAELMRSFKPDTIIALGGGSPMDAAK 556 (862)
T ss_pred CCCEEEEEECcchhhcchHHHHHHHHhcccCCCeEEEeCCCCCC--cCHHHHHHHHHHHHhcCCCEEEEeCCchHHHHHH
Confidence 668998888554433336778888888 677766544334444 456678888888999999999976654 34454
Q ss_pred HHH
Q 008912 234 VFD 236 (549)
Q Consensus 234 il~ 236 (549)
++.
T Consensus 557 ~ia 559 (862)
T PRK13805 557 IMW 559 (862)
T ss_pred HHH
Confidence 443
No 383
>PRK13808 adenylate kinase; Provisional
Probab=38.98 E-value=1.1e+02 Score=29.83 Aligned_cols=29 Identities=24% Similarity=0.316 Sum_probs=25.4
Q ss_pred EEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 93 LAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 93 ~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
+.|+||.+|+-+.....++..+++++|+.
T Consensus 3 Iiv~GpPGSGK~T~a~~LA~~ygl~~is~ 31 (333)
T PRK13808 3 LILLGPPGAGKGTQAQRLVQQYGIVQLST 31 (333)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCceecc
Confidence 56899999988888888999999999985
No 384
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=38.97 E-value=3.8e+02 Score=26.14 Aligned_cols=125 Identities=16% Similarity=0.076 Sum_probs=71.5
Q ss_pred CceEEEEEEeccC-CCCchHHHHHHHHHHHHHHcCCCCCCCceE-EEEEecCCCChHHHHHHHHHHHhc--C-cEEEEcC
Q 008912 24 PEVLNVGAIFSFG-TVNGQVSRIAMKAAQDDINSDPRVLGGRKL-SITMHDAKFNGFLSIMGALQFMET--D-TLAIVGP 98 (549)
Q Consensus 24 ~~~i~IG~l~~~~-~~~g~~~~~a~~~Av~~iN~~~~il~g~~l-~~~~~d~~~~~~~a~~~~~~l~~~--~-v~aiiGp 98 (549)
.|.=+||.+.... ...+.....++.-|+++.+ .++ ...+.....+...+.+.+.+++.. . ..||+..
T Consensus 173 ~G~~~i~~i~~~~~~~~~~~R~~Gf~~al~~~~--------~~~~~~~i~~~~~~~~~g~~~~~~ll~~~~~~ptAif~~ 244 (333)
T COG1609 173 LGHRRIAFIGGPLDSSASRERLEGYRAALREAG--------LPINPEWIVEGDFSEESGYEAAERLLARGEPRPTAIFCA 244 (333)
T ss_pred CCCceEEEEeCCCccccHhHHHHHHHHHHHHCC--------CCCCcceEEecCCChHHHHHHHHHHHhcCCCCCcEEEEc
Confidence 3445577777652 3334555778877777732 232 333333344677777888888864 3 8899986
Q ss_pred CCchHHHHHHHhhh-hcCCcE-EecccCCC-CCCCCCCCceEEccCCcHHHHHHHHHHHHH
Q 008912 99 QSAVMAHVLSHLAN-ELQVPL-LSFTALDP-TLSPLQYPFFVQTAPNDLYLMSAIAEMVSY 156 (549)
Q Consensus 99 ~~s~~~~~va~~~~-~~~iP~-Is~~~~~~-~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~ 156 (549)
.+.-....+..+.+ ...+|- |+..+.+. .++.-..|-+..+..+...+++..+++|..
T Consensus 245 nD~~Alg~l~~~~~~g~~vP~disviGfDd~~~~~~~~P~LTTv~~~~~~~G~~A~~~Ll~ 305 (333)
T COG1609 245 NDLMALGALRALRELGLRVPEDLSVIGFDDIELARFLTPPLTTVRQPIEELGRRAAELLLE 305 (333)
T ss_pred CcHHHHHHHHHHHHcCCCCCCeeEEEEecChhhhhhCCCCCeeecCCHHHHHHHHHHHHHH
Confidence 55544444433322 234674 65545444 222223466667777777777776666543
No 385
>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=38.92 E-value=1.8e+02 Score=26.88 Aligned_cols=76 Identities=11% Similarity=0.065 Sum_probs=45.9
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
|+++.. ++.|.......+.+.+++.|..+...... .+.......++.+...+.+.|++........ .++.+.
T Consensus 2 igvi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-----~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~-~~~~~~ 75 (264)
T cd06274 2 IGLIIPDLENRSFARIAKRLEALARERGYQLLIACSD-----DDPETERETVETLIARQVDALIVAGSLPPDD-PYYLCQ 75 (264)
T ss_pred EEEEeccccCchHHHHHHHHHHHHHHCCCEEEEEeCC-----CCHHHHHHHHHHHHHcCCCEEEEcCCCCchH-HHHHHH
Confidence 345553 34566667778888888888877654321 1233445677778888889888765432222 255565
Q ss_pred HcCC
Q 008912 240 RLGM 243 (549)
Q Consensus 240 ~~g~ 243 (549)
+.+.
T Consensus 76 ~~~i 79 (264)
T cd06274 76 KAGL 79 (264)
T ss_pred hcCC
Confidence 6553
No 386
>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A.
Probab=38.81 E-value=40 Score=31.11 Aligned_cols=41 Identities=15% Similarity=0.205 Sum_probs=30.8
Q ss_pred HHHHHHHHHhCCCCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecc
Q 008912 492 IDVFLAAVRLLPYAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKK 540 (549)
Q Consensus 492 idl~~~~~~~l~~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~ 540 (549)
-.+.+.|.+.+|.+ ++++.. ..+..++..+.+|++|+++.+
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 35677888889998 888777 259999999999999999864
No 387
>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=38.71 E-value=3.1e+02 Score=25.13 Aligned_cols=122 Identities=12% Similarity=0.092 Sum_probs=58.3
Q ss_pred eEEEEEEeccCC--CCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc--CcEEEEcCCCc
Q 008912 26 VLNVGAIFSFGT--VNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET--DTLAIVGPQSA 101 (549)
Q Consensus 26 ~i~IG~l~~~~~--~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~--~v~aiiGp~~s 101 (549)
.=+|+.+..... ........+++-++++.+ + ++.........+...+.+.+.+++.+ .+.+|++..+.
T Consensus 112 ~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~----~----~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~ 183 (265)
T cd06291 112 CKHIAHIGGPNNTVSPTNLRYEGFLDVLKENG----L----EVRIIEIQENFDDAEKKEEIKELLEEYPDIDGIFASNDL 183 (265)
T ss_pred CcEEEEEccCcccccchHHHHHHHHHHHHHcC----C----CCChheeeccccchHHHHHHHHHHhCCCCCCEEEECChH
Confidence 346776654432 333445677777776532 1 11111111222233355666777755 57888885544
Q ss_pred hHHHHHHHhhhhcCC--c-EEecccCCCC-CCCCCCCceEEccCCcHHHHHHHHHHHHH
Q 008912 102 VMAHVLSHLANELQV--P-LLSFTALDPT-LSPLQYPFFVQTAPNDLYLMSAIAEMVSY 156 (549)
Q Consensus 102 ~~~~~va~~~~~~~i--P-~Is~~~~~~~-ls~~~~~~~~r~~ps~~~~~~ai~~~l~~ 156 (549)
. +..+...+...++ | -|+..+.+.. ......|.+..+..+...++...++.+.+
T Consensus 184 ~-a~~~~~al~~~g~~vp~di~v~g~d~~~~~~~~~~~~~tv~~~~~~~g~~a~~~l~~ 241 (265)
T cd06291 184 T-AILVLKEAQQRGIRVPEDLQIIGYDGTKLTRLYTPELTTIRQPIEEIAKTAVDLLIK 241 (265)
T ss_pred H-HHHHHHHHHHcCCCCCcceEEeccCChHHHhhcCCCceeecCCHHHHHHHHHHHHHH
Confidence 3 3344455544443 3 2332222211 11112344445555666667666666543
No 388
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=38.70 E-value=1.6e+02 Score=27.33 Aligned_cols=88 Identities=14% Similarity=0.076 Sum_probs=48.5
Q ss_pred cHHHHHHHHHH--HHHc---CCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcC
Q 008912 143 DLYLMSAIAEM--VSYF---GWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMM 217 (549)
Q Consensus 143 ~~~~~~ai~~~--l~~~---~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~ 217 (549)
....++.++++ +... .-++|.++..+ .....+.+.+++.|..|.....|... ............+...
T Consensus 109 ~~~~se~Ll~~~~l~~~~~~~~~~vLi~rg~-----~~r~~L~~~L~~~G~~v~~~~vY~~~--~~~~~~~~~~~~~~~~ 181 (255)
T PRK05752 109 QGDDSEALLALPALRQALAVPDPRVLIMRGE-----GGRELLAERLREQGASVDYLELYRRC--LPDYPAGTLLQRVEAE 181 (255)
T ss_pred CCCCcHHHHhChhhhccccCCCCEEEEEccC-----ccHHHHHHHHHHCCCEEeEEEEEeec--CCCCCHHHHHHHHHhC
Confidence 33345667765 3332 33566555433 24566888999999887665544321 1111223344555555
Q ss_pred CCeEEEEEcchHHHHHHHHHH
Q 008912 218 EARVIVVHGYSRTGLMVFDVA 238 (549)
Q Consensus 218 ~~~viil~~~~~~~~~il~~a 238 (549)
..++|++ .++..+..+++..
T Consensus 182 ~~d~v~f-tS~~~~~~~~~~~ 201 (255)
T PRK05752 182 RLNGLVV-SSGQGFEHLQQLA 201 (255)
T ss_pred CCCEEEE-CCHHHHHHHHHHh
Confidence 5665555 4666777776554
No 389
>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=38.30 E-value=2.1e+02 Score=26.55 Aligned_cols=77 Identities=9% Similarity=-0.010 Sum_probs=45.9
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-H---HHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-R---TGLMVF 235 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~---~~~~il 235 (549)
|++|.. ++.|....++.+.+.+++.|..+...... .+.......++.+...+.+.||+.... . .....+
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i 76 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQYGYTVLLCNTY-----RGGVSEADYVEDLLARGVRGVVFISSLHADTHADHSHY 76 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHHCCCEEEEEeCC-----CChHHHHHHHHHHHHcCCCEEEEeCCCCCcccchhHHH
Confidence 445554 34566677788888888888877543221 123344566778877888888875421 1 223345
Q ss_pred HHHHHcCC
Q 008912 236 DVAQRLGM 243 (549)
Q Consensus 236 ~~a~~~g~ 243 (549)
.++.+.|+
T Consensus 77 ~~~~~~~i 84 (273)
T cd06292 77 ERLAERGL 84 (273)
T ss_pred HHHHhCCC
Confidence 55655553
No 390
>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=38.29 E-value=2.3e+02 Score=23.35 Aligned_cols=67 Identities=10% Similarity=0.124 Sum_probs=44.6
Q ss_pred CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch----HHHHHHHHHHHHcCC
Q 008912 169 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS----RTGLMVFDVAQRLGM 243 (549)
Q Consensus 169 ~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~----~~~~~il~~a~~~g~ 243 (549)
.+-......-+...++..|.+|....... .....++..++.++++|.+++.. +.+..+++..++.+.
T Consensus 12 ~D~Hd~g~~iv~~~l~~~GfeVi~lg~~~--------s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L~~~g~ 82 (132)
T TIGR00640 12 QDGHDRGAKVIATAYADLGFDVDVGPLFQ--------TPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKELDKLGR 82 (132)
T ss_pred CCccHHHHHHHHHHHHhCCcEEEECCCCC--------CHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHHHhcCC
Confidence 33334455666777888999988643322 23456777888899999997654 455667777777664
No 391
>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=38.22 E-value=2.6e+02 Score=26.87 Aligned_cols=79 Identities=8% Similarity=0.015 Sum_probs=47.8
Q ss_pred CcEEEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHH
Q 008912 159 WGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 236 (549)
Q Consensus 159 W~~v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~ 236 (549)
-+.|+++..+ +.|.......+.+.+.+.|..+..... . .........++.+...+.+.||+..........+.
T Consensus 60 ~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~-~----~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~ 134 (327)
T TIGR02417 60 SRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIACS-D----DNPDQEKVVIENLLARQVDALIVASCMPPEDAYYQ 134 (327)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeC-C----CCHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHHH
Confidence 4578888753 456666778888888889988765432 1 11233345667777777888877643221223455
Q ss_pred HHHHcC
Q 008912 237 VAQRLG 242 (549)
Q Consensus 237 ~a~~~g 242 (549)
.+.+.+
T Consensus 135 ~l~~~~ 140 (327)
T TIGR02417 135 KLQNEG 140 (327)
T ss_pred HHHhcC
Confidence 555545
No 392
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=38.12 E-value=2.3e+02 Score=23.92 Aligned_cols=63 Identities=19% Similarity=0.254 Sum_probs=39.9
Q ss_pred EEEEEEecCC--cc---cchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhc-CCCeEEEEEcc
Q 008912 161 EVIAIFNDDD--QG---RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGY 227 (549)
Q Consensus 161 ~v~ii~~~~~--~g---~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~~ 227 (549)
++++|...++ .| ......+.+.+++.|.++.....++.+ ...+.+.+++..+ +.+++||..+.
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~Dd----~~~i~~~l~~~~~~~~~DlVittGG 70 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAYEIVPDD----KDEIREALIEWADEDGVDLILTTGG 70 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeEEEcCCC----HHHHHHHHHHHHhcCCCCEEEECCC
Confidence 4666655442 22 123456778888999888776666633 5667777776544 36788888654
No 393
>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=37.84 E-value=1.6e+02 Score=27.32 Aligned_cols=77 Identities=12% Similarity=0.031 Sum_probs=46.6
Q ss_pred EEEEEec--CCcccchHHHHHHHHhh--cCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHH
Q 008912 162 VIAIFND--DDQGRNGVTALGDKLAE--IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFD 236 (549)
Q Consensus 162 v~ii~~~--~~~g~~~~~~l~~~~~~--~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~ 236 (549)
|++|..+ +.|.......+.+.+++ .|.++..... . .+.......++.+...+++.||+.... ......++
T Consensus 2 Ig~v~~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~---~--~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~i~ 76 (271)
T cd06321 2 IGVSVGDLGNPFFVALAKGAEAAAKKLNPGVKVTVVSA---D--YDLNKQVSQIDNFIAAKVDLILLNAVDSKGIAPAVK 76 (271)
T ss_pred eEEEecccCCHHHHHHHHHHHHHHHHhCCCeEEEEccC---C--CCHHHHHHHHHHHHHhCCCEEEEeCCChhHhHHHHH
Confidence 5566643 45667777888888888 6666544321 1 123344566677777778888876433 22355667
Q ss_pred HHHHcCC
Q 008912 237 VAQRLGM 243 (549)
Q Consensus 237 ~a~~~g~ 243 (549)
.+.+.+.
T Consensus 77 ~~~~~~i 83 (271)
T cd06321 77 RAQAAGI 83 (271)
T ss_pred HHHHCCC
Confidence 7766553
No 394
>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=37.69 E-value=3.2e+02 Score=24.92 Aligned_cols=96 Identities=10% Similarity=0.030 Sum_probs=59.5
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHh
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLA 184 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~ 184 (549)
..+...++..++|++..... .+.....+.+.+.++..| +-.+...|-+......++...++
T Consensus 48 ~~~~~qA~algipl~~~~~~----------------~~~e~~~e~l~~~l~~~g---v~~vv~GdI~s~~qr~~~e~v~~ 108 (223)
T TIGR00290 48 HLTDLQAESIGIPLIKLYTE----------------GTEEDEVEELKGILHTLD---VEAVVFGAIYSEYQKTRIERVCR 108 (223)
T ss_pred HHHHHHHHHcCCCeEEeecC----------------CCccHHHHHHHHHHHHcC---CCEEEECCcccHHHHHHHHHHHH
Confidence 44556778888998752110 112345567777777776 33334455566666777888888
Q ss_pred hcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 185 EIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 185 ~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
+.|+.....-+ ..+-..+++++-+.+-+++|+...
T Consensus 109 ~lgl~~~~PLW--------~~~~~~ll~e~i~~G~~aiIv~v~ 143 (223)
T TIGR00290 109 ELGLKSFAPLW--------HRDPEKLMEEFVEEKFEARIIAVA 143 (223)
T ss_pred hcCCEEecccc--------CCCHHHHHHHHHHcCCeEEEEEEe
Confidence 88887665322 223356777877788888877654
No 395
>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=37.57 E-value=2.1e+02 Score=26.42 Aligned_cols=76 Identities=9% Similarity=0.031 Sum_probs=46.7
Q ss_pred EEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
|+++..+ ++|.......+.+.+++.|..+..... . .+.......++.+...+.+.|++....... ..++++.
T Consensus 2 igvi~p~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~---~--~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-~~~~~~~ 75 (265)
T cd06285 2 IGVLVPRLTDTVMATMYEGIEEAAAERGYSTFVANT---G--DNPDAQRRAIEMLLDRRVDGLILGDARSDD-HFLDELT 75 (265)
T ss_pred EEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeC---C--CCHHHHHHHHHHHHHcCCCEEEEecCCCCh-HHHHHHH
Confidence 4566653 456667778888888888887654221 1 123344566777777888888876533222 2456666
Q ss_pred HcCC
Q 008912 240 RLGM 243 (549)
Q Consensus 240 ~~g~ 243 (549)
+.+.
T Consensus 76 ~~~i 79 (265)
T cd06285 76 RRGV 79 (265)
T ss_pred HcCC
Confidence 6553
No 396
>PRK14529 adenylate kinase; Provisional
Probab=37.23 E-value=1.6e+02 Score=26.93 Aligned_cols=29 Identities=10% Similarity=0.181 Sum_probs=25.4
Q ss_pred EEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 93 LAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 93 ~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
.+|+||..|+-+.....++..+++++|+.
T Consensus 3 I~l~G~PGsGK~T~a~~La~~~~~~~is~ 31 (223)
T PRK14529 3 ILIFGPNGSGKGTQGALVKKKYDLAHIES 31 (223)
T ss_pred EEEECCCCCCHHHHHHHHHHHHCCCCccc
Confidence 57899999988888889999999999974
No 397
>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=37.01 E-value=1.6e+02 Score=27.15 Aligned_cols=68 Identities=13% Similarity=0.019 Sum_probs=36.4
Q ss_pred CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcC
Q 008912 169 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 242 (549)
Q Consensus 169 ~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g 242 (549)
++|.....+.+.+.+++.|+.+.....-. .........+.+...+.+.||+....... ..+..+.+.+
T Consensus 15 ~~~~~~~~~~i~~~~~~~g~~~~~~~~~~-----~~~~~~~~~~~~~~~~vdgiii~~~~~~~-~~~~~~~~~~ 82 (268)
T cd06271 15 DPFFAEFLSGLSEALAEHGYDLVLLPVDP-----DEDPLEVYRRLVESGLVDGVIISRTRPDD-PRVALLLERG 82 (268)
T ss_pred CccHHHHHHHHHHHHHHCCceEEEecCCC-----cHHHHHHHHHHHHcCCCCEEEEecCCCCC-hHHHHHHhcC
Confidence 56677777888888888888776543211 11222222333344567777775432221 2244455544
No 398
>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=37.00 E-value=89 Score=29.25 Aligned_cols=58 Identities=17% Similarity=0.059 Sum_probs=31.2
Q ss_pred CCCceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEE
Q 008912 22 LKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIV 96 (549)
Q Consensus 22 ~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aii 96 (549)
....+|+||..-..+. ..++ .+.+..-++ .|++++++.+++...+.. .+.++.+++-+
T Consensus 15 ~~~~~l~vG~~~~~~~---~~~~----~~~~~~~~~----~G~~Ve~~~f~d~~~~~~------Al~~G~ID~~~ 72 (258)
T TIGR00363 15 KDPLHIKVGVISGAEQ---QVAE----VAAKVAKEK----YGLDVELVEFNDYALPNE------AVSKGDLDANA 72 (258)
T ss_pred CCCCcEEEEeCCCChH---HHHH----HHHHHHHHh----cCCEEEEEEeCCcHHHHH------HHHcCCCCeEe
Confidence 3445799998754431 2223 333332222 378999998875443332 23345677643
No 399
>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=36.95 E-value=30 Score=31.09 Aligned_cols=31 Identities=26% Similarity=0.404 Sum_probs=24.8
Q ss_pred CcEEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 91 DTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 91 ~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
++.+|+||.+++-+...-.++..++.|+|+.
T Consensus 2 ~v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~ 32 (233)
T PF01745_consen 2 KVYLIVGPTGTGKTALAIALAQKTGAPVISL 32 (233)
T ss_dssp EEEEEE-STTSSHHHHHHHHHHHH--EEEEE
T ss_pred cEEEEECCCCCChhHHHHHHHHHhCCCEEEe
Confidence 4789999999998888888999999999984
No 400
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=36.48 E-value=1.9e+02 Score=22.86 Aligned_cols=71 Identities=14% Similarity=0.102 Sum_probs=43.0
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEc-cCCCCCCChhhHHHHHHHHhcCCCeEEEEE
Q 008912 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSA-LPPDQSVTETDVRNELVKVRMMEARVIVVH 225 (549)
Q Consensus 147 ~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~-~~~~~~~~~~~~~~~l~~l~~~~~~viil~ 225 (549)
...++.++++.||+ +.++- -.. ..+.+.+.+.+.+..+..... +.. .........+.+|+..+++.++.
