Query psy18065
Match_columns 149
No_of_seqs 113 out of 1031
Neff 9.8
Searched_HMMs 46136
Date Fri Aug 16 21:44:40 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy18065.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/18065hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 5.9E-31 1.3E-35 198.0 14.1 144 2-149 52-199 (372)
2 cd06390 PBP1_iGluR_AMPA_GluR1 100.0 6E-31 1.3E-35 197.8 14.0 144 2-149 45-191 (364)
3 cd06394 PBP1_iGluR_Kainate_KA1 100.0 2.7E-29 5.9E-34 186.5 16.5 148 2-149 54-206 (333)
4 cd06392 PBP1_iGluR_delta_1 N-t 100.0 1.4E-29 3.1E-34 191.6 15.0 147 2-149 51-219 (400)
5 cd06383 PBP1_iGluR_AMPA_Like N 100.0 8.1E-29 1.8E-33 186.5 16.3 146 2-149 54-205 (368)
6 cd06389 PBP1_iGluR_AMPA_GluR2 100.0 1.2E-28 2.5E-33 185.9 14.6 144 2-149 46-196 (370)
7 cd06388 PBP1_iGluR_AMPA_GluR4 100.0 8.5E-29 1.9E-33 186.6 13.5 144 2-149 52-198 (371)
8 cd06393 PBP1_iGluR_Kainate_Glu 100.0 5.2E-27 1.1E-31 177.6 15.3 148 2-149 61-212 (384)
9 cd06380 PBP1_iGluR_AMPA N-term 99.9 1.4E-26 3E-31 175.0 14.7 145 2-149 51-203 (382)
10 cd06377 PBP1_iGluR_NMDA_NR3 N- 99.9 2.6E-25 5.7E-30 166.7 16.2 148 2-149 69-231 (382)
11 cd06391 PBP1_iGluR_delta_2 N-t 99.9 3.1E-25 6.6E-30 168.7 15.3 147 2-149 51-219 (400)
12 cd06375 PBP1_mGluR_groupII Lig 99.9 1E-25 2.2E-30 174.0 11.8 140 10-149 102-252 (458)
13 cd06351 PBP1_iGluR_N_LIVBP_lik 99.9 1.5E-24 3.2E-29 160.1 16.7 148 2-149 51-206 (328)
14 cd06361 PBP1_GPC6A_like Ligand 99.9 3.7E-25 7.9E-30 168.5 13.7 138 12-149 102-254 (403)
15 cd06365 PBP1_Pheromone_recepto 99.9 1.2E-25 2.6E-30 174.1 11.1 143 5-148 96-250 (469)
16 cd06368 PBP1_iGluR_non_NMDA_li 99.9 1.5E-24 3.3E-29 160.4 16.0 148 2-149 51-200 (324)
17 cd06381 PBP1_iGluR_delta_like 99.9 1.4E-24 3.1E-29 163.2 15.2 147 2-149 51-219 (363)
18 cd06386 PBP1_NPR_C_like Ligand 99.9 9E-25 2E-29 165.6 14.3 137 12-149 66-214 (387)
19 cd06382 PBP1_iGluR_Kainate N-t 99.9 2.7E-24 5.8E-29 159.5 16.0 148 2-149 52-201 (327)
20 cd06367 PBP1_iGluR_NMDA N-term 99.9 1.5E-24 3.3E-29 162.9 14.8 148 2-149 51-214 (362)
21 cd06378 PBP1_iGluR_NMDA_NR2 N- 99.9 7.7E-24 1.7E-28 159.2 15.2 148 2-149 50-213 (362)
22 cd06364 PBP1_CaSR Ligand-bindi 99.9 1.6E-24 3.6E-29 169.2 11.7 139 11-149 116-264 (510)
23 cd06376 PBP1_mGluR_groupIII Li 99.9 1.5E-24 3.3E-29 167.7 11.1 140 10-149 100-251 (463)
24 cd06379 PBP1_iGluR_NMDA_NR1 N- 99.9 2.7E-23 5.8E-28 157.0 15.4 148 2-149 68-233 (377)
25 cd06374 PBP1_mGluR_groupI Liga 99.9 5.9E-24 1.3E-28 164.8 12.0 143 7-149 111-265 (472)
26 cd06362 PBP1_mGluR Ligand bind 99.9 1.2E-23 2.5E-28 162.3 11.9 140 10-149 100-250 (452)
27 cd06350 PBP1_GPCR_family_C_lik 99.9 1.2E-22 2.7E-27 151.4 13.9 148 2-149 66-237 (348)
28 cd06373 PBP1_NPR_like Ligand b 99.9 2.1E-22 4.6E-27 152.9 15.3 143 6-149 66-221 (396)
29 cd06269 PBP1_glutamate_recepto 99.9 1.8E-22 3.9E-27 146.3 14.3 148 2-149 58-215 (298)
30 cd06363 PBP1_Taste_receptor Li 99.9 3E-23 6.4E-28 158.4 10.4 139 11-149 105-254 (410)
31 cd06371 PBP1_sensory_GC_DEF_li 99.9 1.9E-22 4.1E-27 152.7 13.3 144 3-149 54-213 (382)
32 cd06385 PBP1_NPR_A Ligand-bind 99.9 4E-22 8.7E-27 151.9 13.7 138 11-149 72-222 (405)
33 cd06366 PBP1_GABAb_receptor Li 99.9 8.4E-22 1.8E-26 147.2 14.3 148 2-149 54-212 (350)
34 PF01094 ANF_receptor: Recepto 99.9 6.2E-22 1.4E-26 146.9 11.9 146 4-149 42-199 (348)
35 cd06370 PBP1_Speract_GC_like L 99.9 1.5E-21 3.2E-26 148.8 14.2 145 2-149 58-217 (404)
36 cd06372 PBP1_GC_G_like Ligand- 99.9 6.8E-21 1.5E-25 144.5 15.7 147 2-149 56-216 (391)
37 cd06384 PBP1_NPR_B Ligand-bind 99.9 6.6E-21 1.4E-25 145.0 13.2 138 11-149 71-222 (399)
38 KOG1056|consensus 99.9 5.6E-21 1.2E-25 153.1 11.4 138 12-149 124-272 (878)
39 cd06352 PBP1_NPR_GC_like Ligan 99.8 3.7E-20 8E-25 140.2 14.5 147 2-149 56-214 (389)
40 KOG1054|consensus 99.8 1.9E-19 4.2E-24 138.0 10.7 143 2-148 79-225 (897)
41 cd06346 PBP1_ABC_ligand_bindin 99.8 1.4E-18 3.1E-23 128.2 14.1 148 2-149 55-212 (312)
42 cd06338 PBP1_ABC_ligand_bindin 99.8 1.6E-18 3.5E-23 129.2 14.4 147 3-149 60-216 (345)
43 cd06345 PBP1_ABC_ligand_bindin 99.8 2.5E-18 5.5E-23 128.3 14.2 148 2-149 55-219 (344)
44 cd06342 PBP1_ABC_LIVBP_like Ty 99.8 3.7E-18 8E-23 126.5 14.6 145 5-149 58-210 (334)
45 cd06340 PBP1_ABC_ligand_bindin 99.8 2.1E-18 4.6E-23 129.0 13.1 148 2-149 58-219 (347)
46 cd06347 PBP1_ABC_ligand_bindin 99.8 2.6E-17 5.7E-22 121.9 14.1 147 3-149 56-211 (334)
47 cd06348 PBP1_ABC_ligand_bindin 99.7 6.5E-17 1.4E-21 120.7 14.1 148 2-149 55-212 (344)
48 cd06335 PBP1_ABC_ligand_bindin 99.7 2.8E-16 6E-21 117.6 14.3 145 5-149 58-213 (347)
49 cd06330 PBP1_Arsenic_SBP_like 99.7 1.5E-16 3.4E-21 118.7 12.3 147 3-149 56-215 (346)
50 cd06331 PBP1_AmiC_like Type I 99.7 2.4E-16 5.2E-21 117.2 13.1 148 2-149 55-207 (333)
51 cd06329 PBP1_SBP_like_3 Peripl 99.7 2.7E-16 5.8E-21 117.4 13.3 148 2-149 55-221 (342)
52 cd04509 PBP1_ABC_transporter_G 99.7 5.8E-16 1.3E-20 112.1 14.5 146 4-149 57-211 (299)
53 cd06343 PBP1_ABC_ligand_bindin 99.7 3.9E-16 8.5E-21 117.2 13.7 146 4-149 64-219 (362)
54 cd06349 PBP1_ABC_ligand_bindin 99.7 6.5E-16 1.4E-20 115.1 14.1 146 4-149 57-210 (340)
55 cd06336 PBP1_ABC_ligand_bindin 99.7 5.6E-16 1.2E-20 115.9 13.0 146 3-149 60-214 (347)
56 cd06344 PBP1_ABC_ligand_bindin 99.7 1.1E-15 2.5E-20 113.6 14.5 142 7-148 59-210 (332)
57 PRK15404 leucine ABC transport 99.7 1.4E-15 3.1E-20 114.8 14.1 145 5-149 84-236 (369)
58 cd06327 PBP1_SBP_like_1 Peripl 99.7 3E-15 6.5E-20 111.4 12.7 146 4-149 56-210 (334)
59 cd06359 PBP1_Nba_like Type I p 99.6 1.6E-14 3.5E-19 107.4 14.3 140 6-148 57-205 (333)
60 cd06360 PBP1_alkylbenzenes_lik 99.6 2.8E-14 6E-19 105.9 14.7 146 4-149 55-209 (336)
61 cd06268 PBP1_ABC_transporter_L 99.6 3.1E-14 6.7E-19 103.0 14.3 145 4-148 57-209 (298)
62 cd06355 PBP1_FmdD_like Peripla 99.6 2.4E-14 5.2E-19 107.3 13.0 146 4-149 57-208 (348)
63 cd06358 PBP1_NHase Type I peri 99.6 2.6E-14 5.6E-19 106.3 12.7 143 5-148 58-206 (333)
64 cd06339 PBP1_YraM_LppC_lipopro 99.6 2.7E-14 5.9E-19 106.6 12.3 145 3-147 49-219 (336)
65 cd06328 PBP1_SBP_like_2 Peripl 99.6 1.8E-13 3.8E-18 102.0 15.2 143 5-148 59-211 (333)
66 cd06326 PBP1_STKc_like Type I 99.6 1.7E-13 3.6E-18 101.8 15.0 145 4-148 58-210 (336)
67 cd06334 PBP1_ABC_ligand_bindin 99.6 8E-14 1.7E-18 104.7 13.3 145 4-149 57-215 (351)
68 COG0683 LivK ABC-type branched 99.6 9.8E-14 2.1E-18 104.8 13.3 146 4-149 68-223 (366)
69 cd06337 PBP1_ABC_ligand_bindin 99.6 2E-13 4.3E-18 102.6 13.9 147 3-149 58-223 (357)
70 cd06332 PBP1_aromatic_compound 99.5 6.8E-13 1.5E-17 98.3 15.0 139 7-148 58-205 (333)
71 cd06333 PBP1_ABC-type_HAAT_lik 99.5 5.9E-13 1.3E-17 98.1 14.5 142 7-148 59-207 (312)
72 TIGR03669 urea_ABC_arch urea A 99.5 4.1E-13 8.9E-18 101.7 13.1 146 3-149 57-208 (374)
73 PF13458 Peripla_BP_6: Peripla 99.5 1.2E-13 2.5E-18 102.7 10.0 143 6-148 61-209 (343)
74 cd06356 PBP1_Amide_Urea_BP_lik 99.5 4.6E-13 1E-17 99.8 13.1 144 4-148 57-206 (334)
75 cd06369 PBP1_GC_C_enterotoxin_ 99.5 9.6E-14 2.1E-18 103.3 8.9 133 14-148 82-227 (380)
76 TIGR03407 urea_ABC_UrtA urea A 99.5 9.1E-13 2E-17 99.2 12.9 145 4-148 58-208 (359)
77 cd06357 PBP1_AmiC Periplasmic 99.4 2.1E-11 4.6E-16 91.8 13.7 146 4-149 57-209 (360)
78 TIGR03863 PQQ_ABC_bind ABC tra 99.3 1.3E-11 2.8E-16 92.7 10.0 134 4-137 50-195 (347)
79 cd06341 PBP1_ABC_ligand_bindin 99.3 9.5E-11 2.1E-15 87.4 12.3 144 5-149 58-208 (341)
80 KOG4440|consensus 99.2 7.3E-11 1.6E-15 92.0 8.5 145 3-149 84-244 (993)
81 cd01391 Periplasmic_Binding_Pr 99.2 1.7E-09 3.8E-14 76.4 14.3 141 7-148 52-200 (269)
82 KOG1055|consensus 99.1 9.2E-11 2E-15 93.4 5.5 145 4-149 102-253 (865)
83 KOG1053|consensus 98.7 1.2E-06 2.6E-11 71.4 15.0 146 4-149 90-251 (1258)
84 PF13433 Peripla_BP_5: Peripla 98.2 9.4E-06 2E-10 61.0 8.1 143 6-148 60-208 (363)
85 PF04348 LppC: LppC putative l 97.7 0.00011 2.4E-09 58.4 5.9 137 9-145 274-415 (536)
86 cd01537 PBP1_Repressors_Sugar_ 97.6 0.002 4.4E-08 45.5 11.0 122 8-131 50-178 (264)
87 cd06320 PBP1_allose_binding Pe 97.5 0.0066 1.4E-07 43.7 12.5 129 8-139 52-190 (275)
88 cd06300 PBP1_ABC_sugar_binding 97.5 0.0068 1.5E-07 43.5 12.4 137 8-147 55-201 (272)
89 cd06267 PBP1_LacI_sugar_bindin 97.4 0.008 1.7E-07 42.5 11.8 121 6-130 48-176 (264)
90 cd01536 PBP1_ABC_sugar_binding 97.3 0.022 4.7E-07 40.4 13.3 121 8-130 50-180 (267)
91 cd06282 PBP1_GntR_like_2 Ligan 96.9 0.023 5E-07 40.4 10.6 97 7-107 49-149 (266)
92 cd06273 PBP1_GntR_like_1 This 96.4 0.19 4.1E-06 35.8 12.3 95 8-106 50-148 (268)
93 cd06325 PBP1_ABC_uncharacteriz 96.3 0.12 2.6E-06 37.1 10.9 122 8-135 55-190 (281)
94 cd06319 PBP1_ABC_sugar_binding 96.2 0.24 5.1E-06 35.5 12.1 98 9-108 51-158 (277)
95 cd01545 PBP1_SalR Ligand-bindi 96.2 0.26 5.6E-06 35.1 12.2 99 6-107 48-150 (270)
96 cd06323 PBP1_ribose_binding Pe 95.9 0.4 8.6E-06 34.0 12.6 98 9-108 51-155 (268)
97 cd06278 PBP1_LacI_like_2 Ligan 95.6 0.41 8.9E-06 33.9 11.1 96 8-107 49-147 (266)
98 cd06309 PBP1_YtfQ_like Peripla 95.6 0.53 1.1E-05 33.7 13.2 97 8-104 50-153 (273)
99 cd06317 PBP1_ABC_sugar_binding 95.6 0.53 1.2E-05 33.6 12.1 97 9-105 52-155 (275)
100 cd06298 PBP1_CcpA_like Ligand- 95.0 0.84 1.8E-05 32.4 12.8 135 7-146 49-193 (268)
101 cd06312 PBP1_ABC_sugar_binding 95.0 0.89 1.9E-05 32.5 12.1 99 9-107 53-157 (271)
102 cd06301 PBP1_rhizopine_binding 94.9 0.9 2E-05 32.4 12.9 96 9-105 52-153 (272)
103 cd06305 PBP1_methylthioribose_ 94.9 0.89 1.9E-05 32.4 10.9 95 8-105 50-149 (273)
104 cd06284 PBP1_LacI_like_6 Ligan 94.5 1.1 2.5E-05 31.7 11.3 94 8-106 50-146 (267)
105 PRK10014 DNA-binding transcrip 94.5 1.4 3.1E-05 32.7 11.8 96 9-107 116-214 (342)
106 PRK10653 D-ribose transporter 94.2 1.5 3.3E-05 31.9 13.3 129 7-137 76-213 (295)
107 TIGR01481 ccpA catabolite cont 94.2 1.7 3.6E-05 32.1 12.2 135 8-147 110-253 (329)
108 cd06275 PBP1_PurR Ligand-bindi 94.0 1.5 3.3E-05 31.1 11.6 98 8-108 50-150 (269)
109 cd06289 PBP1_MalI_like Ligand- 93.9 1.6 3.4E-05 31.0 11.6 95 8-105 50-147 (268)
110 cd06310 PBP1_ABC_sugar_binding 93.9 1.6 3.6E-05 31.1 13.1 138 6-146 50-199 (273)
111 cd06313 PBP1_ABC_sugar_binding 93.7 1.8 4E-05 31.1 12.8 97 9-105 51-153 (272)
112 PF13407 Peripla_BP_4: Peripla 93.6 1.4 3E-05 31.2 9.5 133 8-141 50-193 (257)
113 PF00532 Peripla_BP_1: Peripla 93.0 1.9 4.1E-05 31.5 9.6 133 9-145 52-195 (279)
114 cd06322 PBP1_ABC_sugar_binding 93.0 2.4 5.1E-05 30.1 12.9 98 8-108 50-154 (267)
115 cd06296 PBP1_CatR_like Ligand- 92.6 2.7 5.8E-05 29.9 10.1 94 8-106 50-148 (270)
116 TIGR02990 ectoine_eutA ectoine 92.6 0.76 1.7E-05 33.0 6.8 81 65-147 107-199 (239)
117 cd06271 PBP1_AglR_RafR_like Li 92.1 3.1 6.6E-05 29.4 9.9 91 12-106 58-151 (268)
118 cd06311 PBP1_ABC_sugar_binding 91.9 3.4 7.4E-05 29.5 13.1 98 9-108 56-159 (274)
119 COG2984 ABC-type uncharacteriz 91.9 4.3 9.2E-05 30.5 11.8 128 8-139 83-222 (322)
120 PRK11303 DNA-binding transcrip 91.7 4.1 8.9E-05 30.0 13.3 95 9-107 113-211 (328)
121 COG1609 PurR Transcriptional r 91.4 4.9 0.00011 30.3 12.3 135 9-147 110-254 (333)
122 cd01574 PBP1_LacI Ligand-bindi 91.3 3.8 8.3E-05 28.9 11.9 94 9-107 52-148 (264)
123 cd01542 PBP1_TreR_like Ligand- 91.3 3.8 8.3E-05 28.9 11.7 94 7-106 49-146 (259)
124 cd06281 PBP1_LacI_like_5 Ligan 91.2 4.1 8.8E-05 29.0 9.7 95 9-107 51-148 (269)
125 TIGR02417 fruct_sucro_rep D-fr 91.2 4.7 0.0001 29.7 12.4 95 9-107 112-210 (327)
126 PRK09756 PTS system N-acetylga 90.4 3.7 8E-05 27.6 8.0 81 65-148 17-98 (158)
127 cd06295 PBP1_CelR Ligand bindi 90.1 5.3 0.00011 28.5 10.6 91 11-106 62-156 (275)
128 cd06277 PBP1_LacI_like_1 Ligan 90.1 5.3 0.00011 28.4 10.2 92 10-106 55-149 (268)
129 cd06270 PBP1_GalS_like Ligand 90.0 5.3 0.00011 28.4 10.8 96 8-107 50-148 (268)
130 cd06308 PBP1_sensor_kinase_lik 90.0 5.4 0.00012 28.4 12.8 98 8-108 51-156 (270)
131 cd06299 PBP1_LacI_like_13 Liga 89.9 5.4 0.00012 28.2 11.6 94 8-105 50-146 (265)
132 cd06280 PBP1_LacI_like_4 Ligan 89.2 6.2 0.00013 28.0 11.2 71 34-107 74-146 (263)
133 PRK11425 PTS system N-acetylga 89.0 3.9 8.5E-05 27.4 7.3 81 65-148 15-95 (157)
134 cd06288 PBP1_sucrose_transcrip 88.9 6.5 0.00014 27.8 12.5 94 8-106 51-147 (269)
135 cd06291 PBP1_Qymf_like Ligand 88.1 7.4 0.00016 27.5 10.6 71 33-107 71-145 (265)
136 TIGR00854 pts-sorbose PTS syst 88.0 4.2 9.1E-05 27.1 6.9 80 66-147 14-93 (151)
137 cd06290 PBP1_LacI_like_9 Ligan 87.7 7.8 0.00017 27.4 13.2 94 8-106 50-146 (265)
138 cd06294 PBP1_ycjW_transcriptio 87.6 8 0.00017 27.3 10.5 91 12-106 59-153 (270)
139 cd00001 PTS_IIB_man PTS_IIB, P 87.3 4.8 0.00011 26.8 6.9 81 65-147 12-92 (151)
140 cd06293 PBP1_LacI_like_11 Liga 86.8 9.1 0.0002 27.2 13.4 95 8-106 50-147 (269)
141 cd06279 PBP1_LacI_like_3 Ligan 86.7 9.8 0.00021 27.4 10.8 74 8-86 51-124 (283)
142 COG0563 Adk Adenylate kinase a 85.9 0.88 1.9E-05 31.2 2.8 30 15-44 3-32 (178)
143 cd06274 PBP1_FruR Ligand bindi 85.7 10 0.00023 26.8 11.5 95 8-106 50-147 (264)
144 PRK10703 DNA-binding transcrip 85.0 13 0.00029 27.5 12.1 99 8-108 110-211 (341)
145 cd06272 PBP1_hexuronate_repres 84.6 12 0.00025 26.5 11.3 94 8-106 46-142 (261)
146 PRK10423 transcriptional repre 84.6 14 0.0003 27.2 12.4 69 36-107 135-206 (327)
147 PF03830 PTSIIB_sorb: PTS syst 84.2 2 4.3E-05 28.6 3.8 81 66-148 14-94 (151)
148 cd01575 PBP1_GntR Ligand-bindi 84.1 12 0.00027 26.3 12.0 94 9-106 51-147 (268)
149 PRK10727 DNA-binding transcrip 84.1 15 0.00033 27.3 12.6 94 9-107 111-208 (343)
150 cd06286 PBP1_CcpB_like Ligand- 84.0 12 0.00027 26.3 10.6 95 7-107 49-146 (260)
151 PRK09526 lacI lac repressor; R 83.5 16 0.00034 27.1 11.5 93 8-107 115-213 (342)
152 cd06283 PBP1_RegR_EndR_KdgR_li 83.3 13 0.00029 26.1 11.6 93 9-105 51-147 (267)
153 cd01538 PBP1_ABC_xylose_bindin 83.1 15 0.00033 26.5 12.6 95 9-105 51-155 (288)
154 PF04392 ABC_sub_bind: ABC tra 82.8 16 0.00034 26.9 8.5 72 66-138 117-193 (294)
155 PLN02674 adenylate kinase 82.6 1.7 3.6E-05 31.4 3.2 67 13-79 32-137 (244)
156 cd01543 PBP1_XylR Ligand-bindi 82.0 16 0.00034 25.9 11.0 95 8-108 45-141 (265)
157 COG0426 FpaA Uncharacterized f 81.2 22 0.00048 27.6 8.8 72 65-138 233-306 (388)
158 PTZ00088 adenylate kinase 1; P 80.9 2.1 4.5E-05 30.6 3.2 31 15-45 9-39 (229)
159 TIGR01359 UMP_CMP_kin_fam UMP- 80.7 2.3 4.9E-05 28.7 3.2 31 14-44 1-31 (183)
160 PF00406 ADK: Adenylate kinase 80.6 1.1 2.4E-05 29.4 1.6 28 17-44 1-28 (151)
161 cd01541 PBP1_AraR Ligand-bindi 80.5 18 0.00039 25.7 11.0 96 7-106 49-151 (273)
162 cd06285 PBP1_LacI_like_7 Ligan 80.1 18 0.0004 25.5 12.2 94 8-107 50-146 (265)
163 cd06306 PBP1_TorT-like TorT-li 79.9 19 0.00041 25.6 13.6 98 8-108 52-158 (268)
164 PRK14530 adenylate kinase; Pro 79.3 2.5 5.3E-05 29.6 3.1 32 13-44 4-35 (215)
165 cd06287 PBP1_LacI_like_8 Ligan 79.3 21 0.00045 25.7 11.7 93 11-107 54-150 (269)
166 PRK14987 gluconate operon tran 79.1 23 0.0005 26.1 12.6 94 9-106 115-210 (331)
167 PF13207 AAA_17: AAA domain; P 79.0 2.1 4.6E-05 26.6 2.5 32 14-45 1-32 (121)
168 cd06321 PBP1_ABC_sugar_binding 78.9 20 0.00044 25.4 12.3 93 10-107 54-153 (271)
169 cd06324 PBP1_ABC_sugar_binding 78.7 23 0.0005 25.9 12.4 99 7-105 50-172 (305)
170 PRK10339 DNA-binding transcrip 78.4 24 0.00053 26.0 11.2 89 12-105 113-204 (327)
171 KOG3857|consensus 78.3 11 0.00024 28.9 6.3 87 51-137 39-135 (465)
172 TIGR01351 adk adenylate kinase 78.2 2.8 6.1E-05 29.2 3.1 30 15-44 2-31 (210)
173 PRK15088 PTS system mannose-sp 78.0 17 0.00037 27.4 7.3 81 65-147 176-256 (322)
174 COG1102 Cmk Cytidylate kinase 77.4 2.9 6.3E-05 28.4 2.8 32 14-45 2-33 (179)
175 cd02020 CMPK Cytidine monophos 75.4 3.8 8.3E-05 26.3 3.0 31 14-44 1-31 (147)
176 TIGR00646 MG010 DNA primase-re 72.8 16 0.00034 26.1 5.6 66 59-124 135-203 (218)
177 cd08170 GlyDH Glycerol dehydro 72.3 17 0.00036 27.6 6.2 70 68-138 13-86 (351)
178 PRK09423 gldA glycerol dehydro 71.8 37 0.0008 26.0 7.9 71 67-138 19-93 (366)
179 PRK14531 adenylate kinase; Pro 71.7 5.4 0.00012 27.1 3.1 31 14-44 4-34 (183)
180 PRK08118 topology modulation p 71.1 5.7 0.00012 26.7 3.1 31 14-44 3-33 (167)
181 PRK14722 flhF flagellar biosyn 70.9 36 0.00077 26.4 7.6 25 12-36 137-161 (374)
182 PF11492 Dicistro_VP4: Cricket 70.8 3 6.6E-05 22.9 1.4 42 23-78 14-56 (56)
183 COG1454 EutG Alcohol dehydroge 70.6 26 0.00056 27.2 6.8 71 67-137 18-94 (377)
184 PF07302 AroM: AroM protein; 70.4 31 0.00067 24.6 6.7 79 65-148 115-199 (221)
185 COG3107 LppC Putative lipoprot 70.3 21 0.00046 29.0 6.3 92 11-105 317-411 (604)
186 TIGR00288 conserved hypothetic 70.2 31 0.00066 23.3 9.1 79 68-148 70-148 (160)
187 PRK13054 lipid kinase; Reviewe 70.2 34 0.00073 25.3 7.3 59 80-138 5-65 (300)
188 CHL00200 trpA tryptophan synth 70.1 22 0.00048 26.0 6.1 130 15-147 20-165 (263)
189 PRK14723 flhF flagellar biosyn 70.1 20 0.00043 30.5 6.5 24 13-36 186-209 (767)
190 PRK14532 adenylate kinase; Pro 69.9 6.4 0.00014 26.7 3.2 30 15-44 3-32 (188)
191 PRK14528 adenylate kinase; Pro 69.4 6.6 0.00014 26.9 3.2 31 14-44 3-33 (186)
192 PHA02031 putative DnaG-like pr 69.3 11 0.00025 27.6 4.4 64 59-122 187-252 (266)
193 cd08551 Fe-ADH iron-containing 68.6 48 0.001 25.3 8.0 72 67-138 12-89 (370)
194 PRK00279 adk adenylate kinase; 68.3 7.1 0.00015 27.3 3.2 30 15-44 3-32 (215)
195 cd08550 GlyDH-like Glycerol_de 68.2 44 0.00096 25.3 7.7 71 67-138 12-86 (349)
196 TIGR01360 aden_kin_iso1 adenyl 68.0 6.3 0.00014 26.5 2.9 32 13-44 4-35 (188)
197 PRK14527 adenylate kinase; Pro 68.0 6.3 0.00014 27.0 2.8 32 13-44 7-38 (191)
198 cd08192 Fe-ADH7 Iron-containin 68.0 24 0.00052 27.0 6.2 71 67-137 13-89 (370)
199 cd01428 ADK Adenylate kinase ( 67.9 7 0.00015 26.5 3.1 30 15-44 2-31 (194)
200 PLN02200 adenylate kinase fami 67.8 6.8 0.00015 28.0 3.0 31 14-44 45-75 (234)
201 PRK15454 ethanol dehydrogenase 67.5 21 0.00045 27.7 5.8 72 67-138 38-115 (395)
202 PRK10624 L-1,2-propanediol oxi 67.2 25 0.00054 27.0 6.2 71 67-137 19-95 (382)
203 COG3172 NadR Predicted ATPase/ 67.1 6.1 0.00013 26.9 2.5 28 13-40 9-36 (187)
204 cd06314 PBP1_tmGBP Periplasmic 66.8 43 0.00093 23.7 13.5 98 8-109 50-154 (271)
205 PRK02496 adk adenylate kinase; 66.8 7.4 0.00016 26.3 3.0 30 15-44 4-33 (184)
206 PLN02459 probable adenylate ki 66.8 7.4 0.00016 28.5 3.1 31 14-44 31-61 (261)
207 PRK13808 adenylate kinase; Pro 66.7 6.8 0.00015 29.7 3.0 30 15-44 3-32 (333)
208 PRK11921 metallo-beta-lactamas 66.5 37 0.0008 26.2 7.0 61 77-139 246-310 (394)
209 PRK09860 putative alcohol dehy 66.3 24 0.00053 27.2 6.0 71 67-137 20-96 (383)
210 PF06506 PrpR_N: Propionate ca 66.1 38 0.00083 22.9 7.6 75 55-137 56-133 (176)
211 PRK14529 adenylate kinase; Pro 65.8 6.9 0.00015 27.9 2.7 30 15-44 3-32 (223)
212 cd06292 PBP1_LacI_like_10 Liga 65.7 45 0.00098 23.6 12.7 95 8-106 50-153 (273)
213 TIGR00035 asp_race aspartate r 65.3 37 0.00079 24.1 6.4 121 11-139 73-197 (229)
214 PLN02165 adenylate isopentenyl 65.1 5.1 0.00011 30.4 2.0 40 4-43 35-74 (334)
215 cd06301 PBP1_rhizopine_binding 64.9 17 0.00037 25.7 4.7 18 119-136 71-88 (272)
216 cd08190 HOT Hydroxyacid-oxoaci 64.9 30 0.00065 27.0 6.3 71 67-137 12-88 (414)
217 cd06303 PBP1_LuxPQ_Quorum_Sens 64.4 50 0.0011 23.6 13.3 99 9-108 56-164 (280)
218 PRK00002 aroB 3-dehydroquinate 64.2 62 0.0014 24.7 7.9 83 53-138 9-101 (358)
219 cd01544 PBP1_GalR Ligand-bindi 64.0 49 0.0011 23.5 10.2 71 32-105 69-147 (270)
220 cd06316 PBP1_ABC_sugar_binding 63.9 52 0.0011 23.7 13.5 95 8-102 51-153 (294)
221 KOG0780|consensus 63.8 51 0.0011 25.9 7.1 69 69-139 121-193 (483)
222 PF13519 VWA_2: von Willebrand 63.7 37 0.00081 21.9 6.4 87 62-148 79-171 (172)
223 cd08189 Fe-ADH5 Iron-containin 63.1 67 0.0014 24.6 8.1 80 55-137 6-91 (374)
224 PRK05632 phosphate acetyltrans 62.1 41 0.00088 28.2 6.9 134 13-146 271-418 (684)
225 cd01540 PBP1_arabinose_binding 62.1 55 0.0012 23.4 12.8 99 9-107 50-162 (289)
226 cd06295 PBP1_CelR Ligand bindi 61.8 49 0.0011 23.4 6.6 70 63-137 26-95 (275)
227 cd00858 GlyRS_anticodon GlyRS 61.0 39 0.00084 21.2 5.4 23 116-138 64-86 (121)
228 PRK01184 hypothetical protein; 61.0 10 0.00023 25.6 2.9 30 14-44 3-32 (184)
229 PRK10401 DNA-binding transcrip 60.7 67 0.0015 23.9 12.5 94 9-107 111-208 (346)
230 cd08193 HVD 5-hydroxyvalerate 60.5 37 0.00079 26.1 6.0 71 67-137 15-91 (376)
231 cd06307 PBP1_uncharacterized_s 60.4 58 0.0013 23.1 12.1 93 13-108 58-158 (275)
232 PF01745 IPT: Isopentenyl tran 59.6 7.3 0.00016 27.8 1.9 31 13-43 2-32 (233)
233 cd00860 ThrRS_anticodon ThrRS 59.5 32 0.0007 19.9 6.0 58 81-139 4-61 (91)
234 TIGR02638 lactal_redase lactal 59.3 41 0.00089 25.9 6.1 72 66-137 17-94 (379)
235 PF00465 Fe-ADH: Iron-containi 59.3 20 0.00043 27.4 4.4 71 67-139 12-88 (366)
236 PRK14526 adenylate kinase; Pro 59.1 13 0.00028 26.1 3.1 30 15-44 3-32 (211)
237 cd07766 DHQ_Fe-ADH Dehydroquin 58.7 75 0.0016 23.8 8.2 70 68-138 13-87 (332)
238 COG1219 ClpX ATP-dependent pro 58.6 11 0.00024 28.8 2.7 28 15-42 100-127 (408)
239 cd06354 PBP1_BmpA_PnrA_like Pe 57.6 67 0.0015 22.9 10.6 133 9-145 53-198 (265)
240 cd06305 PBP1_methylthioribose_ 57.0 30 0.00066 24.4 4.9 68 64-137 16-88 (273)
241 cd08183 Fe-ADH2 Iron-containin 56.6 50 0.0011 25.3 6.2 68 68-138 13-84 (374)
242 PRK00023 cmk cytidylate kinase 56.4 11 0.00024 26.8 2.4 34 12-45 4-37 (225)
243 cd06353 PBP1_BmpA_Med_like Per 56.3 45 0.00097 24.1 5.6 58 80-137 1-65 (258)
244 cd06289 PBP1_MalI_like Ligand- 56.1 37 0.0008 23.8 5.2 70 65-137 17-87 (268)
245 cd06297 PBP1_LacI_like_12 Liga 56.1 70 0.0015 22.7 12.1 90 11-107 53-151 (269)
246 PRK11914 diacylglycerol kinase 55.9 55 0.0012 24.2 6.1 70 76-145 6-80 (306)
247 TIGR03702 lip_kinase_YegS lipi 55.8 79 0.0017 23.2 6.9 22 116-137 39-60 (293)
248 cd03364 TOPRIM_DnaG_primases T 55.6 33 0.00071 19.7 4.0 42 68-110 34-76 (79)
249 PRK06995 flhF flagellar biosyn 55.5 85 0.0018 25.3 7.3 24 13-36 257-280 (484)
250 PF00731 AIRC: AIR carboxylase 55.3 21 0.00045 23.8 3.4 58 80-137 2-63 (150)
251 PRK13337 putative lipid kinase 55.3 83 0.0018 23.3 7.2 60 80-139 3-67 (304)
252 PF13685 Fe-ADH_2: Iron-contai 55.2 20 0.00044 26.0 3.6 72 68-139 9-85 (250)
253 PRK07261 topology modulation p 55.1 18 0.00039 24.3 3.2 30 15-44 3-32 (171)
254 cd06304 PBP1_BmpA_like Peripla 54.7 74 0.0016 22.5 10.9 121 9-133 52-183 (260)
255 cd06276 PBP1_FucR_like Ligand- 54.6 74 0.0016 22.5 8.5 76 29-107 68-148 (247)
256 PF13155 Toprim_2: Toprim-like 54.2 44 0.00095 19.8 5.0 42 64-105 33-75 (96)
257 cd01538 PBP1_ABC_xylose_bindin 54.2 47 0.001 23.9 5.5 72 65-138 17-89 (288)
258 cd08171 GlyDH-like2 Glycerol d 54.1 89 0.0019 23.7 7.1 71 67-138 12-87 (345)
259 cd01475 vWA_Matrilin VWA_Matri 53.5 63 0.0014 22.7 5.9 65 78-143 108-173 (224)
260 PRK03839 putative kinase; Prov 53.2 17 0.00038 24.4 2.9 31 14-44 2-32 (180)
261 cd08185 Fe-ADH1 Iron-containin 52.9 1E+02 0.0022 23.6 8.0 70 67-137 15-91 (380)
262 cd01536 PBP1_ABC_sugar_binding 52.9 66 0.0014 22.4 6.0 18 65-82 17-34 (267)
263 cd08173 Gro1PDH Sn-glycerol-1- 52.5 99 0.0022 23.3 8.3 70 68-138 14-87 (339)
264 cd01542 PBP1_TreR_like Ligand- 52.2 76 0.0017 22.1 6.3 17 64-80 16-32 (259)
265 COG1419 FlhF Flagellar GTP-bin 52.1 56 0.0012 25.6 5.7 26 12-37 203-228 (407)
266 cd06282 PBP1_GntR_like_2 Ligan 51.8 53 0.0012 23.0 5.4 70 63-137 15-87 (266)
267 PRK06217 hypothetical protein; 51.7 22 0.00048 24.1 3.2 30 15-44 4-33 (183)
268 TIGR02173 cyt_kin_arch cytidyl 51.5 20 0.00043 23.6 3.0 31 14-44 2-32 (171)
269 cd08194 Fe-ADH6 Iron-containin 51.3 75 0.0016 24.4 6.4 72 67-138 12-89 (375)
270 cd06278 PBP1_LacI_like_2 Ligan 51.3 57 0.0012 22.8 5.5 18 64-81 16-33 (266)
271 PF00532 Peripla_BP_1: Peripla 50.7 46 0.001 24.2 5.0 44 94-137 20-64 (279)
272 PRK05057 aroK shikimate kinase 50.3 24 0.00052 23.7 3.3 33 12-44 4-36 (172)
273 cd01537 PBP1_Repressors_Sugar_ 50.2 47 0.001 22.9 4.9 76 60-138 12-88 (264)
274 TIGR03239 GarL 2-dehydro-3-deo 50.2 96 0.0021 22.5 7.7 80 67-148 23-105 (249)
275 PF00448 SRP54: SRP54-type pro 48.9 49 0.0011 22.9 4.7 25 13-37 2-26 (196)
276 PF01936 NYN: NYN domain; Int 48.9 24 0.00053 22.5 3.0 79 67-146 50-136 (146)
277 PRK00865 glutamate racemase; P 48.7 1E+02 0.0022 22.4 7.2 69 80-148 7-88 (261)
278 cd08177 MAR Maleylacetate redu 48.7 88 0.0019 23.6 6.3 71 67-138 12-86 (337)
279 TIGR00315 cdhB CO dehydrogenas 48.6 47 0.001 22.5 4.3 40 6-45 20-63 (162)
280 PRK04182 cytidylate kinase; Pr 48.5 23 0.00051 23.5 3.0 30 14-43 2-31 (180)
281 cd06270 PBP1_GalS_like Ligand 48.2 83 0.0018 22.2 6.0 21 63-83 15-35 (268)
282 cd06286 PBP1_CcpB_like Ligand- 48.2 80 0.0017 22.1 5.8 17 65-81 17-33 (260)
283 TIGR00017 cmk cytidylate kinas 48.1 24 0.00051 25.0 3.0 31 14-44 4-34 (217)
284 PF02006 DUF137: Protein of un 47.9 89 0.0019 21.4 5.7 86 51-139 31-120 (178)
285 cd06273 PBP1_GntR_like_1 This 47.8 90 0.002 21.9 6.1 19 63-81 15-33 (268)
286 COG0269 SgbH 3-hexulose-6-phos 47.6 1E+02 0.0022 22.0 7.8 73 65-139 68-140 (217)
287 TIGR00216 ispH_lytB (E)-4-hydr 47.5 34 0.00073 25.4 3.8 29 13-41 210-238 (280)
288 cd01540 PBP1_arabinose_binding 47.5 43 0.00094 23.9 4.4 71 64-137 16-87 (289)
289 cd06354 PBP1_BmpA_PnrA_like Pe 47.5 69 0.0015 22.8 5.5 16 64-79 19-34 (265)
290 cd01545 PBP1_SalR Ligand-bindi 47.0 80 0.0017 22.1 5.7 72 64-137 16-88 (270)
291 TIGR01425 SRP54_euk signal rec 46.8 1.5E+02 0.0032 23.6 8.1 69 68-138 119-191 (429)
292 PRK00131 aroK shikimate kinase 46.5 29 0.00064 22.8 3.2 32 13-44 5-36 (175)
293 COG0409 HypD Hydrogenase matur 46.0 16 0.00035 27.7 1.9 43 5-47 176-223 (364)
294 PRK09492 treR trehalose repres 45.9 1.1E+02 0.0025 22.1 11.8 126 10-145 115-247 (315)
295 PRK10014 DNA-binding transcrip 45.7 77 0.0017 23.4 5.6 14 122-135 113-126 (342)
296 cd06318 PBP1_ABC_sugar_binding 45.7 54 0.0012 23.3 4.7 72 64-137 16-88 (282)
297 cd06302 PBP1_LsrB_Quorum_Sensi 45.5 1.2E+02 0.0025 22.1 12.3 96 9-105 52-153 (298)
298 cd06296 PBP1_CatR_like Ligand- 45.4 1E+02 0.0022 21.6 6.0 71 63-137 15-86 (270)
299 cd06304 PBP1_BmpA_like Peripla 45.4 46 0.001 23.6 4.3 15 65-79 19-33 (260)
300 PRK06547 hypothetical protein; 45.4 58 0.0013 22.0 4.5 30 13-42 16-45 (172)
301 cd08197 DOIS 2-deoxy-scyllo-in 45.2 1.4E+02 0.003 22.9 8.2 71 68-138 13-93 (355)
302 PRK13949 shikimate kinase; Pro 45.2 29 0.00063 23.3 3.0 30 15-44 4-33 (169)
303 cd00464 SK Shikimate kinase (S 44.8 33 0.00071 22.1 3.2 30 15-44 2-31 (154)
304 PF11735 CAP59_mtransfer: Cryp 44.2 72 0.0016 23.1 5.0 46 64-109 18-67 (241)
305 cd08182 HEPD Hydroxyethylphosp 44.2 1.1E+02 0.0023 23.4 6.3 70 67-138 12-86 (367)
306 cd06293 PBP1_LacI_like_11 Liga 44.1 1E+02 0.0022 21.7 5.9 19 63-81 15-33 (269)
307 PF03096 Ndr: Ndr family; Int 43.9 21 0.00046 26.5 2.3 60 27-87 47-107 (283)
308 cd06267 PBP1_LacI_sugar_bindin 43.9 64 0.0014 22.3 4.8 18 64-81 16-33 (264)
309 PF03129 HGTP_anticodon: Antic 43.8 43 0.00093 19.7 3.4 48 92-140 16-63 (94)
310 KOG1533|consensus 43.7 45 0.00098 24.4 3.8 39 15-53 5-46 (290)
311 PRK01045 ispH 4-hydroxy-3-meth 43.6 34 0.00073 25.6 3.3 28 13-40 212-239 (298)
312 KOG0731|consensus 43.4 33 0.00072 29.2 3.5 34 11-45 344-377 (774)
313 PRK00945 acetyl-CoA decarbonyl 43.4 63 0.0014 22.1 4.4 41 5-45 26-71 (171)
314 cd08176 LPO Lactadehyde:propan 43.3 1.5E+02 0.0033 22.8 7.4 72 67-138 17-94 (377)
315 TIGR00147 lipid kinase, YegS/R 43.3 1.3E+02 0.0028 22.0 7.1 9 129-137 57-65 (293)
316 cd04724 Tryptophan_synthase_al 43.1 1.2E+02 0.0027 21.7 6.8 63 77-139 76-139 (242)
317 cd08181 PPD-like 1,3-propanedi 42.8 1.5E+02 0.0032 22.6 7.6 70 68-138 16-92 (357)
318 cd06277 PBP1_LacI_like_1 Ligan 42.6 1.2E+02 0.0026 21.3 6.5 71 62-137 17-88 (268)
319 cd06299 PBP1_LacI_like_13 Liga 42.6 83 0.0018 22.0 5.2 73 63-138 15-87 (265)
320 PRK09492 treR trehalose repres 42.6 1.2E+02 0.0027 22.0 6.3 59 79-137 63-126 (315)
321 cd06292 PBP1_LacI_like_10 Liga 42.6 81 0.0018 22.2 5.2 73 63-138 15-92 (273)
322 cd06322 PBP1_ABC_sugar_binding 42.5 66 0.0014 22.6 4.7 20 118-137 69-88 (267)
323 PRK12360 4-hydroxy-3-methylbut 42.5 37 0.00081 25.2 3.4 28 13-40 211-238 (281)
324 COG1064 AdhP Zn-dependent alco 42.4 60 0.0013 24.8 4.5 53 79-131 277-330 (339)
325 cd08188 Fe-ADH4 Iron-containin 42.3 1.1E+02 0.0024 23.5 6.1 71 67-137 17-93 (377)
326 PRK10558 alpha-dehydro-beta-de 42.3 1.3E+02 0.0029 21.9 7.5 87 55-148 23-112 (256)
327 TIGR02955 TMAO_TorT TMAO reduc 42.3 1.3E+02 0.0028 21.8 13.6 98 8-109 52-159 (295)
328 cd06312 PBP1_ABC_sugar_binding 42.2 81 0.0018 22.3 5.2 20 118-137 71-90 (271)
329 PF00106 adh_short: short chai 41.9 94 0.002 20.0 5.2 63 64-127 11-76 (167)
330 PRK13947 shikimate kinase; Pro 41.6 39 0.00084 22.3 3.2 30 15-44 4-33 (171)
331 PRK14721 flhF flagellar biosyn 41.6 1.7E+02 0.0037 23.1 7.0 24 12-35 191-214 (420)
332 PF02310 B12-binding: B12 bind 41.4 84 0.0018 19.3 5.1 69 66-137 17-87 (121)
333 cd01391 Periplasmic_Binding_Pr 41.0 76 0.0017 21.6 4.8 18 121-138 74-91 (269)
334 PRK11303 DNA-binding transcrip 40.8 1.4E+02 0.0031 21.8 6.6 14 122-135 134-147 (328)
335 PRK00091 miaA tRNA delta(2)-is 40.7 38 0.00083 25.4 3.3 31 13-43 5-35 (307)
336 cd06298 PBP1_CcpA_like Ligand- 40.5 1.2E+02 0.0025 21.3 5.7 18 64-81 16-33 (268)
337 PRK10355 xylF D-xylose transpo 40.1 1E+02 0.0022 23.0 5.5 19 118-136 95-113 (330)
338 TIGR02405 trehalos_R_Ecol treh 39.9 1.5E+02 0.0032 21.7 11.2 127 10-146 112-245 (311)
339 PRK10936 TMAO reductase system 39.7 1.6E+02 0.0035 22.0 14.0 98 8-109 99-206 (343)
340 COG3444 Phosphotransferase sys 39.6 1.2E+02 0.0026 20.5 5.7 72 74-147 23-94 (159)
341 cd01453 vWA_transcription_fact 39.5 1.2E+02 0.0026 20.6 8.0 84 63-148 86-177 (183)
342 COG1223 Predicted ATPase (AAA+ 39.4 46 0.001 24.9 3.4 32 14-45 153-184 (368)
343 PRK13602 putative ribosomal pr 39.0 82 0.0018 18.5 4.0 40 5-44 18-60 (82)
344 PF08659 KR: KR domain; Inter 39.0 89 0.0019 21.0 4.7 76 63-138 10-89 (181)
345 PRK00843 egsA NAD(P)-dependent 38.9 1.7E+02 0.0038 22.2 8.0 82 53-138 11-96 (350)
346 PF13407 Peripla_BP_4: Peripla 38.7 1.4E+02 0.0029 20.9 6.9 72 65-138 16-89 (257)
347 TIGR00174 miaA tRNA isopenteny 38.7 49 0.0011 24.6 3.5 30 14-43 1-30 (287)
348 PF13377 Peripla_BP_3: Peripla 38.6 72 0.0016 20.4 4.1 40 70-109 1-43 (160)
349 TIGR00227 ribD_Cterm riboflavi 38.3 64 0.0014 22.4 4.0 32 117-148 129-160 (216)
350 PRK10128 2-keto-3-deoxy-L-rham 38.0 1.6E+02 0.0035 21.6 7.5 79 68-148 30-111 (267)
351 cd01575 PBP1_GntR Ligand-bindi 37.8 1.4E+02 0.003 20.8 6.5 19 64-82 16-34 (268)
352 COG0324 MiaA tRNA delta(2)-iso 37.7 46 0.00099 25.1 3.2 31 13-43 4-34 (308)
353 PF00004 AAA: ATPase family as 37.5 53 0.0011 20.2 3.2 31 15-45 1-31 (132)
354 cd06324 PBP1_ABC_sugar_binding 37.3 89 0.0019 22.8 4.8 22 118-139 71-92 (305)
355 PRK14730 coaE dephospho-CoA ki 37.3 48 0.001 22.9 3.2 31 14-44 3-33 (195)
356 PF01872 RibD_C: RibD C-termin 36.9 49 0.0011 22.7 3.2 32 117-148 122-153 (200)
357 cd06271 PBP1_AglR_RafR_like Li 36.9 1E+02 0.0022 21.5 5.0 21 60-80 16-36 (268)
358 cd08191 HHD 6-hydroxyhexanoate 36.8 1.8E+02 0.0039 22.4 6.5 71 67-138 12-88 (386)
359 PF08357 SEFIR: SEFIR domain; 36.7 1.2E+02 0.0025 19.6 4.9 59 79-139 1-68 (150)
360 PLN02821 1-hydroxy-2-methyl-2- 36.6 68 0.0015 25.6 4.1 28 13-40 364-391 (460)
361 PF02401 LYTB: LytB protein; 36.4 30 0.00066 25.6 2.1 31 13-43 211-241 (281)
362 PF00205 TPP_enzyme_M: Thiamin 36.4 22 0.00049 22.7 1.3 41 5-45 3-47 (137)
363 cd06274 PBP1_FruR Ligand bindi 36.2 1.3E+02 0.0027 21.1 5.4 16 64-79 16-31 (264)
364 cd01018 ZntC Metal binding pro 36.2 1.7E+02 0.0036 21.2 6.4 40 71-110 182-222 (266)
365 PF13662 Toprim_4: Toprim doma 36.0 23 0.0005 20.5 1.2 31 78-108 46-77 (81)
366 TIGR02764 spore_ybaN_pdaB poly 35.8 56 0.0012 22.2 3.3 15 65-79 20-34 (191)
367 COG0465 HflB ATP-dependent Zn 35.7 52 0.0011 27.2 3.5 34 10-44 182-215 (596)
368 cd06291 PBP1_Qymf_like Ligand 35.5 1.4E+02 0.0031 20.8 5.5 15 65-79 17-31 (265)
369 COG3473 Maleate cis-trans isom 35.4 1.7E+02 0.0036 21.0 7.7 74 67-143 107-193 (238)
370 cd06167 LabA_like LabA_like pr 35.2 1.2E+02 0.0027 19.4 8.9 81 66-146 54-140 (149)
371 PRK12726 flagellar biosynthesi 35.0 2.3E+02 0.0049 22.4 7.6 59 79-138 235-294 (407)
372 cd08186 Fe-ADH8 Iron-containin 34.8 1.9E+02 0.0041 22.3 6.3 70 68-137 13-92 (383)
373 PF13362 Toprim_3: Toprim doma 34.8 1E+02 0.0022 18.3 4.7 49 76-124 39-92 (96)
374 COG0159 TrpA Tryptophan syntha 34.8 1.2E+02 0.0025 22.4 4.8 129 16-147 23-168 (265)
375 cd00338 Ser_Recombinase Serine 34.7 1.2E+02 0.0025 19.0 7.8 76 61-136 15-102 (137)
376 COG0041 PurE Phosphoribosylcar 34.6 1E+02 0.0022 20.9 4.1 57 80-136 4-64 (162)
377 COG1438 ArgR Arginine represso 34.3 69 0.0015 21.4 3.3 31 55-88 96-127 (150)
378 PRK09271 flavodoxin; Provision 34.2 64 0.0014 21.4 3.3 21 58-78 10-30 (160)
379 PRK13111 trpA tryptophan synth 34.1 1.9E+02 0.004 21.2 5.9 122 15-139 17-152 (258)
380 COG0796 MurI Glutamate racemas 33.9 2E+02 0.0042 21.4 7.4 71 78-148 5-88 (269)
381 TIGR01391 dnaG DNA primase, ca 33.4 1.2E+02 0.0026 23.8 5.1 57 65-122 288-346 (415)
382 cd00738 HGTP_anticodon HGTP an 33.3 1E+02 0.0022 17.8 5.4 21 117-137 42-62 (94)
383 cd06280 PBP1_LacI_like_4 Ligan 33.1 1.3E+02 0.0028 21.1 4.9 19 63-81 15-33 (263)
384 COG0021 TktA Transketolase [Ca 33.0 1.2E+02 0.0026 25.5 5.0 68 61-129 156-237 (663)
385 COG1126 GlnQ ABC-type polar am 32.9 50 0.0011 23.8 2.6 67 13-80 29-110 (240)
386 cd06318 PBP1_ABC_sugar_binding 32.5 1.8E+02 0.0039 20.5 13.4 96 9-105 51-153 (282)
387 PRK05452 anaerobic nitric oxid 32.5 2.6E+02 0.0057 22.4 8.6 59 78-138 251-313 (479)
388 PF09673 TrbC_Ftype: Type-F co 32.1 1.3E+02 0.0029 18.8 4.4 32 91-122 10-41 (113)
389 cd08175 G1PDH Glycerol-1-phosp 32.1 2.3E+02 0.0049 21.5 6.9 70 67-137 12-88 (348)
390 COG1105 FruK Fructose-1-phosph 32.0 2.3E+02 0.0049 21.5 7.5 32 116-148 146-177 (310)
391 TIGR00418 thrS threonyl-tRNA s 31.9 2.8E+02 0.0061 22.6 7.6 59 81-140 473-531 (563)
392 PRK08356 hypothetical protein; 31.9 70 0.0015 21.9 3.3 32 13-45 6-37 (195)
393 cd06285 PBP1_LacI_like_7 Ligan 31.9 1.8E+02 0.0039 20.3 5.7 17 63-79 15-31 (265)
394 PRK13946 shikimate kinase; Pro 31.7 71 0.0015 21.6 3.3 33 12-44 10-42 (184)
395 PRK13761 hypothetical protein; 31.6 1.9E+02 0.0041 20.9 5.3 120 16-139 43-181 (248)
396 COG4126 Hydantoin racemase [Am 31.5 2E+02 0.0043 20.7 7.2 70 78-147 109-193 (230)
397 cd06281 PBP1_LacI_like_5 Ligan 31.2 1.9E+02 0.0041 20.3 8.1 21 119-139 105-125 (269)
398 cd07372 2A5CPDO_B The beta sub 31.2 2.2E+02 0.0049 21.2 8.5 62 23-89 127-191 (294)
399 PRK11889 flhF flagellar biosyn 31.1 2.7E+02 0.0059 22.2 7.2 24 13-36 242-265 (436)
400 COG1419 FlhF Flagellar GTP-bin 31.0 45 0.00097 26.2 2.3 18 24-41 247-264 (407)
401 PF07279 DUF1442: Protein of u 30.8 2E+02 0.0044 20.6 6.8 15 24-38 28-42 (218)
402 TIGR01162 purE phosphoribosyla 30.7 87 0.0019 21.1 3.4 22 116-137 40-61 (156)
403 PRK00771 signal recognition pa 30.7 2.6E+02 0.0057 22.2 6.6 8 131-138 177-184 (437)
404 COG1117 PstB ABC-type phosphat 30.6 48 0.001 23.9 2.2 25 11-36 32-56 (253)
405 cd01482 vWA_collagen_alphaI-XI 30.5 1.6E+02 0.0035 19.3 6.7 50 78-128 103-152 (164)
406 TIGR02873 spore_ylxY probable 30.5 82 0.0018 23.1 3.6 29 55-84 90-118 (268)
407 PRK03731 aroL shikimate kinase 30.4 74 0.0016 21.0 3.1 31 14-44 4-34 (171)
408 cd03770 SR_TndX_transposase Se 30.2 1.5E+02 0.0034 19.0 7.4 77 61-137 19-107 (140)
409 KOG0025|consensus 30.1 2.3E+02 0.0051 21.5 5.8 35 53-88 162-196 (354)
410 cd08172 GlyDH-like1 Glycerol d 29.8 2.5E+02 0.0054 21.3 7.8 70 68-138 14-85 (347)
411 cd08549 G1PDH_related Glycerol 29.5 2.5E+02 0.0054 21.2 7.7 70 68-138 13-89 (332)
412 TIGR02742 TrbC_Ftype type-F co 29.5 1.3E+02 0.0028 19.6 3.9 34 91-124 11-44 (130)
413 PRK15116 sulfur acceptor prote 29.3 2.4E+02 0.0051 20.8 7.5 79 9-89 117-209 (268)
414 PF13380 CoA_binding_2: CoA bi 29.2 1.4E+02 0.0031 18.6 4.2 82 63-147 13-99 (116)
415 PRK05568 flavodoxin; Provision 28.9 1.6E+02 0.0034 18.7 5.6 20 58-77 11-30 (142)
416 cd08187 BDH Butanol dehydrogen 28.7 2.7E+02 0.0059 21.4 7.4 71 67-138 18-95 (382)
417 PRK09701 D-allose transporter 28.5 2.4E+02 0.0052 20.7 13.0 99 9-108 78-190 (311)
418 PF02608 Bmp: Basic membrane p 28.4 1.6E+02 0.0034 21.9 4.8 59 80-138 3-70 (306)
419 COG0541 Ffh Signal recognition 28.3 2.3E+02 0.005 22.7 5.8 71 68-139 119-192 (451)
420 CHL00206 ycf2 Ycf2; Provisiona 28.3 76 0.0016 30.5 3.5 31 15-45 1633-1663(2281)
421 PF09949 DUF2183: Uncharacteri 28.2 1.5E+02 0.0033 18.2 5.7 87 23-111 10-98 (100)
422 PF11767 SET_assoc: Histone ly 28.0 54 0.0012 18.6 1.8 18 65-82 13-30 (66)
423 PLN02748 tRNA dimethylallyltra 27.9 68 0.0015 25.7 2.9 31 13-43 23-53 (468)
424 cd01574 PBP1_LacI Ligand-bindi 27.8 2.1E+02 0.0046 19.9 6.6 18 63-80 15-32 (264)
425 COG3946 VirJ Type IV secretory 27.8 89 0.0019 24.7 3.4 62 78-139 259-334 (456)
426 TIGR00262 trpA tryptophan synt 27.7 2.4E+02 0.0053 20.5 7.3 129 16-147 16-161 (256)
427 PRK05625 5-amino-6-(5-phosphor 27.5 1.2E+02 0.0026 21.1 3.9 33 116-148 127-159 (217)
428 PF03625 DUF302: Domain of unk 27.4 49 0.0011 18.2 1.6 20 129-148 17-36 (65)
429 PRK13371 4-hydroxy-3-methylbut 27.4 74 0.0016 24.8 3.0 29 13-41 290-318 (387)
430 COG1879 RbsB ABC-type sugar tr 27.1 2.6E+02 0.0056 20.5 13.3 129 8-137 86-225 (322)
431 PF01297 TroA: Periplasmic sol 27.0 1.7E+02 0.0037 20.9 4.7 18 118-135 188-205 (256)
432 COG1707 ACT domain-containing 26.9 90 0.002 21.4 3.0 44 2-45 132-176 (218)
433 KOG0734|consensus 26.8 94 0.002 25.8 3.5 33 11-44 337-369 (752)
434 PLN02908 threonyl-tRNA synthet 26.6 4E+02 0.0086 22.6 7.9 75 65-140 568-650 (686)
435 PRK10481 hypothetical protein; 26.5 2.5E+02 0.0053 20.2 5.3 23 117-139 170-192 (224)
436 PF07109 Mg-por_mtran_C: Magne 26.4 1.5E+02 0.0033 18.2 3.7 33 115-147 10-43 (97)
437 PF11923 DUF3441: Domain of un 26.4 38 0.00083 21.4 1.1 29 50-78 42-70 (112)
438 PRK10586 putative oxidoreducta 26.4 2.4E+02 0.0052 21.7 5.6 70 66-138 22-95 (362)
439 PF06057 VirJ: Bacterial virul 26.0 1.5E+02 0.0032 20.8 4.0 60 80-139 3-76 (192)
440 PHA03169 hypothetical protein; 26.0 54 0.0012 25.4 1.9 24 77-100 321-344 (413)
441 PLN02591 tryptophan synthase 25.8 2.7E+02 0.0058 20.3 5.9 121 16-139 8-141 (250)
442 PRK13600 putative ribosomal pr 25.8 1.6E+02 0.0034 17.6 3.7 40 5-44 20-62 (84)
443 PF02593 dTMP_synthase: Thymid 25.6 2.5E+02 0.0055 20.0 5.4 73 65-138 8-85 (217)
444 smart00857 Resolvase Resolvase 25.5 1.9E+02 0.004 18.4 7.8 76 61-136 16-102 (148)
445 KOG2451|consensus 25.4 1E+02 0.0023 24.2 3.4 40 1-40 175-216 (503)
446 PF02863 Arg_repressor_C: Argi 25.4 1.3E+02 0.0028 17.0 3.1 31 55-88 17-48 (70)
447 PRK10401 DNA-binding transcrip 25.3 2.9E+02 0.0062 20.5 6.8 58 80-137 61-123 (346)
448 TIGR01508 rib_reduct_arch 2,5- 25.0 1.5E+02 0.0031 20.7 3.9 33 116-148 123-155 (210)
449 PF05841 Apc15p: Apc15p protei 24.8 83 0.0018 20.2 2.5 21 65-85 83-103 (125)
450 COG1433 Uncharacterized conser 24.7 1.6E+02 0.0036 18.8 3.8 28 121-148 57-84 (121)
451 PF10566 Glyco_hydro_97: Glyco 24.5 3E+02 0.0065 20.4 6.1 74 62-137 30-127 (273)
452 PRK00087 4-hydroxy-3-methylbut 24.4 1.1E+02 0.0024 25.6 3.6 28 13-40 208-235 (647)
453 PRK08057 cobalt-precorrin-6x r 24.4 2.8E+02 0.0061 20.1 5.9 43 3-45 54-100 (248)
454 KOG0357|consensus 24.3 1.2E+02 0.0026 23.3 3.5 33 116-148 142-175 (400)
455 COG4559 ABC-type hemin transpo 24.3 90 0.0019 22.6 2.7 25 13-37 28-52 (259)
456 KOG1014|consensus 24.2 3.2E+02 0.007 20.7 5.9 79 53-137 50-133 (312)
457 PRK14938 Ser-tRNA(Thr) hydrola 24.1 3.2E+02 0.007 21.4 5.8 59 80-139 276-334 (387)
458 TIGR02417 fruct_sucro_rep D-fr 24.1 2.9E+02 0.0063 20.2 7.2 18 120-137 131-148 (327)
459 PRK07524 hypothetical protein; 24.0 1.3E+02 0.0027 24.3 3.9 42 3-44 191-234 (535)
460 TIGR02884 spore_pdaA delta-lac 24.0 1.3E+02 0.0027 21.3 3.5 20 65-84 51-70 (224)
461 PHA01627 DNA binding protein 23.6 1.2E+02 0.0027 19.0 2.9 36 2-40 27-63 (107)
462 PRK13477 bifunctional pantoate 23.5 88 0.0019 25.4 2.9 33 13-45 285-317 (512)
463 PRK14059 hypothetical protein; 23.4 1.5E+02 0.0033 21.5 3.9 33 116-148 165-197 (251)
464 PF00290 Trp_syntA: Tryptophan 23.4 1.6E+02 0.0034 21.6 3.9 129 18-147 18-161 (259)
465 COG0796 MurI Glutamate racemas 23.3 1.5E+02 0.0032 22.0 3.7 41 4-44 57-98 (269)
466 KOG3079|consensus 23.3 91 0.002 21.8 2.5 33 12-44 8-40 (195)
467 TIGR03471 HpnJ hopanoid biosyn 23.3 3.8E+02 0.0083 21.3 8.4 78 56-137 224-305 (472)
468 PF02754 CCG: Cysteine-rich do 23.2 1.2E+02 0.0026 16.9 2.9 22 118-139 58-79 (85)
469 PRK12339 2-phosphoglycerate ki 23.2 1.1E+02 0.0024 21.2 3.1 32 13-44 4-35 (197)
470 PF00781 DAGK_cat: Diacylglyce 23.2 2E+02 0.0044 18.0 5.3 48 96-143 19-68 (130)
471 KOG0745|consensus 23.1 98 0.0021 24.9 2.9 30 15-44 229-258 (564)
472 PF00391 PEP-utilizers: PEP-ut 23.1 65 0.0014 18.6 1.6 31 12-43 29-59 (80)
473 PRK15424 propionate catabolism 23.0 4.3E+02 0.0093 21.7 8.6 66 65-138 96-164 (538)
474 COG3840 ThiQ ABC-type thiamine 23.0 64 0.0014 22.8 1.7 29 11-40 24-52 (231)
475 KOG3670|consensus 22.8 2.9E+02 0.0062 21.8 5.3 32 117-149 217-248 (397)
476 PRK12361 hypothetical protein; 22.7 4.2E+02 0.0092 21.5 7.5 66 80-146 244-314 (547)
477 PRK09825 idnK D-gluconate kina 22.7 1.2E+02 0.0025 20.6 3.0 30 13-42 4-33 (176)
478 COG0283 Cmk Cytidylate kinase 22.6 1.1E+02 0.0023 22.0 2.8 66 13-81 5-71 (222)
479 COG4213 XylF ABC-type xylose t 22.4 1.8E+02 0.0038 22.2 4.0 39 7-45 75-114 (341)
480 cd03264 ABC_drug_resistance_li 22.4 1.2E+02 0.0025 20.9 3.1 26 12-37 25-50 (211)
481 COG0022 AcoB Pyruvate/2-oxoglu 22.3 3.6E+02 0.0078 20.6 5.7 34 102-136 223-259 (324)
482 PRK00300 gmk guanylate kinase; 22.3 1E+02 0.0022 21.0 2.8 25 13-37 6-30 (205)
483 TIGR00067 glut_race glutamate 22.3 1.5E+02 0.0032 21.5 3.6 72 8-79 55-132 (251)
484 cd01465 vWA_subgroup VWA subgr 22.3 2.3E+02 0.005 18.3 9.1 49 94-142 118-166 (170)
485 PRK13059 putative lipid kinase 22.2 3.3E+02 0.0071 20.1 6.7 6 81-86 4-9 (295)
486 TIGR00249 sixA phosphohistidin 22.2 2.4E+02 0.0052 18.5 7.4 89 57-147 22-117 (152)
487 PRK08099 bifunctional DNA-bind 22.2 1.2E+02 0.0025 23.8 3.3 30 13-42 220-249 (399)
488 cd08179 NADPH_BDH NADPH-depend 22.1 1.6E+02 0.0035 22.6 4.0 63 75-137 20-89 (375)
489 PRK06683 hypothetical protein; 22.0 1.8E+02 0.004 17.1 4.0 39 6-44 19-60 (82)
490 TIGR00382 clpX endopeptidase C 22.0 1.4E+02 0.003 23.6 3.6 32 13-44 117-148 (413)
491 PRK13055 putative lipid kinase 22.0 3.5E+02 0.0076 20.4 6.8 58 80-137 4-67 (334)
492 PF02677 DUF208: Uncharacteriz 21.9 1.8E+02 0.0039 20.0 3.7 52 68-119 13-69 (176)
493 PF02633 Creatininase: Creatin 21.9 3E+02 0.0065 19.5 6.7 60 26-87 46-109 (237)
494 cd02022 DPCK Dephospho-coenzym 21.9 1.5E+02 0.0033 19.9 3.5 30 14-44 1-30 (179)
495 PRK11860 bifunctional 3-phosph 21.8 81 0.0018 26.4 2.4 32 14-45 444-475 (661)
496 COG1597 LCB5 Sphingosine kinas 21.7 3.5E+02 0.0075 20.2 6.9 62 79-140 3-69 (301)
497 TIGR00067 glut_race glutamate 21.6 3.2E+02 0.007 19.7 6.4 58 84-141 3-73 (251)
498 TIGR01526 nadR_NMN_Atrans nico 21.5 1.2E+02 0.0026 22.9 3.1 30 13-42 163-192 (325)
499 PRK00081 coaE dephospho-CoA ki 21.5 1.4E+02 0.003 20.5 3.2 30 14-44 4-33 (194)
500 PF10138 vWA-TerF-like: vWA fo 21.5 3E+02 0.0066 19.4 6.4 64 63-127 83-154 (200)
No 1
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=99.97 E-value=5.9e-31 Score=198.00 Aligned_cols=144 Identities=20% Similarity=0.427 Sum_probs=130.0
Q ss_pred hHHHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEE
Q psy18065 2 AEATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v 81 (149)
+++++|+++++||.||+||+++.++.+++++|+.++||+|++.++. ....+|.++++|+ ++.|+++++++|||++|
T Consensus 52 ~~~~~C~l~~~GV~AIfGp~~~~s~~~v~s~c~~~~iP~i~~~~~~-~~~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~ 127 (372)
T cd06387 52 VTNAFCSQFSRGVYAIFGFYDQMSMNTLTSFCGALHTSFITPSFPT-DADVQFVIQMRPA---LKGAILSLLAHYKWEKF 127 (372)
T ss_pred HHHHHHHHhhcccEEEEecCCHhHHHHHHHhhccccCCeeeeCCCC-CCCCceEEEEChh---HHHHHHHHHHhcCCCEE
Confidence 6789999999999999999999999999999999999999987653 2455889999998 89999999999999999
Q ss_pred EEEeecCcchhhHHHHHhCCCCCCceEEEEecC----CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 82 AIVYEEDNGLFKLQELVKTPPTLKTEMYIRHAN----PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 82 ~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~----~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++|++++|+.++|++.+.....+..+..+.+. ..+++.+|++|++++.++|||+|+++.+..+|+||
T Consensus 128 ~~iYd~d~gl~~Lq~L~~~~~~~~~~V~~~~v~~~~~~~~~~~~l~el~~~~~r~iIld~s~~~~~~il~~a 199 (372)
T cd06387 128 VYLYDTERGFSILQAIMEAAVQNNWQVTARSVGNIKDVQEFRRIIEEMDRRQEKRYLIDCEVERINTILEQV 199 (372)
T ss_pred EEEecCchhHHHHHHHHHhhccCCceEEEEEeccCCchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHH
Confidence 999998999999999999988888777655542 25789999999999999999999999999999986
No 2
>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=99.97 E-value=6e-31 Score=197.77 Aligned_cols=144 Identities=24% Similarity=0.451 Sum_probs=129.0
Q ss_pred hHHHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEE
Q psy18065 2 AEATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v 81 (149)
+.+++|+++++||.|||||.++.++.+|+++|+.++||+|+++++. ....+|+++++|+ +.+|+++++++|||++|
T Consensus 45 ~~~~~C~~~~~gV~AI~Gp~s~~~a~~v~sic~~~~vP~i~~~~~~-~~~~~~~i~~~P~---~~~Ai~diI~~~~W~~v 120 (364)
T cd06390 45 MTYTFCSQFSKGVYAIFGFYDRKTVNMLTSFCGALHVCFITPSFPV-DTSNQFVLQLRPE---LQDALISVIEHYKWQKF 120 (364)
T ss_pred HHHHHHHHhhcCceEEEccCChhHHHHHHHhhcCCCCCceecCCCC-CCCCceEEEeChh---HHHHHHHHHHHcCCcEE
Confidence 6789999999999999999999999999999999999999987632 2445778999998 89999999999999999
Q ss_pred EEEeecCcchhhHHHHHhCCCCCCceEEEEec---CCCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 82 AIVYEEDNGLFKLQELVKTPPTLKTEMYIRHA---NPSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 82 ~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~---~~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
++||++++|..+++.+.+.+...|+++..... +..+++++|++|++++.++||++|+.+.+..+|+||
T Consensus 121 ~iIYd~d~g~~~lq~l~~~~~~~~~~I~~~~~~~~~~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a 191 (364)
T cd06390 121 VYIYDADRGLSVLQKVLDTAAEKNWQVTAVNILTTTEEGYRKLFQDLDKKKERLIVVDCESERLNAILNQI 191 (364)
T ss_pred EEEEeCCccHHHHHHHHHhhhccCceeeEEEeecCChHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHH
Confidence 99999899999999999999888988865333 235899999999999999999999999999998875
No 3
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=99.97 E-value=2.7e-29 Score=186.54 Aligned_cols=148 Identities=25% Similarity=0.451 Sum_probs=127.7
Q ss_pred hHHHHHHHhhCCcEEEEcCCCCCc-HHHHHHhhcccCCCceeeccC--CCCCCccc-EEEecCChhHHHHHHHHHHHhcC
Q psy18065 2 AEATMCRQLQNGVQALFGPSDALL-GPHVQSICEALDVPHMESRLD--LELNSKEF-SVNLYPSQKLLNAAFKDVIRFLN 77 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~s~~-~~~v~~~~~~~~iP~is~~~~--~~~~~~~~-~~~~~p~~~~~~~ai~~ll~~~~ 77 (149)
++.++|.++++||.|||||.+|.. +.+++++|+..+||+|+++++ +.....+| .++++|++..+.+|+++++++||
T Consensus 54 ~~~~~~~~l~~gV~AIiGp~ss~~~~~~v~~i~~~~~VP~Is~~~~~~~~~~~~~~~~i~l~P~~~~~~~Ai~dli~~~~ 133 (333)
T cd06394 54 TTDTMCQILPKGVVSVLGPSSSPASSSIVSHICGEKEIPHFKVGPEETPKLQYLRFASVNLHPSNEDISVAVAGILNSFN 133 (333)
T ss_pred HHHHHHHHHhcCeEEEECCCCchHHHHHHHHHhhccCCceEEeccccCcccccccceEEEecCCHHHHHHHHHHHHHhcC
Confidence 467789999999999999999975 579999999999999998864 22223344 58999999999999999999999
Q ss_pred CcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecC-CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 78 WTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHAN-PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 78 W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~-~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
|++|++||++++++.+|+++++....++..+.++..+ ..|++.+|++|+++++++||++|+.+.+..+++||
T Consensus 134 W~~v~~iYe~d~~l~~L~~~l~~~~~~~~~i~~~~~~~~~d~~~~L~~ik~~~~~~iVv~~~~~~a~~il~qa 206 (333)
T cd06394 134 YPTASLICAKAECLLRLEELLRQFLISKETLSVRMLDDSRDPTPLLKEIRDDKTATIIIDANASMSHTILLKA 206 (333)
T ss_pred CCEEEEEEeCcHHHHHHHHHHHhhcccCCceeeEEccCcccHHHHHHHHHhcCCCEEEEECChHHHHHHHHHH
Confidence 9999999999999999999888765555566665554 36899999999999999999999999999999986
No 4
>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=99.97 E-value=1.4e-29 Score=191.64 Aligned_cols=147 Identities=18% Similarity=0.374 Sum_probs=127.6
Q ss_pred hHHHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC------------CCCCCcccEEEecCChhHHHHHH
Q psy18065 2 AEATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD------------LELNSKEFSVNLYPSQKLLNAAF 69 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~------------~~~~~~~~~~~~~p~~~~~~~ai 69 (149)
+++++|+++++||.|||||.++.++..|+++|+.++||+|++++. ++....+|.+.++|+ ..++.|+
T Consensus 51 ~~~~ac~l~~~gV~AI~Gp~s~~~a~~v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~~~~lrp~-~~~~~Ai 129 (400)
T cd06392 51 AVQEACDLMTQGILALVTSTGCASANALQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEYTLAARPP-VRLNDVM 129 (400)
T ss_pred HHHHHHHHHhcCeEEEECCCchhHHHHHHHHhccCcCCcEeecccccccccccccCCCCcCcCceeEEecCc-hHHHHHH
Confidence 678999999999999999999999999999999999999998542 222345788899998 5688999
Q ss_pred HHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCC---CchHHHHHHHHhCC-------CceEEEecCc
Q psy18065 70 KDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANP---STYRNVLREIRQKE-------IFNLIIDTST 139 (149)
Q Consensus 70 ~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~---~d~~~~l~~i~~~~-------~~~iil~~~~ 139 (149)
++++.+|+|++|++||++|+|+.+++.+.+.+...+..+.++.++. .++.+.++.++++. .++|||+|++
T Consensus 130 ~dlV~~~~W~~v~~iYD~d~gl~~lq~L~~~~~~~~~~I~~~~v~~~~~~~~~~~l~~~~~~~L~~~~~~~r~iVv~~s~ 209 (400)
T cd06392 130 LKLVTELRWQKFIVFYDSEYDIRGLQSFLDQASRLGLDVSLQKVDRNISRVFTNLFTTMKTEELNRYRDTLRRAILLLSP 209 (400)
T ss_pred HHHHHhCCCcEEEEEEECcccHHHHHHHHHHHhhcCceEEEEEcccCcchhhhhHHHHHHHhhhhhccccceEEEEEcCc
Confidence 9999999999999999889999999999999888888888877643 24777777777665 6899999999
Q ss_pred hhHHHHHhhC
Q psy18065 140 THISQFFRAV 149 (149)
Q Consensus 140 ~~~~~il~qA 149 (149)
+.+..+|+||
T Consensus 210 ~~~~~il~qA 219 (400)
T cd06392 210 RGAQTFINEA 219 (400)
T ss_pred HHHHHHHHHH
Confidence 9999999987
No 5
>cd06383 PBP1_iGluR_AMPA_Like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excitatory synaptic current.
Probab=99.96 E-value=8.1e-29 Score=186.48 Aligned_cols=146 Identities=18% Similarity=0.328 Sum_probs=121.9
Q ss_pred hHHHHHHHhhCCc--EEEEcCCCCCcHHHHHHhhcccCCCceeeccCC-CCCCcccEEEecCChhHHHHHHHHHHHhcCC
Q psy18065 2 AEATMCRQLQNGV--QALFGPSDALLGPHVQSICEALDVPHMESRLDL-ELNSKEFSVNLYPSQKLLNAAFKDVIRFLNW 78 (149)
Q Consensus 2 ~~~~~c~~~~~~v--~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~-~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W 78 (149)
+.+++|+++++|+ .|||||.++..+..|+++|+.++||+|++++.. ...++||++|+.|++..+.+|+++++++|+|
T Consensus 54 ~~~~~C~~~~~gv~~~AIiGp~ss~~a~~V~si~~~~~IP~Is~s~~~~~~~~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W 133 (368)
T cd06383 54 ALIEVCDKADSAIVPHLVLDTTTCGDASEIKSVTGALGIPTFSASYGQEGDLEQPYLIQLMPPADDIVEAIRDIVSYYNI 133 (368)
T ss_pred HHHHHHHHHHccCCcEEEECCCcchhHHHHHHHHhccCCCEEEccCCCcCcccCceEEEEeCChHHHHHHHHHHHHHCCC
Confidence 4677999999888 899999999999999999999999999987643 2347799999999999999999999999999
Q ss_pred cEEEEEeecCcchh-hHHHHHhC-CCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCc-hhHHHHHhhC
Q psy18065 79 TKVAIVYEEDNGLF-KLQELVKT-PPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTST-THISQFFRAV 149 (149)
Q Consensus 79 ~~v~vi~~~~~~~~-~l~~l~~~-~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~-~~~~~il~qA 149 (149)
+||++||++++|.. .++.+++. ....++++. .....+++++|++|++++.++||++|+. +.+..+|+||
T Consensus 134 ~~v~iIYddd~gl~~~l~~~l~~~~~~~~~~v~--~~~~~~~~~~Lk~lk~~~~~rIIi~~s~~~~~~~il~qA 205 (368)
T cd06383 134 TNAAILYDDDFVMDHKYKSLLQNWPTRHVITII--NSIIDEVREQIKRLRNLDIKNIFILGSTEEIIRYVLDQA 205 (368)
T ss_pred cEEEEEEEcCchhhHHHHHHHHhHHhcCCEEEE--eccchhHHHHHHHHHhCCCeEEEEEeCCHHHHHHHHHHH
Confidence 99999999887763 55655554 333444543 2223579999999999998899999986 9999999986
No 6
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=99.96 E-value=1.2e-28 Score=185.86 Aligned_cols=144 Identities=24% Similarity=0.478 Sum_probs=128.5
Q ss_pred hHHHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEE
Q psy18065 2 AEATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v 81 (149)
+.+++|+++++||.|||||.++..+.+++++|+.++||+|+++++. ...+.|.+++.|+ +..++++++++|+|++|
T Consensus 46 ~~~~~C~~~~~GV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~~-~~~~~f~~~~~p~---~~~ai~d~i~~~~wk~v 121 (370)
T cd06389 46 VTNAFCSQFSRGVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFPT-DGTHPFVIQMRPD---LKGALLSLIEYYQWDKF 121 (370)
T ss_pred HHHHHHHHhhcCcEEEEecCCHHHHHHHHHhhccCCCCeeeecCCC-CCCCceEEEecch---hhhHHHHHHHhcCCcEE
Confidence 5789999999999999999999999999999999999999987653 3466889999998 78999999999999999
Q ss_pred EEEeecCcchhhHHHHHhCCCCCCceEEE---EecC----CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 82 AIVYEEDNGLFKLQELVKTPPTLKTEMYI---RHAN----PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 82 ~vi~~~~~~~~~l~~l~~~~~~~~~~v~~---~~~~----~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++|++++|...++.+.+.++..|+.+.. +++. ..|++.+|++||++++++||++|+.+.+..+++||
T Consensus 122 ailYdsd~gl~~lq~l~~~~~~~g~~V~~~~~~~i~~~~~~~d~~~~L~~ik~~~~~~Iil~~~~~~~~~il~qa 196 (370)
T cd06389 122 AYLYDSDRGLSTLQAVLDSAAEKKWQVTAINVGNINNDRKDEAYRSLFQDLENKKERRVILDCERDKVNDIVDQV 196 (370)
T ss_pred EEEecCchHHHHHHHHHHhhccCCceEEEEEeecCCCccchHHHHHHHHHhccccceEEEEECCHHHHHHHHHHH
Confidence 99999889999999999998888866543 2322 14899999999999999999999999999999986
No 7
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=99.96 E-value=8.5e-29 Score=186.60 Aligned_cols=144 Identities=21% Similarity=0.432 Sum_probs=127.7
Q ss_pred hHHHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEE
Q psy18065 2 AEATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v 81 (149)
+.+++|+++++||.|||||.++..+.+++++|+.++||+|+++++. ...+.|.+++.|+ +..++++++++|||++|
T Consensus 52 ~~~~~C~~~~~gV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~~-~~~~~f~i~~~p~---~~~a~~~~i~~~~wk~v 127 (371)
T cd06388 52 VTNAFCSQYSRGVFAIFGLYDKRSVHTLTSFCSALHISLITPSFPT-EGESQFVLQLRPS---LRGALLSLLDHYEWNRF 127 (371)
T ss_pred HHHHHHHHHhCCceEEEecCCHHHHHHHHHHhhCCCCCeeecCccc-cCCCceEEEeChh---hhhHHHHHHHhcCceEE
Confidence 5788999999999999999999999999999999999999987653 3455778888888 67899999999999999
Q ss_pred EEEeecCcchhhHHHHHhCCCCCCceEEEE---ecCCCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 82 AIVYEEDNGLFKLQELVKTPPTLKTEMYIR---HANPSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 82 ~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~---~~~~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++|+++++..+++.+.+.++..|+.+... +.+..|++.+|++|+++++++||++|+.+.+..|++||
T Consensus 128 aiiYd~~~~~~~lq~l~~~~~~~g~~v~~~~~~~~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa 198 (371)
T cd06388 128 VFLYDTDRGYSILQAIMEKAGQNGWQVSAICVENFNDASYRRLLEDLDRRQEKKFVIDCEIERLQNILEQI 198 (371)
T ss_pred EEEecCCccHHHHHHHHHhhHhcCCeeeeEEeccCCcHHHHHHHHHhcccccEEEEEECCHHHHHHHHHHH
Confidence 999988888899999999988888776543 33345899999999999999999999999999999986
No 8
>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=99.95 E-value=5.2e-27 Score=177.64 Aligned_cols=148 Identities=36% Similarity=0.647 Sum_probs=130.6
Q ss_pred hHHHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-CC-CCCcccEEEecCChhHHHHHHHHHHHhcCCc
Q psy18065 2 AEATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LE-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWT 79 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~ 79 (149)
+++.+|+++.+||.|||||.+|..+.+++++|+.++||+|+++++ +. .+...|++|+.|++..+..++++++++|+|+
T Consensus 61 ~~~~~~~~l~~~V~AiiGp~~S~~~~av~~i~~~~~iP~Is~~~t~~~lt~~~~~~~~~~~~~~~~~~a~~~~~~~~~wk 140 (384)
T cd06393 61 ATKKACDQLALGVVAIFGPSQGSCTNAVQSICNALEVPHIQLRWKHHPLDNKDTFYVNLYPDYASLSHAILDLVQYLKWR 140 (384)
T ss_pred HHHHhhcccccCcEEEECCCChHHHHHHHHHHhccCCCeEeccCCCcccCccceeEEEeccCHHHHHHHHHHHHHHcCCc
Confidence 467889988889999999999999999999999999999998753 22 2344678999999988999999999999999
Q ss_pred EEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCC--CchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 80 KVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANP--STYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 80 ~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~--~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+|++||++++|...++++.+..++.|+++..++++. .|++.+|++||+.++++||++|+.+.+..+++||
T Consensus 141 ~vaily~~~~g~~~l~~~~~~~~~~g~~v~~~~~~~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~il~qa 212 (384)
T cd06393 141 SATVVYDDSTGLIRLQELIMAPSRYNIRLKIRQLPTDSDDARPLLKEMKRGREFRIIFDCSHQMAAQILKQA 212 (384)
T ss_pred EEEEEEeCchhHHHHHHHHHhhhccCceEEEEECCCCchHHHHHHHHHhhcCceEEEEECCHHHHHHHHHHH
Confidence 999999987788888899888888899988766653 5899999999999999999999999999999986
No 9
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=99.95 E-value=1.4e-26 Score=175.04 Aligned_cols=145 Identities=23% Similarity=0.480 Sum_probs=125.5
Q ss_pred hHHHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCC--CCCcccEEEecCChhHHHHHHHHHHHhcCCc
Q psy18065 2 AEATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE--LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWT 79 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~--~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~ 79 (149)
+++.+|+++++||.|||||.+|..+.+++++|+.++||+|+++++.. ...++|+||+.|+ +..++++++++|||+
T Consensus 51 ~~~~~c~ll~~~V~aiiGp~~s~~~~~~~~~~~~~~iP~i~~~~~~~~l~~~~~~~fr~~p~---~~~a~~~~~~~~~wk 127 (382)
T cd06380 51 LTNAICSQLSRGVFAIFGSYDKSSVNTLTSYSDALHVPFITPSFPTNDLDDGNQFVLQMRPS---LIQALVDLIEHYGWR 127 (382)
T ss_pred HHHHHHHHHhcCcEEEEecCcHHHHHHHHHHHhcCCCCeEecCCCcccCCCCCcEEEEeccc---hhHHHHHHHHhcCCe
Confidence 67889999999999999999999999999999999999999986432 3567899999997 356899999999999
Q ss_pred EEEEEeecCcchhhHHHHHhCCCCCC--ceEEEEecCC----CchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 80 KVAIVYEEDNGLFKLQELVKTPPTLK--TEMYIRHANP----STYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 80 ~v~vi~~~~~~~~~l~~l~~~~~~~~--~~v~~~~~~~----~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+|+++|+++++...++.+.+.+++.| +.+..+++.. .|++.+|++||++++++||++|+.+.+..+++||
T Consensus 128 ~vaii~~~~~~~~~~~~~~~~~~~~g~~i~v~~~~~~~~~~~~d~~~~L~~ik~~~~~~iil~~~~~~~~~i~~qa 203 (382)
T cd06380 128 KVVYLYDSDRGLLRLQQLLDYLREKDNKWQVTARRVDNVTDEEEFLRLLEDLDRRKEKRIVLDCESERLNKILEQI 203 (382)
T ss_pred EEEEEECCCcchHHHHHHHHHHhccCCceEEEEEEecCCCcHHHHHHHHHHhhcccceEEEEECCHHHHHHHHHHH
Confidence 99999998778888999888877777 5555544432 3799999999999999999999999999999986
No 10
>cd06377 PBP1_iGluR_NMDA_NR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=99.94 E-value=2.6e-25 Score=166.70 Aligned_cols=148 Identities=12% Similarity=0.182 Sum_probs=124.3
Q ss_pred hHHHHHHH-hhCCcEEEEcC-CCCCcHHHHHHhhcccCCCceeecc-C-CC-C-CCcccEEEecCChhHHHHHHHHHHHh
Q psy18065 2 AEATMCRQ-LQNGVQALFGP-SDALLGPHVQSICEALDVPHMESRL-D-LE-L-NSKEFSVNLYPSQKLLNAAFKDVIRF 75 (149)
Q Consensus 2 ~~~~~c~~-~~~~v~aiiGp-~~s~~~~~v~~~~~~~~iP~is~~~-~-~~-~-~~~~~~~~~~p~~~~~~~ai~~ll~~ 75 (149)
+++++|++ +++||.||||| .++.++.++.++|+.++||+|+++. + +. + +...+.++++|+...++.++++++++
T Consensus 69 ~~~~vC~~ll~~GV~AIfg~p~s~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P~~~~l~~a~~~ll~~ 148 (382)
T cd06377 69 LLRSVCQTVVVQGVSALLAFPQTRPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWASPLSTLLDVLLSVLQR 148 (382)
T ss_pred HHHHHHHhHhhCCeEEEEecCCCHHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecCCHHHHHHHHHHHHHH
Confidence 57889999 59999999994 8778889999999999999999953 3 21 1 22233456699999999999999999
Q ss_pred cCCcEEEEEeecCcchhhHHHHHhCCCCCC--ceEEEEecC----C-Cch-HHHHHHHHhCC-CceEEEecCchhHHHHH
Q psy18065 76 LNWTKVAIVYEEDNGLFKLQELVKTPPTLK--TEMYIRHAN----P-STY-RNVLREIRQKE-IFNLIIDTSTTHISQFF 146 (149)
Q Consensus 76 ~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~--~~v~~~~~~----~-~d~-~~~l~~i~~~~-~~~iil~~~~~~~~~il 146 (149)
|||++|++||+.++|..+++++.+.....+ ..+.+++.+ + .++ +.+|++|+++. .++|+++|+.+.+..+|
T Consensus 149 ~~W~~f~~iy~~~~gl~~lq~l~~~~~~~~~~~~i~v~~~~~~~~d~~~~~~~~L~~i~~~~~~~~ill~cs~e~~~~il 228 (382)
T cd06377 149 NGWEDVSLVLCRERDPTGLLLLWTNHARFHLGSVLNLSRNDPSTADLLDFLRAQLELLKDPPGPAVVLFGCDVARARRVL 228 (382)
T ss_pred CCCcEEEEEEecCcCHHHHHHHHHHhcccccCceEEEEeccCccCChhHHHHHHHHHhhcccCceEEEEECCHHHHHHHH
Confidence 999999999999999999999998765544 456666664 2 456 99999999999 99999999999999999
Q ss_pred hhC
Q psy18065 147 RAV 149 (149)
Q Consensus 147 ~qA 149 (149)
+||
T Consensus 229 ~~~ 231 (382)
T cd06377 229 ELT 231 (382)
T ss_pred Hhh
Confidence 986
No 11
>cd06391 PBP1_iGluR_delta_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta2 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are closer related to non-NMDA receptors. GluRdelta2 was shown to function as a
Probab=99.93 E-value=3.1e-25 Score=168.66 Aligned_cols=147 Identities=18% Similarity=0.372 Sum_probs=120.3
Q ss_pred hHHHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceee----cc----C--C--CCCCcccEEEecCChhHHHHHH
Q psy18065 2 AEATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMES----RL----D--L--ELNSKEFSVNLYPSQKLLNAAF 69 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~----~~----~--~--~~~~~~~~~~~~p~~~~~~~ai 69 (149)
+++++|+++++||.|||||.++..+..++++|+.++||+|++ +. + + +.+..+|.++++|+ ..+..++
T Consensus 51 a~~~~c~l~~~gv~ai~Gp~~~~~~~~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y~~~~rp~-~~~~~ai 129 (400)
T cd06391 51 AVQEACELMNQGILALVSSIGCTSAGSLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDYTLSVRPP-VYLNDVI 129 (400)
T ss_pred HHHHHHHHHhCCeEEEECCCcchHHHHHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccceEEecCh-HHHHHHH
Confidence 578899999999999999999999999999999999999984 11 1 1 12234566666676 5789999
Q ss_pred HHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCC-------chHH-HHHHHHh--CCCceEEEecCc
Q psy18065 70 KDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPS-------TYRN-VLREIRQ--KEIFNLIIDTST 139 (149)
Q Consensus 70 ~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~-------d~~~-~l~~i~~--~~~~~iil~~~~ 139 (149)
++++++|+|++++++|++++|..+++.+.+.+++.++|+..+++... .++. .+++|++ ++.++||++|+.
T Consensus 130 ~~li~~f~W~~v~i~~d~~~~~~~l~~l~~~~~~~~i~I~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~rviVl~~~~ 209 (400)
T cd06391 130 LRVVTEYAWQKFIIFYDTDYDIRGIQEFLDKVSQQGMDVALQKVENNINKMITGLFRTMRIEELNRYRDTLRRAILVMNP 209 (400)
T ss_pred HHHHHHcCCcEEEEEEeCCccHHHHHHHHHHHHHcCCeEEEEecCcchhhhhHHHHHHHHHHHHHhhcccccEEEEECCc
Confidence 99999999999999999999999999999998889999988665321 1222 4566766 667999999999
Q ss_pred hhHHHHHhhC
Q psy18065 140 THISQFFRAV 149 (149)
Q Consensus 140 ~~~~~il~qA 149 (149)
+.+..+|+||
T Consensus 210 ~~~~~ll~~a 219 (400)
T cd06391 210 ATAKSFITEV 219 (400)
T ss_pred HHHHHHHHHH
Confidence 9999999986
No 12
>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=99.93 E-value=1e-25 Score=174.02 Aligned_cols=140 Identities=16% Similarity=0.276 Sum_probs=121.6
Q ss_pred hhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--C-CCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEe
Q psy18065 10 LQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--E-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVY 85 (149)
Q Consensus 10 ~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~ 85 (149)
.+.+|.|||||.+|..+.+++++++.++||+|++++. + + ...++|+||+.|++..+++++++++++|||+||+++|
T Consensus 102 ~~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~sts~~Ls~~~~~~~ffRt~psd~~qa~ai~~ll~~~~W~~Vaii~ 181 (458)
T cd06375 102 SPLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYASTSAKLSDKSRYDYFARTVPPDFYQAKAMAEILRFFNWTYVSTVA 181 (458)
T ss_pred CCCCeEEEEcCCCchHHHHHHHHhhhccccceeeccCChhhcccccCCCeEEecCCcHHHHHHHHHHHHHCCCeEEEEEE
Confidence 4568999999999999999999999999999999753 2 2 2456899999999999999999999999999999999
Q ss_pred ec-CcchhhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHh-CCCceEEEecCchhHHHHHhhC
Q psy18065 86 EE-DNGLFKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQ-KEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 86 ~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~-~~~~~iil~~~~~~~~~il~qA 149 (149)
++ ++|...++.+.+.+++.|+|+... .++ . .|+..++++|++ +++++||+++..+.+..+++||
T Consensus 182 ~~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~l~~~~~a~vVvl~~~~~~~~~ll~~a 252 (458)
T cd06375 182 SEGDYGETGIEAFEQEARLRNICIATSEKVGRSADRKSYDSVIRKLLQKPNARVVVLFTRSEDARELLAAA 252 (458)
T ss_pred eCchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCCHHHHHHHHHHHhccCCCEEEEEecChHHHHHHHHHH
Confidence 87 689999999999888889998653 343 1 478999999875 6889999999999999999885
No 13
>cd06351 PBP1_iGluR_N_LIVBP_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NMDA, AMPA, and kainate receptor subtypes of ionotropic glutamate receptors (iGluRs). While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors characterized by their response to glutamate agonists: N-methyl-aspartate (NMDA) and non-NMDA receptors
Probab=99.93 E-value=1.5e-24 Score=160.07 Aligned_cols=148 Identities=32% Similarity=0.607 Sum_probs=127.0
Q ss_pred hHHHHHHHh-hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCC----CCCcccEEEecCChhHHHHHHHHHHHhc
Q psy18065 2 AEATMCRQL-QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE----LNSKEFSVNLYPSQKLLNAAFKDVIRFL 76 (149)
Q Consensus 2 ~~~~~c~~~-~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~----~~~~~~~~~~~p~~~~~~~ai~~ll~~~ 76 (149)
+.+.+|+++ .++|.+|+||.++..+.+++++|+.++||+|++++... ...++|++|+.|++..++.++++++++|
T Consensus 51 ~~~~~c~l~~~~~v~ai~G~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~ 130 (328)
T cd06351 51 LLRAVCDLLVSQGVAAIFGPTSSESASAVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYY 130 (328)
T ss_pred HHHHHHHHHhccCcEEEECCCCHHHHHHHHHHhccCCCCeEEeecCcccccccccccceEEecCCHHHHHHHHHHHHHHc
Confidence 467899999 78999999999999999999999999999999975422 1356899999999999999999999999
Q ss_pred CCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCC--CchHHHHHHHHhCCCceEEEecCc-hhHHHHHhhC
Q psy18065 77 NWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANP--STYRNVLREIRQKEIFNLIIDTST-THISQFFRAV 149 (149)
Q Consensus 77 ~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~--~d~~~~l~~i~~~~~~~iil~~~~-~~~~~il~qA 149 (149)
+|++++++|+++.+...++.+.+.....+..+..+.++. .+++++++++++.++++||++|.. +.+..+++||
T Consensus 131 ~w~~v~iiy~~~~~~~~l~~~~~~~~~~~~~v~~~~~~~~~~~~~~~l~~l~~~~~~~vil~~~~~~~~~~~l~~a 206 (328)
T cd06351 131 NWTKFAIIYDSDEGLSRLQELLDESGIKGIQVTVRRLDLDDDNYRQLLKELKRSESRRIILDCSSEEEAKEILEQA 206 (328)
T ss_pred CCcEEEEEEeCchHHHHHHHHHHhhcccCceEEEEEecCCchhHHHHHHHHhhcccceEEEECCcHHHHHHHHHHH
Confidence 999999999998888888888887665566666666654 359999999999998778888877 8889999885
No 14
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=99.93 E-value=3.7e-25 Score=168.54 Aligned_cols=138 Identities=13% Similarity=0.172 Sum_probs=119.2
Q ss_pred CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--C-CCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 12 NGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--E-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 12 ~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
++|.|||||.+|+.+.+++++++.++||+|++++. + + ..+++|+||+.|++..+++++++++++|||+||++|+++
T Consensus 102 ~~V~aVIG~~~S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~ 181 (403)
T cd06361 102 PRIKAVIGAGYSEISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITD 181 (403)
T ss_pred CCeEEEECCCcchHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEec
Confidence 47999999999999999999999999999999853 2 2 246689999999999999999999999999999999987
Q ss_pred -CcchhhHHHHHhCCCCCCceEEEEe-cCC---------CchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 88 -DNGLFKLQELVKTPPTLKTEMYIRH-ANP---------STYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 88 -~~~~~~l~~l~~~~~~~~~~v~~~~-~~~---------~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
++|....+.+.+.+++.|+|+.... ++. .++..+++.++.+++++||+.+..+.+..+++||
T Consensus 182 d~yG~~~~~~f~~~~~~~GicIa~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv~~~~~~~~~l~~~a 254 (403)
T cd06361 182 DDYGRSALETFIIQAEANGVCIAFKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVVFARQFHVFLLFNKA 254 (403)
T ss_pred CchHHHHHHHHHHHHHHCCeEEEEEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEEEeChHHHHHHHHHH
Confidence 6899999999999988999987543 332 2345666678999999999999999999999985
No 15
>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=99.93 E-value=1.2e-25 Score=174.09 Aligned_cols=143 Identities=15% Similarity=0.136 Sum_probs=120.4
Q ss_pred HHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--C-CCCcccEEEecCChhHHHHHHHHHHHhcCCcE
Q psy18065 5 TMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--E-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTK 80 (149)
Q Consensus 5 ~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~ 80 (149)
..|.. .++++|+|||.+|..+.+++++++.++||+|++++. + + ...++|+||+.|++..++.++++++++|||+|
T Consensus 96 ~~C~~-~~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~sts~~lsd~~~yp~ffRt~psd~~q~~ai~~li~~f~W~~ 174 (469)
T cd06365 96 YSCRR-QRKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPFDPLLSDRVQFPSLYQMAPKDTSLPLGMVSLMLHFSWTW 174 (469)
T ss_pred ccCCC-CCceEEEEcCCccHHHHHHHHHhhhhcccceeeccCCccccchhhCCcceEecCCchhHHHHHHHHHHhcCCeE
Confidence 34553 356999999999999999999999999999999753 2 2 24568999999999999999999999999999
Q ss_pred EEEEeec-CcchhhHHHHHhCCCCCCceEEEEe-cCC------CchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 81 VAIVYEE-DNGLFKLQELVKTPPTLKTEMYIRH-ANP------STYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 81 v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~~-~~~------~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
|++||.+ ++|...++.+.+.+++.|+|+...+ ++. .++..++++|+++++++||++++.+.+..++.+
T Consensus 175 Vaiv~~d~~yg~~~~~~~~~~~~~~gi~I~~~~~i~~~~~~~~~~~~~~l~~i~~~~arvIvl~~~~~~~~~l~~~ 250 (469)
T cd06365 175 VGLVISDDDRGEQFLSDLREEMQRNGICLAFVEKIPVNMQLYLTRAEKYYNQIMTSSAKVIIIYGDTDSLLEVSFR 250 (469)
T ss_pred EEEEEecChhHHHHHHHHHHHHHHCCeEEEEEEEecCCchhhHHHHHHHHHHhhcCCCeEEEEEcCcHHHHHHHHH
Confidence 9998876 6899999999999888999987643 431 267889999999999999999998777665443
No 16
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=99.93 E-value=1.5e-24 Score=160.38 Aligned_cols=148 Identities=32% Similarity=0.675 Sum_probs=126.6
Q ss_pred hHHHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEE
Q psy18065 2 AEATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v 81 (149)
+.+.+|++++++|.+||||.+|..+.+++++++.++||+|++++.......++.+++.|++..++.++++++++|+|+++
T Consensus 51 a~~~a~~li~~~V~aiiG~~~S~~~~av~~i~~~~~ip~is~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~w~~v 130 (324)
T cd06368 51 LTNKACDLLSQGVAAIFGPSSSSSANTVQSICDALEIPHITTSWSPNPKPRQFTINLYPSMRDLSDALLDLIKYFGWRKF 130 (324)
T ss_pred HHHHHHHHHhcCcEEEECCCCHHHHHHHHHHHhccCCCcEEecCCcCCCCCcceEEecCCHHHHHHHHHHHHHhcCCCEE
Confidence 46778999988999999999999999999999999999999875432111345567778888899999999999999999
Q ss_pred EEEeecCcchhhHHHHHhCCCCCCceEEEEecCC--CchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 82 AIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANP--STYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 82 ~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~--~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++|+++.+...++.+.+...+.|+++....+.+ .|++++|.+|++.++++||+.|..+.+..+++||
T Consensus 131 aii~~~~~~~~~l~~~~~~~~~~g~~v~~~~~~~~~~d~~~~l~~i~~~~~d~Vi~~~~~~~~~~i~~qa 200 (324)
T cd06368 131 VYIYDSDEGLLRLQELLDALSPKGIQVTVRRLDDDTDMYRPLLKEIKREKERRIILDCSPERLKEFLEQA 200 (324)
T ss_pred EEEECCcHhHHHHHHHHHhhccCCceEEEEEecCCchHHHHHHHHHhhccCceEEEECCHHHHHHHHHHH
Confidence 9999988788888888888777788887655543 3699999999999999999999999999999985
No 17
>cd06381 PBP1_iGluR_delta_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. This CD represents the N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are more homologous to non-NMDA receptors. G
Probab=99.93 E-value=1.4e-24 Score=163.22 Aligned_cols=147 Identities=17% Similarity=0.321 Sum_probs=119.9
Q ss_pred hHHHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCC------------CCCcccEEEecCChhHHHHHH
Q psy18065 2 AEATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE------------LNSKEFSVNLYPSQKLLNAAF 69 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~------------~~~~~~~~~~~p~~~~~~~ai 69 (149)
+++.+|+++++||.|||||.++..+.+++++|+.++||+|++.+... ....+|.|+++|++ .+..++
T Consensus 51 a~~~~c~Li~~gV~AI~G~~~s~~~~av~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~-~~~~ai 129 (363)
T cd06381 51 AVQEACDLMNQGILALVTSTGCASAIALQSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPV-RLNDVM 129 (363)
T ss_pred HHHHHHHHHhcCcEEEEecCChhHHHHHHHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccH-HHHHHH
Confidence 67889999998999999999999999999999999999999764210 12346778888985 689999
Q ss_pred HHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCC---CchHHHHHHHH-------hCCCceEEEecCc
Q psy18065 70 KDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANP---STYRNVLREIR-------QKEIFNLIIDTST 139 (149)
Q Consensus 70 ~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~---~d~~~~l~~i~-------~~~~~~iil~~~~ 139 (149)
++++++|||++|+++|++++|..+++.+.+.++..|+.+.+...+. ..+..+++.++ +...++||++|++
T Consensus 130 ~~lv~~~~wkkvavly~~d~g~~~l~~~~~~~~~~g~~v~~~~~~~~~~~~~~~l~~~~~~~~l~~~~~~~~~vIl~~~~ 209 (363)
T cd06381 130 LRLVTEWRWQKFVYFYDNDYDIRGLQEFLDQLSRQGIDVLLQKVDLNISKMATALFTTMRCEELNRYRDTLRRALLLLSP 209 (363)
T ss_pred HHHHHhCCCeEEEEEEECCchHHHHHHHHHHHHhcCceEEEEecccccchhhhhhhhHHHHHHHHhhcccceEEEEEcCc
Confidence 9999999999999999998899999999988877787666555432 13445555443 5566799999999
Q ss_pred hhHHHHHhhC
Q psy18065 140 THISQFFRAV 149 (149)
Q Consensus 140 ~~~~~il~qA 149 (149)
+.+..+++||
T Consensus 210 ~~~~~~l~~a 219 (363)
T cd06381 210 NGAYTFIDAS 219 (363)
T ss_pred HHHHHHHHHH
Confidence 9999999986
No 18
>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=99.93 E-value=9e-25 Score=165.62 Aligned_cols=137 Identities=15% Similarity=0.237 Sum_probs=116.3
Q ss_pred CCcEEEEcCCCCCcHHHHHHhhcccCCCceeecc-CCC--C--CCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEee
Q psy18065 12 NGVQALFGPSDALLGPHVQSICEALDVPHMESRL-DLE--L--NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYE 86 (149)
Q Consensus 12 ~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~-~~~--~--~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~ 86 (149)
++|.|||||.|+..+.+++++++.++||+|+++. ++. + ..++|++|+.|++..++.++++++++|+|++|++||+
T Consensus 66 ~~v~aiiGp~~s~~~~~va~ia~~~~iP~Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy~ 145 (387)
T cd06386 66 RKPDLILGPVCEYAAAPVARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVYE 145 (387)
T ss_pred hCCCEEECCCCccHHHHHHHHHHhCCCcEEccccCchhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEEE
Confidence 4899999999999999999999999999999874 222 2 2467799999999999999999999999999999998
Q ss_pred cC-cchh---hHHHHHhCCCCCCceEEEEecC---CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 87 ED-NGLF---KLQELVKTPPTLKTEMYIRHAN---PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 87 ~~-~~~~---~l~~l~~~~~~~~~~v~~~~~~---~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
++ ++.. .++.+.+.++..|+++...+.. ..|+.++|+++++++ ++||++++.+.++.+++||
T Consensus 146 ~~~~~~~~~~~~~~l~~~~~~~gi~v~~~~~~~~~~~d~~~~l~~ik~~~-rvii~~~~~~~~~~ll~~A 214 (387)
T cd06386 146 DDKQERNCYFTLEGVHHVFQEEGYHMSIYPFDETKDLDLDEIIRAIQASE-RVVIMCAGADTIRSIMLAA 214 (387)
T ss_pred cCCCCccceehHHHHHHHHHhcCceEEEEecCCCCcccHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHH
Confidence 74 5433 4778888888888888765543 258999999999998 8888888889999999986
No 19
>cd06382 PBP1_iGluR_Kainate N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the kainate receptors, non-NMDA ionotropic receptors which respond to the neurotransmitter glutamate. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Kainate receptors have five subunits, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeri
Probab=99.93 E-value=2.7e-24 Score=159.45 Aligned_cols=148 Identities=34% Similarity=0.665 Sum_probs=124.3
Q ss_pred hHHHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCC-CCCcccEEEecCChhHHHHHHHHHHHhcCCcE
Q psy18065 2 AEATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTK 80 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~ 80 (149)
+.+.+|++++++|.+||||.+|..+.+++++++.++||+|++++... ....+|+||+.|++..++.++++++++++|++
T Consensus 52 a~~~~~~li~~~V~aiiG~~~S~~~~av~~~~~~~~vP~Is~~~~~~~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~ 131 (327)
T cd06382 52 TTKKVCDLLQQGVAAIFGPSSSEASSIVQSICDAKEIPHIQTRWDPEPKSNRQFTINLYPSNADLSRAYADIVKSFNWKS 131 (327)
T ss_pred HHHHhhhhhhcCcEEEECCCChhHHHHHHHHHhccCCCceeccCCcCccccccceEEeCCCHHHHHHHHHHHHHhcCCcE
Confidence 56788999988999999999999999999999999999999875322 12456789999999999999999999999999
Q ss_pred EEEEeecCcchhhHHHHHhCCCCCCceEEEEecCC-CchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 81 VAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANP-STYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 81 v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~-~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
++++|+++.+...++++.+.....|..+....+++ .|++++|.+|+++++++|++.|....+..+++||
T Consensus 132 vavl~~~~~~~~~l~~~~~~~~~~g~~v~~~~~~~~~d~~~~l~~i~~~~~d~vv~~~~~~~~~~~~~qa 201 (327)
T cd06382 132 FTIIYESAEGLLRLQELLQAFGISGITITVRQLDDDLDYRPLLKEIKNSGDNRIIIDCSADILIELLKQA 201 (327)
T ss_pred EEEEecChHHHHHHHHHHHhhccCCCeEEEEEccCCccHHHHHHHHHhcCceEEEEECCHHHHHHHHHHH
Confidence 99999987666667776665444444555555543 3899999999999999999999999999999985
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=99.93 E-value=1.5e-24 Score=162.87 Aligned_cols=148 Identities=11% Similarity=0.110 Sum_probs=124.3
Q ss_pred hHHHHHHHhh-CCcEEEEcCCCCCc---HHHHHHhhcccCCCceeeccC---C-C-CCCcccEEEecCChhHHHHHHHHH
Q psy18065 2 AEATMCRQLQ-NGVQALFGPSDALL---GPHVQSICEALDVPHMESRLD---L-E-LNSKEFSVNLYPSQKLLNAAFKDV 72 (149)
Q Consensus 2 ~~~~~c~~~~-~~v~aiiGp~~s~~---~~~v~~~~~~~~iP~is~~~~---~-~-~~~~~~~~~~~p~~~~~~~ai~~l 72 (149)
+.+..|+++. ++|.+|+||.+|.. +.+++++++.++||+|++++. . + ...++|+||+.|++..++.+++++
T Consensus 51 ~~~~~~~~l~~~~v~~iig~~~s~~~~~~~~~~~v~~~~~iP~Is~~~~~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~l 130 (362)
T cd06367 51 LLLSVCDLLVVQVVAGVVFSDPTDEEAVAQILDFTSAQTRIPVVGISGRESIFMSDKNIHSLFLQTGPSLEQQADVMLEI 130 (362)
T ss_pred HHHHHHHHhcccceEEEEecCCCCccchhhhhhhhhhhhcCcEEEeeccccccccCCCcccceEeecCcHHHHHHHHHHH
Confidence 3567899885 57999999999998 999999999999999998742 2 2 246788999999999999999999
Q ss_pred HHhcCCcEEEEEeec-CcchhhHHHHHhCCCCCCce--EEE-EecC--CC-chHHHHHHHHhCCCceEEEecCchhHHHH
Q psy18065 73 IRFLNWTKVAIVYEE-DNGLFKLQELVKTPPTLKTE--MYI-RHAN--PS-TYRNVLREIRQKEIFNLIIDTSTTHISQF 145 (149)
Q Consensus 73 l~~~~W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~--v~~-~~~~--~~-d~~~~l~~i~~~~~~~iil~~~~~~~~~i 145 (149)
+++|||++|++||++ ++|...++.+.+.+++.|+| +.. ..++ .. ++..++.++++.++++||++|+.+.+..+
T Consensus 131 l~~~~w~~vaii~~~~~~g~~~~~~l~~~l~~~g~~~~i~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~i 210 (362)
T cd06367 131 LEEYDWHQFSVVTSRDPGYRDFLDRVETTLEESFVGWEFQLVLTLDLSDDDGDARLLRQLKKLESRVILLYCSKEEAERI 210 (362)
T ss_pred HHHcCCeEEEEEEEcCcccHHHHHHHHHHHHhcccceeeeeeEEeccCCCcchHHHHHHHHhcCCcEEEEeCCHHHHHHH
Confidence 999999999999997 57777777777777777877 432 2222 23 78999999999999999999999999999
Q ss_pred HhhC
Q psy18065 146 FRAV 149 (149)
Q Consensus 146 l~qA 149 (149)
++||
T Consensus 211 l~~a 214 (362)
T cd06367 211 FEAA 214 (362)
T ss_pred HHHH
Confidence 9885
No 21
>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=99.92 E-value=7.7e-24 Score=159.19 Aligned_cols=148 Identities=13% Similarity=0.138 Sum_probs=113.0
Q ss_pred hHHHHHHHhhC-CcEEEE-cCCCCC--cHHHHHHhhcccCCCceeecc----CCC-CCCcccEEEecCChhHHHHHHHHH
Q psy18065 2 AEATMCRQLQN-GVQALF-GPSDAL--LGPHVQSICEALDVPHMESRL----DLE-LNSKEFSVNLYPSQKLLNAAFKDV 72 (149)
Q Consensus 2 ~~~~~c~~~~~-~v~aii-Gp~~s~--~~~~v~~~~~~~~iP~is~~~----~~~-~~~~~~~~~~~p~~~~~~~ai~~l 72 (149)
+.+.+|+++.+ +|.|+| ||.++. .+..++.+++.++||+|+++. ..+ .+.++|++|+.|++..++++++++
T Consensus 50 ~~~~vC~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr~~Psd~~q~~Ai~~I 129 (362)
T cd06378 50 ILTQLCDLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQFGPSIEQQAAVMLKI 129 (362)
T ss_pred HHHHHHHHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEecccccccccCCCCCceEEEeCCCHHHHHHHHHHH
Confidence 46789999976 599755 999987 446777788889999999862 112 356789999999999999999999
Q ss_pred HHhcCCcEEEEEeecCcchh-hHHHHHhCCCCCCceEEEE-----ecCC-CchHHHHHHHHhCCCceEEEecCchhHHHH
Q psy18065 73 IRFLNWTKVAIVYEEDNGLF-KLQELVKTPPTLKTEMYIR-----HANP-STYRNVLREIRQKEIFNLIIDTSTTHISQF 145 (149)
Q Consensus 73 l~~~~W~~v~vi~~~~~~~~-~l~~l~~~~~~~~~~v~~~-----~~~~-~d~~~~l~~i~~~~~~~iil~~~~~~~~~i 145 (149)
+++|+|++|++||+.+.|.. .++.+.+.....++|..+. .... .+...+++.+++.++++||++|+.+.+..+
T Consensus 130 i~~f~W~~v~iV~~~~~g~~~~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~lk~~~arViVl~~s~~~a~~i 209 (362)
T cd06378 130 MEEYDWHAFSVVTSRFPGYDDFVSAVRTTVDNSFVGWELQSVLTLDMSDDDGDARTQRQLKKLESQVILLYCSKEEAEYI 209 (362)
T ss_pred HHHCCCeEEEEEEEcCCCHHHHHHHHHHHHhhcccceeEEEEEeeccCCCcchHHHHHHHHhcCCCEEEEECCHHHHHHH
Confidence 99999999999999865443 3333333332333454332 1112 247889999999999999999999999999
Q ss_pred HhhC
Q psy18065 146 FRAV 149 (149)
Q Consensus 146 l~qA 149 (149)
|+||
T Consensus 210 f~~A 213 (362)
T cd06378 210 FRAA 213 (362)
T ss_pred HHHH
Confidence 9986
No 22
>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=99.92 E-value=1.6e-24 Score=169.18 Aligned_cols=139 Identities=12% Similarity=0.214 Sum_probs=121.3
Q ss_pred hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--C-CCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEee
Q psy18065 11 QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--E-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYE 86 (149)
Q Consensus 11 ~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~ 86 (149)
..++.|||||.+|..+.+++++++.++||+|++++. + + ...++|+||+.|++..++.++++++++|||+||++|++
T Consensus 116 ~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls~~~~yp~ffRt~psd~~q~~Ai~~l~~~f~wk~VaiI~~ 195 (510)
T cd06364 116 IPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLSNKNQFKSFLRTIPNDEHQATAMADIIEYFRWNWVGTIAA 195 (510)
T ss_pred CCceEEEECCCchhHHHHHHHHhccccccccccccCCcccCCccccCCeeEcCCChHHHHHHHHHHHHHcCCeEEEEEEe
Confidence 346889999999999999999999999999998753 2 2 24568899999999999999999999999999999987
Q ss_pred c-CcchhhHHHHHhCCCCCCceEEEEe-cC----CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 87 E-DNGLFKLQELVKTPPTLKTEMYIRH-AN----PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 87 ~-~~~~~~l~~l~~~~~~~~~~v~~~~-~~----~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+ ++|...++.+.+.+++.|+|+...+ ++ ..|+.+++++|+++++++||+++....+..+++||
T Consensus 196 dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~~~~~d~~~~l~klk~~~a~vVvl~~~~~~~~~ll~qa 264 (510)
T cd06364 196 DDDYGRPGIEKFREEAEERDICIDFSELISQYSDEEEIQRVVEVIQNSTAKVIVVFSSGPDLEPLIKEI 264 (510)
T ss_pred cCcchHHHHHHHHHHHHHCCcEEEEEEEeCCCCCHHHHHHHHHHHHhcCCeEEEEEeCcHHHHHHHHHH
Confidence 6 6899999999998888999987533 22 25789999999999999999999999999999885
No 23
>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=99.92 E-value=1.5e-24 Score=167.71 Aligned_cols=140 Identities=14% Similarity=0.267 Sum_probs=118.5
Q ss_pred hhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--CC-CCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEe
Q psy18065 10 LQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--EL-NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVY 85 (149)
Q Consensus 10 ~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~~-~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~ 85 (149)
.+++|.|||||.+|..+.+++++++.++||+|++++. + ++ ..++|+||+.|++..++.++++++++|||++|++||
T Consensus 100 ~~~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~ats~~ls~~~~~~~ffR~~p~d~~~~~ai~~~i~~~~w~~Vaii~ 179 (463)
T cd06376 100 KPEKVVGVIGASASSVSIMVANILRLFQIPQISYASTAPELSDDRRYDFFSRVVPPDSFQAQAMVDIVKALGWNYVSTLA 179 (463)
T ss_pred CCCCeEEEECCCCchHHHHHHHHhccccCcccccccCChhhcccccCCceEEccCCHHHHHHHHHHHHHHcCCeEEEEEE
Confidence 3468999999999999999999999999999998643 2 22 356889999999999999999999999999999999
Q ss_pred ec-CcchhhHHHHHhCCCCC-CceEEEE-ec--CC--CchHHHHHHHHh-CCCceEEEecCchhHHHHHhhC
Q psy18065 86 EE-DNGLFKLQELVKTPPTL-KTEMYIR-HA--NP--STYRNVLREIRQ-KEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 86 ~~-~~~~~~l~~l~~~~~~~-~~~v~~~-~~--~~--~d~~~~l~~i~~-~~~~~iil~~~~~~~~~il~qA 149 (149)
++ ++|...++.+.+.+++. ++|+... .+ .. .|+.+++++||+ +++++||+++..+.+..+++||
T Consensus 180 ~~~~yg~~~~~~~~~~~~~~g~~~v~~~~~i~~~~~~~d~~~~l~~ik~~~~~~vIvl~~~~~~~~~ll~~a 251 (463)
T cd06376 180 SEGNYGESGVEAFTQISREAGGVCIAQSIKIPREPRPGEFDKIIKRLLETPNARAVIIFANEDDIRRVLEAA 251 (463)
T ss_pred eCChHHHHHHHHHHHHHHHcCCceEEEEEecCCCCCHHHHHHHHHHHhccCCCeEEEEecChHHHHHHHHHH
Confidence 75 78988899988877665 5777542 22 22 589999999987 6999999999999999999875
No 24
>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=99.91 E-value=2.7e-23 Score=156.97 Aligned_cols=148 Identities=12% Similarity=0.178 Sum_probs=120.6
Q ss_pred hHHHHHH-HhhCCcEEEEc-CC-CCC---cHHHHHHhhcccCCCceeeccC-C--CC-CCcccEEEecCChhHHHHHHHH
Q psy18065 2 AEATMCR-QLQNGVQALFG-PS-DAL---LGPHVQSICEALDVPHMESRLD-L--EL-NSKEFSVNLYPSQKLLNAAFKD 71 (149)
Q Consensus 2 ~~~~~c~-~~~~~v~aiiG-p~-~s~---~~~~v~~~~~~~~iP~is~~~~-~--~~-~~~~~~~~~~p~~~~~~~ai~~ 71 (149)
++..+|+ +++++|.||+| +. ++. .+.+++.+++.++||+|++++. + ++ ..++|+||+.|++..++.++++
T Consensus 68 ~a~~~~~~Li~~~V~aii~~~~~ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~ 147 (377)
T cd06379 68 TALSVCEQLISNQVYAVIVSHPPTSNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLE 147 (377)
T ss_pred HHHHHHHHHhhcceEEEEEeCCCCCcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHHHHHHHH
Confidence 3556896 46789999974 33 332 4778899999999999998753 2 22 3468899999999999999999
Q ss_pred HHHhcCCcEEEEEeec-CcchhhHHHHHhCCCCCCc----eEEE-EecCC--CchHHHHHHHHhCCCceEEEecCchhHH
Q psy18065 72 VIRFLNWTKVAIVYEE-DNGLFKLQELVKTPPTLKT----EMYI-RHANP--STYRNVLREIRQKEIFNLIIDTSTTHIS 143 (149)
Q Consensus 72 ll~~~~W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~----~v~~-~~~~~--~d~~~~l~~i~~~~~~~iil~~~~~~~~ 143 (149)
++++|+|++|+++|++ ++|...++.+.+.+++.|+ ++.. ..+++ .|+.+++++|++.++++||++|+.+.+.
T Consensus 148 ~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~~~~~v~~~~~~~~~~~d~~~~l~~ik~~~~~vIvl~~~~~~~~ 227 (377)
T cd06379 148 MLRSFKWNKVILLVSDDHEGRAAQKRFETLLEEREIEFKIKVEKVVEFEPGEKNVTSLLQEAKELTSRVILLSASEDDAA 227 (377)
T ss_pred HHHHcCCeEEEEEEEcCcchhHHHHHHHHHHHhcCCccceeeeEEEecCCchhhHHHHHHHHhhcCCeEEEEEcCHHHHH
Confidence 9999999999999997 5787788888888777888 6553 33543 5899999999999999999999999999
Q ss_pred HHHhhC
Q psy18065 144 QFFRAV 149 (149)
Q Consensus 144 ~il~qA 149 (149)
.+++||
T Consensus 228 ~l~~qa 233 (377)
T cd06379 228 VIYRNA 233 (377)
T ss_pred HHHHHH
Confidence 999885
No 25
>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=99.91 E-value=5.9e-24 Score=164.81 Aligned_cols=143 Identities=15% Similarity=0.271 Sum_probs=119.0
Q ss_pred HHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--CC-CCcccEEEecCChhHHHHHHHHHHHhcCCcEEE
Q psy18065 7 CRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--EL-NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVA 82 (149)
Q Consensus 7 c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~~-~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~ 82 (149)
|...+.+|.|||||.+|..+.+++++++.++||+|++++. + ++ ..++|+||+.|++..++.++++++++|+|+||+
T Consensus 111 ~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~~ls~~~~~p~~fRt~p~d~~~~~al~~l~~~~~W~~Va 190 (472)
T cd06374 111 PNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYFLRVVPSDTLQARAMLDIVKRYNWTYVS 190 (472)
T ss_pred cccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccCchhhcccccCCceEEcCCChHHHHHHHHHHHHHCCCcEEE
Confidence 4444668999999999999999999999999999999753 2 22 367899999999999999999999999999999
Q ss_pred EEeec-CcchhhHHHHHhCCCCCCceEEEE-ecC----CCchHHHHHHHHhC--CCceEEEecCchhHHHHHhhC
Q psy18065 83 IVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HAN----PSTYRNVLREIRQK--EIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 83 vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~----~~d~~~~l~~i~~~--~~~~iil~~~~~~~~~il~qA 149 (149)
+||++ ++|....+.+.+.+++.|+|+... .+. ..|+.+++++||++ .+++|++++....++.+++||
T Consensus 191 ii~~~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~lk~~~~da~vvv~~~~~~~~~~~l~~a 265 (472)
T cd06374 191 AVHTEGNYGESGMEAFKELAAHEGLCIAHSDKIYSNAGEQSFDRLLRKLRSRLPKARVVVCFCEGMTVRGLLMAM 265 (472)
T ss_pred EEEecchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCchHHHHHHHHHHHhcCCCcEEEEEEechHHHHHHHHHH
Confidence 99997 578888889988888889998753 332 25899999999975 445566667777788888774
No 26
>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=99.91 E-value=1.2e-23 Score=162.27 Aligned_cols=140 Identities=14% Similarity=0.229 Sum_probs=120.7
Q ss_pred hhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--C-CCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEe
Q psy18065 10 LQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--E-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVY 85 (149)
Q Consensus 10 ~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~ 85 (149)
.+++|.|||||.+|..+.+++++++.++||+|++++. + + ...++|+||+.|++..++.++++++++|+|++|++||
T Consensus 100 ~~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~~ls~~~~~~~~fR~~p~d~~~~~a~~~~l~~~~w~~vaii~ 179 (452)
T cd06362 100 SPKPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSPELSDKTRYDYFSRTVPPDSFQAQAMVDIVKAFNWTYVSTVA 179 (452)
T ss_pred CCCCeEEEECCCCCchHHHHHHHhccccCcccccccCchhhccccccCCEEEecCChHHHHHHHHHHHHHCCCcEEEEEE
Confidence 3468999999999999999999999999999998753 2 2 2467899999999999999999999999999999999
Q ss_pred ec-CcchhhHHHHHhCCCCCCceEEEE-ecC----CCchHHHHHHHHh-CCCceEEEecCchhHHHHHhhC
Q psy18065 86 EE-DNGLFKLQELVKTPPTLKTEMYIR-HAN----PSTYRNVLREIRQ-KEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 86 ~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~----~~d~~~~l~~i~~-~~~~~iil~~~~~~~~~il~qA 149 (149)
++ ++|....+.+.+.+++.|+|+... .++ ..|+.+++++|++ .++++||+++....+..+++||
T Consensus 180 ~~~~~G~~~~~~~~~~~~~~gi~i~~~~~~~~~~~~~d~~~~l~~l~~~~~a~viil~~~~~~~~~~~~~a 250 (452)
T cd06362 180 SEGNYGEKGIEAFEKLAAERGICIAGSEKIPSSATEEEFDNIIRKLLSKPNARVVVLFCREDDIRGLLAAA 250 (452)
T ss_pred eCCHHHHHHHHHHHHHHHHCCeeEEEEEEcCCCCCHHHHHHHHHHHhhcCCCeEEEEEcChHHHHHHHHHH
Confidence 97 578888899999888889998753 332 2489999999987 5788999999999999999885
No 27
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=99.90 E-value=1.2e-22 Score=151.39 Aligned_cols=148 Identities=16% Similarity=0.208 Sum_probs=127.4
Q ss_pred hHHHHHHHhh--------------CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-CC---CCCcccEEEecCChh
Q psy18065 2 AEATMCRQLQ--------------NGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LE---LNSKEFSVNLYPSQK 63 (149)
Q Consensus 2 ~~~~~c~~~~--------------~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~~---~~~~~~~~~~~p~~~ 63 (149)
+.+.+++++. ++|.+++||.+|..+.+++.+++.+++|+|++++. +. ...++|+||+.|++.
T Consensus 66 a~~~a~~li~~~~~~~~~~~~~~~~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~~~~ls~~~~~~~~fr~~p~~~ 145 (348)
T cd06350 66 ALRAALDLLLSGEGTTPPYSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSPLLSDKLQFPSFFRTVPSDT 145 (348)
T ss_pred HHHHHHHHHhcCCCCCCCCcCCCCCceEEEECCCccHHHHHHHHHHhcCcCceecccCCChhhccccccCCeeEecCCcH
Confidence 4566778876 48999999999999999999999999999998753 21 245689999999999
Q ss_pred HHHHHHHHHHHhcCCcEEEEEeec-CcchhhHHHHHhCCCCCCceEEEE-ecCC----CchHHHHHHHHhCCCceEEEec
Q psy18065 64 LLNAAFKDVIRFLNWTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HANP----STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 64 ~~~~ai~~ll~~~~W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~~----~d~~~~l~~i~~~~~~~iil~~ 137 (149)
.++.+++++++++||++++++|++ ++|....+.+.+.+++.|+|+... .++. .|+.+++++|+.+++++|++.+
T Consensus 146 ~~~~a~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vvv~~~ 225 (348)
T cd06350 146 SQALAIVALLKHFGWTWVGLVYSDDDYGRSGLSDLEEELEKNGICIAFVEAIPPSSTEEDIKRILKKLKSSTARVIVVFG 225 (348)
T ss_pred HHHHHHHHHHHHCCCeEEEEEEecchhHHHHHHHHHHHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHHhCCCcEEEEEe
Confidence 999999999999999999999987 578888888888888889998653 3432 4799999999999999999999
Q ss_pred CchhHHHHHhhC
Q psy18065 138 STTHISQFFRAV 149 (149)
Q Consensus 138 ~~~~~~~il~qA 149 (149)
....+..+++||
T Consensus 226 ~~~~~~~~~~~a 237 (348)
T cd06350 226 DEDDALRLFCEA 237 (348)
T ss_pred CcHHHHHHHHHH
Confidence 999999999875
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=99.90 E-value=2.1e-22 Score=152.91 Aligned_cols=143 Identities=18% Similarity=0.263 Sum_probs=118.6
Q ss_pred HHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--CC-CCcccEEEecCChhHHHHHHHHHHHhcCCcEE
Q psy18065 6 MCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--EL-NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 6 ~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~~-~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v 81 (149)
.|.+.+++|.|||||.+|..+.+++++++.++||+|++++. + +. ..++|+||+.|++..++.++++++++|+|+++
T Consensus 66 ~~~~~~~~v~aiiGp~~S~~~~av~~~~~~~~ip~Is~~as~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~v 145 (396)
T cd06373 66 VDLYFQHKPDAFLGPGCEYAAAPVARFAAHWNVPVLTAGAPAAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRA 145 (396)
T ss_pred HHHHhccCCeEEECCCccchhHHHHHHHhcCCCceECccCCccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEE
Confidence 34444678999999999999999999999999999998753 2 22 45678999999999999999999999999999
Q ss_pred EEEeecC-cc----hhhHHHHHhCCCCCCceEEEEecCC----CchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 82 AIVYEED-NG----LFKLQELVKTPPTLKTEMYIRHANP----STYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 82 ~vi~~~~-~~----~~~l~~l~~~~~~~~~~v~~~~~~~----~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++|+++ ++ ....+.+.+.+++.|+++....+.+ .|+.++|++|+++. ++||+.+....+..+++||
T Consensus 146 aii~~~~~~~~~~~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~d~~~~l~~ik~~~-~vii~~~~~~~~~~~~~qa 221 (396)
T cd06373 146 ALLYHDDKNDDRPCYFTLEGVYTVLKEENITVSDFPFDEDKELDDYKELLRDISKKG-RVVIMCASPDTVREIMLAA 221 (396)
T ss_pred EEEEECCCCCcchHHHHHHHHHHHHhhcCceeeEEeecCCccccCHHHHHHHHHhcC-cEEEEecCHHHHHHHHHHH
Confidence 9999874 42 4467778777777788876545432 58999999999876 8888899988899999885
No 29
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=99.90 E-value=1.8e-22 Score=146.28 Aligned_cols=148 Identities=21% Similarity=0.304 Sum_probs=121.2
Q ss_pred hHHHHHHHh--hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCC----CCCcccEEEecCChhHHHHHHHHHHHh
Q psy18065 2 AEATMCRQL--QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE----LNSKEFSVNLYPSQKLLNAAFKDVIRF 75 (149)
Q Consensus 2 ~~~~~c~~~--~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~----~~~~~~~~~~~p~~~~~~~ai~~ll~~ 75 (149)
+++..|+.+ ..++.+|+||.++..+.+++++++.+++|+|++++... ...+++++|+.|++..+..++++++++
T Consensus 58 ~~~~~~~~~~~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~ 137 (298)
T cd06269 58 AALDLCSLLEKSRGVVAVIGPSSSSSAEAVASLLGALHIPQISYSATSPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKH 137 (298)
T ss_pred HHHHHHhcCCCCCceEEEECCCCchHHHHHHHHhccCCCcEEecccCchhhcChhhCCCeEecCCCcHHHHHHHHHHHHH
Confidence 345678866 36899999999999999999999999999999886421 135689999999999999999999999
Q ss_pred cCCcEEEEEeecC-cchhhHHHHHhCCCCCCceEEEEe-cCC--CchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 76 LNWTKVAIVYEED-NGLFKLQELVKTPPTLKTEMYIRH-ANP--STYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 76 ~~W~~v~vi~~~~-~~~~~l~~l~~~~~~~~~~v~~~~-~~~--~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
|+|++++++|+++ ++....+.+.+..++.++|+.... ++. .++.++++++++++.++||+++..+.+..+++||
T Consensus 138 ~~w~~v~~v~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a 215 (298)
T cd06269 138 FGWTWVGLVYSDDDYGRRLLELLEEELEKNGICVAFVESIPDGSEDIRRLLKELKSSTARVIVVFSSEEDALRLLEEA 215 (298)
T ss_pred CCCeEEEEEEecchhhHHHHHHHHHHHHHCCeeEEEEEEcCCCHHHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHH
Confidence 9999999999985 455555666666666788876533 333 4789999999999987777787878899999875
No 30
>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=99.90 E-value=3e-23 Score=158.38 Aligned_cols=139 Identities=19% Similarity=0.249 Sum_probs=120.8
Q ss_pred hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCC---C-CCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEee
Q psy18065 11 QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL---E-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYE 86 (149)
Q Consensus 11 ~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~---~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~ 86 (149)
+++|.|||||.+|..+.+++++++.+++|+|++++.. + ...++++||+.|++..++.++++++++|+|++|+++|+
T Consensus 105 ~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~~~~lt~~~~~~~~fr~~~~~~~~~~al~~~l~~~~~k~vaii~~ 184 (410)
T cd06363 105 QPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGASSEVLSNKELYPSFLRTVPSDKDQIEAMVQLLQEFGWNWVAFLGS 184 (410)
T ss_pred CCCeEEEECCCccHHHHHHHHHhcccccccccccccCccccccccCCCeeEecCCcHHHHHHHHHHHHHCCCcEEEEEEe
Confidence 4689999999999999999999999999999987532 2 23557899999999999999999999999999999998
Q ss_pred c-CcchhhHHHHHhCCCCCCceEEEEe-cC-----CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 87 E-DNGLFKLQELVKTPPTLKTEMYIRH-AN-----PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 87 ~-~~~~~~l~~l~~~~~~~~~~v~~~~-~~-----~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+ ++|...++.+.+.+++.|+++.... ++ ..|+.+++.+|+++++++||+++..+.+..+++||
T Consensus 185 ~~~~g~~~~~~~~~~l~~~gi~i~~~~~~~~~~~~~~d~~~~l~~i~~~~~dvIil~~~~~~~~~il~qa 254 (410)
T cd06363 185 DDEYGRDGLQLFSELIANTGICIAYQGLIPLDTDPETDYQQILKQINQTKVNVIVVFASRQPAEAFFNSV 254 (410)
T ss_pred CChhHHHHHHHHHHHHHHCCeEEEEEEEecCCCchHHHHHHHHHHHhcCCCeEEEEEcChHHHHHHHHHH
Confidence 7 5888888888888888898886533 32 25799999999999999999999999999999885
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=99.89 E-value=1.9e-22 Score=152.73 Aligned_cols=144 Identities=16% Similarity=0.186 Sum_probs=116.0
Q ss_pred HHHHHHHh--hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-CC--C-CCcccEEEecCChhHHHHHHHHHHHhc
Q psy18065 3 EATMCRQL--QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LE--L-NSKEFSVNLYPSQKLLNAAFKDVIRFL 76 (149)
Q Consensus 3 ~~~~c~~~--~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~~--~-~~~~~~~~~~p~~~~~~~ai~~ll~~~ 76 (149)
.+..|.+. +++|.+||||.+|..+.+++++++.++||+|++++. +. + ..+++++|+.|++ ..++++++++|
T Consensus 54 ~~a~~~~~~~~~~V~aviGp~~S~~~~a~a~va~~~~iP~Is~~a~~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~ 130 (382)
T cd06371 54 SRALAAFLGYEGYASAFVGPVNPGYCEAAALLAKEWDKALFSWGCVNYELDDVRSYPTFARTLPSP---SRVLFTVLRYF 130 (382)
T ss_pred hHHHHHHHcccCCceEEECCCCchHHHHHHHHHHhcCceEEecccCchhhcCcccCCCceecCCCc---HHHHHHHHHHC
Confidence 35668777 368999999999999999999999999999998753 22 2 3567889999985 56788999999
Q ss_pred CCcEEEEEeec-CcchhhHHHHHhCCCCCCceEEE-EecC--CCchHHHHHHHHhCC-CceEEEecCc-----hhHHHHH
Q psy18065 77 NWTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYI-RHAN--PSTYRNVLREIRQKE-IFNLIIDTST-----THISQFF 146 (149)
Q Consensus 77 ~W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~-~~~~--~~d~~~~l~~i~~~~-~~~iil~~~~-----~~~~~il 146 (149)
+|++|++||++ +++....+.+.+.+++.|+++.. ..++ ..|+.++|++||+.+ +++||+.++. ..+..++
T Consensus 131 ~w~~vaii~~~~~~~~~~~~~l~~~l~~~gi~v~~~~~~~~~~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~ 210 (382)
T cd06371 131 RWAHVAIVSSPQDIWVETAQKLASALRAHGLPVGLVTSMGPDEKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLL 210 (382)
T ss_pred CCeEEEEEEecccchHHHHHHHHHHHHHCCCcEEEEEEecCCHHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHH
Confidence 99999999997 56777788888888888988765 3454 368999999999988 4666665554 5667888
Q ss_pred hhC
Q psy18065 147 RAV 149 (149)
Q Consensus 147 ~qA 149 (149)
+||
T Consensus 211 ~qa 213 (382)
T cd06371 211 ETA 213 (382)
T ss_pred HHH
Confidence 885
No 32
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=99.89 E-value=4e-22 Score=151.85 Aligned_cols=138 Identities=16% Similarity=0.228 Sum_probs=113.9
Q ss_pred hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--C-CCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEE-Ee
Q psy18065 11 QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--E-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAI-VY 85 (149)
Q Consensus 11 ~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~v-i~ 85 (149)
.+++.+||||.||..+.+++++++.++||+|++++. + + ...++|+||+.|++..++.++++++++|+|+++++ +|
T Consensus 72 ~~~v~aiiGp~~S~~~~~va~~a~~~~iP~Is~~a~~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~ 151 (405)
T cd06385 72 THNPWAFIGPGCDYTASPVARFTTHWDVPLVTAGAPALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIY 151 (405)
T ss_pred hcCCcEEECCCccchHHHHHHHHhccCCcEEccccChhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEE
Confidence 468999999999999999999999999999998753 2 2 24678899999999999999999999999999984 66
Q ss_pred ecCc--c---hhhHHHHHhCCCCCCceEEEEecC---CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 86 EEDN--G---LFKLQELVKTPPTLKTEMYIRHAN---PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 86 ~~~~--~---~~~l~~l~~~~~~~~~~v~~~~~~---~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++. + ....+.+.+.+++.|+++....+. ..|+..+|++|++.+ ++||+.++.+.++.+++||
T Consensus 152 ~~~~~~~~~~~~~~~~l~~~~~~~gi~v~~~~~~~~~~~d~~~~l~~ik~~~-~iii~~~~~~~~~~i~~~a 222 (405)
T cd06385 152 SDNKVDDRPCYFAMEGLYMELKKNNITVVDLVFEEDDLINYTTLLQDIKQKG-RVIYVCCSPDIFRRLMLQF 222 (405)
T ss_pred ecCcccccchHHHHHHHHHHHHhCCeEEEEeeccCCchhhHHHHHHHHhhcc-eEEEEeCCHHHHHHHHHHH
Confidence 6542 1 225677877778889998765554 257999999998876 7888888888999999885
No 33
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=99.88 E-value=8.4e-22 Score=147.24 Aligned_cols=148 Identities=21% Similarity=0.329 Sum_probs=127.7
Q ss_pred hHHHHHHHhhC-CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C---CCCCcccEEEecCChhHHHHHHHHHHHhc
Q psy18065 2 AEATMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L---ELNSKEFSVNLYPSQKLLNAAFKDVIRFL 76 (149)
Q Consensus 2 ~~~~~c~~~~~-~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~---~~~~~~~~~~~~p~~~~~~~ai~~ll~~~ 76 (149)
+.+.+|+++.+ +|.+||||.+|..+.+++++++.+++|+|++++. + ....++|+||+.|++..+..+++++++++
T Consensus 54 a~~~a~~l~~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~ 133 (350)
T cd06366 54 AASAALDLLENKPVVAIIGPQCSSVAEFVAEVANEWNVPVLSFAATSPSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKF 133 (350)
T ss_pred HHHHHHHHhccCCceEEECCCcHHHHHHHHHHhhcCCeeEEeccCCCccccccccCCceEEcccchHhHHHHHHHHHHHC
Confidence 45678999975 8999999999999999999999999999998753 2 12456899999999999999999999999
Q ss_pred CCcEEEEEeec-CcchhhHHHHHhCCCCCCceEEEEe-cCC----CchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 77 NWTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIRH-ANP----STYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 77 ~W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~~-~~~----~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+|++++++|++ ++|....+.+.+.+++.|+++.... ++. .|+.+.+.+|+++++++|++.+....+..+++||
T Consensus 134 ~~~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a 212 (350)
T cd06366 134 GWRRVATIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFPPSANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEA 212 (350)
T ss_pred CCcEEEEEEEcCcccchhHHHHHHHHHHcCCEEEEEeccCCCCChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHH
Confidence 99999999987 5688888888888888898886543 432 4899999999999999999999999999999885
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=99.88 E-value=6.2e-22 Score=146.92 Aligned_cols=146 Identities=20% Similarity=0.304 Sum_probs=115.5
Q ss_pred HHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--C--CCCcccEEEecCChhHHHHHHHHHHHhcCC
Q psy18065 4 ATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--E--LNSKEFSVNLYPSQKLLNAAFKDVIRFLNW 78 (149)
Q Consensus 4 ~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~--~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W 78 (149)
...|...++++.+||||.++..+.+++++++.++||+|++++. + + ...+++++|+.|++..++.++++++++|+|
T Consensus 42 ~~~~~~~~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is~~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w 121 (348)
T PF01094_consen 42 AAICSLNKQGVVAVIGPSCSSSAEAVASLASEWNIPQISPGSTSPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGW 121 (348)
T ss_dssp HHHHHHHHHTECEEEETSSHHHHHHHHHHHHHTT-EEEESSGGSGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTS
T ss_pred chhhhccCCCcEEEECCCcccccchhheeecccccceeeccccccccccchhhccccccccccHHHHHHHHHHhhhcCCC
Confidence 4567777789999999999999999999999999999999742 2 1 246788999999999999999999999999
Q ss_pred cEEEEEeecC-cchhhHHHHHhCCCC-CCceEEE-Eec--CCCchHHHHHHHHh--CCCceEEEecCchhHHHHHhhC
Q psy18065 79 TKVAIVYEED-NGLFKLQELVKTPPT-LKTEMYI-RHA--NPSTYRNVLREIRQ--KEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 79 ~~v~vi~~~~-~~~~~l~~l~~~~~~-~~~~v~~-~~~--~~~d~~~~l~~i~~--~~~~~iil~~~~~~~~~il~qA 149 (149)
++|++||+++ +|....+.+.+.+++ .+.++.. ... ...++.++++.+++ .+.++||++++...+..++++|
T Consensus 122 ~~v~vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~rvvil~~~~~~~~~~l~~a 199 (348)
T PF01094_consen 122 TRVSVVYSDDDYGNSLADSFQDLLRERGGICVAFISVVISSDSDAEELLKKLKEIKSGARVVILCSSPEDARQFLEAA 199 (348)
T ss_dssp SEEEEEEESSHHHHHHHHHHHHHHHHHTTCEEEEEEEEETTTSHHHHHHHHHHHHTTTTSEEEEESBHHHHHHHHHHH
T ss_pred ceeeeeccccccccccchhhhhhhcccccceecccccccccccchhhhhhhhhhccccceeeeeecccccccccccch
Confidence 9999999986 445555666665554 3445544 222 23567777777777 8999999999999999998875
No 35
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=99.88 E-value=1.5e-21 Score=148.80 Aligned_cols=145 Identities=12% Similarity=0.225 Sum_probs=115.3
Q ss_pred hHHHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCC---C-CCCcccEEEecCChhHHHHHHHHHHHhcC
Q psy18065 2 AEATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL---E-LNSKEFSVNLYPSQKLLNAAFKDVIRFLN 77 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~---~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~ 77 (149)
+.+.+|++++++|.+||||.+|. .+++.+++.++||+|++++.. . ...+++++|+.|++..++.++++++++|+
T Consensus 58 a~~~~~~li~~~v~aiiGp~~S~--~~~a~i~~~~~iP~Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~ 135 (404)
T cd06370 58 SIRAVSDWWKRGVVAFIGPECTC--TTEARLAAAWNLPMISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFN 135 (404)
T ss_pred HHHHHHHHHhcCceEEECCCchh--HHHHHHHhhcCCcEEecccCCccccccccCCCeEEcCCCHHHHHHHHHHHHHHCC
Confidence 56788999988999999999974 456789999999999987542 1 23567789999999999999999999999
Q ss_pred CcEEEEEeec-CcchhhHHHHHhCCCCCCceEEEE-ecCC---------CchHHHHHHHHhCCCceEEEecCchhHHHHH
Q psy18065 78 WTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HANP---------STYRNVLREIRQKEIFNLIIDTSTTHISQFF 146 (149)
Q Consensus 78 W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~~---------~d~~~~l~~i~~~~~~~iil~~~~~~~~~il 146 (149)
|+++++||++ ++|....+.+.+.+++.|+++... .++. .++..++++++.. .+.+|+++....+..++
T Consensus 136 w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~iv~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~v~~~~~~~~~~~l 214 (404)
T cd06370 136 WNKFSVVYENDSKYSSVFETLKEEAELRNITISHVEYYADFYPPDPIMDNPFEDIIQRTKET-TRIYVFIGEANELRQFL 214 (404)
T ss_pred CcEEEEEEecCcccHHHHHHHHHHHHHcCCEEEEEEEECCCCCchhhhHHHHHHHHHhccCC-CEEEEEEcCHHHHHHHH
Confidence 9999999997 567666666777777789988643 3432 3677888888775 45666777777888899
Q ss_pred hhC
Q psy18065 147 RAV 149 (149)
Q Consensus 147 ~qA 149 (149)
+||
T Consensus 215 ~qa 217 (404)
T cd06370 215 MSM 217 (404)
T ss_pred HHH
Confidence 885
No 36
>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=99.87 E-value=6.8e-21 Score=144.48 Aligned_cols=147 Identities=11% Similarity=0.140 Sum_probs=111.5
Q ss_pred hHHHHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--C-CCCcccEEEecCChhHHHHHHHHHHHhc
Q psy18065 2 AEATMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--E-LNSKEFSVNLYPSQKLLNAAFKDVIRFL 76 (149)
Q Consensus 2 ~~~~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~ 76 (149)
+....|+++. ++|.|||||.+|..+.+++++++.+++|+|++++. + + ...+++++|+.|++..++.++++++++|
T Consensus 56 a~~~~~~l~~~~~v~aiiGp~~S~~~~av~~va~~~~iP~is~~s~s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~ 135 (391)
T cd06372 56 SLAGFIDQVQKEHISALFGPACPEAAEVTGLLASQWNIPMFGFVGQTAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHF 135 (391)
T ss_pred HHHHHHHHHHhcCceEEECCCCCcHHHHHHHHHhccCccEEEeecCCccccccccCCceEEecCchhhHHHHHHHHHHHC
Confidence 5677899885 58999999999999999999999999999998642 2 2 2356788999999999999999999999
Q ss_pred CCcEEEEEeecC--cchh----hHHHHHhCCCCCCceEEEE-ecCC--CchHHHHHHHHhCCCceEEEecCchhHHHHHh
Q psy18065 77 NWTKVAIVYEED--NGLF----KLQELVKTPPTLKTEMYIR-HANP--STYRNVLREIRQKEIFNLIIDTSTTHISQFFR 147 (149)
Q Consensus 77 ~W~~v~vi~~~~--~~~~----~l~~l~~~~~~~~~~v~~~-~~~~--~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~ 147 (149)
||++|+++|+++ .+.. ..+.+.+.++ .++++... .+.. .|+...+.+.+++++++||++++.+.+..+++
T Consensus 136 ~w~~vaii~~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~~~~~~~~~~~d~~~~~l~~~~~~~~vii~~~~~~~~~~i~~ 214 (391)
T cd06372 136 GWKHIGLFGGSSRDSSWDEVDELWKAVENQLK-FHFNITATVRYSSSNPDLLQEKLRYISSVARVIILICSSEDAKAILQ 214 (391)
T ss_pred CCeEEEEEEeccccchhhhHHHHHHHHHHHHh-hCEEEEEEEecCCCChHHHHHHHHhhhccceEEEEEcChHHHHHHHH
Confidence 999999999642 2222 1223333332 45665543 2332 35555555555688899999999999999999
Q ss_pred hC
Q psy18065 148 AV 149 (149)
Q Consensus 148 qA 149 (149)
||
T Consensus 215 ~a 216 (391)
T cd06372 215 AA 216 (391)
T ss_pred HH
Confidence 86
No 37
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=99.86 E-value=6.6e-21 Score=144.99 Aligned_cols=138 Identities=14% Similarity=0.164 Sum_probs=110.7
Q ss_pred hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--CC--CCcccEEEecCChhHHHHHHHHHHHhcCCc-EEEEE
Q psy18065 11 QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--EL--NSKEFSVNLYPSQKLLNAAFKDVIRFLNWT-KVAIV 84 (149)
Q Consensus 11 ~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~~--~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~-~v~vi 84 (149)
.+++.+||||.+|..+.+++++++.++||+|++++. + ++ ..++++||+.|++..++.++..++++|+|+ ++++|
T Consensus 71 ~~~v~aviGp~~S~~~~av~~i~~~~~iP~Is~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaii 150 (399)
T cd06384 71 YSDPDVFFGPGCVYPTASVARFATHWRLPLITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALL 150 (399)
T ss_pred hcCCCEEECCCCchHHHHHHHHHhhcCCcEEeeccchhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEE
Confidence 356889999999999999999999999999999863 2 22 355779999999999999988999999999 58899
Q ss_pred eecC----cc-hhhHHHHHhCCCCCCceEEEEec-C--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 85 YEED----NG-LFKLQELVKTPPTLKTEMYIRHA-N--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 85 ~~~~----~~-~~~l~~l~~~~~~~~~~v~~~~~-~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
|+++ .+ ....+.+.+.+++.|+++..+.. . ..|+.++|+++|+ ++++|++.++.+.+..+++||
T Consensus 151 y~~~~~~~~~~~~~~~~~~~~~~~~gi~v~~~~~~~~~~~d~~~~l~~ik~-~~~vIi~~~~~~~~~~i~~qa 222 (399)
T cd06384 151 YLDLKTDDRPHYFISEGVFLALQEENANVSAHPYHIEKNSDIIEIIQFIKQ-NGRIVYICGPLETFLEIMLQA 222 (399)
T ss_pred EecCCccCCcceEehHHHHHHHHhcCceEEEEEEeccchhhHHHHHHHHhh-cccEEEEeCCchHHHHHHHHH
Confidence 8642 12 11345566666667888876543 2 3689999999997 788888888988899999885
No 38
>KOG1056|consensus
Probab=99.85 E-value=5.6e-21 Score=153.11 Aligned_cols=138 Identities=16% Similarity=0.248 Sum_probs=120.7
Q ss_pred CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--C-CCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 12 NGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--E-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 12 ~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
..|.++|||..|+.+.+++.+...++||||+|++. + + ..+++|+.|+.|+|..|++|+++++++|+|+||..++++
T Consensus 124 p~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~Am~~il~~f~W~yVstv~s~ 203 (878)
T KOG1056|consen 124 PPVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQAMVDILKKFNWNYVSTVASE 203 (878)
T ss_pred CceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchhhhceeeecCChHHHHHHHHHHHHHhCeeEeeehhcC
Confidence 35999999999999999999999999999999853 2 3 357788999999999999999999999999999999986
Q ss_pred -CcchhhHHHHHhCCCCCCceEEEEe-cC----CCchHHHHHHHHh-CCCceEEEecCchhHHHHHhhC
Q psy18065 88 -DNGLFKLQELVKTPPTLKTEMYIRH-AN----PSTYRNVLREIRQ-KEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 88 -~~~~~~l~~l~~~~~~~~~~v~~~~-~~----~~d~~~~l~~i~~-~~~~~iil~~~~~~~~~il~qA 149 (149)
|||..+++.+.+..+.+|+|+.... +. ...+..+++++.. .+++++|+++..++++.+++.|
T Consensus 204 ~dYGE~Gieaf~~~a~~~~iCIa~s~ki~~~~~~~~~~~~l~kl~~~~~a~vvV~F~~~~~~r~~~~aa 272 (878)
T KOG1056|consen 204 GDYGESGIEAFKEEAAERGICIAFSEKIYQLSIEQEFDCVLRKLLETPNARVVVVFCRGEDARRLLKAA 272 (878)
T ss_pred ccchhhhHHHHHHhHHhcCceEEehhhcccccchhHHHHHHHHHhhcCCCeEEEEecCcchHHHHHHHH
Confidence 8999999999999988899986532 22 2467888888776 8899999999999999999853
No 39
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=99.85 E-value=3.7e-20 Score=140.16 Aligned_cols=147 Identities=18% Similarity=0.307 Sum_probs=122.1
Q ss_pred hHHHHHHHh-hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-CC---CCCcccEEEecCChhHHHHHHHHHHHhc
Q psy18065 2 AEATMCRQL-QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LE---LNSKEFSVNLYPSQKLLNAAFKDVIRFL 76 (149)
Q Consensus 2 ~~~~~c~~~-~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~~---~~~~~~~~~~~p~~~~~~~ai~~ll~~~ 76 (149)
+.+.+.+++ +++|.+||||.+|..+.+++++++.++||+|++++. +. ...++|+||+.|++..++.+++++++++
T Consensus 56 a~~~a~~l~~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~Is~~~~~~~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~ 135 (389)
T cd06352 56 ALLAAVDLYWEHNVDAFIGPGCPYACAPVARLAAHWNIPMISWGCVALSLSDKSEYPTLTRTLPPARKLGEAVLALLRWF 135 (389)
T ss_pred hHHHHHHHHhhcCCcEEECCCChhHHHHHHHHHhcCCCCEecccccccccCccccCCceeecCCcHHHHHHHHHHHHHHc
Confidence 345556666 468999999999999999999999999999998753 21 2356899999999999999999999999
Q ss_pred CCcEEEEEeecC--cchhhHHHHHhCCCCCCceEEEE-ecC----CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 77 NWTKVAIVYEED--NGLFKLQELVKTPPTLKTEMYIR-HAN----PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 77 ~W~~v~vi~~~~--~~~~~l~~l~~~~~~~~~~v~~~-~~~----~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+|++++++++++ +|...++.+.+.+++.|+++... .++ ..|+..+++++++.+ ++|++.+..+.+..+++||
T Consensus 136 ~~~~v~ii~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~~~d~~~~l~~i~~~~-~vii~~~~~~~~~~~l~q~ 214 (389)
T cd06352 136 NWHVAVVVYSDDSENCFFTLEALEAALREFNLTVSHVVFMEDNSGAEDLLEILQDIKRRS-RIIIMCGSSEDVRELLLAA 214 (389)
T ss_pred CceEEEEEEecCCccHHHHHHHHHHHHHhcCCeEEEEEEecCCccchhHHHHHHHhhhcc-eEEEEECCHHHHHHHHHHH
Confidence 999999999874 58888888888888889887653 233 267999999999887 7777777778888998874
No 40
>KOG1054|consensus
Probab=99.81 E-value=1.9e-19 Score=137.99 Aligned_cols=143 Identities=21% Similarity=0.407 Sum_probs=127.6
Q ss_pred hHHHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEE
Q psy18065 2 AEATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v 81 (149)
.+++.|++.+.||.||+|-.+..+...+.++|+.+++|+|++++.. +...+|.++|+|+ +..++++++.||+|.++
T Consensus 79 ~tnafCsq~s~Gv~Aifg~yd~ks~~~ltsfc~aLh~~~vtpsfp~-~~~~~Fviq~RP~---l~~al~s~i~hy~W~~f 154 (897)
T KOG1054|consen 79 VTNAFCSQFSRGVYAIFGFYDKKSVNTLTSFCGALHVSFVTPSFPT-DGDNQFVIQMRPA---LKGALLSLIDHYKWEKF 154 (897)
T ss_pred HHHHHHHHHhhhHhhheecccccchhhhhhhccceeeeeecccCCc-CCCceEEEEeCch---HHHHHHHHHHhcccceE
Confidence 3688999999999999999999999999999999999999988733 3455899999998 88899999999999999
Q ss_pred EEEeecCcchhhHHHHHhCCCCCCceEEEEecCC----CchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 82 AIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANP----STYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 82 ~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~----~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
+++||.+.|.+.+|.+.+.+.++++.+....+.. ..|+.+++.+.++..+++++||..+....++.|
T Consensus 155 v~lyD~~rg~s~Lqai~~~a~~~nw~VtA~~v~~~~d~~~yr~~f~~l~~r~e~rv~iDce~~~~~~il~q 225 (897)
T KOG1054|consen 155 VYLYDTDRGLSILQAIMEAAAQNNWQVTAINVGNINDVKEYRMLFEMLDRRQENRVLIDCESERRNRILLQ 225 (897)
T ss_pred EEEEcccchHHHHHHHHHHHHhcCceEEEEEcCCcccHHHHHHHHHHHhccccceEEEEcccHHHHHHHHH
Confidence 9999999999999999999888899988776642 348999999999999999999999887777765
No 41
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=99.80 E-value=1.4e-18 Score=128.18 Aligned_cols=148 Identities=16% Similarity=0.137 Sum_probs=123.7
Q ss_pred hHHHHHHHhh-CCcEEEEcCCCCCcHHHH-HHhhcccCCCceeeccC-C--C-CCCcccEEEecCChhHHHHHHHHHHHh
Q psy18065 2 AEATMCRQLQ-NGVQALFGPSDALLGPHV-QSICEALDVPHMESRLD-L--E-LNSKEFSVNLYPSQKLLNAAFKDVIRF 75 (149)
Q Consensus 2 ~~~~~c~~~~-~~v~aiiGp~~s~~~~~v-~~~~~~~~iP~is~~~~-~--~-~~~~~~~~~~~p~~~~~~~ai~~ll~~ 75 (149)
+.+...+++. ++|.+|+||.+|..+.++ ++++...++|+|+++.. + . ....+|+||+.|++..+..+++++++.
T Consensus 55 a~~~a~~li~~~~v~~viG~~~s~~~~a~~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~ 134 (312)
T cd06346 55 GVAAATKLVNVDGVPGIVGAACSGVTIAALTSVAVPNGVVMISPSSTSPTLTTLDDNGLFFRTAPSDALQGQALAQLAAE 134 (312)
T ss_pred HHHHHHHHHhhcCCCEEEccccchhhHhhhhhhhccCCcEEEecCCCCccceecCCCceEEEecCCcHHHHHHHHHHHHH
Confidence 3455677886 489999999999999999 99999999999998742 2 1 234578999999999999999999999
Q ss_pred cCCcEEEEEeec-CcchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 76 LNWTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 76 ~~W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
++|++++++|++ ++|......+.+.+++.|+++... .++ ..|+.+++.+|++.+++.|++.+.......+++|+
T Consensus 135 ~~~~~vail~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~ 212 (312)
T cd06346 135 RGYKSVATTYINNDYGVGLADAFTKAFEALGGTVTNVVAHEEGKSSYSSEVAAAAAGGPDALVVIGYPETGSGILRSA 212 (312)
T ss_pred cCCCeEEEEEccCchhhHHHHHHHHHHHHcCCEEEEEEeeCCCCCCHHHHHHHHHhcCCCEEEEecccchHHHHHHHH
Confidence 999999999987 678888888888887888887643 344 36999999999999999999988887888888774
No 42
>cd06338 PBP1_ABC_ligand_binding_like_5 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT); however their ligand specificity has not been determined experimentally.