T Consensus 17 l~~la~~l~~~G~~-v~~~d-~~~----~~~~l~~~~~~~~pd~V~iS~~~~~----~~~~~~~l~~~~k~~~p~~~iv~ 86 (121)
T PF02310_consen 17 LLYLAAYLRKAGHE-VDILD-ANV----PPEELVEALRAERPDVVGISVSMTP----NLPEAKRLARAIKERNPNIPIVV 86 (121)
T ss_dssp HHHHHHHHHHTTBE-EEEEE-SSB-----HHHHHHHHHHTTCSEEEEEESSST----HHHHHHHHHHHHHTTCTTSEEEE
T ss_pred HHHHHHHHHHCCCe-EEEEC-CCC----CHHHHHHHHhcCCCcEEEEEccCcC----cHHHHHHHHHHHHhcCCCCEEEE
Confidence 45678888888994 43442 221 236677777766666555433 332 25566777888888777755555
Q ss_pred cc
Q 008912 226 GY 227 (549)
Q Consensus 226 ~~ 227 (549)
+.
T Consensus 87 GG 88 (121)
T PF02310_consen 87 GG 88 (121)
T ss_dssp EE
T ss_pred EC
Confidence 44
No 401
>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=36.23 E-value=1.5e+02 Score=27.58 Aligned_cols=80 Identities=8% Similarity=-0.034 Sum_probs=47.1
Q ss_pred EEEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEcc-CCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHH
Q 008912 161 EVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSAL-PPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFD 236 (549)
Q Consensus 161 ~v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~-~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~ 236 (549)
+|+++..+ +.|.....+.+.+.+++.|..+...... ... .+.......++.+.. +.+.||+.... ......++
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~~i~~~~~-~vdgiii~~~~~~~~~~~i~ 77 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDARIRVRIHFVES--FDPAALAAALLRLGA-RSDGVALVAPDHPQVRAAVA 77 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhccCceEEEEEccC--CCHHHHHHHHHHHHh-cCCEEEEeCCCcHHHHHHHH
Confidence 46677754 4466667778888888887543322211 111 123344566777776 88888875443 33346677
Q ss_pred HHHHcCC
Q 008912 237 VAQRLGM 243 (549)
Q Consensus 237 ~a~~~g~ 243 (549)
++.+.|.
T Consensus 78 ~~~~~~i 84 (275)
T cd06307 78 RLAAAGV 84 (275)
T ss_pred HHHHCCC
Confidence 7777664
No 402
>PRK13957 indole-3-glycerol-phosphate synthase; Provisional
Probab=36.22 E-value=3.5e+02 Score=25.15 Aligned_cols=87 Identities=16% Similarity=0.148 Sum_probs=58.6
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
..++......|-.-++++++.. |.....+.++..-....+.|.....+- + ..++.+.+..+++.|++...
T Consensus 64 ~~~A~~y~~~GA~aISVlTe~~-~F~Gs~~~l~~v~~~v~~PvL~KDFIi--------d-~~QI~ea~~~GADavLLI~~ 133 (247)
T PRK13957 64 VQIAKTYETLGASAISVLTDQS-YFGGSLEDLKSVSSELKIPVLRKDFIL--------D-EIQIREARAFGASAILLIVR 133 (247)
T ss_pred HHHHHHHHHCCCcEEEEEcCCC-cCCCCHHHHHHHHHhcCCCEEeccccC--------C-HHHHHHHHHcCCCEEEeEHh
Confidence 3466667788888998888555 444556666665555556655543332 1 13455666688999988644
Q ss_pred ---hHHHHHHHHHHHHcCCC
Q 008912 228 ---SRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 228 ---~~~~~~il~~a~~~g~~ 244 (549)
...+..++..|.++||.
T Consensus 134 ~L~~~~l~~l~~~a~~lGle 153 (247)
T PRK13957 134 ILTPSQIKSFLKHASSLGMD 153 (247)
T ss_pred hCCHHHHHHHHHHHHHcCCc
Confidence 45788999999999986
No 403
>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=35.78 E-value=1.5e+02 Score=28.30 Aligned_cols=71 Identities=11% Similarity=0.053 Sum_probs=45.6
Q ss_pred cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHHHHHHcCC
Q 008912 168 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVAQRLGM 243 (549)
Q Consensus 168 ~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~~a~~~g~ 243 (549)
+.++.....+.+.+.+++.|..+..... . .+.......++.+...+.+.||+.... ......++.+.+.++
T Consensus 9 ~~~~~~~~~~~i~~~a~~~g~~v~~~~~-~----~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~~i 80 (302)
T TIGR02634 9 RLERWQKDRDIFVAAAESLGAKVFVQSA-N----GNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDEGI 80 (302)
T ss_pred chhhHHHHHHHHHHHHHhcCCEEEEEeC-C----CCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHCCC
Confidence 4456667777888888888887765321 1 123334567777777888888876533 334566777776654
No 404
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=35.76 E-value=1.9e+02 Score=29.47 Aligned_cols=57 Identities=14% Similarity=0.179 Sum_probs=43.6
Q ss_pred eEEEEEecCCCChHHHHHHHH-HHHhc--CcEEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 65 KLSITMHDAKFNGFLSIMGAL-QFMET--DTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 65 ~l~~~~~d~~~~~~~a~~~~~-~l~~~--~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
.-++.++|+=|+..+--+.+. +|+.+ .+..|||+..|.-+..++++|...++|..-.
T Consensus 335 ~~~~~vfnTIC~ATqeRQdA~~~L~~~~vDlmiVVGG~NSSNT~~L~eIa~~~g~~sy~I 394 (460)
T PLN02821 335 NDHFMSFNTICDATQERQDAMYKLVEEKLDLMLVVGGWNSSNTSHLQEIAEHKGIPSYWI 394 (460)
T ss_pred CccccccCCcchhHHHHHHHHHHHhhcCCCEEEEECCCCCccHHHHHHHHHHhCCCEEEE
Confidence 345667888777766555554 55444 7888899999999999999999999987654
No 405
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=35.70 E-value=1.1e+02 Score=22.45 Aligned_cols=33 Identities=24% Similarity=0.480 Sum_probs=23.3
Q ss_pred CcEEEEEEecCCcccchHHHHHHHHhhcCeEEE
Q 008912 159 WGEVIAIFNDDDQGRNGVTALGDKLAEIRCKIS 191 (549)
Q Consensus 159 W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~ 191 (549)
-++|.+.+++|.-|+....++.+.+...|+.|.
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi~v~ 78 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPLGIRVT 78 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG-------
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhhccccc
Confidence 599999999999999999999998887777654
No 406
>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=35.51 E-value=41 Score=26.80 Aligned_cols=32 Identities=25% Similarity=0.461 Sum_probs=27.6
Q ss_pred cEEEEcCCCchHHHHHHHhhhhcCCcEEeccc
Q 008912 92 TLAIVGPQSAVMAHVLSHLANELQVPLLSFTA 123 (549)
Q Consensus 92 v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~ 123 (549)
|.+|.|+.+|+=+.....+++.+++++|+...
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 57899999999888889999999999998644
No 407
>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=35.50 E-value=47 Score=27.36 Aligned_cols=30 Identities=20% Similarity=0.329 Sum_probs=24.9
Q ss_pred cEEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 92 TLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 92 v~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
|+.++||..|+=+.-+..++...+.++|+.
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~~~~~~i~~ 30 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKRLGAVVISQ 30 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHSTEEEEEH
T ss_pred CEEEECCCCCCHHHHHHHHHHHCCCEEEeH
Confidence 567899999988888888888888888875
No 408
>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=35.48 E-value=2e+02 Score=26.30 Aligned_cols=75 Identities=11% Similarity=-0.005 Sum_probs=44.8
Q ss_pred EEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
|+++..+ +.+.....+.+.+.+++.|+.+..... . .+.......++++...+.+.+|+...... ..++..+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~----~~~~~~~~~i~~l~~~~~dgii~~~~~~~-~~~~~~~~ 75 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYENGYQMLLMNT-N----FSIEKEIEALELLARQKVDGIILLATTIT-DEHREAIK 75 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHCCCEEEEEeC-C----CCHHHHHHHHHHHHhcCCCEEEEeCCCCC-HHHHHHHh
Confidence 4555543 345556778888888888888765322 1 12334456677777778888888654321 23445555
Q ss_pred HcC
Q 008912 240 RLG 242 (549)
Q Consensus 240 ~~g 242 (549)
+.+
T Consensus 76 ~~~ 78 (259)
T cd01542 76 KLN 78 (259)
T ss_pred cCC
Confidence 544
No 409
>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=35.41 E-value=72 Score=30.73 Aligned_cols=42 Identities=7% Similarity=-0.047 Sum_probs=32.4
Q ss_pred HHHHHHHHHhCC-CCcCEEEEECCCCCCCCChHHHHHhHhcCcccEEecce
Q 008912 492 IDVFLAAVRLLP-YAVPYKFIPYGDGHKNPTYSELINQITTGVSRILTKKV 541 (549)
Q Consensus 492 idl~~~~~~~l~-~~~~~~~~~~~dg~~~g~~~gl~~~l~~~~~d~~~~~~ 541 (549)
.++.+.+.+.++ ++ ++++.. +....++..|.+|++|+++...
T Consensus 48 ~~la~~~~~~~~~i~--v~~~~~------~~~~~~~~~l~~G~~D~~~~~~ 90 (320)
T TIGR02122 48 GAIAQLINKKSGKLR--VRVQST------GGSVENVNLLEAGEADLAIVQS 90 (320)
T ss_pred HHHHHHHhccCCCee--EEEEeC------cchHHHHHHHhCCCCcEEEEcc
Confidence 467777877777 77 887775 2455789999999999999763
No 410
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=35.32 E-value=1.8e+02 Score=29.87 Aligned_cols=140 Identities=14% Similarity=0.091 Sum_probs=83.3
Q ss_pred cEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCC--CCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecC
Q 008912 92 TLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSP--LQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDD 169 (549)
Q Consensus 92 v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~--~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~ 169 (549)
.+.++|...+.....+.++++..+|-+..+.+ +..+.+ ......+...-+ ...+++...+-++++-..+.+= -
T Consensus 195 ~vnl~G~~~~~~~~~i~~lL~~lGI~v~~~lp-~~~~~eL~~~~~~~~~c~~~-P~ls~aa~~Le~~~gvp~~~~P---~ 269 (457)
T CHL00073 195 PLVLFGSLPSTVASQLTLELKRQGIKVSGWLP-SQRYTDLPSLGEGVYVCGVN-PFLSRTATTLMRRRKCKLIGAP---F 269 (457)
T ss_pred cEEEEEecCcccHHHHHHHHHHcCCeEeEEeC-CCCHHHHHhhCcccEEEEcC-cchHHHHHHHHHHhCCceeecC---C
Confidence 48889998888899999999999998886544 433333 112333333211 1234555555577887766543 3
Q ss_pred CcccchHHHHHHHHhh-cCeEEEEEEccCCCCCCChhhHHHHHHHHhc--CCCeEEEEEcchHHHHHHHHHHHHcCCC
Q 008912 170 DQGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRM--MEARVIVVHGYSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 170 ~~g~~~~~~l~~~~~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~--~~~~viil~~~~~~~~~il~~a~~~g~~ 244 (549)
++|.....++...+.+ .|.. .+.+. .....+.+.+...+. .+-++. +.+++.....+.+.+.++||.
T Consensus 270 PiGi~~Td~fLr~Ia~~~G~~---pe~l~----~Er~rl~dal~d~~~~L~GKrva-i~Gdp~~~i~LarfL~elGme 339 (457)
T CHL00073 270 PIGPDGTRAWIEKICSVFGIE---PQGLE----EREEQIWESLKDYLDLVRGKSVF-FMGDNLLEISLARFLIRCGMI 339 (457)
T ss_pred cCcHHHHHHHHHHHHHHhCcC---HHHHH----HHHHHHHHHHHHHHHHHCCCEEE-EECCCcHHHHHHHHHHHCCCE
Confidence 5787776666665554 3532 12221 112223333333322 344554 778878888888888888874
No 411
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=35.21 E-value=1.3e+02 Score=28.53 Aligned_cols=65 Identities=6% Similarity=-0.007 Sum_probs=45.3
Q ss_pred cEEEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHH
Q 008912 160 GEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT 230 (549)
Q Consensus 160 ~~v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~ 230 (549)
+.+++|..+ ++|....+..+.+.++++|..+.....-. ..+....++.+.+.+.+.||+.+...+
T Consensus 2 ~~IGvivp~~~npff~~ii~gIe~~a~~~Gy~l~l~~t~~------~~~~e~~i~~l~~~~vDGiI~~s~~~~ 68 (279)
T PF00532_consen 2 KTIGVIVPDISNPFFAEIIRGIEQEAREHGYQLLLCNTGD------DEEKEEYIELLLQRRVDGIILASSEND 68 (279)
T ss_dssp CEEEEEESSSTSHHHHHHHHHHHHHHHHTTCEEEEEEETT------THHHHHHHHHHHHTTSSEEEEESSSCT
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHHcCCEEEEecCCC------chHHHHHHHHHHhcCCCEEEEecccCC
Confidence 357788765 45666778888999999998876543222 223337788888888998888866544
No 412
>PRK09219 xanthine phosphoribosyltransferase; Validated
Probab=35.16 E-value=1.3e+02 Score=26.65 Aligned_cols=70 Identities=19% Similarity=0.179 Sum_probs=45.3
Q ss_pred HHHHHHcCCCCCCCceEEEE-EecCCCChHHHHHHHHHHH----h-cCcEEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 50 AQDDINSDPRVLGGRKLSIT-MHDAKFNGFLSIMGALQFM----E-TDTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 50 Av~~iN~~~~il~g~~l~~~-~~d~~~~~~~a~~~~~~l~----~-~~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
-.+.+|++..+|||--|.+. +.+...+|... +.+.+.+ . .++++|+|+...+...+ ..++...++|++-.
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~l-~~i~~~la~~~~~~~~D~Ivg~e~~GiplA-~~lA~~Lg~p~v~v 79 (189)
T PRK09219 4 LEERILKDGKVLSGNILKVDSFLNHQVDPKLM-NEIGKEFARRFKDEGITKILTIEASGIAPA-VMAALALGVPVVFA 79 (189)
T ss_pred HHHHHhcCCEEcCCCEEEEhhhhccccCHHHH-HHHHHHHHHHhccCCCCEEEEEccccHHHH-HHHHHHHCCCEEEE
Confidence 36789999988888666654 33555666433 3333322 2 27999999877764332 44677789999865
No 413
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=35.15 E-value=2.2e+02 Score=25.86 Aligned_cols=86 Identities=17% Similarity=0.175 Sum_probs=49.5
Q ss_pred ChHHHHHHHHHHHhc-CcEEEEcCCCchHHHHHH-HhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHH
Q 008912 76 NGFLSIMGALQFMET-DTLAIVGPQSAVMAHVLS-HLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM 153 (549)
Q Consensus 76 ~~~~a~~~~~~l~~~-~v~aiiGp~~s~~~~~va-~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~ 153 (549)
++...+..+..-+.+ |...|+=|.++. ..++ .+-..-+||+|+. .++.++-
T Consensus 59 ~~~~~L~~~a~~Le~~GAd~i~l~~NT~--H~~~d~iq~~~~iPllhI-------------------------idaTa~~ 111 (230)
T COG1794 59 EAGEILIDAAKKLERAGADFIVLPTNTM--HKVADDIQKAVGIPLLHI-------------------------IDATAKA 111 (230)
T ss_pred cHHHHHHHHHHHHHhcCCCEEEEeCCcH--HHHHHHHHHhcCCCeehH-------------------------HHHHHHH
Confidence 444444444444444 888888765553 3333 3344678888863 3555566
Q ss_pred HHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEE
Q 008912 154 VSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKIS 191 (549)
Q Consensus 154 l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~ 191 (549)
+++-|-++|+++.....- ...-.++.+.++|+.+.
T Consensus 112 ik~~g~kkvgLLgT~~Tm---~~~fY~~~l~~~gievv 146 (230)
T COG1794 112 IKAAGAKKVGLLGTRFTM---EQGFYRKRLEEKGIEVV 146 (230)
T ss_pred HHhcCCceeEEeeccchH---HhHHHHHHHHHCCceEe
Confidence 667777777777754321 22334556677776554
No 414
>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=35.10 E-value=1.9e+02 Score=26.53 Aligned_cols=75 Identities=9% Similarity=0.089 Sum_probs=43.3
Q ss_pred EEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
|++|..+ +.+.....+.+.+++++.|+.+..... . .+.......++.+...+.+.||+...... ...++.+.
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~----~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~~~~~~~ 75 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAAGYQLLLGNT-G----YSPEREEELLRTLLSRRPAGLILTGLEHT-ERTRQLLR 75 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHcCCEEEEecC-C----CCchhHHHHHHHHHHcCCCEEEEeCCCCC-HHHHHHHH
Confidence 4555543 345556667888888888887765322 1 12334456677777777888877643322 23444455
Q ss_pred HcC
Q 008912 240 RLG 242 (549)
Q Consensus 240 ~~g 242 (549)
+.+
T Consensus 76 ~~~ 78 (268)
T cd01575 76 AAG 78 (268)
T ss_pred hcC
Confidence 544
No 415
>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=34.94 E-value=3.3e+02 Score=24.26 Aligned_cols=121 Identities=11% Similarity=0.075 Sum_probs=68.5
Q ss_pred hcCcEEEEcCCCchHHHHHHHhh-hhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEe
Q 008912 89 ETDTLAIVGPQSAVMAHVLSHLA-NELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFN 167 (549)
Q Consensus 89 ~~~v~aiiGp~~s~~~~~va~~~-~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~ 167 (549)
..++.+|+-+.++. ...+..+- ....+|+++.. ++.++-+.+ +-++|+++..
T Consensus 63 ~~g~d~i~i~C~s~-~~~~~~~~~~~~~iPv~~~~-------------------------~a~~~~~~~-~~~ri~vl~t 115 (216)
T PF01177_consen 63 KAGVDAIVIACNSA-HPFVDELRKERVGIPVVGIV-------------------------EAALEAAKA-GGKRIGVLTT 115 (216)
T ss_dssp HTTESEEEESSHHH-HHHHHHHHHHHHSSEEEESH-------------------------HHHHHHHHH-TSSEEEEEES
T ss_pred hCCCCEEEEcCCch-hhhHHHHhhhcCceEEEecc-------------------------HHHHHHHHh-cCCEEEEEec
Confidence 34899888754433 23344444 66788887631 222444445 8899999984
Q ss_pred cCCcccchHHHHHHHHhhc-Ce--EEEEEE--ccC----CCCCCChh---hHHHHHHHH-hcCCCeEEEEEcchHHHH-H
Q 008912 168 DDDQGRNGVTALGDKLAEI-RC--KISYKS--ALP----PDQSVTET---DVRNELVKV-RMMEARVIVVHGYSRTGL-M 233 (549)
Q Consensus 168 ~~~~g~~~~~~l~~~~~~~-g~--~v~~~~--~~~----~~~~~~~~---~~~~~l~~l-~~~~~~viil~~~~~~~~-~ 233 (549)
++......+.+.+++. |+ .+.... .+. .+. .... .+...++++ +..++++|++.|..-... .
T Consensus 116 ---~~~~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~~-~~~~~~~~~~~~~~~l~~~~~~d~iiLgCt~l~~~~~ 191 (216)
T PF01177_consen 116 ---YTTEKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELGD-IPPEQIEILAEAARELIKEDGADAIILGCTHLPLLLG 191 (216)
T ss_dssp ---HHHHHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTTC-TTHHHHHHHHHHHHHHHHCTTSSEEEEESTTGGGGHH
T ss_pred ---CcccchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhhc-CCHHHHHHHHHHHHHHhccCCCCEEEECCCchHHHHH
Confidence 3334556677777777 76 444321 110 110 1122 344444444 478999999988764433 5
Q ss_pred HHHHHHH
Q 008912 234 VFDVAQR 240 (549)
Q Consensus 234 il~~a~~ 240 (549)
.+..+.+
T Consensus 192 ~~~~l~~ 198 (216)
T PF01177_consen 192 AIEALEE 198 (216)
T ss_dssp HHHHHHH
T ss_pred HHHhhcc
Confidence 5555543
No 416
>PF00731 AIRC: AIR carboxylase; InterPro: IPR000031 Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. PurK, N5-carboxyaminoimidazole ribonucleotide (N5_CAIR) synthetase, catalyzes the conversion of 5-aminoimidazole ribonucleotide (AIR), ATP, and bicarbonate to N5-CAIR, ADP, and Pi. PurE converts N5-CAIR to CAIR, the sixth step of de novo purine biosynthesis. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP. Some members of this family contain two copies of this domain []. The crystal structure of PurE indicates a unique quaternary structure that confirms the octameric nature of the enzyme [].; GO: 0004638 phosphoribosylaminoimidazole carboxylase activity, 0006189 'de novo' IMP biosynthetic process; PDB: 3TRH_O 2YWX_A 2NSL_A 1D7A_A 2NSJ_A 1QCZ_A 2ATE_A 2NSH_A 3RG8_C 3RGG_D ....
Probab=34.65 E-value=2.8e+02 Score=23.42 Aligned_cols=68 Identities=15% Similarity=0.069 Sum_probs=40.9
Q ss_pred EEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHH
Q 008912 161 EVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGL 232 (549)
Q Consensus 161 ~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~ 232 (549)
+|+||...+ ......++....+++.|+.......-.+. ....+...++++++.+.++||.........
T Consensus 2 ~V~Ii~gs~-SD~~~~~~a~~~L~~~gi~~~~~V~saHR---~p~~l~~~~~~~~~~~~~viIa~AG~~a~L 69 (150)
T PF00731_consen 2 KVAIIMGST-SDLPIAEEAAKTLEEFGIPYEVRVASAHR---TPERLLEFVKEYEARGADVIIAVAGMSAAL 69 (150)
T ss_dssp EEEEEESSG-GGHHHHHHHHHHHHHTT-EEEEEE--TTT---SHHHHHHHHHHTTTTTESEEEEEEESS--H
T ss_pred eEEEEeCCH-HHHHHHHHHHHHHHHcCCCEEEEEEeccC---CHHHHHHHHHHhccCCCEEEEEECCCcccc
Confidence 577776432 33457788888999999766554322222 345567777777777778887765554333
No 417
>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=34.55 E-value=1.8e+02 Score=28.60 Aligned_cols=82 Identities=13% Similarity=0.133 Sum_probs=50.8
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
+-+.++++.++ +++.+|++...+ ....+.+.+.+++.++.+.. +... .+...+...++.+++.+++.||-.+.