Probab=99.80 E-value=1.6e-18 Score=129.23 Aligned_cols=147 Identities=12% Similarity=0.134 Sum_probs=123.1
Q ss_pred HHHHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCC---CCCCcccEEEecCChhHHHHHHHHHHHhcC-
Q psy18065 3 EATMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL---ELNSKEFSVNLYPSQKLLNAAFKDVIRFLN- 77 (149)
Q Consensus 3 ~~~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~---~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~- 77 (149)
.+...++++ ++|.+|+||.++..+.+++++++..+||+|+++... ..+.++++||+.|++..+..++++++++++
T Consensus 60 ~~~~~~li~~~~v~aviG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~ 139 (345)
T cd06338 60 ARAYERLITQDKVDFLLGPYSSGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPASQYAKSLLEMLVALDP 139 (345)
T ss_pred HHHHHHHHhhcCccEEecCCcchhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCchHHHHHHHHHHHHhcCC
Confidence 345567776 489999999999999999999999999999987532 135668999999999999999999999888
Q ss_pred -CcEEEEEeec-CcchhhHHHHHhCCCCCCceEEE-EecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 78 -WTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYI-RHAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 78 -W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~-~~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
|++++++|++ +++....+.+.+.+++.|+++.. ..++ ..|+.+++.+|++.+++.|++.+....+..+++|+
T Consensus 140 ~~~~v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~~~v~~l~~~~~d~i~~~~~~~~~~~~~~~~ 216 (345)
T cd06338 140 RPKKVAILYADDPFSQDVAEGAREKAEAAGLEVVYDETYPPGTADLSPLISKAKAAGPDAVVVAGHFPDAVLLVRQM 216 (345)
T ss_pred CCceEEEEecCCcccHHHHHHHHHHHHHcCCEEEEEeccCCCccchHHHHHHHHhcCCCEEEECCcchhHHHHHHHH
Confidence 9999999987 47777777777777778888764 3444 26899999999999999999999888888888874
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=99.80 E-value=2.5e-18 Score=128.28 Aligned_cols=148 Identities=15% Similarity=0.138 Sum_probs=122.1
Q ss_pred hHHHHHHHhhC-CcEEEEcCCCCCcHHHHHHhhcccCCCceeecc-CC--C----CCCcccEEEecCChhHHHHHHHHHH
Q psy18065 2 AEATMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRL-DL--E----LNSKEFSVNLYPSQKLLNAAFKDVI 73 (149)
Q Consensus 2 ~~~~~c~~~~~-~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~-~~--~----~~~~~~~~~~~p~~~~~~~ai~~ll 73 (149)
+.+..++++++ +|.+|+||.++..+.+++++++.+++|+|+++. .+ . ....+++||+.|++..+..++++++
T Consensus 55 a~~~~~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~ 134 (344)
T cd06345 55 AVRAFERLVSQDKVDAVVGGYSSEVVLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADAL 134 (344)
T ss_pred HHHHHHHHhccCCceEEECCcchHHHHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHH
Confidence 45678899874 899999999999999999999999999999763 22 1 1356889999999999999999988
Q ss_pred Hh-----cCCcEEEEEeec-CcchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHH
Q psy18065 74 RF-----LNWTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQ 144 (149)
Q Consensus 74 ~~-----~~W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~ 144 (149)
.+ ++|++|++++++ ++|....+.+.+.+++.|+++... .++ ..|+..++.+|++++++.|++.+.......
T Consensus 135 ~~~~~~~~~~~~va~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~ 214 (344)
T cd06345 135 KETLVDKHGFKTAAIVAEDAAWGKGIDAGIKALLPEAGLEVVSVERFSPDTTDFTPILQQIKAADPDVIIAGFSGNVGVL 214 (344)
T ss_pred HHhhcccCCCceEEEEecCchhhhHHHHHHHHHHHHcCCeEEEEEecCCCCCchHHHHHHHHhcCCCEEEEeecCchHHH
Confidence 76 899999999988 567777777777777778887553 343 368999999999999999999998877777
Q ss_pred HHhhC
Q psy18065 145 FFRAV 149 (149)
Q Consensus 145 il~qA 149 (149)
+++|+
T Consensus 215 ~~~~~ 219 (344)
T cd06345 215 FTQQW 219 (344)
T ss_pred HHHHH
Confidence 87764
No 44
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=99.79 E-value=3.7e-18 Score=126.54 Aligned_cols=145 Identities=12% Similarity=0.117 Sum_probs=119.3
Q ss_pred HHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-CC--CCCcccEEEecCChhHHHHHHHHHH-HhcCCcE
Q psy18065 5 TMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LE--LNSKEFSVNLYPSQKLLNAAFKDVI-RFLNWTK 80 (149)
Q Consensus 5 ~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~~--~~~~~~~~~~~p~~~~~~~ai~~ll-~~~~W~~ 80 (149)
...++++++|.+|+||.++..+.+++.+++..+||+|+++.. +. ...++++||+.|++..++.++++++ ++++|++
T Consensus 58 ~~~~li~~~v~aiiG~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 137 (334)
T cd06342 58 VAQKLVDDGVVGVVGHLNSGVTIPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQQGPAAAKYAVETLKAKK 137 (334)
T ss_pred HHHHHHhCCceEEECCCccHhHHHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCE
Confidence 344666668999999999999999999999999999998753 21 2346789999999999999999976 6889999
Q ss_pred EEEEeec-CcchhhHHHHHhCCCCCCceEEEEe-cC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 81 VAIVYEE-DNGLFKLQELVKTPPTLKTEMYIRH-AN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 81 v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~~-~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
|+++|++ ++|....+.+.+.++..|+++.... ++ ..|+...+.+|+++++++|++.+....+..+++++
T Consensus 138 v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~~~l~~i~~~~~~~vi~~~~~~~~~~~~~~~ 210 (334)
T cd06342 138 VAIIDDKTAYGQGLADEFKKALKAAGGKVVAREGTTDGATDFSAILTKIKAANPDAVFFGGYYPEAGPLVRQM 210 (334)
T ss_pred EEEEeCCcchhhHHHHHHHHHHHHcCCEEEEEecCCCCCccHHHHHHHHHhcCCCEEEEcCcchhHHHHHHHH
Confidence 9999987 5677777777777777788876543 43 26899999999999999999988887787888764
No 45
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.79 E-value=2.1e-18 Score=129.01 Aligned_cols=148 Identities=15% Similarity=0.179 Sum_probs=123.7
Q ss_pred hHHHHHHHhhC-CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--CCCCcccEEEecCChhHHHHHHHHHHHhcC
Q psy18065 2 AEATMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--ELNSKEFSVNLYPSQKLLNAAFKDVIRFLN 77 (149)
Q Consensus 2 ~~~~~c~~~~~-~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~ 77 (149)
+.+..|+++++ +|.+|+||.++..+.+++.+++..++|+|+++.. + ....++|+||+.|++..+..++++++++++
T Consensus 58 a~~~~~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~fr~~p~~~~~~~~~~~~l~~~~ 137 (347)
T cd06340 58 GATEAERLITEEGVVALVGAYQSAVTLAASQVAERYGVPFVVDGAVSDSITERGFKYTFRITPHDGMFTRDMFDFLKDLN 137 (347)
T ss_pred HHHHHHHHhccCCceEEecccchHhHHHHHHHHHHhCCCEEeccccchHHhhcCCceEEecCCChHHHHHHHHHHHHHhh
Confidence 45678898875 9999999999999999999999999999997642 2 234568899999999999999999998764
Q ss_pred ------CcEEEEEeec-CcchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHh
Q psy18065 78 ------WTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFR 147 (149)
Q Consensus 78 ------W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~ 147 (149)
|+++++++++ ++|....+.+.+.+++.|+++... .++ ..|+.+++.+|+++++++|++.+....+..+++
T Consensus 138 ~~~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~i~~l~~~~~d~v~~~~~~~~~~~~~~ 217 (347)
T cd06340 138 EKTGKPLKTVALVHEDTEFGTSVAEAIKKFAKERGFEIVEDISYPANARDLTSEVLKLKAANPDAILPASYTNDAILLVR 217 (347)
T ss_pred HhcCCCCceEEEEecCchHhHHHHHHHHHHHHHcCCEEEEeeccCCCCcchHHHHHHHHhcCCCEEEEcccchhHHHHHH
Confidence 5999999987 577777777777777788887643 344 368999999999999999999998888888888
Q ss_pred hC
Q psy18065 148 AV 149 (149)
Q Consensus 148 qA 149 (149)
|+
T Consensus 218 ~~ 219 (347)
T cd06340 218 TM 219 (347)
T ss_pred HH
Confidence 74
No 46
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=99.76 E-value=2.6e-17 Score=121.88 Aligned_cols=147 Identities=15% Similarity=0.181 Sum_probs=118.6
Q ss_pred HHHHHHHhhC-CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCC--CCCcccEEEecCChhHHHHHHHHHH-HhcCC
Q psy18065 3 EATMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE--LNSKEFSVNLYPSQKLLNAAFKDVI-RFLNW 78 (149)
Q Consensus 3 ~~~~c~~~~~-~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~--~~~~~~~~~~~p~~~~~~~ai~~ll-~~~~W 78 (149)
.+..|+++++ +|.+|+||.++..+..++.+++..+||+|+++.... .+..+++||+.|++..++.++++++ ++++|
T Consensus 56 ~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~i~~~~~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~ 135 (334)
T cd06347 56 ANAATRLIDQDKVVAIIGPVTSGATLAAGPIAEDAKVPMITPSATNPKVTQGKDYVFRVCFIDPFQGTVMAKFATENLKA 135 (334)
T ss_pred HHHHHHHhcccCeEEEEcCCccHhHHHhHHHHHHCCCeEEcCCCCCCCcccCCCeEEEeeCCcHHHHHHHHHHHHHhcCC
Confidence 4567888875 999999999999999999999999999999875321 2333588999999888899999976 67899
Q ss_pred cEEEEEeec--CcchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 79 TKVAIVYEE--DNGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 79 ~~v~vi~~~--~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++++||++ +++....+.+.+.+++.|+++... .++ ..|+.+.++++++.+++.|++.+..+....+++|+
T Consensus 136 ~~v~ii~~~~~~~~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~~~~~~~~~~~~d~i~~~~~~~~~~~~~~~~ 211 (334)
T cd06347 136 KKAAVLYDNSSDYSKGLAKAFKEAFKKLGGEIVAEETFNAGDTDFSAQLTKIKAKNPDVIFLPGYYTEVGLIAKQA 211 (334)
T ss_pred cEEEEEEeCCCchhHHHHHHHHHHHHHcCCEEEEEEEecCCCCcHHHHHHHHHhcCCCEEEEcCchhhHHHHHHHH
Confidence 999999975 466666666776666778887543 333 36899999999999999999999888888887764
No 47
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=99.74 E-value=6.5e-17 Score=120.66 Aligned_cols=148 Identities=12% Similarity=0.171 Sum_probs=118.2
Q ss_pred hHHHHHHHhhC-CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCC--CCCcccEEEecCChhHHH-HHHHHHHHhc-
Q psy18065 2 AEATMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE--LNSKEFSVNLYPSQKLLN-AAFKDVIRFL- 76 (149)
Q Consensus 2 ~~~~~c~~~~~-~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~--~~~~~~~~~~~p~~~~~~-~ai~~ll~~~- 76 (149)
+.+..|+++++ +|.+|+||.++..+.++.+++...+||+|+++.... ....+|+||+.|++.... ..+..+++++
T Consensus 55 a~~~~~~li~~~~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~ 134 (344)
T cd06348 55 AINAFQTLINKDRVLAIIGPTLSQQAFAADPIAERAGVPVVGPSNTAKGIPEIGPYVFRVSAPEAVVAPAAIAAALKLNP 134 (344)
T ss_pred HHHHHHHHhhhcCceEEECCCCcHHHHhhhHHHHhCCCCEEeccCCCCCcCCCCCeEEEccCcHHHHHHHHHHHHHHHhc
Confidence 45678999975 899999999999999999999999999999875322 245578999987765544 4455677888
Q ss_pred CCcEEEEEeec-C-cchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 77 NWTKVAIVYEE-D-NGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 77 ~W~~v~vi~~~-~-~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+|++++++|++ + +|....+.+.+.+++.|+++... .++ ..|+.+++.+|+++++++|++.+....+..+++||
T Consensus 135 ~~~~v~~l~~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~~~v~~i~~~~~d~vi~~~~~~~~~~~~~~~ 212 (344)
T cd06348 135 GIKRVAVFYAQDDAFSVSETEIFQKALRDQGLNLVTVQTFQTGDTDFQAQITAVLNSKPDLIVISALAADGGNLVRQL 212 (344)
T ss_pred CCeEEEEEEeCCchHHHHHHHHHHHHHHHcCCEEEEEEeeCCCCCCHHHHHHHHHhcCCCEEEECCcchhHHHHHHHH
Confidence 99999999975 4 66677777777777788887643 343 36899999999999999999999988888888874
No 48
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.72 E-value=2.8e-16 Score=117.59 Aligned_cols=145 Identities=10% Similarity=0.055 Sum_probs=119.3
Q ss_pred HHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--CC--CCcccEEEecCChhHHHHHHHHHH-HhcC
Q psy18065 5 TMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--EL--NSKEFSVNLYPSQKLLNAAFKDVI-RFLN 77 (149)
Q Consensus 5 ~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~~--~~~~~~~~~~p~~~~~~~ai~~ll-~~~~ 77 (149)
..-++++ ++|.+|+|+.++..+.++..+++..+||+|++... + .. ...+|+||+.|++..++.++++++ +.++
T Consensus 58 ~a~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~ 137 (347)
T cd06335 58 NAQELAADEKVVAVLGGLHTPVALANLEFIQQNKIPLIGPWAAGTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGG 137 (347)
T ss_pred HHHHHhccCCeEEEEcCCCCHHHHhhhHHHHhcCCcEEecCCCCcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcC
Confidence 3445665 48999999999999999999999999999997642 1 11 335789999999999999999976 5677
Q ss_pred CcEEEEEeec-CcchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 78 WTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 78 W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
|++|+++|++ ++|....+.+.+.+++.|+++... .++ ..|+.+.+.+|++.++++|++.+.......+++|+
T Consensus 138 ~~~v~ii~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~d~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~ 213 (347)
T cd06335 138 FKKVALLLDNTGWGRSNRKDLTAALAARGLKPVAVEWFNWGDKDMTAQLLRAKAAGADAIIIVGNGPEGAQIANGM 213 (347)
T ss_pred CCeEEEEeccCchhhhHHHHHHHHHHHcCCeeEEEeeecCCCccHHHHHHHHHhCCCCEEEEEecChHHHHHHHHH
Confidence 9999999987 588888888888888888887643 343 36899999999999999999999888888888763
No 49
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=99.71 E-value=1.5e-16 Score=118.65 Aligned_cols=147 Identities=12% Similarity=0.076 Sum_probs=118.8
Q ss_pred HHHHHHHhhC-CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--C-CCCcccEEEecCChhHHHHHHHHHHHhc-
Q psy18065 3 EATMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--E-LNSKEFSVNLYPSQKLLNAAFKDVIRFL- 76 (149)
Q Consensus 3 ~~~~c~~~~~-~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~- 76 (149)
.+..++++.+ +|.+|+||.++..+.+++.+++..+||+|++... + . ...++++||+.|++..+..+++++++.+
T Consensus 56 ~~~a~~li~~~~v~aiig~~~s~~~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 135 (346)
T cd06330 56 IREARELVENEGVDMLIGLISSGVALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLD 135 (346)
T ss_pred HHHHHHHHhccCCcEEEcccchHHHHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhC
Confidence 4567899875 8999999999999999999999999999997642 2 1 2356889999999999999999999876
Q ss_pred -CCcEEEEEeec-CcchhhHHHHHhCCCCCCce--EEEEec-C--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 77 -NWTKVAIVYEE-DNGLFKLQELVKTPPTLKTE--MYIRHA-N--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 77 -~W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~--v~~~~~-~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+|+++++++.+ ++|....+.+.+.+++.|.+ +..... + ..|+...+.+|++.+++.|++.+.......+++||
T Consensus 136 ~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~g~~~~~v~~~~~~~~~~d~~~~v~~i~~~~~d~ii~~~~~~~~~~~~~~~ 215 (346)
T cd06330 136 KKAKTWATINPDYAYGQDAWADFKAALKRLRPDVEVVSEQWPKLGAPDYGSEITALLAAKPDAIFSSLWGGDLVTFVRQA 215 (346)
T ss_pred cCccEEEEECCchHHHHHHHHHHHHHHHHhCCCCeecccccCCCCCcccHHHHHHHHhcCCCEEEEecccccHHHHHHHH
Confidence 49999999987 57777777777776666443 322222 2 36899999999999999999988877777888774
No 50
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=99.71 E-value=2.4e-16 Score=117.18 Aligned_cols=148 Identities=10% Similarity=-0.050 Sum_probs=119.4
Q ss_pred hHHHHHHHhhC-CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcE
Q psy18065 2 AEATMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTK 80 (149)
Q Consensus 2 ~~~~~c~~~~~-~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~ 80 (149)
+.+..++++++ +|.+|+||.+|..+.++.++++..++|+|+++........+++||+.|++..+..++++.+...+|++
T Consensus 55 a~~~a~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~ 134 (333)
T cd06331 55 AAKAARRLIRDDKVDAVFGCYTSASRKAVLPVVERGRGLLFYPTQYEGGECSPNVFYTGATPNQQLLPLIPYLMEKYGKR 134 (333)
T ss_pred HHHHHHHHHhccCCcEEEecccHHHHHHHHHHHHhcCceEEeCCCCCCCcCCCCeEEccCChHHhHHHHHHHHHHhcCCe
Confidence 34567888875 89999999999999999999999999999976432223447889999999888999999775555999
Q ss_pred EEEEeec-CcchhhHHHHHhCCCCCCceEEE-EecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 81 VAIVYEE-DNGLFKLQELVKTPPTLKTEMYI-RHAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 81 v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~-~~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++++.+ ++|....+.+...+++.|.++.. ..++ ..|+.+++.++++.+++.|++.+.......+++|+
T Consensus 135 v~il~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~~~~~~~d~v~~~~~~~~~~~~~~~~ 207 (333)
T cd06331 135 FYLIGSDYVWPRESNRIARALLEELGGEVVGEEYLPLGTSDFGSVIEKIKAAGPDVVLSTLVGDSNVAFYRQF 207 (333)
T ss_pred EEEECCCchhHHHHHHHHHHHHHHcCCEEEEEEEecCCcccHHHHHHHHHHcCCCEEEEecCCCChHHHHHHH
Confidence 9999987 56766666777777777877654 3344 36899999999999999999998888788888874
No 51
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=99.71 E-value=2.7e-16 Score=117.43 Aligned_cols=148 Identities=7% Similarity=0.031 Sum_probs=121.1
Q ss_pred hHHHHHHHhhCCcEEEEcCCCCCcHHHH-------HHhhcccCCCceeeccC-CC--C-CCcccEEEecCChhHHHHHHH
Q psy18065 2 AEATMCRQLQNGVQALFGPSDALLGPHV-------QSICEALDVPHMESRLD-LE--L-NSKEFSVNLYPSQKLLNAAFK 70 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~s~~~~~v-------~~~~~~~~iP~is~~~~-~~--~-~~~~~~~~~~p~~~~~~~ai~ 70 (149)
+.+..+++++++|.+|+||.++..+.++ ++++..+++|+|+++.. +. . ...+++||+.|++..+..+++
T Consensus 55 a~~~a~~lv~~~v~aiiG~~~s~~~~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~l~ 134 (342)
T cd06329 55 ALRKAQKAIDDGVRLVVQGNSSSVALALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSFWHFRTDANTDMKMEALA 134 (342)
T ss_pred HHHHHHHHHHhCCeEEEcccchHHHHHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcceEEEecCChHHHHHHHH
Confidence 3456778888899999999999998888 78889999999998642 21 2 345789999999999999999
Q ss_pred HHHHhcC-CcEEEEEeec-CcchhhHHHHHhCCCC--CCceEEEEe-c--CC-CchHHHHHHHHhCCCceEEEecCchhH
Q psy18065 71 DVIRFLN-WTKVAIVYEE-DNGLFKLQELVKTPPT--LKTEMYIRH-A--NP-STYRNVLREIRQKEIFNLIIDTSTTHI 142 (149)
Q Consensus 71 ~ll~~~~-W~~v~vi~~~-~~~~~~l~~l~~~~~~--~~~~v~~~~-~--~~-~d~~~~l~~i~~~~~~~iil~~~~~~~ 142 (149)
+++...+ ||++++++.+ .+|....+.+.+.+++ .|.++.... + .. .|+.+++.++++.+++.|++.......
T Consensus 135 ~~~~~~~~~k~v~i~~~~~~~g~~~~~~~~~~~~~~~~G~~vv~~~~~~~~~~~d~~~~i~~l~~~~~d~v~~~~~~~~~ 214 (342)
T cd06329 135 SYIKKQPDGKKVYLINQDYSWGQDVAAAFKAMLAAKRPDIQIVGEDLHPLGKVKDFSPYVAKIKASGADTVITGNWGNDL 214 (342)
T ss_pred HHHHhcccCceEEEEeCChHHHHHHHHHHHHHHHhhcCCcEEeceeccCCCCCCchHHHHHHHHHcCCCEEEEcccCchH
Confidence 9998765 9999999987 5788888888888877 788775432 3 24 689999999999999999998877777
Q ss_pred HHHHhhC
Q psy18065 143 SQFFRAV 149 (149)
Q Consensus 143 ~~il~qA 149 (149)
..+++|+
T Consensus 215 ~~~~~~~ 221 (342)
T cd06329 215 LLLVKQA 221 (342)
T ss_pred HHHHHHH
Confidence 7888764
No 52
>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=99.71 E-value=5.8e-16 Score=112.07 Aligned_cols=146 Identities=21% Similarity=0.294 Sum_probs=115.9
Q ss_pred HHHHHHhhC-CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCC----CCCcccEEEecCChhHHHHHHHHHHHhcCC
Q psy18065 4 ATMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE----LNSKEFSVNLYPSQKLLNAAFKDVIRFLNW 78 (149)
Q Consensus 4 ~~~c~~~~~-~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~----~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W 78 (149)
+...+++++ +|.+||||.++..+..++.+++.++||+|+++.... ...+++++++.|+...++..+++++++++|
T Consensus 57 ~~~~~l~~~~~v~~iig~~~~~~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 136 (299)
T cd04509 57 AAARRLCQQEGVDALVGPVSSGVALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNW 136 (299)
T ss_pred HHHHHHhcccCceEEEcCCCcHHHHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCC
Confidence 345666766 899999999988888899999999999999875321 124678999999999999999999999999
Q ss_pred cEEEEEeecC-cchhhHHHHHhCCCCCCceEEEE-ecCC--CchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 79 TKVAIVYEED-NGLFKLQELVKTPPTLKTEMYIR-HANP--STYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 79 ~~v~vi~~~~-~~~~~l~~l~~~~~~~~~~v~~~-~~~~--~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++++++.++ ++..+.+.+.+.+++.|+++... .++. .++.+.++++++.+++.|++.++...+..+++++
T Consensus 137 ~~v~iv~~~~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~ 211 (299)
T cd04509 137 KKVAILYDDDSYGRGLLEAFKAAFKKKGGTVVGEEYYPLGTTDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQA 211 (299)
T ss_pred cEEEEEecCchHHHHHHHHHHHHHHHcCCEEEEEecCCCCCccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHH
Confidence 9999999874 56666666777777777776542 3332 5789999999988888887777767888887763
No 53
>cd06343 PBP1_ABC_ligand_binding_like_8 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=99.71 E-value=3.9e-16 Score=117.20 Aligned_cols=146 Identities=14% Similarity=0.139 Sum_probs=120.4
Q ss_pred HHHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCC---CC-CCcccEEEecCChhHHHHHHHHH-HHhcC
Q psy18065 4 ATMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL---EL-NSKEFSVNLYPSQKLLNAAFKDV-IRFLN 77 (149)
Q Consensus 4 ~~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~---~~-~~~~~~~~~~p~~~~~~~ai~~l-l~~~~ 77 (149)
+...++++ ++|.+|+||.++..+..+..++...+||+|+++... .. +.++|+||+.|++..+..++++. +++++
T Consensus 64 ~~a~~li~~~~v~avvG~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g 143 (362)
T cd06343 64 EQTRKLVESDEVFAMVGGLGTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKP 143 (362)
T ss_pred HHHHHHHhhcCeEEEEecCCcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCC
Confidence 34556775 689999999999999999999999999999975421 22 35688999999999999999995 46889
Q ss_pred CcEEEEEeec-CcchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 78 WTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 78 W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
|++++++|++ ++|....+.+.+.+++.|+++... .++ ..|+.+++.+|++++++.|++.+....+..+++|+
T Consensus 144 ~~~v~ii~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~~ 219 (362)
T cd06343 144 NAKIAVLYQNDDFGKDYLKGLKDGLGDAGLEIVAETSYEVTEPDFDSQVAKLKAAGADVVVLATTPKFAAQAIRKA 219 (362)
T ss_pred CceEEEEEeccHHHHHHHHHHHHHHHHcCCeEEEEeeecCCCccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHH
Confidence 9999999987 578777778888887788887643 343 36899999999999999999999887788888774
No 54
>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=99.70 E-value=6.5e-16 Score=115.11 Aligned_cols=146 Identities=14% Similarity=0.150 Sum_probs=120.3
Q ss_pred HHHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-CC-CCCcccEEEecCChhHHHHHHHHHH-HhcCCc
Q psy18065 4 ATMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LE-LNSKEFSVNLYPSQKLLNAAFKDVI-RFLNWT 79 (149)
Q Consensus 4 ~~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~~-~~~~~~~~~~~p~~~~~~~ai~~ll-~~~~W~ 79 (149)
+..-++++ ++|.+++|+.+|..+.+++++++..++|+|+++.. +. .+..+|+||+.|++..+..++++++ +.++|+
T Consensus 57 ~~a~~li~~~~V~~i~G~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~ 136 (340)
T cd06349 57 TIAQKFVADPRIVAVLGDFSSGVSMAASPIYQRAGLVQLSPTNSHPDFTKGGDFIFRNSTSQAIEAPLLADYAVKDLGFK 136 (340)
T ss_pred HHHHHHhccCCeEEEECCCccHhHHHhHHHHHhCCCeEEecCCCCCccccCCCeEEEccCCcHHHHHHHHHHHHHHcCCc
Confidence 33456775 57999999999999999999999999999998642 22 2346889999999988889999975 788999
Q ss_pred EEEEEeec-CcchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 80 KVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 80 ~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++++|.+ ++|....+.+.+.+++.|+++... .++ ..|+.+.+.+|++++++.|++.+.......+++|+
T Consensus 137 ~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~ 210 (340)
T cd06349 137 KVAILSVNTDWGRTSADIFVKAAEKLGGQVVAHEEYVPGEKDFRPTITRLRDANPDAIILISYYNDGAPIARQA 210 (340)
T ss_pred EEEEEecCChHhHHHHHHHHHHHHHcCCEEEEEEEeCCCCCcHHHHHHHHHhcCCCEEEEccccchHHHHHHHH
Confidence 99999987 678777788888887788888653 333 36899999999999999999999888888888763
No 55
>cd06336 PBP1_ABC_ligand_binding_like_3 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.69 E-value=5.6e-16 Score=115.93 Aligned_cols=146 Identities=12% Similarity=0.137 Sum_probs=120.0
Q ss_pred HHHHHHHhhC-CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-CC--CCCcccEEEecCChhHHHHHHHHHHHhcCC
Q psy18065 3 EATMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LE--LNSKEFSVNLYPSQKLLNAAFKDVIRFLNW 78 (149)
Q Consensus 3 ~~~~c~~~~~-~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~~--~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W 78 (149)
.+...+++++ +|.+|+|+.++..+.. ..++...++|+|+++.. +. ....+|+||+.|++..+..+++++++..+|
T Consensus 60 ~~~~~~li~~~~v~~iiG~~~s~~~~~-~~~~~~~~ip~i~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~ 138 (347)
T cd06336 60 AANARRLVQQDGVKFILGPIGGGITAA-QQITERNKVLLLTAYSSDLSIDTAGNPLTFRVPPIYNVYGVPFLAYAKKPGG 138 (347)
T ss_pred HHHHHHHHhhcCceEEEeCCCCchhhh-hhhhhhcCceEEeccCCcccccccCCceEEEecCCchhHHHHHHHHHhhcCC
Confidence 3456678865 8999999999988888 99999999999998753 22 234578999999999999999999988999
Q ss_pred cEEEEEeec-CcchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCch-hHHHHHhhC
Q psy18065 79 TKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTT-HISQFFRAV 149 (149)
Q Consensus 79 ~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~-~~~~il~qA 149 (149)
++|++++.+ ++|....+.+.+.+++.|+++... .++ ..|+.+++.+|++++++.|++.+... ....+++|+
T Consensus 139 ~~v~il~~d~~~g~~~~~~~~~~l~~~G~~vv~~~~~~~~~~D~s~~i~~i~~~~~d~v~~~~~~~~~~~~~~~~~ 214 (347)
T cd06336 139 KKVALLGPNDAYGQPWVAAYKAAWEAAGGKVVSEEPYDPGTTDFSPIVTKLLAEKPDVIFLGGPSPAPAALVIKQA 214 (347)
T ss_pred ceEEEEccCCchhHHHHHHHHHHHHHcCCEEeeecccCCCCcchHHHHHHHHhcCCCEEEEcCCCchHHHHHHHHH
Confidence 999999987 577777777777777788887543 333 37999999999999999999988877 888888773
No 56
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.69 E-value=1.1e-15 Score=113.57 Aligned_cols=142 Identities=11% Similarity=0.072 Sum_probs=113.1
Q ss_pred HHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-CC-CCCcccEEEecCChhHHHHHHHHHHHhcC-CcEEE
Q psy18065 7 CRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LE-LNSKEFSVNLYPSQKLLNAAFKDVIRFLN-WTKVA 82 (149)
Q Consensus 7 c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~-W~~v~ 82 (149)
-++++ ++|.+|+|+.+|..+.++.++++..++|+|+++.. +. .+..+|+||+.|++..+..++++++++.+ |++++
T Consensus 59 ~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~a~~~~lt~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ 138 (332)
T cd06344 59 DELVKDPEILGVVGHYSSDATLAALDIYQKAKLVLISPTSTSVKLSNPGPYFFRTVPSNAVAARALAKYLKKKNKIKKVA 138 (332)
T ss_pred HHHhcccCceEEEcCCCcHHHHHHHHHHhhcCceEEccCcCchhhcCCCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEE
Confidence 35655 48999999999999999999999999999997642 21 24568999999999999999999998776 99999
Q ss_pred EEeec-C-cchhhHHHHHhCCCC-CCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 83 IVYEE-D-NGLFKLQELVKTPPT-LKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 83 vi~~~-~-~~~~~l~~l~~~~~~-~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
++|++ + +|....+.+...+++ .|.++... .+. ..|+.+.+.++++.++++|++.+.......+++|
T Consensus 139 ~i~~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~~~ 210 (332)
T cd06344 139 IFYNSTSPYSQSLKQEFTSALLERGGGIVVTPCDLSSPDFNANTAVSQAINNGATVLVLFPDTDTLDKALEV 210 (332)
T ss_pred EEeCCCchHhHHHHHHHHHHHHHhcCCeeeeeccCCCCCCCHHHHHHHHHhcCCCEEEEeCChhHHHHHHHH
Confidence 99987 4 676666677777666 47666432 232 2468889999999999999999887667777765
No 57
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=99.68 E-value=1.4e-15 Score=114.82 Aligned_cols=145 Identities=7% Similarity=0.074 Sum_probs=117.9
Q ss_pred HHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-CC--CCCcccEEEecCChhHHHHHHHHHH-HhcCCcE
Q psy18065 5 TMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LE--LNSKEFSVNLYPSQKLLNAAFKDVI-RFLNWTK 80 (149)
Q Consensus 5 ~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~~--~~~~~~~~~~~p~~~~~~~ai~~ll-~~~~W~~ 80 (149)
..-++++++|.+|+|+.+|..+.+++.+++..++|+|+++.. +. ...++|+||+.|.+..+..++++.+ +.++|++
T Consensus 84 ~~~~Li~~~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~ 163 (369)
T PRK15404 84 VANKVVNDGIKYVIGHLCSSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKR 163 (369)
T ss_pred HHHHHHhCCceEEEcCCCchhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCE
Confidence 344677788999999999999999999999999999997642 22 2356889999999998999999965 6789999
Q ss_pred EEEEeec-CcchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 81 VAIVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 81 v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
++++|++ ++|....+.+.+.+++.|.++... .++ ..|+.+++.++++.+++.|++......+..+++|+
T Consensus 164 va~i~~d~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~g~~D~~~~v~~l~~~~~d~v~~~~~~~~~~~~~k~~ 236 (369)
T PRK15404 164 IAVLHDKQQYGEGLARSVKDGLKKAGANVVFFEGITAGDKDFSALIAKLKKENVDFVYYGGYHPEMGQILRQA 236 (369)
T ss_pred EEEEeCCCchhHHHHHHHHHHHHHcCCEEEEEEeeCCCCCchHHHHHHHHhcCCCEEEECCCchHHHHHHHHH
Confidence 9999998 578777777877777888887543 343 36999999999999999988776666777787764
No 58
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=99.65 E-value=3e-15 Score=111.35 Aligned_cols=146 Identities=9% Similarity=0.043 Sum_probs=119.0
Q ss_pred HHHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--C-CCCcccEEEecCChhHHHHHHHHHHHhcCC
Q psy18065 4 ATMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--E-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNW 78 (149)
Q Consensus 4 ~~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W 78 (149)
+..-++++ ++|.+|+|+.++..+.++.++++..++|+|+++.. + . ....+|+||+.|++..+..++++++...+|
T Consensus 56 ~~~~~l~~~~~V~aviG~~~s~~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~ 135 (334)
T cd06327 56 AKAREWIDRDGVDMIVGGPNSAVALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGG 135 (334)
T ss_pred HHHHHHHhhcCceEEECCccHHHHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcC
Confidence 33446665 48999999999999999999999999999998642 2 1 123588999999999999999998766679
Q ss_pred cEEEEEeec-CcchhhHHHHHhCCCCCCceEEEEe-cC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 79 TKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIRH-AN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 79 ~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~~-~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++++++.+ ++|......+.+.+++.|.++.... ++ ..|+.+++.++++.+++.|++.+....+..+++|+
T Consensus 136 ~~v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~l~~~~~d~v~~~~~~~~~~~~~~~~ 210 (334)
T cd06327 136 KKWFFLTADYAFGHSLERDARKVVKANGGKVVGSVRHPLGTSDFSSYLLQAQASGADVLVLANAGADTVNAIKQA 210 (334)
T ss_pred CeEEEEecchHHhHHHHHHHHHHHHhcCCEEcCcccCCCCCccHHHHHHHHHhCCCCEEEEeccchhHHHHHHHH
Confidence 999999987 5787778888887777888875432 33 36999999999999999999988888888888763
No 59
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=99.63 E-value=1.6e-14 Score=107.44 Aligned_cols=140 Identities=10% Similarity=0.014 Sum_probs=110.3
Q ss_pred HHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCC---C-CCCcccEEEecCChhHHHHHHHHHHHhcCCcE
Q psy18065 6 MCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL---E-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTK 80 (149)
Q Consensus 6 ~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~---~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~ 80 (149)
.-+++. ++|.+|+||.++..+.+++.++...++|+|+++..+ . ....+|+||+.|++..+..++.++++..+|++
T Consensus 57 ~~~lv~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~ 136 (333)
T cd06359 57 AERLIKRDKVDFVTGVVFSNVLLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKR 136 (333)
T ss_pred HHHHHhhcCCcEEEccCCcHHHHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCe
Confidence 345665 489999999999999999999999999999986422 1 12368999999999999999999998889999
Q ss_pred EEEEeec-CcchhhHHHHHhCCCCCCceEEEEe-cC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 81 VAIVYEE-DNGLFKLQELVKTPPTLKTEMYIRH-AN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 81 v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~~-~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
+++++++ ++|....+.+.+.++. .+.... ++ ..|+.+++.++++++++.|++.........+++|
T Consensus 137 vail~~~~~~g~~~~~~~~~~~~~---~v~~~~~~~~~~~d~~~~i~~l~~~~pd~v~~~~~~~~~~~~~~~ 205 (333)
T cd06359 137 VFLIAPNYQAGKDALAGFKRTFKG---EVVGEVYTKLGQLDFSAELAQIRAAKPDAVFVFLPGGMGVNFVKQ 205 (333)
T ss_pred EEEEecCchhhHHHHHHHHHHhCc---eeeeeecCCCCCcchHHHHHHHHhCCCCEEEEEccCccHHHHHHH
Confidence 9999987 5777766766665532 222222 22 3689999999999999999997777767777776
No 60
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=99.62 E-value=2.8e-14 Score=105.94 Aligned_cols=146 Identities=10% Similarity=0.026 Sum_probs=117.9
Q ss_pred HHHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--C-CCCcccEEEecCChhHHHHHHHHHHHhcCC
Q psy18065 4 ATMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--E-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNW 78 (149)
Q Consensus 4 ~~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W 78 (149)
+...+++. ++|.+|+|+.++..+..+..++...++|+|+++.. + . ...++++||+.|++..+...+++++...+|
T Consensus 55 ~~~~~lv~~~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~ 134 (336)
T cd06360 55 EKARKLIEQDKVDVVVGPVHSGEALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGY 134 (336)
T ss_pred HHHHHHHHHhCCcEEEccCccHhHHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCC
Confidence 34556765 68999999998888888889999999999998642 2 1 122578999999999999999999988899
Q ss_pred cEEEEEeec-CcchhhHHHHHhCCCCCCceEEEEe-cC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 79 TKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIRH-AN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 79 ~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~~-~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++++++.+ .++....+.+.+.+++.|+++.... ++ ..||.+++.++++.++++|++.........+++|+
T Consensus 135 ~~v~~l~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~d~~~~v~~~~~~~pd~v~~~~~~~~~~~~~~~~ 209 (336)
T cd06360 135 KKVVTVAWDYAFGYEVVEGFKEAFTEAGGKIVKELWVPFGTSDFASYLAQIPDDVPDAVFVFFAGGDAIKFVKQY 209 (336)
T ss_pred CeEEEEeccchhhHHHHHHHHHHHHHcCCEEEEEEecCCCCcchHHHHHHHHhcCCCEEEEecccccHHHHHHHH
Confidence 999999987 5677777778777777888775432 33 37999999999999999999888777788888774
No 61
>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=99.62 E-value=3.1e-14 Score=102.97 Aligned_cols=145 Identities=16% Similarity=0.228 Sum_probs=114.7
Q ss_pred HHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCC-C-C-CCcccEEEecCChhHHHHHHHHHHHhcC-Cc
Q psy18065 4 ATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-E-L-NSKEFSVNLYPSQKLLNAAFKDVIRFLN-WT 79 (149)
Q Consensus 4 ~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~-~-~-~~~~~~~~~~p~~~~~~~ai~~ll~~~~-W~ 79 (149)
+..++++++++.+++||.++..+..+..++...+||+|++.... . . ...+++|++.|++..+..++++++...+ |+
T Consensus 57 ~~~~~l~~~~v~~iig~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 136 (298)
T cd06268 57 AAARELVDDGVDAVIGPLSSGVALAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVK 136 (298)
T ss_pred HHHHHHHhCCceEEEcCCcchhHHhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCC
Confidence 34456777789999999998888889999999999999986532 1 1 2467899999999999999999998887 99
Q ss_pred EEEEEeec-CcchhhHHHHHhCCCCCCceEEEEe-cC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 80 KVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIRH-AN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 80 ~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~~-~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
++++++.+ +.+....+.+.+.++..|+++.... ++ ..++.+.+.++++.+++.|++.++...+..++++
T Consensus 137 ~i~~v~~~~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~ 209 (298)
T cd06268 137 KVAIIYDDYAYGRGLAAAFREALKKLGGEVVAEETYPPGATDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQ 209 (298)
T ss_pred EEEEEEcCCchhHHHHHHHHHHHHHcCCEEEEEeccCCCCccHHHHHHHHHhcCCCEEEEccccchHHHHHHH
Confidence 99999987 4676777777777777777764432 33 2578999999999888888888776667666664
No 62
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=99.60 E-value=2.4e-14 Score=107.27 Aligned_cols=146 Identities=11% Similarity=0.013 Sum_probs=116.5
Q ss_pred HHHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHH-hcCCcEE
Q psy18065 4 ATMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIR-FLNWTKV 81 (149)
Q Consensus 4 ~~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~-~~~W~~v 81 (149)
+.+-++++ ++|.+|+|+.+|..+.++.+++...++|++++.........+++||+.+.+..+...+++.+. ..+++++
T Consensus 57 ~~a~~Li~~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~v 136 (348)
T cd06355 57 EKARKLLTQDKVAAVFGCWTSASRKAVLPVFERHNGLLFYPVQYEGLEQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRF 136 (348)
T ss_pred HHHHHHHHhCCCcEEEeccchhhHHHHHHHHhccCCceecCCCccCCCCCCCEEEeCCChHHhHHHHHHHHHhccCCCeE
Confidence 34446665 589999999999999999999999999999865322223457889999998888888888775 5689999
Q ss_pred EEEeec-CcchhhHHHHHhCCCCCCceEEEEe-cC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 82 AIVYEE-DNGLFKLQELVKTPPTLKTEMYIRH-AN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 82 ~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~~-~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
++++++ ++|....+.+...+++.|..+.... ++ ..|+.+++.++++.+++.|++......+..+++|+
T Consensus 137 aii~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~D~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~~ 208 (348)
T cd06355 137 YLVGSDYVYPRTANKILKAQLESLGGEVVGEEYLPLGHTDFQSIINKIKAAKPDVVVSTVNGDSNVAFFKQL 208 (348)
T ss_pred EEECCcchHHHHHHHHHHHHHHHcCCeEEeeEEecCChhhHHHHHHHHHHhCCCEEEEeccCCchHHHHHHH
Confidence 999988 5787777777777777788876533 33 36899999999999999999988877788888774
No 63
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=99.60 E-value=2.6e-14 Score=106.33 Aligned_cols=143 Identities=13% Similarity=0.013 Sum_probs=111.4
Q ss_pred HHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHH-HhcCCcEEE
Q psy18065 5 TMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVI-RFLNWTKVA 82 (149)
Q Consensus 5 ~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll-~~~~W~~v~ 82 (149)
..-++++ ++|.+|+|+.++..+.++..+++ .+||+|+++........+++||+.+++..+..+.++.+ +..+|++|+
T Consensus 58 ~a~~Li~~~~v~aviG~~~s~~a~a~~~~~~-~~vp~i~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ 136 (333)
T cd06358 58 AAARLVDEGGVDAIIGWHTSAVRNAVAPVVA-GRVPYVYTSLYEGGECNPGVFLTGETPEQQLAPAIPWLAEEKGARRWY 136 (333)
T ss_pred HHHHHHHhCCCcEEEecCcHHHHHHHHHHHh-cCceEEeCCCcCCCCCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEE
Confidence 3446675 48999999999999999999999 99999997542222345789999998888877677655 678999999
Q ss_pred EEeec-CcchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 83 IVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 83 vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
+++++ ++|....+.+...+++.|+.+... .++ ..||.+.+.++++.+++.|++.........+++|
T Consensus 137 i~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~ 206 (333)
T cd06358 137 LIGNDYVWPRGSLAAAKRYIAELGGEVVGEEYVPLGTTDFTSVLERIAASGADAVLSTLVGQDAVAFNRQ 206 (333)
T ss_pred EEeccchhhHHHHHHHHHHHHHcCCEEeeeeeecCChHHHHHHHHHHHHcCCCEEEEeCCCCchHHHHHH
Confidence 99987 567766666666677778877543 343 3689999999999999988887777666777776
No 64
>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=99.59 E-value=2.7e-14 Score=106.59 Aligned_cols=145 Identities=10% Similarity=0.033 Sum_probs=114.3
Q ss_pred HHHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEE
Q psy18065 3 EATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVA 82 (149)
Q Consensus 3 ~~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~ 82 (149)
.+...++++++|.+|+||.++..+.+++.++...++|+|+++..+.....++.||+.+++..+..++++.+...||++++
T Consensus 49 ~~~~~~li~~~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~k~va 128 (336)
T cd06339 49 AAAARQAVAEGADIIVGPLLKENVAALAAAAAELGVPVLALNNDESVAAGPNLFYFGLSPEDEARRAAEYARSQGKRRPL 128 (336)
T ss_pred HHHHHHHHHcCCCEEEccCCHHHHHHHHhhhccCCCCEEEccCCccccCCCCEEEecCChHHHHHHHHHHHHhcCccceE
Confidence 34556677778999999999998888989999999999997643221125788999999999999999988777999999
Q ss_pred EEeec-CcchhhHHHHHhCCCCCCceEEEE-ecCC--CchHHHHHHHHhC---------------------CCceEEEec
Q psy18065 83 IVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HANP--STYRNVLREIRQK---------------------EIFNLIIDT 137 (149)
Q Consensus 83 vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~~--~d~~~~l~~i~~~---------------------~~~~iil~~ 137 (149)
+++++ ++|....+.+.+.+++.|..+... .++. .|+...+.+|++. +++.|++.+
T Consensus 129 ii~~~~~~g~~~~~~f~~~~~~~G~~vv~~~~~~~~~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~~ 208 (336)
T cd06339 129 VLAPDGAYGQRVADAFRQAWQQLGGTVVAIESYDPSPTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDAVA 208 (336)
T ss_pred EEecCChHHHHHHHHHHHHHHHcCCceeeeEecCCCHHHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEEEe
Confidence 99987 577777778888887778776543 3443 6899999999998 888888877
Q ss_pred Cch-hHHHHHh
Q psy18065 138 STT-HISQFFR 147 (149)
Q Consensus 138 ~~~-~~~~il~ 147 (149)
... .+..+.+
T Consensus 209 ~~~~~~~~~~~ 219 (336)
T cd06339 209 LPDGEARLIKP 219 (336)
T ss_pred cChhhhhhhcc
Confidence 664 4444443
No 65
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=99.57 E-value=1.8e-13 Score=101.99 Aligned_cols=143 Identities=10% Similarity=0.004 Sum_probs=111.3
Q ss_pred HHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeecc-CCC--C-CCcccEEEecCChhHHHHHHHHHHHhcCCc
Q psy18065 5 TMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRL-DLE--L-NSKEFSVNLYPSQKLLNAAFKDVIRFLNWT 79 (149)
Q Consensus 5 ~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~-~~~--~-~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~ 79 (149)
..-++++ ++|.+|+||.+|..+.++.++++..++|+|+++. .+. . ...+|+||+.+++..+...+++.+... ++
T Consensus 59 ~~~~li~~~~V~avvG~~~S~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~ 137 (333)
T cd06328 59 LARELIGDDGVDILVGSTSSGVALAVLPVAEENKKILIVEPAAADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GK 137 (333)
T ss_pred HHHHHHHhcCCeEEEccCCcHHHHHHHHHHHHhCCcEEecCCCCchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CC
Confidence 4446665 4899999999999999999999999999998653 222 2 234789999888777777777776554 89
Q ss_pred EEEEEeec-CcchhhHHHHHhCCCCCCceEEEEe-cC--CCchHHHHHHHHhCCCceEEEecCch-hHHHHHhh
Q psy18065 80 KVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIRH-AN--PSTYRNVLREIRQKEIFNLIIDTSTT-HISQFFRA 148 (149)
Q Consensus 80 ~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~~-~~--~~d~~~~l~~i~~~~~~~iil~~~~~-~~~~il~q 148 (149)
+++++|.+ ++|....+.+.+.+++.|+++.... ++ ..|+.+.+.+|+..++++|++..... ....+++|
T Consensus 138 ~v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~ 211 (333)
T cd06328 138 KIATLAQDYAFGRDGVAAFKAALEKLGAAIVTEEYAPTDTTDFTPYAQRLLDALKKVLFVIWAGAGGPWPKLQQ 211 (333)
T ss_pred eEEEEecCccccHHHHHHHHHHHHhCCCEEeeeeeCCCCCcchHHHHHHHHhcCCCEEEEEecCchhHHHHHHH
Confidence 99999987 6888888888888888898876533 33 36899999999999999988765443 45555555
No 66
>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=99.57 E-value=1.7e-13 Score=101.80 Aligned_cols=145 Identities=16% Similarity=0.116 Sum_probs=115.8
Q ss_pred HHHHHHhhC-CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCC---CCCCcccEEEecCChhHHHHHHHHHHHhcCCc
Q psy18065 4 ATMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDL---ELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWT 79 (149)
Q Consensus 4 ~~~c~~~~~-~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~---~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~ 79 (149)
+...+++++ +|.+|||+.++..+..+.+++...++|+|+++... .....++++++.|++......+++++...||+
T Consensus 58 ~~~~~l~~~~~v~avig~~~s~~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~ 137 (336)
T cd06326 58 ANTRKLIEDDKVFALFGYVGTPTTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYADEIAAIVRHLVTLGLK 137 (336)
T ss_pred HHHHHHHhhcCcEEEEeCCCchhHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChHHHHHHHHHHHHHhCCc
Confidence 456777874 89999999888777888899999999999975432 12235788999999999999999999999999
Q ss_pred EEEEEeec-CcchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 80 KVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 80 ~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
++++++++ .++..+.+.+.+.+++.|.++... .++ ..|+.+++.++++++++.|++.++...+..++++
T Consensus 138 ~v~~l~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~ 210 (336)
T cd06326 138 RIAVFYQDDAFGKDGLAGVEKALAARGLKPVATASYERNTADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRA 210 (336)
T ss_pred eEEEEEecCcchHHHHHHHHHHHHHcCCCeEEEEeecCCcccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHH
Confidence 99999987 467777888888777778765432 333 2689999999999989888888776667777776
No 67
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=99.57 E-value=8e-14 Score=104.69 Aligned_cols=145 Identities=14% Similarity=0.081 Sum_probs=115.4
Q ss_pred HHHHHHhhC-CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCC---C-CCCcccEEEecCChhHHHHHHHHHHHhcC-
Q psy18065 4 ATMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDL---E-LNSKEFSVNLYPSQKLLNAAFKDVIRFLN- 77 (149)
Q Consensus 4 ~~~c~~~~~-~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~---~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~- 77 (149)
+..-+++.+ +|.+|+ +.+|..+.++.+++...+||+|+++... . ...++|+||+.|++..+..++++++...+
T Consensus 57 ~~a~~Li~~~~V~~i~-~~~S~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~ 135 (351)
T cd06334 57 ECYERLKGEDGAVAFQ-GWSTGITEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEG 135 (351)
T ss_pred HHHHHHhccCCcEEEe-cCcHHHHHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcc
Confidence 344466665 677765 5677888899999999999999986432 1 23467999999999999999999886544
Q ss_pred ----CcEEEEEeec-CcchhhHHHHHhCCCCCCceEEEEe-cC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 78 ----WTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIRH-AN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 78 ----W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~~-~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
.++|++++++ ++|....+.+.+.+++.|+++.... ++ ..|+.+.+.+|++.+++.|++.........+++|+
T Consensus 136 ~~~~~~kvaiv~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~D~~~~v~~i~~~~pd~V~~~~~~~~~~~~~~~~ 215 (351)
T cd06334 136 GKLKGKKIALVYHDSPFGKEPIEALKALAEKLGFEVVLEPVPPPGPNDQKAQWLQIRRSGPDYVILWGWGVMNPVAIKEA 215 (351)
T ss_pred cCCCCCeEEEEeCCCccchhhHHHHHHHHHHcCCeeeeeccCCCCcccHHHHHHHHHHcCCCEEEEecccchHHHHHHHH
Confidence 6999999987 5787777777777777888876543 33 26999999999999999999998888888888874
No 68
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=99.56 E-value=9.8e-14 Score=104.77 Aligned_cols=146 Identities=16% Similarity=0.211 Sum_probs=119.8
Q ss_pred HHHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-CC--C-CCcccEEEecCChhHHHHHHHHHH-HhcC
Q psy18065 4 ATMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LE--L-NSKEFSVNLYPSQKLLNAAFKDVI-RFLN 77 (149)
Q Consensus 4 ~~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~~--~-~~~~~~~~~~p~~~~~~~ai~~ll-~~~~ 77 (149)
+..-+++. ++|.+|+|+.+|..+.++.++++..++|+|+++.+ +. . ...++.||+.|++..++.++++++ +.++
T Consensus 68 ~~A~~li~~~~V~~vvG~~~S~~~~a~~~v~~~~~i~~i~p~st~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~ 147 (366)
T COG0683 68 AVARKLITQDGVDAVVGPTTSGVALAASPVAEEAGVPLISPSATAPQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGG 147 (366)
T ss_pred HHHHHHHhhcCceEEEEeccCcccccchhhHhhcCceEEeecCCCCcccccccccceEEecCChHHHHHHHHHHHHHhcC
Confidence 34456665 78999999999999999999999999999999752 21 2 233448999999999999999977 5777
Q ss_pred CcEEEEEeec-CcchhhHHHHHhCCCCCCceEEE-EecCC--CchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 78 WTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYI-RHANP--STYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 78 W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~-~~~~~--~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
.+++++++++ .+|....+.+.+.++..|..+.. ..+.+ .++..++.+++.+++++|++.+.......++||+
T Consensus 148 ~k~v~ii~~~~~yg~~~~~~~~~~l~~~G~~~~~~~~~~~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~ 223 (366)
T COG0683 148 KKRVAIIGDDYAYGEGLADAFKAALKALGGEVVVEEVYAPGDTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQA 223 (366)
T ss_pred CcEEEEEeCCCCcchhHHHHHHHHHHhCCCeEEEEEeeCCCCCChHHHHHHHHhcCCCEEEECCCCccchHHHHHH
Confidence 7899999998 68988888888888888886433 33433 4699999999999999888888888888888874
No 69
>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=99.55 E-value=2e-13 Score=102.64 Aligned_cols=147 Identities=12% Similarity=0.152 Sum_probs=112.4
Q ss_pred HHHHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCC--------C--CCCcccEEEecCChhHHHHHHHH
Q psy18065 3 EATMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL--------E--LNSKEFSVNLYPSQKLLNAAFKD 71 (149)
Q Consensus 3 ~~~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~--------~--~~~~~~~~~~~p~~~~~~~ai~~ 71 (149)
.+..-++++ ++|.+|+|+.+|..+.+++.+++..+||+|+++... . ...++|.||..+++..+..++++
T Consensus 58 ~~~a~~li~~d~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~ 137 (357)
T cd06337 58 GLVAQELILTDKVDLLLAGGTPDTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVG 137 (357)
T ss_pred HHHHHHHHhccCccEEEecCCcchhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHH
Confidence 344556776 489999999999999999999999999999864210 1 12357889999998888888888
Q ss_pred HHHhcC-CcEEEEEeec-CcchhhHHHHH---hCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHH
Q psy18065 72 VIRFLN-WTKVAIVYEE-DNGLFKLQELV---KTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHIS 143 (149)
Q Consensus 72 ll~~~~-W~~v~vi~~~-~~~~~~l~~l~---~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~ 143 (149)
.++..+ ++++++++++ ++|....+.+. +.+++.|+.+... .++ ..||.+++.+|++++++.|++.+....+.
T Consensus 138 ~~~~~~~~k~v~ii~~~~~~g~~~~~~~~~~~~~~~~~G~~vv~~~~~~~~~~D~~~~v~~ik~a~pD~v~~~~~~~~~~ 217 (357)
T cd06337 138 MWKQLETNKKVGILYPNDPDGNAFADPVIGLPAALADAGYKLVDPGRFEPGTDDFSSQINAFKREGVDIVTGFAIPPDFA 217 (357)
T ss_pred HHHhCCCCceEEEEeecCchhHHHHHhhhcccHHHHhCCcEEecccccCCCCCcHHHHHHHHHhcCCCEEEeCCCccHHH
Confidence 888777 9999999987 56654444333 3344568776543 343 36999999999999999999888888888
Q ss_pred HHHhhC
Q psy18065 144 QFFRAV 149 (149)
Q Consensus 144 ~il~qA 149 (149)
.+++|+
T Consensus 218 ~~~~~~ 223 (357)
T cd06337 218 TFWRQA 223 (357)
T ss_pred HHHHHH
Confidence 888773
No 70
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=99.53 E-value=6.8e-13 Score=98.26 Aligned_cols=139 Identities=11% Similarity=0.027 Sum_probs=108.4
Q ss_pred HHHhhC-CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCC---CC-CCcccEEEecCChhHHHHHHHHHHHhcCCcEE
Q psy18065 7 CRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDL---EL-NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 7 c~~~~~-~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~---~~-~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v 81 (149)
-++..+ +|.+|||+.++.....+...+...++|+|+++... .. ...+++||+.|++..+...+++++...+|+++
T Consensus 58 ~~l~~~~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v 137 (333)
T cd06332 58 RKLIEQDKVDVVVGPVFSNVALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKV 137 (333)
T ss_pred HHHHHHcCCcEEEcCCccHHHHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceE
Confidence 355554 89999999888888888899999999999986422 11 23588999999999999999999988999999
Q ss_pred EEEeec-CcchhhHHHHHhCCCCCCceEEE-EecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 82 AIVYEE-DNGLFKLQELVKTPPTLKTEMYI-RHAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 82 ~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~-~~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
++++.+ +++....+.+.+.++ + .+.. ..++ ..|+.+++.++++.+++.|++.........+++|
T Consensus 138 ~il~~~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~~d~~~~i~~l~~~~~d~i~~~~~~~~~~~~~~~ 205 (333)
T cd06332 138 VIIAPDYAAGKDAVAGFKRTFK--G-EVVEEVYTPLGQLDFSAELAQIRAAKPDAVFVFLPGGMAVNFVKQ 205 (333)
T ss_pred EEEecCcchhHHHHHHHHHhhc--E-EEeeEEecCCCCcchHHHHHHHHhcCCCEEEEecccchHHHHHHH
Confidence 999986 567777777777665 3 2222 2222 3589999999999999999987776677777776
No 71
>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=99.53 E-value=5.9e-13 Score=98.08 Aligned_cols=142 Identities=17% Similarity=0.150 Sum_probs=111.2
Q ss_pred HHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCC--CCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEE
Q psy18065 7 CRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL--ELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAI 83 (149)
Q Consensus 7 c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~--~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~v 83 (149)
-++++ ++|.++||+.++..+..+..++...++|+|+++... .....+|+||+.|++......+++.+...||+++++
T Consensus 59 ~~li~~~~v~~vig~~~s~~~~~~~~~~~~~~vP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vai 138 (312)
T cd06333 59 RKLIEEDKVDAIIGPSTTPATMAVAPVAEEAKTPMISLAPAAAIVEPKRKWVFKTPQNDRLMAEAILADMKKRGVKTVAF 138 (312)
T ss_pred HHHHhhCCeEEEECCCCCHHHHHHHHHHHhcCCCEEEccCCccccCCCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEE
Confidence 34665 489999999887777788889999999999986422 123446889999999999999999999999999999
Q ss_pred Eeec-CcchhhHHHHHhCCCCCCceEEE-EecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 84 VYEE-DNGLFKLQELVKTPPTLKTEMYI-RHAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 84 i~~~-~~~~~~l~~l~~~~~~~~~~v~~-~~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
++.+ +++..+.+.+.+.+++.|+++.. ..++ ..|+...+.++++.+++.|++..+...+..++++
T Consensus 139 l~~~~~~~~~~~~~~~~~~~~~G~~v~~~~~~~~~~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~~~~~ 207 (312)
T cd06333 139 IGFSDAYGESGLKELKALAPKYGIEVVADERYGRTDTSVTAQLLKIRAARPDAVLIWGSGTPAALPAKN 207 (312)
T ss_pred EecCcHHHHHHHHHHHHHHHHcCCEEEEEEeeCCCCcCHHHHHHHHHhCCCCEEEEecCCcHHHHHHHH
Confidence 9986 46777777787777778887654 2343 2578899999988888888888766656666665
No 72
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=99.52 E-value=4.1e-13 Score=101.71 Aligned_cols=146 Identities=9% Similarity=0.062 Sum_probs=112.7
Q ss_pred HHHHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHH-hcCCcE
Q psy18065 3 EATMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIR-FLNWTK 80 (149)
Q Consensus 3 ~~~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~-~~~W~~ 80 (149)
.+..-++++ ++|.+|+|+.+|..+.++.+++...++|+|...........+|+||+.|++..+..++++++. ..+ ++
T Consensus 57 ~~~a~~li~~d~v~~viG~~~S~~~~A~~~~~~~~~~~~i~~~~~~~~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g-~~ 135 (374)
T TIGR03669 57 QELTRRLLNRDKVDALWAGYSSATREAIRPIIDRNEQLYFYTNQYEGGVCDEYTFAVGATARQQLGTVVPYMVEEYG-KK 135 (374)
T ss_pred HHHHHHHHHhCCCCEEEcCCchHHHHHHHHHHHhcCceEEcCcccccccCCCCEEEcCCChHHHHHHHHHHHHHcCC-Ce
Confidence 344556775 689999999999999999999999999999754211122347899999999989999999875 567 56
Q ss_pred EEEEeec-CcchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 81 VAIVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 81 v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++++++ ++|....+.+.+.+++.|+.+.-. .++ ..||.+++.+|++++++.|++.........+++|+
T Consensus 136 va~l~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~g~~Df~~~l~~i~~~~pD~V~~~~~g~~~~~~~kq~ 208 (374)
T TIGR03669 136 IYTIAADYNFGQLSADWVRVIAKENGAEVVGEEFIPLSVSQFSSTIQNIQKADPDFVMSMLVGANHASFYEQA 208 (374)
T ss_pred EEEEcCCcHHHHHHHHHHHHHHHHcCCeEEeEEecCCCcchHHHHHHHHHHcCCCEEEEcCcCCcHHHHHHHH
Confidence 8889887 577766666666666778776543 343 36999999999999999999987776677788774
No 73
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=99.52 E-value=1.2e-13 Score=102.74 Aligned_cols=143 Identities=18% Similarity=0.265 Sum_probs=113.8
Q ss_pred HHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHH-HhcCCcEEEE
Q psy18065 6 MCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVI-RFLNWTKVAI 83 (149)
Q Consensus 6 ~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll-~~~~W~~v~v 83 (149)
+-++++ ++|.+|+||.++..+.++..++...++|+|+++........+++||+.|++..+..++++.+ ++++.+++++
T Consensus 61 ~~~l~~~~~v~~vvg~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i 140 (343)
T PF13458_consen 61 ARKLIDDDGVDAVVGPLSSAQAEAVAPIAEEAGIPYISPSASSPSPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAI 140 (343)
T ss_dssp HHHHHHTSTESEEEESSSHHHHHHHHHHHHHHT-EEEESSGGGGTTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEE
T ss_pred HHHhhhhcCcEEEEecCCcHHHHHHHHHHHhcCcEEEEeeccCCCCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEE
Confidence 345656 78999999999999999999999999999996542223556889999999999999999975 6689999999
Q ss_pred EeecC-cchhhHHHHHhCCCCCCceEE-EEecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 84 VYEED-NGLFKLQELVKTPPTLKTEMY-IRHAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 84 i~~~~-~~~~~l~~l~~~~~~~~~~v~-~~~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
++.++ +|....+.+.+.++..|..+. ...++ ..|+..++.++++.+++.|++.+.......+++|
T Consensus 141 v~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~ 209 (343)
T PF13458_consen 141 VYPDDPYGRSLAEAFRKALEAAGGKVVGEIRYPPGDTDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQ 209 (343)
T ss_dssp EEESSHHHHHHHHHHHHHHHHTTCEEEEEEEE-TTSSHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHH
T ss_pred EecCchhhhHHHHHHHHHHhhcCceeccceecccccccchHHHHHHhhcCCCEEEEeccchhHHHHHHH
Confidence 99884 676777777777777787764 23343 3789999999999999998888888888888876
No 74
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=99.51 E-value=4.6e-13 Score=99.80 Aligned_cols=144 Identities=9% Similarity=-0.004 Sum_probs=112.6
Q ss_pred HHHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHh-cCCcEE
Q psy18065 4 ATMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRF-LNWTKV 81 (149)
Q Consensus 4 ~~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~-~~W~~v 81 (149)
+..-++++ ++|.+|+|+.+|..+.++.++++..++|+|...........+|+||+.+++..+..++++.+.. .+ +++
T Consensus 57 ~~~~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~-~~v 135 (334)
T cd06356 57 QYAQRLALQDKVDVVWGGISSASREAIRPIMDRTKQLYFYTTQYEGGVCDRNTFCTGATPAQQFSTLVPYMMEKYG-KKV 135 (334)
T ss_pred HHHHHHHHhCCCCEEEeCcchHHHHHHHHHHHhcCceEEeCCCccCCcccCCEEEeCCCcHHHHHHHHHHHHHccC-CeE
Confidence 34457775 6899999999999999999999999999998643221223478999999999999999997754 45 779
Q ss_pred EEEeec-CcchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 82 AIVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 82 ~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
++++.+ ++|......+.+.+++.|+.+... .++ ..|+...+.+|+..+++.|++.........+++|
T Consensus 136 ail~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~l~~~~pd~v~~~~~~~~~~~~~~~ 206 (334)
T cd06356 136 YTIAADYNFGQISAEWVRKIVEENGGEVVGEEFIPLDVSDFGSTIQKIQAAKPDFVMSILVGANHLSFYRQ 206 (334)
T ss_pred EEECCCchhhHHHHHHHHHHHHHcCCEEEeeeecCCCchhHHHHHHHHHhcCCCEEEEeccCCcHHHHHHH
Confidence 999987 577777777777777778877543 343 3699999999999999999987766666667766
No 75
>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=99.51 E-value=9.6e-14 Score=103.30 Aligned_cols=133 Identities=17% Similarity=0.238 Sum_probs=101.7
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeecc-CCCCCCcccEEEecCChhHHHHHHHHHH------HhcCCcEEEEEee
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESRL-DLELNSKEFSVNLYPSQKLLNAAFKDVI------RFLNWTKVAIVYE 86 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~-~~~~~~~~~~~~~~p~~~~~~~ai~~ll------~~~~W~~v~vi~~ 86 (149)
-.+++||.|...+..+++....|++|+||.|. ..+.++...+.|+.|++...+..++++. ++++|+. ++||.
T Consensus 82 gcv~lGP~CtYat~~~~~~~~~~~~P~ISaGsfglscd~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~-ayvyk 160 (380)
T cd06369 82 GCVLLGPSCTYATFQMVDDEFNLSLPIISAGSFGLSCDYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWET-AYVYK 160 (380)
T ss_pred CcEEEcCccceehhhhhhhhhcCCCceEeccccccCCCchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCce-eEEEc
Confidence 58999999999999999999999999999874 5555666789999999999999999999 5999985 45897
Q ss_pred cC----cchhhHHHHHhCCCCCCceEEEEe-cC-CCchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 87 ED----NGLFKLQELVKTPPTLKTEMYIRH-AN-PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 87 ~~----~~~~~l~~l~~~~~~~~~~v~~~~-~~-~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
++ .+...+..+....+..+..+.+.. +. .+++.++++++++++ |+||+.|+++..++++.+
T Consensus 161 ~~~~~edCf~~i~al~a~~~~f~~~~~~~~~l~~~~~~~~il~~~~~~s-RIiImCG~p~~ir~lm~~ 227 (380)
T cd06369 161 KQENTEDCFWYINALEAGVAYFSSALKFKELLRTEEELQKLLTDKNRKS-NVIIMCGTPEDIVNLKGD 227 (380)
T ss_pred CCCCccceeeEhHhhhhhhhhhhhcccceeeecCchhHHHHHHHhccCc-cEEEEeCCHHHHHHHHhc
Confidence 64 244444444443333233343333 22 367899999988765 688888899999998865
No 76
>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane.
Probab=99.49 E-value=9.1e-13 Score=99.17 Aligned_cols=145 Identities=8% Similarity=-0.051 Sum_probs=112.3
Q ss_pred HHHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHh-cCCcEE
Q psy18065 4 ATMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRF-LNWTKV 81 (149)
Q Consensus 4 ~~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~-~~W~~v 81 (149)
+..-++++ ++|.+|+|+.+|..+.++.++++..++|++.+.........+++||+.|++..+..++++.+.. .|.+++
T Consensus 58 ~~a~~Lv~~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v 137 (359)
T TIGR03407 58 EKARKLITQDKVAAVFGCWTSASRKAVLPVFEENNGLLFYPVQYEGEECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRF 137 (359)
T ss_pred HHHHHHHhhCCCcEEEcCCcHHHHHHHHHHHhccCCceEeCCcccCcccCCCEEEcCCChHHHHHHHHHHHHhccCCceE
Confidence 34456775 6899999999999999999999999999987643211234578899999999888888887754 699999
Q ss_pred EEEeec-CcchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 82 AIVYEE-DNGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 82 ~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
++++.+ ++|....+.+.+.+++.|+.+... .++ ..|+.+++.+|++.+++.|++.........+++|
T Consensus 138 ~~l~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~D~s~~v~~l~~~~pDav~~~~~~~~~~~~~~~ 208 (359)
T TIGR03407 138 FLLGSDYVFPRTANKIIKAYLKSLGGTVVGEDYTPLGHTDFQTIINKIKAFKPDVVFNTLNGDSNVAFFKQ 208 (359)
T ss_pred EEecCccHHHHHHHHHHHHHHHHcCCEEEeeEEecCChHhHHHHHHHHHHhCCCEEEEeccCCCHHHHHHH
Confidence 999987 577666566666667778776543 333 3689999999999999998876666666667776
No 77
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=99.38 E-value=2.1e-11 Score=91.82 Aligned_cols=146 Identities=14% Similarity=0.064 Sum_probs=110.0
Q ss_pred HHHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEE
Q psy18065 4 ATMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVA 82 (149)
Q Consensus 4 ~~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~ 82 (149)
+..-++++ ++|.+|+|+.++..+.++.++++..++|++.++........++.|++.+++.....++++++..-+=++++
T Consensus 57 ~~a~~li~~~~V~aiiG~~~s~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~ 136 (360)
T cd06357 57 ALAERLLREDGVRVIFGCYTSSSRKAVLPVVERHDALLWYPTLYEGFEYSPNVIYTGAAPNQNSVPLADYLLRHYGKRVF 136 (360)
T ss_pred HHHHHHHhhCCCcEEEeCccHHHHHHHHHHHHhcCceEEeCCCccCCcccCCEEEeCCCcHHHHHHHHHHHHhcCCcEEE
Confidence 34557775 68999999999999999999999999999986532111223556777777766677888877543338899
Q ss_pred EEeec-CcchhhHHHHHhCCCCCCceEEEEe---cC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 83 IVYEE-DNGLFKLQELVKTPPTLKTEMYIRH---AN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 83 vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~~---~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++.+ ++|....+.+.+.+++.|..+.... +. ..|+.+++.++++.+++.|++.+....+..+++|+
T Consensus 137 ~i~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~~~d~s~~v~~l~~~~pd~V~~~~~~~~~~~~~~~~ 209 (360)
T cd06357 137 LVGSNYIYPYESNRIMRDLLEQRGGEVLGERYLPLGASDEDFARIVEEIREAQPDFIFSTLVGQSSYAFYRAY 209 (360)
T ss_pred EECCCCcchHHHHHHHHHHHHHcCCEEEEEEEecCCCchhhHHHHHHHHHHcCCCEEEEeCCCCChHHHHHHH
Confidence 99987 5676666666666666787765432 33 36899999999999999999988888888888763
No 78
>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=99.33 E-value=1.3e-11 Score=92.72 Aligned_cols=134 Identities=9% Similarity=0.092 Sum_probs=101.4
Q ss_pred HHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--C-CCCcccEEEecCChhHHHHHHHHHHHhcCCc
Q psy18065 4 ATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--E-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWT 79 (149)
Q Consensus 4 ~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~ 79 (149)
+..-++++++|.+|+|+.+|..+.++..++...++|+|+++.. + . .+..+|.||+.|++..+..++++.+..-+++
T Consensus 50 ~~a~~Li~~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i~~~a~~~~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~k 129 (347)
T TIGR03863 50 AALKALLAQGVRFFVLDLPAAALLALADAAKAKGALLFNAGAPDDALRGADCRANLLHTLPSRAMLADALAQYLAAKRWR 129 (347)
T ss_pred HHHHHHHHCCCCEEEecCChHHHHHHHHHHHhCCcEEEeCCCCChHHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCC
Confidence 3445667778999999999999999999999999999998643 2 2 2345799999999999999999988767999
Q ss_pred EEEEEeec-CcchhhHHHHHhCCCCCCceEEEEe-cCC------CchHHHHHHHHhCCCceEEEec
Q psy18065 80 KVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIRH-ANP------STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 80 ~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~~-~~~------~d~~~~l~~i~~~~~~~iil~~ 137 (149)
++++|+.+ ++|....+.+.+.+++.|..+.... ++. .|+.......+.+++++|++..
T Consensus 130 kvaii~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~~~~~d~s~~~~~~~~s~pDvv~~~~ 195 (347)
T TIGR03863 130 RILLIQGPLPADALYADAFRRSAKRFGAKIVAERPFTFSGDPRRTDQSEVPLFTQGADYDVVVVAD 195 (347)
T ss_pred EEEEEeCCCcccHHHHHHHHHHHHHCCCEEEEeEEeccCCchhhhhcccCceeecCCCCCEEEEec
Confidence 99999987 6788777888887777787765432 321 2333212223347888888743
No 79
>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=99.28 E-value=9.5e-11 Score=87.36 Aligned_cols=144 Identities=9% Similarity=-0.024 Sum_probs=110.1
Q ss_pred HHHHHhhC-CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCC-CCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEE
Q psy18065 5 TMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-ELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVA 82 (149)
Q Consensus 5 ~~c~~~~~-~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~-~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~ 82 (149)
..-+++++ +|.+|+|+.++.....+ .++...++|+|+++... .....++.+++.+++......+++++..-+.++++
T Consensus 58 ~~~~li~~~~V~~iig~~~s~~~~~~-~~~~~~~ip~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~ 136 (341)
T cd06341 58 CARDLVEDDKVVAVVGGSSGAGGSAL-PYLAGAGIPVIGGAGTSAWELTSPNSFPFSGGTPASLTTWGDFAKDQGGTRAV 136 (341)
T ss_pred HHHHHHHhcCceEEEecccccchhHH-HHHhhcCCceecCCCCCchhhcCCCeEEecCCCcchhHHHHHHHHHcCCcEEE
Confidence 34456665 89999999988777666 88889999999976432 11114667888888888889999999888899999
Q ss_pred EEeec-C-cchhhHHHHHhCCCCCCceEEEE-ecC--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 83 IVYEE-D-NGLFKLQELVKTPPTLKTEMYIR-HAN--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 83 vi~~~-~-~~~~~l~~l~~~~~~~~~~v~~~-~~~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++.+ + ++......+.+.+++.|+.+... .++ ..|+.+.+.++++.+++.|++......+..+++|+
T Consensus 137 ~i~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~ 208 (341)
T cd06341 137 ALVTALSAAVSAAAALLARSLAAAGVSVAGIVVITATAPDPTPQAQQAAAAGADAIITVLDAAVCASVLKAV 208 (341)
T ss_pred EEEeCCcHHHHHHHHHHHHHHHHcCCccccccccCCCCCCHHHHHHHHHhcCCCEEEEecChHHHHHHHHHH
Confidence 98765 4 67777777888777788766442 233 26899999999999999998887776788887763
No 80
>KOG4440|consensus
Probab=99.21 E-value=7.3e-11 Score=92.00 Aligned_cols=145 Identities=18% Similarity=0.287 Sum_probs=105.5
Q ss_pred HHHHHH-HhhCCcEEEEcCCCCCcH-----HHHHHhhcccCCCceeecc-C--CC-CCCcccEEEecCChhHHHHHHHHH
Q psy18065 3 EATMCR-QLQNGVQALFGPSDALLG-----PHVQSICEALDVPHMESRL-D--LE-LNSKEFSVNLYPSQKLLNAAFKDV 72 (149)
Q Consensus 3 ~~~~c~-~~~~~v~aiiGp~~s~~~-----~~v~~~~~~~~iP~is~~~-~--~~-~~~~~~~~~~~p~~~~~~~ai~~l 72 (149)
.-.+|+ ++++.|.+|+-....++. .++.--++.|+||++.... + .+ .+-++.++|+.|++.+++....++
T Consensus 84 ~~~VC~~li~~~vyav~vSh~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda~fSdKnIh~sFlRtvpPyshqa~VwleM 163 (993)
T KOG4440|consen 84 ALSVCEDLISSQVYAVLVSHPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDAIFSDKNIHLSFLRTVPPYSHQASVWLEM 163 (993)
T ss_pred HHHHHHHHHhhheeEEEecCCCCCCcccccccceeeccceeeeeeeeeehhhhhccCceeeeEeecCCCccchhHHHHHH
Confidence 345796 557778777754332222 3445567889999998763 2 33 244566899999999999999999
Q ss_pred HHhcCCcEEEEEeecC-cch---hhHHHHHhCCCCCCceEEEEecCC--CchHHHHHHHHhCCCceEEEecCchhHHHHH
Q psy18065 73 IRFLNWTKVAIVYEED-NGL---FKLQELVKTPPTLKTEMYIRHANP--STYRNVLREIRQKEIFNLIIDTSTTHISQFF 146 (149)
Q Consensus 73 l~~~~W~~v~vi~~~~-~~~---~~l~~l~~~~~~~~~~v~~~~~~~--~d~~~~l~~i~~~~~~~iil~~~~~~~~~il 146 (149)
+.+|.|++|.++.++| +|. .++|.+.+..+. +.. .+-++++ +++.+.|-++|...++++++.++.+++..++
T Consensus 164 l~~~~y~~vi~l~s~d~~gra~~~r~qt~~e~~~~-~~e-~v~~f~p~~~~~t~~l~~~k~~~~rv~~~~as~dDA~~if 241 (993)
T KOG4440|consen 164 LRVYSYNHVILLVSDDHEGRAAQKRLQTLLEERES-KAE-KVLQFDPGTKNVTALLMEAKELEARVIILSASEDDAATIF 241 (993)
T ss_pred HHHhhcceEEEEEcccccchhHHhHHHHHHHHHhh-hhh-hheecCcccchHHHHHhhhhhhhheeEEeecccchHHHHH
Confidence 9999999999999775 453 345555553222 112 1235554 6789999999999999999999999999999
Q ss_pred hhC
Q psy18065 147 RAV 149 (149)
Q Consensus 147 ~qA 149 (149)
+.|
T Consensus 242 r~A 244 (993)
T KOG4440|consen 242 RAA 244 (993)
T ss_pred Hhh
Confidence 876
No 81
>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=99.19 E-value=1.7e-09 Score=76.41 Aligned_cols=141 Identities=15% Similarity=0.254 Sum_probs=101.2
Q ss_pred HHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCC-CCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEe
Q psy18065 7 CRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVY 85 (149)
Q Consensus 7 c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~ 85 (149)
.++..+++.+++|+.+......+...+...++|+|+++.... ....++++++.|++...+..+++++..++|+++++++
T Consensus 52 ~~~~~~~~d~ii~~~~~~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~ 131 (269)
T cd01391 52 RDLIQQGVDGIIGPPSSSSALAVVELAAAAGIPVVSLDATAPDLTGYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIY 131 (269)
T ss_pred HHHHHcCCCEEEecCCCHHHHHHHHHHHHcCCcEEEecCCCCccCCCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEe
Confidence 344456899999998887766678889999999999875332 1134678899999999999999999999999999999
Q ss_pred ecC--cchhhHHHHHhCCCCCCceEEEE-ecC--C-CchHHHHHHHHhC-CCceEEEecCchhHHHHHhh
Q psy18065 86 EED--NGLFKLQELVKTPPTLKTEMYIR-HAN--P-STYRNVLREIRQK-EIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 86 ~~~--~~~~~l~~l~~~~~~~~~~v~~~-~~~--~-~d~~~~l~~i~~~-~~~~iil~~~~~~~~~il~q 148 (149)
.+. .+..+.+.+.+..++.+.++... ..+ . .++..+...+++. +.+.|++.++ ..+..++++
T Consensus 132 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~~-~~a~~~~~~ 200 (269)
T cd01391 132 GDDGAYGRERLEGFKAALKKAGIEVVAIEYGDLDTEKGFQALLQLLKAAPKPDAIFACND-EMAAGALKA 200 (269)
T ss_pred cCCcchhhHHHHHHHHHHHhcCcEEEeccccCCCccccHHHHHHHHhcCCCCCEEEEcCc-hHHHHHHHH
Confidence 865 34455566666666666554322 222 1 3577778888876 5666666655 666666553
No 82
>KOG1055|consensus
Probab=99.12 E-value=9.2e-11 Score=93.37 Aligned_cols=145 Identities=12% Similarity=0.131 Sum_probs=116.1
Q ss_pred HHHHHHhhC--CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-C--C-CCCcccEEEecCChhHHHHHHHHHHHhcC
Q psy18065 4 ATMCRQLQN--GVQALFGPSDALLGPHVQSICEALDVPHMESRLD-L--E-LNSKEFSVNLYPSQKLLNAAFKDVIRFLN 77 (149)
Q Consensus 4 ~~~c~~~~~--~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~--~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~ 77 (149)
+..-+++.. ....++|+ |++.+..++.-+..|+.-+++|+.+ | + .++++++||++||+......++.++++|+
T Consensus 102 k~~fdll~~~p~k~mll~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~ 180 (865)
T KOG1055|consen 102 KALYDLLYNGPNKLMLLGG-CSSVTTLIAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFG 180 (865)
T ss_pred HHHHHHHHcCCchheeccC-CCCcchHHHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcceeeechhcC
Confidence 344455543 36778888 9999999999999999999999853 3 2 36778899999999999999999999999
Q ss_pred CcEEEEEeecCcchhh-HHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 78 WTKVAIVYEEDNGLFK-LQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 78 W~~v~vi~~~~~~~~~-l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
|++|+.++...+-... ..++.......++.++.++-...|....++++++..++.|+-+-+...++.++-+|
T Consensus 181 w~rvgt~~q~e~~f~~~~~dl~~~~~~~~ieiv~~qsf~~dp~~~vk~l~~~D~RiI~g~f~~~~Arkv~C~~ 253 (865)
T KOG1055|consen 181 WKRVATLQQTEEVFSSTLNDLEARLKEAGIEIVFRQSFSSDPADSVKNLKRQDARIIVGLFYETEARKVFCEA 253 (865)
T ss_pred cceeeeeeeehhhhcchHHHHHHhhhccccEEEEeeccccCHHHHHhhccccchhheeccchHhhhhHHHHhh
Confidence 9999999998765544 44455556667888877776667889999999999988887788888888877654
No 83
>KOG1053|consensus
Probab=98.71 E-value=1.2e-06 Score=71.42 Aligned_cols=146 Identities=13% Similarity=0.189 Sum_probs=97.8
Q ss_pred HHHHHHhh-CCcEEEEcCCCCC---cHHHHHHhhcccCCCceeeccC--C--C-CCCcccEEEecCChhHHHHHHHHHHH
Q psy18065 4 ATMCRQLQ-NGVQALFGPSDAL---LGPHVQSICEALDVPHMESRLD--L--E-LNSKEFSVNLYPSQKLLNAAFKDVIR 74 (149)
Q Consensus 4 ~~~c~~~~-~~v~aiiGp~~s~---~~~~v~~~~~~~~iP~is~~~~--~--~-~~~~~~~~~~~p~~~~~~~ai~~ll~ 74 (149)
..+|+++. .+|.+++-...+. .+..+--++....||.|+.... . . .+....++++.|+-+.++..++.+++
T Consensus 90 ~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQlg~Sieqqa~Vml~iL~ 169 (1258)
T KOG1053|consen 90 TQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQLGPSIEQQAQVMLKILE 169 (1258)
T ss_pred HHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEeCCcHHHHHHHHHHHHH
Confidence 45899996 5677776555444 3444445677889999998642 1 1 23334579999999999999999999
Q ss_pred hcCCcEEEEEeecCcc-hhhHHHHHhCCCC--CCceE-EEEecCC--CchHHHH-HHHHhCCCceEEEecCchhHHHHHh
Q psy18065 75 FLNWTKVAIVYEEDNG-LFKLQELVKTPPT--LKTEM-YIRHANP--STYRNVL-REIRQKEIFNLIIDTSTTHISQFFR 147 (149)
Q Consensus 75 ~~~W~~v~vi~~~~~~-~~~l~~l~~~~~~--~~~~v-~~~~~~~--~d~~~~l-~~i~~~~~~~iil~~~~~~~~~il~ 147 (149)
.|+|..++++.....| ...+..+...... .|+.+ .+...++ +|....+ ..+|+-.+.+|+++|+-+.+..||.
T Consensus 170 ~ydW~~Fs~vtt~~pg~~~f~~~ir~~~d~s~vgwe~i~v~~l~~s~~d~~a~~q~qLkki~a~VillyC~~eea~~IF~ 249 (1258)
T KOG1053|consen 170 EYDWYNFSLVTTQFPGNRTFVSLIRQTNDNSHVGWEMINVLTLDPSTDDLLAKLQAQLKKIQAPVILLYCSREEAERIFE 249 (1258)
T ss_pred HcCcceeEEEEeecCchHHHHHHHHHhhhhccccceeeeeeecCCCCCchHHHHHHHHHhcCCcEEEEEecHHHHHHHHH
Confidence 9999999999887434 4445555544332 24332 1222222 3433333 3455556779999999999999988
Q ss_pred hC
Q psy18065 148 AV 149 (149)
Q Consensus 148 qA 149 (149)
.|
T Consensus 250 ~A 251 (1258)
T KOG1053|consen 250 EA 251 (1258)
T ss_pred HH
Confidence 65
No 84
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=98.20 E-value=9.4e-06 Score=61.05 Aligned_cols=143 Identities=10% Similarity=0.050 Sum_probs=88.0
Q ss_pred HHHHh-hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHH-HHHhcCCcEEEE
Q psy18065 6 MCRQL-QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKD-VIRFLNWTKVAI 83 (149)
Q Consensus 6 ~c~~~-~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~-ll~~~~W~~v~v 83 (149)
+-+++ +++|.+|||-.+|.+=.+|.++....+-....+..--.....+..+.+...+..+...+++ ++.+||-+++.+
T Consensus 60 A~~Li~~d~V~~ifGc~TSasRKaVlPvvE~~~~LL~Yp~~YEG~E~S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~l 139 (363)
T PF13433_consen 60 AEKLIREDGVRAIFGCYTSASRKAVLPVVERHNALLFYPTQYEGFECSPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYL 139 (363)
T ss_dssp HHHHHHHS---EEEE--SHHHHHHHHHHHHHCT-EEEE-S--------TTEEE-S--GGGTHHHHHHHHHHHS--SEEEE
T ss_pred HHHHHHhCCccEEEecchhhhHHHHHHHHHhcCceEEeccccccccCCCceEEcCCCchhhHHHHHHHHHhccCCceEEE
Confidence 34565 4899999999999999999999999998877644211123346677887776677777777 558999999999
Q ss_pred Eeec-CcchhhHHHHHhCCCCCCceEEEEec-C--CCchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 84 VYEE-DNGLFKLQELVKTPPTLKTEMYIRHA-N--PSTYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 84 i~~~-~~~~~~l~~l~~~~~~~~~~v~~~~~-~--~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
|.+| -++...-.-+.+..+..|..+.-+++ + .+|+.+++.+|++..+++|+--...+....|++|
T Consensus 140 vGSdYv~pre~Nri~r~~l~~~GgevvgE~Y~plg~td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~ 208 (363)
T PF13433_consen 140 VGSDYVYPRESNRIIRDLLEARGGEVVGERYLPLGATDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRA 208 (363)
T ss_dssp EEESSHHHHHHHHHHHHHHHHTT-EEEEEEEE-S-HHHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHH
T ss_pred ecCCccchHHHHHHHHHHHHHcCCEEEEEEEecCCchhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHH
Confidence 9988 45543333333333445767655554 3 3689999999999999988877777777778776
No 85
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=97.66 E-value=0.00011 Score=58.43 Aligned_cols=137 Identities=8% Similarity=0.038 Sum_probs=75.7
Q ss_pred HhhCCcEEEEcCCCCCcHHHHHHhhcc--cCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEee
Q psy18065 9 QLQNGVQALFGPSDALLGPHVQSICEA--LDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYE 86 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s~~~~~v~~~~~~--~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~ 86 (149)
...+|+..||||-.-.....++..... -.||++...........+-++.+.-+.+..+..+++.+..-|+++..|++.
T Consensus 274 a~~~ga~~ViGPL~k~~V~~l~~~~~~~~~~vp~LaLN~~~~~~~~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p 353 (536)
T PF04348_consen 274 AVADGADFVIGPLLKSNVEALAQLPQLQAQPVPVLALNQPDNSQAPPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAP 353 (536)
T ss_dssp HHHTT--EEE---SHHHHHHHHH-GG-GGTT-EEEES---TT----TTEEE----HHHHHHHHHHHHHHTT--S-EEEEE
T ss_pred HHHcCCCEEEcCCCHHHHHHHHhcCcccccCCceeeccCCCcccCccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcC
Confidence 345799999999987776666664332 388999876422111122234444455668899999999999999999998
Q ss_pred c-CcchhhHHHHHhCCCCCCceE-EEEecC-CCchHHHHHHHHhCCCceEEEecCchhHHHH
Q psy18065 87 E-DNGLFKLQELVKTPPTLKTEM-YIRHAN-PSTYRNVLREIRQKEIFNLIIDTSTTHISQF 145 (149)
Q Consensus 87 ~-~~~~~~l~~l~~~~~~~~~~v-~~~~~~-~~d~~~~l~~i~~~~~~~iil~~~~~~~~~i 145 (149)
+ ++|....+.|.+.....|..+ .+..++ ..|+...++.-.+...+.|++.++...++.|
T Consensus 354 ~~~~g~R~~~aF~~~W~~~gg~~~~~~~~~~~~~~~~~i~~r~r~d~D~ifl~a~~~~ar~i 415 (536)
T PF04348_consen 354 QNAWGQRMAEAFNQQWQALGGQVAEVSYYGSPADLQAAIQPRRRQDIDAIFLVANPEQARLI 415 (536)
T ss_dssp SSHHHHHHHHHHHHHHHHHHSS--EEEEESSTTHHHHHHHHS--TT--EEEE---HHHHHHH
T ss_pred CChHHHHHHHHHHHHHHHcCCCceeeEecCCHHHHHHHHhhcCCCCCCEEEEeCCHHHHHHH
Confidence 7 577777777877665544333 333344 3678888887667788999999988877654
No 86
>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=97.58 E-value=0.002 Score=45.52 Aligned_cols=122 Identities=7% Similarity=0.075 Sum_probs=76.2
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+...++.++++.............+...++|+|..+..... ..++.+..+.+...+...++.+...+-++++++..+
T Consensus 50 ~~~~~~~d~ii~~~~~~~~~~~~~~l~~~~ip~v~~~~~~~~--~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 127 (264)
T cd01537 50 NLIARGVDGIIIAPSDLTAPTIVKLARKAGIPVVLVDRDIPD--GDRVPSVGSDNEQAGYLAGEHLAEKGHRRIALLAGP 127 (264)
T ss_pred HHHHcCCCEEEEecCCCcchhHHHHhhhcCCCEEEeccCCCC--CcccceEecCcHHHHHHHHHHHHHhcCCcEEEEECC
Confidence 344567888887766554444566778889999998654321 133456777777788888898887889999999875
Q ss_pred -C--cchhhHHHHHhCCCCCC-ceEE-EEecC--CCchHHHHHHHHhCCCc
Q psy18065 88 -D--NGLFKLQELVKTPPTLK-TEMY-IRHAN--PSTYRNVLREIRQKEIF 131 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~-~~v~-~~~~~--~~d~~~~l~~i~~~~~~ 131 (149)
+ .+..+.+.+.+.++..+ ..+. ..... ..+....+.++.+.+.+
T Consensus 128 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 178 (264)
T cd01537 128 LGSSTARERVAGFKDALKEAGPIEIVLVQEGDWDAEKGYQAAEELLTAHPD 178 (264)
T ss_pred CCCCcHHHHHHHHHHHHHHcCCcChhhhccCCCCHHHHHHHHHHHHhcCCC
Confidence 3 33455566665544444 2221 11111 13456667777666643
No 87
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=97.47 E-value=0.0066 Score=43.66 Aligned_cols=129 Identities=14% Similarity=0.049 Sum_probs=73.1
Q ss_pred HHhhCCcEEE-EcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhc--CCcEEEEE
Q psy18065 8 RQLQNGVQAL-FGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFL--NWTKVAIV 84 (149)
Q Consensus 8 ~~~~~~v~ai-iGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~--~W~~v~vi 84 (149)
.+.+.++.++ ++|..+.........+...++|+|..+....... ...+.+.+...+...++.+... |.++++++
T Consensus 52 ~l~~~~vdgiIi~~~~~~~~~~~~~~~~~~~iPvV~~~~~~~~~~---~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l 128 (275)
T cd06320 52 NMINKGYKGLLFSPISDVNLVPAVERAKKKGIPVVNVNDKLIPNA---TAFVGTDNKANGVRGAEWIIDKLAEGGKVAII 128 (275)
T ss_pred HHHHhCCCEEEECCCChHHhHHHHHHHHHCCCeEEEECCCCCCcc---ceEEecCcHHHHHHHHHHHHHHhCCCceEEEE
Confidence 3445677774 5554433222333456678999998765322111 1234666666788888877554 89999998
Q ss_pred eec-C--cchhhHHHHHhCCCCC-CceEEEEecC---CCchHHHHHHHHhCCCceEEEecCc
Q psy18065 85 YEE-D--NGLFKLQELVKTPPTL-KTEMYIRHAN---PSTYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 85 ~~~-~--~~~~~l~~l~~~~~~~-~~~v~~~~~~---~~d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
... + ....+.+.+.+.++++ |+.+...... ..+....++++.++..+.-.++|..
T Consensus 129 ~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 190 (275)
T cd06320 129 EGKAGAFAAEQRTEGFTEAIKKASGIEVVASQPADWDREKAYDVATTILQRNPDLKAIYCNN 190 (275)
T ss_pred eCCCCCccHHHHHHHHHHHHhhCCCcEEEEecCCCccHHHHHHHHHHHHHhCCCccEEEECC
Confidence 753 2 2345666677766666 7655332221 1334556666655443443444443
No 88
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=97.45 E-value=0.0068 Score=43.53 Aligned_cols=137 Identities=8% Similarity=-0.093 Sum_probs=81.0
Q ss_pred HHhhCCcEEEEcCCCCCc-HHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhc--CCcEEEEE
Q psy18065 8 RQLQNGVQALFGPSDALL-GPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFL--NWTKVAIV 84 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~-~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~--~W~~v~vi 84 (149)
++..+++.+||....... ...+-..+...++|++........ +...++.+++...+..+++.+... |-++++++
T Consensus 55 ~~~~~~vdgiIi~~~~~~~~~~~l~~~~~~~iPvv~~~~~~~~---~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i 131 (272)
T cd06300 55 NLIAQGVDAIIINPASPTALNPVIEEACEAGIPVVSFDGTVTT---PCAYNVNEDQAEFGKQGAEWLVKELGGKGNVLVV 131 (272)
T ss_pred HHHHcCCCEEEEeCCChhhhHHHHHHHHHCCCeEEEEecCCCC---CceeEecCCHHHHHHHHHHHHHHHcCCCceEEEE
Confidence 445668888888554322 233334566789999998643221 335678888888888888877554 78899999
Q ss_pred eec-C--cchhhHHHHHhCCCCCC-ceEEEEecCC---CchHHHHHHHHhCCCceEEEecCchhHHHHHh
Q psy18065 85 YEE-D--NGLFKLQELVKTPPTLK-TEMYIRHANP---STYRNVLREIRQKEIFNLIIDTSTTHISQFFR 147 (149)
Q Consensus 85 ~~~-~--~~~~~l~~l~~~~~~~~-~~v~~~~~~~---~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~ 147 (149)
... + .+..+.+.+.+.+.+++ +.+....... .+..+.+.++.+++.+.-.++|..+.+..+++
T Consensus 132 ~~~~~~~~~~~R~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~A~g~~~ 201 (272)
T cd06300 132 RGLAGHPVDEDRYAGAKEVLKEYPGIKIVGEVYGDWDQAVAQKAVADFLASNPDVDGIWTQGGDAVGAVQ 201 (272)
T ss_pred ECCCCCcchHHHHHHHHHHHHHCCCcEEEeecCCCCCHHHHHHHHHHHHHhCCCcCEEEecCCCcHHHHH
Confidence 743 2 34566666776665555 5543221111 34566777776665443344443322444443
No 89
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=97.37 E-value=0.008 Score=42.50 Aligned_cols=121 Identities=11% Similarity=-0.024 Sum_probs=75.5
Q ss_pred HHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEe
Q psy18065 6 MCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVY 85 (149)
Q Consensus 6 ~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~ 85 (149)
...++..++.+++.......+.. ...+...++|+|..+..... +....+.++....+...++.+...|.+++++++
T Consensus 48 ~~~~~~~~~d~iii~~~~~~~~~-~~~~~~~~ipvv~~~~~~~~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~ 123 (264)
T cd06267 48 LELLLSRRVDGIILAPSRLDDEL-LEELAALGIPVVLVDRPLDG---LGVDSVGIDNRAGAYLAVEHLIELGHRRIAFIG 123 (264)
T ss_pred HHHHHHcCcCEEEEecCCcchHH-HHHHHHcCCCEEEecccccC---CCCCEEeeccHHHHHHHHHHHHHCCCceEEEec
Confidence 34555678888887666555555 55678899999998753322 233455666666777788877767999999998
Q ss_pred ecC---cchhhHHHHHhCCCCCCceEE---EEec--CCCchHHHHHHHHhCCC
Q psy18065 86 EED---NGLFKLQELVKTPPTLKTEMY---IRHA--NPSTYRNVLREIRQKEI 130 (149)
Q Consensus 86 ~~~---~~~~~l~~l~~~~~~~~~~v~---~~~~--~~~d~~~~l~~i~~~~~ 130 (149)
.+. .+..+.+.+.+.+++.+..+. .... +..+....++++.++..
T Consensus 124 ~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 176 (264)
T cd06267 124 GPPDLSTARERLEGYREALEEAGIPLDEELIVEGDFSEESGYEAARELLASGE 176 (264)
T ss_pred CCCccchHHHHHHHHHHHHHHcCCCCCcceEEecccchhhHHHHHHHHHhcCC
Confidence 753 345566666665544442221 1111 12455667777766653
No 90
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=97.28 E-value=0.022 Score=40.44 Aligned_cols=121 Identities=11% Similarity=0.044 Sum_probs=72.3
Q ss_pred HHhhCCcEEEEcCCCC-CcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhc--CCcEEEEE
Q psy18065 8 RQLQNGVQALFGPSDA-LLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFL--NWTKVAIV 84 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s-~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~--~W~~v~vi 84 (149)
++...++.++|+.... .........+...++|+|..+..... ...+..+.+.+...+..+++.+... |-++++++
T Consensus 50 ~l~~~~vdgvi~~~~~~~~~~~~~~~l~~~~ip~V~~~~~~~~--~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i 127 (267)
T cd01536 50 DLIAQGVDGIIISPVDSAALTPALKKANAAGIPVVTVDSDIDG--GNRLAYVGTDNYEAGRLAGEYLAKLLGGKGKVAII 127 (267)
T ss_pred HHHHcCCCEEEEeCCCchhHHHHHHHHHHCCCcEEEecCCCCc--cceeEEEecCHHHHHHHHHHHHHHHhCCCceEEEE
Confidence 3445578888764333 22222444556789999997653321 1223456677666778888877665 88999999
Q ss_pred eecC---cchhhHHHHHhCCCCC-CceEEEEecC---CCchHHHHHHHHhCCC
Q psy18065 85 YEED---NGLFKLQELVKTPPTL-KTEMYIRHAN---PSTYRNVLREIRQKEI 130 (149)
Q Consensus 85 ~~~~---~~~~~l~~l~~~~~~~-~~~v~~~~~~---~~d~~~~l~~i~~~~~ 130 (149)
+..+ .+..+.+.+.+.+++. +.++...... ..+..+.+.++.+...
T Consensus 128 ~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 180 (267)
T cd01536 128 EGPPGSSNAQERVKGFRDALKEYPDIEIVAVQDGNWDREKALQAMEDLLQANP 180 (267)
T ss_pred EcccccchHHHHHHHHHHHHHhCCCcEEEEEecCCCcHHHHHHHHHHHHHhCC
Confidence 8652 3555666677766655 3554322221 1345667777765543
No 91
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=96.92 E-value=0.023 Score=40.41 Aligned_cols=97 Identities=10% Similarity=0.057 Sum_probs=60.4
Q ss_pred HHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEee
Q psy18065 7 CRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYE 86 (149)
Q Consensus 7 c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~ 86 (149)
..+...++.++|..............+...++|++....... ...++ ....+...+...++.+...|.++++++..
T Consensus 49 ~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~~~-~~~~~---v~~d~~~~g~~~~~~l~~~g~~~i~~i~~ 124 (266)
T cd06282 49 ETLLRQRVDGLILTVADAATSPALDLLDAERVPYVLAYNDPQ-PGRPS---VSVDNRAAARDVAQALAALGHRRIAMLAG 124 (266)
T ss_pred HHHHhcCCCEEEEecCCCCchHHHHHHhhCCCCEEEEeccCC-CCCCE---EeeCcHHHHHHHHHHHHHcCcccEEEecc
Confidence 345566788888643322223345567788999988764332 22233 34555567788888887779999999964
Q ss_pred c----CcchhhHHHHHhCCCCCCce
Q psy18065 87 E----DNGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 87 ~----~~~~~~l~~l~~~~~~~~~~ 107 (149)
+ +.+..+.+.+.+.++++|+.
T Consensus 125 ~~~~~~~~~~r~~gf~~~l~~~~~~ 149 (266)
T cd06282 125 RLAASDRARQRYAGYRAAMRAAGLA 149 (266)
T ss_pred ccccCchHHHHHHHHHHHHHHcCCC
Confidence 2 23455666677666555553
No 92
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=96.41 E-value=0.19 Score=35.83 Aligned_cols=95 Identities=9% Similarity=0.017 Sum_probs=57.0
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+.+.++.+++--..... ......+...++|++..+........++ ....+...+..+++.+...|.++++++...
T Consensus 50 ~l~~~~vdgiii~~~~~~-~~~~~~l~~~~iPvv~~~~~~~~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 125 (268)
T cd06273 50 KLLERGVDGLALIGLDHS-PALLDLLARRGVPYVATWNYSPDSPYPC---VGFDNREAGRLAARHLIALGHRRIAMIFGP 125 (268)
T ss_pred HHHhcCCCEEEEeCCCCC-HHHHHHHHhCCCCEEEEcCCCCCCCCCE---EEeChHHHHHHHHHHHHHCCCCeEEEEecc
Confidence 455566766553212222 2334456778999999764222122232 445666678888887766799999999743
Q ss_pred --C--cchhhHHHHHhCCCCCCc
Q psy18065 88 --D--NGLFKLQELVKTPPTLKT 106 (149)
Q Consensus 88 --~--~~~~~l~~l~~~~~~~~~ 106 (149)
+ .+..+.+.+.+.+.++++
T Consensus 126 ~~~~~~~~~r~~gf~~~l~~~~~ 148 (268)
T cd06273 126 TQGNDRARARRAGVRAALAEAGL 148 (268)
T ss_pred ccCCccHHHHHHHHHHHHHHcCC
Confidence 2 244666777776665554
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=96.30 E-value=0.12 Score=37.13 Aligned_cols=122 Identities=11% Similarity=0.138 Sum_probs=69.8
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccC-CCCC------C--cccEEEecCChhHHHHHHHHHHHhc--
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LELN------S--KEFSVNLYPSQKLLNAAFKDVIRFL-- 76 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~-~~~~------~--~~~~~~~~p~~~~~~~ai~~ll~~~-- 76 (149)
.+...++.++|+..++ ..... .....++|+|..+.. +... . ..+.+ ...+.......++++...
T Consensus 55 ~l~~~~vd~iI~~~~~-~~~~~--~~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~ 129 (281)
T cd06325 55 KFVADKPDLIVAIATP-AAQAA--ANATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVT--GVSDLVPVETQLELLKKLLP 129 (281)
T ss_pred HHHhcCCCEEEEcCcH-HHHHH--HHcCCCCCEEEEecCCccccccccccccCCCcee--CeecccchHHHHHHHHHHCC
Confidence 3445678888885433 22222 255678999987632 1110 0 11222 222333556677777654
Q ss_pred CCcEEEEEeec-C-cchhhHHHHHhCCCCCCceEEEEecC-CCchHHHHHHHHhCCCceEEE
Q psy18065 77 NWTKVAIVYEE-D-NGLFKLQELVKTPPTLKTEMYIRHAN-PSTYRNVLREIRQKEIFNLII 135 (149)
Q Consensus 77 ~W~~v~vi~~~-~-~~~~~l~~l~~~~~~~~~~v~~~~~~-~~d~~~~l~~i~~~~~~~iil 135 (149)
|.+++++++++ + .+..+.+.+.+.+++.|+.+...... ..++.+.++++... .+.|++
T Consensus 130 g~~~i~~l~~~~~~~~~~r~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~-~dai~~ 190 (281)
T cd06325 130 DAKTVGVLYNPSEANSVVQVKELKKAAAKLGIEVVEATVSSSNDVQQAAQSLAGK-VDAIYV 190 (281)
T ss_pred CCcEEEEEeCCCCccHHHHHHHHHHHHHhCCCEEEEEecCCHHHHHHHHHHhccc-CCEEEE
Confidence 99999999865 2 45566777777776677765432222 24566777777654 355444
No 94
>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=96.25 E-value=0.24 Score=35.51 Aligned_cols=98 Identities=10% Similarity=0.165 Sum_probs=57.3
Q ss_pred HhhCCcEEE-EcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhc------CCcEE
Q psy18065 9 QLQNGVQAL-FGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFL------NWTKV 81 (149)
Q Consensus 9 ~~~~~v~ai-iGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~------~W~~v 81 (149)
++..++.++ ++|..+......-..+...++|.|....... ...+...+.+.+...+...++++... |-+++
T Consensus 51 ~~~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~--~~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i 128 (277)
T cd06319 51 AIDKGVSGIIISPTNSSAAVTLLKLAAQAKIPVVIADIGAE--GGDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKV 128 (277)
T ss_pred HHhcCCCEEEEcCCchhhhHHHHHHHHHCCCCEEEEecCCC--CCceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcE
Confidence 445667777 5665544333444567778999998764321 11223345555554555566544322 56899
Q ss_pred EEEeec---CcchhhHHHHHhCCCCCCceE
Q psy18065 82 AIVYEE---DNGLFKLQELVKTPPTLKTEM 108 (149)
Q Consensus 82 ~vi~~~---~~~~~~l~~l~~~~~~~~~~v 108 (149)
+++... ..+..+.+.+.+.+++.|+.+
T Consensus 129 ~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~ 158 (277)
T cd06319 129 GMVAIPQKRKNGQKRTKGFKEAMKEAGCDL 158 (277)
T ss_pred EEEeccCCCccHHHHHHHHHHHHHhcCCce
Confidence 998743 235667777777766666543
No 95
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=96.22 E-value=0.26 Score=35.12 Aligned_cols=99 Identities=9% Similarity=0.058 Sum_probs=59.2
Q ss_pred HHHHh-hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEE
Q psy18065 6 MCRQL-QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIV 84 (149)
Q Consensus 6 ~c~~~-~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi 84 (149)
..+.+ ..++.++|..............+...++|++..+........++ +.......+...++.+...|.++++++
T Consensus 48 ~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvv~i~~~~~~~~~~~---V~~d~~~~g~~a~~~l~~~g~~~i~~i 124 (270)
T cd01545 48 VRALLQRSRVDGVILTPPLSDNPELLDLLDEAGVPYVRIAPGTPDPDSPC---VRIDDRAAAREMTRHLIDLGHRRIAFI 124 (270)
T ss_pred HHHHHHHCCCCEEEEeCCCCCccHHHHHHHhcCCCEEEEecCCCCCCCCe---EEeccHHHHHHHHHHHHHCCCceEEEE
Confidence 34434 56788888754432233444556778999998865322122222 344555567777787766799999999
Q ss_pred eec-Cc--chhhHHHHHhCCCCCCce
Q psy18065 85 YEE-DN--GLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 85 ~~~-~~--~~~~l~~l~~~~~~~~~~ 107 (149)
..+ +. ...+.+.+.+.+.+.|..
T Consensus 125 ~~~~~~~~~~~R~~Gf~~~~~~~~~~ 150 (270)
T cd01545 125 AGPPDHRASAERLEGYRDALAEAGLP 150 (270)
T ss_pred eCCCCchhHHHHHHHHHHHHHHcCCC
Confidence 754 22 234556666655444543
No 96
>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=95.87 E-value=0.4 Score=34.05 Aligned_cols=98 Identities=10% Similarity=0.055 Sum_probs=57.1
Q ss_pred HhhCCcEE-EEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhc--CCcEEEEEe
Q psy18065 9 QLQNGVQA-LFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFL--NWTKVAIVY 85 (149)
Q Consensus 9 ~~~~~v~a-iiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~--~W~~v~vi~ 85 (149)
+..+++.+ |+++..+......-..+...++|.+....... .. ..+-.+...+...+..+++.+... |-+++++++
T Consensus 51 ~~~~~~dgii~~~~~~~~~~~~l~~l~~~~ipvv~~~~~~~-~~-~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~ 128 (268)
T cd06323 51 LITRGVDAIIINPTDSDAVVPAVKAANEAGIPVFTIDREAN-GG-EVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQ 128 (268)
T ss_pred HHHcCCCEEEEcCCChHHHHHHHHHHHHCCCcEEEEccCCC-CC-ceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEe
Confidence 44556777 55554433222333335567999999864321 11 222345555555677778877655 779999997
Q ss_pred ec-C--cchhhHHHHHhCCCCC-CceE
Q psy18065 86 EE-D--NGLFKLQELVKTPPTL-KTEM 108 (149)
Q Consensus 86 ~~-~--~~~~~l~~l~~~~~~~-~~~v 108 (149)
.+ + .+..+.+.+.+.++.+ |..+
T Consensus 129 ~~~~~~~~~~r~~g~~~~l~~~~~~~~ 155 (268)
T cd06323 129 GIPGASAARERGKGFHEVVDKYPGLKV 155 (268)
T ss_pred CCCCCccHHHHHHHHHHHHHhCCCcEE
Confidence 64 2 3455666666665553 5554
No 97
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=95.64 E-value=0.41 Score=33.95 Aligned_cols=96 Identities=9% Similarity=0.037 Sum_probs=59.9
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+...++.+++--.+...... -..+...++|.|..+....... ...+.+.....+..+++.+...|-++++++..+
T Consensus 49 ~~~~~~vdgiii~~~~~~~~~-~~~~~~~~ipvV~~~~~~~~~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~ 124 (266)
T cd06278 49 QLLQYRVDGVIVTSGTLSSEL-AEECRRNGIPVVLINRYVDGPG---VDAVCSDNYEAGRLAAELLLAKGCRRIAFIGGP 124 (266)
T ss_pred HHHHcCCCEEEEecCCCCHHH-HHHHhhcCCCEEEECCccCCCC---CCEEEEChHHHHHHHHHHHHHCCCceEEEEcCC
Confidence 445667877775433333333 3445667999999865332222 234666777778888888877788999999764
Q ss_pred -C--cchhhHHHHHhCCCCCCce
Q psy18065 88 -D--NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~~~ 107 (149)
+ ....+.+.+.+.++..+..
T Consensus 125 ~~~~~~~~R~~gf~~~~~~~~~~ 147 (266)
T cd06278 125 ADTSTSRERERGFRDALAAAGVP 147 (266)
T ss_pred CcccchHHHHHHHHHHHHHcCCC
Confidence 2 2345666666665555544
No 98
>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=95.63 E-value=0.53 Score=33.72 Aligned_cols=97 Identities=7% Similarity=-0.000 Sum_probs=59.5
Q ss_pred HHhhCCcEEEE-cCCCCCcHHHHHHhhcccCCCceeeccCCC-CCCcccEEEecCChhHHHHHHHHHHHhc--CCcEEEE
Q psy18065 8 RQLQNGVQALF-GPSDALLGPHVQSICEALDVPHMESRLDLE-LNSKEFSVNLYPSQKLLNAAFKDVIRFL--NWTKVAI 83 (149)
Q Consensus 8 ~~~~~~v~aii-Gp~~s~~~~~v~~~~~~~~iP~is~~~~~~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~--~W~~v~v 83 (149)
.++.+++.++| .|.........-..+...++|++.+..... .....+..++.+.+...+...++.+... |-+++++
T Consensus 50 ~l~~~~vdgiIi~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~ 129 (273)
T cd06309 50 SFIAQGVDVIILAPVVETGWDPVLKEAKAAGIPVILVDRGVDVKDDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNIVE 129 (273)
T ss_pred HHHHcCCCEEEEcCCccccchHHHHHHHHCCCCEEEEecCcCCccCcceeeEecCChHHHHHHHHHHHHHHcCCCceEEE
Confidence 44455666664 344333222333446678999999875321 1123455677888877888888877555 8889999
Q ss_pred Eeec-C--cchhhHHHHHhCCCCC
Q psy18065 84 VYEE-D--NGLFKLQELVKTPPTL 104 (149)
Q Consensus 84 i~~~-~--~~~~~l~~l~~~~~~~ 104 (149)
+..+ + ....+.+.+.+.++.+
T Consensus 130 i~~~~~~~~~~~R~~Gf~~~l~~~ 153 (273)
T cd06309 130 LQGTVGSSVAIDRKKGFAEVIKKY 153 (273)
T ss_pred EeCCCCCchHHHHHHHHHHHHHHC
Confidence 9754 2 2345566666665554
No 99
>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=95.60 E-value=0.53 Score=33.57 Aligned_cols=97 Identities=9% Similarity=0.104 Sum_probs=53.8
Q ss_pred HhhCCcEEEEc-CCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEE-ecCChhHHHHHHHHHH-Hhc-CCcEEEEE
Q psy18065 9 QLQNGVQALFG-PSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVN-LYPSQKLLNAAFKDVI-RFL-NWTKVAIV 84 (149)
Q Consensus 9 ~~~~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~-~~p~~~~~~~ai~~ll-~~~-~W~~v~vi 84 (149)
+...++.+++. +............+...++|+|..+........++... ..+.+...+...++.+ +++ |-++++++
T Consensus 52 l~~~~vdgiii~~~~~~~~~~~l~~~~~~~iPvV~~~~~~~~~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l 131 (275)
T cd06317 52 LIAQKVDGIILWPTDGQAYIPGLRKAKQAGIPVVITNSNISEKGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVVI 131 (275)
T ss_pred HHHcCCCEEEEecCCccccHHHHHHHHHCCCcEEEeCCCCCCCccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEEE
Confidence 44567777744 43333323333446778999998765332222233222 2344445566666655 443 67899999
Q ss_pred eec-Cc--chhhHHHHHhCCCCCC
Q psy18065 85 YEE-DN--GLFKLQELVKTPPTLK 105 (149)
Q Consensus 85 ~~~-~~--~~~~l~~l~~~~~~~~ 105 (149)
... +. +..+.+.+.+.+++.|
T Consensus 132 ~~~~~~~~~~~r~~g~~~~~~~~~ 155 (275)
T cd06317 132 AGQPGNGTAIERQKGFEDELAEVC 155 (275)
T ss_pred ecCCCCchHHHHHHHHHHHHHhhC
Confidence 753 32 3455666666665554
No 100
>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=95.01 E-value=0.84 Score=32.40 Aligned_cols=135 Identities=10% Similarity=0.007 Sum_probs=73.5
Q ss_pred HHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEee
Q psy18065 7 CRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYE 86 (149)
Q Consensus 7 c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~ 86 (149)
..+.+.++.+++-..+... ..+...+...++|+|..+........+ .+.+.+...+...++.+...|=++++++..
T Consensus 49 ~~l~~~~vdgiii~~~~~~-~~~~~~l~~~~ipvV~~~~~~~~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~ 124 (268)
T cd06298 49 NNLLAKQVDGIIFMGGKIS-EEHREEFKRSPTPVVLAGSVDEDNELP---SVNIDYKKAAFEATELLIKNGHKKIAFISG 124 (268)
T ss_pred HHHHHhcCCEEEEeCCCCc-HHHHHHHhcCCCCEEEEccccCCCCCC---EEEECcHHHHHHHHHHHHHcCCceEEEEeC
Confidence 4555667877774222222 233444566799999986432212222 345666667777888777678899999975
Q ss_pred c-C---cchhhHHHHHhCCCCCCceEE---EEec--CCCchHHHHHHHHhCC-CceEEEecCchhHHHHH
Q psy18065 87 E-D---NGLFKLQELVKTPPTLKTEMY---IRHA--NPSTYRNVLREIRQKE-IFNLIIDTSTTHISQFF 146 (149)
Q Consensus 87 ~-~---~~~~~l~~l~~~~~~~~~~v~---~~~~--~~~d~~~~l~~i~~~~-~~~iil~~~~~~~~~il 146 (149)
+ + .+..+.+.+.+.++++|+.+. .... +.....+.+..+.+++ .+.|+.. +...+..++
T Consensus 125 ~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ai~~~-~d~~a~~~~ 193 (268)
T cd06298 125 PLEDSINGDERLAGYKEALSEANIEFDESLIFEGDYTYESGYELAEELLEDGKPTAAFVT-DDELAIGIL 193 (268)
T ss_pred CcccccchhHHHHHHHHHHHHcCCCCCHHHeEeCCCChhHHHHHHHHHhcCCCCCEEEEc-CcHHHHHHH
Confidence 3 2 345666666666655554321 1111 1122344555665544 4555543 333333333
No 101
>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=94.98 E-value=0.89 Score=32.54 Aligned_cols=99 Identities=6% Similarity=-0.149 Sum_probs=61.7
Q ss_pred HhhCCcEEEEcCCCC-CcHHHHHHhhcccCCCceeeccCCCC-CCcccEEEecCChhHHHHHHHHHHHh-cCCcEEEEEe
Q psy18065 9 QLQNGVQALFGPSDA-LLGPHVQSICEALDVPHMESRLDLEL-NSKEFSVNLYPSQKLLNAAFKDVIRF-LNWTKVAIVY 85 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s-~~~~~v~~~~~~~~iP~is~~~~~~~-~~~~~~~~~~p~~~~~~~ai~~ll~~-~~W~~v~vi~ 85 (149)
+...++.++|.-... .........+...++|++........ ...+....+...+...+..+++.+.. -|-++++++.
T Consensus 53 l~~~~vdgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~ 132 (271)
T cd06312 53 AIAAKPDGIVVTIPDPDALDPAIKRAVAAGIPVISFNAGDPKYKELGALAYVGQDEYAAGEAAGERLAELKGGKNVLCVI 132 (271)
T ss_pred HHHhCCCEEEEeCCChHHhHHHHHHHHHCCCeEEEeCCCCCccccccceEEeccChHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 445677777763332 21222223345678999998643221 11233456777777888889998877 7999999886
Q ss_pred ec-C--cchhhHHHHHhCCCCCCce
Q psy18065 86 EE-D--NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 86 ~~-~--~~~~~l~~l~~~~~~~~~~ 107 (149)
.+ + .+..+.+.+.+.++.+++.
T Consensus 133 g~~~~~~~~~r~~g~~~~~~~~~~~ 157 (271)
T cd06312 133 HEPGNVTLEDRCAGFADGLGGAGIT 157 (271)
T ss_pred cCCCCccHHHHHHHHHHHHHhcCce
Confidence 43 2 2456777777766665654
No 102
>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=94.95 E-value=0.9 Score=32.41 Aligned_cols=96 Identities=13% Similarity=0.091 Sum_probs=57.1
Q ss_pred HhhCCcEEEE-cCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHH-hc-CCcEEEEEe
Q psy18065 9 QLQNGVQALF-GPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIR-FL-NWTKVAIVY 85 (149)
Q Consensus 9 ~~~~~v~aii-Gp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~-~~-~W~~v~vi~ 85 (149)
+++.++.++| .|..+.....+...+...++|+|..+...... ...+..+...+...+...++.+. ++ +=++++++.
T Consensus 52 l~~~~vdgiii~~~~~~~~~~~~~~l~~~~iPvv~~~~~~~~~-~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~ 130 (272)
T cd06301 52 FIAQGVDAIIVVPVDTAATAPIVKAANAAGIPLVYVNRRPENA-PKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVAILM 130 (272)
T ss_pred HHHcCCCEEEEecCchhhhHHHHHHHHHCCCeEEEecCCCCCC-CCeeEEEecChHHHHHHHHHHHHHHhCCCccEEEEE
Confidence 3455777775 55554333344455688899999876432211 12234566676667777777664 43 456899986
Q ss_pred ec-C--cchhhHHHHHhCCCCCC
Q psy18065 86 EE-D--NGLFKLQELVKTPPTLK 105 (149)
Q Consensus 86 ~~-~--~~~~~l~~l~~~~~~~~ 105 (149)
.. + ....+.+.+.+.+...+
T Consensus 131 ~~~~~~~~~~R~~gf~~~l~~~~ 153 (272)
T cd06301 131 GPLGQSAQIDRTKGVEEVLAKYP 153 (272)
T ss_pred CCCCCccHHHHHHHHHHHHHHCC
Confidence 54 2 23456666666655555
No 103
>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=94.89 E-value=0.89 Score=32.42 Aligned_cols=95 Identities=11% Similarity=-0.092 Sum_probs=55.3
Q ss_pred HHhhCCcEEEEcCC-CCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHh--cCCcEEEEE
Q psy18065 8 RQLQNGVQALFGPS-DALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRF--LNWTKVAIV 84 (149)
Q Consensus 8 ~~~~~~v~aiiGp~-~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~--~~W~~v~vi 84 (149)
.++..++.++|... ++.....+-..+...++|.+........ +.+..+.+.+...++..++.+.. -|.++++++
T Consensus 50 ~~~~~~vdgii~~~~~~~~~~~~i~~~~~~~ipvV~~~~~~~~---~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i 126 (273)
T cd06305 50 QAIAQKVDAIIIQHGRAEVLKPWVKRALDAGIPVVAFDVDSDN---PKVNNTTQDDYSLARLSLDQLVKDLGGKGNVGYV 126 (273)
T ss_pred HHHHcCCCEEEEecCChhhhHHHHHHHHHcCCCEEEecCCCCC---CccceeeechHHHHHHHHHHHHHHhCCCCCEEEE
Confidence 34556788887743 3332233334467789999997653321 22234666666777777776654 589999998
Q ss_pred eecC--cchhhHHHHHhCCCCCC
Q psy18065 85 YEED--NGLFKLQELVKTPPTLK 105 (149)
Q Consensus 85 ~~~~--~~~~~l~~l~~~~~~~~ 105 (149)
...+ ....+.+.+.+..++.+
T Consensus 127 ~~~~~~~~~~R~~g~~~~~~~~~ 149 (273)
T cd06305 127 NVAGFPPLDRRYDVWQAVLKAYP 149 (273)
T ss_pred EccCCchHHHHHHHHHHHHHHCC
Confidence 7532 23344444444444444
No 104
>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=94.54 E-value=1.1 Score=31.67 Aligned_cols=94 Identities=9% Similarity=-0.060 Sum_probs=55.4
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+...++.++|............ .. ..++|.+..+..... +....+.......+...++.+..-|.++++++...
T Consensus 50 ~~~~~~vdgiii~~~~~~~~~~~-~~-~~~ipvv~~~~~~~~---~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~ 124 (267)
T cd06284 50 LLRRKQADGIILLDGSLPPTALT-AL-AKLPPIVQACEYIPG---LAVPSVSIDNVAAARLAVDHLISLGHRRIALITGP 124 (267)
T ss_pred HHHHcCCCEEEEecCCCCHHHHH-HH-hcCCCEEEEecccCC---CCcceEEecccHHHHHHHHHHHHcCCceEEEEcCC
Confidence 44556788877643322222222 23 349999987532211 11223455555677778887766799999999764
Q ss_pred -C--cchhhHHHHHhCCCCCCc
Q psy18065 88 -D--NGLFKLQELVKTPPTLKT 106 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~~ 106 (149)
+ .+..+.+.+.+.++.+++
T Consensus 125 ~~~~~~~~r~~gf~~~~~~~~~ 146 (267)
T cd06284 125 RDNPLARDRLEGYRQALAEAGL 146 (267)
T ss_pred ccchhHHHHHHHHHHHHHHcCC
Confidence 2 345566667666555553
No 105
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=94.50 E-value=1.4 Score=32.68 Aligned_cols=96 Identities=10% Similarity=0.086 Sum_probs=56.7
Q ss_pred HhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec-
Q psy18065 9 QLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE- 87 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~- 87 (149)
+...++.+||--.........-..+...++|.|..+........+ .+.+.....+...++.|...|.++++++...
T Consensus 116 l~~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~~~~~~~~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~~ 192 (342)
T PRK10014 116 LLNQGVDGVVIAGAAGSSDDLREMAEEKGIPVVFASRASYLDDVD---TVRPDNMQAAQLLTEHLIRNGHQRIAWLGGQS 192 (342)
T ss_pred HHhCCCCEEEEeCCCCCcHHHHHHHhhcCCCEEEEecCCCCCCCC---EEEeCCHHHHHHHHHHHHHCCCCEEEEEcCCc
Confidence 445567766642222222333445567799999876432212222 2455555667777888877899999998643
Q ss_pred C--cchhhHHHHHhCCCCCCce
Q psy18065 88 D--NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 88 ~--~~~~~l~~l~~~~~~~~~~ 107 (149)
+ ....+.+.+.+.+++.|+.
T Consensus 193 ~~~~~~~R~~Gf~~al~~~g~~ 214 (342)
T PRK10014 193 SSLTRAERVGGYCATLLKFGLP 214 (342)
T ss_pred ccccHHHHHHHHHHHHHHcCCC
Confidence 2 2245666677666555654
No 106
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=94.23 E-value=1.5 Score=31.90 Aligned_cols=129 Identities=11% Similarity=0.032 Sum_probs=67.7
Q ss_pred HHHhhCCcE-EEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHH-HhcCCc-EEEE
Q psy18065 7 CRQLQNGVQ-ALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVI-RFLNWT-KVAI 83 (149)
Q Consensus 7 c~~~~~~v~-aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll-~~~~W~-~v~v 83 (149)
..+...++. .|++|..+.........+...++|++....... .......+.+.+...+..+++.+ +..+.+ ++.+
T Consensus 76 ~~l~~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~--~~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~~ 153 (295)
T PRK10653 76 QDLTVRGTKILLINPTDSDAVGNAVKMANQANIPVITLDRGAT--KGEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVIQ 153 (295)
T ss_pred HHHHHcCCCEEEEcCCChHHHHHHHHHHHHCCCCEEEEccCCC--CCceeeEEccChHHHHHHHHHHHHHHhCCCceEEE
Confidence 344455665 455655433323344556678999999864221 11223456666666667777766 445654 5555
Q ss_pred Eeec-C--cchhhHHHHHhCCCCCCceEEEEecCC---CchHHHHHHHHhCCCceEEEec
Q psy18065 84 VYEE-D--NGLFKLQELVKTPPTLKTEMYIRHANP---STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 84 i~~~-~--~~~~~l~~l~~~~~~~~~~v~~~~~~~---~d~~~~l~~i~~~~~~~iil~~ 137 (149)
+..+ + ....+.+.+.+.+++.|..+....... .+..+.+.++.++..+.-.+.|
T Consensus 154 ~~~~~~~~~~~~R~~gf~~al~~~g~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~ 213 (295)
T PRK10653 154 LEGIAGTSAARERGEGFKQAVAAHKFNVLASQPADFDRTKGLNVMQNLLTAHPDVQAVFA 213 (295)
T ss_pred EEccCCCccHHHHHHHHHHHHhhCCCEEEEecCCCCCHHHHHHHHHHHHHhCCCcCEEEE
Confidence 5432 2 234666777777766776543222211 1234445566554433333333
No 107
>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=94.16 E-value=1.7 Score=32.12 Aligned_cols=135 Identities=10% Similarity=0.014 Sum_probs=71.6
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+.+.++.++|--... ....+.......++|++..+........+ .+.+.+..-+..+++.+...|.++++++...
T Consensus 110 ~l~~~~vdGiIi~~~~-~~~~~~~~l~~~~iPvV~~~~~~~~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~ 185 (329)
T TIGR01481 110 TLLSKQVDGIIFMGGT-ITEKLREEFSRSPVPVVLAGTVDKENELP---SVNIDYKQATKEAVGELIAKGHKSIAFVGGP 185 (329)
T ss_pred HHHhCCCCEEEEeCCC-CChHHHHHHHhcCCCEEEEecCCCCCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEecC
Confidence 3445667766631111 12233344566789999876422112222 3455555566777777777799999999642
Q ss_pred -C---cchhhHHHHHhCCCCCCceEE---EE--ecCCCchHHHHHHHHhCCCceEEEecCchhHHHHHh
Q psy18065 88 -D---NGLFKLQELVKTPPTLKTEMY---IR--HANPSTYRNVLREIRQKEIFNLIIDTSTTHISQFFR 147 (149)
Q Consensus 88 -~---~~~~~l~~l~~~~~~~~~~v~---~~--~~~~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~ 147 (149)
. .+..+.+.+.+.+++.|+.+. +. ..+..+-...++++.+..++.|+. ++...+..+++
T Consensus 186 ~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~ll~~~p~ai~~-~~d~~A~g~~~ 253 (329)
T TIGR01481 186 LSDSINGEDRLEGYKEALNKAGIQFGEDLVCEGKYSYDAGYKAFAELKGSLPTAVFV-ASDEMAAGILN 253 (329)
T ss_pred cccccchHHHHHHHHHHHHHcCCCCCcceEEecCCChHHHHHHHHHHhCCCCCEEEE-cCcHHHHHHHH
Confidence 1 235677777776655564322 11 111123345566665555555544 34444444433
No 108
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a
Probab=94.01 E-value=1.5 Score=31.11 Aligned_cols=98 Identities=8% Similarity=-0.002 Sum_probs=56.1
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+...++.+|+=.........+..+....++|++..+........++ +.......+...++.+...|-++++++...
T Consensus 50 ~l~~~~vdgiii~~~~~~~~~~~~l~~~~~ipvV~i~~~~~~~~~~~---V~~d~~~~~~~~~~~l~~~G~~~i~~i~~~ 126 (269)
T cd06275 50 MLAQKRVDGLLVMCSEYDQPLLAMLERYRHIPMVVMDWGPEDDFADK---IQDNSEEGGYLATRHLIELGHRRIGCITGP 126 (269)
T ss_pred HHHHcCCCEEEEecCCCChHHHHHHHhcCCCCEEEEecccCCCCCCe---EeeCcHHHHHHHHHHHHHCCCceEEEEeCC
Confidence 44455666555333322333333444456899998875432222222 445555567777787777799999998753
Q ss_pred -C--cchhhHHHHHhCCCCCCceE
Q psy18065 88 -D--NGLFKLQELVKTPPTLKTEM 108 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~~~v 108 (149)
+ ....+.+.+.+.++++++.+
T Consensus 127 ~~~~~~~~r~~gf~~~~~~~~~~~ 150 (269)
T cd06275 127 LEKAPAQQRLAGFRRAMAEAGLPV 150 (269)
T ss_pred CCCccHHHHHHHHHHHHHHcCCCC
Confidence 2 23456666666665555443
No 109
>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=93.95 E-value=1.6 Score=30.97 Aligned_cols=95 Identities=12% Similarity=0.052 Sum_probs=56.5
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+..+++.+++..............+...++|.|............ .+.++....+...++.+...|-++++++..+
T Consensus 50 ~~~~~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~~~~~~~~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~l~~~ 126 (268)
T cd06289 50 TMLEHGVAGIILCPAAGTSPDLLKRLAESGIPVVLVAREVAGAPFD---YVGPDNAAGARLATEHLISLGHRRIAFIGGL 126 (268)
T ss_pred HHHHcCCCEEEEeCCCCccHHHHHHHHhcCCCEEEEeccCCCCCCC---EEeecchHHHHHHHHHHHHCCCCCEEEecCC
Confidence 4456678888775543333234445677899999876432211222 3445555567777777766688999988653
Q ss_pred -C--cchhhHHHHHhCCCCCC
Q psy18065 88 -D--NGLFKLQELVKTPPTLK 105 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~ 105 (149)
+ ....+.+.+.+.++..+
T Consensus 127 ~~~~~~~~r~~gf~~~l~~~~ 147 (268)
T cd06289 127 EDSSTRRERLAGYRAALAEAG 147 (268)
T ss_pred ccccchHHHHHHHHHHHHHcC
Confidence 2 23455566665554444
No 110
>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=93.90 E-value=1.6 Score=31.08 Aligned_cols=138 Identities=8% Similarity=-0.017 Sum_probs=71.4
Q ss_pred HHHHhhCCcEEEEcCCCCCc--HHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhc--CCcEE
Q psy18065 6 MCRQLQNGVQALFGPSDALL--GPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFL--NWTKV 81 (149)
Q Consensus 6 ~c~~~~~~v~aiiGp~~s~~--~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~--~W~~v 81 (149)
...+...++.++|--..... ...++. +...++|.|........ ... ...+.+.+...+...++.+... |.+++
T Consensus 50 i~~l~~~~vdgvii~~~~~~~~~~~l~~-~~~~~ipvV~~~~~~~~-~~~-~~~v~~d~~~~~~~~~~~l~~~~~g~~~i 126 (273)
T cd06310 50 LENAIARGPDAILLAPTDAKALVPPLKE-AKDAGIPVVLIDSGLNS-DIA-VSFVATDNVAAGKLAAEALAELLGKKGKV 126 (273)
T ss_pred HHHHHHhCCCEEEEcCCChhhhHHHHHH-HHHCCCCEEEecCCCCC-Ccc-eEEEeeChHHHHHHHHHHHHHHcCCCceE
Confidence 44556667777775332222 223333 45689999997643221 112 2234555555677778777555 89999
Q ss_pred EEEeec-Cc--chhhHHHHHhCCCCC-CceEEEEecCC---CchHHHHHHHHhCCCceEEEec-CchhHHHHH
Q psy18065 82 AIVYEE-DN--GLFKLQELVKTPPTL-KTEMYIRHANP---STYRNVLREIRQKEIFNLIIDT-STTHISQFF 146 (149)
Q Consensus 82 ~vi~~~-~~--~~~~l~~l~~~~~~~-~~~v~~~~~~~---~d~~~~l~~i~~~~~~~iil~~-~~~~~~~il 146 (149)
+++... +. ...+.+.+.+.++.. |+.+....... .+-.+.+.++.++..+.-.++| +...+..++
T Consensus 127 ~~i~~~~~~~~~~~r~~gf~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~ 199 (273)
T cd06310 127 AVISFVPGSSTTDQREEGFLEGLKEYPGIEIVATQYSDSDYAKALDITEDLLTANPDLKGIFGANEGSAVGAA 199 (273)
T ss_pred EEEeCCCCCccHHHHHHHHHHHHHhCCCcEEEecccCCcCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHH
Confidence 999643 32 345666666665555 55432211111 2234455555444333333444 334444343
No 111
>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=93.74 E-value=1.8 Score=31.09 Aligned_cols=97 Identities=10% Similarity=0.008 Sum_probs=57.0
Q ss_pred HhhCCcEEEEc-CCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhc--CCcEEEEEe
Q psy18065 9 QLQNGVQALFG-PSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFL--NWTKVAIVY 85 (149)
Q Consensus 9 ~~~~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~--~W~~v~vi~ 85 (149)
++.+++.+||= |..+.....+-..+...+||++...........+......+.+...+...++.+... |.++++++.
T Consensus 51 ~~~~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~ 130 (272)
T cd06313 51 MASQGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDMGTLIAPLQINVHSFLAPDNYFMGASVAQALCNAMGGKGKIAMLQ 130 (272)
T ss_pred HHHcCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEeCCCCCCCCCceEEEECCCcHHHHHHHHHHHHHHcCCCceEEEEE
Confidence 44566665554 333222222223345569999998653221111223346677777788888877555 889999997
Q ss_pred ec-C--cchhhHHHHHhCCCCCC
Q psy18065 86 EE-D--NGLFKLQELVKTPPTLK 105 (149)
Q Consensus 86 ~~-~--~~~~~l~~l~~~~~~~~ 105 (149)
.+ + ....+.+.+.+.+++++
T Consensus 131 g~~~~~~~~~R~~gf~~~~~~~~ 153 (272)
T cd06313 131 GALGHTGAQGRAQGFNDVIKKYP 153 (272)
T ss_pred CCCCCcchhHHHHHHHHHHHhCC
Confidence 54 2 23456777777766554
No 112
>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=93.56 E-value=1.4 Score=31.21 Aligned_cols=133 Identities=14% Similarity=0.110 Sum_probs=71.1
Q ss_pred HHhhCCcEEEE-cCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHH-hcCC-cEEEEE
Q psy18065 8 RQLQNGVQALF-GPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIR-FLNW-TKVAIV 84 (149)
Q Consensus 8 ~~~~~~v~aii-Gp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~-~~~W-~~v~vi 84 (149)
.++.+++.+|| .|..+......-.-+...+||++++... .....+....+.++....+..+.+.+. ..+= .+++++
T Consensus 50 ~~i~~~~d~Iiv~~~~~~~~~~~l~~~~~~gIpvv~~d~~-~~~~~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~ 128 (257)
T PF13407_consen 50 QAISQGVDGIIVSPVDPDSLAPFLEKAKAAGIPVVTVDSD-EAPDSPRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLIL 128 (257)
T ss_dssp HHHHTTESEEEEESSSTTTTHHHHHHHHHTTSEEEEESST-HHTTSTSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEE
T ss_pred HHHHhcCCEEEecCCCHHHHHHHHHHHhhcCceEEEEecc-ccccccceeeeeccHHHHHHHHHHHHHHHhccCceEEec
Confidence 45566777666 6666655555555678889999997654 111223345667777788888888774 3333 566666
Q ss_pred eec-Cc--chhhHHHHHhCCCCC-CceEEEEecC-C---CchHHHHHHHHhCCCceEEEecCchh
Q psy18065 85 YEE-DN--GLFKLQELVKTPPTL-KTEMYIRHAN-P---STYRNVLREIRQKEIFNLIIDTSTTH 141 (149)
Q Consensus 85 ~~~-~~--~~~~l~~l~~~~~~~-~~~v~~~~~~-~---~d~~~~l~~i~~~~~~~iil~~~~~~ 141 (149)
... +. ...+.+.+.+.+++. ++.+.-.... . ++....+.++.+.+.-..|+.++...
T Consensus 129 ~~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~i~~~~~~~ 193 (257)
T PF13407_consen 129 SGSPGNPNTQERLEGFRDALKEYPGVEIVDEYEYTDWDPEDARQAIENLLQANPVDAIIACNDGM 193 (257)
T ss_dssp ESSTTSHHHHHHHHHHHHHHHHCTTEEEEEEEEECTTSHHHHHHHHHHHHHHTTEEEEEESSHHH
T ss_pred cCCCCchHHHHHHHHHHHHHhhcceeeeeeeeeccCCCHHHHHHHHHHhhhcCCceEEEeCCChH
Confidence 443 32 234566665554443 4443322111 1 33444444444444323334444443
No 113
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=93.05 E-value=1.9 Score=31.54 Aligned_cols=133 Identities=9% Similarity=0.004 Sum_probs=79.6
Q ss_pred HhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCC-CcccEEEecCChhHHHHHHHHHHHhcCCcE-EEEEee
Q psy18065 9 QLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELN-SKEFSVNLYPSQKLLNAAFKDVIRFLNWTK-VAIVYE 86 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~-~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~-v~vi~~ 86 (149)
+.+.+|.++|=-........+..+.+. ++|+|..+...... ..++ +...+..-+....+.|...|-++ ++++..
T Consensus 52 l~~~~vDGiI~~s~~~~~~~l~~~~~~-~iPvV~~~~~~~~~~~~~~---V~~D~~~a~~~a~~~Li~~Gh~~~I~~i~~ 127 (279)
T PF00532_consen 52 LLQRRVDGIILASSENDDEELRRLIKS-GIPVVLIDRYIDNPEGVPS---VYIDNYEAGYEATEYLIKKGHRRPIAFIGG 127 (279)
T ss_dssp HHHTTSSEEEEESSSCTCHHHHHHHHT-TSEEEEESS-SCTTCTSCE---EEEEHHHHHHHHHHHHHHTTCCSTEEEEEE
T ss_pred HHhcCCCEEEEecccCChHHHHHHHHc-CCCEEEEEeccCCcccCCE---EEEcchHHHHHHHHHHHhcccCCeEEEEec
Confidence 445566666654333334677777777 99999977543322 3343 23445556667777888889999 999887
Q ss_pred cC-c--chhhHHHHHhCCCCCCceEEEEec--CC---CchHHHHHHHHhCCCc-eEEEecCchhHHHH
Q psy18065 87 ED-N--GLFKLQELVKTPPTLKTEMYIRHA--NP---STYRNVLREIRQKEIF-NLIIDTSTTHISQF 145 (149)
Q Consensus 87 ~~-~--~~~~l~~l~~~~~~~~~~v~~~~~--~~---~d~~~~l~~i~~~~~~-~iil~~~~~~~~~i 145 (149)
.. . ...+.+.+.+.+++.|+++....+ .. ++-.+.++++.+..+. -.|+.++...+.-.
T Consensus 128 ~~~~~~~~~R~~Gy~~Al~~~Gl~~~~~~i~~~~~~~~~g~~~~~~ll~~~p~idai~~~nd~~A~ga 195 (279)
T PF00532_consen 128 PEDSSTSRERLQGYRDALKEAGLPIDEEWIFEGDFDYESGYEAARELLESHPDIDAIFCANDMMAIGA 195 (279)
T ss_dssp STTTHHHHHHHHHHHHHHHHTTSCEEEEEEEESSSSHHHHHHHHHHHHHTSTT-SEEEESSHHHHHHH
T ss_pred CcchHHHHHHHHHHHHHHHHcCCCCCcccccccCCCHHHHHHHHHHHHhhCCCCEEEEEeCHHHHHHH
Confidence 63 2 456777788877778876544332 11 2234556666665544 14444454444443
No 114
>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=92.97 E-value=2.4 Score=30.12 Aligned_cols=98 Identities=9% Similarity=0.084 Sum_probs=57.1
Q ss_pred HHhhCCcEEEEc-CCCCCc-HHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhc--CCcEEEE
Q psy18065 8 RQLQNGVQALFG-PSDALL-GPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFL--NWTKVAI 83 (149)
Q Consensus 8 ~~~~~~v~aiiG-p~~s~~-~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~--~W~~v~v 83 (149)
.+++.++.++|- |..... ...+.. +...++|+|....... .......+.+.....+...++.+... |-+++++
T Consensus 50 ~~~~~~vdgiii~~~~~~~~~~~~~~-~~~~~ipvV~~~~~~~--~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~ 126 (267)
T cd06322 50 DFITKKVDAIVLSPVDSKGIRAAIAK-AKKAGIPVITVDIAAE--GVAVVSHVATDNYAGGVLAGELAAKVLNGKGQVAI 126 (267)
T ss_pred HHHHcCCCEEEEcCCChhhhHHHHHH-HHHCCCCEEEEcccCC--CCceEEEEecChHHHHHHHHHHHHHHhCCCceEEE
Confidence 344567777765 443332 233333 5568999999864321 11222346666666666677766543 7789999
Q ss_pred EeecC--cchhhHHHHHhCCCCC-CceE
Q psy18065 84 VYEED--NGLFKLQELVKTPPTL-KTEM 108 (149)
Q Consensus 84 i~~~~--~~~~~l~~l~~~~~~~-~~~v 108 (149)
++..+ ....+.+.+.+.+++. |+.+
T Consensus 127 i~~~~~~~~~~R~~gf~~~~~~~~~~~~ 154 (267)
T cd06322 127 IDYPTVQSVVDRVRGFKEALADYPNIKI 154 (267)
T ss_pred EecCCCccHHHHHHHHHHHHHhCCCcEE
Confidence 97532 2345666677666555 6654
No 115
>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=92.62 E-value=2.7 Score=29.86 Aligned_cols=94 Identities=6% Similarity=-0.006 Sum_probs=56.5
Q ss_pred HHhhCCcEEEE-cCCCCCcHHHHHHhhcccCCCceeeccCCCC-CCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEe
Q psy18065 8 RQLQNGVQALF-GPSDALLGPHVQSICEALDVPHMESRLDLEL-NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVY 85 (149)
Q Consensus 8 ~~~~~~v~aii-Gp~~s~~~~~v~~~~~~~~iP~is~~~~~~~-~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~ 85 (149)
.+.+.++.+++ .+.... ...+ ..+...++|++........ ...+ .+.+.....+....+.+...|+++++++.
T Consensus 50 ~l~~~~~dgiii~~~~~~-~~~~-~~~~~~~ipvV~i~~~~~~~~~~~---~v~~d~~~~~~~a~~~l~~~g~~~i~~i~ 124 (270)
T cd06296 50 RLSARRTDGVILVTPELT-SAQR-AALRRTGIPFVVVDPAGDPDADVP---SVGATNWAGGLAATEHLLELGHRRIGFIT 124 (270)
T ss_pred HHHHcCCCEEEEecCCCC-hHHH-HHHhcCCCCEEEEecccCCCCCCC---EEEeCcHHHHHHHHHHHHHcCCCcEEEEc
Confidence 44566777765 333322 2333 4456789999998753211 2222 35666666777777777667999999986
Q ss_pred ec-C--cchhhHHHHHhCCCCCCc
Q psy18065 86 EE-D--NGLFKLQELVKTPPTLKT 106 (149)
Q Consensus 86 ~~-~--~~~~~l~~l~~~~~~~~~ 106 (149)
.. . ....+.+.+.+..++.+.
T Consensus 125 ~~~~~~~~~~r~~gf~~~~~~~~~ 148 (270)
T cd06296 125 GPPDLLCSRARLDGYRAALAEAGI 148 (270)
T ss_pred CCCcchhHHHHHHHHHHHHHHcCC
Confidence 54 2 234556666666554443
No 116
>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=92.56 E-value=0.76 Score=33.05 Aligned_cols=81 Identities=7% Similarity=-0.018 Sum_probs=51.8
Q ss_pred HHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEE-ec-----------CCCchHHHHHHHHhCCCce
Q psy18065 65 LNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIR-HA-----------NPSTYRNVLREIRQKEIFN 132 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~-~~-----------~~~d~~~~l~~i~~~~~~~ 132 (149)
-..|+++-++++|-++++++.. |-...-+.+.+.+++.|+.+... .+ ++....+.++++...+++.
T Consensus 107 ~~~A~~~AL~alg~~RIalvTP--Y~~~v~~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aDA 184 (239)
T TIGR02990 107 PSSAAVDGLAALGVRRISLLTP--YTPETSRPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDADA 184 (239)
T ss_pred HHHHHHHHHHHcCCCEEEEECC--CcHHHHHHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCCE
Confidence 5678999999999999999965 21122233333344456655322 12 2234556666666788999
Q ss_pred EEEecCchhHHHHHh
Q psy18065 133 LIIDTSTTHISQFFR 147 (149)
Q Consensus 133 iil~~~~~~~~~il~ 147 (149)
|++.|..-.+..++.
T Consensus 185 ifisCTnLrt~~vi~ 199 (239)
T TIGR02990 185 LFLSCTALRAATCAQ 199 (239)
T ss_pred EEEeCCCchhHHHHH
Confidence 999998766666554
No 117
>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=92.15 E-value=3.1 Score=29.44 Aligned_cols=91 Identities=8% Similarity=-0.008 Sum_probs=54.5
Q ss_pred CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec-C--
Q psy18065 12 NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE-D-- 88 (149)
Q Consensus 12 ~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~-~-- 88 (149)
.++.++|..........+ ..+...++|++..+........++ +.+.+...+...++.+...|-++++++... .
T Consensus 58 ~~vdgiii~~~~~~~~~~-~~~~~~~ipvV~~~~~~~~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~ 133 (268)
T cd06271 58 GLVDGVIISRTRPDDPRV-ALLLERGFPFVTHGRTELGDPHPW---VDFDNEAAAYQAVRRLIALGHRRIALLNPPEDLT 133 (268)
T ss_pred CCCCEEEEecCCCCChHH-HHHHhcCCCEEEECCcCCCCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEecCccccc
Confidence 457777764333222233 345668999998764322222233 345555566777777766799999999754 2
Q ss_pred cchhhHHHHHhCCCCCCc
Q psy18065 89 NGLFKLQELVKTPPTLKT 106 (149)
Q Consensus 89 ~~~~~l~~l~~~~~~~~~ 106 (149)
.+..+.+.+.+.+++++.
T Consensus 134 ~~~~R~~gf~~~~~~~~~ 151 (268)
T cd06271 134 FAQHRRAGYRRALAEAGL 151 (268)
T ss_pred hHHHHHHHHHHHHHHhCC
Confidence 244566777766655554
No 118
>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=91.95 E-value=3.4 Score=29.52 Aligned_cols=98 Identities=6% Similarity=-0.017 Sum_probs=56.1
Q ss_pred HhhCCcEEEEc-CCCCCc-HHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhc--CCcEEEEE
Q psy18065 9 QLQNGVQALFG-PSDALL-GPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFL--NWTKVAIV 84 (149)
Q Consensus 9 ~~~~~v~aiiG-p~~s~~-~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~--~W~~v~vi 84 (149)
++..++.+|+- |.+... ...+.. +...+||++.......... .....+.+.....+...++++... +-++++++
T Consensus 56 l~~~~vDgiii~~~~~~~~~~~i~~-~~~~gIpvV~~d~~~~~~~-~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i~~~ 133 (274)
T cd06311 56 LINRKIDALVILPFESAPLTQPVAK-AKKAGIFVVVVDRGLSSPG-AQDLYVAGDNYGMGRVAGEYIATKLGGNGNIVVL 133 (274)
T ss_pred HHHcCCCEEEEeCCCchhhHHHHHH-HHHCCCeEEEEcCCCCCCc-ccceEEcCCcHHHHHHHHHHHHHHhCCCCeEEEE
Confidence 45566776653 333222 233443 4678999999764322111 112235666656677777766544 78999998
Q ss_pred eec-C-cchhhHHHHHhCCCCCCceE
Q psy18065 85 YEE-D-NGLFKLQELVKTPPTLKTEM 108 (149)
Q Consensus 85 ~~~-~-~~~~~l~~l~~~~~~~~~~v 108 (149)
... + ....+.+.+.+.++++++.+
T Consensus 134 ~g~~~~~~~~R~~gf~~~l~~~~~~~ 159 (274)
T cd06311 134 RGIPTPIDNERVDAFDAAIAKYPIKI 159 (274)
T ss_pred ECCCCcchhHHHHHHHHHHhhCCcEE
Confidence 754 2 23455666776666666443
No 119
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=91.89 E-value=4.3 Score=30.53 Aligned_cols=128 Identities=13% Similarity=0.096 Sum_probs=72.0
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeecc-CCC-----CC-CcccEEEecCChhHHHHHHHHHHHh--cCC
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRL-DLE-----LN-SKEFSVNLYPSQKLLNAAFKDVIRF--LNW 78 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~-~~~-----~~-~~~~~~~~~p~~~~~~~ai~~ll~~--~~W 78 (149)
++..++...|++-.++. +.++.+- ..++|.+-.+. ++. .+ ..|-.-=+.-+|..-....+++++. -+-
T Consensus 83 ql~~~~~dviv~i~tp~-Aq~~~s~--~~~iPVV~aavtd~v~a~Lv~~~~~pg~NvTGvsD~~~v~q~i~lik~~~Pna 159 (322)
T COG2984 83 QLVGDKPDVIVAIATPA-AQALVSA--TKTIPVVFAAVTDPVGAKLVKSLEQPGGNVTGVSDLLPVAQQIELIKALLPNA 159 (322)
T ss_pred HhhcCCCcEEEecCCHH-HHHHHHh--cCCCCEEEEccCchhhccCCccccCCCCceeecCCcchHHHHHHHHHHhCCCC
Confidence 33345566666544433 3333332 33399987653 321 11 0010011122222234455566654 489
Q ss_pred cEEEEEeecC--cchhhHHHHHhCCCCCCceEEEEecCC-CchHHHHHHHHhCCCceEEEecCc
Q psy18065 79 TKVAIVYEED--NGLFKLQELVKTPPTLKTEMYIRHANP-STYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 79 ~~v~vi~~~~--~~~~~l~~l~~~~~~~~~~v~~~~~~~-~d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
++++++|..+ .....++++.+.++..|+.+...-++. +|.....+.+. .+.++|++-++.
T Consensus 160 k~Igv~Y~p~E~ns~~l~eelk~~A~~~Gl~vve~~v~~~ndi~~a~~~l~-g~~d~i~~p~dn 222 (322)
T COG2984 160 KSIGVLYNPGEANSVSLVEELKKEARKAGLEVVEAAVTSVNDIPRAVQALL-GKVDVIYIPTDN 222 (322)
T ss_pred eeEEEEeCCCCcccHHHHHHHHHHHHHCCCEEEEEecCcccccHHHHHHhc-CCCcEEEEecch
Confidence 9999999864 456777888888888998876544443 56666666665 334677776654
No 120
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=91.71 E-value=4.1 Score=30.02 Aligned_cols=95 Identities=13% Similarity=0.034 Sum_probs=55.0
Q ss_pred HhhCCcEEEEc-CCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 9 QLQNGVQALFG-PSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 9 ~~~~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
+...++.++|- +........+.. +...++|++..+........+ .+.+.+...+...++.+...|-++++++...
T Consensus 113 l~~~~vdgiIi~~~~~~~~~~~~~-l~~~~iPvV~v~~~~~~~~~~---~V~~d~~~~~~~a~~~L~~~G~r~I~~i~~~ 188 (328)
T PRK11303 113 LLQRQVDALIVSTSLPPEHPFYQR-LQNDGLPIIALDRALDREHFT---SVVSDDQDDAEMLAESLLKFPAESILLLGAL 188 (328)
T ss_pred HHHcCCCEEEEcCCCCCChHHHHH-HHhcCCCEEEECCCCCCCCCC---EEEeCCHHHHHHHHHHHHHCCCCeEEEEeCc
Confidence 44567777664 322222333443 345789999876432212222 2344555566667777766788999999754
Q ss_pred -C--cchhhHHHHHhCCCCCCce
Q psy18065 88 -D--NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~~~ 107 (149)
+ .+..+.+.+.+.++++|+.
T Consensus 189 ~~~~~~~~R~~Gf~~al~~~g~~ 211 (328)
T PRK11303 189 PELSVSFEREQGFRQALKDDPRE 211 (328)
T ss_pred cccccHHHHHHHHHHHHHHcCCC
Confidence 2 2345666677666666654
No 121
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=91.42 E-value=4.9 Score=30.26 Aligned_cols=135 Identities=9% Similarity=-0.055 Sum_probs=81.5
Q ss_pred HhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeecC
Q psy18065 9 QLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEED 88 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~ 88 (149)
+.+.+|.++|=-. ..............++|++..+....... .-.+.+.+..-+...++.+...|-++++++....
T Consensus 110 l~~~~vdGiIi~~-~~~~~~~~~~l~~~~~P~V~i~~~~~~~~---~~~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~ 185 (333)
T COG1609 110 LLQKRVDGLILLG-ERPNDSLLELLAAAGIPVVVIDRSPPGLG---VPSVGIDNFAGAYLATEHLIELGHRRIAFIGGPL 185 (333)
T ss_pred HHHcCCCEEEEec-CCCCHHHHHHHHhcCCCEEEEeCCCccCC---CCEEEEChHHHHHHHHHHHHHCCCceEEEEeCCC
Confidence 3455677766544 23333445556677999998775332122 2345667777788889999999999999998752
Q ss_pred ---cchhhHHHHHhCCCCCCceE---EEEe--cCCCchHHHHHHHHhCCC--ceEEEecCchhHHHHHh
Q psy18065 89 ---NGLFKLQELVKTPPTLKTEM---YIRH--ANPSTYRNVLREIRQKEI--FNLIIDTSTTHISQFFR 147 (149)
Q Consensus 89 ---~~~~~l~~l~~~~~~~~~~v---~~~~--~~~~d~~~~l~~i~~~~~--~~iil~~~~~~~~~il~ 147 (149)
.+..+++.+.+.+.+.|+.. .+.. +...+-...+.++..... -..|+.++...+..+++
T Consensus 186 ~~~~~~~R~~Gf~~al~~~~~~~~~~~i~~~~~~~~~g~~~~~~ll~~~~~~ptAif~~nD~~Alg~l~ 254 (333)
T COG1609 186 DSSASRERLEGYRAALREAGLPINPEWIVEGDFSEESGYEAAERLLARGEPRPTAIFCANDLMALGALR 254 (333)
T ss_pred ccccHhHHHHHHHHHHHHCCCCCCcceEEecCCChHHHHHHHHHHHhcCCCCCcEEEEcCcHHHHHHHH
Confidence 35778888888877777653 1222 222344444555443322 23445555555655554
No 122
>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=91.35 E-value=3.8 Score=28.94 Aligned_cols=94 Identities=11% Similarity=-0.058 Sum_probs=54.6
Q ss_pred HhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec-
Q psy18065 9 QLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE- 87 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~- 87 (149)
+.++++.+++--........+.. ....++|.|..+.... .. ...+...+...+...++.+...|-++++++..+
T Consensus 52 l~~~~vdgiii~~~~~~~~~~~~-~~~~~ipvv~~~~~~~-~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~ 126 (264)
T cd01574 52 LLAQRVDGVIVNAPLDDADAALA-AAPADVPVVFVDGSPS-PR---VSTVSVDQEGGARLATEHLLELGHRTIAHVAGPE 126 (264)
T ss_pred HHhcCCCEEEEeCCCCChHHHHH-HHhcCCCEEEEeccCC-CC---CCEEEeCcHHHHHHHHHHHHHCCCCEEEEEecCC
Confidence 33556777763222222223333 3467899999875322 22 234556666677888888877788999998654
Q ss_pred Cc--chhhHHHHHhCCCCCCce
Q psy18065 88 DN--GLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 88 ~~--~~~~l~~l~~~~~~~~~~ 107 (149)
+. ...+.+.+.+.++..++.
T Consensus 127 ~~~~~~~r~~gf~~~l~~~~~~ 148 (264)
T cd01574 127 EWLSARARLAGWRAALEAAGIA 148 (264)
T ss_pred ccchHHHHHHHHHHHHHHCCCC
Confidence 22 234555566555445544
No 123
>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=91.31 E-value=3.8 Score=28.86 Aligned_cols=94 Identities=9% Similarity=0.039 Sum_probs=57.4
Q ss_pred HHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEee
Q psy18065 7 CRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYE 86 (149)
Q Consensus 7 c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~ 86 (149)
.++...++.+++.-..... ..+...+...++|.+..+.... . ...+.++....+...++.+..-|-++++++..
T Consensus 49 ~~l~~~~~dgii~~~~~~~-~~~~~~~~~~~ipvv~~~~~~~--~---~~~v~~d~~~~~~~~~~~l~~~g~~~i~~v~~ 122 (259)
T cd01542 49 ELLARQKVDGIILLATTIT-DEHREAIKKLNVPVVVVGQDYP--G---ISSVVYDDYGAGYELGEYLAQQGHKNIAYLGV 122 (259)
T ss_pred HHHHhcCCCEEEEeCCCCC-HHHHHHHhcCCCCEEEEeccCC--C---CCEEEECcHHHHHHHHHHHHHcCCCcEEEEcC
Confidence 3455677888886544333 2344455667899999864321 1 12355566667788888776678899999864
Q ss_pred c-C---cchhhHHHHHhCCCCCCc
Q psy18065 87 E-D---NGLFKLQELVKTPPTLKT 106 (149)
Q Consensus 87 ~-~---~~~~~l~~l~~~~~~~~~ 106 (149)
. + .+..+.+.+.+.++..|.
T Consensus 123 ~~~~~~~~~~r~~gf~~~~~~~~~ 146 (259)
T cd01542 123 SESDIAVGILRKQGYLDALKEHGI 146 (259)
T ss_pred CcccchhHHHHHHHHHHHHHHcCC
Confidence 3 2 124556666665554444
No 124
>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=91.23 E-value=4.1 Score=29.02 Aligned_cols=95 Identities=12% Similarity=0.075 Sum_probs=53.7
Q ss_pred HhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec-
Q psy18065 9 QLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE- 87 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~- 87 (149)
+.+.++.++|--.+......+...+...++|.+....... ...+ .+......-+...++.+...|-++++++...
T Consensus 51 l~~~~vdgii~~~~~~~~~~~~~~~~~~~ipvV~i~~~~~-~~~~---~V~~d~~~~g~~a~~~l~~~G~~~i~~l~~~~ 126 (269)
T cd06281 51 FEQRRMDGIIIAPGDERDPELVDALASLDLPIVLLDRDMG-GGAD---AVLFDHAAGMRQAVEYLISLGHRRIALVGGGS 126 (269)
T ss_pred HHHcCCCEEEEecCCCCcHHHHHHHHhCCCCEEEEecccC-CCCC---EEEECcHHHHHHHHHHHHHCCCcEEEEecCcc
Confidence 3345677776433322223444556677999999864322 1112 2344444445556666655699999998653
Q ss_pred C--cchhhHHHHHhCCCCCCce
Q psy18065 88 D--NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 88 ~--~~~~~l~~l~~~~~~~~~~ 107 (149)
+ .+..+.+.+.+.++.+|+.
T Consensus 127 ~~~~~~~R~~Gf~~~~~~~~~~ 148 (269)
T cd06281 127 NTRPGRERLEGYKAAFAAAGLP 148 (269)
T ss_pred ccccHHHHHHHHHHHHHHcCCC
Confidence 2 2345666666665555543
No 125
>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=91.20 E-value=4.7 Score=29.72 Aligned_cols=95 Identities=11% Similarity=-0.038 Sum_probs=54.2
Q ss_pred HhhCCcEEEEc-CCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 9 QLQNGVQALFG-PSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 9 ~~~~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
+...++.++|- |........+.. +...++|.+...........+ .+.+.+..-+...++.+...|-++++++...
T Consensus 112 l~~~~vdgiIi~~~~~~~~~~~~~-l~~~~iPvV~~~~~~~~~~~~---~V~~dn~~~~~~~~~~L~~~G~~~I~~i~~~ 187 (327)
T TIGR02417 112 LLARQVDALIVASCMPPEDAYYQK-LQNEGLPVVALDRSLDDEHFC---SVISDDVDAAAELIERLLSQHADEFWYLGAQ 187 (327)
T ss_pred HHHcCCCEEEEeCCCCCChHHHHH-HHhcCCCEEEEccccCCCCCC---EEEeCcHHHHHHHHHHHHHCCCCeEEEEeCc
Confidence 44556777553 333212333443 455789999876432212222 2444555556666777776789999999754
Q ss_pred C---cchhhHHHHHhCCCCCCce
Q psy18065 88 D---NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 88 ~---~~~~~l~~l~~~~~~~~~~ 107 (149)
. ....+.+.+.+.+.+.|+.
T Consensus 188 ~~~~~~~~R~~Gf~~al~~~~~~ 210 (327)
T TIGR02417 188 PELSVSRDRLAGFRQALKQATLE 210 (327)
T ss_pred ccchhHHHHHHHHHHHHHHcCCC
Confidence 2 2345666666665555543
No 126
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=90.37 E-value=3.7 Score=27.61 Aligned_cols=81 Identities=9% Similarity=-0.036 Sum_probs=56.6
Q ss_pred HHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCC-CCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCchhHH
Q psy18065 65 LNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPP-TLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTSTTHIS 143 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~-~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~~~~~ 143 (149)
.+..+....++++-+++.++-+.-..-...+.+++.+. -.|+.+.+..+ ++..+.+++ +..+.++++++-+++++.
T Consensus 17 HGQV~~~W~~~~~~~~IiVvdD~vA~D~~~k~~lkma~~P~gvk~~i~sv--~~a~~~l~~-~~~~~~vlvl~~~~~da~ 93 (158)
T PRK09756 17 HGQVGVTWTSTIGANLLVVVDDVVANDDIQQKLMGITAETYGFGIRFFTI--EKTINVIGK-AAPHQKIFLICRTPQTVR 93 (158)
T ss_pred hHHHHHhhhcccCCCEEEEEcchhcCCHHHHHHHHhcCCCCCCEEEEEEH--HHHHHHHHh-ccCCceEEEEECCHHHHH
Confidence 45556678888999998887665444456667777655 56777765443 456666666 555667888888999998
Q ss_pred HHHhh
Q psy18065 144 QFFRA 148 (149)
Q Consensus 144 ~il~q 148 (149)
.++++
T Consensus 94 ~l~~~ 98 (158)
T PRK09756 94 KLVEG 98 (158)
T ss_pred HHHHc
Confidence 88764
No 127
>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=90.15 E-value=5.3 Score=28.51 Aligned_cols=91 Identities=7% Similarity=-0.055 Sum_probs=55.5
Q ss_pred hCCcEEEEc-CCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeecC-
Q psy18065 11 QNGVQALFG-PSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEED- 88 (149)
Q Consensus 11 ~~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~- 88 (149)
..++.+||- +... ....+ ..+...++|++..+.+..... ...+.+.+...+...+..+...|.++++++..+.