T Consensus 13 ~~l~~~~~~~~-~~~liv~d~~~~-~~~~~~l~~~L~~~~~~~~~---~~~~--p~~~~v~~~~~~~~~~~~D~iIavGG 85 (347)
T cd08172 13 DELGELLKRFG-KRPLIVTGPRSW-AAAKPYLPESLAAGEAFVLR---YDGE--CSEENIERLAAQAKENGADVIIGIGG 85 (347)
T ss_pred HHHHHHHHHhC-CeEEEEECHHHH-HHHHHHHHHHHhcCeEEEEE---eCCC--CCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 44566777774 899888865443 34556666666545554322 2211 24677888888888889998887665
Q ss_pred h--HHHHHHHH
Q 008912 228 S--RTGLMVFD 236 (549)
Q Consensus 228 ~--~~~~~il~ 236 (549)
+ -++.+++.
T Consensus 86 Gs~~D~aK~ia 96 (347)
T cd08172 86 GKVLDTAKAVA 96 (347)
T ss_pred cHHHHHHHHHH
Confidence 4 34444443
No 418
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=34.51 E-value=1.9e+02 Score=28.31 Aligned_cols=56 Identities=16% Similarity=0.173 Sum_probs=33.8
Q ss_pred ceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCC--CChHHHHHHHHHHHhcCc
Q 008912 25 EVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAK--FNGFLSIMGALQFMETDT 92 (549)
Q Consensus 25 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~--~~~~~a~~~~~~l~~~~v 92 (549)
-.++.+...|.+ .....++....+.+++.. |=+|++.++.+. +++ +...+.+..|.
T Consensus 28 ~~l~~~~~~~~~----~p~~~~~~~fa~~v~ekt----~G~l~i~vfP~~qLG~~----~~~ie~l~~G~ 85 (332)
T COG1638 28 LVLRFSHVTPEG----HPKGKAAKKFAELVEEKT----GGRLKIEVFPNSQLGGE----AEMIEQLRSGT 85 (332)
T ss_pred eEEeecccCCCC----CcHHHHHHHHHHHHHHHh----CCeEEEEECCCcccCcH----HHHHHHHhcCC
Confidence 466777666544 345677888888888875 235677666543 333 34445555554
No 419
>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=34.39 E-value=4.9e+02 Score=26.24 Aligned_cols=101 Identities=15% Similarity=0.131 Sum_probs=54.6
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCcccc---hHHHHHHHHhhcCeEEEEEEccCCCCCCChhh----HHHHHHHH---
Q 008912 145 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRN---GVTALGDKLAEIRCKISYKSALPPDQSVTETD----VRNELVKV--- 214 (549)
Q Consensus 145 ~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~---~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~----~~~~l~~l--- 214 (549)
...++...++..|.-.-+++|.+..+.... ....+++.+...|..+ ..+.+.+ +-.+ .+..|.+.
T Consensus 239 ~E~~AF~~~~~~fp~~~~~lv~DTYD~~~~~~~~~~~lk~~i~~~g~~l--viRpDSG---D~~~l~~~~~~~L~~~FG~ 313 (407)
T cd01569 239 RELEAFRNLLEQFGPGIVSVVSDSYDFWNALTLWGPRLKDEILARGGTL--VIRPDSG---DPVDIICGVLEILGEIFGG 313 (407)
T ss_pred cHHHHHHHHHHHcCCCcEEEEecCccHHHHHHHHHHHHHHHHHhcCCcE--EEECCCC---CHHHHHHHHHHHHHHHhCC
Confidence 356888999999876667777755554322 1234444444456665 2233322 1111 12333332
Q ss_pred --hcCC-----CeEEEEEcch---HHHHHHHHHHHHcCCCCCCeEE
Q 008912 215 --RMME-----ARVIVVHGYS---RTGLMVFDVAQRLGMMDSGYVW 250 (549)
Q Consensus 215 --~~~~-----~~viil~~~~---~~~~~il~~a~~~g~~~~~~~~ 250 (549)
.+.+ +++-|+.++. ..+..++...++.|....+-+|
T Consensus 314 ~~n~kGykvl~~~v~Ii~gd~ide~~i~~Il~~L~~~G~~~dNi~f 359 (407)
T cd01569 314 TVNSKGYKVLNPHVRIIQGDGITLERIEEILERLKAKGFASENIVF 359 (407)
T ss_pred cccCCcccccCCceEEEEcCCCCHHHHHHHHHHHHHCCCccccceE
Confidence 0012 4566665553 6677788888888876654444
No 420
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=34.36 E-value=1.9e+02 Score=24.57 Aligned_cols=79 Identities=11% Similarity=0.212 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHHcCCCCCCCceEEEEEecC--CCChHHHHHHHHHHHhcCcEEEEcCCC-chHHHHHHHhhhhcCCcE
Q 008912 42 VSRIAMKAAQDDINSDPRVLGGRKLSITMHDA--KFNGFLSIMGALQFMETDTLAIVGPQS-AVMAHVLSHLANELQVPL 118 (549)
Q Consensus 42 ~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~--~~~~~~a~~~~~~l~~~~v~aiiGp~~-s~~~~~va~~~~~~~iP~ 118 (549)
+..+.++-|+.+..+.. +.|-++.+...-- .-+-.+|++++.+|=.-++..+-|..- ...+.++..+-..++||+
T Consensus 94 qVsqVA~GAIsEADRHN--iRGERISvDTiPlVGEE~laEAVkAV~rLpRv~iLVLAGslMGGkIteaVk~lr~~hgI~V 171 (218)
T COG1707 94 QVSQVARGAISEADRHN--IRGERISVDTIPLVGEEELAEAVKAVARLPRVGILVLAGSLMGGKITEAVKELREEHGIPV 171 (218)
T ss_pred hHHHHHHhhcchhhhcc--cccceeeeecccccChHHHHHHHHHHhccccceeEEEecccccchHHHHHHHHHHhcCCeE
Confidence 33445555666544332 2455555543322 224567777777765557777777544 467888999999999999
Q ss_pred Eecc
Q 008912 119 LSFT 122 (549)
Q Consensus 119 Is~~ 122 (549)
||..
T Consensus 172 ISL~ 175 (218)
T COG1707 172 ISLN 175 (218)
T ss_pred EEec
Confidence 9963
No 421
>PF02698 DUF218: DUF218 domain; InterPro: IPR003848 This domain of unknown function is found in several uncharacterised proteins.; PDB: 3CA8_A.
Probab=34.23 E-value=2.6e+02 Score=23.43 Aligned_cols=91 Identities=12% Similarity=0.112 Sum_probs=0.0
Q ss_pred HHHHHHHHhc---CcEEEEcCCCch----HHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHH
Q 008912 81 IMGALQFMET---DTLAIVGPQSAV----MAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEM 153 (549)
Q Consensus 81 ~~~~~~l~~~---~v~aiiGp~~s~----~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~ 153 (549)
+..++++..+ ....+-|..... .+..++.++...++| ..-=.+-...-+...-+....++
T Consensus 26 ~~~a~~L~~~g~~~~il~SGg~~~~~~~~ea~~~~~~l~~~gvp-------------~~~I~~e~~s~~T~ena~~~~~~ 92 (155)
T PF02698_consen 26 LDEAARLYKAGYAPRILFSGGYGHGDGRSEAEAMRDYLIELGVP-------------EERIILEPKSTNTYENARFSKRL 92 (155)
T ss_dssp HHHHHHHHH-HHT--EEEE--SSTTHTS-HHHHHHHHHHHT----------------GGGEEEE----SHHHHHHHHHHH
T ss_pred HHHHHHHHhcCCCCeEEECCCCCCCCCCCHHHHHHHHHHhcccc-------------hheeEccCCCCCHHHHHHHHHHH
Q ss_pred HHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeE
Q 008912 154 VSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCK 189 (549)
Q Consensus 154 l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~ 189 (549)
++..+|+++.+|.++. ...+....+++.+..
T Consensus 93 ~~~~~~~~iilVT~~~-----H~~Ra~~~~~~~~~~ 123 (155)
T PF02698_consen 93 LKERGWQSIILVTSPY-----HMRRARMIFRKVGPD 123 (155)
T ss_dssp HHT-SSS-EEEE--CC-----CHHHHHHHHHHHH--
T ss_pred HHhhcCCeEEEECCHH-----HHHHHHHHHHHhCCC
No 422
>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=34.23 E-value=1.2e+02 Score=28.23 Aligned_cols=71 Identities=10% Similarity=0.091 Sum_probs=46.6
Q ss_pred cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHHHHHHcCC
Q 008912 168 DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDVAQRLGM 243 (549)
Q Consensus 168 ~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~~a~~~g~ 243 (549)
+++|.....+.+.+.+++.|+.+..... . .+.......++.+...+.+.||+.... ......++++.+.++
T Consensus 10 ~~~~~~~~~~~~~~~a~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~i 81 (273)
T cd06309 10 ESPWRTAETKSIKDAAEKRGFDLKFADA---Q--QKQENQISAIRSFIAQGVDVIILAPVVETGWDPVLKEAKAAGI 81 (273)
T ss_pred CCHHHHHHHHHHHHHHHhcCCEEEEeCC---C--CCHHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHHHHHCCC
Confidence 4566677788889999999988876422 1 123344567777777788888875433 223456677777664
No 423
>PRK10386 curli assembly protein CsgE; Provisional
Probab=33.95 E-value=71 Score=26.08 Aligned_cols=51 Identities=10% Similarity=-0.059 Sum_probs=27.3
Q ss_pred CchhHHHHHHHHhhhcccccCCCCceEEEEEEe-ccC-CCCchHHHHHHHHHHH
Q 008912 1 MNLWWLVSIFSFCIGTAIQGALKPEVLNVGAIF-SFG-TVNGQVSRIAMKAAQD 52 (549)
Q Consensus 1 m~~~~~~~~~~~~~~~~~~~~~~~~~i~IG~l~-~~~-~~~g~~~~~a~~~Av~ 52 (549)
|++++..+++..+++.+....+. .++-|+++. +.+ +..|......+-....
T Consensus 1 ~~r~~~~~l~~~~l~~~~~~~a~-~eiEi~GLIiD~T~Tr~G~DFY~~Fs~~~~ 53 (130)
T PRK10386 1 MKRYLRWIVAAELLFAAGNLHAA-VEVEVPGLLTDHTVSSIGHDFYRAFSDKWE 53 (130)
T ss_pred ChhHHHHHHHHHHHHhCcccccc-ccccccceEeccccccccHhHHHHHHHHHh
Confidence 78876555555555333322233 556665554 444 5567766666544444
No 424
>PRK00779 ornithine carbamoyltransferase; Provisional
Probab=33.86 E-value=4.4e+02 Score=25.39 Aligned_cols=134 Identities=17% Similarity=0.174 Sum_probs=75.7
Q ss_pred eEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHH
Q 008912 26 VLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAH 105 (549)
Q Consensus 26 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~ 105 (549)
.-.++.+|...+ .+-+.+|+.|+.++ +|..+.+....+...-.+.++-....++.-+++|+--.. ...
T Consensus 43 gk~v~~lF~e~S---TRTR~SFe~A~~~L-------Gg~~i~l~~~~ss~~kgEsl~Dt~~~l~~~~D~iv~R~~--~~~ 110 (304)
T PRK00779 43 GKTLAMIFEKPS---TRTRVSFEVGMAQL-------GGHAIFLSPRDTQLGRGEPIEDTARVLSRYVDAIMIRTF--EHE 110 (304)
T ss_pred CCEEEEEecCCC---chHHHHHHHHHHHc-------CCcEEEECcccccCCCCcCHHHHHHHHHHhCCEEEEcCC--Chh
Confidence 344777777654 36788999999884 344444433222222233444444445554666552111 223
Q ss_pred HHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHH---HHcC-C--cEEEEEEecCCcccchHHHH
Q 008912 106 VLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV---SYFG-W--GEVIAIFNDDDQGRNGVTAL 179 (549)
Q Consensus 106 ~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l---~~~~-W--~~v~ii~~~~~~g~~~~~~l 179 (549)
.+..+++..++|+|.-++ + ... | .+++++++ +++| + .+++++.+ .+ .....+
T Consensus 111 ~~~~~a~~~~vPVINag~-~-----~~H-------P-----tQaL~Dl~Ti~e~~g~l~gl~i~~vGd---~~-~v~~Sl 168 (304)
T PRK00779 111 TLEELAEYSTVPVINGLT-D-----LSH-------P-----CQILADLLTIYEHRGSLKGLKVAWVGD---GN-NVANSL 168 (304)
T ss_pred HHHHHHHhCCCCEEeCCC-C-----CCC-------h-----HHHHHHHHHHHHHhCCcCCcEEEEEeC---CC-ccHHHH
Confidence 456677778899998532 1 112 2 25666663 3454 3 47777753 22 366777
Q ss_pred HHHHhhcCeEEEEE
Q 008912 180 GDKLAEIRCKISYK 193 (549)
Q Consensus 180 ~~~~~~~g~~v~~~ 193 (549)
...+...|..|...
T Consensus 169 ~~~l~~~g~~v~~~ 182 (304)
T PRK00779 169 LLAAALLGFDLRVA 182 (304)
T ss_pred HHHHHHcCCEEEEE
Confidence 77888888877664
No 425
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=33.80 E-value=3.3e+02 Score=24.54 Aligned_cols=88 Identities=8% Similarity=-0.023 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHc--CCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEE
Q 008912 145 YLMSAIAEMVSYF--GWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVI 222 (549)
Q Consensus 145 ~~~~ai~~~l~~~--~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vi 222 (549)
.-++.+++++... .-+++.+...+ .....+.+.+++.|..+.....+........ ....+.+.....+ +
T Consensus 106 ~~~~~L~~~i~~~~~~~~~il~~~g~-----~~~~~l~~~L~~~g~~v~~~~~Y~~~~~~~~---~~~~~~l~~~~~~-~ 176 (239)
T cd06578 106 GDSEGLLELLELQDGKGKRILRPRGG-----RAREDLAEALRERGAEVDEVEVYRTVPPDLD---AELLELLEEGAID-A 176 (239)
T ss_pred cCHHHHHHHHHhcCCCCCEEEEEcCc-----chhHHHHHHHHHCCCEEEEEEEEEEECCCCc---HHHHHHHHcCCCc-E
Confidence 3467788888775 34455444322 2456778888888887765544432210111 2233444444333 5
Q ss_pred EEEcchHHHHHHHHHHHHc
Q 008912 223 VVHGYSRTGLMVFDVAQRL 241 (549)
Q Consensus 223 il~~~~~~~~~il~~a~~~ 241 (549)
|++.++..+..++....+.
T Consensus 177 iiftS~~~v~~f~~~~~~~ 195 (239)
T cd06578 177 VLFTSPSTVRNLLELLGKE 195 (239)
T ss_pred EEEeCHHHHHHHHHHHhhh
Confidence 6777788888888877653
No 426
>PRK15138 aldehyde reductase; Provisional
Probab=33.33 E-value=2.2e+02 Score=28.53 Aligned_cols=82 Identities=12% Similarity=0.153 Sum_probs=49.8
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCc-ccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQ-GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~-g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 226 (549)
+.+.+++++ + +++.+|+.+... .....+.+.+.+. |+.+.....+.++ ...++.....+..++.++++||-.+
T Consensus 20 ~~l~~~l~~-~-~~~livt~~~~~~~~g~~~~v~~~L~--~~~~~~f~~v~~~--p~~~~v~~~~~~~~~~~~D~IIaiG 93 (387)
T PRK15138 20 AGLREQIPA-D-ARVLITYGGGSVKKTGVLDQVLDALK--GMDVLEFGGIEPN--PTYETLMKAVKLVREEKITFLLAVG 93 (387)
T ss_pred HHHHHHHhc-C-CeEEEECCCchHHhcCcHHHHHHHhc--CCeEEEECCccCC--CCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 445556665 3 888888743322 2234566777775 5555433334433 4566788888888889999999765
Q ss_pred ch--HHHHHHH
Q 008912 227 YS--RTGLMVF 235 (549)
Q Consensus 227 ~~--~~~~~il 235 (549)
.+ -++.+.+
T Consensus 94 GGS~iD~AK~i 104 (387)
T PRK15138 94 GGSVLDGTKFI 104 (387)
T ss_pred ChHHHHHHHHH
Confidence 54 3444444
No 427
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=33.19 E-value=1.6e+02 Score=26.58 Aligned_cols=45 Identities=16% Similarity=0.118 Sum_probs=28.4
Q ss_pred CChHHHHHHHHHHHhc----CcEEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 75 FNGFLSIMGALQFMET----DTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 75 ~~~~~a~~~~~~l~~~----~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
.|...++......+.+ ||+|++=...++ ..+..+=+...+|+|..
T Consensus 49 ~de~~a~~~~l~ei~~~~~~GvdaiiIaCf~D--Pgl~~~Re~~~~PviGi 97 (230)
T COG4126 49 EDEALAAPGLLREIADGEEQGVDAIIIACFSD--PGLAAARERAAIPVIGI 97 (230)
T ss_pred chHHHhhhHHHHHhhcccccCCcEEEEEecCC--hHHHHHHHHhCCCceeh
Confidence 3555555555555543 798888655555 44445556788998875
No 428
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.
Probab=33.15 E-value=2.3e+02 Score=25.77 Aligned_cols=94 Identities=14% Similarity=0.115 Sum_probs=46.2
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhc
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI 186 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~ 186 (549)
+...++..++|++...... ......+.+.+.+++.+ |-.+...|-+......++...+.+.
T Consensus 50 ~~~qA~algipl~~~~~~g----------------~~~~~~~~l~~~l~~~~---v~~vv~GdI~~~~~r~~~e~vc~~l 110 (218)
T PF01902_consen 50 IEAQAEALGIPLIEIPTSG----------------DEEDYVEDLKEALKELK---VEAVVFGDIDSEYQRNWVERVCERL 110 (218)
T ss_dssp HHHHHHHHT--EEEEEE-------------------CCCHHHHHHHHHCTC-----SEEE--TTS-HHHHHHHHHHHHHC
T ss_pred HHHHHHHCCCCEEEEEccC----------------ccchhhHHHHHHHHHcC---CCEEEECcCCcHHHHHHHHHHHHHc
Confidence 4455666777777643211 01123456666666666 3333445555555566777777777
Q ss_pred CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 187 RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 187 g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
|+.... |.- ..+-..+++++-+.+-+.+|+...
T Consensus 111 Gl~~~~----PLW----~~d~~~ll~e~i~~Gf~aiIv~V~ 143 (218)
T PF01902_consen 111 GLEAVF----PLW----GRDREELLREFIESGFEAIIVKVD 143 (218)
T ss_dssp T-EEE-----TTT----T--HHHHHHHHHHTT-EEEEEEEE
T ss_pred CCEEEe----ccc----CCCHHHHHHHHHHCCCeEEEEEEe
Confidence 776554 322 334456677777777777776544
No 429
>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=33.13 E-value=4e+02 Score=24.68 Aligned_cols=126 Identities=9% Similarity=-0.072 Sum_probs=63.7
Q ss_pred ceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 008912 25 EVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (549)
Q Consensus 25 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~ 104 (549)
+.=+||.+.+.......+...+++-++++.|.. .+ ..+..........+...+.+.+.++++.+..||+...+. .+
T Consensus 120 G~~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~~~nd~-~A 195 (265)
T cd06354 120 KTGKVGFIGGMDIPLIRRFEAGFEAGVKYVNPG--VP-DIEVLVQYAGSFNDPAKGKEIAQAMYDQGADVIFAAAGG-TG 195 (265)
T ss_pred CCCeEEEEecccChHHHHHHHHHHHHHHHHhcc--CC-CceEEEEEcCcccCHHHHHHHHHHHHHCCCcEEEECCCC-Cc
Confidence 455677775432222223336888888876521 11 122222222111223455566777777678898886444 44
Q ss_pred HHHHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHH
Q 008912 105 HVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY 156 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~ 156 (549)
..+...+...++.++++... .+.....|.+..+......++.-++..+.+
T Consensus 196 ~gv~~al~~~gisIvGfD~~--~~~~~~~p~lttv~~~~~~~~~~~~~~~~~ 245 (265)
T cd06354 196 NGVFQAAKEAGVYAIGVDSD--QYYLAPGVVLTSMVKRVDVAVYDAIKSAAD 245 (265)
T ss_pred hHHHHHHHhcCCeEEEecCc--ccccCCCcEEEEEeehhHHHHHHHHHHHHc
Confidence 44445566667777776432 233223455555554444444433333333
No 430
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=33.07 E-value=2.8e+02 Score=27.78 Aligned_cols=84 Identities=14% Similarity=0.143 Sum_probs=56.6
Q ss_pred ceEEccCCcHHHHHHHHHHHH----HcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHH
Q 008912 135 FFVQTAPNDLYLMSAIAEMVS----YFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNE 210 (549)
Q Consensus 135 ~~~r~~ps~~~~~~ai~~~l~----~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~ 210 (549)
.+.=+.|.-.--...+|+|.. ..+-++|++|..|. |=....++|+..++-.|+.+.... + ..++...
T Consensus 205 vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDt-YRIGA~EQLk~Ya~im~vp~~vv~--~------~~el~~a 275 (407)
T COG1419 205 VIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDT-YRIGAVEQLKTYADIMGVPLEVVY--S------PKELAEA 275 (407)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEecc-chhhHHHHHHHHHHHhCCceEEec--C------HHHHHHH
Confidence 444455654333444444443 45678999998654 777788999999998888776542 2 4577778
Q ss_pred HHHHhcCCCeEEEEEcchH
Q 008912 211 LVKVRMMEARVIVVHGYSR 229 (549)
Q Consensus 211 l~~l~~~~~~viil~~~~~ 229 (549)
+..+++ .|+|+++.-+.
T Consensus 276 i~~l~~--~d~ILVDTaGr 292 (407)
T COG1419 276 IEALRD--CDVILVDTAGR 292 (407)
T ss_pred HHHhhc--CCEEEEeCCCC
Confidence 888864 48999986653
No 431
>COG5633 Predicted periplasmic lipoprotein [General function prediction only]
Probab=32.76 E-value=31 Score=27.28 Aligned_cols=19 Identities=16% Similarity=0.090 Sum_probs=11.4
Q ss_pred CchhHHHHHHHHhhhcccc
Q 008912 1 MNLWWLVSIFSFCIGTAIQ 19 (549)
Q Consensus 1 m~~~~~~~~~~~~~~~~~~ 19 (549)
|+||+++++.+++|.+|++
T Consensus 1 Mrk~~~~~l~~~lLvGCsS 19 (123)
T COG5633 1 MRKLCLLSLALLLLVGCSS 19 (123)
T ss_pred CceehHHHHHHHHhhccCC
Confidence 7777776666555544443
No 432
>TIGR03702 lip_kinase_YegS lipid kinase YegS. Members of this protein family are designated YegS, an apparent lipid kinase family in the Proteobacteria. Bakali, et al. report phosphatidylglycerol kinase activity for the member from Escherichia coli, but refrain from calling that activity synonymous with its biological role. Note that a broader, subfamily-type model (TIGR00147), includes this family but also multiple paralogs in some species and varied functions.
Probab=32.39 E-value=3.2e+02 Score=26.00 Aligned_cols=73 Identities=11% Similarity=0.127 Sum_probs=41.3
Q ss_pred EEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHH
Q 008912 162 VIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQR 240 (549)
Q Consensus 162 v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~ 240 (549)
+.+|+....-+......+.+.+++.|+.+.....-. ..+.....+++...+.++|++.+....+..++..+.+
T Consensus 2 ~~~I~N~~~~~~~~~~~~~~~l~~~g~~~~v~~t~~------~~~a~~~a~~~~~~~~d~vv~~GGDGTi~ev~ngl~~ 74 (293)
T TIGR03702 2 ALLILNGKQADNEDVREAVGDLRDEGIQLHVRVTWE------KGDAQRYVAEALALGVSTVIAGGGDGTLREVATALAQ 74 (293)
T ss_pred EEEEEeCCccchhHHHHHHHHHHHCCCeEEEEEecC------CCCHHHHHHHHHHcCCCEEEEEcCChHHHHHHHHHHh
Confidence 445554322222345666777888887765432211 1234445555555566777777766667777766654
No 433
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=32.25 E-value=3.1e+02 Score=25.33 Aligned_cols=91 Identities=14% Similarity=0.102 Sum_probs=57.7
Q ss_pred HHHHHHHHHHHHHcC--CcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeE
Q 008912 144 LYLMSAIAEMVSYFG--WGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARV 221 (549)
Q Consensus 144 ~~~~~ai~~~l~~~~--W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~v 221 (549)
...+..++..+..+. -++|.++..+. ....+.+.+...|+.|.....|.... ...+.......++..+.++
T Consensus 106 ~~~~~~l~~~l~~~~~~~~~vl~~~~~~-----~r~~l~~~L~~~G~~v~~~~~Y~~~~--~~~~~~~~~~~~~~~~~d~ 178 (248)
T COG1587 106 DGDSEGLLEELPELLKGGKRVLILRGNG-----GREVLEEKLEERGAEVREVEVYRTEP--PPLDEATLIELLKLGEVDA 178 (248)
T ss_pred ccchHHHHHHhhhhccCCCeEEEEcCCC-----chHHHHHHHHhCCCEEEEEeeeeecC--CCccHHHHHHHHHhCCCCE
Confidence 445677777777765 36777666443 34778889999999887766554331 1122233344555555555
Q ss_pred EEEEcchHHHHHHHHHHHHcC
Q 008912 222 IVVHGYSRTGLMVFDVAQRLG 242 (549)
Q Consensus 222 iil~~~~~~~~~il~~a~~~g 242 (549)
| ++.++..++.++..+...+
T Consensus 179 v-~ftS~~~v~~~~~~~~~~~ 198 (248)
T COG1587 179 V-VFTSSSAVRALLALAPESG 198 (248)
T ss_pred E-EEeCHHHHHHHHHHccccc
Confidence 4 4577778888888876644
No 434
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=32.21 E-value=3.1e+02 Score=25.54 Aligned_cols=98 Identities=12% Similarity=-0.021 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhc--CeEEEEEE-ccCCCCCCChhhHHHHHHHHhcCCCeE
Q 008912 145 YLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEI--RCKISYKS-ALPPDQSVTETDVRNELVKVRMMEARV 221 (549)
Q Consensus 145 ~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~--g~~v~~~~-~~~~~~~~~~~~~~~~l~~l~~~~~~v 221 (549)
+...++.+....-+ ++|.++..... ..+.....++++ +..|+... -+- ...+. ..++++|.++++++
T Consensus 95 Dl~~~Ll~~a~~~~-~~vfllGgkp~----V~~~a~~~l~~~~p~l~ivg~h~GYf----~~~e~-~~i~~~I~~s~pdi 164 (253)
T COG1922 95 DLVEALLKRAAEEG-KRVFLLGGKPG----VAEQAAAKLRAKYPGLKIVGSHDGYF----DPEEE-EAIVERIAASGPDI 164 (253)
T ss_pred HHHHHHHHHhCccC-ceEEEecCCHH----HHHHHHHHHHHHCCCceEEEecCCCC----ChhhH-HHHHHHHHhcCCCE
Confidence 34455555554443 45656654332 344444444443 34555543 221 22333 58899999999999
Q ss_pred EEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeCC
Q 008912 222 IVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATTW 255 (549)
Q Consensus 222 iil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~~ 255 (549)
+++.+..+.-..++.+-.+.- +.-++++.+.
T Consensus 165 l~VgmG~P~QE~wi~~~~~~~---~~~v~igVGg 195 (253)
T COG1922 165 LLVGMGVPRQEIWIARNRQQL---PVAVAIGVGG 195 (253)
T ss_pred EEEeCCCchhHHHHHHhHHhc---CCceEEeccc
Confidence 999877766666665544421 2346776654
No 435
>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=32.06 E-value=1.2e+02 Score=28.71 Aligned_cols=56 Identities=14% Similarity=0.185 Sum_probs=38.2
Q ss_pred EEEEEecCCCChHHHHHHHHHHHhc--CcEEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 66 LSITMHDAKFNGFLSIMGALQFMET--DTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 66 l~~~~~d~~~~~~~a~~~~~~l~~~--~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
++..++|+=|....--+.+..-+.+ .+..|||+..|..+..++.++...+.|.+-.
T Consensus 184 ~~~~~~nTIC~aT~~RQ~a~~~La~~vD~miVIGg~~SsNT~kL~eia~~~~~~t~~I 241 (281)
T PF02401_consen 184 LEGPVFNTICYATQNRQEAARELAKEVDAMIVIGGKNSSNTRKLAEIAKEHGKPTYHI 241 (281)
T ss_dssp EE-SCC-S--CHHHHHHHHHHHHHCCSSEEEEES-TT-HHHHHHHHHHHHCTTCEEEE
T ss_pred ccCCCCCCCCHhHHHHHHHHHHHHhhCCEEEEecCCCCccHHHHHHHHHHhCCCEEEe
Confidence 3445778877776666655554554 6788889999999999999999998887765
No 436
>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=32.05 E-value=55 Score=28.47 Aligned_cols=30 Identities=10% Similarity=0.144 Sum_probs=26.2
Q ss_pred cEEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 92 TLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 92 v~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
|+.|+||.+|+=+.....+++.++.++|+.
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~~~~~is~ 30 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENFGFTHLSA 30 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHcCCeEEEC
Confidence 568999999988888888999999999984
No 437
>cd08195 DHQS Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway, which involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds, is found in bacteria, microbial eukaryotes, and plants, but not in mammals. Therefore, enzymes of this pathway are attractive targets for the development of non-toxic antimicrobial compounds, herbicides and anti-parasitic agents. The activity of DHQS requires nicotinamide adenine dinucleotide (NAD) as cofactor. A single active site in DHQS catalyzes five sequential reactions involving alcohol oxidation, phosphate elimination, carbonyl reduction, ring opening, and intramolecular aldol
Probab=31.73 E-value=5e+02 Score=25.43 Aligned_cols=91 Identities=9% Similarity=0.058 Sum_probs=54.0
Q ss_pred HHHHHHH-cCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCC-CCChhhHHHHHHHHhcCCC---eEEEE
Q 008912 150 IAEMVSY-FGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQ-SVTETDVRNELVKVRMMEA---RVIVV 224 (549)
Q Consensus 150 i~~~l~~-~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~-~~~~~~~~~~l~~l~~~~~---~viil 224 (549)
+.+++.. .+.+++.+|++...+ ....+.+.+.+++.|+.+.... ++... ..+.+.+...++.+++.+. +.||-
T Consensus 14 l~~~~~~~~~~~~~livtd~~~~-~~~~~~l~~~L~~~g~~~~~~~-~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIa 91 (345)
T cd08195 14 LGELLAKLPKGSKILIVTDENVA-PLYLEKLKAALEAAGFEVEVIV-IPAGEASKSLETLEKLYDALLEAGLDRKSLIIA 91 (345)
T ss_pred HHHHHHhccCCCeEEEEECCchH-HHHHHHHHHHHHhcCCceEEEE-eCCCCCcCCHHHHHHHHHHHHHcCCCCCCeEEE
Confidence 4444443 456899888854433 3567788888888876554322 33211 1345667777888877655 77776
Q ss_pred Ecch--HHHHHHHHHHHHcC
Q 008912 225 HGYS--RTGLMVFDVAQRLG 242 (549)
Q Consensus 225 ~~~~--~~~~~il~~a~~~g 242 (549)
.+.+ -++..++......|
T Consensus 92 iGGGsv~D~ak~vA~~~~rg 111 (345)
T cd08195 92 LGGGVVGDLAGFVAATYMRG 111 (345)
T ss_pred ECChHHHhHHHHHHHHHhcC
Confidence 6554 45555655444444
No 438
>TIGR01357 aroB 3-dehydroquinate synthase. This model represents 3-dehydroquinate synthase, the enzyme catalyzing the second of seven steps in the shikimate pathway of chorismate biosynthesis. Chorismate is the last common intermediate in the biosynthesis of all three aromatic amino acids.
Probab=31.65 E-value=5e+02 Score=25.40 Aligned_cols=89 Identities=11% Similarity=0.050 Sum_probs=51.5
Q ss_pred HHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCC-CCChhhHHHHHHHHhcCCC---eEEEEE
Q 008912 150 IAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQ-SVTETDVRNELVKVRMMEA---RVIVVH 225 (549)
Q Consensus 150 i~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~-~~~~~~~~~~l~~l~~~~~---~viil~ 225 (549)
+.+.++. .+++.+|++...+ ....+.+.+.+++.|+.+.... ++... ..+.+.+...++.+++.+. +.||-.
T Consensus 13 l~~~l~~--~~~~livtd~~~~-~~~~~~v~~~L~~~g~~~~~~~-~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIav 88 (344)
T TIGR01357 13 LVEELAE--PSKLVIITDETVA-DLYADKLLEALQALGYNVLKLT-VPDGEESKSLETVQRLYDQLLEAGLDRSSTIIAL 88 (344)
T ss_pred HHHHhhc--CCeEEEEECCchH-HHHHHHHHHHHHhcCCceeEEE-eCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEEE
Confidence 4455555 3899888854443 3456778888888887653221 22111 0235667777778876554 777766
Q ss_pred cch--HHHHHHHHHHHHcC
Q 008912 226 GYS--RTGLMVFDVAQRLG 242 (549)
Q Consensus 226 ~~~--~~~~~il~~a~~~g 242 (549)
+.+ -++..++......+
T Consensus 89 GGGsv~D~aK~iA~~~~~~ 107 (344)
T TIGR01357 89 GGGVVGDLAGFVAATYMRG 107 (344)
T ss_pred cChHHHHHHHHHHHHHccC
Confidence 554 44555554433333
No 439
>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=31.18 E-value=2.6e+02 Score=25.64 Aligned_cols=75 Identities=8% Similarity=0.064 Sum_probs=44.0
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
|++|.. ++.|.....+.+.+.+++.|+.+..... . .+.......++.+...+.+.|++....... ..++.+.
T Consensus 2 igvi~~~~~~~~~~~~~~~i~~~a~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~~dgiii~~~~~~~-~~l~~~~ 75 (267)
T cd06283 2 IGVIVADITNPFSSLVLKGIEDVCRAHGYQVLVCNS---D--NDPEKEKEYLESLLAYQVDGLIVNPTGNNK-ELYQRLA 75 (267)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCEEEEEcC---C--CCHHHHHHHHHHHHHcCcCEEEEeCCCCCh-HHHHHHh
Confidence 344443 3456667778888888888887754321 1 123344566777777778888775433222 2355555
Q ss_pred HcC
Q 008912 240 RLG 242 (549)
Q Consensus 240 ~~g 242 (549)
+.+
T Consensus 76 ~~~ 78 (267)
T cd06283 76 KNG 78 (267)
T ss_pred cCC
Confidence 544
No 440
>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=30.90 E-value=3.1e+02 Score=22.73 Aligned_cols=118 Identities=13% Similarity=0.077 Sum_probs=61.1
Q ss_pred EEEEEecc-CCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc-CcEEEEcCCCchHHH
Q 008912 28 NVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET-DTLAIVGPQSAVMAH 105 (549)
Q Consensus 28 ~IG~l~~~-~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~-~v~aiiGp~~s~~~~ 105 (549)
+||.+.+. ..........+++.|+++. |.+.....................++++ ++.|||...+ ..+.
T Consensus 11 ~i~~i~~~~~~~~~~~r~~gf~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~pdaii~~~~-~~a~ 81 (160)
T PF13377_consen 11 RIAFIGGPPNSSVSRERLEGFREALKEH--------GIEFEELIFFSDDDSEDAREAQLLWLRRLRPDAIICSND-RLAL 81 (160)
T ss_dssp SEEEEESSTTSHHHHHHHHHHHHHHHHT--------TSEEEGEEEEESSSHHHHHHHHHHHHHTCSSSEEEESSH-HHHH
T ss_pred eEEEEecCCCChhHHHHHHHHHHHHHHC--------CCCCCeeEeecCCcchhHHHHHHHHHhcCCCcEEEEcCH-HHHH
Confidence 35555533 2223345567888888773 4444444443333333333333333443 6789998444 4445
Q ss_pred HHHHhhhhcC------CcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHH
Q 008912 106 VLSHLANELQ------VPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY 156 (549)
Q Consensus 106 ~va~~~~~~~------iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~ 156 (549)
.+...+...+ +.++++... + ..+..+|.+-.+..+...++...++++..
T Consensus 82 ~~~~~l~~~g~~vP~di~vv~~~~~-~-~~~~~~p~it~i~~~~~~~g~~a~~~l~~ 136 (160)
T PF13377_consen 82 GVLRALRELGIRVPQDISVVSFDDS-P-LLEFFSPPITTIDQDPREMGREAVELLLD 136 (160)
T ss_dssp HHHHHHHHTTSCTTTTSEEEEESSS-G-HHHCSSSTSEEEEE-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCcccccccEEEecCc-H-HHHHHcCCCceecCCHHHHHHHHHHHHHH
Confidence 5555555554 356665322 1 11223455555556677778877777654
No 441
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=30.88 E-value=3.1e+02 Score=22.71 Aligned_cols=87 Identities=14% Similarity=0.047 Sum_probs=54.3
Q ss_pred cEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc----hHHHHHHH
Q 008912 160 GEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY----SRTGLMVF 235 (549)
Q Consensus 160 ~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~----~~~~~~il 235 (549)
.+|.+.....+.......-+...++..|++|.+-- .. ....++++.+.+.++++|.+.+. ...+..++
T Consensus 4 ~~vl~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG---~~-----vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~~~~ 75 (137)
T PRK02261 4 KTVVLGVIGADCHAVGNKILDRALTEAGFEVINLG---VM-----TSQEEFIDAAIETDADAILVSSLYGHGEIDCRGLR 75 (137)
T ss_pred CEEEEEeCCCChhHHHHHHHHHHHHHCCCEEEECC---CC-----CCHHHHHHHHHHcCCCEEEEcCccccCHHHHHHHH
Confidence 34544444455555566777788899999887632 11 12345566777778999988653 24667778
Q ss_pred HHHHHcCCCCCCeEEEEeCC
Q 008912 236 DVAQRLGMMDSGYVWIATTW 255 (549)
Q Consensus 236 ~~a~~~g~~~~~~~~i~~~~ 255 (549)
.+.++.+... -.+|++...
T Consensus 76 ~~L~~~~~~~-~~i~vGG~~ 94 (137)
T PRK02261 76 EKCIEAGLGD-ILLYVGGNL 94 (137)
T ss_pred HHHHhcCCCC-CeEEEECCC
Confidence 8887776532 344555443
No 442
>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=30.85 E-value=2.5e+02 Score=25.79 Aligned_cols=75 Identities=11% Similarity=-0.024 Sum_probs=44.0
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~ 239 (549)
|++|.. ++.|.....+.+.+.+++.|..+..... . .+...-...++.+...+.+.||+..... ...++..+.
T Consensus 2 i~vi~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~----~~~~~~~~~i~~l~~~~vdgiii~~~~~-~~~~~~~l~ 75 (268)
T cd06298 2 VGVIIPDITNSYFAELARGIDDIATMYKYNIILSNS-D----NDKEKELKVLNNLLAKQVDGIIFMGGKI-SEEHREEFK 75 (268)
T ss_pred EEEEECCCcchHHHHHHHHHHHHHHHcCCeEEEEeC-C----CCHHHHHHHHHHHHHhcCCEEEEeCCCC-cHHHHHHHh
Confidence 455554 3456667778888888888887765432 1 1233345666777677788888754321 123445554
Q ss_pred HcC
Q 008912 240 RLG 242 (549)
Q Consensus 240 ~~g 242 (549)
+.+
T Consensus 76 ~~~ 78 (268)
T cd06298 76 RSP 78 (268)
T ss_pred cCC
Confidence 444
No 443
>TIGR00147 lipid kinase, YegS/Rv2252/BmrU family. The E. coli member of this family, YegS has been purified and shown to have phosphatidylglycerol kinase activity. The member from M. tuberculosis, Rv2252, has diacylglycerol kinase activity. BmrU from B. subtilis is in an operon with multidrug efflux transporter Bmr, but is uncharacterized.
Probab=30.83 E-value=3.4e+02 Score=25.78 Aligned_cols=75 Identities=16% Similarity=0.105 Sum_probs=44.1
Q ss_pred cEEEEEEecCCc---ccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHH
Q 008912 160 GEVIAIFNDDDQ---GRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFD 236 (549)
Q Consensus 160 ~~v~ii~~~~~~---g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~ 236 (549)
+++.+|+..... +.....++.+.+++.|+.+.....-... +....+++....+.++||+.+.......++.
T Consensus 2 ~~~~ii~Np~sg~~~~~~~~~~i~~~l~~~~~~~~~~~t~~~~------~~~~~~~~~~~~~~d~ivv~GGDGTl~~v~~ 75 (293)
T TIGR00147 2 AEAPAILNPTAGKSNDNKPLREVIMLLREEGMEIHVRVTWEKG------DAARYVEEARKFGVDTVIAGGGDGTINEVVN 75 (293)
T ss_pred ceEEEEECCCccchhhHHHHHHHHHHHHHCCCEEEEEEecCcc------cHHHHHHHHHhcCCCEEEEECCCChHHHHHH
Confidence 477777754221 1234567777888888876543332221 2233444444456778888777777777776
Q ss_pred HHHH
Q 008912 237 VAQR 240 (549)
Q Consensus 237 ~a~~ 240 (549)
.+..
T Consensus 76 ~l~~ 79 (293)
T TIGR00147 76 ALIQ 79 (293)
T ss_pred HHhc
Confidence 6644
No 444
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=30.69 E-value=3.1e+02 Score=22.73 Aligned_cols=77 Identities=21% Similarity=0.144 Sum_probs=45.1
Q ss_pred EEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhc-CCCeEEEEEcch-HHHHHHHHHH
Q 008912 161 EVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGYS-RTGLMVFDVA 238 (549)
Q Consensus 161 ~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~~~-~~~~~il~~a 238 (549)
.|++|.+... ....+.+.+...|+-+......... . .-++.+.++.+.+ ..+++|+++... .+.+.|++.+
T Consensus 3 ~valisQSG~----~~~~~~~~~~~~g~g~s~~vs~Gn~--~-dv~~~d~l~~~~~D~~t~~I~ly~E~~~d~~~f~~~~ 75 (138)
T PF13607_consen 3 GVALISQSGA----LGTAILDWAQDRGIGFSYVVSVGNE--A-DVDFADLLEYLAEDPDTRVIVLYLEGIGDGRRFLEAA 75 (138)
T ss_dssp SEEEEES-HH----HHHHHHHHHHHTT-EESEEEE-TT---S-SS-HHHHHHHHCT-SS--EEEEEES--S-HHHHHHHH
T ss_pred CEEEEECCHH----HHHHHHHHHHHcCCCeeEEEEeCcc--c-cCCHHHHHHHHhcCCCCCEEEEEccCCCCHHHHHHHH
Confidence 3566665443 3455666777778777665444432 1 3356677777754 568899998875 6678888888
Q ss_pred HHcCCC
Q 008912 239 QRLGMM 244 (549)
Q Consensus 239 ~~~g~~ 244 (549)
++....