T Consensus 62 ~~~~dgiii~~~~~-~~~~~-~~~~~~~ipvV~~~~~~~~~~---~~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~ 136 (275)
T cd06295 62 SGRADGVILIGQHD-QDPLP-ERLAETGLPFVVWGRPLPGQP---YCYVGSDNVGGGRLATEHLLARGRRRIAFLGGPQD 136 (275)
T ss_pred hCCCCEEEEeCCCC-ChHHH-HHHHhCCCCEEEECCccCCCC---CCEEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCC
Confidence 356777653 3222 22333 345678999999875432222 2345566666788888888778999999997642
Q ss_pred --cchhhHHHHHhCCCCCCc
Q psy18065 89 --NGLFKLQELVKTPPTLKT 106 (149)
Q Consensus 89 --~~~~~l~~l~~~~~~~~~ 106 (149)
.+..+.+.+.+.+++++.
T Consensus 137 ~~~~~~r~~gf~~~~~~~~~ 156 (275)
T cd06295 137 MPEGEERLEGYREALAEAGL 156 (275)
T ss_pred cchhHHHHHHHHHHHHHcCC
Confidence 244566667666555553
No 128
>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=90.07 E-value=5.3 Score=28.39 Aligned_cols=92 Identities=8% Similarity=-0.088 Sum_probs=53.3
Q ss_pred hhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeecCc
Q psy18065 10 LQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEEDN 89 (149)
Q Consensus 10 ~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~~ 89 (149)
.+.++.+||....... .. ...+...++|.|..+.........+ +...+...+...++.+...|.++++++.....
T Consensus 55 ~~~~vdgiii~~~~~~-~~-~~~l~~~~ipvV~~~~~~~~~~~~~---V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~ 129 (268)
T cd06277 55 EDGKVDGIILLGGIST-EY-IKEIKELGIPFVLVDHYIPNEKADC---VLTDNYSGAYAATEYLIEKGHRKIGFVGDPLY 129 (268)
T ss_pred HHCCCCEEEEeCCCCh-HH-HHHHhhcCCCEEEEccCCCCCCCCE---EEecchHHHHHHHHHHHHCCCCcEEEECCCCC
Confidence 3567777775333222 22 3345667899998764322122233 33444455666667776679999999975421
Q ss_pred ---chhhHHHHHhCCCCCCc
Q psy18065 90 ---GLFKLQELVKTPPTLKT 106 (149)
Q Consensus 90 ---~~~~l~~l~~~~~~~~~ 106 (149)
...+.+.+.+.+.+.|+
T Consensus 130 ~~~~~~R~~gf~~~~~~~~~ 149 (268)
T cd06277 130 SPSFEERYEGYKKALLDHGI 149 (268)
T ss_pred CcchHHHHHHHHHHHHHcCC
Confidence 34566666666555554
No 129
>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=90.05 E-value=5.3 Score=28.38 Aligned_cols=96 Identities=14% Similarity=0.040 Sum_probs=57.0
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+++.++.+||--.+......+.. +...++|.+............+ +.......+...++.+...|-++++++...
T Consensus 50 ~~~~~~vdgii~~~~~~~~~~~~~-~~~~~ipvV~~~~~~~~~~~~~---v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 125 (268)
T cd06270 50 FLLERRCDALILHSKALSDDELIE-LAAQVPPLVLINRHIPGLADRC---IWLDNEQGGYLATEHLIELGHRKIACITGP 125 (268)
T ss_pred HHHHcCCCEEEEecCCCCHHHHHH-HhhCCCCEEEEeccCCCCCCCe---EEECcHHHHHHHHHHHHHCCCceEEEEeCC
Confidence 344567777765333222222343 4567999998764322122222 456666678888888877799999998754
Q ss_pred -C--cchhhHHHHHhCCCCCCce
Q psy18065 88 -D--NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~~~ 107 (149)
. ....+.+.+.+.+++.|..
T Consensus 126 ~~~~~~~~R~~gf~~~~~~~~~~ 148 (268)
T cd06270 126 LTKEDARLRLQGYRDALAEAGIA 148 (268)
T ss_pred cccccHHHHHHHHHHHHHHcCCC
Confidence 2 2345566666665555543
No 130
>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=90.03 E-value=5.4 Score=28.42 Aligned_cols=98 Identities=11% Similarity=0.157 Sum_probs=57.2
Q ss_pred HHhhCCcEEEEc-CCCCCc-HHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhc--CCcEEEE
Q psy18065 8 RQLQNGVQALFG-PSDALL-GPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFL--NWTKVAI 83 (149)
Q Consensus 8 ~~~~~~v~aiiG-p~~s~~-~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~--~W~~v~v 83 (149)
.++..++.+|+= |..... ...+.. +...++|.+..+..... ..+...+.+.+...+...++.+... |=+++++
T Consensus 51 ~~~~~~vdgiii~~~~~~~~~~~~~~-~~~~~ipvV~~~~~~~~--~~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~ 127 (270)
T cd06308 51 NFIRQGVDLLIISPNEAAPLTPVVEE-AYRAGIPVILLDRKILS--DKYTAYIGADNYEIGRQAGEYIANLLPGKGNILE 127 (270)
T ss_pred HHHHhCCCEEEEecCchhhchHHHHH-HHHCCCCEEEeCCCCCC--ccceEEeecCcHHHHHHHHHHHHHHcCCCceEEE
Confidence 344556665543 333221 233333 45689999998643221 1223346667666777777777554 8899999
Q ss_pred Eeec-Cc--chhhHHHHHhCCCCC-CceE
Q psy18065 84 VYEE-DN--GLFKLQELVKTPPTL-KTEM 108 (149)
Q Consensus 84 i~~~-~~--~~~~l~~l~~~~~~~-~~~v 108 (149)
+... +. ...+.+.+.+.++.+ ++.+
T Consensus 128 l~~~~~~~~~~~R~~g~~~~l~~~~~~~~ 156 (270)
T cd06308 128 IWGLEGSSPAIERHDGFKEALSKYPKIKI 156 (270)
T ss_pred EECCCCCchHHHHHHHHHHHHHHCCCCEE
Confidence 9753 22 345667777766666 6654
No 131
>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=89.88 E-value=5.4 Score=28.21 Aligned_cols=94 Identities=11% Similarity=0.098 Sum_probs=53.6
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.++..++.++|-.........+.. +...++|+|..+........++ + .+.+..-....++.+...|-++++++...
T Consensus 50 ~l~~~~vdgiIi~~~~~~~~~~~~-l~~~~ipvV~~~~~~~~~~~~~-v--~~d~~~~~~~~~~~l~~~g~~~I~~i~~~ 125 (265)
T cd06299 50 NLLSQRVDGIIVVPHEQSAEQLED-LLKRGIPVVFVDREITGSPIPF-V--TSDPQPGMTEAVSLLVALGHKKIGYISGP 125 (265)
T ss_pred HHHhcCCCEEEEcCCCCChHHHHH-HHhCCCCEEEEecccCCCCCCE-E--EECcHHHHHHHHHHHHHcCCCcEEEEeCC
Confidence 445667777765433333334444 4567999999876433233333 2 23333344555666666688999998653
Q ss_pred C---cchhhHHHHHhCCCCCC
Q psy18065 88 D---NGLFKLQELVKTPPTLK 105 (149)
Q Consensus 88 ~---~~~~~l~~l~~~~~~~~ 105 (149)
. ....+.+.+.+.+++.+
T Consensus 126 ~~~~~~~~R~~gf~~~~~~~~ 146 (265)
T cd06299 126 QDTSTGRERLEAFRQACASLG 146 (265)
T ss_pred CCcccHHHHHHHHHHHHHHCC
Confidence 2 23455566666655555
No 132
>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=89.21 E-value=6.2 Score=27.98 Aligned_cols=71 Identities=4% Similarity=-0.012 Sum_probs=44.0
Q ss_pred cccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeecC--cchhhHHHHHhCCCCCCce
Q psy18065 34 EALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEED--NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 34 ~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~--~~~~~l~~l~~~~~~~~~~ 107 (149)
...++|.|...........++ .......-+...++.+...|-++++++.... ....+.+.+.+.+.+.+..
T Consensus 74 ~~~~iPvV~~~~~~~~~~~~~---v~~d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~~~~~~ 146 (263)
T cd06280 74 LRLSFPVVLIDRAGPAGRVDA---VVLDNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMRRHGLA 146 (263)
T ss_pred HhcCCCEEEECCCCCCCCCCE---EEECcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHHHcCCC
Confidence 456899999875322223333 2344555677777877777999999986542 2345666666665555543
No 133
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=89.05 E-value=3.9 Score=27.44 Aligned_cols=81 Identities=7% Similarity=-0.022 Sum_probs=56.1
Q ss_pred HHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCchhHHH
Q psy18065 65 LNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTSTTHISQ 144 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~~~~~~ 144 (149)
.+..+....++++-+++.++-+.-..-...+.+++.+.-.|+.+.+... ++..+.+++ +..+.++++++-++.++..
T Consensus 15 HGQV~~~W~~~~~~~~IvVvdD~~A~D~~~k~~l~ma~P~gvk~~i~sv--~~a~~~l~~-~~~~~~v~il~k~~~d~~~ 91 (157)
T PRK11425 15 HGQVGVQWVGFAGANLVLVANDEVAEDPVQQNLMEMVLAEGIAVRFWTL--QKVIDNIHR-AADRQKILLVCKTPADFLT 91 (157)
T ss_pred hHHhhhhhhcccCCCEEEEEcchhcCCHHHHHHHHhhCCCCCeEEEEEH--HHHHHHHhc-cCCCceEEEEECCHHHHHH
Confidence 3555666778888888877765544444666777777667777766443 456677776 5555678888888899988
Q ss_pred HHhh
Q psy18065 145 FFRA 148 (149)
Q Consensus 145 il~q 148 (149)
++++
T Consensus 92 l~~~ 95 (157)
T PRK11425 92 LVKG 95 (157)
T ss_pred HHHc
Confidence 8763
No 134
>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=88.91 E-value=6.5 Score=27.82 Aligned_cols=94 Identities=12% Similarity=0.004 Sum_probs=56.9
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+...++.++|........ +.......++|.+.......... ...+.+.+...+...++.+...|-++++++...
T Consensus 51 ~l~~~~~dgiii~~~~~~~--~~~~~~~~~ipvv~~~~~~~~~~---~~~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~ 125 (269)
T cd06288 51 ALLDHRVDGIIYATMYHRE--VTLPPELLSVPTVLLNCYDADGA---LPSVVPDEEQGGYDATRHLLAAGHRRIAFINGE 125 (269)
T ss_pred HHHHcCCCEEEEecCCCCh--hHHHHHhcCCCEEEEecccCCCC---CCeEEEccHHHHHHHHHHHHHcCCceEEEEeCC
Confidence 3445567777765432221 12223456899988764322122 234666777778888887766699999999764
Q ss_pred C---cchhhHHHHHhCCCCCCc
Q psy18065 88 D---NGLFKLQELVKTPPTLKT 106 (149)
Q Consensus 88 ~---~~~~~l~~l~~~~~~~~~ 106 (149)
. ....+.+.+.+.++.+++
T Consensus 126 ~~~~~~~~R~~gf~~~~~~~~~ 147 (269)
T cd06288 126 PWMLAAKDRLKGYRQALAEAGI 147 (269)
T ss_pred ccchhHHHHHHHHHHHHHHcCC
Confidence 3 234566667666655554
No 135
>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=88.07 E-value=7.4 Score=27.51 Aligned_cols=71 Identities=8% Similarity=-0.011 Sum_probs=44.7
Q ss_pred hcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec-C-c--chhhHHHHHhCCCCCCce
Q psy18065 33 CEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE-D-N--GLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 33 ~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~-~-~--~~~~l~~l~~~~~~~~~~ 107 (149)
+...++|.+....... ...+ .+.+.....+...++.+...|.++++++... + . +..+.+.+.+.++++|+.
T Consensus 71 ~~~~gipvv~~~~~~~-~~~~---~V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~ 145 (265)
T cd06291 71 YENIDLPIVSFDRYLS-ENIP---IVSSDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDVLKENGLE 145 (265)
T ss_pred HhcCCCCEEEEeCCCC-CCCC---eEeechHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHHHHHcCCC
Confidence 3467899999875432 2223 2455555567777777766799999998653 3 2 345666666665555543
No 136
>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=88.04 E-value=4.2 Score=27.10 Aligned_cols=80 Identities=6% Similarity=-0.006 Sum_probs=54.4
Q ss_pred HHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCchhHHHH
Q psy18065 66 NAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTSTTHISQF 145 (149)
Q Consensus 66 ~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~~~~~~i 145 (149)
+..+....++++-+.+.++-+.-..-...+.+++.+.-.|+.+.+... ++..+.+++-+..+.++++++-++..+..+
T Consensus 14 GQV~~~W~~~~~~~~IiVvdD~~A~D~~~k~~lkma~P~gvk~~i~sv--e~a~~~l~~~~~~~~~v~vl~k~~~da~~l 91 (151)
T TIGR00854 14 GQVGTTWTKVAGANRIIVVNDDVANDEVRQTLMGIVAPTGFKVRFVSL--EKTINVIHKPAYHDQTIFLLFRNPQDVLTL 91 (151)
T ss_pred hHhhhhhhcccCCCEEEEEcccccCCHHHHHHHHhhCCCCCEEEEEEH--HHHHHHHhCcCCCCceEEEEECCHHHHHHH
Confidence 445566778888888888766544445667778777667877766443 345555555445556788888888988888
Q ss_pred Hh
Q psy18065 146 FR 147 (149)
Q Consensus 146 l~ 147 (149)
++
T Consensus 92 ~~ 93 (151)
T TIGR00854 92 VE 93 (151)
T ss_pred HH
Confidence 76
No 137
>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=87.74 E-value=7.8 Score=27.39 Aligned_cols=94 Identities=10% Similarity=-0.013 Sum_probs=53.2
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+...++.++|--........+..+ . .++|.+..+........+ .+...+...+..+++.+...|-++++++...
T Consensus 50 ~l~~~~~dgiii~~~~~~~~~~~~~-~-~~iPvV~i~~~~~~~~~~---~V~~d~~~a~~~~~~~l~~~g~~~i~~i~~~ 124 (265)
T cd06290 50 LLKSRRVDALILLGGDLPEEEILAL-A-EEIPVLAVGRRVPGPGAA---SIAVDNFQGGYLATQHLIDLGHRRIAHITGP 124 (265)
T ss_pred HHHHCCCCEEEEeCCCCChHHHHHH-h-cCCCEEEECCCcCCCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCc
Confidence 3445667776633222222333333 2 489999987532212222 3445666667777776665688999998654
Q ss_pred -C--cchhhHHHHHhCCCCCCc
Q psy18065 88 -D--NGLFKLQELVKTPPTLKT 106 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~~ 106 (149)
+ ....+.+.+.+.+.+.++
T Consensus 125 ~~~~~~~~r~~gf~~~~~~~~~ 146 (265)
T cd06290 125 RGHIDARDRLAGYRKALEEAGL 146 (265)
T ss_pred cccchhhHHHHHHHHHHHHcCC
Confidence 2 234566666665544454
No 138
>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=87.60 E-value=8 Score=27.35 Aligned_cols=91 Identities=10% Similarity=-0.028 Sum_probs=51.9
Q ss_pred CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCC-CCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeecCc-
Q psy18065 12 NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLEL-NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEEDN- 89 (149)
Q Consensus 12 ~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~-~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~~- 89 (149)
.++.++|-.........+. .+...++|++........ .. ...+.+.+...+...++.+...|-++++++.....
T Consensus 59 ~~~dgiii~~~~~~~~~~~-~~~~~~ipvV~~~~~~~~~~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~ 134 (270)
T cd06294 59 KRVDGFILLYSREDDPIID-YLKEEKFPFVVIGKPEDDKEN---ITYVDNDNIQAGYDATEYLIKLGHKKIAFVGGDLDL 134 (270)
T ss_pred cCcCEEEEecCcCCcHHHH-HHHhcCCCEEEECCCCCCCCC---CCeEEECcHHHHHHHHHHHHHcCCccEEEecCCccc
Confidence 3466655433222223333 356679999998743221 12 22344455556667777776669999999975421
Q ss_pred --chhhHHHHHhCCCCCCc
Q psy18065 90 --GLFKLQELVKTPPTLKT 106 (149)
Q Consensus 90 --~~~~l~~l~~~~~~~~~ 106 (149)
...+.+.+.+.++++|+
T Consensus 135 ~~~~~r~~gf~~~~~~~~~ 153 (270)
T cd06294 135 EVTQDRLQGYKQALEDHGI 153 (270)
T ss_pred HHHHHHHHHHHHHHHHcCC
Confidence 33456666666655553
No 139
>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=87.31 E-value=4.8 Score=26.80 Aligned_cols=81 Identities=9% Similarity=0.041 Sum_probs=55.3
Q ss_pred HHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCchhHHH
Q psy18065 65 LNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTSTTHISQ 144 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~~~~~~ 144 (149)
.+..+....++++-+++.++-+.-..-...+.+++.+.-.|+.+.+... ++..+.+++-+..+.+++++.-+++.+..
T Consensus 12 HGQV~~~W~~~~~~~~IvVvdD~~A~D~~~k~~l~ma~P~gvk~~i~sv--e~a~~~l~~~~~~~~~v~il~k~~~~~~~ 89 (151)
T cd00001 12 HGQVATTWTKELNANRIIVVNDEVANDELRKTLLKLAAPPGVKLRIFTV--EKAIEAINSPKYDKQRVFLLFKNPQDVLR 89 (151)
T ss_pred hhHhhhhhhcccCCCEEEEEcccccCCHHHHHHHHhhCCCCCeEEEEEH--HHHHHHHhCcCCCCceEEEEECCHHHHHH
Confidence 3555666778888888888766544445667777777667777766443 34555555544456678888888888888
Q ss_pred HHh
Q psy18065 145 FFR 147 (149)
Q Consensus 145 il~ 147 (149)
+++
T Consensus 90 l~~ 92 (151)
T cd00001 90 LVE 92 (151)
T ss_pred HHH
Confidence 876
No 140
>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=86.82 E-value=9.1 Score=27.17 Aligned_cols=95 Identities=6% Similarity=-0.103 Sum_probs=57.7
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+...++.++|--.+......+..+. ..++|.+..+........ ..+.+.+...+...++.+...|-++++++...
T Consensus 50 ~~~~~~~dgiii~~~~~~~~~~~~~~-~~~~pvV~i~~~~~~~~~---~~V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~ 125 (269)
T cd06293 50 WLDTNHVDGLIFVTNRPDDGALAKLI-NSYGNIVLVDEDVPGAKV---PKVFCDNEQGGRLATRHLARAGHRRIAFVGGP 125 (269)
T ss_pred HHHHCCCCEEEEeCCCCCHHHHHHHH-hcCCCEEEECCCCCCCCC---CEEEECCHHHHHHHHHHHHHCCCceEEEEecC
Confidence 44456788877543332333344433 347999997753321111 24556776778888887877799999999643
Q ss_pred -C--cchhhHHHHHhCCCCCCc
Q psy18065 88 -D--NGLFKLQELVKTPPTLKT 106 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~~ 106 (149)
+ ....+.+.+.+.+++.|.
T Consensus 126 ~~~~~~~~R~~Gf~~a~~~~~~ 147 (269)
T cd06293 126 DALISARERYAGYREALAEAHI 147 (269)
T ss_pred cccccHHHHHHHHHHHHHHcCC
Confidence 2 234566777766655554
No 141
>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=86.68 E-value=9.8 Score=27.39 Aligned_cols=74 Identities=9% Similarity=-0.050 Sum_probs=47.0
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEee
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYE 86 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~ 86 (149)
.+...++.+++--........+. .+...++|.+....... .. .-.+.+.....+...++.+...|-++++++..
T Consensus 51 ~~~~~~~dgiii~~~~~~~~~~~-~~~~~~ipvV~~~~~~~-~~---~~~v~~d~~~~g~~~~~~L~~~g~~~i~~i~~ 124 (283)
T cd06279 51 LVVSALVDGFIVYGVPRDDPLVA-ALLRRGLPVVVVDQPLP-PG---VPSVGIDDRAAAREAARHLLDLGHRRIGILGL 124 (283)
T ss_pred HHHhcCCCEEEEeCCCCChHHHH-HHHHcCCCEEEEecCCC-CC---CCEEeeCcHHHHHHHHHHHHHcCCCcEEEecC
Confidence 34456777777643332323333 35678999998764322 11 23456666667788888887789999999865
No 142
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=85.91 E-value=0.88 Score=31.18 Aligned_cols=30 Identities=20% Similarity=0.470 Sum_probs=27.0
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
+.|+||+++.=+.....+++.+++|||+.+
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlstg 32 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDTG 32 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcHh
Confidence 689999998888888999999999999965
No 143
>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=85.71 E-value=10 Score=26.78 Aligned_cols=95 Identities=8% Similarity=-0.035 Sum_probs=55.2
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+...++.+++-.........+.. +...++|.+...........++ +...+...+..++..+..-|-++++++...
T Consensus 50 ~l~~~~vdgiii~~~~~~~~~~~~-~~~~~ipvV~~~~~~~~~~~~~---V~~d~~~~g~~~~~~l~~~g~~~i~~i~~~ 125 (264)
T cd06274 50 TLIARQVDALIVAGSLPPDDPYYL-CQKAGLPVVALDRPGDPSRFPS---VVSDNRDGAAELTRELLAAPPEEVLFLGGL 125 (264)
T ss_pred HHHHcCCCEEEEcCCCCchHHHHH-HHhcCCCEEEecCccCCCCCCE---EEEccHHHHHHHHHHHHHCCCCcEEEEeCC
Confidence 445667777664433323333444 5568899999875432222232 344444556666776666788999998654
Q ss_pred -C--cchhhHHHHHhCCCCCCc
Q psy18065 88 -D--NGLFKLQELVKTPPTLKT 106 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~~ 106 (149)
+ ....+.+.+.+.+...|.
T Consensus 126 ~~~~~~~~R~~gf~~~~~~~~~ 147 (264)
T cd06274 126 PELSPSRERLAGFRQALADAGL 147 (264)
T ss_pred CcccchHHHHHHHHHHHHHcCC
Confidence 2 234566667666555553
No 144
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=85.00 E-value=13 Score=27.47 Aligned_cols=99 Identities=10% Similarity=0.050 Sum_probs=54.2
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+...++.++|--........+..+....++|++......... .+.-...+....-+...++.+...|-+++++|...
T Consensus 110 ~l~~~~vdgiii~~~~~~~~~~~~l~~~~~iPvV~~d~~~~~~--~~~~~v~~d~~~~g~~a~~~L~~~G~~~i~~i~~~ 187 (341)
T PRK10703 110 MLAQKRVDGLLVMCSEYPEPLLAMLEEYRHIPMVVMDWGEAKA--DFTDAIIDNAFEGGYLAGRYLIERGHRDIGVIPGP 187 (341)
T ss_pred HHHHcCCCEEEEecCCCCHHHHHHHHhcCCCCEEEEecccCCc--CCCCeEEECcHHHHHHHHHHHHHCCCCcEEEEeCC
Confidence 3445567766532222223334444332699999876432211 11112445544456677776665688999998643
Q ss_pred -C--cchhhHHHHHhCCCCCCceE
Q psy18065 88 -D--NGLFKLQELVKTPPTLKTEM 108 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~~~v 108 (149)
+ .+..+.+.+.+.+++.|+.+
T Consensus 188 ~~~~~~~~R~~Gf~~~l~~~gi~~ 211 (341)
T PRK10703 188 LERNTGAGRLAGFMKAMEEANIKV 211 (341)
T ss_pred ccccchHHHHHHHHHHHHHcCCCC
Confidence 2 34556666766665666543
No 145
>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=84.63 E-value=12 Score=26.45 Aligned_cols=94 Identities=7% Similarity=-0.076 Sum_probs=54.7
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+...++.++|-.........+ ......++|.+..+.... ...+ .+...+...+..+++.+...|-++++++...
T Consensus 46 ~l~~~~vdgii~~~~~~~~~~~-~~~~~~~ipvV~~~~~~~-~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 120 (261)
T cd06272 46 LFKENRFDGVIIFGESASDVEY-LYKIKLAIPVVSYGVDYD-LKYP---IVNVDNEKAMELAVLYLAEKGHKKIAYIGDL 120 (261)
T ss_pred HHHHcCcCEEEEeCCCCChHHH-HHHHHcCCCEEEEcccCC-CCCC---EEEEChHHHHHHHHHHHHHcCchhEEEeecc
Confidence 3445567766533222223233 334578899998764322 2223 2445556667777887766788999999754
Q ss_pred -C--cchhhHHHHHhCCCCCCc
Q psy18065 88 -D--NGLFKLQELVKTPPTLKT 106 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~~ 106 (149)
+ ....+.+.+.+.+++.|+
T Consensus 121 ~~~~~~~~R~~gf~~~~~~~~~ 142 (261)
T cd06272 121 SLDRRQRKRFKGFLETCDENGI 142 (261)
T ss_pred cccccHHHHHHHHHHHHHHcCC
Confidence 2 234556666666555553
No 146
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=84.60 E-value=14 Score=27.19 Aligned_cols=69 Identities=10% Similarity=0.020 Sum_probs=42.0
Q ss_pred cCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec-C--cchhhHHHHHhCCCCCCce
Q psy18065 36 LDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE-D--NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 36 ~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~-~--~~~~~l~~l~~~~~~~~~~ 107 (149)
.++|++..+......... ...+....-+...++.+...|-++++++... + ....+.+.+.+.+++.|+.
T Consensus 135 ~~iPvV~i~~~~~~~~~~---~v~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~ 206 (327)
T PRK10423 135 PSVPTVMMDWAPFDGDSD---LIQDNSLLGGDLATQYLIDKGYTRIACITGPLDKTPARLRLEGYRAAMKRAGLN 206 (327)
T ss_pred CCCCEEEECCccCCCCCC---EEEEChHHHHHHHHHHHHHcCCCeEEEEeCCccccchHHHHHHHHHHHHHcCCC
Confidence 489999876432111111 2444444456677777777799999998643 2 2345667777766666654
No 147
>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=84.19 E-value=2 Score=28.64 Aligned_cols=81 Identities=15% Similarity=0.075 Sum_probs=57.5
Q ss_pred HHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCchhHHHH
Q psy18065 66 NAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTSTTHISQF 145 (149)
Q Consensus 66 ~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~~~~~~i 145 (149)
+..+...+++++-+.+.++-+.-..-...+.+++.+.-.|+.+.+... ++..+.+++-...+.++++++-++..+..+
T Consensus 14 GQV~~~W~~~~~~~~IiVvdD~~A~D~~~k~~l~ma~P~gvk~~i~sv--~~a~~~l~~~~~~~~~v~ii~k~~~d~~~l 91 (151)
T PF03830_consen 14 GQVATAWVKKLNANRIIVVDDEVANDPFQKMILKMAAPAGVKLSIFSV--EEAIEKLKKPEYSKKRVLIIVKSPEDALRL 91 (151)
T ss_dssp TTHHHHHHHHHTTSEEEEE-HHHHHSHHHHHHHHHTSHTTSEEEEE-H--HHHHHHHCGGGGTTEEEEEEESSHHHHHHH
T ss_pred eeeeEEEhhhcccCEEEEECHHHhcCHHHHHHHHHhhcCCCceEEEEH--HHHHHHHHhcccCCceEEEEECCHHHHHHH
Confidence 455677889999999988866544455667777776666777766443 456666666666677888888899999888
Q ss_pred Hhh
Q psy18065 146 FRA 148 (149)
Q Consensus 146 l~q 148 (149)
+++
T Consensus 92 ~~~ 94 (151)
T PF03830_consen 92 VEA 94 (151)
T ss_dssp HHT
T ss_pred Hhc
Confidence 764
No 148
>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=84.08 E-value=12 Score=26.29 Aligned_cols=94 Identities=9% Similarity=-0.056 Sum_probs=54.6
Q ss_pred HhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeecC
Q psy18065 9 QLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEED 88 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~ 88 (149)
++..++.++|--........+ ..+...++|.+..+....... ...+.......+...++.+...|-++++++..+.
T Consensus 51 l~~~~vdgiii~~~~~~~~~~-~~~~~~~ipvv~~~~~~~~~~---~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~ 126 (268)
T cd01575 51 LLSRRPAGLILTGLEHTERTR-QLLRAAGIPVVEIMDLPPDPI---DMAVGFSHAEAGRAMARHLLARGYRRIGFLGARM 126 (268)
T ss_pred HHHcCCCEEEEeCCCCCHHHH-HHHHhcCCCEEEEecCCCCCC---CCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCC
Confidence 445567777653332222333 345567999998753221111 1234555566777778878777999999998652
Q ss_pred ---cchhhHHHHHhCCCCCCc
Q psy18065 89 ---NGLFKLQELVKTPPTLKT 106 (149)
Q Consensus 89 ---~~~~~l~~l~~~~~~~~~ 106 (149)
....+.+.+.+.+++.+.
T Consensus 127 ~~~~~~~r~~gf~~~l~~~~~ 147 (268)
T cd01575 127 DDTRAQQRLEGFRAALRAAGL 147 (268)
T ss_pred CcccHHHHHHHHHHHHHHcCC
Confidence 233455556665555443
No 149
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=84.07 E-value=15 Score=27.29 Aligned_cols=94 Identities=9% Similarity=0.020 Sum_probs=51.5
Q ss_pred HhhCCcEEEEcCCCCCcHHHHHHhhcccCCC-ceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 9 QLQNGVQALFGPSDALLGPHVQSICEALDVP-HMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP-~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
+..+++.++|--........+..+.. ++| .+...........++ +.+.+..-+...++.+...|.++++++...
T Consensus 111 l~~~~vdgiIi~~~~~~~~~~~~~~~--~~p~vV~i~~~~~~~~~~~---V~~Dn~~~~~~a~~~L~~~G~~~I~~i~~~ 185 (343)
T PRK10727 111 LIRHRCAALVVHAKMIPDAELASLMK--QIPGMVLINRILPGFENRC---IALDDRYGAWLATRHLIQQGHTRIGYLCSN 185 (343)
T ss_pred HHhcCCCEEEEecCCCChHHHHHHHh--cCCCEEEEecCCCCCCCCE---EEECcHHHHHHHHHHHHHCCCccEEEEeCC
Confidence 44566766664322222333444433 677 666553221111122 445555556666676666799999999653
Q ss_pred -C--cchhhHHHHHhCCCCCCce
Q psy18065 88 -D--NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~~~ 107 (149)
+ ....+.+.+.+.+++.|+.
T Consensus 186 ~~~~~~~~R~~Gf~~al~~~gi~ 208 (343)
T PRK10727 186 HSISDAEDRLQGYYDALAESGIP 208 (343)
T ss_pred ccccchHHHHHHHHHHHHHCCCC
Confidence 2 2345667777766666654
No 150
>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=83.97 E-value=12 Score=26.25 Aligned_cols=95 Identities=8% Similarity=-0.080 Sum_probs=55.8
Q ss_pred HHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEee
Q psy18065 7 CRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYE 86 (149)
Q Consensus 7 c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~ 86 (149)
..+...++.++|=.........+..+... + |.+....... ...+ .+.+.....+...++.+...|-++++++..
T Consensus 49 ~~l~~~~vdgiii~~~~~~~~~~~~~~~~-~-pvv~~~~~~~-~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~ 122 (260)
T cd06286 49 ELLKTKQVDGLILCSRENDWEVIEPYTKY-G-PIVLCEEYDS-KNIS---SVYIDHYEAFYEALKYLIQKGYRKIAYCIG 122 (260)
T ss_pred HHHHHcCCCEEEEeCCCCCHHHHHHHhcC-C-CEEEEecccC-CCCC---EEEECChHHHHHHHHHHHHCCCceEEEEcC
Confidence 34455667766643332334455555443 4 8887653222 2222 355566667777888777779999999975
Q ss_pred c-C--cchhhHHHHHhCCCCCCce
Q psy18065 87 E-D--NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 87 ~-~--~~~~~l~~l~~~~~~~~~~ 107 (149)
+ + ....+.+.+.+.+++.|+.
T Consensus 123 ~~~~~~~~~R~~Gf~~~l~~~~~~ 146 (260)
T cd06286 123 RKKSLNSQSRKKAYKDALEEYGLT 146 (260)
T ss_pred CcccchhHHHHHHHHHHHHHcCCC
Confidence 4 2 2345666677666555543
No 151
>PRK09526 lacI lac repressor; Reviewed
Probab=83.47 E-value=16 Score=27.07 Aligned_cols=93 Identities=11% Similarity=0.089 Sum_probs=53.9
Q ss_pred HHhhCCcEEEEc--CCCCCcHHHHHHhh-cccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEE
Q psy18065 8 RQLQNGVQALFG--PSDALLGPHVQSIC-EALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIV 84 (149)
Q Consensus 8 ~~~~~~v~aiiG--p~~s~~~~~v~~~~-~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi 84 (149)
.+.+.++.++|- |..... +..+. ...++|.+...... .... -.+.+.+..-+...++.+...|-++++++
T Consensus 115 ~l~~~~vdGiii~~~~~~~~---~~~~~~~~~~iPvV~~d~~~-~~~~---~~V~~d~~~~~~~a~~~L~~~G~~~I~~l 187 (342)
T PRK09526 115 ELLAQRVSGVIINVPLEDAD---AEKIVADCADVPCLFLDVSP-QSPV---NSVSFDPEDGTRLGVEHLVELGHQRIALL 187 (342)
T ss_pred HHHhcCCCEEEEecCCCcch---HHHHHhhcCCCCEEEEeccC-CCCC---CEEEECcHHHHHHHHHHHHHCCCCeEEEE
Confidence 344567777664 433322 22222 23589998875422 1111 23455655566777787777799999999
Q ss_pred eecC---cchhhHHHHHhCCCCCCce
Q psy18065 85 YEED---NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 85 ~~~~---~~~~~l~~l~~~~~~~~~~ 107 (149)
.... ....+.+.+.+.+++.|+.
T Consensus 188 ~g~~~~~~~~~R~~Gf~~al~~~gi~ 213 (342)
T PRK09526 188 AGPESSVSARLRLAGWLEYLTDYQLQ 213 (342)
T ss_pred eCCCccccHHHHHHHHHHHHHHcCCC
Confidence 7532 2345666666666566654
No 152
>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=83.32 E-value=13 Score=26.10 Aligned_cols=93 Identities=9% Similarity=-0.041 Sum_probs=53.7
Q ss_pred HhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeecC
Q psy18065 9 QLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEED 88 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~ 88 (149)
+...++.+|+--........+.. +...++|.|...........+ .+...+...+...++.+...|-++++++....
T Consensus 51 l~~~~~dgiii~~~~~~~~~l~~-~~~~~ipvV~~~~~~~~~~~~---~v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~ 126 (267)
T cd06283 51 LLAYQVDGLIVNPTGNNKELYQR-LAKNGKPVVLVDRKIPELGVD---TVTLDNYEAAKEAVDHLIEKGYERILFVTEPL 126 (267)
T ss_pred HHHcCcCEEEEeCCCCChHHHHH-HhcCCCCEEEEcCCCCCCCCC---EEEeccHHHHHHHHHHHHHcCCCcEEEEecCc
Confidence 44556666663322222333444 456799999987543222222 23344455677778878777999999997542
Q ss_pred c----chhhHHHHHhCCCCCC
Q psy18065 89 N----GLFKLQELVKTPPTLK 105 (149)
Q Consensus 89 ~----~~~~l~~l~~~~~~~~ 105 (149)
. ...+.+.+.+..+..+
T Consensus 127 ~~~~~~~~r~~g~~~~~~~~~ 147 (267)
T cd06283 127 DEISPRMERYEGFKEALAEHG 147 (267)
T ss_pred cccccHHHHHHHHHHHHHHcC
Confidence 2 1345666666554444
No 153
>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=83.10 E-value=15 Score=26.54 Aligned_cols=95 Identities=8% Similarity=0.029 Sum_probs=51.2
Q ss_pred HhhCCcEEEEc-CCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhc------CCcEE
Q psy18065 9 QLQNGVQALFG-PSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFL------NWTKV 81 (149)
Q Consensus 9 ~~~~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~------~W~~v 81 (149)
++..++.+|+- |..+......-..+...++|++............+ .+.......+....+.+... |=+++
T Consensus 51 ~~~~~vdgiii~~~~~~~~~~~l~~l~~~~ipvV~~~~~~~~~~~~~--~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i 128 (288)
T cd01538 51 MIAKGVDVLVIAPVDGEALASAVEKAADAGIPVIAYDRLILNSNVDY--YVSFDNEKVGELQGQALVDGLGAKGKPPGNI 128 (288)
T ss_pred HHHcCCCEEEEecCChhhHHHHHHHHHHCCCCEEEECCCCCCCCcce--EEEeChHHHHHHHHHHHHHHHhhcCCCCceE
Confidence 45566776663 33332222333335567999999865322111122 23445445566666655333 77899
Q ss_pred EEEeec-C--cchhhHHHHHhCCCCCC
Q psy18065 82 AIVYEE-D--NGLFKLQELVKTPPTLK 105 (149)
Q Consensus 82 ~vi~~~-~--~~~~~l~~l~~~~~~~~ 105 (149)
+++..+ + ....+.+.+.+.+++.+
T Consensus 129 ~~l~g~~~~~~~~~R~~gf~~~l~~~~ 155 (288)
T cd01538 129 ELIAGSPTDNNAKLFFNGAMSVLKPLI 155 (288)
T ss_pred EEEECCCCCchHHHHHHHHHHHHHhcc
Confidence 988654 2 23455666666655554
No 154
>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=82.83 E-value=16 Score=26.89 Aligned_cols=72 Identities=13% Similarity=0.230 Sum_probs=41.7
Q ss_pred HHHHHHHHHh-c-CCcEEEEEeecCcc--hhhHHHHHhCCCCCCceEEEEecCC-CchHHHHHHHHhCCCceEEEecC
Q psy18065 66 NAAFKDVIRF-L-NWTKVAIVYEEDNG--LFKLQELVKTPPTLKTEMYIRHANP-STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 66 ~~ai~~ll~~-~-~W~~v~vi~~~~~~--~~~l~~l~~~~~~~~~~v~~~~~~~-~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
....+++++. + +-++++++|++++. ....+.+.+..++.|+.+....++. .+....+..+... .+.+++..+
T Consensus 117 ~~~~l~l~~~l~P~~k~igvl~~~~~~~~~~~~~~~~~~a~~~g~~l~~~~v~~~~~~~~~~~~l~~~-~da~~~~~~ 193 (294)
T PF04392_consen 117 IEKQLELIKKLFPDAKRIGVLYDPSEPNSVAQIEQLRKAAKKLGIELVEIPVPSSEDLEQALEALAEK-VDALYLLPD 193 (294)
T ss_dssp HHHHHHHHHHHSTT--EEEEEEETT-HHHHHHHHHHHHHHHHTT-EEEEEEESSGGGHHHHHHHHCTT--SEEEE-S-
T ss_pred HHHHHHHHHHhCCCCCEEEEEecCCCccHHHHHHHHHHHHHHcCCEEEEEecCcHhHHHHHHHHhhcc-CCEEEEECC
Confidence 3455565544 3 57999999997543 4455566666666787766555543 6777888877654 456666543
No 155
>PLN02674 adenylate kinase
Probab=82.56 E-value=1.7 Score=31.43 Aligned_cols=67 Identities=15% Similarity=0.171 Sum_probs=49.4
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCC-------C--------------------------------CCCcc
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-------E--------------------------------LNSKE 53 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~-------~--------------------------------~~~~~ 53 (149)
....++||.++.=+...+.++..+++++|+.+--. + .....
T Consensus 32 ~~i~l~G~PGsGKgT~a~~La~~~~~~his~GdllR~~i~~~s~~g~~i~~~~~~G~lvpd~iv~~lv~~~l~~~~~~~g 111 (244)
T PLN02674 32 KRLILIGPPGSGKGTQSPIIKDEYCLCHLATGDMLRAAVAAKTPLGIKAKEAMDKGELVSDDLVVGIIDEAMKKPSCQKG 111 (244)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHcCCcEEchhHHHHHHHhccChhhHHHHHHHHcCCccCHHHHHHHHHHHHhCcCcCCc
Confidence 45788999999888888999999999999875200 0 00124
Q ss_pred cEEEecCChhHHHHHHHHHHHhcCCc
Q psy18065 54 FSVNLYPSQKLLNAAFKDVIRFLNWT 79 (149)
Q Consensus 54 ~~~~~~p~~~~~~~ai~~ll~~~~W~ 79 (149)
|++-=+|....|+..+-.++..+|..
T Consensus 112 ~ilDGfPRt~~Qa~~l~~~l~~~~~~ 137 (244)
T PLN02674 112 FILDGFPRTVVQAQKLDEMLAKQGAK 137 (244)
T ss_pred EEEeCCCCCHHHHHHHHHHHHhcCCC
Confidence 66777788888888888888776644
No 156
>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=81.99 E-value=16 Score=25.94 Aligned_cols=95 Identities=6% Similarity=-0.063 Sum_probs=58.0
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+...++.++|-...+ ...+ ..+...++|.+..+....... .-++...+..-+...++.+...|-++++++...
T Consensus 45 ~l~~~~vdGiI~~~~~--~~~~-~~l~~~~~PvV~~~~~~~~~~---~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~ 118 (265)
T cd01543 45 WLKDWQGDGIIARIDD--PEMA-EALQKLGIPVVDVSGSREKPG---IPRVTTDNAAIGRMAAEHFLERGFRHFAFYGLP 118 (265)
T ss_pred hccccccceEEEECCC--HHHH-HHHhhCCCCEEEEeCccCCCC---CCEEeeCHHHHHHHHHHHHHHCCCcEEEEEcCC
Confidence 3445567777753221 2222 334567999999875322111 235666776777778888877799999998654
Q ss_pred Cc--chhhHHHHHhCCCCCCceE
Q psy18065 88 DN--GLFKLQELVKTPPTLKTEM 108 (149)
Q Consensus 88 ~~--~~~~l~~l~~~~~~~~~~v 108 (149)
.. ...+.+.+.+.+++.|..+
T Consensus 119 ~~~~~~~R~~gf~~~~~~~~~~~ 141 (265)
T cd01543 119 GARWSDEREEAFRQLVAEAGYEC 141 (265)
T ss_pred CCHHHHHHHHHHHHHHHHcCCcc
Confidence 32 3355666777666666543
No 157
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=81.17 E-value=22 Score=27.62 Aligned_cols=72 Identities=14% Similarity=0.186 Sum_probs=50.1
Q ss_pred HHHHHHHHHHhcCCcEEEEEeecCcch--hhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecC
Q psy18065 65 LNAAFKDVIRFLNWTKVAIVYEEDNGL--FKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~vi~~~~~~~--~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
...+..+..+...-+.|.++|+..+|. ...+.+-+...+.|+.+...++...|..++++.|.++. .+++-.+
T Consensus 233 i~~~Y~~W~~~~~~~~V~l~Y~smyg~T~~ma~aiaegl~~~gv~v~~~~~~~~~~~eI~~~i~~a~--~~vvGsP 306 (388)
T COG0426 233 IVEAYRDWAEGQPKGKVDLIYDSMYGNTEKMAQAIAEGLMKEGVDVEVINLEDADPSEIVEEILDAK--GLVVGSP 306 (388)
T ss_pred HHHHHHHHHccCCcceEEEEEecccCCHHHHHHHHHHHhhhcCCceEEEEcccCCHHHHHHHHhhcc--eEEEecC
Confidence 444555555444334799999998774 44666777788889888777776668888888888874 5555444
No 158
>PTZ00088 adenylate kinase 1; Provisional
Probab=80.87 E-value=2.1 Score=30.58 Aligned_cols=31 Identities=16% Similarity=0.272 Sum_probs=27.9
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeecc
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~ 45 (149)
..++||.++.=+.....++..+++|+|+.+.
T Consensus 9 Ivl~G~PGsGK~T~a~~La~~~g~~~is~gd 39 (229)
T PTZ00088 9 IVLFGAPGVGKGTFAEILSKKENLKHINMGN 39 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEECCh
Confidence 7899999999888888999999999999763
No 159
>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=80.72 E-value=2.3 Score=28.75 Aligned_cols=31 Identities=19% Similarity=0.324 Sum_probs=27.4
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
++.++||++|.=+.....++..++.++|+.+
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~~~~~is~~ 31 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENFGFTHLSAG 31 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHcCCeEEECC
Confidence 4689999998888888889999999999975
No 160
>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=80.62 E-value=1.1 Score=29.40 Aligned_cols=28 Identities=14% Similarity=0.407 Sum_probs=25.6
Q ss_pred EEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 17 LFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 17 iiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
|+||++|.=+.....++..+++++|+.+
T Consensus 1 i~G~PgsGK~t~~~~la~~~~~~~is~~ 28 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAKRYGLVHISVG 28 (151)
T ss_dssp EEESTTSSHHHHHHHHHHHHTSEEEEHH
T ss_pred CcCCCCCChHHHHHHHHHhcCcceechH
Confidence 6899999988888999999999999976
No 161
>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=80.48 E-value=18 Score=25.68 Aligned_cols=96 Identities=16% Similarity=0.153 Sum_probs=56.2
Q ss_pred HHHhhCCcEEEE-cCCCCC----cHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEE
Q psy18065 7 CRQLQNGVQALF-GPSDAL----LGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 7 c~~~~~~v~aii-Gp~~s~----~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v 81 (149)
..++..++.++| .|..+. ....+.. +...++|.+..+...... . ...+...+..-+...++.+...|.+++
T Consensus 49 ~~l~~~~vdgii~~~~~~~~~~~~~~~~~~-~~~~~ipvV~~~~~~~~~--~-~~~V~~D~~~~g~~~~~~l~~~G~~~i 124 (273)
T cd01541 49 ENMLSQGIDGLIIEPTKSALPNPNIDLYLK-LEKLGIPYVFINASYEEL--N-FPSLVLDDEKGGYKATEYLIELGHRKI 124 (273)
T ss_pred HHHHHcCCCEEEEeccccccccccHHHHHH-HHHCCCCEEEEecCCCCC--C-CCEEEECcHHHHHHHHHHHHHcCCcCE
Confidence 355667777776 333221 1122333 466789999987432211 1 134556666677778887777799999
Q ss_pred EEEeecC--cchhhHHHHHhCCCCCCc
Q psy18065 82 AIVYEED--NGLFKLQELVKTPPTLKT 106 (149)
Q Consensus 82 ~vi~~~~--~~~~~l~~l~~~~~~~~~ 106 (149)
+++...+ .+..+.+.+.+..+..+.
T Consensus 125 ~~l~~~~~~~~~~r~~g~~~~l~~~~~ 151 (273)
T cd01541 125 AGIFKADDLQGVKRMKGFIKAYREHGI 151 (273)
T ss_pred EEecCCCcccHHHHHHHHHHHHHHcCC
Confidence 9887543 234555556655544443
No 162
>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=80.13 E-value=18 Score=25.52 Aligned_cols=94 Identities=12% Similarity=0.015 Sum_probs=55.6
Q ss_pred HHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 8 RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 8 ~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
.+...++.++|=..+......+.. +...++|++..+.... ..+ .+......-+...++.+...|-++++++...
T Consensus 50 ~l~~~~~dgiii~~~~~~~~~~~~-~~~~~iPvv~~~~~~~--~~~---~V~~d~~~ag~~a~~~L~~~g~~~i~~i~~~ 123 (265)
T cd06285 50 MLLDRRVDGLILGDARSDDHFLDE-LTRRGVPFVLVLRHAG--TSP---AVTGDDVLGGRLATRHLLDLGHRRIAVLAGP 123 (265)
T ss_pred HHHHcCCCEEEEecCCCChHHHHH-HHHcCCCEEEEccCCC--CCC---EEEeCcHHHHHHHHHHHHHCCCccEEEEeCC
Confidence 344566776653222223333433 4667999998764321 222 2344555566777777776788999998754
Q ss_pred C---cchhhHHHHHhCCCCCCce
Q psy18065 88 D---NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 88 ~---~~~~~l~~l~~~~~~~~~~ 107 (149)
. .+..+.+.+.+.+++.|..
T Consensus 124 ~~~~~~~~R~~Gf~~~~~~~~~~ 146 (265)
T cd06285 124 DYASTARDRLAGFRAALAEAGIE 146 (265)
T ss_pred cccccHHHHHHHHHHHHHHcCCC
Confidence 2 2456677777666555543
No 163
>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=79.94 E-value=19 Score=25.65 Aligned_cols=98 Identities=10% Similarity=-0.085 Sum_probs=57.7
Q ss_pred HHhhCCcEEEEc-CCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCC-----cEE
Q psy18065 8 RQLQNGVQALFG-PSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNW-----TKV 81 (149)
Q Consensus 8 ~~~~~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W-----~~v 81 (149)
.+++.++.+||- |........+ ..+...++|++......... ...-.+.......+...++.+...+= +++
T Consensus 52 ~~~~~~vdgiI~~~~~~~~~~~~-~~~~~~giPvV~~~~~~~~~--~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i 128 (268)
T cd06306 52 DCAAWGADAILLGAVSPDGLNEI-LQQVAASIPVIALVNDINSP--DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKV 128 (268)
T ss_pred HHHHcCCCEEEEcCCChhhHHHH-HHHHHCCCCEEEeccCCCCc--ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceE
Confidence 344567776654 3222221223 33567899999875322111 22234566666677888887765555 799
Q ss_pred EEEeec-C--cchhhHHHHHhCCCCCCceE
Q psy18065 82 AIVYEE-D--NGLFKLQELVKTPPTLKTEM 108 (149)
Q Consensus 82 ~vi~~~-~--~~~~~l~~l~~~~~~~~~~v 108 (149)
+++... + ....+.+.+.+.+++.++.+
T Consensus 129 ~~l~g~~~~~~~~~R~~g~~~~~~~~~~~~ 158 (268)
T cd06306 129 AWFPGPKGAGWVKAVEKGFRDALAGSAIEI 158 (268)
T ss_pred EEEeCCCCCchHHHHHHHHHHHHhhcCcEE
Confidence 998754 2 24566777777776667654
No 164
>PRK14530 adenylate kinase; Provisional
Probab=79.27 E-value=2.5 Score=29.60 Aligned_cols=32 Identities=22% Similarity=0.319 Sum_probs=28.2
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
...+|+||++|.=+.....++..+++|+|+.+
T Consensus 4 ~~I~i~G~pGsGKsT~~~~La~~~~~~~i~~g 35 (215)
T PRK14530 4 PRILLLGAPGAGKGTQSSNLAEEFGVEHVTTG 35 (215)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHhCCeEEecc
Confidence 46889999999988888999999999999865
No 165
>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=79.27 E-value=21 Score=25.65 Aligned_cols=93 Identities=6% Similarity=-0.032 Sum_probs=52.4
Q ss_pred hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCC-CCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec-C
Q psy18065 11 QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE-LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE-D 88 (149)
Q Consensus 11 ~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~-~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~-~ 88 (149)
..++.++|--........+.. +...++|+|..+.... ....++ +...+..-+...++.+...|-+++++|... +
T Consensus 54 ~~~vdgiIi~~~~~~~~~~~~-l~~~~iPvV~i~~~~~~~~~~~~---V~~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~ 129 (269)
T cd06287 54 ALDIDGAILVEPMADDPQVAR-LRQRGIPVVSIGRPPGDRTDVPY---VDLQSAATARMLLEHLRAQGARQIALIVGSAR 129 (269)
T ss_pred ccCcCeEEEecCCCCCHHHHH-HHHcCCCEEEeCCCCCCCCCCCe---EeeCcHHHHHHHHHHHHHcCCCcEEEEeCCcc
Confidence 346776553222112233444 3456999999865321 122232 334555566777777777799999999643 2
Q ss_pred --cchhhHHHHHhCCCCCCce
Q psy18065 89 --NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 89 --~~~~~l~~l~~~~~~~~~~ 107 (149)
....+.+.+.+.+++.|..
T Consensus 130 ~~~~~~R~~gf~~a~~~~g~~ 150 (269)
T cd06287 130 RNSYLEAEAAYRAFAAEHGMP 150 (269)
T ss_pred cccHHHHHHHHHHHHHHcCCC
Confidence 2345566666665555553
No 166
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=79.06 E-value=23 Score=26.11 Aligned_cols=94 Identities=10% Similarity=0.014 Sum_probs=54.4
Q ss_pred HhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec-
Q psy18065 9 QLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE- 87 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~- 87 (149)
+.+.++.++|--........+. .+...++|.+....... ....+ .+.+....-+...++.+...|-++++++...
T Consensus 115 ~~~~~vdgiI~~~~~~~~~~~~-~l~~~~iPvV~~~~~~~-~~~~~--~V~~Dn~~~~~~a~~~L~~~Gh~~I~~i~~~~ 190 (331)
T PRK14987 115 MLSWNIDGLILTERTHTPRTLK-MIEVAGIPVVELMDSQS-PCLDI--AVGFDNFEAARQMTTAIIARGHRHIAYLGARL 190 (331)
T ss_pred HHhcCCCEEEEcCCCCCHHHHH-HHHhCCCCEEEEecCCC-CCCCc--eEEeCcHHHHHHHHHHHHHCCCceEEEEcCCC
Confidence 4456777766432222223333 34667999998632111 11122 3566666667777887777899999999643
Q ss_pred C-cchhhHHHHHhCCCCCCc
Q psy18065 88 D-NGLFKLQELVKTPPTLKT 106 (149)
Q Consensus 88 ~-~~~~~l~~l~~~~~~~~~ 106 (149)
+ ....+.+.+.+.+.+.|+
T Consensus 191 ~~~~~~R~~Gf~~al~~~g~ 210 (331)
T PRK14987 191 DERTIIKQKGYEQAMLDAGL 210 (331)
T ss_pred cccHHHHHHHHHHHHHHcCC
Confidence 2 233456666666555554
No 167
>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=78.96 E-value=2.1 Score=26.63 Aligned_cols=32 Identities=19% Similarity=0.247 Sum_probs=28.0
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeecc
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~ 45 (149)
+.+|.|++++.=|.....+++.+++|++....
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 47899999999998999999999999988653
No 168
>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=78.88 E-value=20 Score=25.36 Aligned_cols=93 Identities=11% Similarity=0.080 Sum_probs=54.8
Q ss_pred hhCCcEEE-EcCCCCC-cHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhc--CCcEEEEEe
Q psy18065 10 LQNGVQAL-FGPSDAL-LGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFL--NWTKVAIVY 85 (149)
Q Consensus 10 ~~~~v~ai-iGp~~s~-~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~--~W~~v~vi~ 85 (149)
...++.++ +.|.... ....+.. +...++|+|..+.... .. ...+.+.+...+...++.+... |.++++++.
T Consensus 54 ~~~~~dgiIi~~~~~~~~~~~i~~-~~~~~ipvv~~~~~~~-~~---~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~ 128 (271)
T cd06321 54 IAAKVDLILLNAVDSKGIAPAVKR-AQAAGIVVVAVDVAAE-GA---DATVTTDNVQAGEISCQYLADRLGGKGNVAILN 128 (271)
T ss_pred HHhCCCEEEEeCCChhHhHHHHHH-HHHCCCeEEEecCCCC-Cc---cceeeechHHHHHHHHHHHHHHhCCCceEEEEe
Confidence 34455544 4443322 2334444 4567899999875322 11 1245666666777788877665 999999997
Q ss_pred ecC--cchhhHHHHHhCCCCC-Cce
Q psy18065 86 EED--NGLFKLQELVKTPPTL-KTE 107 (149)
Q Consensus 86 ~~~--~~~~~l~~l~~~~~~~-~~~ 107 (149)
... ....+.+.+.+..++. ++.
T Consensus 129 g~~~~~~~~R~~g~~~~~~~~~~~~ 153 (271)
T cd06321 129 GPPVSAVLDRVAGCKAALAKYPGIK 153 (271)
T ss_pred CCCCchHHHHHHHHHHHHHhCCCcE
Confidence 542 2345566666665555 443
No 169
>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=78.69 E-value=23 Score=25.88 Aligned_cols=99 Identities=11% Similarity=0.106 Sum_probs=56.1
Q ss_pred HHHhhC--CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCC-C----------CcccEEEecCChhHHHHHHHHHH
Q psy18065 7 CRQLQN--GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLEL-N----------SKEFSVNLYPSQKLLNAAFKDVI 73 (149)
Q Consensus 7 c~~~~~--~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~-~----------~~~~~~~~~p~~~~~~~ai~~ll 73 (149)
..++.. ++.+||=-.........-..+...++|++........ . ...++-...+....-+...++.+
T Consensus 50 ~~~~~~~~~vdgiIi~~~~~~~~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l 129 (305)
T cd06324 50 RTILQRPDKPDALIFTNEKSVAPELLRLAEGAGVKLFLVNSGLTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEAL 129 (305)
T ss_pred HHHHHhccCCCEEEEcCCccchHHHHHHHHhCCCeEEEEecCCCcchhhcccccccccCceeeeeccCcHHHHHHHHHHH
Confidence 345566 7777654222222333334566789999988642211 1 11233456777777788888877
Q ss_pred HhcCCcE--------EEEEeec-C--cchhhHHHHHhCCCCCC
Q psy18065 74 RFLNWTK--------VAIVYEE-D--NGLFKLQELVKTPPTLK 105 (149)
Q Consensus 74 ~~~~W~~--------v~vi~~~-~--~~~~~l~~l~~~~~~~~ 105 (149)
...|-++ ++++... + ....+.+.+.+.+++++
T Consensus 130 ~~~g~~~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~g 172 (305)
T cd06324 130 ISQARSVQAPGGRIDLLAISGDPTTPAAILREAGLRRALAEHP 172 (305)
T ss_pred HHHhhcccCCCCceeEEEEeCCCCChHHHHHHHHHHHHHHHCC
Confidence 6556553 6666532 2 23456666776666555
No 170
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=78.44 E-value=24 Score=25.99 Aligned_cols=89 Identities=6% Similarity=-0.031 Sum_probs=49.4
Q ss_pred CCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec-C--
Q psy18065 12 NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE-D-- 88 (149)
Q Consensus 12 ~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~-~-- 88 (149)
.++.++|--... .. .........++|.+...........+ .+.+.....+..+++.+...|.++++++... +
T Consensus 113 ~~vDgiI~~~~~-~~-~~~~~l~~~~~pvV~~~~~~~~~~~~---~V~~D~~~~~~~a~~~l~~~G~~~i~~i~~~~~~~ 187 (327)
T PRK10339 113 KNVTGILIVGKP-TP-ALRAAASALTDNICFIDFHEPGSGYD---AVDIDLARISKEIIDFYINQGVNRIGFIGGEDEPG 187 (327)
T ss_pred ccCCEEEEeCCC-CH-HHHHHHHhcCCCEEEEeCCCCCCCCC---EEEECHHHHHHHHHHHHHHCCCCeEEEeCCccccc
Confidence 346655542221 22 23344556789998876432211222 3555666666777787777799999999543 2
Q ss_pred cchhhHHHHHhCCCCCC
Q psy18065 89 NGLFKLQELVKTPPTLK 105 (149)
Q Consensus 89 ~~~~~l~~l~~~~~~~~ 105 (149)
....+.+.+.+.....|
T Consensus 188 ~~~~R~~gf~~~~~~~g 204 (327)
T PRK10339 188 KADIREVAFAEYGRLKQ 204 (327)
T ss_pred hhhHHHHHHHHHHHHcC
Confidence 23345555555444444
No 171
>KOG3857|consensus
Probab=78.35 E-value=11 Score=28.89 Aligned_cols=87 Identities=13% Similarity=0.109 Sum_probs=61.3
Q ss_pred CcccEEEecCChhHHHHHH----HHHHHhcCCcEEEEEeecCc-chhhHHHHHhCCCCCCceEEEE---ecCC--CchHH
Q psy18065 51 SKEFSVNLYPSQKLLNAAF----KDVIRFLNWTKVAIVYEEDN-GLFKLQELVKTPPTLKTEMYIR---HANP--STYRN 120 (149)
Q Consensus 51 ~~~~~~~~~p~~~~~~~ai----~~ll~~~~W~~v~vi~~~~~-~~~~l~~l~~~~~~~~~~v~~~---~~~~--~d~~~ 120 (149)
..+|.|-|.|+...+++++ .+-++..|.|++.++.|-.- -....+...+.+.+.||.+.+- +.++ .++..
T Consensus 39 ~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~~vyD~v~~ePtv~s~~~ 118 (465)
T KOG3857|consen 39 MMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINVEVYDKVQPEPTVGSVTA 118 (465)
T ss_pred cceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCceEEecCccCCCchhhHHH
Confidence 4467888999988777766 45678999999999988542 2223344444555577777652 2333 56888
Q ss_pred HHHHHHhCCCceEEEec
Q psy18065 121 VLREIRQKEIFNLIIDT 137 (149)
Q Consensus 121 ~l~~i~~~~~~~iil~~ 137 (149)
.++..|.++.+.+|-.+
T Consensus 119 alefak~~~fDs~vaiG 135 (465)
T KOG3857|consen 119 ALEFAKKKNFDSFVAIG 135 (465)
T ss_pred HHHHHHhcccceEEEEc
Confidence 89999999988888765
No 172
>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=78.22 E-value=2.8 Score=29.18 Aligned_cols=30 Identities=27% Similarity=0.551 Sum_probs=26.3
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
+.|+||.+|.=+.....++..+++|+|+.+
T Consensus 2 I~i~G~pGsGKsT~a~~La~~~g~~~is~g 31 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAEKYGLPHISTG 31 (210)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCCeeehh
Confidence 578999998888888889999999999975
No 173
>PRK15088 PTS system mannose-specific transporter subunits IIAB; Provisional
Probab=78.04 E-value=17 Score=27.45 Aligned_cols=81 Identities=9% Similarity=0.032 Sum_probs=54.7
Q ss_pred HHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCchhHHH
Q psy18065 65 LNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTSTTHISQ 144 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~~~~~~ 144 (149)
.+..+....++++-+++.++-+.--.-...+.+++...-.|+.+.+..+ ++..+.+++-+..+.+++|++-+++++..
T Consensus 176 HGQV~~~W~~~~~~~~IiVvdD~vA~D~~~k~~lk~A~P~gvk~~i~sv--~~a~~~l~~~~~~~~~vlil~k~p~d~~~ 253 (322)
T PRK15088 176 HGQVATRWTKETNVSRIIVVSDEVAADTVRKTLLTQVAPPGVTAHVVDV--AKMIRVYNNPKYAGERVMLLFTNPTDVER 253 (322)
T ss_pred hHHHHHHHhhccCCCEEEEeCccccCCHHHHHHHHhcCCCCCeEEEEEH--HHHHHHHhCCCCCCCeEEEEECCHHHHHH
Confidence 3555566888899999888866544445667777777667777766443 34445555434455577888888888888
Q ss_pred HHh
Q psy18065 145 FFR 147 (149)
Q Consensus 145 il~ 147 (149)
+++
T Consensus 254 l~~ 256 (322)
T PRK15088 254 LVE 256 (322)
T ss_pred HHH
Confidence 876
No 174
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=77.39 E-value=2.9 Score=28.44 Aligned_cols=32 Identities=13% Similarity=0.111 Sum_probs=28.3
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeecc
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~ 45 (149)
+.+|-||++|..+.....+++.+++|+++.|.
T Consensus 2 ~ItIsG~pGsG~TTva~~lAe~~gl~~vsaG~ 33 (179)
T COG1102 2 VITISGLPGSGKTTVARELAEHLGLKLVSAGT 33 (179)
T ss_pred EEEeccCCCCChhHHHHHHHHHhCCceeeccH
Confidence 46788999999998889999999999999764
No 175
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=75.45 E-value=3.8 Score=26.29 Aligned_cols=31 Identities=16% Similarity=0.338 Sum_probs=27.5
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
+.+|.|+.++.-+.....++..+++|++..+
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~~~~~~~~~~ 31 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKKLGLPYLDTG 31 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence 4689999999999888889999999999866
No 176
>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=72.83 E-value=16 Score=26.07 Aligned_cols=66 Identities=8% Similarity=0.020 Sum_probs=42.8
Q ss_pred cCChhHHHHHHHHHHHhcCCcEEEEEeecCc-chhhHHHHHhCCCCCCceEEEEecCC--CchHHHHHH
Q psy18065 59 YPSQKLLNAAFKDVIRFLNWTKVAIVYEEDN-GLFKLQELVKTPPTLKTEMYIRHANP--STYRNVLRE 124 (149)
Q Consensus 59 ~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~~-~~~~l~~l~~~~~~~~~~v~~~~~~~--~d~~~~l~~ 124 (149)
.+.-+.+...-+.+++.+.-++|.+.||+|. |........+.+.+.|..+.+..++. .|+.+.++.
T Consensus 135 AslGTALT~~q~~lLkr~~~~~Iil~~D~D~AG~~Aa~r~~~~L~~~G~~v~vv~lP~~~KDwNEllk~ 203 (218)
T TIGR00646 135 PLCGLTISDKQMKFFKQKKIEKIFICFDNDFAGKNAAANLEEILKKAGFITKVIEIKAAAKDWNDLFLL 203 (218)
T ss_pred EcCchHhHHHHHHHHhccCCCEEEEEeCCCHHHHHHHHHHHHHHHHCCCeEEEEeCCCcCCChhHHHHH
Confidence 3334446666677777665678999999874 66666666665555677665555543 678777754
No 177
>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=72.29 E-value=17 Score=27.57 Aligned_cols=70 Identities=7% Similarity=-0.055 Sum_probs=45.5
Q ss_pred HHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecC--C--CchHHHHHHHHhCCCceEEEecC
Q psy18065 68 AFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHAN--P--STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 68 ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~--~--~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
.+.+.++.++ +++.++++..-.....+.+.+.++..|+.+.+..+. + ++..+..+..++.+++.||-.+-
T Consensus 13 ~l~~~~~~~~-~r~livt~~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGG 86 (351)
T cd08170 13 ELGEYLARLG-KRALIIADEFVLDLVGAKIEESLAAAGIDARFEVFGGECTRAEIERLAEIARDNGADVVIGIGG 86 (351)
T ss_pred HHHHHHHHhC-CeEEEEECHHHHHHHHHHHHHHHHhCCCeEEEEEeCCcCCHHHHHHHHHHHhhcCCCEEEEecC
Confidence 4556677676 898888865322245556666666666665443342 2 35677788888889999988763
No 178
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=71.82 E-value=37 Score=25.96 Aligned_cols=71 Identities=7% Similarity=-0.054 Sum_probs=45.0
Q ss_pred HHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCC----CchHHHHHHHHhCCCceEEEecC
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANP----STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~----~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
..+.+.++.+| +++.++++..-.....+.+.+.++..|+.+.+..+.. ++..+....+++.+.+.||-.+-
T Consensus 19 ~~l~~~l~~~g-~~~livtd~~~~~~~~~~v~~~l~~~~~~~~~~~~~~ep~~~~v~~~~~~~~~~~~d~IIavGG 93 (366)
T PRK09423 19 ARLGEYLKPLG-KRALVIADEFVLGIVGDRVEASLKEAGLTVVFEVFNGECSDNEIDRLVAIAEENGCDVVIGIGG 93 (366)
T ss_pred HHHHHHHHHcC-CEEEEEEChhHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 34566777788 8988888643222244556655655666553333432 34667778888888899987763
No 179
>PRK14531 adenylate kinase; Provisional
Probab=71.67 E-value=5.4 Score=27.13 Aligned_cols=31 Identities=23% Similarity=0.460 Sum_probs=27.4
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
-..++||++|.=+.....++..+++++|+.+
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~~g~~~is~g 34 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAAHGLRHLSTG 34 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCeEecc
Confidence 4788999999888888999999999999975
No 180
>PRK08118 topology modulation protein; Reviewed
Probab=71.09 E-value=5.7 Score=26.75 Aligned_cols=31 Identities=16% Similarity=0.203 Sum_probs=27.2
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
-..|+||.++.=+.....+++.+++|++...
T Consensus 3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD 33 (167)
T PRK08118 3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLD 33 (167)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCceecc
Confidence 3789999999988888999999999998864
No 181
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=70.88 E-value=36 Score=26.38 Aligned_cols=25 Identities=24% Similarity=0.335 Sum_probs=19.9
Q ss_pred CCcEEEEcCCCCCcHHHHHHhhccc
Q psy18065 12 NGVQALFGPSDALLGPHVQSICEAL 36 (149)
Q Consensus 12 ~~v~aiiGp~~s~~~~~v~~~~~~~ 36 (149)
.++.+++||+++.=+..++.++..+
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~ 161 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARC 161 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHH
Confidence 4599999999988777888877654
No 182
>PF11492 Dicistro_VP4: Cricket paralysis virus, VP4; InterPro: IPR024343 This domain represents VP4, a minor capsid protein from dicistroviridae which is processed from the capsid polyprotein. The dicistroviridae is a group of small, RNA-containing viruses that are closely structurally related to the picornaviridae. VP4 is a short, extended polypeptide chain found within the viral capsid, at the interface between the external protein shell and packaged RNA genome [].; PDB: 1B35_D.
Probab=70.78 E-value=3 Score=22.86 Aligned_cols=42 Identities=17% Similarity=0.310 Sum_probs=13.2
Q ss_pred CCcHHHHHHhhccc-CCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCC
Q psy18065 23 ALLGPHVQSICEAL-DVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNW 78 (149)
Q Consensus 23 s~~~~~v~~~~~~~-~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W 78 (149)
|..+..|+..++.+ +||+|+.-+.+ ....+..+.++.+.|||
T Consensus 14 S~~a~~Vs~va~~ls~iPvig~~ak~--------------~~wvs~~v~~vAkiFG~ 56 (56)
T PF11492_consen 14 SKPASTVSRVANALSSIPVIGPIAKP--------------TSWVSDAVSDVAKIFGF 56 (56)
T ss_dssp --S----GGG---TT----S--SSSS---------------TT----HHHHHHHTT-
T ss_pred chHHHHHHHHHHhhccCcccchhhch--------------HHHHHHHHHHHHHHhCC
Confidence 34445566665555 58888754322 22356677888888887
No 183
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=70.56 E-value=26 Score=27.15 Aligned_cols=71 Identities=14% Similarity=0.086 Sum_probs=53.2
Q ss_pred HHHHHHHHhcCCcEEEEEeecC-cchhhHHHHHhCCCCCCceEEEE-ecCC----CchHHHHHHHHhCCCceEEEec
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEED-NGLFKLQELVKTPPTLKTEMYIR-HANP----STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~-~~~~~l~~l~~~~~~~~~~v~~~-~~~~----~d~~~~l~~i~~~~~~~iil~~ 137 (149)
..+.+.++.+|++++-++.+.. .....++.+.+.++..++.+.++ .+.+ +....-+..+++.+++.||-.+
T Consensus 18 ~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~v~p~P~~~~v~~~~~~~~~~~~D~iIalG 94 (377)
T COG1454 18 KELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDEVEPEPTIETVEAGAEVAREFGPDTIIALG 94 (377)
T ss_pred HHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeEEEecCCCCCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 4566778889999999999874 45566778888877778766553 3432 3456777899999999999877
No 184
>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=70.45 E-value=31 Score=24.64 Aligned_cols=79 Identities=8% Similarity=0.071 Sum_probs=43.7
Q ss_pred HHHHHHHHHHhcCCcEEEEEeecCcchh-hHHHHHhCCCCCCceEEE-Eec-C-CCchHHHHHHHHhCCCceEEEecC--
Q psy18065 65 LNAAFKDVIRFLNWTKVAIVYEEDNGLF-KLQELVKTPPTLKTEMYI-RHA-N-PSTYRNVLREIRQKEIFNLIIDTS-- 138 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~vi~~~~~~~~-~l~~l~~~~~~~~~~v~~-~~~-~-~~d~~~~l~~i~~~~~~~iil~~~-- 138 (149)
+...+..+... .++++|....+-.. ..++-.... ...++.. .-+ . ..++...-.+++..+++.|++||-
T Consensus 115 l~~lV~al~~~---~~vGVivP~~eQ~~~~~~kW~~l~--~~~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCmGY 189 (221)
T PF07302_consen 115 LPPLVAALVGG---HQVGVIVPLPEQIAQQAEKWQPLG--NPVVVAAASPYEGDEEELAAAARELAEQGADLIVLDCMGY 189 (221)
T ss_pred HHHHHHHhcCC---CeEEEEecCHHHHHHHHHHHHhcC--CCeEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECCCC
Confidence 34444445543 68888887643221 222222221 1222222 122 1 245777888999999999999993
Q ss_pred chhHHHHHhh
Q psy18065 139 TTHISQFFRA 148 (149)
Q Consensus 139 ~~~~~~il~q 148 (149)
....++++++
T Consensus 190 t~~~r~~~~~ 199 (221)
T PF07302_consen 190 TQEMRDIVQR 199 (221)
T ss_pred CHHHHHHHHH
Confidence 4556666654
No 185
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=70.29 E-value=21 Score=28.97 Aligned_cols=92 Identities=11% Similarity=0.005 Sum_probs=63.0
Q ss_pred hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCc--ccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec-
Q psy18065 11 QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSK--EFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE- 87 (149)
Q Consensus 11 ~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~--~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~- 87 (149)
.+|+..|+||.--.....+..-.. ..||.+....+...... -+.|-..|-+ .++..++.+-.=|-+...++...
T Consensus 317 q~G~~~VVGPLlK~nVe~L~~~~q-~~i~vLALN~~~n~r~~~~~cyfaLSPED--Ea~~AA~~l~~qG~R~plvlvPr~ 393 (604)
T COG3107 317 QDGADFVVGPLLKPNVEALLASNQ-QPIPVLALNQPENSRNPAQLCYFALSPED--EARDAANHLWDQGKRNPLVLVPRN 393 (604)
T ss_pred hcCCcEEeccccchhHHHHHhCcC-CCCceeeecCCccccCcccceeeecChhH--HHHHHHHHHHHccccCceEEecch
Confidence 478999999998777666654322 67888887643221222 2345566654 66777777777788888888875
Q ss_pred CcchhhHHHHHhCCCCCC
Q psy18065 88 DNGLFKLQELVKTPPTLK 105 (149)
Q Consensus 88 ~~~~~~l~~l~~~~~~~~ 105 (149)
+.|...++.|..+.++.|
T Consensus 394 ~lG~Rv~~AF~~~Wq~~g 411 (604)
T COG3107 394 DLGDRVANAFNQEWQKLG 411 (604)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 788888888887665544
No 186
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=70.24 E-value=31 Score=23.34 Aligned_cols=79 Identities=5% Similarity=0.066 Sum_probs=41.3
Q ss_pred HHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCchhHHHHHh
Q psy18065 68 AFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTSTTHISQFFR 147 (149)
Q Consensus 68 ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~ 147 (149)
.+.+.+.+.|.+-+ ...++......=+..+.+-...+...+---...||.+++.++++.+.+++++-........+.+
T Consensus 70 ~l~~~l~~~Gf~pv--~~kG~~Dv~laIDame~~~~~~iD~~vLvSgD~DF~~Lv~~lre~G~~V~v~g~~~~ts~~L~~ 147 (160)
T TIGR00288 70 KLIEAVVNQGFEPI--IVAGDVDVRMAVEAMELIYNPNIDAVALVTRDADFLPVINKAKENGKETIVIGAEPGFSTALQN 147 (160)
T ss_pred HHHHHHHHCCceEE--EecCcccHHHHHHHHHHhccCCCCEEEEEeccHhHHHHHHHHHHCCCEEEEEeCCCCChHHHHH
Confidence 34567777777744 2223333333223333321122322111122479999999999999766666544444444444
Q ss_pred h
Q psy18065 148 A 148 (149)
Q Consensus 148 q 148 (149)
+
T Consensus 148 a 148 (160)
T TIGR00288 148 S 148 (160)
T ss_pred h
Confidence 3
No 187
>PRK13054 lipid kinase; Reviewed
Probab=70.17 E-value=34 Score=25.30 Aligned_cols=59 Identities=14% Similarity=0.090 Sum_probs=27.7
Q ss_pred EEEEEeecCc-chhhHHHHHhCCCCCCceEEEEecC-CCchHHHHHHHHhCCCceEEEecC
Q psy18065 80 KVAIVYEEDN-GLFKLQELVKTPPTLKTEMYIRHAN-PSTYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 80 ~v~vi~~~~~-~~~~l~~l~~~~~~~~~~v~~~~~~-~~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
++.+|+.... +...+.++.+.+.+.|+.+.+.... ..+..++.++....+.+.||+.+-
T Consensus 5 ~~~~i~N~~~~~~~~~~~~~~~l~~~g~~~~v~~t~~~~~a~~~a~~~~~~~~d~vvv~GG 65 (300)
T PRK13054 5 KSLLILNGKSAGNEELREAVGLLREEGHTLHVRVTWEKGDAARYVEEALALGVATVIAGGG 65 (300)
T ss_pred eEEEEECCCccchHHHHHHHHHHHHcCCEEEEEEecCCCcHHHHHHHHHHcCCCEEEEECC
Confidence 4555555322 3333444444444455554432221 245555555555555555555443
No 188
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=70.10 E-value=22 Score=26.03 Aligned_cols=130 Identities=12% Similarity=0.124 Sum_probs=75.9
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeeccCCC---CCCcccEEEecCChhHHH-----HHHHHHHHhcC----CcEEE
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESRLDLE---LNSKEFSVNLYPSQKLLN-----AAFKDVIRFLN----WTKVA 82 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~---~~~~~~~~~~~p~~~~~~-----~ai~~ll~~~~----W~~v~ 82 (149)
....|..+-..+..+.......++-.|..+.+.+ .|. |. ++-. +...+. ..+.++++.+. -.-+.