T Consensus 76 ~~a~~~ 81 (138)
T PF13607_consen 76 RRAARR 81 (138)
T ss_dssp HHHCCC
T ss_pred HHHhcC
Confidence 887654
No 445
>PRK11118 putative monooxygenase; Provisional
Probab=30.41 E-value=69 Score=24.64 Aligned_cols=40 Identities=23% Similarity=0.301 Sum_probs=31.0
Q ss_pred EEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEec
Q 008912 29 VGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHD 72 (549)
Q Consensus 29 IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d 72 (549)
+=+-||.+.+.|..+..++.--.+.||+.+|+ .-++-..+
T Consensus 5 LQvdF~~~GP~g~em~~~~~~LA~sI~~EpGl----iWKIWTen 44 (100)
T PRK11118 5 LQVDFPFNGPFGEEMAKALKPLAESINEEPGF----IWKIWTEN 44 (100)
T ss_pred EEEeccCCCCcHHHHHHHHHHHHHHHhcCCCc----eEEEeecC
Confidence 34567888899999999999999999999755 44554444
No 446
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=30.34 E-value=4.2e+02 Score=25.47 Aligned_cols=78 Identities=3% Similarity=-0.028 Sum_probs=48.1
Q ss_pred cEEEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHH
Q 008912 160 GEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDV 237 (549)
Q Consensus 160 ~~v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~ 237 (549)
+.|+++..+ ++|.....+.+.+.+++.|..+..... . .........++.+...+.+.||+..... ....++.
T Consensus 64 ~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~----~~~~~~~~~~~~~~~~~vdgiI~~~~~~-~~~~~~~ 137 (331)
T PRK14987 64 RAIGVLLPSLTNQVFAEVLRGIESVTDAHGYQTMLAHY-G----YKPEMEQERLESMLSWNIDGLILTERTH-TPRTLKM 137 (331)
T ss_pred CEEEEEeCCCcchhHHHHHHHHHHHHHHCCCEEEEecC-C----CCHHHHHHHHHHHHhcCCCEEEEcCCCC-CHHHHHH
Confidence 477887753 456667778888899999988765321 1 1122334566677777888888854221 2244556
Q ss_pred HHHcCC
Q 008912 238 AQRLGM 243 (549)
Q Consensus 238 a~~~g~ 243 (549)
+.+.++
T Consensus 138 l~~~~i 143 (331)
T PRK14987 138 IEVAGI 143 (331)
T ss_pred HHhCCC
Confidence 666554
No 447
>PRK13337 putative lipid kinase; Reviewed
Probab=30.26 E-value=4e+02 Score=25.55 Aligned_cols=74 Identities=15% Similarity=0.113 Sum_probs=44.7
Q ss_pred cEEEEEEecCCccc----chHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHH
Q 008912 160 GEVIAIFNDDDQGR----NGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVF 235 (549)
Q Consensus 160 ~~v~ii~~~~~~g~----~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il 235 (549)
+++.+|+... .|. ..+.++...+++.|+.+.....-. ..+.....+++...+.++||+.+....+..++
T Consensus 2 ~r~~~I~Np~-aG~~~~~~~~~~~~~~l~~~~~~~~~~~t~~------~~~a~~~a~~~~~~~~d~vvv~GGDGTl~~vv 74 (304)
T PRK13337 2 KRARIIYNPT-SGRELFKKNLPDVLQKLEQAGYETSAHATTG------PGDATLAAERAVERKFDLVIAAGGDGTLNEVV 74 (304)
T ss_pred ceEEEEECCc-ccchhHHHHHHHHHHHHHHcCCEEEEEEecC------CCCHHHHHHHHHhcCCCEEEEEcCCCHHHHHH
Confidence 4677887543 332 234566777888888765433222 23445556666556677888777766777777
Q ss_pred HHHHH
Q 008912 236 DVAQR 240 (549)
Q Consensus 236 ~~a~~ 240 (549)
..+..
T Consensus 75 ~gl~~ 79 (304)
T PRK13337 75 NGIAE 79 (304)
T ss_pred HHHhh
Confidence 66543
No 448
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=30.16 E-value=3.3e+02 Score=27.76 Aligned_cols=102 Identities=10% Similarity=0.085 Sum_probs=53.3
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc
Q 008912 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (549)
Q Consensus 147 ~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 226 (549)
+..++.+++..|+ +|++|..| .|-....++++...+..++.+... .... ....-....+++++..+.++||+++
T Consensus 117 aaKLA~~l~~~G~-kV~lV~~D-~~R~aA~eQLk~~a~~~~vp~~~~--~~~~--dp~~i~~~~l~~~~~~~~DvViIDT 190 (429)
T TIGR01425 117 CTKLAYYYQRKGF-KPCLVCAD-TFRAGAFDQLKQNATKARIPFYGS--YTES--DPVKIASEGVEKFKKENFDIIIVDT 190 (429)
T ss_pred HHHHHHHHHHCCC-CEEEEcCc-ccchhHHHHHHHHhhccCCeEEee--cCCC--CHHHHHHHHHHHHHhCCCCEEEEEC
Confidence 3445555555564 78777644 455566777777777766654321 1111 0111223456667666788899887
Q ss_pred chHH--HHHHHHHHHHc-CCCCCCeEEEEeC
Q 008912 227 YSRT--GLMVFDVAQRL-GMMDSGYVWIATT 254 (549)
Q Consensus 227 ~~~~--~~~il~~a~~~-g~~~~~~~~i~~~ 254 (549)
.+.. -...+.++.+. ....+..+++..+
T Consensus 191 aGr~~~d~~lm~El~~i~~~~~p~e~lLVld 221 (429)
T TIGR01425 191 SGRHKQEDSLFEEMLQVAEAIQPDNIIFVMD 221 (429)
T ss_pred CCCCcchHHHHHHHHHHhhhcCCcEEEEEec
Confidence 7532 12233333332 1223444555554
No 449
>PLN02460 indole-3-glycerol-phosphate synthase
Probab=29.80 E-value=2.2e+02 Score=27.84 Aligned_cols=87 Identities=14% Similarity=0.118 Sum_probs=59.2
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhh-cCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEE-
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVH- 225 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~- 225 (549)
..+++.....|-.-++++++.. |.....+.|...-+. ..+.|.....+- + .-++.+.+..++|.|+|.
T Consensus 142 ~~iA~~Ye~~GA~aISVLTd~~-~F~Gs~e~L~~vr~~~v~lPvLrKDFII-------D--~yQI~eAr~~GADAVLLIa 211 (338)
T PLN02460 142 VEIAQAYEKGGAACLSVLTDEK-YFQGSFENLEAIRNAGVKCPLLCKEFIV-------D--AWQIYYARSKGADAILLIA 211 (338)
T ss_pred HHHHHHHHhCCCcEEEEecCcC-cCCCCHHHHHHHHHcCCCCCEeeccccC-------C--HHHHHHHHHcCCCcHHHHH
Confidence 4677777888999999998554 555666666654443 345544433221 1 235667777899998875
Q ss_pred --cchHHHHHHHHHHHHcCCC
Q 008912 226 --GYSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 226 --~~~~~~~~il~~a~~~g~~ 244 (549)
.+..++..+++.|.++||.
T Consensus 212 aiL~~~~L~~l~~~A~~LGme 232 (338)
T PLN02460 212 AVLPDLDIKYMLKICKSLGMA 232 (338)
T ss_pred HhCCHHHHHHHHHHHHHcCCe
Confidence 3456899999999999986
No 450
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=29.75 E-value=2.9e+02 Score=25.97 Aligned_cols=87 Identities=9% Similarity=0.035 Sum_probs=50.1
Q ss_pred HHHHHHHHH-HHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEE
Q 008912 145 YLMSAIAEM-VSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIV 223 (549)
Q Consensus 145 ~~~~ai~~~-l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~vii 223 (549)
.-+++++++ +....-++|.++-.+. +...+.+.+.+.|..|.....|......... ..+..+.......++
T Consensus 123 ~~se~Ll~l~~~~~~g~~vLi~rg~~-----gr~~L~~~L~~~G~~V~~~~vY~~~~~~~~~---~~~~~l~~~~~~d~i 194 (266)
T PRK08811 123 MDSEGLLALPLAQAPLQAVGLITAPG-----GRGLLAPTLQQRGARILRADVYQRVPLRLRA---STLAALSRAAPRSVL 194 (266)
T ss_pred CCcHHHHhChhhhCCCCEEEEEeCCC-----cHHHHHHHHHHCCCEEeEEEEEeeeCCCCCH---HHHHHHHHhCCCCEE
Confidence 447778877 5544456776665332 4478889999999888665444321001111 233444333334456
Q ss_pred EEcchHHHHHHHHHHH
Q 008912 224 VHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 224 l~~~~~~~~~il~~a~ 239 (549)
++.+++.+..+++.+.
T Consensus 195 ~ftS~sav~~f~~~l~ 210 (266)
T PRK08811 195 ALSSAEALTLILQQLP 210 (266)
T ss_pred EEChHHHHHHHHHHhh
Confidence 6677777777776553
No 451
>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=29.54 E-value=2.3e+02 Score=26.33 Aligned_cols=70 Identities=10% Similarity=0.018 Sum_probs=45.7
Q ss_pred CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc-hHHHHHHHHHHHHcCC
Q 008912 169 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVAQRLGM 243 (549)
Q Consensus 169 ~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~il~~a~~~g~ 243 (549)
++|.....+.+.+.+++.|..+.....- .+.......++.+...+.+.||+... .......++.+.+.++
T Consensus 11 ~~f~~~~~~gi~~~~~~~G~~~~~~~~~-----~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~~i 81 (272)
T cd06313 11 ATWCAQGKQAADEAGKLLGVDVTWYGGA-----LDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIARGI 81 (272)
T ss_pred ChHHHHHHHHHHHHHHHcCCEEEEecCC-----CCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHCCC
Confidence 3455666778888888899887764321 12344556677777788888888643 3344566777776664
No 452
>PRK14805 ornithine carbamoyltransferase; Provisional
Probab=29.39 E-value=5.2e+02 Score=24.86 Aligned_cols=133 Identities=18% Similarity=0.205 Sum_probs=76.3
Q ss_pred EEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHH
Q 008912 27 LNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHV 106 (549)
Q Consensus 27 i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~ 106 (549)
-.++.+|...+ .+-+.+|+.|+.++ +|..+.+...++...-.+.++-..+.++.-+++|+-=. .....
T Consensus 39 k~~~~lF~epS---TRTR~SFE~A~~~L-------Gg~~i~l~~~~ss~~kgEsl~Dt~~vls~y~D~iviR~--~~~~~ 106 (302)
T PRK14805 39 KSVVMLFEKPS---LRTRVSFDIGINKL-------GGHCLYLDQQNGALGKRESVADFAANLSCWADAIVARV--FSHST 106 (302)
T ss_pred CEEEEEecCCC---chHHHHHHHHHHHc-------CCcEEECCCCcCcCCCCcCHHHHHHHHHHhCCEEEEeC--CChhH
Confidence 34777777654 46788999999885 34444443222222233444455555555566666311 12234
Q ss_pred HHHhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHH---HHcC---CcEEEEEEecCCcccchHHHHH
Q 008912 107 LSHLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMV---SYFG---WGEVIAIFNDDDQGRNGVTALG 180 (549)
Q Consensus 107 va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l---~~~~---W~~v~ii~~~~~~g~~~~~~l~ 180 (549)
+..+++...+|+|.-++ +... | .+++++++ .++| -.+|+++.+ +......+.
T Consensus 107 ~~~~a~~~~vPVINa~~------~~~H-------P-----tQaL~Dl~Ti~e~~g~l~g~kva~vGD----~~~v~~S~~ 164 (302)
T PRK14805 107 IEQLAEHGSVPVINALC------DLYH-------P-----CQALADFLTLAEQFGDVSKVKLAYVGD----GNNVTHSLM 164 (302)
T ss_pred HHHHHHhCCCCEEECCC------CCCC-------h-----HHHHHHHHHHHHHhCCcCCcEEEEEcC----CCccHHHHH
Confidence 55666777899998422 1111 2 25666663 4454 357877753 234667777
Q ss_pred HHHhhcCeEEEEE
Q 008912 181 DKLAEIRCKISYK 193 (549)
Q Consensus 181 ~~~~~~g~~v~~~ 193 (549)
..+...|..+...
T Consensus 165 ~~~~~~g~~v~~~ 177 (302)
T PRK14805 165 YGAAILGATMTVI 177 (302)
T ss_pred HHHHHcCCEEEEE
Confidence 7888889887764
No 453
>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=29.31 E-value=1.2e+02 Score=27.63 Aligned_cols=106 Identities=13% Similarity=0.090 Sum_probs=61.2
Q ss_pred cCCcHHHHHHHHHHHHH-cCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCC
Q 008912 140 APNDLYLMSAIAEMVSY-FGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMME 218 (549)
Q Consensus 140 ~ps~~~~~~ai~~~l~~-~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~ 218 (549)
.|+...-++.+++.+.. ..-+++.++..+. ....+.+.+++.|..|.....|... .........+.++...
T Consensus 97 ~~~~~~~s~~L~~~l~~~~~~~~vl~~~g~~-----~~~~l~~~L~~~g~~v~~~~vY~~~---~~~~~~~~~~~l~~~~ 168 (231)
T PF02602_consen 97 VPSSEGSSEGLAELLKEQLRGKRVLILRGEG-----GRPDLPEKLREAGIEVTEVIVYETP---PEELSPELKEALDRGE 168 (231)
T ss_dssp E-TTSSSHHHHHGGHHHCCTTEEEEEEESSS-----SCHHHHHHHHHTTEEEEEEECEEEE---EHHHHHHHHHHHHHTT
T ss_pred cCCCCCCHHHHHHHHHhhCCCCeEEEEcCCC-----ccHHHHHHHHHCCCeEEEEEEeecc---cccchHHHHHHHHcCC
Confidence 45434456788888774 4447887766443 3566788899999888766555421 1223344555565556
Q ss_pred CeEEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEeC
Q 008912 219 ARVIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIATT 254 (549)
Q Consensus 219 ~~viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~~ 254 (549)
.++| ++.++..+..+++...+.+-...+..++..+
T Consensus 169 ~~~v-~ftS~~~~~~~~~~~~~~~~~~~~~~~~~ig 203 (231)
T PF02602_consen 169 IDAV-VFTSPSAVRAFLELLKKNGALLKRVPIVAIG 203 (231)
T ss_dssp TSEE-EESSHHHHHHHHHHSSGHHHHHTTSEEEESS
T ss_pred CCEE-EECCHHHHHHHHHHhHhhhhhhhCCEEEEEC
Confidence 6554 4567777777776654321112344455443
No 454
>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=29.28 E-value=2.9e+02 Score=25.41 Aligned_cols=69 Identities=7% Similarity=-0.041 Sum_probs=36.4
Q ss_pred CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcCC
Q 008912 169 DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLGM 243 (549)
Q Consensus 169 ~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g~ 243 (549)
+.|.....+.+.+.+++.|+++...... . .........+.+...+.+.||+..... ....++.+.+.|.
T Consensus 16 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~---~~~~~~~~~~~~~~~~~dgiii~~~~~-~~~~~~~~~~~~i 84 (270)
T cd06294 16 NPFFIEVLRGISAVANENGYDISLATGK--N---EEELLEEVKKMIQQKRVDGFILLYSRE-DDPIIDYLKEEKF 84 (270)
T ss_pred CCCHHHHHHHHHHHHHHCCCEEEEecCC--C---cHHHHHHHHHHHHHcCcCEEEEecCcC-CcHHHHHHHhcCC
Confidence 4455666778888888888877643211 1 122222222334444577777764322 1344556665553
No 455
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=29.25 E-value=3.3e+02 Score=22.52 Aligned_cols=67 Identities=15% Similarity=0.068 Sum_probs=44.1
Q ss_pred chHHHHHHHHhhcCeEEEEEEccC--CCCCCChhhH---HHHHHHHhcCCCeEEEEEcchHHHHHHHHHHHHcC
Q 008912 174 NGVTALGDKLAEIRCKISYKSALP--PDQSVTETDV---RNELVKVRMMEARVIVVHGYSRTGLMVFDVAQRLG 242 (549)
Q Consensus 174 ~~~~~l~~~~~~~g~~v~~~~~~~--~~~~~~~~~~---~~~l~~l~~~~~~viil~~~~~~~~~il~~a~~~g 242 (549)
.....+.+.+++.|..+....... .. ....|. .+.++.+.....+.|++.+...+....++.+++.|
T Consensus 52 ~~~~~~~~~L~~~g~~~~~~~~~~~~~~--~~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~i~~lr~~G 123 (149)
T cd06167 52 ERQRGFLDALRRLGFEPIQKPLRTRGSG--KKGVDVALAIDALELAYKRRIDTIVLVSGDSDFVPLVERLRELG 123 (149)
T ss_pred hhHHHHHHHHHHCCcEEEEEcceecCCc--ccCccHHHHHHHHHHhhhcCCCEEEEEECCccHHHHHHHHHHcC
Confidence 356788889999998877654321 11 112232 34444444456788888887788888999998876
No 456
>COG4143 TbpA ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]
Probab=29.22 E-value=4.9e+02 Score=25.21 Aligned_cols=92 Identities=16% Similarity=0.055 Sum_probs=50.7
Q ss_pred CchhHHHHHHHHhhhcccc-cCCCCceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHH
Q 008912 1 MNLWWLVSIFSFCIGTAIQ-GALKPEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFL 79 (549)
Q Consensus 1 m~~~~~~~~~~~~~~~~~~-~~~~~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~ 79 (549)
|++.+..+++++++++++. ++.+...++|+.-=+..+..|.. ..+.-+.|.-+ +.+++++...+.
T Consensus 1 m~~~l~~~~~~all~~~~~~a~~~t~~LtVytydSF~~ewg~G--p~vk~~FE~~~-------~~~v~fV~~~d~----- 66 (336)
T COG4143 1 MRRLLRALIGLALLVSAALGAQAATPTLTVYTYDSFASEWGPG--PKVKKAFEAEY-------GCKVNFVALGDG----- 66 (336)
T ss_pred ChhhHHHHHHHHHHHHHhhHHhhcCceEEEEEEeeeecccCCc--HHHHHHHHHHh-------CceEEEEEcCcH-----
Confidence 4444444444444433343 33555789999887765444331 12233334322 578888876432
Q ss_pred HHHHHHHHHhc----CcEEEEcCCCchHHHHH
Q 008912 80 SIMGALQFMET----DTLAIVGPQSAVMAHVL 107 (549)
Q Consensus 80 a~~~~~~l~~~----~v~aiiGp~~s~~~~~v 107 (549)
++...+++.+ +.++++|-.......+.
T Consensus 67 -v~llnRl~leg~~~~ADvvvGldn~~l~~A~ 97 (336)
T COG4143 67 -VELLNRLILEGKNPKADVVVGLDNNLLARAR 97 (336)
T ss_pred -HHHHHHHHHcCCCCCCcEEEecChHHHHHHH
Confidence 3444555443 78999997766555443
No 457
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=29.19 E-value=2.2e+02 Score=26.43 Aligned_cols=68 Identities=15% Similarity=0.177 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHHHHHHHhhhhcCC
Q 008912 42 VSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMAHVLSHLANELQV 116 (549)
Q Consensus 42 ~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~~~va~~~~~~~i 116 (549)
....-+..||++|++..++- -++ -++..|..-|+..++...++-...++.++-| +...|..+|..+.+
T Consensus 157 dELeKm~~~Vd~i~~~~~~~-~~P-lFIsvDPeRD~~~~~~eY~~eF~pkllGLTG-----T~eqvk~vak~yRV 224 (280)
T KOG2792|consen 157 DELEKMSAVVDEIEAKPGLP-PVP-LFISVDPERDSVEVVAEYVSEFHPKLLGLTG-----TTEQVKQVAKKYRV 224 (280)
T ss_pred HHHHHHHHHHHHHhccCCCC-ccc-eEEEeCcccCCHHHHHHHHHhcChhhhcccC-----CHHHHHHHHHHhEE
Confidence 34567788999999998773 243 3456677777777666666555556666655 55777888888876
No 458
>PTZ00088 adenylate kinase 1; Provisional
Probab=29.17 E-value=64 Score=29.58 Aligned_cols=29 Identities=7% Similarity=0.174 Sum_probs=26.1
Q ss_pred EEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 93 LAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 93 ~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
.+|+||..|+-+.....++..+++|+|+.
T Consensus 9 Ivl~G~PGsGK~T~a~~La~~~g~~~is~ 37 (229)
T PTZ00088 9 IVLFGAPGVGKGTFAEILSKKENLKHINM 37 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEEC
Confidence 78899999988888889999999999985
No 459
>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=29.15 E-value=2.8e+02 Score=25.62 Aligned_cols=77 Identities=8% Similarity=0.021 Sum_probs=44.3
Q ss_pred EEEEEec--CCcccchHHHHHHHHhhc-CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch-HHHHHHHHH
Q 008912 162 VIAIFND--DDQGRNGVTALGDKLAEI-RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS-RTGLMVFDV 237 (549)
Q Consensus 162 v~ii~~~--~~~g~~~~~~l~~~~~~~-g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~-~~~~~il~~ 237 (549)
|+++..+ +.|.......+.+.+++. |+.+..... . .+.......++.+...+++.|++.... ......+..
T Consensus 2 ig~~~~~~~~~~~~~~~~~i~~~~~~~~g~~~~~~~~-~----~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~ 76 (270)
T cd06308 2 IGFSQCNLADPWRAAMNDEIQREASNYPDVELIIADA-A----DDNSKQVADIENFIRQGVDLLIISPNEAAPLTPVVEE 76 (270)
T ss_pred EEEEeeCCCCHHHHHHHHHHHHHHHhcCCcEEEEEcC-C----CCHHHHHHHHHHHHHhCCCEEEEecCchhhchHHHHH
Confidence 4555543 345556677777778875 777765322 1 123334556666666778888876433 223445566
Q ss_pred HHHcCC
Q 008912 238 AQRLGM 243 (549)
Q Consensus 238 a~~~g~ 243 (549)
+.+.++
T Consensus 77 ~~~~~i 82 (270)
T cd06308 77 AYRAGI 82 (270)
T ss_pred HHHCCC
Confidence 666553
No 460
>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=29.08 E-value=1.6e+02 Score=24.58 Aligned_cols=87 Identities=18% Similarity=0.199 Sum_probs=50.1
Q ss_pred ceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchHH
Q 008912 25 EVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVMA 104 (549)
Q Consensus 25 ~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~~ 104 (549)
..-.++.+|...+ .+-+.+|+.|+.++ +|..+.+...++.-.-.+.++-..+.++.-+++|+-= ....