T Consensus 20 yi~aG~P~~~~~~~~~~~l~~~Gad~iElGiPfSDP~aDG-pv-Iq~a-~~rAL~~g~~~~~~~~~~~~~r~~~~~p~vl 96 (263)
T CHL00200 20 FITAGDPDIVITKKALKILDKKGADIIELGIPYSDPLADG-PI-IQEA-SNRALKQGINLNKILSILSEVNGEIKAPIVI 96 (263)
T ss_pred EEeCCCCCHHHHHHHHHHHHHCCCCEEEECCCCCCCCccC-HH-HHHH-HHHHHHcCCCHHHHHHHHHHHhcCCCCCEEE
Confidence 3444666666677767767777788888774332 222 21 1111 111111 13455555433 22344
Q ss_pred EEeecCcchhhHHHHHhCCCCCCce-EEEEecCCCchHHHHHHHHhCCCceEEEecCch---hHHHHHh
Q psy18065 83 IVYEEDNGLFKLQELVKTPPTLKTE-MYIRHANPSTYRNVLREIRQKEIFNLIIDTSTT---HISQFFR 147 (149)
Q Consensus 83 vi~~~~~~~~~l~~l~~~~~~~~~~-v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~~---~~~~il~ 147 (149)
+-|-|.--..+++.+.+.+.+.|+. +.+..++.++..+..+.+++.+...|.+..+.. ....+.+
T Consensus 97 m~Y~N~i~~~G~e~F~~~~~~aGvdgviipDLP~ee~~~~~~~~~~~gi~~I~lv~PtT~~eri~~i~~ 165 (263)
T CHL00200 97 FTYYNPVLHYGINKFIKKISQAGVKGLIIPDLPYEESDYLISVCNLYNIELILLIAPTSSKSRIQKIAR 165 (263)
T ss_pred EecccHHHHhCHHHHHHHHHHcCCeEEEecCCCHHHHHHHHHHHHHcCCCEEEEECCCCCHHHHHHHHH
Confidence 4566754445677777777777765 334566667788889999999998888877553 4444444
No 189
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=70.08 E-value=20 Score=30.49 Aligned_cols=24 Identities=25% Similarity=0.336 Sum_probs=20.7
Q ss_pred CcEEEEcCCCCCcHHHHHHhhccc
Q psy18065 13 GVQALFGPSDALLGPHVQSICEAL 36 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~ 36 (149)
++.+++||.++.=+..++.++..+
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~~ 209 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAARC 209 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhhH
Confidence 599999999988888888888765
No 190
>PRK14532 adenylate kinase; Provisional
Probab=69.85 E-value=6.4 Score=26.73 Aligned_cols=30 Identities=23% Similarity=0.411 Sum_probs=26.4
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
..++||.++.=+.....++..++.++|+.+
T Consensus 3 i~~~G~pGsGKsT~a~~la~~~g~~~is~~ 32 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEERGMVQLSTG 32 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCeEEeCc
Confidence 578999998888888899999999999975
No 191
>PRK14528 adenylate kinase; Provisional
Probab=69.43 E-value=6.6 Score=26.88 Aligned_cols=31 Identities=26% Similarity=0.580 Sum_probs=27.0
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
...|+||+++.=+.....++..+++|+++.+
T Consensus 3 ~i~i~G~pGsGKtt~a~~la~~~~~~~is~~ 33 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILCERLSIPQISTG 33 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCeeeCC
Confidence 4678999998888888889999999999875
No 192
>PHA02031 putative DnaG-like primase
Probab=69.31 E-value=11 Score=27.55 Aligned_cols=64 Identities=11% Similarity=0.021 Sum_probs=38.2
Q ss_pred cCChhHHHHHHHHHHHhcCCcEEEEEeecCc-chhhHHHHHhCCCCCCceEEEEecCC-CchHHHH
Q psy18065 59 YPSQKLLNAAFKDVIRFLNWTKVAIVYEEDN-GLFKLQELVKTPPTLKTEMYIRHANP-STYRNVL 122 (149)
Q Consensus 59 ~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~~-~~~~l~~l~~~~~~~~~~v~~~~~~~-~d~~~~l 122 (149)
.+--+.+....+.+|+.+.-++|.+.||+|. |........+.+...+..+.+-.++. .|..+++
T Consensus 187 A~LGTALT~~q~~~L~r~~~~~Vil~fDgD~AG~~Aa~ra~~~l~~~~~~v~vv~lP~g~DPDd~i 252 (266)
T PHA02031 187 ALLGTRLRDRLAAILLQQTCPRVLIFLDGDPAGVDGSAGAMRRLRPLLIEGQVIITPDGFDPKDLE 252 (266)
T ss_pred ECCcccCCHHHHHHHHhcCCCCEEEEeCCCHHHHHHHHHHHHHHHHcCCceEEEECCCCCChHHHH
Confidence 3444557777788888877789999999874 55433333333223355555545543 4555554
No 193
>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=68.63 E-value=48 Score=25.31 Aligned_cols=72 Identities=17% Similarity=0.125 Sum_probs=47.4
Q ss_pred HHHHHHHHhcCCcEEEEEeecCc-chhhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHhCCCceEEEecC
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEEDN-GLFKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~~-~~~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
..+.+.++.++.+++.++++... .....+.+.+.++..|+.+... .+. + ++..+.+..++..+++.||-.+-
T Consensus 12 ~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IiaiGG 89 (370)
T cd08551 12 EKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPNPTLSNVDAAVAAYREEGCDGVIAVGG 89 (370)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 46677788889999999987632 2234455555555556655432 232 2 35678888888889999987663
No 194
>PRK00279 adk adenylate kinase; Reviewed
Probab=68.26 E-value=7.1 Score=27.27 Aligned_cols=30 Identities=30% Similarity=0.541 Sum_probs=26.5
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
+.|+||.+|.=+.....++..+++++++.+
T Consensus 3 I~v~G~pGsGKsT~a~~la~~~~~~~is~~ 32 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFIAEKYGIPHISTG 32 (215)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEECC
Confidence 678999998888888889999999999964
No 195
>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=68.21 E-value=44 Score=25.31 Aligned_cols=71 Identities=10% Similarity=-0.056 Sum_probs=43.5
Q ss_pred HHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCC----CchHHHHHHHHhCCCceEEEecC
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANP----STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~----~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
..+.++++.+| +++.++++..-.....+.+.+.++..|+.+....++. ++..+.....++.+.+.||-.+-
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~~~~~~~v~~~l~~~~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIavGG 86 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVLKKSRPRFEAALAKSIIVVDVIVFGGECSTEEVVKALCGAEEQEADVIIGVGG 86 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHHHHHHHHHHHHHHhcCCeeEEEEcCCCCCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 34567778888 8888887653222334556665555565443323322 34566777788888888887663
No 196
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=68.05 E-value=6.3 Score=26.51 Aligned_cols=32 Identities=16% Similarity=0.288 Sum_probs=28.1
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
.+++++||.+|.=+.....++..++.++++.+
T Consensus 4 ~ii~i~G~~GsGKsTl~~~l~~~~g~~~~~~g 35 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQCEKIVEKYGFTHLSTG 35 (188)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhCCcEEeHH
Confidence 47899999999888888889999999999874
No 197
>PRK14527 adenylate kinase; Provisional
Probab=68.05 E-value=6.3 Score=26.96 Aligned_cols=32 Identities=19% Similarity=0.402 Sum_probs=28.3
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
.+..++||+++.=+.....++..++.++++.+
T Consensus 7 ~~i~i~G~pGsGKsT~a~~La~~~~~~~is~g 38 (191)
T PRK14527 7 KVVIFLGPPGAGKGTQAERLAQELGLKKLSTG 38 (191)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhCCCCCCcc
Confidence 48999999999988888889999999999864
No 198
>cd08192 Fe-ADH7 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. NAD-dependent iron-containing alcohol dehydrogenase-like. Proteins in this family are NAD-dependent alcohol dehydrogenases which are involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. They catalyze the oxidation of beta-hydroxy CoA ester to beta-oxo CoA ester, which then be subject to CoA-dependent thiolysis to yield acetyl-CoA and 6-C8-SPC-CoA. The major laundry surfactant in worldwide use is commercial linear alkylbenzenesulfonate (LAS) which contains 20 congeners of linear alkanes (C10 to C13). LAS is fully biodegradable in oxic environments. Degradation involves microbial communities. Parvibaculum lavamentivorans DS-1T is a representative member of many heterotrophic, LAS-degrading communities, in which it catalyzes the first steps of LAS degradation. Strain DS-1T is a small heterotrophic bacterium able to omega-oxygenate the comm
Probab=67.97 E-value=24 Score=26.96 Aligned_cols=71 Identities=11% Similarity=-0.004 Sum_probs=47.0
Q ss_pred HHHHHHHHhcCCcEEEEEeecC-cchhhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHhCCCceEEEec
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEED-NGLFKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~-~~~~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~~~~~~iil~~ 137 (149)
..+.+.++.+|.+++.++++.. ......+.+.+.+++.|+.+... .+. + ++..+.+...+..+.+.||-.+
T Consensus 13 ~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiG 89 (370)
T cd08192 13 KELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAALFDEVPPNPTEAAVEAGLAAYRAGGCDGVIAFG 89 (370)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 3566778888999999988753 22223555666555566665432 232 2 3567778888889999998765
No 199
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=67.91 E-value=7 Score=26.47 Aligned_cols=30 Identities=20% Similarity=0.495 Sum_probs=26.2
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
+.|+||.++.=+.....++..+++++++.+
T Consensus 2 I~i~G~pGsGKst~a~~La~~~~~~~i~~~ 31 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKKYGLPHISTG 31 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCeEEECc
Confidence 578999998888888899999999999864
No 200
>PLN02200 adenylate kinase family protein
Probab=67.79 E-value=6.8 Score=28.02 Aligned_cols=31 Identities=16% Similarity=0.359 Sum_probs=27.8
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
+..|+||+++.=+.....++..+++++|+.+
T Consensus 45 ii~I~G~PGSGKsT~a~~La~~~g~~his~g 75 (234)
T PLN02200 45 ITFVLGGPGSGKGTQCEKIVETFGFKHLSAG 75 (234)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCeEEEcc
Confidence 6789999998888888889999999999976
No 201
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=67.48 E-value=21 Score=27.71 Aligned_cols=72 Identities=7% Similarity=0.009 Sum_probs=47.8
Q ss_pred HHHHHHHHhcCCcEEEEEeecC-cchhhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHhCCCceEEEecC
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEED-NGLFKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~-~~~~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
..+.+.++.+|++++.++.+.. .....++.+.+.+++.|+.+.+. .+. + ++..+.++..++.+++.||-.+-
T Consensus 38 ~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~IiavGG 115 (395)
T PRK15454 38 SSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIAFGG 115 (395)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 4466778889999888876643 22233455666665667765443 232 2 34678888899999999998773
No 202
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=67.18 E-value=25 Score=27.05 Aligned_cols=71 Identities=13% Similarity=0.062 Sum_probs=45.5
Q ss_pred HHHHHHHHhcCCcEEEEEeecCcc-hhhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHhCCCceEEEec
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEEDNG-LFKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~~~-~~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~~~~~~iil~~ 137 (149)
..+.+.++.+|.+++.++.+..-. ....+.+...+++.|+.+.+. .+. + ++..+.+..+++.+++.||-.+
T Consensus 19 ~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiG 95 (382)
T PRK10624 19 GALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIG 95 (382)
T ss_pred HHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 456778888899999998875321 123444444444456655432 232 2 3466778888899999988665
No 203
>COG3172 NadR Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]
Probab=67.08 E-value=6.1 Score=26.94 Aligned_cols=28 Identities=11% Similarity=0.183 Sum_probs=25.6
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCc
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPH 40 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~ 40 (149)
++++|+||.+|.-+.-+..+++.++-|.
T Consensus 9 K~VailG~ESsGKStLv~kLA~~fnt~~ 36 (187)
T COG3172 9 KTVAILGGESSGKSTLVNKLANIFNTTS 36 (187)
T ss_pred eeeeeecCcccChHHHHHHHHHHhCCCc
Confidence 5899999999999999999999999884
No 204
>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=66.84 E-value=43 Score=23.75 Aligned_cols=98 Identities=17% Similarity=0.195 Sum_probs=52.9
Q ss_pred HHhhCCcEEEE-cCCCCC-cHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhc--CCcEEEE
Q psy18065 8 RQLQNGVQALF-GPSDAL-LGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFL--NWTKVAI 83 (149)
Q Consensus 8 ~~~~~~v~aii-Gp~~s~-~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~--~W~~v~v 83 (149)
.+.+.++.++| .|.... ....+..+ .. ++|.+..+..... ...+ -.+.......+...++.+... +=.++++
T Consensus 50 ~l~~~~vDgiIi~~~~~~~~~~~l~~~-~~-~ipvV~~~~~~~~-~~~~-~~V~~D~~~~g~~a~~~l~~~~~~g~~~~~ 125 (271)
T cd06314 50 DLIAEGVDGIAISPIDPKAVIPALNKA-AA-GIKLITTDSDAPD-SGRY-VYIGTDNYAAGRTAGEIMKKALPGGGKVAI 125 (271)
T ss_pred HHHhcCCCEEEEecCChhHhHHHHHHH-hc-CCCEEEecCCCCc-ccee-EEEccChHHHHHHHHHHHHHHcCCCCEEEE
Confidence 34456677665 343322 23444554 45 9999998643221 1111 224455555667777766442 2345655
Q ss_pred Eeec-C--cchhhHHHHHhCCCCCCceEE
Q psy18065 84 VYEE-D--NGLFKLQELVKTPPTLKTEMY 109 (149)
Q Consensus 84 i~~~-~--~~~~~l~~l~~~~~~~~~~v~ 109 (149)
+... . ....+.+.+.+.+++.|+.+.
T Consensus 126 ~~~~~~~~~~~~R~~gf~~~~~~~~~~~~ 154 (271)
T cd06314 126 FVGSLGADNAKERIQGIKDAIKDSKIEIV 154 (271)
T ss_pred EecCCCCCCHHHHHHHHHHHHhcCCcEEE
Confidence 5543 2 245677777777766776543
No 205
>PRK02496 adk adenylate kinase; Provisional
Probab=66.80 E-value=7.4 Score=26.32 Aligned_cols=30 Identities=27% Similarity=0.535 Sum_probs=26.6
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
..|+||.++.=+.....++..++.|+++.+
T Consensus 4 i~i~G~pGsGKst~a~~la~~~~~~~i~~~ 33 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEHLHIPHISTG 33 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEEhH
Confidence 678999999888888889999999999875
No 206
>PLN02459 probable adenylate kinase
Probab=66.77 E-value=7.4 Score=28.48 Aligned_cols=31 Identities=19% Similarity=0.307 Sum_probs=27.1
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
...++||.++.=+.....++..+++++|+.+
T Consensus 31 ~ii~~G~PGsGK~T~a~~la~~~~~~~is~g 61 (261)
T PLN02459 31 NWVFLGCPGVGKGTYASRLSKLLGVPHIATG 61 (261)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEEeCc
Confidence 3677899998888888999999999999975
No 207
>PRK13808 adenylate kinase; Provisional
Probab=66.72 E-value=6.8 Score=29.71 Aligned_cols=30 Identities=20% Similarity=0.391 Sum_probs=26.5
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
+.|+||.++.=+..-..++..|++++|+.+
T Consensus 3 Iiv~GpPGSGK~T~a~~LA~~ygl~~is~g 32 (333)
T PRK13808 3 LILLGPPGAGKGTQAQRLVQQYGIVQLSTG 32 (333)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence 578999999888888889999999999964
No 208
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=66.48 E-value=37 Score=26.23 Aligned_cols=61 Identities=11% Similarity=0.174 Sum_probs=37.9
Q ss_pred CCcEEEEEeecCcch--hhHHHHHhCCC--CCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCc
Q psy18065 77 NWTKVAIVYEEDNGL--FKLQELVKTPP--TLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 77 ~W~~v~vi~~~~~~~--~~l~~l~~~~~--~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
.=+++.|+|...+|. ...+.+.+.++ ..|+.+.+.++...+..+++..+.+. +.|++-++.
T Consensus 246 ~~~kv~IvY~S~~GnTe~mA~~ia~g~~~~~~g~~v~~~~~~~~~~~~i~~~~~~~--d~ii~GspT 310 (394)
T PRK11921 246 QENQVTILYDTMWNSTRRMAEAIAEGIKKANKDVTVKLYNSAKSDKNDIITEVFKS--KAILVGSST 310 (394)
T ss_pred CcCcEEEEEECCchHHHHHHHHHHHHHhhcCCCCeEEEEECCCCCHHHHHHHHHhC--CEEEEECCC
Confidence 346799999987663 44555655555 55677666565545566666666654 466665544
No 209
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=66.26 E-value=24 Score=27.20 Aligned_cols=71 Identities=13% Similarity=0.075 Sum_probs=47.0
Q ss_pred HHHHHHHHhcCCcEEEEEeecC-cchhhHHHHHhCCCCCCceEEE-EecC--C--CchHHHHHHHHhCCCceEEEec
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEED-NGLFKLQELVKTPPTLKTEMYI-RHAN--P--STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~-~~~~~l~~l~~~~~~~~~~v~~-~~~~--~--~d~~~~l~~i~~~~~~~iil~~ 137 (149)
..+.+.++.+|.+++.++++.. .....++.+.+.+++.|+.+.. ..+. + ++..+....+++.+++.||-.+
T Consensus 20 ~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~np~~~~v~~~~~~~~~~~~D~IiaiG 96 (383)
T PRK09860 20 TDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPNPTTENVAAGLKLLKENNCDSVISLG 96 (383)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 4466788889999999998753 2222344555555556665433 2332 2 3567888889999999999765
No 210
>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=66.11 E-value=38 Score=22.89 Aligned_cols=75 Identities=15% Similarity=0.146 Sum_probs=43.2
Q ss_pred EEEecCChhHHHHHHHHHHHhcCCcEEEEEeecC--cchhhHHHHHhCCCCCCceEEEEecCC-CchHHHHHHHHhCCCc
Q psy18065 55 SVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEED--NGLFKLQELVKTPPTLKTEMYIRHANP-STYRNVLREIRQKEIF 131 (149)
Q Consensus 55 ~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~--~~~~~l~~l~~~~~~~~~~v~~~~~~~-~d~~~~l~~i~~~~~~ 131 (149)
.+.+.++..+...++.... .++ ++++++...+ .+...+.+++. +.+....+.. +|+...++++++.+.+
T Consensus 56 VV~I~~s~~Dil~al~~a~-~~~-~~Iavv~~~~~~~~~~~~~~ll~------~~i~~~~~~~~~e~~~~i~~~~~~G~~ 127 (176)
T PF06506_consen 56 VVEIPISGFDILRALAKAK-KYG-PKIAVVGYPNIIPGLESIEELLG------VDIKIYPYDSEEEIEAAIKQAKAEGVD 127 (176)
T ss_dssp EEEE---HHHHHHHHHHCC-CCT-SEEEEEEESS-SCCHHHHHHHHT-------EEEEEEESSHHHHHHHHHHHHHTT--
T ss_pred EEEECCCHhHHHHHHHHHH-hcC-CcEEEEecccccHHHHHHHHHhC------CceEEEEECCHHHHHHHHHHHHHcCCc
Confidence 4555555555555555533 333 7899876543 45566666553 3555545543 6889999999999877
Q ss_pred eEEEec
Q psy18065 132 NLIIDT 137 (149)
Q Consensus 132 ~iil~~ 137 (149)
+||=..
T Consensus 128 viVGg~ 133 (176)
T PF06506_consen 128 VIVGGG 133 (176)
T ss_dssp EEEESH
T ss_pred EEECCH
Confidence 776543
No 211
>PRK14529 adenylate kinase; Provisional
Probab=65.78 E-value=6.9 Score=27.88 Aligned_cols=30 Identities=27% Similarity=0.445 Sum_probs=26.4
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
..++||.++.=+.....++..+++|+++.+
T Consensus 3 I~l~G~PGsGK~T~a~~La~~~~~~~is~g 32 (223)
T PRK14529 3 ILIFGPNGSGKGTQGALVKKKYDLAHIESG 32 (223)
T ss_pred EEEECCCCCCHHHHHHHHHHHHCCCCcccc
Confidence 578999999988888999999999999754
No 212
>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=65.67 E-value=45 Score=23.56 Aligned_cols=95 Identities=11% Similarity=-0.035 Sum_probs=55.0
Q ss_pred HHhhCCcEEEEc-CCC-CC---cHHHHHHhhcccCCCceeeccCCCC-CCcccEEEecCChhHHHHHHHHHHHhcCCcEE
Q psy18065 8 RQLQNGVQALFG-PSD-AL---LGPHVQSICEALDVPHMESRLDLEL-NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 8 ~~~~~~v~aiiG-p~~-s~---~~~~v~~~~~~~~iP~is~~~~~~~-~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v 81 (149)
.+...++.++|= |.. .. ....+.. +...++|++..+..... ...+ .+...+...+...++.+...|-+++
T Consensus 50 ~l~~~~vdgiIi~~~~~~~~~~~~~~i~~-~~~~~ipvV~i~~~~~~~~~~~---~V~~d~~~~~~~~~~~l~~~g~~~i 125 (273)
T cd06292 50 DLLARGVRGVVFISSLHADTHADHSHYER-LAERGLPVVLVNGRAPPPLKVP---HVSTDDALAMRLAVRHLVALGHRRI 125 (273)
T ss_pred HHHHcCCCEEEEeCCCCCcccchhHHHHH-HHhCCCCEEEEcCCCCCCCCCC---EEEECcHHHHHHHHHHHHHCCCceE
Confidence 344556666553 222 11 1122333 45679999998753321 2222 3555666677777787777799999
Q ss_pred EEEeec-C--cchhhHHHHHhCCCCCCc
Q psy18065 82 AIVYEE-D--NGLFKLQELVKTPPTLKT 106 (149)
Q Consensus 82 ~vi~~~-~--~~~~~l~~l~~~~~~~~~ 106 (149)
+++... + ....+.+.+.+.++++++
T Consensus 126 ~~i~~~~~~~~~~~R~~gf~~~~~~~~~ 153 (273)
T cd06292 126 GFASGPGRTVPRRRKIAGFRAALEEAGL 153 (273)
T ss_pred EEEeCCcccccHHHHHHHHHHHHHHcCC
Confidence 998643 2 234566777766555553
No 213
>TIGR00035 asp_race aspartate racemase.
Probab=65.33 E-value=37 Score=24.06 Aligned_cols=121 Identities=8% Similarity=0.112 Sum_probs=60.1
Q ss_pred hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeecc-C---CCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEee
Q psy18065 11 QNGVQALFGPSDALLGPHVQSICEALDVPHMESRL-D---LELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYE 86 (149)
Q Consensus 11 ~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~-~---~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~ 86 (149)
+.|+.+++=+-++.... +..+....++|+++... . .......-.-=+..+.+..+...-+.+..+| +.++..
T Consensus 73 ~~g~d~iviaCNTah~~-~~~l~~~~~iPii~i~~~~~~~~~~~~~~~VgvLaT~~T~~s~~y~~~l~~~g---~~v~~p 148 (229)
T TIGR00035 73 NAGADFIIMPCNTAHKF-AEDIQKAIGIPLISMIEETAEAVKEDGVKKAGLLGTKGTMKDGVYEREMKKHG---IEIVTP 148 (229)
T ss_pred HcCCCEEEECCccHHHH-HHHHHHhCCCCEechHHHHHHHHHHcCCCEEEEEecHHHHHhHHHHHHHHHCC---CEEECC
Confidence 46777777666554433 55666667888887431 1 1111112112222333444555566666666 233333
Q ss_pred cCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCc
Q psy18065 87 EDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 87 ~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
++.....++......-+.|.. ......+++.++.+.+.+++.||+-|..
T Consensus 149 ~~~~~~~i~~~i~~~~~~g~~----~~~~~~l~~~~~~l~~~gad~iILgCTe 197 (229)
T TIGR00035 149 DKEEQEAIMSGIYDEVKAGNI----ELGRELLLKIAKELEERGAEGIILGCTE 197 (229)
T ss_pred CHHHHHHHHHHHHHHHhcCCc----HHHHHHHHHHHHHHHhCCCCEEEEeCcc
Confidence 222222222222110011210 1111346777888888899999998864
No 214
>PLN02165 adenylate isopentenyltransferase
Probab=65.11 E-value=5.1 Score=30.41 Aligned_cols=40 Identities=10% Similarity=0.137 Sum_probs=30.5
Q ss_pred HHHHHHhhCCcEEEEcCCCCCcHHHHHHhhcccCCCceee
Q psy18065 4 ATMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMES 43 (149)
Q Consensus 4 ~~~c~~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~ 43 (149)
..+|......+.+|+||+.+.=|.....++..++-+.|+.
T Consensus 35 ~~~~~~~~g~iivIiGPTGSGKStLA~~LA~~l~~eIIsa 74 (334)
T PLN02165 35 VAMEQNCKDKVVVIMGATGSGKSRLSVDLATRFPSEIINS 74 (334)
T ss_pred cccccCCCCCEEEEECCCCCcHHHHHHHHHHHcCCceecC
Confidence 4467655566999999999777777777888888776664
No 215
>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=64.94 E-value=17 Score=25.74 Aligned_cols=18 Identities=6% Similarity=0.146 Sum_probs=8.8
Q ss_pred HHHHHHHHhCCCceEEEe
Q psy18065 119 RNVLREIRQKEIFNLIID 136 (149)
Q Consensus 119 ~~~l~~i~~~~~~~iil~ 136 (149)
.+.+..+++.+.-+|.++
T Consensus 71 ~~~~~~l~~~~iPvv~~~ 88 (272)
T cd06301 71 APIVKAANAAGIPLVYVN 88 (272)
T ss_pred HHHHHHHHHCCCeEEEec
Confidence 345555555554444443
No 216
>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=64.87 E-value=30 Score=27.02 Aligned_cols=71 Identities=8% Similarity=0.162 Sum_probs=46.7
Q ss_pred HHHHHHHHhcCCcEEEEEeecC-cchhhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHhCCCceEEEec
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEED-NGLFKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~-~~~~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~~~~~~iil~~ 137 (149)
..+.+.++.++.+++.++++.. .....++.+.+.++..|+.+.+. .+. + ++..+.++..++.+.+.||-.+
T Consensus 12 ~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiG 88 (414)
T cd08190 12 AEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAVG 88 (414)
T ss_pred HHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 4456778889999999998764 22223455555555566665432 232 2 3466777888889999998876
No 217
>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=64.37 E-value=50 Score=23.64 Aligned_cols=99 Identities=10% Similarity=-0.013 Sum_probs=55.0
Q ss_pred HhhCCcEEEEcCCCCC-cHHHHHHhhcccCCCceee-cc-CCC-CC-CcccEEEecCChhHHHHHHHHHHHh--cCCcEE
Q psy18065 9 QLQNGVQALFGPSDAL-LGPHVQSICEALDVPHMES-RL-DLE-LN-SKEFSVNLYPSQKLLNAAFKDVIRF--LNWTKV 81 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s~-~~~~v~~~~~~~~iP~is~-~~-~~~-~~-~~~~~~~~~p~~~~~~~ai~~ll~~--~~W~~v 81 (149)
+++.++.++|=...+. ....+..+. ..++|.+.. .. .+. .. .....-.+.+....-+..+++.+.. .|.+++
T Consensus 56 l~~~~vDgiIv~~~~~~~~~~~~~l~-~~~~p~V~i~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~~~g~~~i 134 (280)
T cd06303 56 ALQSKPDYLIFTLDSLRHRKLIERVL-ASGKTKIILQNITTPVKAWLKHQPLLYVGFDHAAGARLLADYFIKRYPNHARY 134 (280)
T ss_pred HHHcCCCEEEEcCCchhhHHHHHHHH-hCCCCeEEEeCCCCCccccccCCCceEeCCCHHHHHHHHHHHHHHhcCCCcEE
Confidence 4456777776543322 233444433 456777665 22 111 00 0112234566666677777786655 799999
Q ss_pred EEEeec-C-cchhhHHHHHhCCCCC-CceE
Q psy18065 82 AIVYEE-D-NGLFKLQELVKTPPTL-KTEM 108 (149)
Q Consensus 82 ~vi~~~-~-~~~~~l~~l~~~~~~~-~~~v 108 (149)
+++... . ....+.+.+.+.++++ ++.+
T Consensus 135 ~~l~~~~~~~~~~R~~gf~~al~~~~~~~~ 164 (280)
T cd06303 135 AMLYFSPGYISTARGDTFIDCVHARNNWTL 164 (280)
T ss_pred EEEECCCCcchhHHHHHHHHHHHhCCCceE
Confidence 999653 2 2345667777766555 5543
No 218
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=64.17 E-value=62 Score=24.66 Aligned_cols=83 Identities=17% Similarity=0.185 Sum_probs=47.5
Q ss_pred ccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEE---ecCC----CchHHHHHHH
Q psy18065 53 EFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIR---HANP----STYRNVLREI 125 (149)
Q Consensus 53 ~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~---~~~~----~d~~~~l~~i 125 (149)
++-+...+. ....+-+.++.++++++.++++..-.....+.+.+.++..|+.+... ...+ ++..+.+..+
T Consensus 9 ~~~v~~G~g---~~~~l~~~l~~~~~~~~livtd~~~~~~~~~~v~~~L~~~gi~~~~~~~~~~e~~~~~~~v~~~~~~~ 85 (358)
T PRK00002 9 SYPIIIGKG---LLSELGELLAPLKGKKVAIVTDETVAPLYLEKLRASLEAAGFEVDVVVLPDGEQYKSLETLEKIYDAL 85 (358)
T ss_pred CCcEEEeCC---hHHHHHHHHHhcCCCeEEEEECCchHHHHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHH
Confidence 444555554 22345666777788999999976432234455555555556544322 2211 3456667777
Q ss_pred HhCCC---ceEEEecC
Q psy18065 126 RQKEI---FNLIIDTS 138 (149)
Q Consensus 126 ~~~~~---~~iil~~~ 138 (149)
++.+. +.||-.+-
T Consensus 86 ~~~~~~r~d~IIavGG 101 (358)
T PRK00002 86 LEAGLDRSDTLIALGG 101 (358)
T ss_pred HHcCCCCCCEEEEEcC
Confidence 77654 67776653
No 219
>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=64.03 E-value=49 Score=23.45 Aligned_cols=71 Identities=8% Similarity=-0.045 Sum_probs=44.6
Q ss_pred hhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeecC--------cchhhHHHHHhCCCC
Q psy18065 32 ICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEED--------NGLFKLQELVKTPPT 103 (149)
Q Consensus 32 ~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~--------~~~~~l~~l~~~~~~ 103 (149)
.....++|++...........+ .+...+...+..+++.+...|-++++++.... ....+.+.+.+...+
T Consensus 69 ~~~~~~~pvV~~~~~~~~~~~~---~v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~R~~gf~~~~~~ 145 (270)
T cd01544 69 KLAKLNPNLVFVDSNPAPDGFD---SVVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIEDPRETAFREYMKE 145 (270)
T ss_pred HHHhhCCCEEEECCCCCCCCCC---EEEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhhhHHHHHHHHHHHH
Confidence 3456689999876533222222 35556666777778877777999999997642 123455666665555
Q ss_pred CC
Q psy18065 104 LK 105 (149)
Q Consensus 104 ~~ 105 (149)
+|
T Consensus 146 ~~ 147 (270)
T cd01544 146 KG 147 (270)
T ss_pred cC
Confidence 44
No 220
>cd06316 PBP1_ABC_sugar_binding_like_7 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=63.91 E-value=52 Score=23.70 Aligned_cols=95 Identities=11% Similarity=0.012 Sum_probs=52.6
Q ss_pred HHhhCCcEEEE-cCCCCCcHHHHHHhhcccCCCceeeccCCC--CCCcccEEEecCChhHHHHHHHHHHHhc--CCcEEE
Q psy18065 8 RQLQNGVQALF-GPSDALLGPHVQSICEALDVPHMESRLDLE--LNSKEFSVNLYPSQKLLNAAFKDVIRFL--NWTKVA 82 (149)
Q Consensus 8 ~~~~~~v~aii-Gp~~s~~~~~v~~~~~~~~iP~is~~~~~~--~~~~~~~~~~~p~~~~~~~ai~~ll~~~--~W~~v~ 82 (149)
.++..++.++| .|.........-..+...++|++.+..... .....+...+.+....-+...++.+... |=++++
T Consensus 51 ~~~~~~~dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~~~~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~ 130 (294)
T cd06316 51 TTISQKPDIIISIPVDPVSTAAAYKKVAEAGIKLVFMDNVPSGLEHGKDYAGIVTDDNYGNGQIAADALAKALPGKGKVG 130 (294)
T ss_pred HHHHhCCCEEEEcCCCchhhhHHHHHHHHcCCcEEEecCCCcccccCcceEEEEccCcHHHHHHHHHHHHHHhCCCceEE
Confidence 34455666554 343332222333445668999998764321 1111233345566666677777877554 778999
Q ss_pred EEeec-Cc--chhhHHHHHhCCC
Q psy18065 83 IVYEE-DN--GLFKLQELVKTPP 102 (149)
Q Consensus 83 vi~~~-~~--~~~~l~~l~~~~~ 102 (149)
++..+ +. ...+.+.+.+.++
T Consensus 131 ~l~~~~~~~~~~~R~~gf~~~l~ 153 (294)
T cd06316 131 LIYHGADYFVTNQRDQGFKETIK 153 (294)
T ss_pred EEeCCCCcccHHHHHHHHHHHHH
Confidence 98653 32 3455565655544
No 221
>KOG0780|consensus
Probab=63.83 E-value=51 Score=25.95 Aligned_cols=69 Identities=13% Similarity=0.158 Sum_probs=37.0
Q ss_pred HHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCch----HHHHHHHHhCCCceEEEecCc
Q psy18065 69 FKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTY----RNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 69 i~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~----~~~l~~i~~~~~~~iil~~~~ 139 (149)
++.+.+.-||+ +++++.|.+.-.....+...+.+.++.+.- .++..|. .+-+++.|+.+.++||+|.+.
T Consensus 121 lA~y~kkkG~K-~~LvcaDTFRagAfDQLkqnA~k~~iP~yg-syte~dpv~ia~egv~~fKke~fdvIIvDTSG 193 (483)
T KOG0780|consen 121 LAYYYKKKGYK-VALVCADTFRAGAFDQLKQNATKARVPFYG-SYTEADPVKIASEGVDRFKKENFDVIIVDTSG 193 (483)
T ss_pred HHHHHHhcCCc-eeEEeecccccchHHHHHHHhHhhCCeeEe-cccccchHHHHHHHHHHHHhcCCcEEEEeCCC
Confidence 44555666775 455665554333444455545455555543 2222222 333566677777777777764
No 222
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=63.69 E-value=37 Score=21.93 Aligned_cols=87 Identities=10% Similarity=0.093 Sum_probs=45.1
Q ss_pred hhHHHHHHHHHHHhcCCcE----EEEEeecCcchhhHHHHHhCCCCCCceEEEEecCC-CchHHHHHHHHhCCCceEEEe
Q psy18065 62 QKLLNAAFKDVIRFLNWTK----VAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANP-STYRNVLREIRQKEIFNLIID 136 (149)
Q Consensus 62 ~~~~~~ai~~ll~~~~W~~----v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~-~d~~~~l~~i~~~~~~~iil~ 136 (149)
.+.+..++....+.+.+.. ..++..|........+..+.+++.++.+....+.. .+..+.|+++-+.+-..++-.
T Consensus 79 ~t~~~~al~~a~~~~~~~~~~~~~iv~iTDG~~~~~~~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~~tgG~~~~~ 158 (172)
T PF13519_consen 79 GTNLYDALQEAAKMLASSDNRRRAIVLITDGEDNSSDIEAAKALKQQGITIYTVGIGSDSDANEFLQRLAEATGGRYFHV 158 (172)
T ss_dssp S--HHHHHHHHHHHHHC-SSEEEEEEEEES-TTHCHHHHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHHHTEEEEEEE
T ss_pred CCcHHHHHHHHHHHHHhCCCCceEEEEecCCCCCcchhHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHHhcCCEEEEe
Confidence 3456677777777766542 33444443222222233334446677776666654 333577887765432333333
Q ss_pred -cCchhHHHHHhh
Q psy18065 137 -TSTTHISQFFRA 148 (149)
Q Consensus 137 -~~~~~~~~il~q 148 (149)
.+.+.+..+|+|
T Consensus 159 ~~~~~~l~~~~~~ 171 (172)
T PF13519_consen 159 DNDPEDLDDAFQQ 171 (172)
T ss_dssp -SSSHHHHHHHHH
T ss_pred cCCHHHHHHHHhc
Confidence 466778888876
No 223
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=63.07 E-value=67 Score=24.64 Aligned_cols=80 Identities=16% Similarity=0.074 Sum_probs=49.8
Q ss_pred EEEecCChhHHHHHHHHHHHhcCCcEEEEEeecC-cchhhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHhC
Q psy18065 55 SVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEED-NGLFKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQK 128 (149)
Q Consensus 55 ~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~-~~~~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~~ 128 (149)
-+...+. ....+-+.++.+|-+++.++++.. .....++.+.+.++..|+.+... .+. + ++..+....++..
T Consensus 6 ~i~~G~g---~l~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~ 82 (374)
T cd08189 6 KLFVGSG---SLAQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPDPTIENVEAGLALYREN 82 (374)
T ss_pred eEEECcC---HHHHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCCcCHHHHHHHHHHHHhc
Confidence 3444444 234566777888888999888753 22223455555555556655432 332 2 3467888888899
Q ss_pred CCceEEEec
Q psy18065 129 EIFNLIIDT 137 (149)
Q Consensus 129 ~~~~iil~~ 137 (149)
+++.||-.+
T Consensus 83 ~~d~IIaiG 91 (374)
T cd08189 83 GCDAILAVG 91 (374)
T ss_pred CCCEEEEeC
Confidence 999999765
No 224
>PRK05632 phosphate acetyltransferase; Reviewed
Probab=62.08 E-value=41 Score=28.23 Aligned_cols=134 Identities=7% Similarity=0.085 Sum_probs=72.1
Q ss_pred CcEEEEcCCCCCcHHHHHHhh---cccCCCceeeccCCC---CCCcccEEEecCChhHHHHHHHHHH-HhcCCcEEE-EE
Q psy18065 13 GVQALFGPSDALLGPHVQSIC---EALDVPHMESRLDLE---LNSKEFSVNLYPSQKLLNAAFKDVI-RFLNWTKVA-IV 84 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~---~~~~iP~is~~~~~~---~~~~~~~~~~~p~~~~~~~ai~~ll-~~~~W~~v~-vi 84 (149)
++.++|=..+...+..+..++ ...++|.|+...+.- ..-..+.-+..|.+..-...+.+++ +|.+|.|+. .+
T Consensus 271 ~~a~lIlTgg~~~~~~v~~l~~~a~~~~ipVl~t~~dT~~ta~~i~~~~~~i~~~d~~ki~~~~~~~~~~vD~~~l~~~l 350 (684)
T PRK05632 271 PIAGLLLTGGYEPDPRIAKLCEGAFETGLPVLSVDTNTYQTALRLQSFNGEVPVDDHERIETVLELVASHVDTDELLERL 350 (684)
T ss_pred CceEEEEcCCCCCCHHHHHHHhhcccCCCCEEEecCCHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhCCHHHHHHHh
Confidence 455555555555556677667 446899998765321 1111334566777766666677765 566774322 12
Q ss_pred ee---cC---cchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCchhHHHHH
Q psy18065 85 YE---ED---NGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTSTTHISQFF 146 (149)
Q Consensus 85 ~~---~~---~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il 146 (149)
.. .. .-....+.+.+..+...-.+.+.+-.....-.......+.+.-.+|+.++.+....++
T Consensus 351 ~~~~~~~~~~~p~~~~~~l~~~a~~~~~~i~~~e~~d~~~l~Aa~~~~~~g~~~~iLvG~~~~I~~~~ 418 (684)
T PRK05632 351 TATSERSRRLSPPAFRYQLTERARAAKKRIVLPEGDEPRTLKAAAICLERGIADCVLLGNPEEIRRVA 418 (684)
T ss_pred ccCCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCCCHHHHHHHHHHHHcCCceEEEECCHHHHHHHH
Confidence 11 11 1223445566555444334554433222333444556677766777778776655544
No 225
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=62.06 E-value=55 Score=23.36 Aligned_cols=99 Identities=12% Similarity=0.110 Sum_probs=54.1
Q ss_pred HhhCCcEEEEc-CCCCCcHHHHHHhhcccCCCceeeccCCCC-C--CcccEEEecCChhHHHHHHHHHH----HhcCC--
Q psy18065 9 QLQNGVQALFG-PSDALLGPHVQSICEALDVPHMESRLDLEL-N--SKEFSVNLYPSQKLLNAAFKDVI----RFLNW-- 78 (149)
Q Consensus 9 ~~~~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~~~~~~-~--~~~~~~~~~p~~~~~~~ai~~ll----~~~~W-- 78 (149)
++..++.++|= +..+.....+-..+...++|+|........ + .....-.+.......+....+++ ..-||
T Consensus 50 ~~~~~~dgiii~~~~~~~~~~~~~~~~~~~iPvV~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~~~~g~~~ 129 (289)
T cd01540 50 LGAQGAKGFVICVPDVKLGPAIVAKAKAYNMKVVAVDDRLVDADGKPMEDVPHVGMSATKIGEQVGEAIADEMKKRGWDP 129 (289)
T ss_pred HHHcCCCEEEEccCchhhhHHHHHHHHhCCCeEEEecCCCcccCCCccccceEecCCHHHHHHHHHHHHHHHHHhhcCCC
Confidence 44556766654 333333344445577899999997632211 1 01112234555555555554433 34688
Q ss_pred cEEEEEee--cC--cchhhHHHHHhCCCCCCce
Q psy18065 79 TKVAIVYE--ED--NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 79 ~~v~vi~~--~~--~~~~~l~~l~~~~~~~~~~ 107 (149)
++++++.. .+ ....+.+.+.+.+++.|+.
T Consensus 130 ~~i~~i~~~~~~~~~~~~R~~G~~~~l~~~~~~ 162 (289)
T cd01540 130 KEVGALRITYDELDTAKPRTDGALEALKAPGFP 162 (289)
T ss_pred cceEEEEecCCCCcchhhHHHHHHHHHhcCCCC
Confidence 78888752 22 3456777777776665543
No 226
>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=61.82 E-value=49 Score=23.45 Aligned_cols=70 Identities=4% Similarity=-0.064 Sum_probs=31.8
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEec
Q psy18065 63 KLLNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 63 ~~~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~ 137 (149)
.....++-+.++.+||+=..+..+++ -...+.+.+...+-.|+-+ ...+ .-...++++++.+..+|.++.
T Consensus 26 ~~~~~gi~~~~~~~g~~~~v~~~~~~-~~~~~~~~l~~~~~dgiii--~~~~--~~~~~~~~~~~~~ipvV~~~~ 95 (275)
T cd06295 26 LSLLGGIADALAERGYDLLLSFVSSP-DRDWLARYLASGRADGVIL--IGQH--DQDPLPERLAETGLPFVVWGR 95 (275)
T ss_pred HHHHHHHHHHHHHcCCEEEEEeCCch-hHHHHHHHHHhCCCCEEEE--eCCC--CChHHHHHHHhCCCCEEEECC
Confidence 34556677777788887443322222 1122222222211222221 1111 113457777777766665543
No 227
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=61.04 E-value=39 Score=21.24 Aligned_cols=23 Identities=0% Similarity=-0.247 Sum_probs=12.4
Q ss_pred CchHHHHHHHHhCCCceEEEecC
Q psy18065 116 STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 116 ~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
..+...++...+.++..+++.+.
T Consensus 64 ~sl~kqlk~A~k~g~~~~iiiG~ 86 (121)
T cd00858 64 GSIGRRYARQDEIGTPFCVTVDF 86 (121)
T ss_pred CCHHHHHHHhHhcCCCEEEEECc
Confidence 34555555555555555555553
No 228
>PRK01184 hypothetical protein; Provisional
Probab=61.00 E-value=10 Score=25.56 Aligned_cols=30 Identities=13% Similarity=0.259 Sum_probs=24.9
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
++++.||.++.=+. ++.++..+++|+++.+
T Consensus 3 ~i~l~G~~GsGKsT-~a~~~~~~g~~~i~~~ 32 (184)
T PRK01184 3 IIGVVGMPGSGKGE-FSKIAREMGIPVVVMG 32 (184)
T ss_pred EEEEECCCCCCHHH-HHHHHHHcCCcEEEhh
Confidence 68899999977665 5678999999999975
No 229
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=60.68 E-value=67 Score=23.86 Aligned_cols=94 Identities=6% Similarity=0.003 Sum_probs=51.0
Q ss_pred HhhCCcEEEEcCCCCCcHHHHHHhhcccCCC-ceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 9 QLQNGVQALFGPSDALLGPHVQSICEALDVP-HMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP-~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
+...++.++|--........+..+.. ++| .+...........+ .+...+..-+...++.+...|-++++++...
T Consensus 111 l~~~~vdGiIi~~~~~~~~~~~~~~~--~~p~vV~i~~~~~~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~ 185 (346)
T PRK10401 111 LIRQRCNALIVHSKALSDDELAQFMD--QIPGMVLINRVVPGYAHR---CVCLDNVSGARMATRMLLNNGHQRIGYLSSS 185 (346)
T ss_pred HHhcCCCEEEEeCCCCChHHHHHHHh--cCCCEEEEecccCCCCCC---EEEECcHHHHHHHHHHHHHCCCCeEEEEeCC
Confidence 34556776654322222233444444 355 66655322111112 2444555556666777777799999999653
Q ss_pred -C--cchhhHHHHHhCCCCCCce
Q psy18065 88 -D--NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~~~ 107 (149)
+ ....+.+.+.+.++++|+.
T Consensus 186 ~~~~~~~~R~~Gf~~al~~~gi~ 208 (346)
T PRK10401 186 HGIEDDAMRRAGWMSALKEQGII 208 (346)
T ss_pred CcCcchHHHHHHHHHHHHHcCCC
Confidence 2 2456777777766666654
No 230
>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=60.53 E-value=37 Score=26.06 Aligned_cols=71 Identities=13% Similarity=0.110 Sum_probs=46.4
Q ss_pred HHHHHHHHhcCCcEEEEEeecC-cchhhHHHHHhCCCCCCceEEE-EecC--C--CchHHHHHHHHhCCCceEEEec
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEED-NGLFKLQELVKTPPTLKTEMYI-RHAN--P--STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~-~~~~~l~~l~~~~~~~~~~v~~-~~~~--~--~d~~~~l~~i~~~~~~~iil~~ 137 (149)
..+.++++.++.+++.++.+.. .....++.+...+++.++.+.. ..+. + ++..+..+.+++.+++.||-.+
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiG 91 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEVTVFDDVEADPPEAVVEAAVEAARAAGADGVIGFG 91 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 3456777888999999888753 2222345555555555665543 2232 2 3567788888889999998876
No 231
>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=60.42 E-value=58 Score=23.08 Aligned_cols=93 Identities=13% Similarity=-0.030 Sum_probs=49.9
Q ss_pred CcEEEE-cCCCCCcHHHHHHhhcccCCCceeeccCCC-CCCcccEEEecCChhHHHHHHHHHHH-hcCC--cEEEEEeec
Q psy18065 13 GVQALF-GPSDALLGPHVQSICEALDVPHMESRLDLE-LNSKEFSVNLYPSQKLLNAAFKDVIR-FLNW--TKVAIVYEE 87 (149)
Q Consensus 13 ~v~aii-Gp~~s~~~~~v~~~~~~~~iP~is~~~~~~-~~~~~~~~~~~p~~~~~~~ai~~ll~-~~~W--~~v~vi~~~ 87 (149)
++.+++ .+.........-..+...++|.|.+..... .+. ...+...+...+...++.+. .+|. ++++++...
T Consensus 58 ~vdgiii~~~~~~~~~~~i~~~~~~~ipvV~~~~~~~~~~~---~~~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~ 134 (275)
T cd06307 58 RSDGVALVAPDHPQVRAAVARLAAAGVPVVTLVSDLPGSPR---AGYVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGS 134 (275)
T ss_pred cCCEEEEeCCCcHHHHHHHHHHHHCCCcEEEEeCCCCCCce---eeEEccChHHHHHHHHHHHHHHhCCCCCeEEEEecC
Confidence 666664 343322212222344457999998764321 122 12345555556666667554 4465 589988654
Q ss_pred -C--cchhhHHHHHhCCCCCCceE
Q psy18065 88 -D--NGLFKLQELVKTPPTLKTEM 108 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~~~v 108 (149)
+ ....+.+.+.+.++.++..+
T Consensus 135 ~~~~~~~~R~~gf~~a~~~~~~~~ 158 (275)
T cd06307 135 HRFRGHEEREMGFRSVLREEFPGL 158 (275)
T ss_pred CCCcchHHHHHHHHHHHHhhCCCc
Confidence 2 23456666776665554333
No 232
>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=59.56 E-value=7.3 Score=27.82 Aligned_cols=31 Identities=13% Similarity=0.201 Sum_probs=24.3
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCceee
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHMES 43 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~ 43 (149)
++.+|+||+++.=+...-.++..++.|.|+.
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 4789999999888888888999999999875
No 233
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=59.53 E-value=32 Score=19.86 Aligned_cols=58 Identities=14% Similarity=0.153 Sum_probs=29.4
Q ss_pred EEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCc
Q psy18065 81 VAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 81 v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
+.++..++........+...++..|+.+.+. .....+...++...+.+...+++.+..
T Consensus 4 v~ii~~~~~~~~~a~~~~~~Lr~~g~~v~~d-~~~~~~~~~~~~a~~~g~~~~iiig~~ 61 (91)
T cd00860 4 VVVIPVTDEHLDYAKEVAKKLSDAGIRVEVD-LRNEKLGKKIREAQLQKIPYILVVGDK 61 (91)
T ss_pred EEEEeeCchHHHHHHHHHHHHHHCCCEEEEE-CCCCCHHHHHHHHHHcCCCEEEEECcc
Confidence 4444444322223333333333446655442 223456777777777777766666643
No 234
>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=59.35 E-value=41 Score=25.86 Aligned_cols=72 Identities=10% Similarity=0.035 Sum_probs=45.8
Q ss_pred HHHHHHHHHhcCCcEEEEEeecCcc-hhhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHhCCCceEEEec
Q psy18065 66 NAAFKDVIRFLNWTKVAIVYEEDNG-LFKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 66 ~~ai~~ll~~~~W~~v~vi~~~~~~-~~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~~~~~~iil~~ 137 (149)
...+.+.++.+|.+++.++++..-. ....+.+...++..|+.+... .+. + ++..+....+++.+++.||-.+
T Consensus 17 l~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiaiG 94 (379)
T TIGR02638 17 IEDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPNPTITVVKAGVAAFKASGADYLIAIG 94 (379)
T ss_pred HHHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 3456677888899999999875321 123344555444556655432 232 2 3466778888889999999766
No 235
>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=59.33 E-value=20 Score=27.35 Aligned_cols=71 Identities=10% Similarity=0.091 Sum_probs=47.9
Q ss_pred HHHHHHHHhcCCcEEEEEeecCcc-hhhHHHHHhCCCCCCceEEE-EecCC----CchHHHHHHHHhCCCceEEEecCc
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEEDNG-LFKLQELVKTPPTLKTEMYI-RHANP----STYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~~~-~~~l~~l~~~~~~~~~~v~~-~~~~~----~d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
..+.+.++.+| ++.+|++.... ....+.+...+++.|+.+.. ..+.. ++.++....+++.+++.||-.+-.
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 88 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSKSGLVDRVLDALEEAGIEVQVFDGVGPNPTLEDVDEAAEQARKFGADCIIAIGGG 88 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHHHTHHHHHHHHHHHTTCEEEEEEEESSS-BHHHHHHHHHHHHHTTSSEEEEEESH
T ss_pred HHHHHHHHhcC--CEEEEECchHHhCccHHHHHHHHhhCceEEEEEecCCCCCcHHHHHHHHHHHHhcCCCEEEEcCCC
Confidence 35667777777 88888876322 22455666666556766643 33432 467888999999999999987743
No 236
>PRK14526 adenylate kinase; Provisional
Probab=59.09 E-value=13 Score=26.13 Aligned_cols=30 Identities=17% Similarity=0.347 Sum_probs=25.9
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
..++||.++.=+.....++..+++++++.+
T Consensus 3 i~l~G~pGsGKsT~a~~La~~~~~~~is~G 32 (211)
T PRK14526 3 LVFLGPPGSGKGTIAKILSNELNYYHISTG 32 (211)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCceeecC
Confidence 568999998888888888999999999866
No 237
>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=58.70 E-value=75 Score=23.76 Aligned_cols=70 Identities=13% Similarity=0.122 Sum_probs=42.5
Q ss_pred HHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEe-cC--C--CchHHHHHHHHhCCCceEEEecC
Q psy18065 68 AFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRH-AN--P--STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 68 ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~-~~--~--~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
.+.+.++.++.+++.++++..-.....+.+.+.+++. +.+.... .. + ++..+.+..+++.+.+.||-.+-
T Consensus 13 ~l~~~~~~~g~~~~liv~~~~~~~~~~~~v~~~l~~~-~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGG 87 (332)
T cd07766 13 KIGEEIKRGGFDRALVVSDEGVVKGVGEKVADSLKKL-IAVHIFDGVGPNPTFEEVKEAVERARAAEVDAVIAVGG 87 (332)
T ss_pred HHHHHHHhcCCCeEEEEeCCchhhhHHHHHHHHHHhc-CcEEEeCCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 4556777788999999987532223334444444333 3333322 21 2 35667788888888889887663
No 238
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=58.59 E-value=11 Score=28.75 Aligned_cols=28 Identities=25% Similarity=0.343 Sum_probs=25.4
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCcee
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHME 42 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is 42 (149)
..++||++|.-+.-.+.++..+++|+--
T Consensus 100 ILLiGPTGsGKTlLAqTLAk~LnVPFai 127 (408)
T COG1219 100 ILLIGPTGSGKTLLAQTLAKILNVPFAI 127 (408)
T ss_pred EEEECCCCCcHHHHHHHHHHHhCCCeee
Confidence 6788999999999999999999999854
No 239
>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=57.59 E-value=67 Score=22.89 Aligned_cols=133 Identities=5% Similarity=-0.042 Sum_probs=63.5
Q ss_pred HhhCCcEEEEcCCCCCcHHHHHHhhccc-CCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHh-cCCcEEEEEee
Q psy18065 9 QLQNGVQALFGPSDALLGPHVQSICEAL-DVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRF-LNWTKVAIVYE 86 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s~~~~~v~~~~~~~-~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~-~~W~~v~vi~~ 86 (149)
+.+.++.+||--... ....+......+ ++|++..+..... ... .-+.......-+.....++.. .|-++++++..
T Consensus 53 l~~~~vdgiI~~~~~-~~~~~~~~~~~~~~~PiV~i~~~~~~-~~~-~~~v~~d~~~a~~~a~~ll~~~~G~~~I~~i~~ 129 (265)
T cd06354 53 LADAGYDLIVGVGFL-LADALKEVAKQYPDQKFAIIDAVVDD-PPN-VASIVFKEEEGSFLAGYLAALMTKTGKVGFIGG 129 (265)
T ss_pred HHhCCCCEEEEcCcc-hHHHHHHHHHHCCCCEEEEEecccCC-CCc-EEEEEecchhHHHHHHHHHHhhcCCCeEEEEec
Confidence 445678888753222 223444555555 7999987642211 011 112333333333334455553 38899999975
Q ss_pred cC-cch-hhHHHHHhCCCCCC---ceEEEE---ecCC---CchHHHHHHHHhCCCceEEEecCchhHHHH
Q psy18065 87 ED-NGL-FKLQELVKTPPTLK---TEMYIR---HANP---STYRNVLREIRQKEIFNLIIDTSTTHISQF 145 (149)
Q Consensus 87 ~~-~~~-~~l~~l~~~~~~~~---~~v~~~---~~~~---~d~~~~l~~i~~~~~~~iil~~~~~~~~~i 145 (149)
+. ... .+.+.+.+.+++.| ..+... ..+. .+-.+.+.++.+++++.|+.. +...+..+
T Consensus 130 ~~~~~~~~r~~gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~pdaI~~~-nd~~A~gv 198 (265)
T cd06354 130 MDIPLIRRFEAGFEAGVKYVNPGVPDIEVLVQYAGSFNDPAKGKEIAQAMYDQGADVIFAA-AGGTGNGV 198 (265)
T ss_pred ccChHHHHHHHHHHHHHHHHhccCCCceEEEEEcCcccCHHHHHHHHHHHHHCCCcEEEEC-CCCCchHH
Confidence 42 222 22345555555545 433221 1111 223345566655556654443 33333333
No 240
>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=56.96 E-value=30 Score=24.41 Aligned_cols=68 Identities=13% Similarity=0.139 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHhcCCcEEEEEeecCcch----hhHHHHHhCCCCCCceEE-EEecCCCchHHHHHHHHhCCCceEEEec
Q psy18065 64 LLNAAFKDVIRFLNWTKVAIVYEEDNGL----FKLQELVKTPPTLKTEMY-IRHANPSTYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 64 ~~~~ai~~ll~~~~W~~v~vi~~~~~~~----~~l~~l~~~~~~~~~~v~-~~~~~~~d~~~~l~~i~~~~~~~iil~~ 137 (149)
....++.+-++.+||+-+ + ++..+.. ..++.+... ++.-. +...+.....+.+.++++.+..+|.++.
T Consensus 16 ~~~~gi~~~~~~~g~~~~-~-~~~~~~~~~~~~~l~~~~~~----~vdgii~~~~~~~~~~~~i~~~~~~~ipvV~~~~ 88 (273)
T cd06305 16 AYLAGTKAEAEALGGDLR-V-YDAGGDDAKQADQIDQAIAQ----KVDAIIIQHGRAEVLKPWVKRALDAGIPVVAFDV 88 (273)
T ss_pred HHHHHHHHHHHHcCCEEE-E-ECCCCCHHHHHHHHHHHHHc----CCCEEEEecCChhhhHHHHHHHHHcCCCEEEecC
Confidence 345667777788888633 2 2222221 222233222 33221 1111122245667778877766666654
No 241
>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=56.65 E-value=50 Score=25.32 Aligned_cols=68 Identities=13% Similarity=0.053 Sum_probs=44.0
Q ss_pred HHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecC--C--CchHHHHHHHHhCCCceEEEecC
Q psy18065 68 AFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHAN--P--STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 68 ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~--~--~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
.+-++++.++ +++.++.+..-. ..+.+...++..|+.+....+. + ++..+.+...+..+++.||-.+-
T Consensus 13 ~l~~~l~~~~-~r~livtd~~~~--~~~~v~~~L~~~g~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIaiGG 84 (374)
T cd08183 13 ELPALAAELG-RRVLLVTGASSL--RAAWLIEALRAAGIEVTHVVVAGEPSVELVDAAVAEARNAGCDVVIAIGG 84 (374)
T ss_pred HHHHHHHHcC-CcEEEEECCchH--HHHHHHHHHHHcCCeEEEecCCCCcCHHHHHHHHHHHHhcCCCEEEEecC
Confidence 4556676665 888888875322 4555665555566655433332 2 34677788888889999988773
No 242
>PRK00023 cmk cytidylate kinase; Provisional
Probab=56.43 E-value=11 Score=26.75 Aligned_cols=34 Identities=18% Similarity=0.215 Sum_probs=29.0
Q ss_pred CCcEEEEcCCCCCcHHHHHHhhcccCCCceeecc
Q psy18065 12 NGVQALFGPSDALLGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 12 ~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~ 45 (149)
..+.+|.||.++.-+....-++..+++|++..+.
T Consensus 4 ~~~i~i~g~~gsGksti~~~la~~~~~~~~~~~~ 37 (225)
T PRK00023 4 AIVIAIDGPAGSGKGTVAKILAKKLGFHYLDTGA 37 (225)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHhCCCcccCch
Confidence 4589999999999988888899999999987653
No 243
>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=56.28 E-value=45 Score=24.06 Aligned_cols=58 Identities=22% Similarity=0.197 Sum_probs=33.9
Q ss_pred EEEEEeec---Ccchh--hHHHHHhCCCCCCceEEEEe-c-CCCchHHHHHHHHhCCCceEEEec
Q psy18065 80 KVAIVYEE---DNGLF--KLQELVKTPPTLKTEMYIRH-A-NPSTYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 80 ~v~vi~~~---~~~~~--~l~~l~~~~~~~~~~v~~~~-~-~~~d~~~~l~~i~~~~~~~iil~~ 137 (149)
+|+++++. |.++. ..+.+.+..++.|+.+...+ . +..++.+.+..+-+++.+.||...
T Consensus 1 kva~l~~g~~~D~~~n~~~~~G~~~~~~~~gv~~~~~e~~~~~~~~~~~i~~~~~~g~dlIi~~g 65 (258)
T cd06353 1 KVAFVYVGPIGDQGWNYAHDEGRKAAEKALGVEVTYVENVPEGADAERVLRELAAQGYDLIFGTS 65 (258)
T ss_pred CEEEEEeCCCCccchhHHHHHHHHHHHHhcCCeEEEEecCCchHhHHHHHHHHHHcCCCEEEECc
Confidence 36777763 22332 23444444444566655433 2 235678888888778887777755
No 244
>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=56.12 E-value=37 Score=23.83 Aligned_cols=70 Identities=13% Similarity=0.184 Sum_probs=32.5
Q ss_pred HHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEE-EEecCCCchHHHHHHHHhCCCceEEEec
Q psy18065 65 LNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMY-IRHANPSTYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~-~~~~~~~d~~~~l~~i~~~~~~~iil~~ 137 (149)
...++-+.++.+||+-+ ++..+........+.+.+...++.-. +...+.. ..+.++.+++.+..+|.++.
T Consensus 17 ~~~g~~~~a~~~g~~~~--~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~-~~~~~~~~~~~~ipvV~~~~ 87 (268)
T cd06289 17 LAAGLEEVLEEAGYTVF--LANSGEDVERQEQLLSTMLEHGVAGIILCPAAGT-SPDLLKRLAESGIPVVLVAR 87 (268)
T ss_pred HHHHHHHHHHHcCCeEE--EecCCCChHHHHHHHHHHHHcCCCEEEEeCCCCc-cHHHHHHHHhcCCCEEEEec
Confidence 55667777888898642 23322111111122222222233221 2122222 23467778777766666654
No 245
>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=56.09 E-value=70 Score=22.67 Aligned_cols=90 Identities=9% Similarity=-0.057 Sum_probs=50.4
Q ss_pred hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec---
Q psy18065 11 QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE--- 87 (149)
Q Consensus 11 ~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~--- 87 (149)
..++.++|=-....... ....+...++|++...... ...++ ..+....-+...++.+... .++++++...
T Consensus 53 ~~~vdgvi~~~~~~~~~-~~~~l~~~~iPvv~~~~~~--~~~~~---v~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~ 125 (269)
T cd06297 53 AYLTDGLLLASYDLTER-LAERRLPTERPVVLVDAEN--PRFDS---FYLDNRLGGRLAGAYLADF-PGRIGAITVEEEP 125 (269)
T ss_pred hcCCCEEEEecCccChH-HHHHHhhcCCCEEEEccCC--CCCCE---EEECcHHHHHHHHHHHHHh-CCceEEEeCcccc
Confidence 34455554332222233 3333566799999876532 11222 2355555666666666444 7999988642
Q ss_pred C------cchhhHHHHHhCCCCCCce
Q psy18065 88 D------NGLFKLQELVKTPPTLKTE 107 (149)
Q Consensus 88 ~------~~~~~l~~l~~~~~~~~~~ 107 (149)
. .+..+++.+.+.+++.|+.
T Consensus 126 ~~~~~~~~~~~R~~gf~~~~~~~g~~ 151 (269)
T cd06297 126 DRAFRRTVFAERRAGFQQALKDAGRP 151 (269)
T ss_pred ccccccccHHHHHHHHHHHHHHcCCC
Confidence 1 2446677777776666654
No 246
>PRK11914 diacylglycerol kinase; Reviewed
Probab=55.89 E-value=55 Score=24.22 Aligned_cols=70 Identities=11% Similarity=0.042 Sum_probs=38.2
Q ss_pred cCCcEEEEEeecCc--c--hhhHHHHHhCCCCCCceEEEEecC-CCchHHHHHHHHhCCCceEEEecCchhHHHH
Q psy18065 76 LNWTKVAIVYEEDN--G--LFKLQELVKTPPTLKTEMYIRHAN-PSTYRNVLREIRQKEIFNLIIDTSTTHISQF 145 (149)
Q Consensus 76 ~~W~~v~vi~~~~~--~--~~~l~~l~~~~~~~~~~v~~~~~~-~~d~~~~l~~i~~~~~~~iil~~~~~~~~~i 145 (149)
..-+++.+|+.-.. | ....+++.+.+++.|+.+.+.... ..+...+.++....+.+.||+.+-.-.+..+
T Consensus 6 ~~~~~~~iI~NP~sG~g~~~~~~~~~~~~l~~~g~~~~~~~t~~~~~~~~~a~~~~~~~~d~vvv~GGDGTi~ev 80 (306)
T PRK11914 6 HEIGKVTVLTNPLSGHGAAPHAAERAIARLHHRGVDVVEIVGTDAHDARHLVAAALAKGTDALVVVGGDGVISNA 80 (306)
T ss_pred CCCceEEEEECCCCCCCcHHHHHHHHHHHHHHcCCeEEEEEeCCHHHHHHHHHHHHhcCCCEEEEECCchHHHHH
Confidence 34467788876422 2 234455555555566655432222 2456667766666666777766544434333
No 247
>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=55.82 E-value=79 Score=23.25 Aligned_cols=22 Identities=9% Similarity=0.039 Sum_probs=10.0
Q ss_pred CchHHHHHHHHhCCCceEEEec
Q psy18065 116 STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 116 ~d~~~~l~~i~~~~~~~iil~~ 137 (149)
.+..++..++...+.+.||+.+
T Consensus 39 ~~a~~~a~~~~~~~~d~vv~~G 60 (293)
T TIGR03702 39 GDAQRYVAEALALGVSTVIAGG 60 (293)
T ss_pred CCHHHHHHHHHHcCCCEEEEEc
Confidence 3444555444444444444433
No 248
>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=55.56 E-value=33 Score=19.71 Aligned_cols=42 Identities=12% Similarity=0.182 Sum_probs=27.8
Q ss_pred HHHHHHHhcCCcEEEEEeecC-cchhhHHHHHhCCCCCCceEEE
Q psy18065 68 AFKDVIRFLNWTKVAIVYEED-NGLFKLQELVKTPPTLKTEMYI 110 (149)
Q Consensus 68 ai~~ll~~~~W~~v~vi~~~~-~~~~~l~~l~~~~~~~~~~v~~ 110 (149)
...++++.+ -++|.+.+|+| .|....+.+.+.+...|+.+.+
T Consensus 34 ~~~~~L~~~-~~~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~~ 76 (79)
T cd03364 34 EQAELLKRL-AKEVILAFDGDEAGQKAALRALELLLKLGLNVRV 76 (79)
T ss_pred HHHHHHHhc-CCeEEEEECCCHHHHHHHHHHHHHHHHCCCeEEE
Confidence 345566544 47888889986 4766777777766666665543
No 249
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=55.46 E-value=85 Score=25.31 Aligned_cols=24 Identities=25% Similarity=0.343 Sum_probs=19.9
Q ss_pred CcEEEEcCCCCCcHHHHHHhhccc
Q psy18065 13 GVQALFGPSDALLGPHVQSICEAL 36 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~ 36 (149)
+|.+++||.+..=+..++.++..+
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~~ 280 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAARC 280 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHHH
Confidence 589999999988888888888654
No 250
>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=55.34 E-value=21 Score=23.84 Aligned_cols=58 Identities=22% Similarity=0.222 Sum_probs=29.4
Q ss_pred EEEEEeecCcchhhHHHHHhCCCCCCceEEEEecC----CCchHHHHHHHHhCCCceEEEec
Q psy18065 80 KVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHAN----PSTYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 80 ~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~----~~d~~~~l~~i~~~~~~~iil~~ 137 (149)
+|+++.-+.......++....+++.|+...++-.. ++++.+.+++++..+.++||..+
T Consensus 2 ~V~Ii~gs~SD~~~~~~a~~~L~~~gi~~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~A 63 (150)
T PF00731_consen 2 KVAIIMGSTSDLPIAEEAAKTLEEFGIPYEVRVASAHRTPERLLEFVKEYEARGADVIIAVA 63 (150)
T ss_dssp EEEEEESSGGGHHHHHHHHHHHHHTT-EEEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEE
T ss_pred eEEEEeCCHHHHHHHHHHHHHHHHcCCCEEEEEEeccCCHHHHHHHHHHhccCCCEEEEEEC
Confidence 46666655444455555555444456555443222 13455556666666666666544
No 251
>PRK13337 putative lipid kinase; Reviewed
Probab=55.26 E-value=83 Score=23.26 Aligned_cols=60 Identities=12% Similarity=0.163 Sum_probs=28.4
Q ss_pred EEEEEeecCcc----hhhHHHHHhCCCCCCceEEEEecC-CCchHHHHHHHHhCCCceEEEecCc
Q psy18065 80 KVAIVYEEDNG----LFKLQELVKTPPTLKTEMYIRHAN-PSTYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 80 ~v~vi~~~~~~----~~~l~~l~~~~~~~~~~v~~~~~~-~~d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
++.+|+....| ....+++.+.+.+.++.+.+.... ..+..++..+....+.+.||+.+-.
T Consensus 3 r~~~I~Np~aG~~~~~~~~~~~~~~l~~~~~~~~~~~t~~~~~a~~~a~~~~~~~~d~vvv~GGD 67 (304)
T PRK13337 3 RARIIYNPTSGRELFKKNLPDVLQKLEQAGYETSAHATTGPGDATLAAERAVERKFDLVIAAGGD 67 (304)
T ss_pred eEEEEECCcccchhHHHHHHHHHHHHHHcCCEEEEEEecCCCCHHHHHHHHHhcCCCEEEEEcCC
Confidence 45556553222 123344444444455554432222 2456666665555555565555543
No 252
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=55.18 E-value=20 Score=26.03 Aligned_cols=72 Identities=13% Similarity=0.120 Sum_probs=38.5
Q ss_pred HHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEe-c-CCCc---hHHHHHHHHhCCCceEEEecCc
Q psy18065 68 AFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRH-A-NPST---YRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 68 ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~-~-~~~d---~~~~l~~i~~~~~~~iil~~~~ 139 (149)
.+-++++.++++++.++.+.......-+.+.+.++..|+.+.... . ...+ ..++...++..+.+.||-.+..
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~~~~g~~v~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vGgG 85 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTYKAAGEKVEESLKSAGIEVAVIEEFVGDADEDEVEKLVEALRPKDADLIIGVGGG 85 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHHHHHHHHHHHHHHTTT-EEEEEE-EE---BHHHHHHHHTTS--TT--EEEEEESH
T ss_pred HHHHHHHhcCCCcEEEEEcCCHHHHHHHHHHHHHHHcCCeEEEEecCCCCCCHHHHHHHHHHhcccCCCEEEEeCCc
Confidence 456788877889999999876433333445555555576665322 1 1123 3445556666677777777654
No 253
>PRK07261 topology modulation protein; Provisional
Probab=55.10 E-value=18 Score=24.34 Aligned_cols=30 Identities=13% Similarity=0.195 Sum_probs=25.4
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
.+|+|++++.=+.....++..+++|++...
T Consensus 3 i~i~G~~GsGKSTla~~l~~~~~~~~i~~D 32 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQHYNCPVLHLD 32 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHHhCCCeEecC
Confidence 689999998888888889999999988743
No 254
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=54.69 E-value=74 Score=22.49 Aligned_cols=121 Identities=7% Similarity=-0.016 Sum_probs=60.3
Q ss_pred HhhCCcEEEEcCCCCCcHHHHHHhhccc-CCCceeeccCCCC-CCcccEEEecCChhHHHHHHHHHHHhc-CCcEEEEEe
Q psy18065 9 QLQNGVQALFGPSDALLGPHVQSICEAL-DVPHMESRLDLEL-NSKEFSVNLYPSQKLLNAAFKDVIRFL-NWTKVAIVY 85 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s~~~~~v~~~~~~~-~iP~is~~~~~~~-~~~~~~~~~~p~~~~~~~ai~~ll~~~-~W~~v~vi~ 85 (149)
+...++.++|--... ....+....... ++|++........ .... .....+..-+.....++..+ |-++++++.
T Consensus 52 l~~~~vdgiii~~~~-~~~~~~~~~~~~~~ipvv~~~~~~~~~~~~~---~v~~d~~~~~~~a~~l~~~~~g~~~I~~i~ 127 (260)
T cd06304 52 LAAQGYDLIFGVGFG-FMDAVEKVAKEYPDVKFAIIDGVVDAPPNVA---SYVFREYEGSYLAGVLAALMTKTGKVGFVG 127 (260)
T ss_pred HHHcCCCEEEECCcc-hhHHHHHHHHHCCCCEEEEecCccCCCCCee---eeecchHHHHHHHHHHHHHhccCCceEEEe
Confidence 344567766543222 223343444433 7898886543221 1112 23333333344445566544 889999997
Q ss_pred ecC--cchhhHHHHHhCCCCCCceEEE--E-ecCC---CchHHHHHHHHhCCCceE
Q psy18065 86 EED--NGLFKLQELVKTPPTLKTEMYI--R-HANP---STYRNVLREIRQKEIFNL 133 (149)
Q Consensus 86 ~~~--~~~~~l~~l~~~~~~~~~~v~~--~-~~~~---~d~~~~l~~i~~~~~~~i 133 (149)
... ....+.+.+.+.+++++..... . .... .+-.+.++++.+...+.|
T Consensus 128 ~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai 183 (260)
T cd06304 128 GMPIPEVNRFINGFAAGAKSVNPDITVLVIYTGSFFDPAKGKEAALALIDQGADVI 183 (260)
T ss_pred ccccHHHHHHHHHHHHHHHHhCCCcEEEEEEecCccCcHHHHHHHHHHHhCCCCEE
Confidence 542 2345566677766665543222 1 1111 223455666655555554
No 255
>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=54.59 E-value=74 Score=22.45 Aligned_cols=76 Identities=4% Similarity=-0.163 Sum_probs=46.0
Q ss_pred HHHhhcccCCCceeeccCCC-CCCcccEEEecCChhHHHHHHHHHHHh--cCCcEEEEEeecC--cchhhHHHHHhCCCC
Q psy18065 29 VQSICEALDVPHMESRLDLE-LNSKEFSVNLYPSQKLLNAAFKDVIRF--LNWTKVAIVYEED--NGLFKLQELVKTPPT 103 (149)
Q Consensus 29 v~~~~~~~~iP~is~~~~~~-~~~~~~~~~~~p~~~~~~~ai~~ll~~--~~W~~v~vi~~~~--~~~~~l~~l~~~~~~ 103 (149)
........++|.+..+.... ....+ .....+..-+..+++.+.. .|-++++++.... .+..+.+.+.+.+++
T Consensus 68 ~~~~~~~~~~PvV~i~~~~~~~~~~~---~V~~D~~~~~~~a~~~L~~~~~G~~~Ia~i~~~~~~~~~~R~~gf~~~l~~ 144 (247)
T cd06276 68 YFLLKKIPKEKLLILDHSIPEGGEYS---SVAQDFEKAIYNALQEGLEKLKKYKKLILVFPNKTAIPKEIKRGFERFCKD 144 (247)
T ss_pred HHHHhccCCCCEEEEcCcCCCCCCCC---eEEEccHHHHHHHHHHHHHHhcCCCEEEEEecCccHhHHHHHHHHHHHHHH
Confidence 44455557899988764221 11222 2444555566677777766 7999999997643 234556666666655
Q ss_pred CCce
Q psy18065 104 LKTE 107 (149)
Q Consensus 104 ~~~~ 107 (149)
.|+.
T Consensus 145 ~g~~ 148 (247)
T cd06276 145 YNIE 148 (247)
T ss_pred cCCC
Confidence 5543
No 256
>PF13155 Toprim_2: Toprim-like
Probab=54.24 E-value=44 Score=19.75 Aligned_cols=42 Identities=14% Similarity=0.188 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHhcCCcEEEEEeecC-cchhhHHHHHhCCCCCC
Q psy18065 64 LLNAAFKDVIRFLNWTKVAIVYEED-NGLFKLQELVKTPPTLK 105 (149)
Q Consensus 64 ~~~~ai~~ll~~~~W~~v~vi~~~~-~~~~~l~~l~~~~~~~~ 105 (149)
.....+.++++..+-++|.+..|+| .|....+.+.+.+...+
T Consensus 33 ~~~~~~~~~l~~~~~~~i~l~~DnD~aG~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 33 LSEKQQIKFLKENPYKKIVLAFDNDEAGRKAAEKLQKELKEEG 75 (96)
T ss_pred HHHHHHHHHHHhCCCCcEEEEeCCCHHHHHHHHHHHHHHHhhC
Confidence 3446778888655558888888887 47777777777665544
No 257
>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=54.17 E-value=47 Score=23.94 Aligned_cols=72 Identities=7% Similarity=0.057 Sum_probs=33.7
Q ss_pred HHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEE-EecCCCchHHHHHHHHhCCCceEEEecC
Q psy18065 65 LNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYI-RHANPSTYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~-~~~~~~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
...++.+.++.+||+-... +.++.........+.+...++.-.+ ...+.+...+.++.+++.+..+|.++..
T Consensus 17 ~~~gi~~~a~~~g~~~~~~--~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~l~~~~ipvV~~~~~ 89 (288)
T cd01538 17 DRPNFEAALKELGAEVIVQ--NANGDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEKAADAGIPVIAYDRL 89 (288)
T ss_pred HHHHHHHHHHHcCCEEEEE--CCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHHHHHCCCCEEEECCC
Confidence 4556667777788875433 2222211111222221122332211 1111222456777887777667766654
No 258
>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=54.06 E-value=89 Score=23.67 Aligned_cols=71 Identities=7% Similarity=-0.057 Sum_probs=42.5
Q ss_pred HHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEE-EecCC----CchHHHHHHHHhCCCceEEEecC
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYI-RHANP----STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~-~~~~~----~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
.-+.+.++.++ +++.++++..-.....+.+.+.+++.|+.+.. ..+.+ ++..+..+..+..+.+.||-.+-
T Consensus 12 ~~l~~~~~~~~-~r~liv~d~~~~~~~~~~v~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavGG 87 (345)
T cd08171 12 KKIPEVCEKYG-KKVVVIGGKTALAAAKDKIKAALEQSGIEITDFIWYGGESTYENVERLKKNPAVQEADMIFAVGG 87 (345)
T ss_pred HHHHHHHHhcC-CEEEEEeCHHHHHHHHHHHHHHHHHCCCeEEEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeCC
Confidence 34556676677 88888887532222344555555556665432 23322 24566677777888888887663
No 259
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=53.51 E-value=63 Score=22.66 Aligned_cols=65 Identities=18% Similarity=0.206 Sum_probs=33.9
Q ss_pred CcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCC-CceEEEecCchhHH
Q psy18065 78 WTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKE-IFNLIIDTSTTHIS 143 (149)
Q Consensus 78 W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~-~~~iil~~~~~~~~ 143 (149)
|+++.++..|......++...+.++..|+.+...-+...+ .+.|..|-... .+.++...+.+...
T Consensus 108 ~~kvvillTDG~s~~~~~~~a~~lk~~gv~i~~VgvG~~~-~~~L~~ias~~~~~~~f~~~~~~~l~ 173 (224)
T cd01475 108 VPRVGIVVTDGRPQDDVSEVAAKARALGIEMFAVGVGRAD-EEELREIASEPLADHVFYVEDFSTIE 173 (224)
T ss_pred CCeEEEEEcCCCCcccHHHHHHHHHHCCcEEEEEeCCcCC-HHHHHHHhCCCcHhcEEEeCCHHHHH
Confidence 4778777766433333444445555667776544444333 45677776543 23344434444333
No 260
>PRK03839 putative kinase; Provisional
Probab=53.16 E-value=17 Score=24.38 Aligned_cols=31 Identities=13% Similarity=0.101 Sum_probs=26.9
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
...++|++++.=+.....++..+++|++..+
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~d 32 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDLT 32 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEEehh
Confidence 3688999998888888889999999999865
No 261
>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=52.87 E-value=1e+02 Score=23.64 Aligned_cols=70 Identities=11% Similarity=-0.011 Sum_probs=44.9
Q ss_pred HHHHHHHHhcCCcEEEEEeecCc--chhhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHhCCCceEEEec
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEEDN--GLFKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~~--~~~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~~~~~~iil~~ 137 (149)
..+.+.++.+| +++.++++... ....++.+.+.++..|+.+... .+. + ++..+....+++.+++.||-.+
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiavG 91 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPNPTTTTVMEGAALAREEGCDFVVGLG 91 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCCCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 34566777788 89988887532 2334455555555556665432 332 2 3466777888889999999665
No 262
>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=52.87 E-value=66 Score=22.36 Aligned_cols=18 Identities=11% Similarity=0.117 Sum_probs=8.9
Q ss_pred HHHHHHHHHHhcCCcEEE
Q psy18065 65 LNAAFKDVIRFLNWTKVA 82 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~ 82 (149)
+..++-..+...||+-..
T Consensus 17 ~~~~~~~~a~~~g~~~~~ 34 (267)
T cd01536 17 MNKGAEAAAKELGVELIV 34 (267)
T ss_pred HHHHHHHHHHhcCceEEE
Confidence 344444555555655433
No 263
>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=52.46 E-value=99 Score=23.31 Aligned_cols=70 Identities=13% Similarity=0.016 Sum_probs=41.0
Q ss_pred HHHHHHH-hcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEec-CC--CchHHHHHHHHhCCCceEEEecC
Q psy18065 68 AFKDVIR-FLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHA-NP--STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 68 ai~~ll~-~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~-~~--~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
.+.++++ .++++++.++.+..-.....+.+...+++.+ .+...-. ++ +...+.++.+++.+.+.||-.+-
T Consensus 14 ~l~~~l~~~~~~~~~liv~d~~~~~~~~~~v~~~l~~~~-~~~~~~~~~~~~~~v~~~~~~~~~~~~d~iIaiGG 87 (339)
T cd08173 14 KIPNVLRDLLLGGRVLVVTGPTTKSIAGKKVEALLEDEG-EVDVVIVEDATYEEVEKVESSARDIGADFVIGVGG 87 (339)
T ss_pred HHHHHHHHhCCCCeEEEEECCchHHHHHHHHHHHHHhcC-CeEEEEeCCCCHHHHHHHHHHhhhcCCCEEEEeCC
Confidence 4556666 4678999998865422233444554444444 3322211 22 35667778888888888887663
No 264
>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=52.17 E-value=76 Score=22.12 Aligned_cols=17 Identities=0% Similarity=-0.187 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHhcCCcE
Q psy18065 64 LLNAAFKDVIRFLNWTK 80 (149)
Q Consensus 64 ~~~~ai~~ll~~~~W~~ 80 (149)
.+..++-+-++..||+-
T Consensus 16 ~~~~gi~~~~~~~g~~~ 32 (259)
T cd01542 16 RTVKGILAALYENGYQM 32 (259)
T ss_pred HHHHHHHHHHHHCCCEE
Confidence 45556666666777763
No 265
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=52.09 E-value=56 Score=25.64 Aligned_cols=26 Identities=19% Similarity=0.225 Sum_probs=20.7
Q ss_pred CCcEEEEcCCCCCcHHHHHHhhcccC
Q psy18065 12 NGVQALFGPSDALLGPHVQSICEALD 37 (149)
Q Consensus 12 ~~v~aiiGp~~s~~~~~v~~~~~~~~ 37 (149)
+++++++||++-.=+.++|.+|..+.
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~ 228 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYV 228 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHH
Confidence 56888888888777778888887776
No 266
>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=51.75 E-value=53 Score=22.95 Aligned_cols=70 Identities=9% Similarity=0.084 Sum_probs=33.1
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEeecCcc--hhhHHHHHhCCCCCCceEEE-EecCCCchHHHHHHHHhCCCceEEEec
Q psy18065 63 KLLNAAFKDVIRFLNWTKVAIVYEEDNG--LFKLQELVKTPPTLKTEMYI-RHANPSTYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 63 ~~~~~ai~~ll~~~~W~~v~vi~~~~~~--~~~l~~l~~~~~~~~~~v~~-~~~~~~d~~~~l~~i~~~~~~~iil~~ 137 (149)
.....++.+.++.+||+=+..-.+.+.. ...++.+.. .++.-.+ ...+. +..+.++.+++.+...|+++.
T Consensus 15 ~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~----~~vdgiii~~~~~-~~~~~~~~~~~~~ipvV~~~~ 87 (266)
T cd06282 15 AECVQGIQEEARAAGYSLLLATTDYDAEREADAVETLLR----QRVDGLILTVADA-ATSPALDLLDAERVPYVLAYN 87 (266)
T ss_pred HHHHHHHHHHHHHCCCEEEEeeCCCCHHHHHHHHHHHHh----cCCCEEEEecCCC-CchHHHHHHhhCCCCEEEEec
Confidence 3456677777788887755432221211 122333322 2222222 11221 223467777777766666654
No 267
>PRK06217 hypothetical protein; Validated
Probab=51.66 E-value=22 Score=24.08 Aligned_cols=30 Identities=23% Similarity=0.397 Sum_probs=26.0
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
++|+|+++|.=+.....++..+++|++...
T Consensus 4 I~i~G~~GsGKSTla~~L~~~l~~~~~~~D 33 (183)
T PRK06217 4 IHITGASGSGTTTLGAALAERLDIPHLDTD 33 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCcEEEcC
Confidence 788999998888888889999999998754
No 268
>TIGR02173 cyt_kin_arch cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.
Probab=51.50 E-value=20 Score=23.62 Aligned_cols=31 Identities=13% Similarity=0.228 Sum_probs=27.1
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
++.|.|+.+|.-+.....+++.+++|++..+
T Consensus 2 iI~i~G~~GSGKstia~~la~~lg~~~~~~~ 32 (171)
T TIGR02173 2 IITISGPPGSGKTTVAKILAEKLSLKLISAG 32 (171)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCceecHH
Confidence 5789999999999888889999999998853
No 269
>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=51.33 E-value=75 Score=24.37 Aligned_cols=72 Identities=14% Similarity=0.012 Sum_probs=46.4
Q ss_pred HHHHHHHHhcCCcEEEEEeecC-cchhhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHhCCCceEEEecC
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEED-NGLFKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~-~~~~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
..+.++++.++.+++.++++.. .....++.+.+.+++.|+.+... .+. + ++..+....++..+++.||-.+-
T Consensus 12 ~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGG 89 (375)
T cd08194 12 DETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSEPTDESVEEGVKLAKEGGCDVIIALGG 89 (375)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 3456677777789999998653 22224455655565567665432 332 2 34677888888999999997663
No 270
>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=51.30 E-value=57 Score=22.82 Aligned_cols=18 Identities=11% Similarity=0.150 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHhcCCcEE
Q psy18065 64 LLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 64 ~~~~ai~~ll~~~~W~~v 81 (149)
....++.+.++.+||+-.