T Consensus 38 ~gk~v~~lF~e~S---tRTR~SFe~A~~~L-------Gg~~i~~~~~~s~~~k~Esl~Dtar~ls~~~D~iv~R--~~~~ 105 (142)
T PF02729_consen 38 KGKTVALLFFEPS---TRTRLSFEAAANRL-------GGHVIYLDPSTSSLGKGESLEDTARVLSRYVDAIVIR--HPSH 105 (142)
T ss_dssp TTCEEEEEESS-----HHHHHHHHHHHHHT-------TCEEEEEETTTSSTTTSSEHHHHHHHHHHHCSEEEEE--ESSH
T ss_pred CCCEEEEEecCCC---chhhhhHHHhhhcc-------eeEEEEECcccccCcCCCCHHHHHHHHHHhhheEEEE--eccc
Confidence 3467888887765 57788999999984 4556666533333222333334334444434444421 2233
Q ss_pred HHHHHhhhhcCCcEEeccc
Q 008912 105 HVLSHLANELQVPLLSFTA 123 (549)
Q Consensus 105 ~~va~~~~~~~iP~Is~~~ 123 (549)
..+..++....+|+|.-++
T Consensus 106 ~~~~~~a~~~~vPVINa~~ 124 (142)
T PF02729_consen 106 GALEELAEHSSVPVINAGD 124 (142)
T ss_dssp HHHHHHHHHCSSEEEEEEE
T ss_pred hHHHHHHHhccCCeEcCcC
Confidence 4566777788999998543
No 461
>TIGR00644 recJ single-stranded-DNA-specific exonuclease RecJ. All proteins in this family are 5'-3' single-strand DNA exonucleases. These proteins are used in some aspects of mismatch repair, recombination, and recombinational repair.
Probab=28.79 E-value=5.3e+02 Score=27.27 Aligned_cols=90 Identities=16% Similarity=0.174 Sum_probs=49.6
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEc--cCCCCCCChhhHHHHHHHHhcCCCeEEE-
Q 008912 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSA--LPPDQSVTETDVRNELVKVRMMEARVIV- 223 (549)
Q Consensus 147 ~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~--~~~~~~~~~~~~~~~l~~l~~~~~~vii- 223 (549)
+..+.+.++. -++|.|+...|..|......+...+++.|..+..... ++.. ..- ....++++...+.+.||
T Consensus 44 ~~~i~~~i~~--~~~I~I~gh~D~DGi~S~~~L~~~L~~~g~~v~~~ip~r~~~~--yg~--~~~~i~~~~~~~~~LiI~ 117 (539)
T TIGR00644 44 VERIIEAIEN--NEKILIFGDYDVDGITSTAILVEFLKDLGVNVDYYIPNRITEG--YGL--SPEALREAIENGVSLIIT 117 (539)
T ss_pred HHHHHHHHhc--CCeEEEEEccCCCcHHHHHHHHHHHHHCCCceEEEeCCCCccc--CCC--CHHHHHHHHhcCCCEEEE
Confidence 3444444443 3688888777777888888899999999987765332 1211 010 11234454444555555
Q ss_pred EEcchHHHHHHHHHHHHcCC
Q 008912 224 VHGYSRTGLMVFDVAQRLGM 243 (549)
Q Consensus 224 l~~~~~~~~~il~~a~~~g~ 243 (549)
++|....... ...+.+.|+
T Consensus 118 vD~G~~~~~~-~~~~~~~g~ 136 (539)
T TIGR00644 118 VDNGISAHEE-IDYAKELGI 136 (539)
T ss_pred eCCCcccHHH-HHHHHhcCC
Confidence 4555543332 244555453
No 462
>PF09651 Cas_APE2256: CRISPR-associated protein (Cas_APE2256); InterPro: IPR013442 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a conserved region of about 150 amino acids found in a family of Cas proteins in at least five archaeal and three bacterial species. In six of eight species, the protein is encoded the vicinity of a CRISPR/Cas locus.; PDB: 3QYF_A.
Probab=28.70 E-value=3.4e+02 Score=22.45 Aligned_cols=48 Identities=17% Similarity=0.194 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHcCCc---EEEEEEecCCcccchHHHHHHHHhhcCeEEEEE
Q 008912 146 LMSAIAEMVSYFGWG---EVIAIFNDDDQGRNGVTALGDKLAEIRCKISYK 193 (549)
Q Consensus 146 ~~~ai~~~l~~~~W~---~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~ 193 (549)
....+..++...... .+.++++|...|+...+.+++.+.+.|..+...
T Consensus 6 Elnsl~~~~~~~~~~~~~~~~Ll~SDT~~G~~~a~il~~~l~~~g~~v~~~ 56 (136)
T PF09651_consen 6 ELNSLVRLLEKGKDDDKDEVVLLHSDTPDGRLCAEILKEYLEEKGINVEVV 56 (136)
T ss_dssp HHHHHHHHHHHHT--GGGEEEEEEESSHHHHHHHHHHHHHHHHTT-EEEEE
T ss_pred hHHHHHHHHHhCccccCcEEEEEeCCCHHHHHHHHHHHHHHHHcCCeEEEE
Confidence 345666666665442 899999999999999999999999988876543
No 463
>cd03522 MoeA_like MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is unknown.
Probab=28.67 E-value=3.8e+02 Score=25.95 Aligned_cols=68 Identities=16% Similarity=0.211 Sum_probs=46.7
Q ss_pred cCCcEEEEEEecCC--cc---cchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch
Q 008912 157 FGWGEVIAIFNDDD--QG---RNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS 228 (549)
Q Consensus 157 ~~W~~v~ii~~~~~--~g---~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~ 228 (549)
|.-.++++|...++ .| ......+...+++.|..+.....++. +...+...++++.+.++++||+.+..
T Consensus 157 ~r~~rv~II~TG~Ev~~G~i~D~~~~~l~~~L~~~G~~v~~~~iv~D----d~~~I~~ai~~~~~~g~DlIItTGGt 229 (312)
T cd03522 157 FRPLRVGLIVTGSEVYGGRIEDKFGPVLRARLAALGVELVEQVIVPH----DEAAIAAAIAEALEAGAELLILTGGA 229 (312)
T ss_pred cCCCEEEEEEcCCcCCCCcEEEhHHHHHHHHHHHCCCEEEEEEEcCC----CHHHHHHHHHHHhcCCCCEEEEeCCc
Confidence 34457888876542 12 23355777788889999887776663 36677888887766668888886553
No 464
>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=28.63 E-value=2.9e+02 Score=25.62 Aligned_cols=75 Identities=11% Similarity=0.059 Sum_probs=44.1
Q ss_pred EEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHH-HHhcCCCeEEEEEcchHHHHHHHHHH
Q 008912 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELV-KVRMMEARVIVVHGYSRTGLMVFDVA 238 (549)
Q Consensus 162 v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~-~l~~~~~~viil~~~~~~~~~il~~a 238 (549)
|+++..+ ++|.......+.+.+++.|..+.....-. ..+....+. .+...+.+.||+...... ...++.+
T Consensus 2 Igvi~p~~~~~~~~~~~~~i~~~~~~~gy~~~~~~~~~------~~~~~~~~~~~l~~~~vdgvi~~~~~~~-~~~~~~l 74 (269)
T cd06297 2 ISVLLPVVATEFYRRLLEGIEGALLEQRYDLALFPLLS------LARLKRYLESTTLAYLTDGLLLASYDLT-ERLAERR 74 (269)
T ss_pred EEEEeCCCcChhHHHHHHHHHHHHHHCCCEEEEEeCCC------cHHHHHHHHHHHHhcCCCEEEEecCccC-hHHHHHH
Confidence 4566653 45666777888888889998877643211 123344554 366667888887654322 2345555
Q ss_pred HHcCC
Q 008912 239 QRLGM 243 (549)
Q Consensus 239 ~~~g~ 243 (549)
.+.|.
T Consensus 75 ~~~~i 79 (269)
T cd06297 75 LPTER 79 (269)
T ss_pred hhcCC
Confidence 55453
No 465
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=28.61 E-value=1e+02 Score=29.54 Aligned_cols=53 Identities=17% Similarity=0.210 Sum_probs=39.3
Q ss_pred EEecCCCChHHHHHHHH-HHHhc-CcEEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 69 TMHDAKFNGFLSIMGAL-QFMET-DTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 69 ~~~d~~~~~~~a~~~~~-~l~~~-~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
..+|+=|+...--+.+. +|..+ .+..|||+..|..+.-++.++...+.|..-.
T Consensus 188 ~~~nTIC~aT~~RQ~a~~~La~~vD~miVVGg~~SsNT~kL~~i~~~~~~~t~~I 242 (298)
T PRK01045 188 PPKDDICYATQNRQEAVKELAPQADLVIVVGSKNSSNSNRLREVAEEAGAPAYLI 242 (298)
T ss_pred CCCCCcchhhHHHHHHHHHHHhhCCEEEEECCCCCccHHHHHHHHHHHCCCEEEE
Confidence 34788776665555544 44443 7888899999999999999999988776543
No 466
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=28.52 E-value=2.1e+02 Score=20.74 Aligned_cols=47 Identities=19% Similarity=0.184 Sum_probs=31.3
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCcc----cchHHHHHHHHhhcCeEEEEEE
Q 008912 147 MSAIAEMVSYFGWGEVIAIFNDDDQG----RNGVTALGDKLAEIRCKISYKS 194 (549)
Q Consensus 147 ~~ai~~~l~~~~W~~v~ii~~~~~~g----~~~~~~l~~~~~~~g~~v~~~~ 194 (549)
+--++..+.+++ .++.+|...+... ....+.+.+.+++.|+++....
T Consensus 11 g~E~A~~l~~~g-~~vtli~~~~~~~~~~~~~~~~~~~~~l~~~gV~v~~~~ 61 (80)
T PF00070_consen 11 GIELAEALAELG-KEVTLIERSDRLLPGFDPDAAKILEEYLRKRGVEVHTNT 61 (80)
T ss_dssp HHHHHHHHHHTT-SEEEEEESSSSSSTTSSHHHHHHHHHHHHHTTEEEEESE
T ss_pred HHHHHHHHHHhC-cEEEEEeccchhhhhcCHHHHHHHHHHHHHCCCEEEeCC
Confidence 444666667766 6777777665433 4556777788888888876543
No 467
>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=28.27 E-value=5.5e+02 Score=24.78 Aligned_cols=90 Identities=14% Similarity=0.078 Sum_probs=48.9
Q ss_pred eEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCC-ChHHHHHHHHHHHhc-----CcEEEE---
Q 008912 26 VLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKF-NGFLSIMGALQFMET-----DTLAIV--- 96 (549)
Q Consensus 26 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~-~~~~a~~~~~~l~~~-----~v~aii--- 96 (549)
+-+||++.+.++ .|+..-+..++... |..++.+...-.+| +....+..+.+.++. .+++||
T Consensus 14 p~~I~vITs~~g-------Aa~~D~~~~~~~r~---~~~~~~~~p~~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~R 83 (319)
T PF02601_consen 14 PKRIAVITSPTG-------AAIQDFLRTLKRRN---PIVEIILYPASVQGEGAAASIVSALRKANEMGQADDFDVIIIIR 83 (319)
T ss_pred CCEEEEEeCCch-------HHHHHHHHHHHHhC---CCcEEEEEeccccccchHHHHHHHHHHHHhccccccccEEEEec
Confidence 568999999874 24455556666643 33444444333344 222333333333332 255544
Q ss_pred cCCCch-----HHHHHHHhhhhcCCcEEecccCC
Q 008912 97 GPQSAV-----MAHVLSHLANELQVPLLSFTALD 125 (549)
Q Consensus 97 Gp~~s~-----~~~~va~~~~~~~iP~Is~~~~~ 125 (549)
|+.+-. ....++.......+|+||--+..
T Consensus 84 GGGs~eDL~~FN~e~varai~~~~~PvisaIGHe 117 (319)
T PF02601_consen 84 GGGSIEDLWAFNDEEVARAIAASPIPVISAIGHE 117 (319)
T ss_pred CCCChHHhcccChHHHHHHHHhCCCCEEEecCCC
Confidence 433322 34557777778899999854433
No 468
>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=27.99 E-value=3e+02 Score=25.12 Aligned_cols=61 Identities=5% Similarity=-0.033 Sum_probs=39.8
Q ss_pred EEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 162 VIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 162 v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
|+++..+ +.|.....+.+.+.+++.|..+..... . .+...-...++.+...+.+.||+...
T Consensus 2 i~~i~~~~~~~~~~~i~~gi~~~~~~~g~~~~~~~~-~----~~~~~~~~~i~~l~~~~vdgiii~~~ 64 (260)
T cd06286 2 IGVVLPYINHPYFSQLVDGIEKAALKHGYKVVLLQT-N----YDKEKELEYLELLKTKQVDGLILCSR 64 (260)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeC-C----CChHHHHHHHHHHHHcCCCEEEEeCC
Confidence 4566653 556677778888888888988765432 1 12333446677777778888887643
No 469
>PRK03670 competence damage-inducible protein A; Provisional
Probab=27.91 E-value=3.8e+02 Score=25.01 Aligned_cols=49 Identities=12% Similarity=0.219 Sum_probs=31.2
Q ss_pred hHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 175 GVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 175 ~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
....+.+.+.+.|+.+.....++. +...+...++++.....++||+.+.
T Consensus 21 N~~~la~~L~~~G~~v~~~~iV~D----d~~~I~~~l~~a~~~~~DlVIttGG 69 (252)
T PRK03670 21 NSAFIAQKLTEKGYWVRRITTVGD----DVEEIKSVVLEILSRKPEVLVISGG 69 (252)
T ss_pred hHHHHHHHHHHCCCEEEEEEEcCC----CHHHHHHHHHHHhhCCCCEEEECCC
Confidence 355677778888888776666653 3556666666654444577776543
No 470
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=27.86 E-value=50 Score=27.74 Aligned_cols=27 Identities=22% Similarity=0.305 Sum_probs=24.1
Q ss_pred EEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 95 IVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 95 iiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
|+||..|+-......++..+++++|+.
T Consensus 1 i~G~PgsGK~t~~~~la~~~~~~~is~ 27 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAKRYGLVHISV 27 (151)
T ss_dssp EEESTTSSHHHHHHHHHHHHTSEEEEH
T ss_pred CcCCCCCChHHHHHHHHHhcCcceech
Confidence 689999988888888999999999985
No 471
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=27.79 E-value=6.6e+02 Score=25.54 Aligned_cols=103 Identities=10% Similarity=0.080 Sum_probs=63.8
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc
Q 008912 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (549)
Q Consensus 147 ~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 226 (549)
+--++.++++ .-+++.++..| .|=-...++|+...++.|+.+-... ... ....-....+++.+....++||++.
T Consensus 117 ~~KLA~~lkk-~~~kvllVaaD-~~RpAA~eQL~~La~q~~v~~f~~~--~~~--~Pv~Iak~al~~ak~~~~DvvIvDT 190 (451)
T COG0541 117 AGKLAKYLKK-KGKKVLLVAAD-TYRPAAIEQLKQLAEQVGVPFFGSG--TEK--DPVEIAKAALEKAKEEGYDVVIVDT 190 (451)
T ss_pred HHHHHHHHHH-cCCceEEEecc-cCChHHHHHHHHHHHHcCCceecCC--CCC--CHHHHHHHHHHHHHHcCCCEEEEeC
Confidence 4457778888 66788777755 4655677888888888887654331 100 1122346778888888889999987
Q ss_pred chHH--HHHHHHHHHHc-CCCCCCeEEEEeCC
Q 008912 227 YSRT--GLMVFDVAQRL-GMMDSGYVWIATTW 255 (549)
Q Consensus 227 ~~~~--~~~il~~a~~~-g~~~~~~~~i~~~~ 255 (549)
.+.. -..++.++.+. ....+.-+.+..|.
T Consensus 191 AGRl~ide~Lm~El~~Ik~~~~P~E~llVvDa 222 (451)
T COG0541 191 AGRLHIDEELMDELKEIKEVINPDETLLVVDA 222 (451)
T ss_pred CCcccccHHHHHHHHHHHhhcCCCeEEEEEec
Confidence 7532 22344443332 13346666666664
No 472
>PF03162 Y_phosphatase2: Tyrosine phosphatase family; InterPro: IPR004861 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry represents protein-tyrosine phosphatases predominantly from fungi, plants and bacteria, several of which are putative enzymes. These proteins are closely related to the Y-phosphatase and DSPc families. This entry includes the PTPase SIW14 from Saccharomyces cerevisiae (Baker's yeast), which plays a role in actin filament organisation and endocytosis.; PDB: 2Q47_A 1XRI_A.
Probab=27.76 E-value=3.9e+02 Score=22.92 Aligned_cols=84 Identities=13% Similarity=0.103 Sum_probs=41.1
Q ss_pred CceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCC---CCChhhHHHH
Q 008912 134 PFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQ---SVTETDVRNE 210 (549)
Q Consensus 134 ~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~---~~~~~~~~~~ 210 (549)
+.+||-..+.. .-..+++++|-|.|..+..++. .+.....+++.|+++.....-.... ....+.+.+.
T Consensus 12 ~~vYRS~~P~~----~n~~fL~~L~LKTII~L~~e~~-----~~~~~~f~~~~~I~l~~~~~~~~~~~~~~~~~~~v~~a 82 (164)
T PF03162_consen 12 PGVYRSAQPTP----ANFPFLERLGLKTIINLRPEPP-----SQDFLEFAEENGIKLIHIPMSSSKDPWVPISEEQVAEA 82 (164)
T ss_dssp TTEEEESS--H----HHHHHHHHHT-SEEEE--SS--------HHHHHHHHHTT-EEEE-------GGG----HHHHHHH
T ss_pred CCccCCCCCCh----hhHHHHHHCCCceEEEecCCCC-----CHHHHHHHhhcCceEEEeccccccCccccCCHHHHHHH
Confidence 46788775432 3446789999999988875432 2344557788888876543211110 0135566777
Q ss_pred HHHHhcCCCeEEEEEc
Q 008912 211 LVKVRMMEARVIVVHG 226 (549)
Q Consensus 211 l~~l~~~~~~viil~~ 226 (549)
|+-+.+....-|+++|
T Consensus 83 L~~ild~~n~PvLiHC 98 (164)
T PF03162_consen 83 LEIILDPRNYPVLIHC 98 (164)
T ss_dssp HHHHH-GGG-SEEEE-
T ss_pred HHHHhCCCCCCEEEEe
Confidence 7776554444455655
No 473
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=27.65 E-value=7.1e+02 Score=25.85 Aligned_cols=140 Identities=11% Similarity=0.160 Sum_probs=73.1
Q ss_pred EEcCCCchHHHHHHHhhh-hcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcc-
Q 008912 95 IVGPQSAVMAHVLSHLAN-ELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQG- 172 (549)
Q Consensus 95 iiGp~~s~~~~~va~~~~-~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g- 172 (549)
|++|.+.....++..+.. ...+=+|.++. . -++|- ......+...++.....-+++.|+|. +.+|
T Consensus 198 i~~p~~~~v~~~l~~~~~l~l~~~~i~p~H-G---------~i~r~--~~~~~l~~Y~~~~~~~~~~kv~IvY~-S~~Gn 264 (479)
T PRK05452 198 ILTPFSRLVTPKITEILGFNLPVDMIATSH-G---------VVWRD--NPTQIVELYLKWAADYQEDRITIFYD-TMSNN 264 (479)
T ss_pred hhhhhHHHHHHHHHHHhhcCCCCCEEECCC-C---------ceEeC--CHHHHHHHHHHHhhccCcCcEEEEEE-CCccH
Confidence 678877766666666654 23444554322 1 23452 22222233333343334578999994 4455
Q ss_pred -cchHHHHHHHHhhc--CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcch------HHHHHHHHHHHHcCC
Q 008912 173 -RNGVTALGDKLAEI--RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYS------RTGLMVFDVAQRLGM 243 (549)
Q Consensus 173 -~~~~~~l~~~~~~~--g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~------~~~~~il~~a~~~g~ 243 (549)
+..++.+.+.+++. |+.+.... +. ..+...++..+. .++.|++.++. ..+..++.......+
T Consensus 265 Te~mA~~ia~gl~~~g~gv~v~~~~-v~------~~~~~~i~~~~~--~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l 335 (479)
T PRK05452 265 TRMMADAIAQGIAEVDPRVAVKIFN-VA------RSDKNEILTNVF--RSKGVLVGSSTMNNVMMPKIAGLLEEITGLRF 335 (479)
T ss_pred HHHHHHHHHHHHHhhCCCceEEEEE-CC------CCCHHHHHhHHh--hCCEEEEECCccCCcchHHHHHHHHHhhccCc
Confidence 45567777777766 45544332 22 223444555553 45677776543 346667766666554
Q ss_pred CCCCeEEEEeCCc
Q 008912 244 MDSGYVWIATTWL 256 (549)
Q Consensus 244 ~~~~~~~i~~~~~ 256 (549)
.++...-+++..|
T Consensus 336 ~gK~~~vFGSygw 348 (479)
T PRK05452 336 RNKRASAFGSHGW 348 (479)
T ss_pred CCCEEEEEECCCc
Confidence 4333333444333
No 474
>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=27.59 E-value=3.5e+02 Score=24.98 Aligned_cols=77 Identities=12% Similarity=0.085 Sum_probs=44.9
Q ss_pred EEEEEe--cCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchH----HHHHHH
Q 008912 162 VIAIFN--DDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSR----TGLMVF 235 (549)
Q Consensus 162 v~ii~~--~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~----~~~~il 235 (549)
|+++.. ++.|.....+.+.+.+++.|+.+..... . .....-...++.+...+.+.||+..... .....+
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~----~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~ 76 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSEKGYSLLLAST-N----NDPERERKCLENMLSQGIDGLIIEPTKSALPNPNIDLY 76 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHHcCCEEEEEeC-C----CCHHHHHHHHHHHHHcCCCEEEEeccccccccccHHHH
Confidence 445553 3455666777888888888887765321 1 1122334567777777888888754321 122455
Q ss_pred HHHHHcCC
Q 008912 236 DVAQRLGM 243 (549)
Q Consensus 236 ~~a~~~g~ 243 (549)
+++.+.+.
T Consensus 77 ~~~~~~~i 84 (273)
T cd01541 77 LKLEKLGI 84 (273)
T ss_pred HHHHHCCC
Confidence 66666553
No 475
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=27.51 E-value=3e+02 Score=22.49 Aligned_cols=99 Identities=12% Similarity=0.028 Sum_probs=45.2
Q ss_pred HHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccC---CCCCCChhhH---HHHHHHHhcCCCe
Q 008912 147 MSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALP---PDQSVTETDV---RNELVKVRMMEAR 220 (549)
Q Consensus 147 ~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~---~~~~~~~~~~---~~~l~~l~~~~~~ 220 (549)
...+.+.+...+--....+|.+ ........+.+.+++.|+.+....... .. ....|. ...+..+.....+
T Consensus 22 ~~~l~~~i~~~~~~~~~~~y~~--~~~~~~~~~~~~L~~~g~~v~~~~~~~~~~~~--k~~~D~~l~~d~~~~~~~~~~d 97 (146)
T PF01936_consen 22 FERLLEEIRKYGPLVRIRAYGN--WDDPNQKSFQEALQRAGIKVRHFPLRKRGGGG--KKGVDVALAVDILELAYENPPD 97 (146)
T ss_dssp HHHHHHHHTTTEEEEEEEEEE------HHHHHHHHHHHHHT-EEEE------S-----S---HHHHHHHHHHHG--GG-S
T ss_pred HHHHHHHHHhcCCeEEEEEEee--ccccchhhHHHHHHhCeeeEEeeecccccccc--cCCcHHHHHHHHHHHhhccCCC
Confidence 3455555555443223344444 222345777788888998765543211 11 112232 2333333223347
Q ss_pred EEEEEcchHHHHHHHHHHHHcCCCCCCeEEEEe
Q 008912 221 VIVVHGYSRTGLMVFDVAQRLGMMDSGYVWIAT 253 (549)
Q Consensus 221 viil~~~~~~~~~il~~a~~~g~~~~~~~~i~~ 253 (549)
.+++.+...+...+++.+++.|. .+++..
T Consensus 98 ~ivLvSgD~Df~~~v~~l~~~g~----~V~v~~ 126 (146)
T PF01936_consen 98 TIVLVSGDSDFAPLVRKLRERGK----RVIVVG 126 (146)
T ss_dssp EEEEE---GGGHHHHHHHHHH------EEEEEE
T ss_pred EEEEEECcHHHHHHHHHHHHcCC----EEEEEE
Confidence 77777766778888888888763 356655
No 476
>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=27.37 E-value=5.4e+02 Score=24.60 Aligned_cols=64 Identities=13% Similarity=0.009 Sum_probs=41.6
Q ss_pred CCcEEEEEEec--CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEc
Q 008912 158 GWGEVIAIFND--DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHG 226 (549)
Q Consensus 158 ~W~~v~ii~~~--~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~ 226 (549)
.-+.|+++..+ +.|.......+.+.+++.|..+..... . .........++.+...+.+.||+..
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~~g~~~~i~~~-~----~~~~~~~~~~~~l~~~~vdGiIi~~ 123 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATMYKYNIILSNS-D----EDPEKEVQVLNTLLSKQVDGIIFMG 123 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHHcCCEEEEEeC-C----CCHHHHHHHHHHHHhCCCCEEEEeC
Confidence 34578888753 456666677888888888887765321 1 1233344566777777888888764
No 477
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=27.32 E-value=5.5e+02 Score=24.50 Aligned_cols=92 Identities=13% Similarity=0.120 Sum_probs=60.3
Q ss_pred CcEEEEcCCCchHHHHHHHhhhhcCCcEEecccCCCCCCCCCCCceEE--cc---CC---cHHHHHHHHHHHHHcC----
Q 008912 91 DTLAIVGPQSAVMAHVLSHLANELQVPLLSFTALDPTLSPLQYPFFVQ--TA---PN---DLYLMSAIAEMVSYFG---- 158 (549)
Q Consensus 91 ~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r--~~---ps---~~~~~~ai~~~l~~~~---- 158 (549)
-+.-++||...+....++.++...++=++..+...... ...||.| +. |. ...+-.++.++.+.++
T Consensus 10 ~iitv~G~Dr~GIVA~Vs~~Lae~g~NI~disq~~d~~---~~~ffm~i~~~~~~~~~~~~~~l~~~l~~l~~~l~l~~~ 86 (289)
T PRK13010 10 YVLTLACPSAPGIVAAVSGFLAEKGCYIVELTQFDDDE---SGRFFMRVSFHAQSAEAASVDTFRQEFQPVAEKFDMQWA 86 (289)
T ss_pred EEEEEECCCCCCcHHHHHHHHHHCCCCEEecccccccc---cCcEEEEEEEEcCCCCCCCHHHHHHHHHHHHHHhCCeEE
Confidence 37889999999999999999999988888754431111 2245555 22 22 2445566777766653
Q ss_pred ------CcEEEEEEecCCcccchHHHHHHHHhhcCe
Q 008912 159 ------WGEVIAIFNDDDQGRNGVTALGDKLAEIRC 188 (549)
Q Consensus 159 ------W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~ 188 (549)
.++++++.+... ..++.+.+..+...+
T Consensus 87 i~~~~~~~kiavl~Sg~g---~nl~al~~~~~~~~l 119 (289)
T PRK13010 87 IHPDGQRPKVVIMVSKFD---HCLNDLLYRWRMGEL 119 (289)
T ss_pred EecCCCCeEEEEEEeCCC---ccHHHHHHHHHCCCC
Confidence 468888887653 356777776665443
No 478
>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=27.26 E-value=4e+02 Score=24.62 Aligned_cols=79 Identities=11% Similarity=0.007 Sum_probs=42.7
Q ss_pred EEEEEecC----CcccchHHHHHHHHhh-------cCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcchHH
Q 008912 162 VIAIFNDD----DQGRNGVTALGDKLAE-------IRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGYSRT 230 (549)
Q Consensus 162 v~ii~~~~----~~g~~~~~~l~~~~~~-------~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~~~~ 230 (549)
|+++...+ .++......+...++. .|.++..... ... .+.......++++...+.++||.......
T Consensus 2 ig~~~p~sg~~~~~~~~~~~g~~~a~~~~n~~gg~~g~~v~~~~~-d~~--~~~~~~~~~~~~l~~~~v~~iig~~~~~~ 78 (298)
T cd06268 2 IGVLLPLSGPLAALGEPVRNGAELAVEEINAAGGILGRKIELVVE-DTQ--GDPEAAAAAARELVDDGVDAVIGPLSSGV 78 (298)
T ss_pred eeeeecCcCchhhcChhHHHHHHHHHHHHHhcCCCCCeEEEEEEe-cCC--CCHHHHHHHHHHHHhCCceEEEcCCcchh
Confidence 45555432 4566666666665554 2445544332 211 22334556666676667777766555555
Q ss_pred HHHHHHHHHHcCC
Q 008912 231 GLMVFDVAQRLGM 243 (549)
Q Consensus 231 ~~~il~~a~~~g~ 243 (549)
...+...+.+.++
T Consensus 79 ~~~~~~~~~~~~i 91 (298)
T cd06268 79 ALAAAPVAEEAGV 91 (298)
T ss_pred HHhhHHHHHhCCC
Confidence 5556666666554
No 479
>COG2082 CobH Precorrin isomerase [Coenzyme metabolism]
Probab=27.24 E-value=1.4e+02 Score=26.72 Aligned_cols=47 Identities=19% Similarity=0.276 Sum_probs=32.3
Q ss_pred CChHHHHHHHHHHHhc---CcEEEEc-CCCchHHHHHHHhhhhcCCcEEec
Q 008912 75 FNGFLSIMGALQFMET---DTLAIVG-PQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 75 ~~~~~a~~~~~~l~~~---~v~aiiG-p~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
++...|+-.+|+++++ +..+||| |..-.-+....+-+....+|+|+.
T Consensus 135 GNAPTAL~~l~elie~~~~~palvIg~PVGFv~AaesKe~L~~~~iP~itv 185 (210)
T COG2082 135 GNAPTALFELLELIEEGGIKPALVIGVPVGFVGAAESKEALRESPIPYITV 185 (210)
T ss_pred eCCHHHHHHHHHHHHccCCCCcEEEEcCCcccchHHHHHHHHhCCCCeEEE
Confidence 5677788888888876 4677777 554444555556666667888875
No 480
>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=27.16 E-value=1.4e+02 Score=26.62 Aligned_cols=47 Identities=19% Similarity=0.236 Sum_probs=31.9
Q ss_pred CChHHHHHHHHHHHhc---CcEEEEc-CCCchHHHHHHHhhhhcCCcEEec
Q 008912 75 FNGFLSIMGALQFMET---DTLAIVG-PQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 75 ~~~~~a~~~~~~l~~~---~v~aiiG-p~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
++...|+-..++++.+ +...||| |..--.+....+.+...++|+|+.
T Consensus 126 GNAPTAL~~ll~li~~~~~~PalVIg~PVGFV~A~ESKe~L~~~~vP~I~~ 176 (198)
T PF02570_consen 126 GNAPTALFELLELIEEGGVRPALVIGVPVGFVGAAESKEALMQSGVPYITV 176 (198)
T ss_dssp SS-HHHHHHHHHHHHTTT-TTSEEEE---SSSSHHHHHHHHHHSTS-EEEE
T ss_pred eCcHHHHHHHHHHHHhcCCCCcEEEECCCcccCcHHHHHHHHhCCCCEEEE
Confidence 6788888899999887 5788888 555444444556666669999985
No 481
>cd01972 Nitrogenase_VnfE_like Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protein for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=27.06 E-value=3.7e+02 Score=27.34 Aligned_cols=146 Identities=16% Similarity=0.160 Sum_probs=79.5
Q ss_pred CcEEEEcCCCc------hHHHHHHHhhhhcCCcEEecccCCCCCCC-CC-CCceEEccCCcHHHHHHHHHHHH-HcCCcE
Q 008912 91 DTLAIVGPQSA------VMAHVLSHLANELQVPLLSFTALDPTLSP-LQ-YPFFVQTAPNDLYLMSAIAEMVS-YFGWGE 161 (549)
Q Consensus 91 ~v~aiiGp~~s------~~~~~va~~~~~~~iP~Is~~~~~~~ls~-~~-~~~~~r~~ps~~~~~~ai~~~l~-~~~W~~ 161 (549)
+.+-|||.... .....+.++++..++......+.+..+.+ .. -.--+.+.... ..+..+++.|+ +||-..
T Consensus 162 ~~VNliG~~~~~~~~~~~d~~ei~~lL~~~Gi~v~~~~~~~~~~~ei~~~~~A~lniv~~~-~~g~~~a~~Lee~~GiP~ 240 (426)
T cd01972 162 DSVNIIGLWGGPERTEQEDVDEFKRLLNELGLRVNAIIAGGCSVEELERASEAAANVTLCL-DLGYYLGAALEQRFGVPE 240 (426)
T ss_pred CCEEEEccCCCccccccccHHHHHHHHHHcCCeEEEEeCCCCCHHHHHhcccCCEEEEECh-hHHHHHHHHHHHHhCCCe
Confidence 35778886654 55677899999999988876544444443 11 11122332221 24567788875 588775
Q ss_pred EEEEEecCCcccchHHHHHHHHhh-cCeEEEEEEccCCCCCCChhhHHHHHHHHhc-CCCeEEEEEcchHHHHHHHHHHH
Q 008912 162 VIAIFNDDDQGRNGVTALGDKLAE-IRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 162 v~ii~~~~~~g~~~~~~l~~~~~~-~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~~~~~~~~il~~a~ 239 (549)
+.+ .-++|.....++...+.+ .|........+.. ....+.+.+.+.+. ..-+-+++...+.....+.+.+.
T Consensus 241 ~~~---~~P~G~~~T~~~l~~ia~~~g~~~~~e~~i~~----e~~~~~~~l~~~~~~l~Gk~~~i~~~~~~~~~~~~~l~ 313 (426)
T cd01972 241 IKA---PQPYGIEATDKWLREIAKVLGMEAEAEAVIER----EHERVAPEIEELRKALKGKKAIVETGAAYGHLLIAVLR 313 (426)
T ss_pred Eec---CCccCHHHHHHHHHHHHHHhCCcHHHHHHHHH----HHHHHHHHHHHHHHHhCCCEEEEEeCCccHHHHHHHHH
Confidence 532 346776665555554443 4532111111110 12223344444332 22333456677777788888888
Q ss_pred HcC-CC
Q 008912 240 RLG-MM 244 (549)
Q Consensus 240 ~~g-~~ 244 (549)
++| |.
T Consensus 314 elG~~~ 319 (426)
T cd01972 314 ELGFGE 319 (426)
T ss_pred HcCCce
Confidence 988 64
No 482
>PRK10848 phosphohistidine phosphatase; Provisional
Probab=27.06 E-value=3.8e+02 Score=22.79 Aligned_cols=96 Identities=6% Similarity=-0.160 Sum_probs=50.3
Q ss_pred ccCCcHHHHHHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeE--EEEEEccCCCCCCChhhHHHHHHHHhc
Q 008912 139 TAPNDLYLMSAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCK--ISYKSALPPDQSVTETDVRNELVKVRM 216 (549)
Q Consensus 139 ~~ps~~~~~~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~--v~~~~~~~~~~~~~~~~~~~~l~~l~~ 216 (549)
+.+.-..+++.+++.+...++.-=.|+.+.-......++.+ .+..++. +.....+.+. .+.......++.+..
T Consensus 23 Lt~~G~~qa~~~~~~l~~~~~~~d~i~sSp~~Ra~qTa~~l---~~~~~~~~~~~~~~~l~~~--~~~~~~~~~l~~~~~ 97 (159)
T PRK10848 23 LTTCGCDESRLMANWLKGQKVDIERVLVSPYLRAEQTLEVV---GECLNLPASAEVLPELTPC--GDVGLVSAYLQALAN 97 (159)
T ss_pred cCHHHHHHHHHHHHHHHhCCCCCCEEEECCHHHHHHHHHHH---HHHhCCCCceEEccCCCCC--CCHHHHHHHHHHHHh
Confidence 44556678888998888766632233443332222222222 2223332 2222222222 223345566666665
Q ss_pred CCCeEEEEEcchHHHHHHHHHHH
Q 008912 217 MEARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 217 ~~~~viil~~~~~~~~~il~~a~ 239 (549)
...+-+++.+....+..+.....
T Consensus 98 ~~~~~vllVgH~P~l~~l~~~L~ 120 (159)
T PRK10848 98 EGVASVLVISHLPLVGYLVAELC 120 (159)
T ss_pred cCCCeEEEEeCcCcHHHHHHHHh
Confidence 55567778888777777776653
No 483
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=26.90 E-value=4.9e+02 Score=28.33 Aligned_cols=90 Identities=12% Similarity=0.046 Sum_probs=52.0
Q ss_pred cHHHHHHHHHHHHH----cCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCC-CCChhhHHHHHHHHhcC
Q 008912 143 DLYLMSAIAEMVSY----FGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQ-SVTETDVRNELVKVRMM 217 (549)
Q Consensus 143 ~~~~~~ai~~~l~~----~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~-~~~~~~~~~~l~~l~~~ 217 (549)
...-++.+++.+.. ..-++|.++..+ .....+.+.+++.|..|.....|.... ......+ ..+..+...
T Consensus 119 ~~~~se~Ll~~l~~~~~~~~g~rVLi~rG~-----~gr~~L~~~L~~~Ga~V~~v~vY~~~~~~~~~~~~-~~~~~~l~~ 192 (656)
T PRK06975 119 ARYDSEALFAEIDAAFGALAGKRVLIVRGD-----GGREWLAERLREAGAEVELVEAYRRVVPEPSIGAW-ERVHALLSG 192 (656)
T ss_pred CccchHHHHHhHHHhccCCCCCEEEEEcCC-----CCcHHHHHHHHHCCCEEEEEeEEEeeCCCcchhHH-HHHHHHHhC
Confidence 44456788888764 345788776633 245667888999999887655443210 0111111 223333333
Q ss_pred CCeEEEEEcchHHHHHHHHHHH
Q 008912 218 EARVIVVHGYSRTGLMVFDVAQ 239 (549)
Q Consensus 218 ~~~viil~~~~~~~~~il~~a~ 239 (549)
+.++ +++.+++.+..+++.+.
T Consensus 193 ~ida-v~fTS~s~v~~f~~la~ 213 (656)
T PRK06975 193 APHA-WLLTSSEAVRNLDELAR 213 (656)
T ss_pred CCcE-EEECCHHHHHHHHHHHH
Confidence 4554 45677888888887654
No 484
>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=26.84 E-value=7e+02 Score=25.55 Aligned_cols=106 Identities=10% Similarity=-0.000 Sum_probs=56.0
Q ss_pred HHHHHHHHHHHHcCCCCCCCceEEEEEecCCC-ChHHHHHHHHHHHh-cCcEEEEcCCCc-hHHHHHHHhhhhcCCcEEe
Q 008912 44 RIAMKAAQDDINSDPRVLGGRKLSITMHDAKF-NGFLSIMGALQFME-TDTLAIVGPQSA-VMAHVLSHLANELQVPLLS 120 (549)
Q Consensus 44 ~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~-~~~~a~~~~~~l~~-~~v~aiiGp~~s-~~~~~va~~~~~~~iP~Is 120 (549)
....+..++.+|+. + ++++..+... ++..+ +.+++.++ .+++++|-...+ .....+...+...++|++-
T Consensus 22 ~~~~~~~~~~l~~~-----~--~~vv~~~~~~~~~~~~-~~~~~~~~~~~~d~ii~~~~tf~~~~~~~~~~~~~~~Pvll 93 (452)
T cd00578 22 EEYAREVADLLNEL-----P--VEVVDKPEVTGTPDEA-RKAAEEFNEANCDGLIVWMHTFGPAKMWIAGLSELRKPVLL 93 (452)
T ss_pred HHHHHHHHHHHhcC-----C--ceEEecCcccCCHHHH-HHHHHHHhhcCCcEEEEcccccccHHHHHHHHHhcCCCEEE
Confidence 34444555566543 2 3555454433 44444 44444444 478888865444 3444566677889999998
Q ss_pred cccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHHcCCcEE
Q 008912 121 FTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSYFGWGEV 162 (549)
Q Consensus 121 ~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~~~W~~v 162 (549)
++..++...+ -..+..++.. -...+...+.++|-+..
T Consensus 94 ~a~~~~~~~~----~~~~~~~s~~-g~~~~~~~l~r~gi~~~ 130 (452)
T cd00578 94 LATQFNREIP----DFMNLNQSAC-GLREFGNILARLGIPFK 130 (452)
T ss_pred EeCCCCCCCC----chhhhhcchh-hhHHHHHHHHHcCCcee
Confidence 7654432211 1112222222 23445666777776654
No 485
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=26.84 E-value=3.4e+02 Score=21.91 Aligned_cols=25 Identities=16% Similarity=-0.117 Sum_probs=15.1
Q ss_pred CcHHHHHHHHHHHHHcCCcEEEEEE
Q 008912 142 NDLYLMSAIAEMVSYFGWGEVIAIF 166 (549)
Q Consensus 142 s~~~~~~ai~~~l~~~~W~~v~ii~ 166 (549)
+...|-..+-++....||.-+.++.
T Consensus 15 s~~~Q~~~~~~~a~~~g~~i~~~~~ 39 (137)
T cd00338 15 SLERQREALREYAARNGLEVVGEYE 39 (137)
T ss_pred CHHHHHHHHHHHHHHCCCEEEEEEE
Confidence 3345666677777777776554443
No 486
>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=26.82 E-value=93 Score=29.45 Aligned_cols=53 Identities=11% Similarity=0.140 Sum_probs=38.8
Q ss_pred EEecCCCChHHHHHH-HHHHHhc-CcEEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 69 TMHDAKFNGFLSIMG-ALQFMET-DTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 69 ~~~d~~~~~~~a~~~-~~~l~~~-~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
.+.|+=|+...--+. +.+|..+ .+..|||+..|+.+.-+..++...+.|..-.
T Consensus 186 ~~~nTIC~AT~~RQ~a~~~la~~vD~miVVGg~nSsNT~rL~ei~~~~~~~t~~I 240 (280)
T TIGR00216 186 PVFNTICYATQNRQDAVKELAPEVDLMIVIGGKNSSNTTRLYEIAEEHGPPSYLI 240 (280)
T ss_pred CCCCCcccccHHHHHHHHHHHhhCCEEEEECCCCCchHHHHHHHHHHhCCCEEEE
Confidence 355776655544444 4455444 7888899999999999999999998876654
No 487
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=26.82 E-value=1.1e+02 Score=29.11 Aligned_cols=52 Identities=6% Similarity=0.113 Sum_probs=37.2
Q ss_pred EecCCCChHHHHHHHH-HHHhc-CcEEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 70 MHDAKFNGFLSIMGAL-QFMET-DTLAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 70 ~~d~~~~~~~a~~~~~-~l~~~-~v~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
+.|+=|+...--+.+. +|..+ .+..|||+..|+.+.-++.++...+.|..-.