T Consensus 16 ~~~~~i~~~~~~~g~~~~ 33 (266)
T cd06278 16 ELLEALSRALQARGYQPL 33 (266)
T ss_pred HHHHHHHHHHHHCCCeEE
Confidence 345667777788888744
No 271
>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=50.66 E-value=46 Score=24.22 Aligned_cols=44 Identities=5% Similarity=0.166 Sum_probs=19.2
Q ss_pred HHHHHhCCCCCCceEEEEecCC-CchHHHHHHHHhCCCceEEEec
Q psy18065 94 LQELVKTPPTLKTEMYIRHANP-STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 94 l~~l~~~~~~~~~~v~~~~~~~-~d~~~~l~~i~~~~~~~iil~~ 137 (149)
+..+.+.+++.|+.+.+-..+. .+-.+.++.+.+..++.+|+.+
T Consensus 20 i~gIe~~a~~~Gy~l~l~~t~~~~~~e~~i~~l~~~~vDGiI~~s 64 (279)
T PF00532_consen 20 IRGIEQEAREHGYQLLLCNTGDDEEKEEYIELLLQRRVDGIILAS 64 (279)
T ss_dssp HHHHHHHHHHTTCEEEEEEETTTHHHHHHHHHHHHTTSSEEEEES
T ss_pred HHHHHHHHHHcCCEEEEecCCCchHHHHHHHHHHhcCCCEEEEec
Confidence 3344444444455443322221 1222445555555555555544
No 272
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=50.34 E-value=24 Score=23.75 Aligned_cols=33 Identities=18% Similarity=0.198 Sum_probs=28.0
Q ss_pred CCcEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 12 NGVQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 12 ~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
....+++|+.++.=+.....+++.+++|++...
T Consensus 4 ~~~I~liG~~GaGKStl~~~La~~l~~~~vd~D 36 (172)
T PRK05057 4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD 36 (172)
T ss_pred CCEEEEECCCCcCHHHHHHHHHHHcCCcEEECC
Confidence 446899999998888888889999999988754
No 273
>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=50.21 E-value=47 Score=22.94 Aligned_cols=76 Identities=9% Similarity=0.102 Sum_probs=33.2
Q ss_pred CChhHHHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEE-EecCCCchHHHHHHHHhCCCceEEEecC
Q psy18065 60 PSQKLLNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYI-RHANPSTYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 60 p~~~~~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~-~~~~~~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
|.......++.+.++.+||.-+ +++............+.+...++...+ ......... .+..+++.+...|.++..
T Consensus 12 ~~~~~~~~g~~~~~~~~g~~l~--~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~-~~~~l~~~~ip~v~~~~~ 88 (264)
T cd01537 12 PFFAQVLKGIEEAAKAAGYQVL--LANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPT-IVKLARKAGIPVVLVDRD 88 (264)
T ss_pred hHHHHHHHHHHHHHHHcCCeEE--EEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchh-HHHHhhhcCCCEEEeccC
Confidence 3344456677777777887532 222221111222222211112333222 222222223 567777776656665544
No 274
>TIGR03239 GarL 2-dehydro-3-deoxyglucarate aldolase. In E. coli this enzyme (GarL, ) 2-dehydro-3-deoxyglucarate aldolase acts in the catabolism of several sugars including D-galactarate, D-glucarate and L-idarate. In fact, 5-dehydro-4-deoxy-D-glucarate aldolase is a synonym for this enzyme as it is unclear in the literature whether the enzyme acts on only one of these or, as seems likely, has no preference. (Despite the apparent large difference in substrate stucture indicated by their names, 2-DH-3DO- and 5-DH-4DO-glucarate differ only by the chirality of most central hydroxyl-bearing carbon and is alternately named 2-DH-3DO-galactarate.) The reported product of D-galactarate dehydratase (4.2.1.42) is the 5DH-4DO-glucarate isomer and this enzyme is found proximal to the aldolase in many genomes (GenProp0714) where no epimerase is known. Similarly, the product of D-glucarate dehydratase (4.2.1.40) is again the 5-DH-4DO isomer, so the provenance of the 2-DH-3DO-glucarate isomer for which
Probab=50.19 E-value=96 Score=22.48 Aligned_cols=80 Identities=9% Similarity=0.101 Sum_probs=55.1
Q ss_pred HHHHHHHHhcCCcEEEEEeec-CcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEE-ec-CchhHH
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLII-DT-STTHIS 143 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil-~~-~~~~~~ 143 (149)
..+++++-+-|+-+|.+=.+. ..+...++.+....+..|...-+ |++..|. ..+++..+.++..|++ .+ +.+.+.
T Consensus 23 p~~~e~~a~~G~D~v~iD~EHg~~~~~~~~~~~~a~~~~g~~~~V-Rvp~~~~-~~i~r~LD~Ga~gIivP~v~taeea~ 100 (249)
T TIGR03239 23 PITTEVLGLAGFDWLLLDGEHAPNDVLTFIPQLMALKGSASAPVV-RPPWNEP-VIIKRLLDIGFYNFLIPFVESAEEAE 100 (249)
T ss_pred cHHHHHHHhcCCCEEEEecccCCCCHHHHHHHHHHHhhcCCCcEE-ECCCCCH-HHHHHHhcCCCCEEEecCcCCHHHHH
Confidence 367888888888888775554 45667777777776666755433 6655454 5567777889999988 44 457777
Q ss_pred HHHhh
Q psy18065 144 QFFRA 148 (149)
Q Consensus 144 ~il~q 148 (149)
.+.+.
T Consensus 101 ~~v~a 105 (249)
T TIGR03239 101 RAVAA 105 (249)
T ss_pred HHHHH
Confidence 77654
No 275
>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=48.93 E-value=49 Score=22.92 Aligned_cols=25 Identities=24% Similarity=0.337 Sum_probs=21.3
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccC
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALD 37 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~ 37 (149)
++.+++||++..=+..++.++..+.
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~ 26 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLK 26 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred EEEEEECCCCCchHhHHHHHHHHHh
Confidence 4789999999888889999987774
No 276
>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=48.93 E-value=24 Score=22.50 Aligned_cols=79 Identities=8% Similarity=0.138 Sum_probs=34.6
Q ss_pred HHHHHHHHhcCCcEEEEEee------cCc--chhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecC
Q psy18065 67 AAFKDVIRFLNWTKVAIVYE------EDN--GLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~------~~~--~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
..+.+.++..|. .+..... ... .....-++.+.+.....+..+--....||.+++..+++.+.+++++...
T Consensus 50 ~~~~~~L~~~g~-~v~~~~~~~~~~~~k~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~v~~l~~~g~~V~v~~~~ 128 (146)
T PF01936_consen 50 KSFQEALQRAGI-KVRHFPLRKRGGGGKKGVDVALAVDILELAYENPPDTIVLVSGDSDFAPLVRKLRERGKRVIVVGAE 128 (146)
T ss_dssp HHHHHHHHHHT--EEEE------S---S---HHHHHHHHHHHG--GG-SEEEEE---GGGHHHHHHHHHH--EEEEEE-G
T ss_pred hhHHHHHHhCee-eEEeeecccccccccCCcHHHHHHHHHHHhhccCCCEEEEEECcHHHHHHHHHHHHcCCEEEEEEeC
Confidence 455577788787 5544322 111 1222233443332222222221223479999999999999777666632
Q ss_pred chhHHHHH
Q psy18065 139 TTHISQFF 146 (149)
Q Consensus 139 ~~~~~~il 146 (149)
......+.
T Consensus 129 ~~~s~~L~ 136 (146)
T PF01936_consen 129 DSASEALR 136 (146)
T ss_dssp GGS-HHHH
T ss_pred CCCCHHHH
Confidence 33333333
No 277
>PRK00865 glutamate racemase; Provisional
Probab=48.68 E-value=1e+02 Score=22.37 Aligned_cols=69 Identities=13% Similarity=0.086 Sum_probs=43.1
Q ss_pred EEEEEeecCcchhhHHHHHhCCCCCCceEEEE--ecC--C---Cc----hHHHHHHHHhCCCceEEEecCchh--HHHHH
Q psy18065 80 KVAIVYEEDNGLFKLQELVKTPPTLKTEMYIR--HAN--P---ST----YRNVLREIRQKEIFNLIIDTSTTH--ISQFF 146 (149)
Q Consensus 80 ~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~--~~~--~---~d----~~~~l~~i~~~~~~~iil~~~~~~--~~~il 146 (149)
.++++=++-.|+..+.++.+.+-...+-.... +++ . ++ ..+.++.+.+.+++.||+-|+... +..-+
T Consensus 7 ~IgvfDSGiGGLtvl~~i~~~lp~~~~iY~~D~~~~PYG~ks~~~i~~~~~~~~~~L~~~g~d~iVIaCNTa~~~~l~~l 86 (261)
T PRK00865 7 PIGVFDSGVGGLTVLREIRRLLPDEHIIYVGDTARFPYGEKSEEEIRERTLEIVEFLLEYGVKMLVIACNTASAVALPDL 86 (261)
T ss_pred eEEEEECCccHHHHHHHHHHHCCCCCEEEEecCCCCCCCCCCHHHHHHHHHHHHHHHHhCCCCEEEEeCchHHHHHHHHH
Confidence 35554444467888889988876554432222 232 1 12 245667788899999999999765 34555
Q ss_pred hh
Q psy18065 147 RA 148 (149)
Q Consensus 147 ~q 148 (149)
++
T Consensus 87 r~ 88 (261)
T PRK00865 87 RE 88 (261)
T ss_pred HH
Confidence 43
No 278
>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=48.68 E-value=88 Score=23.59 Aligned_cols=71 Identities=7% Similarity=-0.016 Sum_probs=44.0
Q ss_pred HHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecC--C--CchHHHHHHHHhCCCceEEEecC
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHAN--P--STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~--~--~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
..+.+.++.++.+++.++.+..-.....+.+.+.+++.++.+ +..+. + ++..+..+..+..+.+.||-.+-
T Consensus 12 ~~l~~~l~~~g~~~~livt~~~~~~~~~~~v~~~l~~~~~~~-~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGG 86 (337)
T cd08177 12 AALAAELERLGASRALVLTTPSLATKLAERVASALGDRVAGT-FDGAVMHTPVEVTEAAVAAAREAGADGIVAIGG 86 (337)
T ss_pred HHHHHHHHHcCCCeEEEEcChHHHHHHHHHHHHHhccCCcEE-eCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 456778888999999988865322224445555554444322 22332 1 34566777788888899887663
No 279
>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=48.62 E-value=47 Score=22.49 Aligned_cols=40 Identities=13% Similarity=0.222 Sum_probs=30.5
Q ss_pred HHHHhh--CCcEEEEcCCC--CCcHHHHHHhhcccCCCceeecc
Q psy18065 6 MCRQLQ--NGVQALFGPSD--ALLGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 6 ~c~~~~--~~v~aiiGp~~--s~~~~~v~~~~~~~~iP~is~~~ 45 (149)
+.+++. ++++.++|+.. ......+..+++.+++|+++...
T Consensus 20 aa~lLk~AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~ 63 (162)
T TIGR00315 20 VAMMIKRAKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATAD 63 (162)
T ss_pred HHHHHHcCCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCc
Confidence 344443 46888889866 37788899999999999998653
No 280
>PRK04182 cytidylate kinase; Provisional
Probab=48.51 E-value=23 Score=23.45 Aligned_cols=30 Identities=17% Similarity=0.316 Sum_probs=26.8
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceee
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMES 43 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~ 43 (149)
+..|.|+.+|.=+.....++..+++|++..
T Consensus 2 ~I~i~G~~GsGKstia~~la~~lg~~~id~ 31 (180)
T PRK04182 2 IITISGPPGSGKTTVARLLAEKLGLKHVSA 31 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCcEecH
Confidence 578999999999988899999999999984
No 281
>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=48.21 E-value=83 Score=22.15 Aligned_cols=21 Identities=14% Similarity=0.003 Sum_probs=14.1
Q ss_pred hHHHHHHHHHHHhcCCcEEEE
Q psy18065 63 KLLNAAFKDVIRFLNWTKVAI 83 (149)
Q Consensus 63 ~~~~~ai~~ll~~~~W~~v~v 83 (149)
.....++.+.++..||+-+.+
T Consensus 15 ~~~~~g~~~~a~~~g~~~~~~ 35 (268)
T cd06270 15 GPLLSGVESVARKAGKHLIIT 35 (268)
T ss_pred HHHHHHHHHHHHHCCCEEEEE
Confidence 446667777778888875543
No 282
>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=48.21 E-value=80 Score=22.08 Aligned_cols=17 Identities=12% Similarity=0.059 Sum_probs=8.7
Q ss_pred HHHHHHHHHHhcCCcEE
Q psy18065 65 LNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v 81 (149)
+..++-+-++.+||+-+
T Consensus 17 i~~gi~~~~~~~g~~~~ 33 (260)
T cd06286 17 LVDGIEKAALKHGYKVV 33 (260)
T ss_pred HHHHHHHHHHHcCCEEE
Confidence 34455555555565543
No 283
>TIGR00017 cmk cytidylate kinase. This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.
Probab=48.10 E-value=24 Score=24.96 Aligned_cols=31 Identities=26% Similarity=0.325 Sum_probs=27.7
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
+.+|.||.++.=+.....++..++++++..+
T Consensus 4 ~i~i~G~~GsGKst~~~~la~~~~~~~~~~g 34 (217)
T TIGR00017 4 IIAIDGPSGAGKSTVAKAVAEKLGYAYLDSG 34 (217)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCceeeCc
Confidence 6899999999999888999999999988765
No 284
>PF02006 DUF137: Protein of unknown function DUF137; InterPro: IPR002855 The archaeal proteins in this family have no known function.
Probab=47.87 E-value=89 Score=21.43 Aligned_cols=86 Identities=12% Similarity=0.084 Sum_probs=51.7
Q ss_pred CcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeecC-cchhhHHHHHhCCCCCCc---eEEEEecCCCchHHHHHHHH
Q psy18065 51 SKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEED-NGLFKLQELVKTPPTLKT---EMYIRHANPSTYRNVLREIR 126 (149)
Q Consensus 51 ~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~-~~~~~l~~l~~~~~~~~~---~v~~~~~~~~d~~~~l~~i~ 126 (149)
+-+--++++-....=.+.|.++++..|++.|-=+-++. .....+..-.......|| .+.+--+...|-.+.|.+|-
T Consensus 31 ~A~iEVNLFyRT~eR~~~I~~~L~~~Ga~~vlG~~~d~~~~ip~L~~~R~~v~~~GIy~ADVVLVPLEDGDR~EAL~~mG 110 (178)
T PF02006_consen 31 GAKIEVNLFYRTEERVEKIAELLREHGAEEVLGVNPDASERIPGLDHERAKVSKEGIYSADVVLVPLEDGDRTEALVKMG 110 (178)
T ss_pred CCCEEEEcccCCHHHHHHHHHHHHHcCCCEeeccCCcccccCCCCCCccceECcccceeccEEEeccCCCcHHHHHHHcC
Confidence 33555566555566778999999999999554333332 223334443444445554 34444444567777777765
Q ss_pred hCCCceEEEecCc
Q psy18065 127 QKEIFNLIIDTST 139 (149)
Q Consensus 127 ~~~~~~iil~~~~ 139 (149)
+ .+|.+|.++
T Consensus 111 K---~VIaIDLNP 120 (178)
T PF02006_consen 111 K---TVIAIDLNP 120 (178)
T ss_pred C---eEEEEeCCC
Confidence 4 488888865
No 285
>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=47.75 E-value=90 Score=21.88 Aligned_cols=19 Identities=16% Similarity=0.256 Sum_probs=11.8
Q ss_pred hHHHHHHHHHHHhcCCcEE
Q psy18065 63 KLLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 63 ~~~~~ai~~ll~~~~W~~v 81 (149)
..+...+.+-++.+|+.-+
T Consensus 15 ~~~~~~i~~~~~~~g~~~~ 33 (268)
T cd06273 15 ARVIQAFQETLAAHGYTLL 33 (268)
T ss_pred HHHHHHHHHHHHHCCCEEE
Confidence 3455667777777775543
No 286
>COG0269 SgbH 3-hexulose-6-phosphate synthase and related proteins [Carbohydrate transport and metabolism]
Probab=47.55 E-value=1e+02 Score=22.01 Aligned_cols=73 Identities=10% Similarity=0.003 Sum_probs=50.2
Q ss_pred HHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCc
Q psy18065 65 LNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
-+.--+++....|-.|++++.-.+ ...+....+..++.|..+.+.-++..|+....+.+++.+++.++++-..
T Consensus 68 ~G~~e~~ma~~aGAd~~tV~g~A~--~~TI~~~i~~A~~~~~~v~iDl~~~~~~~~~~~~l~~~gvd~~~~H~g~ 140 (217)
T COG0269 68 AGAIEARMAFEAGADWVTVLGAAD--DATIKKAIKVAKEYGKEVQIDLIGVWDPEQRAKWLKELGVDQVILHRGR 140 (217)
T ss_pred hhHHHHHHHHHcCCCEEEEEecCC--HHHHHHHHHHHHHcCCeEEEEeecCCCHHHHHHHHHHhCCCEEEEEecc
Confidence 455667788888888888876542 1234445555556666666666666678888888888888888887654
No 287
>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=47.53 E-value=34 Score=25.40 Aligned_cols=29 Identities=14% Similarity=0.206 Sum_probs=26.0
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCce
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHM 41 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~i 41 (149)
.++.|+|+.+|+.+..+..+|...+.|..
T Consensus 210 D~miVVGg~nSsNT~rL~ei~~~~~~~t~ 238 (280)
T TIGR00216 210 DLMIVIGGKNSSNTTRLYEIAEEHGPPSY 238 (280)
T ss_pred CEEEEECCCCCchHHHHHHHHHHhCCCEE
Confidence 58899999999999999999999987743
No 288
>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=47.50 E-value=43 Score=23.93 Aligned_cols=71 Identities=10% Similarity=-0.006 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceE-EEEecCCCchHHHHHHHHhCCCceEEEec
Q psy18065 64 LLNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEM-YIRHANPSTYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 64 ~~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v-~~~~~~~~d~~~~l~~i~~~~~~~iil~~ 137 (149)
...+++.+.++.+||+-+ ++..+......+ ..+.+...++.- .+...+.....+.++.+++.+.-+|.++.
T Consensus 16 ~~~~gi~~~~~~~g~~~~--~~~~~~~~~~~~-~i~~~~~~~~dgiii~~~~~~~~~~~~~~~~~~~iPvV~~~~ 87 (289)
T cd01540 16 TEWKFAKKAAKEKGFTVV--KIDVPDGEKVLS-AIDNLGAQGAKGFVICVPDVKLGPAIVAKAKAYNMKVVAVDD 87 (289)
T ss_pred HHHHHHHHHHHHcCCEEE--EccCCCHHHHHH-HHHHHHHcCCCEEEEccCchhhhHHHHHHHHhCCCeEEEecC
Confidence 356677777888887733 332221111111 222221222221 11111111235667888888766666653
No 289
>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=47.50 E-value=69 Score=22.81 Aligned_cols=16 Identities=6% Similarity=-0.058 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHhcCCc
Q psy18065 64 LLNAAFKDVIRFLNWT 79 (149)
Q Consensus 64 ~~~~ai~~ll~~~~W~ 79 (149)
....++-+.++.+|++
T Consensus 19 ~~~~gi~~~~~~~gy~ 34 (265)
T cd06354 19 SAWEGLERAAKELGIE 34 (265)
T ss_pred HHHHHHHHHHHHcCCe
Confidence 3455555666666665
No 290
>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=47.04 E-value=80 Score=22.15 Aligned_cols=72 Identities=8% Similarity=-0.022 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEE-EEecCCCchHHHHHHHHhCCCceEEEec
Q psy18065 64 LLNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMY-IRHANPSTYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 64 ~~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~-~~~~~~~d~~~~l~~i~~~~~~~iil~~ 137 (149)
.+..++.+.++.+||.-+..-.+++. ......+.+.....+++-. +.... .+..+.++.+++.+..+|.++.
T Consensus 16 ~~~~gi~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~l~~~~vdgiii~~~~-~~~~~~~~~~~~~~ipvv~i~~ 88 (270)
T cd01545 16 EIQLGALDACRDTGYQLVIEPCDSGS-PDLAERVRALLQRSRVDGVILTPPL-SDNPELLDLLDEAGVPYVRIAP 88 (270)
T ss_pred HHHHHHHHHHHhCCCeEEEEeCCCCc-hHHHHHHHHHHHHCCCCEEEEeCCC-CCccHHHHHHHhcCCCEEEEec
Confidence 35566667777777665443332221 1122233332222232211 11111 1224556677776666666654
No 291
>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=46.78 E-value=1.5e+02 Score=23.60 Aligned_cols=69 Identities=13% Similarity=0.141 Sum_probs=29.9
Q ss_pred HHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCch----HHHHHHHHhCCCceEEEecC
Q psy18065 68 AFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTY----RNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 68 ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~----~~~l~~i~~~~~~~iil~~~ 138 (149)
-++..++.-|+ +|+++..|.+.....+.+.......++.+.. ..+..|. .+.+..+++.+.+.|++|+.
T Consensus 119 KLA~~l~~~G~-kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~-~~~~~dp~~i~~~~l~~~~~~~~DvViIDTa 191 (429)
T TIGR01425 119 KLAYYYQRKGF-KPCLVCADTFRAGAFDQLKQNATKARIPFYG-SYTESDPVKIASEGVEKFKKENFDIIIVDTS 191 (429)
T ss_pred HHHHHHHHCCC-CEEEEcCcccchhHHHHHHHHhhccCCeEEe-ecCCCCHHHHHHHHHHHHHhCCCCEEEEECC
Confidence 33344444454 5666655544434444444444334443321 1111121 23344455555566666654
No 292
>PRK00131 aroK shikimate kinase; Reviewed
Probab=46.45 E-value=29 Score=22.76 Aligned_cols=32 Identities=13% Similarity=0.041 Sum_probs=27.4
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
....+.|+.++.=+.....++..+++|++...
T Consensus 5 ~~i~l~G~~GsGKstla~~La~~l~~~~~d~d 36 (175)
T PRK00131 5 PNIVLIGFMGAGKSTIGRLLAKRLGYDFIDTD 36 (175)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHhCCCEEECh
Confidence 47888999999888888889999999999754
No 293
>COG0409 HypD Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=46.00 E-value=16 Score=27.68 Aligned_cols=43 Identities=12% Similarity=0.195 Sum_probs=30.6
Q ss_pred HHHHHhhC--CcEEEEcCCCCCc---HHHHHHhhcccCCCceeeccCC
Q psy18065 5 TMCRQLQN--GVQALFGPSDALL---GPHVQSICEALDVPHMESRLDL 47 (149)
Q Consensus 5 ~~c~~~~~--~v~aiiGp~~s~~---~~~v~~~~~~~~iP~is~~~~~ 47 (149)
+++.++++ .+.|+|+|..-+. ..+...++..|++|++-.|+.|
T Consensus 176 a~e~Ll~~~~~idafi~PGHVStIiG~kpY~~la~ky~~P~VVaGFEP 223 (364)
T COG0409 176 AVEALLESEVLIDAFLAPGHVSTIIGTKPYEFLAEKYKFPIVVAGFEP 223 (364)
T ss_pred HHHHHHhccccccceeccceeEEEecccccHHHHHhcCCCeEEecCCH
Confidence 34555544 6888888876333 4467789999999999988653
No 294
>PRK09492 treR trehalose repressor; Provisional
Probab=45.85 E-value=1.1e+02 Score=22.13 Aligned_cols=126 Identities=7% Similarity=-0.052 Sum_probs=66.4
Q ss_pred hhCCcEEEEcCC-CCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec-
Q psy18065 10 LQNGVQALFGPS-DALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE- 87 (149)
Q Consensus 10 ~~~~v~aiiGp~-~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~- 87 (149)
.+.++.++|--. +.... .....+++|.+..+... +.. -.+.+.+..-+...++.+...|-++++++...
T Consensus 115 ~~~~vdgiIi~~~~~~~~----~~l~~~~~pvv~i~~~~--~~~---~~V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~ 185 (315)
T PRK09492 115 KRRNVDGVILFGFTGITE----EMLAPWQDKLVLLARDA--KGF---SSVCYDDEGAIKLLMQRLYDQGHRHISYLGVDH 185 (315)
T ss_pred HhcCCCEEEEeCCCcccH----HHHHhcCCCEEEEeccC--CCC---cEEEECcHHHHHHHHHHHHHcCCCeEEEEcCCc
Confidence 345677777532 22222 22334567887765321 111 23445555566667777766799999999632
Q ss_pred -C--cchhhHHHHHhCCCCCCceEEEEe--cCCCchHHHHHHHHhCCCceEEEecCchhHHHH
Q psy18065 88 -D--NGLFKLQELVKTPPTLKTEMYIRH--ANPSTYRNVLREIRQKEIFNLIIDTSTTHISQF 145 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~~~v~~~~--~~~~d~~~~l~~i~~~~~~~iil~~~~~~~~~i 145 (149)
+ .+..+.+.+.+.+++.|+.+.... .+..+-...++++.+..++.|+.. +...+..+
T Consensus 186 ~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~ai~~~-~D~~A~g~ 247 (315)
T PRK09492 186 SDVTTGKRRHQAYLAFCKQHKLTPVAALGGLSMQSGYELVAKVLTPETTALVCA-TDTLALGA 247 (315)
T ss_pred ccchhHHHHHHHHHHHHHHcCCCceeecCCCCchHHHHHHHHHhhcCCCEEEEc-CcHHHHHH
Confidence 2 235677777777766776543211 111222344555544455555433 33444333
No 295
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=45.70 E-value=77 Score=23.39 Aligned_cols=14 Identities=7% Similarity=0.278 Sum_probs=5.6
Q ss_pred HHHHHhCCCceEEE
Q psy18065 122 LREIRQKEIFNLII 135 (149)
Q Consensus 122 l~~i~~~~~~~iil 135 (149)
++.+.+.+.+.||+
T Consensus 113 ~~~l~~~~vdgiIi 126 (342)
T PRK10014 113 FSTLLNQGVDGVVI 126 (342)
T ss_pred HHHHHhCCCCEEEE
Confidence 33333334444444
No 296
>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=45.70 E-value=54 Score=23.29 Aligned_cols=72 Identities=15% Similarity=0.166 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceE-EEEecCCCchHHHHHHHHhCCCceEEEec
Q psy18065 64 LLNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEM-YIRHANPSTYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 64 ~~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v-~~~~~~~~d~~~~l~~i~~~~~~~iil~~ 137 (149)
.+..++.+.++.+|+.-+ +...++....-...++.+...++.- .+...+.....+.++.+++.+..+|+++.
T Consensus 16 ~~~~~i~~~~~~~g~~v~--~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~ 88 (282)
T cd06318 16 ALTEAAKAHAKALGYELI--STDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAAKAAGVPVVVVDS 88 (282)
T ss_pred HHHHHHHHHHHHcCCEEE--EEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHHHHCCCCEEEecC
Confidence 355666777777887532 2222222211112222222223321 12122222234667777777766666665
No 297
>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=45.51 E-value=1.2e+02 Score=22.07 Aligned_cols=96 Identities=11% Similarity=0.012 Sum_probs=53.3
Q ss_pred HhhCCcEEEEcC-CCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhc-C-CcEEEEEe
Q psy18065 9 QLQNGVQALFGP-SDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFL-N-WTKVAIVY 85 (149)
Q Consensus 9 ~~~~~v~aiiGp-~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~-~-W~~v~vi~ 85 (149)
++..++.+||-. ..+.........+...++|++............ .....+.+...+...++.+... + =++++++.
T Consensus 52 ~~~~~~DgiIi~~~~~~~~~~~~~~~~~~~iPvV~v~~~~~~~~~~-~~~v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~ 130 (298)
T cd06302 52 LIAQGVDAIAVVPNDPDALEPVLKKAREAGIKVVTHDSDVQPDNRD-YDIEQADNKAIGETLMDSLAEQMGGKGEYAIFV 130 (298)
T ss_pred HHhcCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEEcCCCCCCcce-eEEeccCHHHHHHHHHHHHHHHcCCCCEEEEEe
Confidence 345567766653 222211233233567899999876432111111 2334566666777777766544 4 36899987
Q ss_pred ec-C--cchhhHHHHHhCCCCCC
Q psy18065 86 EE-D--NGLFKLQELVKTPPTLK 105 (149)
Q Consensus 86 ~~-~--~~~~~l~~l~~~~~~~~ 105 (149)
.. + ....+.+.+.+.++++|
T Consensus 131 g~~~~~~~~~R~~Gf~~~l~~~g 153 (298)
T cd06302 131 GSLTATNQNAWIDAAKAYQKEKY 153 (298)
T ss_pred CCCCCcchHHHHHHHHHHHhhcC
Confidence 53 2 23456677777666655
No 298
>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=45.40 E-value=1e+02 Score=21.65 Aligned_cols=71 Identities=8% Similarity=0.051 Sum_probs=31.6
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEE-EEecCCCchHHHHHHHHhCCCceEEEec
Q psy18065 63 KLLNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMY-IRHANPSTYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 63 ~~~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~-~~~~~~~d~~~~l~~i~~~~~~~iil~~ 137 (149)
..+..++.+.++.+||+=+.. ..++..... .++.+.+...++.-. +...... ...++++++.+..+|.++.
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~-~~~~~~~~~-~~~i~~l~~~~~dgiii~~~~~~--~~~~~~~~~~~ipvV~i~~ 86 (270)
T cd06296 15 SEVLRGVEEAAAAAGYDVVLS-ESGRRTSPE-RQWVERLSARRTDGVILVTPELT--SAQRAALRRTGIPFVVVDP 86 (270)
T ss_pred HHHHHHHHHHHHHcCCeEEEe-cCCCchHHH-HHHHHHHHHcCCCEEEEecCCCC--hHHHHHHhcCCCCEEEEec
Confidence 345667777777788754332 222212111 122222212222211 1111112 2457777777766666654
No 299
>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=45.40 E-value=46 Score=23.57 Aligned_cols=15 Identities=7% Similarity=-0.008 Sum_probs=7.3
Q ss_pred HHHHHHHHHHhcCCc
Q psy18065 65 LNAAFKDVIRFLNWT 79 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~ 79 (149)
+..++-..++.+|..
T Consensus 19 l~~gi~~~~~~~gy~ 33 (260)
T cd06304 19 AYEGLEKAEKELGVE 33 (260)
T ss_pred HHHHHHHHHHhcCce
Confidence 334455555555543
No 300
>PRK06547 hypothetical protein; Provisional
Probab=45.39 E-value=58 Score=22.04 Aligned_cols=30 Identities=7% Similarity=-0.080 Sum_probs=25.0
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCcee
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHME 42 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is 42 (149)
.+++|.|+++|.=|.....+++..++|.++
T Consensus 16 ~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~ 45 (172)
T PRK06547 16 ITVLIDGRSGSGKTTLAGALAARTGFQLVH 45 (172)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHhCCCeec
Confidence 377888999988888888888888888776
No 301
>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=45.23 E-value=1.4e+02 Score=22.90 Aligned_cols=71 Identities=10% Similarity=-0.005 Sum_probs=41.4
Q ss_pred HHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecC---C----CchHHHHHHHHhCCCc---eEEEec
Q psy18065 68 AFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHAN---P----STYRNVLREIRQKEIF---NLIIDT 137 (149)
Q Consensus 68 ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~---~----~d~~~~l~~i~~~~~~---~iil~~ 137 (149)
-+.+.++.++-+++.++++..-.....+.+.+.++..|+.+....++ + +...+++..+++.+.+ .||-.+
T Consensus 13 ~l~~~l~~~g~~rvlvVtd~~v~~~~~~~l~~~L~~~g~~~~~~~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~IIAvG 92 (355)
T cd08197 13 SVLGYLPELNADKYLLVTDSNVEDLYGHRLLEYLREAGAPVELLSVPSGEEHKTLSTLSDLVERALALGATRRSVIVALG 92 (355)
T ss_pred HHHHHHHhcCCCeEEEEECccHHHHHHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEEEC
Confidence 34566676777888888876422224455555555555543322221 1 2466777788888776 666655
Q ss_pred C
Q psy18065 138 S 138 (149)
Q Consensus 138 ~ 138 (149)
-
T Consensus 93 G 93 (355)
T cd08197 93 G 93 (355)
T ss_pred C
Confidence 3
No 302
>PRK13949 shikimate kinase; Provisional
Probab=45.21 E-value=29 Score=23.31 Aligned_cols=30 Identities=13% Similarity=0.081 Sum_probs=26.3
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
.+++|+.++.=+.....++..++.|++...
T Consensus 4 I~liG~~GsGKstl~~~La~~l~~~~id~D 33 (169)
T PRK13949 4 IFLVGYMGAGKTTLGKALARELGLSFIDLD 33 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCCeeccc
Confidence 789999998888888889999999998854
No 303
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=44.75 E-value=33 Score=22.08 Aligned_cols=30 Identities=20% Similarity=0.194 Sum_probs=25.9
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
..++|+.++.-+.....++..+++|++...
T Consensus 2 i~l~G~~GsGKstla~~la~~l~~~~~~~d 31 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAKALGLPFVDLD 31 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHHHhCCCEEEch
Confidence 578899999988888899999999998754
No 304
>PF11735 CAP59_mtransfer: Cryptococcal mannosyltransferase 1 ; InterPro: IPR021047 The capsule of pathogenic fungi is a complex polysaccharide whose formation is determined by a number of enzymes including, most importantly, alpha-1,3-mannosyltransferase 1 [, ]. It is responsible for addition of mannose residues in an alpha-1,3 linkage to a polymannosly precursor.
Probab=44.19 E-value=72 Score=23.09 Aligned_cols=46 Identities=26% Similarity=0.297 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHhcCCcEEEE-EeecC---cchhhHHHHHhCCCCCCceEE
Q psy18065 64 LLNAAFKDVIRFLNWTKVAI-VYEED---NGLFKLQELVKTPPTLKTEMY 109 (149)
Q Consensus 64 ~~~~ai~~ll~~~~W~~v~v-i~~~~---~~~~~l~~l~~~~~~~~~~v~ 109 (149)
..+.+++++++..|=..|.+ ||+++ .....|+.+...+...|+.-.
T Consensus 18 ~~~~~ll~li~~LGp~nv~vSIyE~~S~D~T~~~L~~L~~~L~~lgv~~~ 67 (241)
T PF11735_consen 18 LWGDALLELIRFLGPENVFVSIYESGSWDGTKEALRALDAELDALGVPHS 67 (241)
T ss_pred HHHHHHHHHHHHhCcCeEEEEEEeCCCCccHHHHHHHHHHHHHhCCCCeE
Confidence 35679999999999999988 89874 234556666655555565433
No 305
>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=44.15 E-value=1.1e+02 Score=23.39 Aligned_cols=70 Identities=14% Similarity=0.112 Sum_probs=42.4
Q ss_pred HHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHhCCCceEEEecC
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
.-+.+.++.+|.+++.++++..-. ....+.+.++..++.+... .+. + +...+....+++.+++.||-.+-
T Consensus 12 ~~l~~~~~~~g~~~~livtd~~~~--~~~~~~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGG 86 (367)
T cd08182 12 AKLPSLLKGLGGKRVLLVTGPRSA--IASGLTDILKPLGTLVVVFDDVQPNPDLEDLAAGIRLLREFGPDAVLAVGG 86 (367)
T ss_pred HHHHHHHHhcCCCeEEEEeCchHH--HHHHHHHHHHHcCCeEEEEcCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCC
Confidence 345677788888999999876321 2222333333345544332 232 2 34667778888888999987663
No 306
>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=44.09 E-value=1e+02 Score=21.68 Aligned_cols=19 Identities=16% Similarity=0.031 Sum_probs=12.4
Q ss_pred hHHHHHHHHHHHhcCCcEE
Q psy18065 63 KLLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 63 ~~~~~ai~~ll~~~~W~~v 81 (149)
..+..++.+.++.+||+-.
T Consensus 15 ~~~~~gi~~~~~~~gy~v~ 33 (269)
T cd06293 15 AELADAVEEEADARGLSLV 33 (269)
T ss_pred HHHHHHHHHHHHHCCCEEE
Confidence 3456677777777776653
No 307
>PF03096 Ndr: Ndr family; InterPro: IPR004142 This family consists of proteins from different gene families: Ndr1/RTP/Drg1, Ndr2, and Ndr3. Their similarity was previously noted []. The precise molecular and cellular function of members of this family is still unknown, yet they are known to be involved in cellular differentiation events. The Ndr1 group was the first to be discovered. Their expression is repressed by the proto-oncogenes N-myc and c-myc, and in line with this observation, Ndr1 protein expression is down-regulated in neoplastic cells, and is reactivated when differentiation is induced by chemicals such as retinoic acid. Ndr2 and Ndr3 expression is not under the control of N-myc or c-myc. Ndr1 expression is also activated by several chemicals: tunicamycin and homocysteine induce Ndr1 in human umbilical endothelial cells; nickel induces Ndr1 in several cell types. Members of this family are found in wide variety of multicellular eukaryotes, including an Ndr1 type protein in Helianthus annuus (Common sunflower), known as Sf21. Interestingly, the highest scoring matches in the noise are all alpha/beta hydrolases (IPR000073 from INTERPRO), suggesting that this family may have an enzymatic function.; PDB: 2QMQ_A 2XMR_B 2XMQ_B 2XMS_A.
Probab=43.90 E-value=21 Score=26.47 Aligned_cols=60 Identities=15% Similarity=0.161 Sum_probs=31.8
Q ss_pred HHHHHhhcccCCCceee-ccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeec
Q psy18065 27 PHVQSICEALDVPHMES-RLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE 87 (149)
Q Consensus 27 ~~v~~~~~~~~iP~is~-~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~ 87 (149)
...+.+...+-+=||.. |-...+...|-- -..|+-+.+++.+.+++.|||+++|.-+..+
T Consensus 47 ~~m~~i~~~f~i~Hi~aPGqe~ga~~~p~~-y~yPsmd~LAe~l~~Vl~~f~lk~vIg~GvG 107 (283)
T PF03096_consen 47 EDMQEILQNFCIYHIDAPGQEEGAATLPEG-YQYPSMDQLAEMLPEVLDHFGLKSVIGFGVG 107 (283)
T ss_dssp HHHHHHHTTSEEEEEE-TTTSTT-----TT------HHHHHCTHHHHHHHHT---EEEEEET
T ss_pred hhHHHHhhceEEEEEeCCCCCCCccccccc-ccccCHHHHHHHHHHHHHhCCccEEEEEeec
Confidence 44566677776777763 221111111100 1458888899999999999999998877665
No 308
>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=43.85 E-value=64 Score=22.29 Aligned_cols=18 Identities=11% Similarity=0.150 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHhcCCcEE
Q psy18065 64 LLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 64 ~~~~ai~~ll~~~~W~~v 81 (149)
....++.+.++.+||+-+
T Consensus 16 ~~~~g~~~~~~~~g~~~~ 33 (264)
T cd06267 16 ELLRGIEEAAREAGYSVL 33 (264)
T ss_pred HHHHHHHHHHHHcCCEEE
Confidence 345566666666776644
No 309
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=43.77 E-value=43 Score=19.66 Aligned_cols=48 Identities=13% Similarity=0.030 Sum_probs=29.9
Q ss_pred hhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCch
Q psy18065 92 FKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTSTT 140 (149)
Q Consensus 92 ~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~~ 140 (149)
.....+.+.++..|+.+.+.. ....+...++.....+...+++.+..+
T Consensus 16 ~~a~~l~~~L~~~gi~v~~d~-~~~~~~k~~~~a~~~g~p~~iiiG~~e 63 (94)
T PF03129_consen 16 EYAQELANKLRKAGIRVELDD-SDKSLGKQIKYADKLGIPFIIIIGEKE 63 (94)
T ss_dssp HHHHHHHHHHHHTTSEEEEES-SSSTHHHHHHHHHHTTESEEEEEEHHH
T ss_pred HHHHHHHHHHHHCCCEEEEEC-CCCchhHHHHHHhhcCCeEEEEECchh
Confidence 334455555556676665533 345677888888777777777766443
No 310
>KOG1533|consensus
Probab=43.67 E-value=45 Score=24.41 Aligned_cols=39 Identities=18% Similarity=0.233 Sum_probs=28.6
Q ss_pred EEEEcCCCC---CcHHHHHHhhcccCCCceeeccCCCCCCcc
Q psy18065 15 QALFGPSDA---LLGPHVQSICEALDVPHMESRLDLELNSKE 53 (149)
Q Consensus 15 ~aiiGp~~s---~~~~~v~~~~~~~~iP~is~~~~~~~~~~~ 53 (149)
.+||||.+| +-+.....+.+..+-|......+|.++.-+
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr~~~vVNLDPaNd~~~ 46 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGRPVAVVNLDPANDNLP 46 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCCceEEEecCCcccCCC
Confidence 578999884 456677778888888888888777544333
No 311
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=43.60 E-value=34 Score=25.64 Aligned_cols=28 Identities=11% Similarity=0.280 Sum_probs=25.5
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCc
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPH 40 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~ 40 (149)
.++.|+|+.+|+.+..+..+|...+.|.
T Consensus 212 D~miVVGg~~SsNT~kL~~i~~~~~~~t 239 (298)
T PRK01045 212 DLVIVVGSKNSSNSNRLREVAEEAGAPA 239 (298)
T ss_pred CEEEEECCCCCccHHHHHHHHHHHCCCE
Confidence 5899999999999999999999998774
No 312
>KOG0731|consensus
Probab=43.45 E-value=33 Score=29.18 Aligned_cols=34 Identities=21% Similarity=0.242 Sum_probs=28.9
Q ss_pred hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeecc
Q psy18065 11 QNGVQALFGPSDALLGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 11 ~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~ 45 (149)
.+| +.+.||.++.=+.-...+|++.++|+++.+.
T Consensus 344 PkG-vLL~GPPGTGKTLLAKAiAGEAgVPF~svSG 377 (774)
T KOG0731|consen 344 PKG-VLLVGPPGTGKTLLAKAIAGEAGVPFFSVSG 377 (774)
T ss_pred cCc-eEEECCCCCcHHHHHHHHhcccCCceeeech
Confidence 345 6678999999999999999999999999753
No 313
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=43.40 E-value=63 Score=22.09 Aligned_cols=41 Identities=10% Similarity=0.020 Sum_probs=30.2
Q ss_pred HHHHHhh--CCcEEEEcCCCCC---cHHHHHHhhcccCCCceeecc
Q psy18065 5 TMCRQLQ--NGVQALFGPSDAL---LGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 5 ~~c~~~~--~~v~aiiGp~~s~---~~~~v~~~~~~~~iP~is~~~ 45 (149)
.+.+++. ++.+.++|..... ....+..+++.+++|.++...
T Consensus 26 ~aa~lI~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~ 71 (171)
T PRK00945 26 IAAMMIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGG 71 (171)
T ss_pred HHHHHHHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEccc
Confidence 3445553 4688888986644 567789999999999998654
No 314
>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=43.34 E-value=1.5e+02 Score=22.76 Aligned_cols=72 Identities=13% Similarity=0.138 Sum_probs=45.1
Q ss_pred HHHHHHHHhcCCcEEEEEeecCc-chhhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHhCCCceEEEecC
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEEDN-GLFKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~~-~~~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
..+.+.++.+|-+++.++++..- .....+.+.+.++..|+.+... .+. + +...+..+.++..+++.||-.+-
T Consensus 17 ~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGG 94 (377)
T cd08176 17 KEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISIGG 94 (377)
T ss_pred HHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 45667788888888888876532 1123444555444456655432 232 2 34677788888899999997663
No 315
>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=43.31 E-value=1.3e+02 Score=21.99 Aligned_cols=9 Identities=11% Similarity=0.087 Sum_probs=3.8
Q ss_pred CCceEEEec
Q psy18065 129 EIFNLIIDT 137 (149)
Q Consensus 129 ~~~~iil~~ 137 (149)
+.+.||+.+
T Consensus 57 ~~d~ivv~G 65 (293)
T TIGR00147 57 GVDTVIAGG 65 (293)
T ss_pred CCCEEEEEC
Confidence 344444433
No 316
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=43.15 E-value=1.2e+02 Score=21.69 Aligned_cols=63 Identities=10% Similarity=0.124 Sum_probs=38.1
Q ss_pred CCcEEEEEeecCcchhhHHHHHhCCCCCCce-EEEEecCCCchHHHHHHHHhCCCceEEEecCc
Q psy18065 77 NWTKVAIVYEEDNGLFKLQELVKTPPTLKTE-MYIRHANPSTYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 77 ~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~-v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
+..-+.+.|-+..-..+++.+.+.+.+.|+. +.+..++.++..+.++.+++.+.+.+++..+.
T Consensus 76 ~~pv~lm~y~n~~~~~G~~~fi~~~~~aG~~giiipDl~~ee~~~~~~~~~~~g~~~i~~i~P~ 139 (242)
T cd04724 76 TIPIVLMGYYNPILQYGLERFLRDAKEAGVDGLIIPDLPPEEAEEFREAAKEYGLDLIFLVAPT 139 (242)
T ss_pred CCCEEEEEecCHHHHhCHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHHcCCcEEEEeCCC
Confidence 4443333465543334455566555555554 33445555677888899999998888876654
No 317
>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=42.82 E-value=1.5e+02 Score=22.59 Aligned_cols=70 Identities=16% Similarity=0.081 Sum_probs=43.9
Q ss_pred HHHHHHHhcCCcEEEEEeecCc-c-hhhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHhCCCceEEEecC
Q psy18065 68 AFKDVIRFLNWTKVAIVYEEDN-G-LFKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 68 ai~~ll~~~~W~~v~vi~~~~~-~-~~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
-+-++++.+| +++.++.+..- . ...++.+.+.++..|+.+... .+. + ++..+..+..++.+++.||-.+-
T Consensus 16 ~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGG 92 (357)
T cd08181 16 KHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEENPSLETIMEAVEIAKKFNADFVIGIGG 92 (357)
T ss_pred HHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4556777778 88888887532 2 222344555554556655432 232 2 35677888889999999998773
No 318
>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=42.64 E-value=1.2e+02 Score=21.34 Aligned_cols=71 Identities=10% Similarity=0.170 Sum_probs=33.2
Q ss_pred hhHHHHHHHHHHHhcCCcEEEEEeecCcc-hhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEec
Q psy18065 62 QKLLNAAFKDVIRFLNWTKVAIVYEEDNG-LFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 62 ~~~~~~ai~~ll~~~~W~~v~vi~~~~~~-~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~ 137 (149)
...+..++.+.++.+||+-+....+++.. ...+...+....-.|+-+. .. +..+.+..+++.+..+|.++.
T Consensus 17 ~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~--~~---~~~~~~~~l~~~~ipvV~~~~ 88 (268)
T cd06277 17 YSEIYRAIEEEAKKYGYNLILKFVSDEDEEEFELPSFLEDGKVDGIILL--GG---ISTEYIKEIKELGIPFVLVDH 88 (268)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHCCCCEEEEe--CC---CChHHHHHHhhcCCCEEEEcc
Confidence 34456677777888888655444333221 1111111111112222221 11 112347777777766666654
No 319
>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=42.63 E-value=83 Score=22.03 Aligned_cols=73 Identities=10% Similarity=0.102 Sum_probs=33.6
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecC
Q psy18065 63 KLLNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 63 ~~~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
.....++.+.++.+||+-+.+ ..++ ....-..+.+.+...++.-.+.. +.......++++++.+..+|+++..
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~-~~~~-~~~~~~~~~~~l~~~~vdgiIi~-~~~~~~~~~~~l~~~~ipvV~~~~~ 87 (265)
T cd06299 15 ASLATAIQDAASAAGYSTIIG-NSDE-NPETENRYLDNLLSQRVDGIIVV-PHEQSAEQLEDLLKRGIPVVFVDRE 87 (265)
T ss_pred HHHHHHHHHHHHHcCCEEEEE-eCCC-CHHHHHHHHHHHHhcCCCEEEEc-CCCCChHHHHHHHhCCCCEEEEecc
Confidence 345667777778888854433 2221 11111122222222233211111 1111124577888777767766543
No 320
>PRK09492 treR trehalose repressor; Provisional
Probab=42.62 E-value=1.2e+02 Score=21.97 Aligned_cols=59 Identities=12% Similarity=0.158 Sum_probs=32.9
Q ss_pred cEEEEEeec-C--cchhhHHHHHhCCCCCCceEEEEecC--CCchHHHHHHHHhCCCceEEEec
Q psy18065 79 TKVAIVYEE-D--NGLFKLQELVKTPPTLKTEMYIRHAN--PSTYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 79 ~~v~vi~~~-~--~~~~~l~~l~~~~~~~~~~v~~~~~~--~~d~~~~l~~i~~~~~~~iil~~ 137 (149)
+.|+++..+ + +....++.+.+.+.++|+.+.+.... .....+.+..+.+.+.+.+|+..
T Consensus 63 ~~Ig~i~~~~~~~~~~~~~~~i~~~~~~~gy~~~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~ 126 (315)
T PRK09492 63 KVVGIIVSRLDSLSENQAVRTMLPAFYEQGYDPIIMESQFSPEKVNEHLGVLKRRNVDGVILFG 126 (315)
T ss_pred CeEEEEecCCcCcccHHHHHHHHHHHHHcCCeEEEEecCCChHHHHHHHHHHHhcCCCEEEEeC
Confidence 457777653 2 23344555555666667666543322 12234556667777777777754
No 321
>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=42.56 E-value=81 Score=22.23 Aligned_cols=73 Identities=5% Similarity=0.084 Sum_probs=34.0
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEeec-Cc-ch-hhHHHHHhCCCCCCceEEEEec-CC-CchHHHHHHHHhCCCceEEEec
Q psy18065 63 KLLNAAFKDVIRFLNWTKVAIVYEE-DN-GL-FKLQELVKTPPTLKTEMYIRHA-NP-STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 63 ~~~~~ai~~ll~~~~W~~v~vi~~~-~~-~~-~~l~~l~~~~~~~~~~v~~~~~-~~-~d~~~~l~~i~~~~~~~iil~~ 137 (149)
..+..++.+.++.+||.-+ +...+ +. .. ..++.+... .-.|+-+ .... +. ....+.+..+.+.+..+|.++.
T Consensus 15 ~~~~~gi~~~~~~~g~~~~-~~~~~~~~~~~~~~i~~l~~~-~vdgiIi-~~~~~~~~~~~~~~i~~~~~~~ipvV~i~~ 91 (273)
T cd06292 15 PAFAEAIEAALAQYGYTVL-LCNTYRGGVSEADYVEDLLAR-GVRGVVF-ISSLHADTHADHSHYERLAERGLPVVLVNG 91 (273)
T ss_pred HHHHHHHHHHHHHCCCEEE-EEeCCCChHHHHHHHHHHHHc-CCCEEEE-eCCCCCcccchhHHHHHHHhCCCCEEEEcC
Confidence 3466778888888888743 22222 21 11 222233332 1122211 1111 11 1234556777777776777765
Q ss_pred C
Q psy18065 138 S 138 (149)
Q Consensus 138 ~ 138 (149)
.
T Consensus 92 ~ 92 (273)
T cd06292 92 R 92 (273)
T ss_pred C
Confidence 3
No 322
>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=42.55 E-value=66 Score=22.60 Aligned_cols=20 Identities=15% Similarity=0.282 Sum_probs=12.3
Q ss_pred hHHHHHHHHhCCCceEEEec
Q psy18065 118 YRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 118 ~~~~l~~i~~~~~~~iil~~ 137 (149)
..+.+..+++.+..+|.++.
T Consensus 69 ~~~~~~~~~~~~ipvV~~~~ 88 (267)
T cd06322 69 IRAAIAKAKKAGIPVITVDI 88 (267)
T ss_pred hHHHHHHHHHCCCCEEEEcc
Confidence 35566777776655666654
No 323
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=42.50 E-value=37 Score=25.18 Aligned_cols=28 Identities=18% Similarity=0.183 Sum_probs=25.1
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCc
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPH 40 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~ 40 (149)
.++.|+|+.+|+.+..+..+|...+.|.
T Consensus 211 D~miVVGg~~SsNT~rL~eia~~~~~~t 238 (281)
T PRK12360 211 DVMIVIGGKHSSNTQKLVKICEKNCPNT 238 (281)
T ss_pred CEEEEecCCCCccHHHHHHHHHHHCCCE
Confidence 4889999999999999999999988663
No 324
>COG1064 AdhP Zn-dependent alcohol dehydrogenases [General function prediction only]
Probab=42.41 E-value=60 Score=24.85 Aligned_cols=53 Identities=11% Similarity=0.053 Sum_probs=34.3
Q ss_pred cEEEEEeecCcchhhHHHHHhCCCCCCceEEE-EecCCCchHHHHHHHHhCCCc
Q psy18065 79 TKVAIVYEEDNGLFKLQELVKTPPTLKTEMYI-RHANPSTYRNVLREIRQKEIF 131 (149)
Q Consensus 79 ~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~-~~~~~~d~~~~l~~i~~~~~~ 131 (149)
+.+.+..+-..+...++++++...+.++...+ +.++.++..+.+++|++...+
T Consensus 277 ~~~~i~GS~~g~~~d~~e~l~f~~~g~Ikp~i~e~~~l~~in~A~~~m~~g~v~ 330 (339)
T COG1064 277 KEISIVGSLVGTRADLEEALDFAAEGKIKPEILETIPLDEINEAYERMEKGKVR 330 (339)
T ss_pred cCeEEEEEecCCHHHHHHHHHHHHhCCceeeEEeeECHHHHHHHHHHHHcCCee
Confidence 34444444444566777777777777776666 456556788888888876543
No 325
>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=42.30 E-value=1.1e+02 Score=23.50 Aligned_cols=71 Identities=11% Similarity=-0.053 Sum_probs=44.1
Q ss_pred HHHHHHHHhcCCcEEEEEeecCcch-hhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHhCCCceEEEec
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEEDNGL-FKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~~~~-~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~~~~~~iil~~ 137 (149)
..+-+.++.+|.+++.++.+..-.. ...+.+.+.++..|+.+... .+. + ++..+.+...+..+.+.||-.+
T Consensus 17 ~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiG 93 (377)
T cd08188 17 KLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPNPRDEEVMAGAELYLENGCDVIIAVG 93 (377)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 4566677888999999998753211 12344444444445544332 232 2 3466778888888999998766
No 326
>PRK10558 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional
Probab=42.29 E-value=1.3e+02 Score=21.85 Aligned_cols=87 Identities=6% Similarity=0.078 Sum_probs=57.8
Q ss_pred EEEecCChhHHHHHHHHHHHhcCCcEEEEEeec-CcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceE
Q psy18065 55 SVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNL 133 (149)
Q Consensus 55 ~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~i 133 (149)
.+...|++ .+++++-+-|+-+|.+=.+. ..+...++.+....+..|... +-|++..|. ..+++..+.++..|
T Consensus 23 ~~~~~~sp-----~~~e~~a~~G~D~v~iD~EHg~~~~~~~~~~i~a~~~~g~~~-lVRvp~~~~-~~i~r~LD~Ga~gi 95 (256)
T PRK10558 23 CWSALANP-----ITTEVLGLAGFDWLVLDGEHAPNDVSTFIPQLMALKGSASAP-VVRVPTNEP-VIIKRLLDIGFYNF 95 (256)
T ss_pred EEEcCCCc-----HHHHHHHhcCCCEEEEccccCCCCHHHHHHHHHHHhhcCCCc-EEECCCCCH-HHHHHHhCCCCCee
Confidence 34445653 67888888888887774444 456667777777766666544 336665554 55677778899899
Q ss_pred EE-ec-CchhHHHHHhh
Q psy18065 134 II-DT-STTHISQFFRA 148 (149)
Q Consensus 134 il-~~-~~~~~~~il~q 148 (149)
++ ++ +.+.+..+.+.
T Consensus 96 ivP~v~tae~a~~~v~a 112 (256)
T PRK10558 96 LIPFVETAEEARRAVAS 112 (256)
T ss_pred eecCcCCHHHHHHHHHH
Confidence 88 44 45777777654
No 327
>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=42.25 E-value=1.3e+02 Score=21.75 Aligned_cols=98 Identities=8% Similarity=-0.033 Sum_probs=52.8
Q ss_pred HHhhCCcEEEEc-CCCCCc-HHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHh-cC----CcE
Q psy18065 8 RQLQNGVQALFG-PSDALL-GPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRF-LN----WTK 80 (149)
Q Consensus 8 ~~~~~~v~aiiG-p~~s~~-~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~-~~----W~~ 80 (149)
.++..++.++|= |..... ...+..+ . .++|++......... .....+......-+...+..+.. ++ =++
T Consensus 52 ~l~~~~vDgiIi~~~~~~~~~~~l~~~-~-~~iPvV~~~~~~~~~--~~~~~V~~D~~~~g~~~~~~L~~~~~~~~g~~~ 127 (295)
T TIGR02955 52 QCKSWGADAILLGTVSPEALNHDLAQL-T-KSIPVFALVNQIDSN--QVKGRVGVDWYQMGYQAGEYLAQRHPKGSGPTT 127 (295)
T ss_pred HHHHcCCCEEEEecCChhhhhHHHHHH-h-cCCCEEEEecCCCcc--ceeEEEeecHHHHHHHHHHHHHHhcccCCCCee
Confidence 345667777764 322221 2333433 3 389998864221111 11234555555566666665543 22 246
Q ss_pred EEEEeec-C--cchhhHHHHHhCCCCCCceEE
Q psy18065 81 VAIVYEE-D--NGLFKLQELVKTPPTLKTEMY 109 (149)
Q Consensus 81 v~vi~~~-~--~~~~~l~~l~~~~~~~~~~v~ 109 (149)
++++... + ....+.+.+.+.+++.|+.+.
T Consensus 128 I~~i~g~~~~~~~~~R~~Gf~~al~~~g~~~~ 159 (295)
T TIGR02955 128 LAWLPGPKNRGGTKPVTQGFRAALEGSDVEIS 159 (295)
T ss_pred EEEEeCCCcCCchhHHHHHHHHHHhcCCcEEE
Confidence 9998754 2 245677778877777776553
No 328
>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=42.23 E-value=81 Score=22.30 Aligned_cols=20 Identities=5% Similarity=0.059 Sum_probs=12.5
Q ss_pred hHHHHHHHHhCCCceEEEec
Q psy18065 118 YRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 118 ~~~~l~~i~~~~~~~iil~~ 137 (149)
..+.++.+++.+..+|.++.
T Consensus 71 ~~~~l~~~~~~~ipvV~~~~ 90 (271)
T cd06312 71 LDPAIKRAVAAGIPVISFNA 90 (271)
T ss_pred hHHHHHHHHHCCCeEEEeCC
Confidence 44567777777665666654
No 329
>PF00106 adh_short: short chain dehydrogenase alcohol dehydrogenase superfamily signature glucose/ribitol dehydrogenase family signature; InterPro: IPR002198 The short-chain dehydrogenases/reductases family (SDR) [] is a very large family of enzymes, most of which are known to be NAD- or NADP-dependent oxidoreductases. As the first member of this family to be characterised was Drosophila alcohol dehydrogenase, this family used to be called [, , ] 'insect-type', or 'short-chain' alcohol dehydrogenases. Most member of this family are proteins of about 250 to 300 amino acid residues. Most dehydrogenases possess at least 2 domains [], the first binding the coenzyme, often NAD, and the second binding the substrate. This latter domain determines the substrate specificity and contains amino acids involved in catalysis. Little sequence similarity has been found in the coenzyme binding domain although there is a large degree of structural similarity, and it has therefore been suggested that the structure of dehydrogenases has arisen through gene fusion of a common ancestral coenzyme nucleotide sequence with various substrate specific domains [].; GO: 0016491 oxidoreductase activity, 0008152 metabolic process; PDB: 3QWI_D 3QWF_G 3IS3_A 3QWH_C 3ITD_A 3L77_A 1HDC_C 2HSD_C 3KVO_A 3KZV_A ....
Probab=41.92 E-value=94 Score=20.03 Aligned_cols=63 Identities=11% Similarity=0.095 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCC---CchHHHHHHHHh
Q psy18065 64 LLNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANP---STYRNVLREIRQ 127 (149)
Q Consensus 64 ~~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~---~d~~~~l~~i~~ 127 (149)
-++.+++..+-.-|++.+.++..+ ......+++....+..+..+.+.+.+. ++.+.+++++..
T Consensus 11 giG~~~a~~l~~~g~~~v~~~~r~-~~~~~~~~l~~~l~~~~~~~~~~~~D~~~~~~~~~~~~~~~~ 76 (167)
T PF00106_consen 11 GIGRALARALARRGARVVILTSRS-EDSEGAQELIQELKAPGAKITFIECDLSDPESIRALIEEVIK 76 (167)
T ss_dssp HHHHHHHHHHHHTTTEEEEEEESS-CHHHHHHHHHHHHHHTTSEEEEEESETTSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCceEEEEeeec-cccccccccccccccccccccccccccccccccccccccccc
Confidence 478888886655488888887766 122233333332222334444444432 467788888773
No 330
>PRK13947 shikimate kinase; Provisional
Probab=41.63 E-value=39 Score=22.31 Aligned_cols=30 Identities=10% Similarity=0.082 Sum_probs=25.9
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
.+++|+.++.=+.....++..++.|++...
T Consensus 4 I~l~G~~GsGKst~a~~La~~lg~~~id~d 33 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKRVATTLSFGFIDTD 33 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHHhCCCEEECc
Confidence 678899998888888889999999998854
No 331
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=41.63 E-value=1.7e+02 Score=23.14 Aligned_cols=24 Identities=25% Similarity=0.373 Sum_probs=19.6
Q ss_pred CCcEEEEcCCCCCcHHHHHHhhcc
Q psy18065 12 NGVQALFGPSDALLGPHVQSICEA 35 (149)
Q Consensus 12 ~~v~aiiGp~~s~~~~~v~~~~~~ 35 (149)
.++++++||.+..=+..++.+++.
T Consensus 191 g~vi~lvGpnG~GKTTtlakLA~~ 214 (420)
T PRK14721 191 GGVYALIGPTGVGKTTTTAKLAAR 214 (420)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHH
Confidence 358999999998888888887775
No 332
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=41.37 E-value=84 Score=19.28 Aligned_cols=69 Identities=12% Similarity=0.049 Sum_probs=33.9
Q ss_pred HHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCC--CchHHHHHHHHhCCCceEEEec
Q psy18065 66 NAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANP--STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 66 ~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~--~d~~~~l~~i~~~~~~~iil~~ 137 (149)
...++.+++..|| ++.++-.+.......+.+.+. +-.-+.++.. ... ....++.+.+|+...+..++.+
T Consensus 17 l~~la~~l~~~G~-~v~~~d~~~~~~~l~~~~~~~-~pd~V~iS~~-~~~~~~~~~~l~~~~k~~~p~~~iv~G 87 (121)
T PF02310_consen 17 LLYLAAYLRKAGH-EVDILDANVPPEELVEALRAE-RPDVVGISVS-MTPNLPEAKRLARAIKERNPNIPIVVG 87 (121)
T ss_dssp HHHHHHHHHHTTB-EEEEEESSB-HHHHHHHHHHT-TCSEEEEEES-SSTHHHHHHHHHHHHHTTCTTSEEEEE
T ss_pred HHHHHHHHHHCCC-eEEEECCCCCHHHHHHHHhcC-CCcEEEEEcc-CcCcHHHHHHHHHHHHhcCCCCEEEEE
Confidence 3445668888888 444432222222223333333 2211223221 222 3567778888888777666554
No 333
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=41.02 E-value=76 Score=21.62 Aligned_cols=18 Identities=17% Similarity=0.143 Sum_probs=9.9
Q ss_pred HHHHHHhCCCceEEEecC
Q psy18065 121 VLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 121 ~l~~i~~~~~~~iil~~~ 138 (149)
....+++.+.-.|.+.+.
T Consensus 74 ~~~~~~~~~ip~v~~~~~ 91 (269)
T cd01391 74 VVELAAAAGIPVVSLDAT 91 (269)
T ss_pred HHHHHHHcCCcEEEecCC
Confidence 555666666555555443
No 334
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=40.78 E-value=1.4e+02 Score=21.78 Aligned_cols=14 Identities=0% Similarity=0.183 Sum_probs=5.5
Q ss_pred HHHHHhCCCceEEE
Q psy18065 122 LREIRQKEIFNLII 135 (149)
Q Consensus 122 l~~i~~~~~~~iil 135 (149)
++.+.+.+.-+|.+
T Consensus 134 ~~~l~~~~iPvV~v 147 (328)
T PRK11303 134 YQRLQNDGLPIIAL 147 (328)
T ss_pred HHHHHhcCCCEEEE
Confidence 44444443333333
No 335
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=40.68 E-value=38 Score=25.39 Aligned_cols=31 Identities=13% Similarity=0.185 Sum_probs=27.1
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCceee
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHMES 43 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~ 43 (149)
.+.+|.||+++.=+.....++..++.+.|+.
T Consensus 5 ~~i~i~GptgsGKt~la~~la~~~~~~iis~ 35 (307)
T PRK00091 5 KVIVIVGPTASGKTALAIELAKRLNGEIISA 35 (307)
T ss_pred eEEEEECCCCcCHHHHHHHHHHhCCCcEEec
Confidence 5899999999988888888999999888764
No 336
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=40.49 E-value=1.2e+02 Score=21.28 Aligned_cols=18 Identities=11% Similarity=0.318 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHhcCCcEE
Q psy18065 64 LLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 64 ~~~~ai~~ll~~~~W~~v 81 (149)
.+..++.+.++..|++=+
T Consensus 16 ~~~~~~~~~~~~~g~~~~ 33 (268)
T cd06298 16 ELARGIDDIATMYKYNII 33 (268)
T ss_pred HHHHHHHHHHHHcCCeEE
Confidence 345566666666777543
No 337
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=40.13 E-value=1e+02 Score=23.02 Aligned_cols=19 Identities=37% Similarity=0.471 Sum_probs=10.6
Q ss_pred hHHHHHHHHhCCCceEEEe
Q psy18065 118 YRNVLREIRQKEIFNLIID 136 (149)
Q Consensus 118 ~~~~l~~i~~~~~~~iil~ 136 (149)
..+.++.+++.+..+|+++
T Consensus 95 ~~~~l~~~~~~~iPvV~id 113 (330)
T PRK10355 95 LSNVIKEAKQEGIKVLAYD 113 (330)
T ss_pred HHHHHHHHHHCCCeEEEEC
Confidence 3455666666655455554
No 338
>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=39.93 E-value=1.5e+02 Score=21.66 Aligned_cols=127 Identities=9% Similarity=-0.004 Sum_probs=66.8
Q ss_pred hhCCcEEEEc-CCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEee-c
Q psy18065 10 LQNGVQALFG-PSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYE-E 87 (149)
Q Consensus 10 ~~~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~-~ 87 (149)
...++.++|- |....... ....+++|.+..+... .. + -.+.+.+..-+...++.+...|-++++++.. .
T Consensus 112 ~~~~vdGvIi~~~~~~~~~----~l~~~~~p~V~i~~~~--~~--~-~~V~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~ 182 (311)
T TIGR02405 112 QKRNVDGVILFGFTGCDEE----ILESWNHKAVVIARDT--GG--F-SSVCYDDYGAIELLMANLYQQGHRHISFLGVDP 182 (311)
T ss_pred HhcCCCEEEEeCCCCCCHH----HHHhcCCCEEEEecCC--CC--c-cEEEeCcHHHHHHHHHHHHHcCCCcEEEEccCc
Confidence 3445666653 32212222 2345678988765321 11 1 2355566566667777777779999999963 2
Q ss_pred -C--cchhhHHHHHhCCCCCCceEEEEe--cCCCchHHHHHHHHhCCCceEEEecCchhHHHHH
Q psy18065 88 -D--NGLFKLQELVKTPPTLKTEMYIRH--ANPSTYRNVLREIRQKEIFNLIIDTSTTHISQFF 146 (149)
Q Consensus 88 -~--~~~~~l~~l~~~~~~~~~~v~~~~--~~~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il 146 (149)
+ .+..+.+.+.+.+++.|+...... ....+-...++++.+.++..| +.++...+..++
T Consensus 183 ~~~~~~~~R~~gf~~a~~~~gi~~~~~~~~~~~~~~~~~~~~~l~~~~tAi-~~~~D~~A~g~~ 245 (311)
T TIGR02405 183 SDKTTGLMRHNAYLAYCESANLEPIYQTGQLSHESGYVLTDKVLKPETTAL-VCATDTLALGAA 245 (311)
T ss_pred ccchhHHHHHHHHHHHHHHcCCCceeeeCCCCHHHHHHHHHHHHhcCCCEE-EECCcHHHHHHH
Confidence 2 235677777777777776422211 111222344444434445444 444554444443
No 339
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=39.66 E-value=1.6e+02 Score=22.02 Aligned_cols=98 Identities=10% Similarity=0.024 Sum_probs=54.2
Q ss_pred HHhhCCcEEEE-cCCCCCcH-HHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHHhc-----CCcE
Q psy18065 8 RQLQNGVQALF-GPSDALLG-PHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFL-----NWTK 80 (149)
Q Consensus 8 ~~~~~~v~aii-Gp~~s~~~-~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~-----~W~~ 80 (149)
.++..++.+|| .|...... ..+ .+...++|++.+........ ....+.+.+...+...++.+... |=++
T Consensus 99 ~l~~~~vdgIIl~~~~~~~~~~~l--~~~~~giPvV~~~~~~~~~~--~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~ 174 (343)
T PRK10936 99 QCVAWGADAILLGAVTPDGLNPDL--ELQAANIPVIALVNGIDSPQ--VTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLN 174 (343)
T ss_pred HHHHhCCCEEEEeCCChHHhHHHH--HHHHCCCCEEEecCCCCCcc--ceEEEecChHHHHHHHHHHHHHHHHhcCCCce
Confidence 34456676665 34332221 223 35677899998643221111 12335566666667777755433 4689
Q ss_pred EEEEeecC---cchhhHHHHHhCCCCCCceEE
Q psy18065 81 VAIVYEED---NGLFKLQELVKTPPTLKTEMY 109 (149)
Q Consensus 81 v~vi~~~~---~~~~~l~~l~~~~~~~~~~v~ 109 (149)
++++..+. ....+.+.+.+..++.|+.+.
T Consensus 175 i~~i~g~~~~~~~~~R~~Gf~~~l~~~~i~~~ 206 (343)
T PRK10936 175 VALLPGPEGAGGSKAVEQGFRAAIAGSDVRIV 206 (343)
T ss_pred EEEEECCCCCchHHHHHHHHHHHHhcCCCEEE
Confidence 99987532 234566777776666676543
No 340
>COG3444 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIB [Carbohydrate transport and metabolism]
Probab=39.58 E-value=1.2e+02 Score=20.53 Aligned_cols=72 Identities=10% Similarity=0.086 Sum_probs=42.9
Q ss_pred HhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCchhHHHHHh
Q psy18065 74 RFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTSTTHISQFFR 147 (149)
Q Consensus 74 ~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~ 147 (149)
++.+-.++.++-|+-..-...+.++....-.|+.+.+..+ +.+-+.+++=+-.+.++++++-++.++..+.+
T Consensus 23 k~~~a~~IiVvnD~va~D~~rk~~lk~aaP~gvk~~~~~v--~k~i~~i~~~~~~~~~v~ll~~~p~d~~~lve 94 (159)
T COG3444 23 KELNANRIIVVNDEVANDDVRKTLLKQAAPPGVKLRFFSV--EKAIDVINKPKYDGQKVFLLFENPQDVLRLVE 94 (159)
T ss_pred hhcCCCEEEEEccccccCHHHHHHHHhhcCCceEEEEEEH--HHHHHHhcCCCCCCeEEEEEECCHHHHHHHHh
Confidence 4455556666655433444566777777666765554332 33444444444445667777778888887765
No 341
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=39.47 E-value=1.2e+02 Score=20.59 Aligned_cols=84 Identities=11% Similarity=0.103 Sum_probs=47.9
Q ss_pred hHHHHHHHHHHHhcCC------cEEEEEeecC-cc-hhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEE
Q psy18065 63 KLLNAAFKDVIRFLNW------TKVAIVYEED-NG-LFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLI 134 (149)
Q Consensus 63 ~~~~~ai~~ll~~~~W------~~v~vi~~~~-~~-~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~ii 134 (149)
+.+..++..-...++. +++.++.++. .+ .....++.+.+++.|+.+.+.-+.. + .++|++|-+.+--...
T Consensus 86 t~l~~aL~~A~~~l~~~~~~~~~~iiil~sd~~~~~~~~~~~~~~~l~~~~I~v~~IgiG~-~-~~~L~~ia~~tgG~~~ 163 (183)
T cd01453 86 PSLQNGLEMALESLKHMPSHGSREVLIIFSSLSTCDPGNIYETIDKLKKENIRVSVIGLSA-E-MHICKEICKATNGTYK 163 (183)
T ss_pred hhHHHHHHHHHHHHhcCCccCceEEEEEEcCCCcCChhhHHHHHHHHHHcCcEEEEEEech-H-HHHHHHHHHHhCCeeE
Confidence 5566666554444432 4577776652 22 1234455555666688776655543 2 3578888776544555
Q ss_pred EecCchhHHHHHhh
Q psy18065 135 IDTSTTHISQFFRA 148 (149)
Q Consensus 135 l~~~~~~~~~il~q 148 (149)
.-.+.+....++.+
T Consensus 164 ~~~~~~~l~~~~~~ 177 (183)
T cd01453 164 VILDETHLKELLLE 177 (183)
T ss_pred eeCCHHHHHHHHHh
Confidence 55555666666654
No 342
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=39.37 E-value=46 Score=24.87 Aligned_cols=32 Identities=13% Similarity=0.231 Sum_probs=28.3
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeecc
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~ 45 (149)
-+.+.||+++.-+.....+++..++|++..-+
T Consensus 153 nVLFyGppGTGKTm~Akalane~kvp~l~vka 184 (368)
T COG1223 153 NVLFYGPPGTGKTMMAKALANEAKVPLLLVKA 184 (368)
T ss_pred eeEEECCCCccHHHHHHHHhcccCCceEEech
Confidence 47888999999999999999999999988643
No 343
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=38.99 E-value=82 Score=18.50 Aligned_cols=40 Identities=15% Similarity=0.281 Sum_probs=24.7
Q ss_pred HHHHHhhCC--cEEEEcCCC-CCcHHHHHHhhcccCCCceeec
Q psy18065 5 TMCRQLQNG--VQALFGPSD-ALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 5 ~~c~~~~~~--v~aiiGp~~-s~~~~~v~~~~~~~~iP~is~~ 44 (149)
...+.+.+| -..|+.... ......+..+|+.++||.+.+.
T Consensus 18 ~v~kai~~gkaklViiA~D~~~~~~~~i~~~c~~~~Vp~~~~~ 60 (82)
T PRK13602 18 QTVKALKRGSVKEVVVAEDADPRLTEKVEALANEKGVPVSKVD 60 (82)
T ss_pred HHHHHHHcCCeeEEEEECCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence 344444432 344554444 3344557778999999998876
No 344
>PF08659 KR: KR domain; InterPro: IPR013968 This domain is found in bacterial polyketide synthases that catalyse the first step in the reductive modification of the beta-carbonyl centres in the growing polyketide chain. It uses NADPH to reduce the keto group to a hydroxy group. ; PDB: 3QP9_D 2FR0_A 2FR1_A 2Z5L_A 3SLK_B 3MJE_B 3MJC_A 3MJT_B 3MJV_A 3MJS_B ....
Probab=38.98 E-value=89 Score=21.03 Aligned_cols=76 Identities=7% Similarity=0.047 Sum_probs=39.0
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCC---CchHHHHHHHHhCC-CceEEEecC
Q psy18065 63 KLLNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANP---STYRNVLREIRQKE-IFNLIIDTS 138 (149)
Q Consensus 63 ~~~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~---~d~~~~l~~i~~~~-~~~iil~~~ 138 (149)
..++..++..+-.-+.+++.++...+......+...+..+..|..+...+.+. ++...++..+++.. .-.-|+++.
T Consensus 10 gglg~~la~~La~~~~~~~il~~r~~~~~~~~~~~i~~l~~~g~~v~~~~~Dv~d~~~v~~~~~~~~~~~~~i~gVih~a 89 (181)
T PF08659_consen 10 GGLGQSLARWLAERGARRLILLGRSGAPSAEAEAAIRELESAGARVEYVQCDVTDPEAVAAALAQLRQRFGPIDGVIHAA 89 (181)
T ss_dssp SHHHHHHHHHHHHTT-SEEEEEESSGGGSTTHHHHHHHHHHTT-EEEEEE--TTSHHHHHHHHHTSHTTSS-EEEEEE--
T ss_pred cHHHHHHHHHHHHcCCCEEEEeccCCCccHHHHHHHHHHHhCCCceeeeccCccCHHHHHHHHHHHHhccCCcceeeeee
Confidence 34677788877666688888887663222223333333333466666666553 34566666666553 222455554
No 345
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=38.93 E-value=1.7e+02 Score=22.20 Aligned_cols=82 Identities=11% Similarity=-0.022 Sum_probs=44.3
Q ss_pred ccEEEecCChhHHHHHHHHHHHhcCC-cEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecC-C--CchHHHHHHHHhC
Q psy18065 53 EFSVNLYPSQKLLNAAFKDVIRFLNW-TKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHAN-P--STYRNVLREIRQK 128 (149)
Q Consensus 53 ~~~~~~~p~~~~~~~ai~~ll~~~~W-~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~-~--~d~~~~l~~i~~~ 128 (149)
|+-+...+. ....+-++++.++. +++.++.+..-.....+.+.+.+...+ .+...-.+ + ++..+++..++..
T Consensus 11 p~~i~~G~g---~l~~l~~~l~~~~~~~~~livtd~~~~~~~~~~l~~~l~~~~-~~~~~~~~~~t~~~v~~~~~~~~~~ 86 (350)
T PRK00843 11 PRDVVVGHG---VLDDIGDVCSDLKLTGRALIVTGPTTKKIAGDRVEENLEDAG-DVEVVIVDEATMEEVEKVEEKAKDV 86 (350)
T ss_pred CCeEEECCC---HHHHHHHHHHHhCCCCeEEEEECCcHHHHHHHHHHHHHHhcC-CeeEEeCCCCCHHHHHHHHHHhhcc
Confidence 333444444 23445667777776 788888776322222334444433333 22221111 2 3466777888887
Q ss_pred CCceEEEecC
Q psy18065 129 EIFNLIIDTS 138 (149)
Q Consensus 129 ~~~~iil~~~ 138 (149)
+.+.||-.+-
T Consensus 87 ~~d~IIaiGG 96 (350)
T PRK00843 87 NAGFLIGVGG 96 (350)
T ss_pred CCCEEEEeCC
Confidence 8888887663
No 346
>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=38.71 E-value=1.4e+02 Score=20.91 Aligned_cols=72 Identities=10% Similarity=0.196 Sum_probs=42.3
Q ss_pred HHHHHHHHHHhcCCcEEEEEeecCc-chhhHHHHHhCCCCCCceE-EEEecCCCchHHHHHHHHhCCCceEEEecC
Q psy18065 65 LNAAFKDVIRFLNWTKVAIVYEEDN-GLFKLQELVKTPPTLKTEM-YIRHANPSTYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~vi~~~~~-~~~~l~~l~~~~~~~~~~v-~~~~~~~~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
...++-+..+.+||.-..+ ++... .....+.+.+.. ..++.- .+.-.++....+.++++++.+..+|.++..
T Consensus 16 ~~~g~~~~a~~~g~~~~~~-~~~~~d~~~q~~~i~~~i-~~~~d~Iiv~~~~~~~~~~~l~~~~~~gIpvv~~d~~ 89 (257)
T PF13407_consen 16 VIKGAKAAAKELGYEVEIV-FDAQNDPEEQIEQIEQAI-SQGVDGIIVSPVDPDSLAPFLEKAKAAGIPVVTVDSD 89 (257)
T ss_dssp HHHHHHHHHHHHTCEEEEE-EESTTTHHHHHHHHHHHH-HTTESEEEEESSSTTTTHHHHHHHHHTTSEEEEESST
T ss_pred HHHHHHHHHHHcCCEEEEe-CCCCCCHHHHHHHHHHHH-HhcCCEEEecCCCHHHHHHHHHHHhhcCceEEEEecc
Confidence 4556667778888887666 44332 222223333322 223432 223344456789999999999877777766
No 347
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=38.67 E-value=49 Score=24.60 Aligned_cols=30 Identities=13% Similarity=0.210 Sum_probs=26.4
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceee
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMES 43 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~ 43 (149)
+.+|+||+.+.=+.....++..++.+.|+.
T Consensus 1 vi~i~G~t~~GKs~la~~l~~~~~~~iis~ 30 (287)
T TIGR00174 1 VIFIMGPTAVGKSQLAIQLAKKLNAEIISV 30 (287)
T ss_pred CEEEECCCCCCHHHHHHHHHHhCCCcEEEe
Confidence 478999999999888899999999888875
No 348
>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=38.63 E-value=72 Score=20.43 Aligned_cols=40 Identities=10% Similarity=0.021 Sum_probs=26.6
Q ss_pred HHHHHhcCCcEEEEEeec-C--cchhhHHHHHhCCCCCCceEE
Q psy18065 70 KDVIRFLNWTKVAIVYEE-D--NGLFKLQELVKTPPTLKTEMY 109 (149)
Q Consensus 70 ~~ll~~~~W~~v~vi~~~-~--~~~~~l~~l~~~~~~~~~~v~ 109 (149)
++.+..-|-++++++... . ....+.+.+.+.++..|+...
T Consensus 1 ~~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~ 43 (160)
T PF13377_consen 1 VDYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFE 43 (160)
T ss_dssp HHHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEE
T ss_pred ChHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCC
Confidence 356667799999999943 2 235667777777766776644
No 349
>TIGR00227 ribD_Cterm riboflavin-specific deaminase C-terminal domain. Eubacterial riboflavin-specific deaminases have a zinc-binding domain recognized by the dCMP_cyt_deam model toward the N-terminus and this domain toward the C-terminus. Yeast HTP reductase, a riboflavin-biosynthetic enzyme, and several archaeal proteins believed related to riboflavin biosynthesis consist only of this domain and lack the dCMP_cyt_deam domain.