T Consensus 188 v~~TIC~aT~~RQ~a~~~La~~vD~miVVGg~~SsNT~rL~eia~~~~~~t~~I 241 (281)
T PRK12360 188 FFNTICSATKKRQESAKELSKEVDVMIVIGGKHSSNTQKLVKICEKNCPNTFHI 241 (281)
T ss_pred cCCCcchhhhhHHHHHHHHHHhCCEEEEecCCCCccHHHHHHHHHHHCCCEEEE
Confidence 3577665555445444 44433 7788889999999999999999988765543
No 488
>PRK10586 putative oxidoreductase; Provisional
Probab=26.69 E-value=3.2e+02 Score=27.13 Aligned_cols=75 Identities=11% Similarity=0.074 Sum_probs=45.0
Q ss_pred HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc
Q 008912 148 SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY 227 (549)
Q Consensus 148 ~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~ 227 (549)
.-+.++++.+|.+++.+|+....+. .....+.+.+++.|+.+.. +... ....++....+.. ..++|+||-.+.
T Consensus 23 ~~l~~~~~~~g~~~~lvv~g~~~~~-~~~~~~~~~l~~~~~~~~~---~~g~--~~~~~v~~l~~~~-~~~~d~iiavGG 95 (362)
T PRK10586 23 DHLHDFFTDEQLSRAVWIYGERAIA-AAQPYLPPAFELPGAKHIL---FRGH--CSESDVAQLAAAS-GDDRQVVIGVGG 95 (362)
T ss_pred HHHHHHHHhcCCCeEEEEEChHHHH-HHHHHHHHHHHHcCCeEEE---eCCC--CCHHHHHHHHHHh-ccCCCEEEEecC
Confidence 5578889999999998888544321 2234566677777765532 2211 2344555444433 356788887665
Q ss_pred hH
Q 008912 228 SR 229 (549)
Q Consensus 228 ~~ 229 (549)
+.
T Consensus 96 Gs 97 (362)
T PRK10586 96 GA 97 (362)
T ss_pred cH
Confidence 53
No 489
>PRK05954 precorrin-8X methylmutase; Provisional
Probab=26.62 E-value=1.5e+02 Score=26.52 Aligned_cols=67 Identities=12% Similarity=0.155 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc---CcEEEEc-CCCchHHHHHHHhhhhcCCc
Q 008912 42 VSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET---DTLAIVG-PQSAVMAHVLSHLANELQVP 117 (549)
Q Consensus 42 ~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~---~v~aiiG-p~~s~~~~~va~~~~~~~iP 117 (549)
+...|++.|.+++ ++- + + . -++...|+-..++++++ +...||| |..--.+....+.+...++|
T Consensus 108 Rs~aam~~a~~~~-------~~~-I-v-v---IGNAPTAL~~l~eli~~g~~~PalVIg~PVGFV~A~ESKe~L~~~~iP 174 (203)
T PRK05954 108 RTETGLLKCAQQY-------PEA-I-Y-V---IGNAPTALLALCQQIRAGRVKPSLVIGVPVGFVSVVEAKQALAQLDVP 174 (203)
T ss_pred HHHHHHHHHHHHC-------CCC-E-E-E---EeCCHHHHHHHHHHHHcCCCCCCEEEEECCcccCHHHHHHHHHhCCCC
Confidence 4456777777642 222 2 1 1 26778888888999876 4678887 44443333334444567899
Q ss_pred EEec
Q 008912 118 LLSF 121 (549)
Q Consensus 118 ~Is~ 121 (549)
+|+.
T Consensus 175 ~It~ 178 (203)
T PRK05954 175 QIRV 178 (203)
T ss_pred EEEE
Confidence 9975
No 490
>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=26.53 E-value=5.2e+02 Score=23.88 Aligned_cols=116 Identities=16% Similarity=0.150 Sum_probs=61.6
Q ss_pred CceEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhcCcEEEEcCCCchH
Q 008912 24 PEVLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMETDTLAIVGPQSAVM 103 (549)
Q Consensus 24 ~~~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~~v~aiiGp~~s~~ 103 (549)
++.=+||.+.+.....+.....+++-++++ .|.++...... +.....+.+.+++. +..+|+.+.....
T Consensus 129 ~g~~~i~~l~~~~~~~~~~r~~g~~~~~~~--------~g~~~~~~~~~---~~~~~~~~~~~~~~-~~dai~~~~d~~a 196 (281)
T cd06325 129 PDAKTVGVLYNPSEANSVVQVKELKKAAAK--------LGIEVVEATVS---SSNDVQQAAQSLAG-KVDAIYVPTDNTV 196 (281)
T ss_pred CCCcEEEEEeCCCCccHHHHHHHHHHHHHh--------CCCEEEEEecC---CHHHHHHHHHHhcc-cCCEEEEcCchhH
Confidence 356678888655433344445666666654 14444432221 22222334444443 4578887665543
Q ss_pred HHHHH---HhhhhcCCcEEecccCCCCCCCCCCCceEEccCCcHHHHHHHHHHHHH
Q 008912 104 AHVLS---HLANELQVPLLSFTALDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY 156 (549)
Q Consensus 104 ~~~va---~~~~~~~iP~Is~~~~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~ 156 (549)
...+. ......++|++++... .+. .|.+..+..+...+++..++++.+
T Consensus 197 ~~~~~~~~~~~~~~~ipvig~d~~--~~~---~~~l~tv~~~~~~~G~~a~~~l~~ 247 (281)
T cd06325 197 ASAMEAVVKVANEAKIPVIASDDD--MVK---RGGLATYGIDYYELGRQTGKMAAK 247 (281)
T ss_pred HhHHHHHHHHHHHcCCCEEEcCHH--HHh---CCceEEecCCHHHHHHHHHHHHHH
Confidence 33333 3222357999986432 121 255566666777777777777654
No 491
>PRK08286 cbiC cobalt-precorrin-8X methylmutase; Validated
Probab=26.49 E-value=1.5e+02 Score=26.76 Aligned_cols=47 Identities=23% Similarity=0.246 Sum_probs=32.4
Q ss_pred CChHHHHHHHHHHHhc---CcEEEEc-CCCchHHHHHHHhhhhcCCcEEec
Q 008912 75 FNGFLSIMGALQFMET---DTLAIVG-PQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 75 ~~~~~a~~~~~~l~~~---~v~aiiG-p~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
++...|+-..++++.+ +...||| |..--.+....+.+...++|+|+.
T Consensus 139 GNAPTAL~~l~~li~~g~~~PalVIG~PVGFV~AaEsKe~L~~~~iP~It~ 189 (214)
T PRK08286 139 GNAPTALFRLLEMVEHGQLQVDAVVGVPVGFVGAAESKEALTESDLPAIAA 189 (214)
T ss_pred eCcHHHHHHHHHHHHcCCCCCcEEEEeCCccccHHHHHHHHHhCCCCEEEE
Confidence 6788888899999876 4788888 444333333344445678999985
No 492
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=26.15 E-value=9.3e+02 Score=26.73 Aligned_cols=18 Identities=22% Similarity=0.279 Sum_probs=14.6
Q ss_pred eeeeHHHHHHHHHhCCCC
Q 008912 488 HGYCIDVFLAAVRLLPYA 505 (549)
Q Consensus 488 ~G~~idl~~~~~~~l~~~ 505 (549)
.+-|--.+.++++.|+|.
T Consensus 587 ~~g~~~~l~~~a~~l~~~ 604 (767)
T PRK14723 587 HDGCPTKLDAVADTLGFH 604 (767)
T ss_pred ECCcchHHHHHHhhcCcc
Confidence 566777889999998886
No 493
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=26.01 E-value=1.6e+02 Score=24.41 Aligned_cols=45 Identities=16% Similarity=0.198 Sum_probs=0.0
Q ss_pred HHHHHHHHHhCCCCcCEEEEECCCCC-----CCCChHHHHHhHhcCcccEEe
Q 008912 492 IDVFLAAVRLLPYAVPYKFIPYGDGH-----KNPTYSELINQITTGVSRILT 538 (549)
Q Consensus 492 idl~~~~~~~l~~~~~~~~~~~~dg~-----~~g~~~gl~~~l~~~~~d~~~ 538 (549)
.+.+++.|+..|+. ..-+...+|. ..+.++.|+..+..|++|.++
T Consensus 24 ~~~l~~~a~~~g~~--i~~~~~D~~~SG~~~~Rp~l~~ll~~~~~g~vd~vv 73 (140)
T cd03770 24 KAILEEYAKENGLE--NIRHYIDDGFSGTTFDRPGFNRMIEDIEAGKIDIVI 73 (140)
T ss_pred HHHHHHHHHHCCCE--EEEEEEcCCCcCCcCCCHHHHHHHHHHHcCCCCEEE
No 494
>PRK05575 cbiC precorrin-8X methylmutase; Validated
Probab=25.66 E-value=1.6e+02 Score=26.36 Aligned_cols=47 Identities=15% Similarity=0.189 Sum_probs=32.0
Q ss_pred CChHHHHHHHHHHHhc---CcEEEEc-CCCchHHHHHHHhhhhcCCcEEec
Q 008912 75 FNGFLSIMGALQFMET---DTLAIVG-PQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 75 ~~~~~a~~~~~~l~~~---~v~aiiG-p~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
++...|+...++++.+ +...||| |..--.+....+.+...++|+|+.
T Consensus 133 GNAPTAL~~l~~li~~g~~~PalVIG~PVGFV~A~ESKe~L~~~~vP~It~ 183 (204)
T PRK05575 133 GNAPTALYKLKELIKEGKANPKFIIAVPVGFVGAAESKEELEKLDIPYITV 183 (204)
T ss_pred eCcHHHHHHHHHHHHcCCCCCCEEEEeCCccccHHHHHHHHHhCCCCEEEE
Confidence 6778888888998876 4678888 444333333444555678999975
No 495
>PF00763 THF_DHG_CYH: Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; InterPro: IPR020630 Enzymes that participate in the transfer of one-carbon units require the coenzyme tetrahydrofolate (THF). Various reactions generate one-carbon derivatives of THF, which can be interconverted between different oxidation states by methylene-THF dehydrogenase (1.5.1.5 from EC), methenyl-THF cyclohydrolase (3.5.4.9 from EC) and formyl-THF synthetase (6.3.4.3 from EC) [, ]. The dehydrogenase and cyclohydrolase activities are expressed by a variety of multifunctional enzymes, including the tri-functional eukaryotic C1-tetrahydrofolate synthase []; a bifunctional eukaryotic mitochondrial protein; and the bifunctional Escherichia coli folD protein [, ]. Methylene-tetrahydrofolate dehydrogenase and methenyltetrahydrofolate cyclo-hydrolase share an overlapping active site [], and as such are usually located together in proteins, acting in tandem on the carbon-nitrogen bonds of substrates other than peptide bonds. This entry represents the N-terminal catalytic domain of these enzymes. ; GO: 0003824 catalytic activity, 0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity, 0009396 folic acid-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 2C2X_B 2C2Y_A 1EDZ_A 1EE9_A 4A26_B 3NGL_C 3NGX_A 1B0A_A 1DIA_A 1A4I_B ....
Probab=25.62 E-value=2.7e+02 Score=22.29 Aligned_cols=66 Identities=15% Similarity=0.151 Sum_probs=41.2
Q ss_pred cEEEEEEec-CCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHhc-CCCeEEEEEcch
Q 008912 160 GEVIAIFND-DDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVRM-MEARVIVVHGYS 228 (549)
Q Consensus 160 ~~v~ii~~~-~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~-~~~~viil~~~~ 228 (549)
-+.++|..+ ++.+....+.....+++.|+.+.... ++.. .+..++...++++.+ ...+.|++....
T Consensus 30 P~Laii~vg~d~~S~~Y~~~k~k~~~~~Gi~~~~~~-l~~~--~~~~el~~~i~~lN~D~~V~GIlvq~PL 97 (117)
T PF00763_consen 30 PKLAIILVGDDPASISYVRSKQKAAEKLGIEFELIE-LPED--ISEEELLELIEKLNEDPSVHGILVQLPL 97 (117)
T ss_dssp -EEEEEEES--HHHHHHHHHHHHHHHHHT-EEEEEE-E-TT--SSHHHHHHHHHHHHH-TT-SEEEEESSS
T ss_pred cEEEEEecCCChhHHHHHHHHHHHHHHcCCceEEEE-CCCC--cCHHHHHHHHHHHhCCCCCCEEEEcCCC
Confidence 356655554 44445566777788888999877654 4544 457778888888865 566778876543
No 496
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=25.31 E-value=7.4e+02 Score=25.27 Aligned_cols=89 Identities=16% Similarity=0.101 Sum_probs=50.0
Q ss_pred eEEEEEEeccCCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCC-hHHHHHHHHHHHhc---CcEEEE-cCCC
Q 008912 26 VLNVGAIFSFGTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFN-GFLSIMGALQFMET---DTLAIV-GPQS 100 (549)
Q Consensus 26 ~i~IG~l~~~~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~-~~~a~~~~~~l~~~---~v~aii-Gp~~ 100 (549)
+-+||++.+.++ .|+..-+..++... |+..+.+...-.+++ ....+..+.+.++. .|..|+ |+.+
T Consensus 135 p~~I~viTs~~g-------Aa~~D~~~~~~~r~---p~~~~~~~~~~vQG~~A~~~i~~al~~~~~~~~Dviii~RGGGS 204 (438)
T PRK00286 135 PKRIGVITSPTG-------AAIRDILTVLRRRF---PLVEVIIYPTLVQGEGAAASIVAAIERANARGEDVLIVARGGGS 204 (438)
T ss_pred CCEEEEEeCCcc-------HHHHHHHHHHHhcC---CCCeEEEecCcCcCccHHHHHHHHHHHhcCCCCCEEEEecCCCC
Confidence 778999999875 24555566666653 555555544444443 22333333344443 333333 3333
Q ss_pred ch-----HHHHHHHhhhhcCCcEEecccC
Q 008912 101 AV-----MAHVLSHLANELQVPLLSFTAL 124 (549)
Q Consensus 101 s~-----~~~~va~~~~~~~iP~Is~~~~ 124 (549)
-. ....++...-...+|+||--+.
T Consensus 205 ~eDL~~Fn~e~v~~ai~~~~~Pvis~IGH 233 (438)
T PRK00286 205 LEDLWAFNDEAVARAIAASRIPVISAVGH 233 (438)
T ss_pred HHHhhccCcHHHHHHHHcCCCCEEEeccC
Confidence 22 2345677777789999985443
No 497
>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=25.21 E-value=4e+02 Score=24.60 Aligned_cols=70 Identities=9% Similarity=-0.020 Sum_probs=39.0
Q ss_pred CCcccchHHHHHHHHhhc-----CeEEEEEEccCCCCCCChhhHHHHHHHHhcCCCeEEEEEcc-hHHHHHHHHHHHHcC
Q 008912 169 DDQGRNGVTALGDKLAEI-----RCKISYKSALPPDQSVTETDVRNELVKVRMMEARVIVVHGY-SRTGLMVFDVAQRLG 242 (549)
Q Consensus 169 ~~~g~~~~~~l~~~~~~~-----g~~v~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~viil~~~-~~~~~~il~~a~~~g 242 (549)
+.|.....+.+.+.+++. |+.+.....- .........++.+...+.+.||+... .......++.+.+.|
T Consensus 11 ~~f~~~~~~gi~~~a~~~~~~~~g~~~~~~~~~-----~~~~~~~~~~~~l~~~~vDgiii~~~~~~~~~~~i~~~~~~g 85 (274)
T cd06311 11 HGWTAGIVWHAQAAAKKLEAAYPDVEFILVTAS-----NDTEQQNAQQDLLINRKIDALVILPFESAPLTQPVAKAKKAG 85 (274)
T ss_pred CcHHHHHHHHHHHHHHHhhhhCCCeEEEEEcCC-----CCHHHHHHHHHHHHHcCCCEEEEeCCCchhhHHHHHHHHHCC
Confidence 345555566777777665 4555443211 12333445566666667787777643 333445666776666
Q ss_pred C
Q 008912 243 M 243 (549)
Q Consensus 243 ~ 243 (549)
.
T Consensus 86 I 86 (274)
T cd06311 86 I 86 (274)
T ss_pred C
Confidence 4
No 498
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=24.98 E-value=82 Score=28.30 Aligned_cols=29 Identities=21% Similarity=0.395 Sum_probs=25.1
Q ss_pred EEEEcCCCchHHHHHHHhhhhcCCcEEec
Q 008912 93 LAIVGPQSAVMAHVLSHLANELQVPLLSF 121 (549)
Q Consensus 93 ~aiiGp~~s~~~~~va~~~~~~~iP~Is~ 121 (549)
..|+||..|+-+.....++..+++++|+.
T Consensus 2 I~i~G~pGsGKsT~a~~La~~~g~~~is~ 30 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAEKYGLPHIST 30 (210)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCCeeeh
Confidence 46899999988888888899999999984
No 499
>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=24.88 E-value=5.6e+02 Score=23.74 Aligned_cols=121 Identities=14% Similarity=0.034 Sum_probs=61.5
Q ss_pred EEEEEEecc-CCCCchHHHHHHHHHHHHHHcCCCCCCCceEEEEEecCCCChHHHHHHHHHHHhc--CcEEEEcCCCchH
Q 008912 27 LNVGAIFSF-GTVNGQVSRIAMKAAQDDINSDPRVLGGRKLSITMHDAKFNGFLSIMGALQFMET--DTLAIVGPQSAVM 103 (549)
Q Consensus 27 i~IG~l~~~-~~~~g~~~~~a~~~Av~~iN~~~~il~g~~l~~~~~d~~~~~~~a~~~~~~l~~~--~v~aiiGp~~s~~ 103 (549)
=+||.+... +.........+++-|+++.+ + +..+.......+...+.+.+.+++.+ ++.||+...+ ..
T Consensus 119 ~~I~~i~~~~~~~~~~~R~~gf~~a~~~~g----~----~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d-~~ 189 (269)
T cd06287 119 RQIALIVGSARRNSYLEAEAAYRAFAAEHG----M----PPVVLRVDEAGGEEAGYAACAQLLAQHPDLDALCVPVD-AF 189 (269)
T ss_pred CcEEEEeCCcccccHHHHHHHHHHHHHHcC----C----CcceeEecCCCChHHHHHHHHHHHhCCCCCCEEEEcCc-HH
Confidence 356666432 22223344567777776522 1 11111112223344555666677654 5789997544 44
Q ss_pred HHHHHHhhhhcC--CcE-Eeccc-CCCCCCCCCCCceEEccCCcHHHHHHHHHHHHH
Q 008912 104 AHVLSHLANELQ--VPL-LSFTA-LDPTLSPLQYPFFVQTAPNDLYLMSAIAEMVSY 156 (549)
Q Consensus 104 ~~~va~~~~~~~--iP~-Is~~~-~~~~ls~~~~~~~~r~~ps~~~~~~ai~~~l~~ 156 (549)
+..+...+...+ +|- |+..+ .+...+.-..|.+..+..+...+++..++++..
T Consensus 190 A~gvl~al~~~gl~vP~dvsvig~~d~~~~~~~~p~ltti~~~~~~~g~~A~~~l~~ 246 (269)
T cd06287 190 AVGAVRAATELGRAVPDQLRVVTRYDGLRARTSEPPLTAVDLHLDEVAEQAVDLLFA 246 (269)
T ss_pred HHHHHHHHHHcCCCCCCceEEEeccCchhhccCCCCcccccCCHHHHHHHHHHHHHH
Confidence 444555555554 452 33222 333233223455666667777788877776543
No 500
>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=24.43 E-value=3.7e+02 Score=21.52 Aligned_cols=97 Identities=13% Similarity=0.042 Sum_probs=50.6
Q ss_pred EccCCcHH-HH-HHHHHHHHHcCCcEEEEEEecCCcccchHHHHHHHHhhcCeEEEEEEccCCCCCCChhhHHHHHHHHh
Q 008912 138 QTAPNDLY-LM-SAIAEMVSYFGWGEVIAIFNDDDQGRNGVTALGDKLAEIRCKISYKSALPPDQSVTETDVRNELVKVR 215 (549)
Q Consensus 138 r~~ps~~~-~~-~ai~~~l~~~~W~~v~ii~~~~~~g~~~~~~l~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~l~~l~ 215 (549)
-+.+.+.+ .+ ..+..+++..||+-+. +-.+. ..+.+.+.+.+.+..+........ .......+.++.++
T Consensus 5 ~~~~gd~H~lG~~~~~~~l~~~G~~vi~-lG~~v-----p~e~~~~~a~~~~~d~V~iS~~~~---~~~~~~~~~~~~L~ 75 (122)
T cd02071 5 AKPGLDGHDRGAKVIARALRDAGFEVIY-TGLRQ-----TPEEIVEAAIQEDVDVIGLSSLSG---GHMTLFPEVIELLR 75 (122)
T ss_pred EecCCChhHHHHHHHHHHHHHCCCEEEE-CCCCC-----CHHHHHHHHHHcCCCEEEEcccch---hhHHHHHHHHHHHH
Confidence 34444444 22 3344556778887553 22222 355677777776665444322221 23556777888888
Q ss_pred cCCC-eEEEEEcchHHHHHHHHHHHHcCCC
Q 008912 216 MMEA-RVIVVHGYSRTGLMVFDVAQRLGMM 244 (549)
Q Consensus 216 ~~~~-~viil~~~~~~~~~il~~a~~~g~~ 244 (549)
+... ++.++.+.. ........+.++|+.
T Consensus 76 ~~~~~~i~i~~GG~-~~~~~~~~~~~~G~d 104 (122)
T cd02071 76 ELGAGDILVVGGGI-IPPEDYELLKEMGVA 104 (122)
T ss_pred hcCCCCCEEEEECC-CCHHHHHHHHHCCCC
Confidence 7744 444444421 122334566677754
Done!