Probab=38.29 E-value=64 Score=22.42 Aligned_cols=32 Identities=6% Similarity=0.253 Sum_probs=27.6
Q ss_pred chHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 117 TYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 117 d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
|..++++.+++.+.+.|.+.+....+..++++
T Consensus 129 dl~~~l~~L~~~g~~~llveGG~~L~~~fl~~ 160 (216)
T TIGR00227 129 DLKKLMEILYEEGINSVMVEGGGTLNGSLLKE 160 (216)
T ss_pred CHHHHHHHHHHcCCCEEEEeeCHHHHHHHHHC
Confidence 78999999999998999998888877777764
No 350
>PRK10128 2-keto-3-deoxy-L-rhamnonate aldolase; Provisional
Probab=38.03 E-value=1.6e+02 Score=21.63 Aligned_cols=79 Identities=10% Similarity=0.110 Sum_probs=54.0
Q ss_pred HHHHHHHhcCCcEEEEEeec-CcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEE-ec-CchhHHH
Q psy18065 68 AFKDVIRFLNWTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLII-DT-STTHISQ 144 (149)
Q Consensus 68 ai~~ll~~~~W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil-~~-~~~~~~~ 144 (149)
.+++++-+-|+-+|.+=.+. ..+...+..+.......|... +-|++..+. ..+++..+.++..|++ ++ +.+.+..
T Consensus 30 ~~~E~~a~~GfD~v~iD~EHg~~~~~~l~~~i~a~~~~g~~~-lVRvp~~~~-~~i~r~LD~GA~GIivP~V~saeeA~~ 107 (267)
T PRK10128 30 YMAEIAATSGYDWLLIDGEHAPNTIQDLYHQLQAIAPYASQP-VIRPVEGSK-PLIKQVLDIGAQTLLIPMVDTAEQARQ 107 (267)
T ss_pred HHHHHHHHcCCCEEEEccccCCCCHHHHHHHHHHHHhcCCCe-EEECCCCCH-HHHHHHhCCCCCeeEecCcCCHHHHHH
Confidence 67788878888887775554 456666776666665556543 346655454 5668888999999999 44 4578887
Q ss_pred HHhh
Q psy18065 145 FFRA 148 (149)
Q Consensus 145 il~q 148 (149)
+.+.
T Consensus 108 ~V~a 111 (267)
T PRK10128 108 VVSA 111 (267)
T ss_pred HHHh
Confidence 7764
No 351
>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=37.80 E-value=1.4e+02 Score=20.81 Aligned_cols=19 Identities=11% Similarity=0.125 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHhcCCcEEE
Q psy18065 64 LLNAAFKDVIRFLNWTKVA 82 (149)
Q Consensus 64 ~~~~ai~~ll~~~~W~~v~ 82 (149)
....++.+.++.+||+-+.
T Consensus 16 ~~~~gi~~~~~~~g~~~~~ 34 (268)
T cd01575 16 DVLQGISDVLEAAGYQLLL 34 (268)
T ss_pred HHHHHHHHHHHHcCCEEEE
Confidence 3556667777778877433
No 352
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=37.66 E-value=46 Score=25.09 Aligned_cols=31 Identities=10% Similarity=0.095 Sum_probs=27.5
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCceee
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHMES 43 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~ 43 (149)
.+.+|+||+.+.=+...-.++..++-+.|+.
T Consensus 4 ~~i~I~GPTAsGKT~lai~LAk~~~~eIIs~ 34 (308)
T COG0324 4 KLIVIAGPTASGKTALAIALAKRLGGEIISL 34 (308)
T ss_pred cEEEEECCCCcCHHHHHHHHHHHcCCcEEec
Confidence 5789999999888888888999999999985
No 353
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=37.50 E-value=53 Score=20.21 Aligned_cols=31 Identities=19% Similarity=0.254 Sum_probs=26.6
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeecc
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~ 45 (149)
+.+.||.++.=+..+..++..++.|++....
T Consensus 1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~ 31 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDG 31 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHTTSEEEEEET
T ss_pred CEEECcCCCCeeHHHHHHHhhcccccccccc
Confidence 3578999999999999999999999887664
No 354
>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=37.34 E-value=89 Score=22.77 Aligned_cols=22 Identities=9% Similarity=0.160 Sum_probs=14.9
Q ss_pred hHHHHHHHHhCCCceEEEecCc
Q psy18065 118 YRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 118 ~~~~l~~i~~~~~~~iil~~~~ 139 (149)
..+.++++++.+.-+|+++...
T Consensus 71 ~~~~~~~~~~~giPvV~~~~~~ 92 (305)
T cd06324 71 APELLRLAEGAGVKLFLVNSGL 92 (305)
T ss_pred hHHHHHHHHhCCCeEEEEecCC
Confidence 4566788888777677776543
No 355
>PRK14730 coaE dephospho-CoA kinase; Provisional
Probab=37.31 E-value=48 Score=22.88 Aligned_cols=31 Identities=10% Similarity=0.083 Sum_probs=25.3
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
..+|.|+.+|.=+.....+.+.++.|+++..
T Consensus 3 ~i~itG~~gsGKst~~~~l~~~~g~~~i~~D 33 (195)
T PRK14730 3 RIGLTGGIASGKSTVGNYLAQQKGIPILDAD 33 (195)
T ss_pred EEEEECCCCCCHHHHHHHHHHhhCCeEeeCc
Confidence 6889999998888777777777799999743
No 356
>PF01872 RibD_C: RibD C-terminal domain; InterPro: IPR002734 This domain is found in the C terminus of the bifunctional deaminase-reductase of Escherichia coli, Bacillus subtilis and other bacteria in combination with IPR002125 from INTERPRO that catalyses the second and third steps in the biosynthesis of riboflavin, i.e., the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate (deaminase) and the subsequent reduction of the ribosyl side chain (reductase) []. The domain is also present in some HTP reductases from archaea and fungi.; GO: 0008703 5-amino-6-(5-phosphoribosylamino)uracil reductase activity, 0009231 riboflavin biosynthetic process, 0055114 oxidation-reduction process; PDB: 3KY8_B 3KGY_B 2GD9_B 3JTW_B 2XW7_B 2D5N_B 2B3Z_A 3EX8_B 2AZN_A 2P4G_A ....
Probab=36.93 E-value=49 Score=22.67 Aligned_cols=32 Identities=16% Similarity=0.388 Sum_probs=27.3
Q ss_pred chHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 117 TYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 117 d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
|..+.++++++.+.+.|.+.+.......++++
T Consensus 122 dl~~~l~~L~~~g~~~i~v~GG~~l~~~~l~~ 153 (200)
T PF01872_consen 122 DLEEALRRLKERGGKDILVEGGGSLNGSFLRA 153 (200)
T ss_dssp HHHHHHHHHHHTTTSEEEEEEHHHHHHHHHHT
T ss_pred CHHHHHHHHHhcCCCEEEEechHHHHHHHHhC
Confidence 58899999999999999999888777777764
No 357
>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=36.85 E-value=1e+02 Score=21.51 Aligned_cols=21 Identities=5% Similarity=0.055 Sum_probs=14.3
Q ss_pred CChhHHHHHHHHHHHhcCCcE
Q psy18065 60 PSQKLLNAAFKDVIRFLNWTK 80 (149)
Q Consensus 60 p~~~~~~~ai~~ll~~~~W~~ 80 (149)
|-...+..++-+.++.+||+-
T Consensus 16 ~~~~~~~~~i~~~~~~~g~~~ 36 (268)
T cd06271 16 PFFAEFLSGLSEALAEHGYDL 36 (268)
T ss_pred ccHHHHHHHHHHHHHHCCceE
Confidence 334446677777888888873
No 358
>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=36.83 E-value=1.8e+02 Score=22.42 Aligned_cols=71 Identities=17% Similarity=0.091 Sum_probs=43.3
Q ss_pred HHHHHHHHhcCCcEEEEEeecCc-chhhHHHHHhCCCCCCceEEEE-ecC---C-CchHHHHHHHHhCCCceEEEecC
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEEDN-GLFKLQELVKTPPTLKTEMYIR-HAN---P-STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~~-~~~~l~~l~~~~~~~~~~v~~~-~~~---~-~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
..+-++++.+| +++.++++... ....++.+.+.+++.|+.+... ... + .+..+.....++.+++.||-.+-
T Consensus 12 ~~l~~~~~~~g-~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~~~~~~v~~~~~~~~~~~~D~IIaiGG 88 (386)
T cd08191 12 RQLPRLAARLG-SRALIVTDERMAGTPVFAELVQALAAAGVEVEVFDGVLPDLPRSELCDAASAAARAGPDVIIGLGG 88 (386)
T ss_pred HHHHHHHHHcC-CeEEEEECcchhhcchHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 34566778888 88888886432 2234455555555556654332 222 1 23556667777888899887663
No 359
>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=36.72 E-value=1.2e+02 Score=19.61 Aligned_cols=59 Identities=17% Similarity=0.120 Sum_probs=32.7
Q ss_pred cEEEEEeecC--cchhhHHHHHhCCCCC-CceEEEEecC-----CCchHHHHH-HHHhCCCceEEEecCc
Q psy18065 79 TKVAIVYEED--NGLFKLQELVKTPPTL-KTEMYIRHAN-----PSTYRNVLR-EIRQKEIFNLIIDTST 139 (149)
Q Consensus 79 ~~v~vi~~~~--~~~~~l~~l~~~~~~~-~~~v~~~~~~-----~~d~~~~l~-~i~~~~~~~iil~~~~ 139 (149)
++|-++|+.| .....+..|...++.. |+.+.+.... ..+...-+. .+++. +.||+.|+.
T Consensus 1 ~kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~a--d~Vliv~S~ 68 (150)
T PF08357_consen 1 RKVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREA--DKVLIVCSP 68 (150)
T ss_pred CeEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcC--CEEEEEecc
Confidence 4677888864 3345566666666556 8887664432 223333333 34444 466666663
No 360
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=36.61 E-value=68 Score=25.62 Aligned_cols=28 Identities=21% Similarity=0.326 Sum_probs=26.0
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCc
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPH 40 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~ 40 (149)
.++.|+|+.+|+.+..++.+|...++|-
T Consensus 364 DlmiVVGG~NSSNT~~L~eIa~~~g~~s 391 (460)
T PLN02821 364 DLMLVVGGWNSSNTSHLQEIAEHKGIPS 391 (460)
T ss_pred CEEEEECCCCCccHHHHHHHHHHhCCCE
Confidence 5889999999999999999999999984
No 361
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=36.44 E-value=30 Score=25.63 Aligned_cols=31 Identities=10% Similarity=0.140 Sum_probs=25.1
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCceee
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHMES 43 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~ 43 (149)
.++.|+|+.+|+.+..+..+|...+.|-+-.
T Consensus 211 D~miVIGg~~SsNT~kL~eia~~~~~~t~~I 241 (281)
T PF02401_consen 211 DAMIVIGGKNSSNTRKLAEIAKEHGKPTYHI 241 (281)
T ss_dssp SEEEEES-TT-HHHHHHHHHHHHCTTCEEEE
T ss_pred CEEEEecCCCCccHHHHHHHHHHhCCCEEEe
Confidence 4889999999999999999999998875443
No 362
>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=36.44 E-value=22 Score=22.71 Aligned_cols=41 Identities=15% Similarity=0.204 Sum_probs=30.7
Q ss_pred HHHHHhh--CCcEEEEcCCCC--CcHHHHHHhhcccCCCceeecc
Q psy18065 5 TMCRQLQ--NGVQALFGPSDA--LLGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 5 ~~c~~~~--~~v~aiiGp~~s--~~~~~v~~~~~~~~iP~is~~~ 45 (149)
.+.+++. ++++.++|.... .....+..+++.+++|+++...
T Consensus 3 ~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~ 47 (137)
T PF00205_consen 3 EAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPM 47 (137)
T ss_dssp HHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGG
T ss_pred HHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCc
Confidence 3444443 467888887664 8899999999999999988754
No 363
>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=36.21 E-value=1.3e+02 Score=21.12 Aligned_cols=16 Identities=6% Similarity=0.133 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHhcCCc
Q psy18065 64 LLNAAFKDVIRFLNWT 79 (149)
Q Consensus 64 ~~~~ai~~ll~~~~W~ 79 (149)
.+...+.+.++.+|++
T Consensus 16 ~~~~~~~~~~~~~g~~ 31 (264)
T cd06274 16 RIAKRLEALARERGYQ 31 (264)
T ss_pred HHHHHHHHHHHHCCCE
Confidence 3455556666667765
No 364
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=36.20 E-value=1.7e+02 Score=21.22 Aligned_cols=40 Identities=15% Similarity=0.124 Sum_probs=18.6
Q ss_pred HHHHhcCCcEEEEEeec-CcchhhHHHHHhCCCCCCceEEE
Q psy18065 71 DVIRFLNWTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYI 110 (149)
Q Consensus 71 ~ll~~~~W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~ 110 (149)
.+.+.||++-+++...+ +.+-..+.++.+..++.++...+
T Consensus 182 Y~~~~ygl~~~~~~~~~~eps~~~l~~l~~~ik~~~v~~if 222 (266)
T cd01018 182 YFARDYGLTQIPIEEEGKEPSPADLKRLIDLAKEKGVRVVF 222 (266)
T ss_pred HHHHHcCCEEEecCCCCCCCCHHHHHHHHHHHHHcCCCEEE
Confidence 34455566555442222 22344555555555555554433
No 365
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=35.95 E-value=23 Score=20.48 Aligned_cols=31 Identities=23% Similarity=0.295 Sum_probs=18.7
Q ss_pred CcEEEEEeecC-cchhhHHHHHhCCCCCCceE
Q psy18065 78 WTKVAIVYEED-NGLFKLQELVKTPPTLKTEM 108 (149)
Q Consensus 78 W~~v~vi~~~~-~~~~~l~~l~~~~~~~~~~v 108 (149)
-++|.+.+|+| .|....+++.+.+...|+.+
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi~v 77 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPLGIRV 77 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG------
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhhcccc
Confidence 48999999987 57777777777555555543
No 366
>TIGR02764 spore_ybaN_pdaB polysaccharide deacetylase family sporulation protein PdaB. This model describes the YbaN protein family, also called PdaB and SpoVIE, of Gram-positive bacteria. Although ybaN null mutants have only a mild sporulation defect, ybaN/ytrI double mutants show drastically reducted sporulation efficiencies. This synthetic defect suggests the role of this sigmaE-controlled gene in sporulation had been masked by functional redundancy. Members of this family are homologous to a characterized polysaccharide deacetylase; the exact function this protein family is unknown.
Probab=35.82 E-value=56 Score=22.21 Aligned_cols=15 Identities=7% Similarity=0.129 Sum_probs=12.4
Q ss_pred HHHHHHHHHHhcCCc
Q psy18065 65 LNAAFKDVIRFLNWT 79 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~ 79 (149)
....++++++.+|-+
T Consensus 20 ~t~~~l~~L~~~~ik 34 (191)
T TIGR02764 20 YTEPILDTLKEYDVK 34 (191)
T ss_pred cHHHHHHHHHHcCCC
Confidence 456789999999887
No 367
>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]
Probab=35.66 E-value=52 Score=27.23 Aligned_cols=34 Identities=18% Similarity=0.296 Sum_probs=28.4
Q ss_pred hhCCcEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 10 LQNGVQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 10 ~~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
+..| +.++||..+.-+.....++++.++|+++.+
T Consensus 182 iPkG-vlLvGpPGTGKTLLAkAvAgEA~VPFf~iS 215 (596)
T COG0465 182 IPKG-VLLVGPPGTGKTLLAKAVAGEAGVPFFSIS 215 (596)
T ss_pred cccc-eeEecCCCCCcHHHHHHHhcccCCCceecc
Confidence 4555 677799998888999999999999998754
No 368
>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=35.50 E-value=1.4e+02 Score=20.82 Aligned_cols=15 Identities=13% Similarity=0.127 Sum_probs=9.1
Q ss_pred HHHHHHHHHHhcCCc
Q psy18065 65 LNAAFKDVIRFLNWT 79 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~ 79 (149)
...++-+.++.+||+
T Consensus 17 ~~~gi~~~~~~~g~~ 31 (265)
T cd06291 17 LARAVEKELYKKGYK 31 (265)
T ss_pred HHHHHHHHHHHCCCe
Confidence 455555666666766
No 369
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=35.43 E-value=1.7e+02 Score=21.02 Aligned_cols=74 Identities=11% Similarity=0.108 Sum_probs=45.8
Q ss_pred HHHHHHHHhcCCcEEEEEeec-CcchhhHHHHHhCCCCCCceEEE-Eec-----------CCCchHHHHHHHHhCCCceE
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEE-DNGLFKLQELVKTPPTLKTEMYI-RHA-----------NPSTYRNVLREIRQKEIFNL 133 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~-~~~~~~l~~l~~~~~~~~~~v~~-~~~-----------~~~d~~~~l~~i~~~~~~~i 133 (149)
-|+++-++.++-+++.++..= ++-.+...++++ .+|+.+.- .-+ +|....++.+++...+++.|
T Consensus 107 ~Avv~aL~al~a~ri~vlTPY~~evn~~e~ef~~---~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~~~~~Dai 183 (238)
T COG3473 107 TAVVEALNALGAQRISVLTPYIDEVNQREIEFLE---ANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVFTPDADAI 183 (238)
T ss_pred HHHHHHHHhhCcceEEEeccchhhhhhHHHHHHH---hCCeEEEEeeccCCcccchhcccChHHHHHHHHHhcCCCCCeE
Confidence 477888899999999998653 333333333333 35655432 211 12234566778888899999
Q ss_pred EEecCchhHH
Q psy18065 134 IIDTSTTHIS 143 (149)
Q Consensus 134 il~~~~~~~~ 143 (149)
++.|..-.+.
T Consensus 184 FiSCTnlRt~ 193 (238)
T COG3473 184 FISCTNLRTF 193 (238)
T ss_pred EEEeeccccH
Confidence 9988654443
No 370
>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=35.16 E-value=1.2e+02 Score=19.39 Aligned_cols=81 Identities=7% Similarity=0.125 Sum_probs=43.7
Q ss_pred HHHHHHHHHhcCCcEEEEEee------cCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCc
Q psy18065 66 NAAFKDVIRFLNWTKVAIVYE------EDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 66 ~~ai~~ll~~~~W~~v~vi~~------~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
.....+-++..|++-+..-.. +.-.....-++.+.+..++++..+---...||.++++.+++.+.+++++....
T Consensus 54 ~~~~~~~L~~~g~~~~~~~~~~~~~~~~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~i~~lr~~G~~V~v~~~~~ 133 (149)
T cd06167 54 QRGFLDALRRLGFEPIQKPLRTRGSGKKGVDVALAIDALELAYKRRIDTIVLVSGDSDFVPLVERLRELGKRVIVVGFEA 133 (149)
T ss_pred HHHHHHHHHHCCcEEEEEcceecCCcccCccHHHHHHHHHHhhhcCCCEEEEEECCccHHHHHHHHHHcCCEEEEEccCc
Confidence 345666677777766655321 11122333344444433344432222234799999999999987665554442
Q ss_pred hhHHHHH
Q psy18065 140 THISQFF 146 (149)
Q Consensus 140 ~~~~~il 146 (149)
.....+-
T Consensus 134 ~~s~~L~ 140 (149)
T cd06167 134 KTSRELR 140 (149)
T ss_pred cChHHHH
Confidence 3333333
No 371
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=35.00 E-value=2.3e+02 Score=22.41 Aligned_cols=59 Identities=12% Similarity=0.215 Sum_probs=25.3
Q ss_pred cEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHh-CCCceEEEecC
Q psy18065 79 TKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQ-KEIFNLIIDTS 138 (149)
Q Consensus 79 ~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~-~~~~~iil~~~ 138 (149)
++|+++-.|.+.....+.+.......++.+.. ..++.++...+..++. .+.+.|++|+.
T Consensus 235 ~~V~lItaDtyR~gAveQLk~yae~lgvpv~~-~~dp~dL~~al~~l~~~~~~D~VLIDTA 294 (407)
T PRK12726 235 RTVGFITTDTFRSGAVEQFQGYADKLDVELIV-ATSPAELEEAVQYMTYVNCVDHILIDTV 294 (407)
T ss_pred CeEEEEeCCccCccHHHHHHHHhhcCCCCEEe-cCCHHHHHHHHHHHHhcCCCCEEEEECC
Confidence 45555555544333344444444434433221 1122344444444442 33455666554
No 372
>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=34.84 E-value=1.9e+02 Score=22.32 Aligned_cols=70 Identities=11% Similarity=0.052 Sum_probs=42.6
Q ss_pred HHHHHHHhc---CCcEEEEEeecC-cc-hhhHHHHHhCCCCCCceEEEE-ecCC----CchHHHHHHHHhCCCceEEEec
Q psy18065 68 AFKDVIRFL---NWTKVAIVYEED-NG-LFKLQELVKTPPTLKTEMYIR-HANP----STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 68 ai~~ll~~~---~W~~v~vi~~~~-~~-~~~l~~l~~~~~~~~~~v~~~-~~~~----~d~~~~l~~i~~~~~~~iil~~ 137 (149)
.+-++++.+ |.+++.++.+.. .. ...++.+.+.+++.|+.+... .+.+ ++..+..+.++..+++.||-.+
T Consensus 13 ~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiG 92 (383)
T cd08186 13 KIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPNPTVDQVDEAAKLGREFGAQAVIAIG 92 (383)
T ss_pred HHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 455666665 788999998753 22 222344444444456554332 2321 3467778888888999988765
No 373
>PF13362 Toprim_3: Toprim domain
Probab=34.80 E-value=1e+02 Score=18.28 Aligned_cols=49 Identities=12% Similarity=0.140 Sum_probs=32.3
Q ss_pred cCCcEEEEEeecC-c--chhhHHHHHhCCCCCCceEEEEecC--CCchHHHHHH
Q psy18065 76 LNWTKVAIVYEED-N--GLFKLQELVKTPPTLKTEMYIRHAN--PSTYRNVLRE 124 (149)
Q Consensus 76 ~~W~~v~vi~~~~-~--~~~~l~~l~~~~~~~~~~v~~~~~~--~~d~~~~l~~ 124 (149)
..+++|.+..|+| . |.....++.+.+...|..+.+..-+ ..|+.+++..
T Consensus 39 ~~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~~~~~~p~~~g~D~ND~l~~ 92 (96)
T PF13362_consen 39 EPGRRVIIAADNDKANEGQKAAEKAAERLEAAGIAVSIVEPGPEGKDWNDLLQA 92 (96)
T ss_pred CCCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCeEEEECCCCCCchHHHHHHh
Confidence 4778887777765 4 6677777777776677766553332 2577777654
No 374
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=34.80 E-value=1.2e+02 Score=22.45 Aligned_cols=129 Identities=7% Similarity=0.116 Sum_probs=68.0
Q ss_pred EEEcCCCCCcHHHHHHhhcccCCCceeeccCCC---CCCcccEEEecCChhHH-----HHHHHHHHHhcC---Cc-EEE-
Q psy18065 16 ALFGPSDALLGPHVQSICEALDVPHMESRLDLE---LNSKEFSVNLYPSQKLL-----NAAFKDVIRFLN---WT-KVA- 82 (149)
Q Consensus 16 aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~---~~~~~~~~~~~p~~~~~-----~~ai~~ll~~~~---W~-~v~- 82 (149)
...|..+-..+..+...+..-+.=.|..|...+ .+. |. ++-.- ...+ .....++++.+. =+ -++
T Consensus 23 it~GdP~~e~s~e~i~~L~~~GaD~iELGvPfSDPvADG-P~-Iq~A~-~rAL~~g~t~~~~lel~~~~r~~~~~~Pivl 99 (265)
T COG0159 23 VTAGDPDLETSLEIIKTLVEAGADILELGVPFSDPVADG-PT-IQAAH-LRALAAGVTLEDTLELVEEIRAKGVKVPIVL 99 (265)
T ss_pred EeCCCCCHHHHHHHHHHHHhCCCCEEEecCCCCCcCccC-HH-HHHHH-HHHHHCCCCHHHHHHHHHHHHhcCCCCCEEE
Confidence 344555655666666655666666666553222 121 11 11000 0001 123344444332 22 244
Q ss_pred EEeecCcchhhHHHHHhCCCCCCce-EEEEecCCCchHHHHHHHHhCCCceEEEecCc---hhHHHHHh
Q psy18065 83 IVYEEDNGLFKLQELVKTPPTLKTE-MYIRHANPSTYRNVLREIRQKEIFNLIIDTST---THISQFFR 147 (149)
Q Consensus 83 vi~~~~~~~~~l~~l~~~~~~~~~~-v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~---~~~~~il~ 147 (149)
+-|-|.-...+++.|.+..++.|++ +-+..++.+.-.++.+..++.+.+.|.+..+. +....+.+
T Consensus 100 m~Y~Npi~~~Gie~F~~~~~~~GvdGlivpDLP~ee~~~~~~~~~~~gi~~I~lvaPtt~~~rl~~i~~ 168 (265)
T COG0159 100 MTYYNPIFNYGIEKFLRRAKEAGVDGLLVPDLPPEESDELLKAAEKHGIDPIFLVAPTTPDERLKKIAE 168 (265)
T ss_pred EEeccHHHHhhHHHHHHHHHHcCCCEEEeCCCChHHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHH
Confidence 4566765667777788777777765 44456665555566667778888888877654 34444444
No 375
>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=34.70 E-value=1.2e+02 Score=19.02 Aligned_cols=76 Identities=11% Similarity=0.031 Sum_probs=48.1
Q ss_pred ChhHHHHHHHHHHHhcCCcEEEEEeecCc-c-----hhhHHHHHhCCCCC-CceEEEEecC---C--CchHHHHHHHHhC
Q psy18065 61 SQKLLNAAFKDVIRFLNWTKVAIVYEEDN-G-----LFKLQELVKTPPTL-KTEMYIRHAN---P--STYRNVLREIRQK 128 (149)
Q Consensus 61 ~~~~~~~ai~~ll~~~~W~~v~vi~~~~~-~-----~~~l~~l~~~~~~~-~~~v~~~~~~---~--~d~~~~l~~i~~~ 128 (149)
+-..|-..+-++....||.-+.++.+.+. + ...++.+++..+.. +-.+.+..++ . .+...++..+...
T Consensus 15 s~~~Q~~~~~~~a~~~g~~i~~~~~d~~~s~~~~~~R~~~~~ll~~~~~~~~d~ivv~~~~Rl~R~~~~~~~~~~~l~~~ 94 (137)
T cd00338 15 SLERQREALREYAARNGLEVVGEYEDAGSSATSLVDRPGLQRLLADVKAGKIDVVLVEKLDRLSRNLVDLLELLELLEAH 94 (137)
T ss_pred CHHHHHHHHHHHHHHCCCEEEEEEEeCCCCcccccCCHHHHHHHHHHHcCCCCEEEEEecchhhCCHHHHHHHHHHHHHC
Confidence 34457777888887779987776666432 2 34577777765543 3344444443 2 3566778888888
Q ss_pred CCceEEEe
Q psy18065 129 EIFNLIID 136 (149)
Q Consensus 129 ~~~~iil~ 136 (149)
+.+.+++.
T Consensus 95 gi~l~~~~ 102 (137)
T cd00338 95 GVRVVTAD 102 (137)
T ss_pred CCEEEEec
Confidence 88777765
No 376
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=34.60 E-value=1e+02 Score=20.87 Aligned_cols=57 Identities=12% Similarity=0.176 Sum_probs=30.3
Q ss_pred EEEEEeecCcchhhHHHHHhCCCCCCceEEEEec----CCCchHHHHHHHHhCCCceEEEe
Q psy18065 80 KVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHA----NPSTYRNVLREIRQKEIFNLIID 136 (149)
Q Consensus 80 ~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~----~~~d~~~~l~~i~~~~~~~iil~ 136 (149)
.|++|--.+..+...+...+.+++.|+....+-+ +++.+.+..++-.+.+.++||--
T Consensus 4 ~V~IIMGS~SD~~~mk~Aa~~L~~fgi~ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIAg 64 (162)
T COG0041 4 KVGIIMGSKSDWDTMKKAAEILEEFGVPYEVRVVSAHRTPEKMFEYAEEAEERGVKVIIAG 64 (162)
T ss_pred eEEEEecCcchHHHHHHHHHHHHHcCCCeEEEEEeccCCHHHHHHHHHHHHHCCCeEEEec
Confidence 5677655433333444433333334555444322 23456677777777777777653
No 377
>COG1438 ArgR Arginine repressor [Transcription]
Probab=34.29 E-value=69 Score=21.43 Aligned_cols=31 Identities=10% Similarity=0.187 Sum_probs=22.6
Q ss_pred EEEecCChhHHHHHHHHHHHhcCCcEE-EEEeecC
Q psy18065 55 SVNLYPSQKLLNAAFKDVIRFLNWTKV-AIVYEED 88 (149)
Q Consensus 55 ~~~~~p~~~~~~~ai~~ll~~~~W~~v-~vi~~~~ 88 (149)
.+++.|. .+..++.++...+|.++ +.|..||
T Consensus 96 vlkT~PG---~A~~ia~~lD~~~~~eIlGTIaGdD 127 (150)
T COG1438 96 VLKTSPG---AAQLIARLLDSLAKDEILGTIAGDD 127 (150)
T ss_pred EEEeCCc---hHHHHHHHHHhcCchhhheeeeCCC
Confidence 6788888 67788889998888864 3444444
No 378
>PRK09271 flavodoxin; Provisional
Probab=34.22 E-value=64 Score=21.36 Aligned_cols=21 Identities=5% Similarity=-0.015 Sum_probs=11.5
Q ss_pred ecCChhHHHHHHHHHHHhcCC
Q psy18065 58 LYPSQKLLNAAFKDVIRFLNW 78 (149)
Q Consensus 58 ~~p~~~~~~~ai~~ll~~~~W 78 (149)
+.-+.+..+..+++-++.-|.
T Consensus 10 ~tGnTe~~A~~ia~~l~~~g~ 30 (160)
T PRK09271 10 LSGNTREVAREIEERCEEAGH 30 (160)
T ss_pred CCchHHHHHHHHHHHHHhCCC
Confidence 333444566666666665443
No 379
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=34.14 E-value=1.9e+02 Score=21.16 Aligned_cols=122 Identities=10% Similarity=0.086 Sum_probs=68.5
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeeccCCC---CCCcccEEEecCChhHH-----HHHHHHHHHh-----cCCcEE
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESRLDLE---LNSKEFSVNLYPSQKLL-----NAAFKDVIRF-----LNWTKV 81 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~---~~~~~~~~~~~p~~~~~-----~~ai~~ll~~-----~~W~~v 81 (149)
....|..+-..+..+..-...-++-.|..+.+.+ .+. |. ++-. +...+ ...+.++++. .+-.-+
T Consensus 17 yi~aG~P~~~~~~~~~~~l~~~Gad~iElGiPfSDP~aDG-pv-Iq~a-~~~AL~~G~~~~~~~~~~~~~r~~~~~~p~v 93 (258)
T PRK13111 17 YITAGDPDLETSLEIIKALVEAGADIIELGIPFSDPVADG-PV-IQAA-SLRALAAGVTLADVFELVREIREKDPTIPIV 93 (258)
T ss_pred EEeCCCCCHHHHHHHHHHHHHCCCCEEEECCCCCCCcccC-HH-HHHH-HHHHHHcCCCHHHHHHHHHHHHhcCCCCCEE
Confidence 4445666666677766666677888888775332 222 21 1111 11111 1123444433 333345
Q ss_pred EEEeecCcchhhHHHHHhCCCCCCce-EEEEecCCCchHHHHHHHHhCCCceEEEecCc
Q psy18065 82 AIVYEEDNGLFKLQELVKTPPTLKTE-MYIRHANPSTYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 82 ~vi~~~~~~~~~l~~l~~~~~~~~~~-v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
.+-|-|.--..+.+++.+.+++.|+. +.+..++.++..+.....++.+...|.+..+.
T Consensus 94 lm~Y~N~i~~~G~e~f~~~~~~aGvdGviipDLp~ee~~~~~~~~~~~gl~~I~lvap~ 152 (258)
T PRK13111 94 LMTYYNPIFQYGVERFAADAAEAGVDGLIIPDLPPEEAEELRAAAKKHGLDLIFLVAPT 152 (258)
T ss_pred EEecccHHhhcCHHHHHHHHHHcCCcEEEECCCCHHHHHHHHHHHHHcCCcEEEEeCCC
Confidence 55676753344666677766666654 33456665677888888888888888766643
No 380
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=33.93 E-value=2e+02 Score=21.35 Aligned_cols=71 Identities=14% Similarity=0.116 Sum_probs=47.3
Q ss_pred CcEEEEEeecCcchhhHHHHHhCCCCCCceEEEE--ecC--C---Cc----hHHHHHHHHhCCCceEEEecCchh--HHH
Q psy18065 78 WTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIR--HAN--P---ST----YRNVLREIRQKEIFNLIIDTSTTH--ISQ 144 (149)
Q Consensus 78 W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~--~~~--~---~d----~~~~l~~i~~~~~~~iil~~~~~~--~~~ 144 (149)
|..++++=++-.|+.-+.++.+.+-...+-.... +++ + +. ..++++.+.+.+.+.+|+-|+... +..
T Consensus 5 ~~~IgvFDSGVGGLsVlrei~~~LP~e~~iY~~D~a~~PYG~ks~e~I~~~~~~i~~~l~~~~ik~lVIACNTASa~al~ 84 (269)
T COG0796 5 QPPIGVFDSGVGGLSVLREIRRQLPDEDIIYVGDTARFPYGEKSEEEIRERTLEIVDFLLERGIKALVIACNTASAVALE 84 (269)
T ss_pred CCeEEEEECCCCcHHHHHHHHHHCCCCcEEEEecCCCCCCCCCCHHHHHHHHHHHHHHHHHcCCCEEEEecchHHHHHHH
Confidence 5567776666678899999998876655433322 332 2 12 246678888999999999998754 345
Q ss_pred HHhh
Q psy18065 145 FFRA 148 (149)
Q Consensus 145 il~q 148 (149)
.+|+
T Consensus 85 ~LR~ 88 (269)
T COG0796 85 DLRE 88 (269)
T ss_pred HHHH
Confidence 5554
No 381
>TIGR01391 dnaG DNA primase, catalytic core. This protein contains a CHC2 zinc finger (Pfam:PF01807) and a Toprim domain (Pfam:PF01751).
Probab=33.39 E-value=1.2e+02 Score=23.77 Aligned_cols=57 Identities=9% Similarity=0.123 Sum_probs=31.6
Q ss_pred HHHHHHHHHHhcCCcEEEEEeecC-cchhhHHHHHhCCCCCCceEEEEecCC-CchHHHH
Q psy18065 65 LNAAFKDVIRFLNWTKVAIVYEED-NGLFKLQELVKTPPTLKTEMYIRHANP-STYRNVL 122 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~vi~~~~-~~~~~l~~l~~~~~~~~~~v~~~~~~~-~d~~~~l 122 (149)
+....+.+++.+. ++|.+.+|+| .|......+.+.+...|+.+.+..++. .|..+.+
T Consensus 288 lt~~~~~~l~r~~-~~vvl~~D~D~aG~~aa~r~~~~l~~~g~~v~v~~lp~gkDpdd~l 346 (415)
T TIGR01391 288 LTEEHIKLLKRYA-DEIILCFDGDKAGRKAALRAIELLLPLGINVKVIKLPGGKDPDEYL 346 (415)
T ss_pred CcHHHHHHHHhhC-CeEEEEeCCCHHHHHHHHHHHHHHHHcCCeEEEEECCCCCCHHHHH
Confidence 4445566665442 3788888886 466555555555444465555444432 3444444
No 382
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=33.26 E-value=1e+02 Score=17.78 Aligned_cols=21 Identities=10% Similarity=0.069 Sum_probs=10.3
Q ss_pred chHHHHHHHHhCCCceEEEec
Q psy18065 117 TYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 117 d~~~~l~~i~~~~~~~iil~~ 137 (149)
.+...++...+.+...+++.+
T Consensus 42 ~~~k~~~~a~~~g~~~~iiig 62 (94)
T cd00738 42 KIGKKFREADLRGVPFAVVVG 62 (94)
T ss_pred CHhHHHHHHHhCCCCEEEEEC
Confidence 444555555555544444444
No 383
>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=33.08 E-value=1.3e+02 Score=21.14 Aligned_cols=19 Identities=11% Similarity=0.062 Sum_probs=12.7
Q ss_pred hHHHHHHHHHHHhcCCcEE
Q psy18065 63 KLLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 63 ~~~~~ai~~ll~~~~W~~v 81 (149)
..+..++.+.++.+||+=+
T Consensus 15 ~~~~~~i~~~~~~~g~~~~ 33 (263)
T cd06280 15 TAVSRAVEDAAYRAGLRVI 33 (263)
T ss_pred HHHHHHHHHHHHHCCCEEE
Confidence 4456677777777886643
No 384
>COG0021 TktA Transketolase [Carbohydrate transport and metabolism]
Probab=32.96 E-value=1.2e+02 Score=25.47 Aligned_cols=68 Identities=13% Similarity=0.222 Sum_probs=44.0
Q ss_pred ChhHHHHHH----HHHHHhcCCcEEEEEeecCc----c---hhhHHHHHhCCCCCCceEEEEecCCCc---hHHHHHHHH
Q psy18065 61 SQKLLNAAF----KDVIRFLNWTKVAIVYEEDN----G---LFKLQELVKTPPTLKTEMYIRHANPST---YRNVLREIR 126 (149)
Q Consensus 61 ~~~~~~~ai----~~ll~~~~W~~v~vi~~~~~----~---~~~l~~l~~~~~~~~~~v~~~~~~~~d---~~~~l~~i~ 126 (149)
.|..+.+++ .++..|++-.+..++||+.. | ....++....++..|+.+. +..+..| +...+.+.|
T Consensus 156 GDGclmEGvs~EA~slAG~l~L~kLIvlyD~N~IsiDG~~~~~f~ed~~~RfeAyGW~vi-~~~DG~D~e~I~~Ai~~Ak 234 (663)
T COG0021 156 GDGCLMEGVSHEAASLAGHLKLGKLIVLYDSNDISIDGDTSLSFTEDVAKRFEAYGWNVI-RVIDGHDLEAIDKAIEEAK 234 (663)
T ss_pred cCchHhcccHHHHHHHHhhcCCCcEEEEEeCCCceeccCcccccchhHHHHHHhcCCeEE-EecCCCCHHHHHHHHHHHH
Confidence 344455554 56889999999999999632 2 3446677777888898764 2343334 455566666
Q ss_pred hCC
Q psy18065 127 QKE 129 (149)
Q Consensus 127 ~~~ 129 (149)
..+
T Consensus 235 ~~~ 237 (663)
T COG0021 235 AST 237 (663)
T ss_pred hcC
Confidence 643
No 385
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=32.87 E-value=50 Score=23.80 Aligned_cols=67 Identities=19% Similarity=0.343 Sum_probs=39.9
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCc---eeecc-CC-C---------CCCccc-EEEecCChhHHHHHHHHHHHhcC
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPH---MESRL-DL-E---------LNSKEF-SVNLYPSQKLLNAAFKDVIRFLN 77 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~---is~~~-~~-~---------~~~~~~-~~~~~p~~~~~~~ai~~ll~~~~ 77 (149)
.|++|+||++|.=|.-+.-+ +.+.-|. |...- .. . .-..-| -|+..|.-+.+...+...++-.|
T Consensus 29 evv~iiGpSGSGKSTlLRcl-N~LE~~~~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFPHlTvleNv~lap~~v~~ 107 (240)
T COG1126 29 EVVVIIGPSGSGKSTLLRCL-NGLEEPDSGSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLENVTLAPVKVKK 107 (240)
T ss_pred CEEEEECCCCCCHHHHHHHH-HCCcCCCCceEEECCEeccchhhHHHHHHhcCeecccccccccchHHHHHHhhhHHHcC
Confidence 39999999998887666654 4444443 33321 10 0 001112 46778887777777777776666
Q ss_pred CcE
Q psy18065 78 WTK 80 (149)
Q Consensus 78 W~~ 80 (149)
|.+
T Consensus 108 ~~k 110 (240)
T COG1126 108 LSK 110 (240)
T ss_pred CCH
Confidence 654
No 386
>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=32.52 E-value=1.8e+02 Score=20.53 Aligned_cols=96 Identities=14% Similarity=0.077 Sum_probs=53.7
Q ss_pred HhhCCcEEEEc-CCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHHH-hcCCc--EEEEE
Q psy18065 9 QLQNGVQALFG-PSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIR-FLNWT--KVAIV 84 (149)
Q Consensus 9 ~~~~~v~aiiG-p~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll~-~~~W~--~v~vi 84 (149)
+...++.+||- +..+......-..+...++|.+....... ...+....+.+.....+..+++.+. ..|=+ +++++
T Consensus 51 ~~~~~~Dgiii~~~~~~~~~~~i~~~~~~~iPvV~~~~~~~-~~~~~~~~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i 129 (282)
T cd06318 51 LLTRGVNVLIINPVDPEGLVPAVAAAKAAGVPVVVVDSSIN-LEAGVVTQVQSSNAKNGNLVGEWVVGELGDKPMKIILL 129 (282)
T ss_pred HHHcCCCEEEEecCCccchHHHHHHHHHCCCCEEEecCCCC-CCcCeEEEEecCcHHHHHHHHHHHHHHhCCCCceEEEE
Confidence 44556666553 33332222222345678999999874321 1112233466666667778888664 46754 88887
Q ss_pred eec-C--cchhhHHHHHhCCCCCC
Q psy18065 85 YEE-D--NGLFKLQELVKTPPTLK 105 (149)
Q Consensus 85 ~~~-~--~~~~~l~~l~~~~~~~~ 105 (149)
... + .+..+.+.+.+.+..++
T Consensus 130 ~~~~~~~~~~~R~~gf~~~l~~~~ 153 (282)
T cd06318 130 SGDAGNLVGQARRDGFLLGVSEAQ 153 (282)
T ss_pred ECCCCCchHhHHHHhHHHHHhhCc
Confidence 643 2 24566666666655443
No 387
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=32.47 E-value=2.6e+02 Score=22.41 Aligned_cols=59 Identities=10% Similarity=0.214 Sum_probs=35.6
Q ss_pred CcEEEEEeecCcc--hhhHHHHHhCCCCC--CceEEEEecCCCchHHHHHHHHhCCCceEEEecC
Q psy18065 78 WTKVAIVYEEDNG--LFKLQELVKTPPTL--KTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 78 W~~v~vi~~~~~~--~~~l~~l~~~~~~~--~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
=+++.|+|..-+| ....+.+.+.+++. |+.+.+.++...+..+++..+.+. +.|++-++
T Consensus 251 ~~kv~IvY~S~~GnTe~mA~~ia~gl~~~g~gv~v~~~~v~~~~~~~i~~~~~~a--d~vilGsp 313 (479)
T PRK05452 251 EDRITIFYDTMSNNTRMMADAIAQGIAEVDPRVAVKIFNVARSDKNEILTNVFRS--KGVLVGSS 313 (479)
T ss_pred cCcEEEEEECCccHHHHHHHHHHHHHHhhCCCceEEEEECCCCCHHHHHhHHhhC--CEEEEECC
Confidence 3679999988666 34455555555544 456665566545566666666544 35665554
No 388
>PF09673 TrbC_Ftype: Type-F conjugative transfer system pilin assembly protein; InterPro: IPR019106 This entry represents TrbC, a protein that is an essential component of the F-type conjugative pilus assembly system (aka type 4 secretion system) for the transfer of plasmid DNA [, ]. The N-terminal portion of these proteins is heterogeneous.
Probab=32.07 E-value=1.3e+02 Score=18.80 Aligned_cols=32 Identities=13% Similarity=0.138 Sum_probs=15.9
Q ss_pred hhhHHHHHhCCCCCCceEEEEecCCCchHHHH
Q psy18065 91 LFKLQELVKTPPTLKTEMYIRHANPSTYRNVL 122 (149)
Q Consensus 91 ~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l 122 (149)
...+..+.+..++.|+.+.++-+.++++++..
T Consensus 10 ~~~L~~l~~~a~~~~~~~V~RG~~~g~~~~t~ 41 (113)
T PF09673_consen 10 DASLRNLLKQAERAGVVVVFRGFPDGSFKPTA 41 (113)
T ss_pred HHHHHHHHHHHHhCCcEEEEECCCCCCHHHHH
Confidence 34445555554444666666555443444443
No 389
>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=32.05 E-value=2.3e+02 Score=21.48 Aligned_cols=70 Identities=11% Similarity=0.129 Sum_probs=40.6
Q ss_pred HHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEe-cC----C--CchHHHHHHHHhCCCceEEEec
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRH-AN----P--STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~-~~----~--~d~~~~l~~i~~~~~~~iil~~ 137 (149)
.-+.++++.++.+++.++.+..-.....+.+.+.+++.|+.+.+.. .. + +...+.++.+++ +.+.||-.+
T Consensus 12 ~~l~~~~~~~~~~~~livtd~~~~~~~~~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIG 88 (348)
T cd08175 12 ERLPEILKEFGYKKALIVADENTYAAAGKKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVG 88 (348)
T ss_pred HHHHHHHHhcCCCcEEEEECCcHHHHHHHHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEEC
Confidence 3456677778889998888643211123555555555666443322 11 1 234556666666 778888766
No 390
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=32.01 E-value=2.3e+02 Score=21.50 Aligned_cols=32 Identities=28% Similarity=0.461 Sum_probs=25.3
Q ss_pred CchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 116 STYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 116 ~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
+.|.+++..+++.+ ..+++|++.+.....+++
T Consensus 146 d~y~~li~~~~~~g-~~vilD~Sg~~L~~~L~~ 177 (310)
T COG1105 146 DAYAELIRILRQQG-AKVILDTSGEALLAALEA 177 (310)
T ss_pred HHHHHHHHHHHhcC-CeEEEECChHHHHHHHcc
Confidence 45778888888886 488899999888877764
No 391
>TIGR00418 thrS threonyl-tRNA synthetase. This model represents the threonyl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. Note that B. subtilis has closely related isozymes thrS and thrZ. The N-terminal regions are quite dissimilar between archaeal and eubacterial forms, while some eukaryotic forms are missing sequence there altogether..
Probab=31.90 E-value=2.8e+02 Score=22.57 Aligned_cols=59 Identities=8% Similarity=0.133 Sum_probs=38.0
Q ss_pred EEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCch
Q psy18065 81 VAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTSTT 140 (149)
Q Consensus 81 v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~~ 140 (149)
|.++.-++........+.+.+++.|+.+.+. .....+...++...+.++..+|+.+..+
T Consensus 473 v~vi~~~~~~~~~a~~ia~~LR~~Gi~v~~d-~~~~sl~~q~k~A~~~g~~~~iiiG~~E 531 (563)
T TIGR00418 473 VVVIPVNERHLDYAKKVAQKLKKAGIRVDVD-DRNERLGKKIREAQKQKIPYMLVVGDKE 531 (563)
T ss_pred EEEEEccchHHHHHHHHHHHHHHcCCEEEEE-CCCCCHHHHHHHHHhcCCCEEEEEchhh
Confidence 5555555444444445555556668777552 2234688888888888888888887543
No 392
>PRK08356 hypothetical protein; Provisional
Probab=31.89 E-value=70 Score=21.86 Aligned_cols=32 Identities=9% Similarity=-0.060 Sum_probs=24.2
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCceeecc
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~ 45 (149)
.+.++.||+++.=+.....+ ..+++++|+.+.
T Consensus 6 ~~i~~~G~~gsGK~t~a~~l-~~~g~~~is~~~ 37 (195)
T PRK08356 6 MIVGVVGKIAAGKTTVAKFF-EEKGFCRVSCSD 37 (195)
T ss_pred EEEEEECCCCCCHHHHHHHH-HHCCCcEEeCCC
Confidence 36788999997776665555 458999999774
No 393
>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=31.87 E-value=1.8e+02 Score=20.33 Aligned_cols=17 Identities=0% Similarity=0.075 Sum_probs=11.1
Q ss_pred hHHHHHHHHHHHhcCCc
Q psy18065 63 KLLNAAFKDVIRFLNWT 79 (149)
Q Consensus 63 ~~~~~ai~~ll~~~~W~ 79 (149)
..+..++.+.++..|.+
T Consensus 15 ~~~~~gi~~~~~~~~~~ 31 (265)
T cd06285 15 ATMYEGIEEAAAERGYS 31 (265)
T ss_pred HHHHHHHHHHHHHCCCE
Confidence 34556677777777766
No 394
>PRK13946 shikimate kinase; Provisional
Probab=31.69 E-value=71 Score=21.61 Aligned_cols=33 Identities=15% Similarity=0.205 Sum_probs=27.8
Q ss_pred CCcEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 12 NGVQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 12 ~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
...+.++|+.++.-+.....++..+++|++...
T Consensus 10 ~~~I~l~G~~GsGKsti~~~LA~~Lg~~~id~D 42 (184)
T PRK13946 10 KRTVVLVGLMGAGKSTVGRRLATMLGLPFLDAD 42 (184)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHcCCCeECcC
Confidence 346889999999888888899999999988743
No 395
>PRK13761 hypothetical protein; Provisional
Probab=31.59 E-value=1.9e+02 Score=20.95 Aligned_cols=120 Identities=13% Similarity=0.070 Sum_probs=68.9
Q ss_pred EEEcCCCCCcHHHHHH----hhcccCCCceeecc---C--CC-------CCCcccEEEecCChhHHHHHHHHHHHhcCCc
Q psy18065 16 ALFGPSDALLGPHVQS----ICEALDVPHMESRL---D--LE-------LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWT 79 (149)
Q Consensus 16 aiiGp~~s~~~~~v~~----~~~~~~iP~is~~~---~--~~-------~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~ 79 (149)
-++|..+..++..... ..=..+-|+||..- . +. ..+-+--++++-....=.+.|.++++..|++
T Consensus 43 YLlGEkT~~~A~~A~raAaA~LLlA~~PVISVNGN~AAL~p~eiveLa~~~~A~iEVNLF~RT~eR~~~I~~~l~~~Ga~ 122 (248)
T PRK13761 43 YLLGEKTTPSALEAERAAAALLLLAKHPVISVNGNTAALVPEEIVELAEALNAKLEVNLFYRTEERVEKIAEVLREHGAK 122 (248)
T ss_pred HhcccCCcHHHHHHHHHHHHHHHhcCCCeEEEcchHHhhChHHHHHHHHHhCCCEEEEeccCCHHHHHHHHHHHHHcCCc
Confidence 4677777666543333 22345789999742 1 21 1234555666666666788999999999999
Q ss_pred EEEEEeecCcchhhHHHHHhCCCCCCc---eEEEEecCCCchHHHHHHHHhCCCceEEEecCc
Q psy18065 80 KVAIVYEEDNGLFKLQELVKTPPTLKT---EMYIRHANPSTYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 80 ~v~vi~~~~~~~~~l~~l~~~~~~~~~---~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
.|-=.-+ +.....+..-.......|| ++.+--+.+.|-.+.|.+|-+ .+|.+|.++
T Consensus 123 ~vlG~~~-~~~ip~L~~~R~~v~~~GIy~ADVVLVPLEDGDR~EaL~~mGK---~VI~IDLNP 181 (248)
T PRK13761 123 EVLGTDE-DARIPGLDHERAKVSEDGIYSADVVLVPLEDGDRTEALVKMGK---TVIAIDLNP 181 (248)
T ss_pred eeeCCCC-cCcCCCCCCccceECcccceeccEEEecCCCCcHHHHHHHcCC---eEEEEeCCC
Confidence 5432222 2222333333333344454 344444445677777777654 488888865
No 396
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=31.50 E-value=2e+02 Score=20.72 Aligned_cols=70 Identities=10% Similarity=0.183 Sum_probs=38.4
Q ss_pred CcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEe--c-------CCCchH-----HHHHHHHhCCCceEEEecCc-hhH
Q psy18065 78 WTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRH--A-------NPSTYR-----NVLREIRQKEIFNLIIDTST-THI 142 (149)
Q Consensus 78 W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~--~-------~~~d~~-----~~l~~i~~~~~~~iil~~~~-~~~ 142 (149)
=++|+++.........++++.+.+.-.+-|..++. + +++..+ +..+.++..++++|++-|.. ..+
T Consensus 109 grrfsViTtt~rs~~il~~lv~~~g~s~~~~~vrstdl~vL~l~~~~~~~~~~l~~~~~~a~~edgAeaIiLGCAGms~l 188 (230)
T COG4126 109 GRRFSVITTTERSRPILEELVRSYGLSRHCRSVRSTDLPVLALEGPPEEAEALLVIEAAEALKEDGAEAIILGCAGMSDL 188 (230)
T ss_pred cceEEEEecCcccHHHHHHHHHhcCccccccceeeCCCCcccccCChHHHHHHHHHHHHHHhhhcCCCEEEEcCccHHHH
Confidence 36777777776666666666665433333332221 1 112232 33355677888999998864 344
Q ss_pred HHHHh
Q psy18065 143 SQFFR 147 (149)
Q Consensus 143 ~~il~ 147 (149)
.+.|+
T Consensus 189 a~~Lq 193 (230)
T COG4126 189 ADQLQ 193 (230)
T ss_pred HHHHH
Confidence 44443
No 397
>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=31.20 E-value=1.9e+02 Score=20.33 Aligned_cols=21 Identities=5% Similarity=-0.034 Sum_probs=13.2
Q ss_pred HHHHHHHHhCCCceEEEecCc
Q psy18065 119 RNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 119 ~~~l~~i~~~~~~~iil~~~~ 139 (149)
....+.+.+.+.+.|.+.+..
T Consensus 105 ~~a~~~l~~~G~~~i~~l~~~ 125 (269)
T cd06281 105 RQAVEYLISLGHRRIALVGGG 125 (269)
T ss_pred HHHHHHHHHCCCcEEEEecCc
Confidence 445566666777777766543
No 398
>cd07372 2A5CPDO_B The beta subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO), catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, which is an intermediate during p-chloronitrobenzene degradation. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active 2A5CPDO enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. The alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication. This model describes the beta subunit, which contains a putative metal binding site with two conserved histidines; these residues are equivalent to two out of three Fe(II) bindin
Probab=31.17 E-value=2.2e+02 Score=21.20 Aligned_cols=62 Identities=13% Similarity=0.089 Sum_probs=35.0
Q ss_pred CCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhH---HHHHHHHHHHhcCCcEEEEEeecCc
Q psy18065 23 ALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKL---LNAAFKDVIRFLNWTKVAIVYEEDN 89 (149)
Q Consensus 23 s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~---~~~ai~~ll~~~~W~~v~vi~~~~~ 89 (149)
..+...+.-+-...++|.|..+...- ++.+.+.++... +++++.+.++..+ ++|++|.+++-
T Consensus 127 HGt~vPL~fl~p~~~~pvV~is~~~l----~~~~~~~~~~~~~~~lG~ai~~al~~~~-~RV~vIaSG~L 191 (294)
T cd07372 127 YGTITTLHMIRPQWDIPVVGISANNT----PYYLNTKEGLGEMDVLGKATREAIRKTG-RRAVLLASNTL 191 (294)
T ss_pred chHHHHHHHhCCCCCCcEEEEecCcc----cccccccCCHHHHHHHHHHHHHHHHhcC-CeEEEEEeCcc
Confidence 34444444444445566665543110 101111233333 7899999888877 88999998763
No 399
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=31.14 E-value=2.7e+02 Score=22.19 Aligned_cols=24 Identities=17% Similarity=0.207 Sum_probs=18.1
Q ss_pred CcEEEEcCCCCCcHHHHHHhhccc
Q psy18065 13 GVQALFGPSDALLGPHVQSICEAL 36 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~ 36 (149)
++.+++||.++.=+..++.++..+
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L 265 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQF 265 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHH
Confidence 477888888877777777777654
No 400
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=31.00 E-value=45 Score=26.17 Aligned_cols=18 Identities=11% Similarity=0.156 Sum_probs=9.4
Q ss_pred CcHHHHHHhhcccCCCce
Q psy18065 24 LLGPHVQSICEALDVPHM 41 (149)
Q Consensus 24 ~~~~~v~~~~~~~~iP~i 41 (149)
.....+..+++.+++|+.
T Consensus 247 GA~EQLk~Ya~im~vp~~ 264 (407)
T COG1419 247 GAVEQLKTYADIMGVPLE 264 (407)
T ss_pred hHHHHHHHHHHHhCCceE
Confidence 334445555555566653
No 401
>PF07279 DUF1442: Protein of unknown function (DUF1442); InterPro: IPR009902 This family consists of several hypothetical Arabidopsis thaliana proteins of around 225 residues in length. The function of this family is unknown.
Probab=30.84 E-value=2e+02 Score=20.56 Aligned_cols=15 Identities=0% Similarity=0.160 Sum_probs=7.2
Q ss_pred CcHHHHHHhhcccCC
Q psy18065 24 LLGPHVQSICEALDV 38 (149)
Q Consensus 24 ~~~~~v~~~~~~~~i 38 (149)
..+.-++.++.=++=
T Consensus 28 ~~aEfISAlAAG~nA 42 (218)
T PF07279_consen 28 GVAEFISALAAGWNA 42 (218)
T ss_pred CHHHHHHHHhccccc
Confidence 344555555544443
No 402
>TIGR01162 purE phosphoribosylaminoimidazole carboxylase, PurE protein. Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. This model represents PurK, an N5-CAIR mutase.
Probab=30.73 E-value=87 Score=21.10 Aligned_cols=22 Identities=14% Similarity=0.150 Sum_probs=12.4
Q ss_pred CchHHHHHHHHhCCCceEEEec
Q psy18065 116 STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 116 ~d~~~~l~~i~~~~~~~iil~~ 137 (149)
+...+.+++.+..+.++||..+
T Consensus 40 ~~~~~~~~~a~~~g~~viIa~A 61 (156)
T TIGR01162 40 ELMLEYAKEAEERGIKVIIAGA 61 (156)
T ss_pred HHHHHHHHHHHHCCCeEEEEeC
Confidence 3455555666656666655544
No 403
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=30.73 E-value=2.6e+02 Score=22.21 Aligned_cols=8 Identities=38% Similarity=0.480 Sum_probs=4.3
Q ss_pred ceEEEecC
Q psy18065 131 FNLIIDTS 138 (149)
Q Consensus 131 ~~iil~~~ 138 (149)
+.||+|+.
T Consensus 177 DvVIIDTA 184 (437)
T PRK00771 177 DVIIVDTA 184 (437)
T ss_pred CEEEEECC
Confidence 45555554
No 404
>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=30.58 E-value=48 Score=23.94 Aligned_cols=25 Identities=28% Similarity=0.389 Sum_probs=18.0
Q ss_pred hCCcEEEEcCCCCCcHHHHHHhhccc
Q psy18065 11 QNGVQALFGPSDALLGPHVQSICEAL 36 (149)
Q Consensus 11 ~~~v~aiiGp~~s~~~~~v~~~~~~~ 36 (149)
++.|.|+|||+++.=+.-+.. .|.+
T Consensus 32 ~~~VTAlIGPSGcGKST~LR~-lNRm 56 (253)
T COG1117 32 KNKVTALIGPSGCGKSTLLRC-LNRM 56 (253)
T ss_pred CCceEEEECCCCcCHHHHHHH-HHhh
Confidence 356999999999887766555 3444
No 405
>cd01482 vWA_collagen_alphaI-XII-like Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=30.53 E-value=1.6e+02 Score=19.28 Aligned_cols=50 Identities=14% Similarity=0.166 Sum_probs=21.9
Q ss_pred CcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhC
Q psy18065 78 WTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQK 128 (149)
Q Consensus 78 W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~ 128 (149)
++++.++..|......++...+.+++.|+.+...-+...+ .+.|.+|-..
T Consensus 103 ~~k~iillTDG~~~~~~~~~a~~lk~~gi~i~~ig~g~~~-~~~L~~ia~~ 152 (164)
T cd01482 103 VPKVVILITDGKSQDDVELPARVLRNLGVNVFAVGVKDAD-ESELKMIASK 152 (164)
T ss_pred CCEEEEEEcCCCCCchHHHHHHHHHHCCCEEEEEecCcCC-HHHHHHHhCC
Confidence 4555665554332222223333333445555443333223 5556655544
No 406
>TIGR02873 spore_ylxY probable sporulation protein, polysaccharide deacetylase family. Members of this protein family are most closely related to TIGR02764, a subset of polysaccharide deacetylase family proteins found in a species if and only if the species forms endospores like those of Bacillus subtilis or Clostridium tetani. This family is likewise restricted to spore-formers, but is not universal among them in having sequences with full-length matches to the model.
Probab=30.52 E-value=82 Score=23.10 Aligned_cols=29 Identities=3% Similarity=-0.020 Sum_probs=19.3
Q ss_pred EEEecCChhHHHHHHHHHHHhcCCcEEEEE
Q psy18065 55 SVNLYPSQKLLNAAFKDVIRFLNWTKVAIV 84 (149)
Q Consensus 55 ~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi 84 (149)
.|--.|.. .....++++|+.+|.+---++
T Consensus 90 TFDdg~~~-~~t~~iL~iLkk~~vkATFFv 118 (268)
T TIGR02873 90 LINVAWGN-EYLPEILQILKKHDVKATFFL 118 (268)
T ss_pred EEeCCCCc-chHHHHHHHHHHCCCCEEEEe
Confidence 45555654 366789999999888644443
No 407
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=30.36 E-value=74 Score=21.00 Aligned_cols=31 Identities=13% Similarity=0.087 Sum_probs=26.1
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
...++|+.++.-+.....++..+++|++...
T Consensus 4 ~i~~~G~~GsGKst~~~~la~~lg~~~~d~D 34 (171)
T PRK03731 4 PLFLVGARGCGKTTVGMALAQALGYRFVDTD 34 (171)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhCCCEEEcc
Confidence 4678899998888888889999999998753
No 408
>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=30.19 E-value=1.5e+02 Score=19.02 Aligned_cols=77 Identities=6% Similarity=0.052 Sum_probs=45.5
Q ss_pred ChhHHHHHHHHHHHhcCCcEEEEEeecC-c----chhhHHHHHhCCCCCCce-EEEEecC---C--CchHHHHHHHHhC-
Q psy18065 61 SQKLLNAAFKDVIRFLNWTKVAIVYEED-N----GLFKLQELVKTPPTLKTE-MYIRHAN---P--STYRNVLREIRQK- 128 (149)
Q Consensus 61 ~~~~~~~ai~~ll~~~~W~~v~vi~~~~-~----~~~~l~~l~~~~~~~~~~-v~~~~~~---~--~d~~~~l~~i~~~- 128 (149)
+...|-..+-.+....||.-+.++.+.+ . ....++.+++..+..++. +.+..++ . .+...+++.+.+.
T Consensus 19 sle~Q~~~l~~~a~~~g~~i~~~~~D~~~SG~~~~Rp~l~~ll~~~~~g~vd~vvv~~ldRl~R~~~d~~~~~~~l~~~~ 98 (140)
T cd03770 19 SIENQKAILEEYAKENGLENIRHYIDDGFSGTTFDRPGFNRMIEDIEAGKIDIVIVKDMSRLGRNYLKVGLYMEILFPKK 98 (140)
T ss_pred CHHHHHHHHHHHHHHCCCEEEEEEEcCCCcCCcCCCHHHHHHHHHHHcCCCCEEEEeccchhccCHHHHHHHHHHHHhhc
Confidence 3345666777777778998666544432 2 245577777765554343 3344443 2 3455667777776
Q ss_pred CCceEEEec
Q psy18065 129 EIFNLIIDT 137 (149)
Q Consensus 129 ~~~~iil~~ 137 (149)
+.+.+.+..
T Consensus 99 gv~l~~~~~ 107 (140)
T cd03770 99 GVRFIAIND 107 (140)
T ss_pred CcEEEEecC
Confidence 877777654
No 409
>KOG0025|consensus
Probab=30.13 E-value=2.3e+02 Score=21.54 Aligned_cols=35 Identities=9% Similarity=0.097 Sum_probs=26.1
Q ss_pred ccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeecC
Q psy18065 53 EFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEED 88 (149)
Q Consensus 53 ~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~ 88 (149)
+++++-..+ ...+++++++.+.+|-+.+.++=+.+
T Consensus 162 D~vIQNgan-S~VG~~ViQlaka~GiktinvVRdR~ 196 (354)
T KOG0025|consen 162 DSVIQNGAN-SGVGQAVIQLAKALGIKTINVVRDRP 196 (354)
T ss_pred CeeeecCcc-cHHHHHHHHHHHHhCcceEEEeecCc
Confidence 344444433 34789999999999999999997765
No 410
>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=29.78 E-value=2.5e+02 Score=21.26 Aligned_cols=70 Identities=6% Similarity=-0.039 Sum_probs=40.8
Q ss_pred HHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEE-EecCC-CchHHHHHHHHhCCCceEEEecC
Q psy18065 68 AFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYI-RHANP-STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 68 ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~-~~~~~-~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
.+-++++.++ +++.++++..-.....+.+.+.++..++.+.. ...+. ++..+.....++.+.+.||-.+-
T Consensus 14 ~l~~~~~~~~-~~~liv~d~~~~~~~~~~l~~~L~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~iIavGG 85 (347)
T cd08172 14 ELGELLKRFG-KRPLIVTGPRSWAAAKPYLPESLAAGEAFVLRYDGECSEENIERLAAQAKENGADVIIGIGG 85 (347)
T ss_pred HHHHHHHHhC-CeEEEEECHHHHHHHHHHHHHHHhcCeEEEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4556666664 88888887542222334444444333433321 12222 45678888888889998887663
No 411
>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=29.50 E-value=2.5e+02 Score=21.17 Aligned_cols=70 Identities=13% Similarity=0.058 Sum_probs=39.3
Q ss_pred HHHHHHHhcCC-cEEEEEeecCcchhhHHHHHhCCCCCCceEEEE--ecCC----CchHHHHHHHHhCCCceEEEecC
Q psy18065 68 AFKDVIRFLNW-TKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIR--HANP----STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 68 ai~~ll~~~~W-~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~--~~~~----~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
.+-++++.+++ +++.++.+..-.....+.+.+.+++.|+.+.+. .... +...+....+++ +.+.||-.+-
T Consensus 13 ~l~~~~~~~~~~~kvlivtd~~~~~~~~~~i~~~L~~~~~~~~i~~~~~~~~p~~~~v~~~~~~~~~-~~d~IIaiGG 89 (332)
T cd08549 13 DIGPIINKIGVNSKIMIVCGNNTYKVAGKEIIERLESNNFTKEVLERDSLLIPDEYELGEVLIKLDK-DTEFLLGIGS 89 (332)
T ss_pred HHHHHHHHcCCCCcEEEEECCcHHHHHHHHHHHHHHHcCCeEEEEecCCCCCCCHHHHHHHHHHhhc-CCCEEEEECC
Confidence 45566777776 788888875422222355555554455544332 2211 234566677777 7777877663
No 412
>TIGR02742 TrbC_Ftype type-F conjugative transfer system pilin assembly protein TrbC. This protein is an essential component of the F-type conjugative pilus assembly system for the transfer of plasmid DNA. The N-terminal portion of these proteins are heterogeneous and are not covered by this model.
Probab=29.47 E-value=1.3e+02 Score=19.58 Aligned_cols=34 Identities=15% Similarity=0.184 Sum_probs=17.0
Q ss_pred hhhHHHHHhCCCCCCceEEEEecCCCchHHHHHH
Q psy18065 91 LFKLQELVKTPPTLKTEMYIRHANPSTYRNVLRE 124 (149)
Q Consensus 91 ~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~ 124 (149)
...|..+.++.++.|+.+.++-+.++++++..+.
T Consensus 11 ~~~Lk~l~~~a~~~g~~~VlRG~~~~~~~~T~~~ 44 (130)
T TIGR02742 11 EPLLKQLLDQAEALGAPLVIRGLLDNGFKATATR 44 (130)
T ss_pred HHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHH
Confidence 3444555555445555555555544445444433
No 413
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=29.28 E-value=2.4e+02 Score=20.83 Aligned_cols=79 Identities=10% Similarity=0.182 Sum_probs=47.8
Q ss_pred HhhCCcEEEEcCCCC-CcHHHHHHhhcccCCCceeecc-CCCCCCcc----cEEEecCChhHHHHHHHHHHHh-cCCc--
Q psy18065 9 QLQNGVQALFGPSDA-LLGPHVQSICEALDVPHMESRL-DLELNSKE----FSVNLYPSQKLLNAAFKDVIRF-LNWT-- 79 (149)
Q Consensus 9 ~~~~~v~aiiGp~~s-~~~~~v~~~~~~~~iP~is~~~-~~~~~~~~----~~~~~~p~~~~~~~ai~~ll~~-~~W~-- 79 (149)
++..+...||--..+ ..-..+...|...++|+|+.+- ...-+... -+.++.-. -+++.+-.-|+. +|.+
T Consensus 117 ll~~~~D~VIdaiD~~~~k~~L~~~c~~~~ip~I~~gGag~k~dp~~~~~~di~~t~~~--pla~~~R~~lr~~~~~~~~ 194 (268)
T PRK15116 117 YMSAGFSYVIDAIDSVRPKAALIAYCRRNKIPLVTTGGAGGQIDPTQIQVVDLAKTIQD--PLAAKLRERLKSDFGVVKN 194 (268)
T ss_pred HhcCCCCEEEEcCCCHHHHHHHHHHHHHcCCCEEEECCcccCCCCCeEEEEeeecccCC--hHHHHHHHHHHHhhCCCcc
Confidence 333345666665554 4556688899999999998753 22111111 13333322 367777777766 7775
Q ss_pred -----EEEEEeecCc
Q psy18065 80 -----KVAIVYEEDN 89 (149)
Q Consensus 80 -----~v~vi~~~~~ 89 (149)
.+-++|+.+.
T Consensus 195 ~~~~~~~~~v~S~E~ 209 (268)
T PRK15116 195 SKGKLGVDCVFSTEA 209 (268)
T ss_pred cCccCCeEEEeCCCc
Confidence 3889998763
No 414
>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=29.23 E-value=1.4e+02 Score=18.59 Aligned_cols=82 Identities=9% Similarity=0.094 Sum_probs=42.0
Q ss_pred hHHHHHHHHHHHhcCCcEEEEEeecC---cchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCc
Q psy18065 63 KLLNAAFKDVIRFLNWTKVAIVYEED---NGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 63 ~~~~~ai~~ll~~~~W~~v~vi~~~~---~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
...+..+++-++..|+ .+..+.... .|......+.+. ...+++.+.-.++....+.++++.+.+++.+++....
T Consensus 13 ~~~g~~v~~~l~~~G~-~v~~Vnp~~~~i~G~~~y~sl~e~--p~~iDlavv~~~~~~~~~~v~~~~~~g~~~v~~~~g~ 89 (116)
T PF13380_consen 13 GKFGYRVLRNLKAAGY-EVYPVNPKGGEILGIKCYPSLAEI--PEPIDLAVVCVPPDKVPEIVDEAAALGVKAVWLQPGA 89 (116)
T ss_dssp TSHHHHHHHHHHHTT--EEEEESTTCSEETTEE-BSSGGGC--SST-SEEEE-S-HHHHHHHHHHHHHHT-SEEEE-TTS
T ss_pred CChHHHHHHHHHhCCC-EEEEECCCceEECcEEeeccccCC--CCCCCEEEEEcCHHHHHHHHHHHHHcCCCEEEEEcch
Confidence 3456667776666664 455555432 233333333331 2334444433444567788899988899998887753
Q ss_pred --hhHHHHHh
Q psy18065 140 --THISQFFR 147 (149)
Q Consensus 140 --~~~~~il~ 147 (149)
+.+....+
T Consensus 90 ~~~~~~~~a~ 99 (116)
T PF13380_consen 90 ESEELIEAAR 99 (116)
T ss_dssp --HHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 34444444
No 415
>PRK05568 flavodoxin; Provisional
Probab=28.88 E-value=1.6e+02 Score=18.71 Aligned_cols=20 Identities=0% Similarity=-0.174 Sum_probs=9.1
Q ss_pred ecCChhHHHHHHHHHHHhcC
Q psy18065 58 LYPSQKLLNAAFKDVIRFLN 77 (149)
Q Consensus 58 ~~p~~~~~~~ai~~ll~~~~ 77 (149)
+.-+....++++++-++.-|
T Consensus 11 ~~GnT~~~a~~i~~~~~~~g 30 (142)
T PRK05568 11 GTGNTEAMANLIAEGAKENG 30 (142)
T ss_pred CCchHHHHHHHHHHHHHHCC
Confidence 33344444555555444433
No 416
>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=28.69 E-value=2.7e+02 Score=21.39 Aligned_cols=71 Identities=11% Similarity=0.103 Sum_probs=43.8
Q ss_pred HHHHHHHHhcCCcEEEEEeecC-c-chhhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHhCCCceEEEecC
Q psy18065 67 AAFKDVIRFLNWTKVAIVYEED-N-GLFKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 67 ~ai~~ll~~~~W~~v~vi~~~~-~-~~~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
..+.++++.++ +++.++.+.. . ....++.+.+.++..|+.+... .+. + ++..+.+...+..+++.||-.+-
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGG 95 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPNPRLETVREGIELCKEEKVDFILAVGG 95 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCCCCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 35566777775 8888887642 2 1222344555555556655432 332 2 35677788889999999997663
No 417
>PRK09701 D-allose transporter subunit; Provisional
Probab=28.51 E-value=2.4e+02 Score=20.65 Aligned_cols=99 Identities=10% Similarity=0.035 Sum_probs=54.2
Q ss_pred HhhCCcEEEEc-CCCCC-cHHHHHHhhcccCCCceeeccCCCC-----CCcccEEEecCChhHHHHHHHHHH-HhcCC--
Q psy18065 9 QLQNGVQALFG-PSDAL-LGPHVQSICEALDVPHMESRLDLEL-----NSKEFSVNLYPSQKLLNAAFKDVI-RFLNW-- 78 (149)
Q Consensus 9 ~~~~~v~aiiG-p~~s~-~~~~v~~~~~~~~iP~is~~~~~~~-----~~~~~~~~~~p~~~~~~~ai~~ll-~~~~W-- 78 (149)
+..+++.+||- +..+. ....+.. +...+||++..+..... ........+.+.....+...++.+ +..|-
T Consensus 78 l~~~~vDgiIi~~~~~~~~~~~l~~-~~~~giPvV~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~ 156 (311)
T PRK09701 78 LSNKNYKGIAFAPLSSVNLVMPVAR-AWKKGIYLVNLDEKIDMDNLKKAGGNVEAFVTTDNVAVGAKGASFIIDKLGAEG 156 (311)
T ss_pred HHHcCCCEEEEeCCChHHHHHHHHH-HHHCCCcEEEeCCCCCcccccccCCceEEEeccchHHHHHHHHHHHHHHhCCCC
Confidence 44556666654 32222 2223333 34678999998743211 011222345666666777777766 44454
Q ss_pred cEEEEEeec-C--cchhhHHHHHhCCCCCC-ceE
Q psy18065 79 TKVAIVYEE-D--NGLFKLQELVKTPPTLK-TEM 108 (149)
Q Consensus 79 ~~v~vi~~~-~--~~~~~l~~l~~~~~~~~-~~v 108 (149)
++++++-.. + ....+.+.+.+.+++++ +.+
T Consensus 157 ~~i~~l~g~~~~~~~~~R~~Gf~~al~~~~~~~~ 190 (311)
T PRK09701 157 GEVAIIEGKAGNASGEARRNGATEAFKKASQIKL 190 (311)
T ss_pred CEEEEEECCCCCccHHHHHHHHHHHHHhCCCcEE
Confidence 788887543 2 23566677777665555 543
No 418
>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=28.36 E-value=1.6e+02 Score=21.88 Aligned_cols=59 Identities=19% Similarity=0.247 Sum_probs=33.3
Q ss_pred EEEEEeec---Ccch--hhHHHHHhCCCCC-CceEEEEe-cC--CCchHHHHHHHHhCCCceEEEecC
Q psy18065 80 KVAIVYEE---DNGL--FKLQELVKTPPTL-KTEMYIRH-AN--PSTYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 80 ~v~vi~~~---~~~~--~~l~~l~~~~~~~-~~~v~~~~-~~--~~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
+++++..+ |.|+ ...+.+.+..++. ++.+...+ .. ..++.+.+..+.+.+.+.||..+.
T Consensus 3 ~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~~~i~~~~~e~~~~~~~~~~~~~~~~~~~g~dlIi~~g~ 70 (306)
T PF02608_consen 3 KVALLDPGGINDKGFNQSAYEGLKRAEKELDGIEIIYVENVPETDADYEEAIRQLADQGYDLIIGHGF 70 (306)
T ss_dssp EEEEESSS-CCCSSHHHHHHHHHHHHHHHCTTEEEEEEES-S-TCHHHHHHHHHHHHTT-SEEEEESG
T ss_pred EEEEEECCCCCCccHHHHHHHHHHHHHHHcCCceEEEEecCCccHHHHHHHHHHHHHcCCCEEEEccH
Confidence 45666653 3332 2233333333333 66665433 33 467888888888888888888664
No 419
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=28.30 E-value=2.3e+02 Score=22.66 Aligned_cols=71 Identities=13% Similarity=0.192 Sum_probs=41.7
Q ss_pred HHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEe--cCCCc-hHHHHHHHHhCCCceEEEecCc
Q psy18065 68 AFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRH--ANPST-YRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 68 ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~--~~~~d-~~~~l~~i~~~~~~~iil~~~~ 139 (149)
-++.+++. .=+++.++..|-|--.-.+.|.....+.++.+.-.. -++.+ .++-++..+....+++|+|...
T Consensus 119 KLA~~lkk-~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~ak~~~~DvvIvDTAG 192 (451)
T COG0541 119 KLAKYLKK-KGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEKAKEEGYDVVIVDTAG 192 (451)
T ss_pred HHHHHHHH-cCCceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHHHHHHcCCCEEEEeCCC
Confidence 45555655 445677777776655555666655555555543221 11222 2566777777777888887754
No 420
>CHL00206 ycf2 Ycf2; Provisional
Probab=28.28 E-value=76 Score=30.47 Aligned_cols=31 Identities=16% Similarity=0.094 Sum_probs=28.1
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeecc
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~ 45 (149)
+.++||.++.=+..+..+|+..++|+|+.+.
T Consensus 1633 ILLiGPPGTGKTlLAKALA~es~VPFIsISg 1663 (2281)
T CHL00206 1633 ILVIGSIGTGRSYLVKYLATNSYVPFITVFL 1663 (2281)
T ss_pred eEEECCCCCCHHHHHHHHHHhcCCceEEEEH
Confidence 6678999999999999999999999999764
No 421
>PF09949 DUF2183: Uncharacterized conserved protein (DUF2183); InterPro: IPR019236 This domain, found in various bacterial and fungal proteins, has no known function.
Probab=28.15 E-value=1.5e+02 Score=18.22 Aligned_cols=87 Identities=14% Similarity=0.090 Sum_probs=46.5
Q ss_pred CCcHHHHHHhhcccCCCceeecc-CCCCCCcccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeecCcc-hhhHHHHHhC
Q psy18065 23 ALLGPHVQSICEALDVPHMESRL-DLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEEDNG-LFKLQELVKT 100 (149)
Q Consensus 23 s~~~~~v~~~~~~~~iP~is~~~-~~~~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~~~-~~~l~~l~~~ 100 (149)
+..-..+..+....++|.-+.-. +....... +++... .+.--..+..++..|-.+++.+|.|+.+. ...-.++.+.
T Consensus 10 wnly~~l~~Fl~~~~~P~G~~~Lr~~~~~~~~-~~~~~~-~~~K~~~i~~i~~~fP~~kfiLIGDsgq~DpeiY~~ia~~ 87 (100)
T PF09949_consen 10 WNLYPFLRDFLRRNGFPAGPLLLRDYGPSLSG-LFKSGA-EEHKRDNIERILRDFPERKFILIGDSGQHDPEIYAEIARR 87 (100)
T ss_pred HHHHHHHHHHHHhcCCCCCceEcccCCccccc-cccCCc-hhHHHHHHHHHHHHCCCCcEEEEeeCCCcCHHHHHHHHHH
Confidence 33445566677777777433221 11000001 122211 13456678889999999999999998543 3444455555
Q ss_pred CCCCCceEEEE
Q psy18065 101 PPTLKTEMYIR 111 (149)
Q Consensus 101 ~~~~~~~v~~~ 111 (149)
.-..-.++.++
T Consensus 88 ~P~~i~ai~IR 98 (100)
T PF09949_consen 88 FPGRILAIYIR 98 (100)
T ss_pred CCCCEEEEEEE
Confidence 43332344444
No 422
>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes. This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].
Probab=27.97 E-value=54 Score=18.56 Aligned_cols=18 Identities=22% Similarity=0.534 Sum_probs=13.8
Q ss_pred HHHHHHHHHHhcCCcEEE
Q psy18065 65 LNAAFKDVIRFLNWTKVA 82 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~ 82 (149)
-..-+-.-|+.|+|.+|-
T Consensus 13 ~v~d~K~~Lr~y~~~~I~ 30 (66)
T PF11767_consen 13 TVEDFKKRLRKYRWDRIR 30 (66)
T ss_pred cHHHHHHHHhcCCcceEE
Confidence 445666788999999976
No 423
>PLN02748 tRNA dimethylallyltransferase
Probab=27.87 E-value=68 Score=25.73 Aligned_cols=31 Identities=13% Similarity=0.227 Sum_probs=26.8
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCceee
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHMES 43 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~ 43 (149)
.+++|+||+.+.=+.....++..++.+.|+.
T Consensus 23 ~~i~i~GptgsGKs~la~~la~~~~~eii~~ 53 (468)
T PLN02748 23 KVVVVMGPTGSGKSKLAVDLASHFPVEIINA 53 (468)
T ss_pred CEEEEECCCCCCHHHHHHHHHHhcCeeEEcC
Confidence 4899999999888888888999999888874
No 424
>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=27.85 E-value=2.1e+02 Score=19.87 Aligned_cols=18 Identities=17% Similarity=0.067 Sum_probs=12.1
Q ss_pred hHHHHHHHHHHHhcCCcE
Q psy18065 63 KLLNAAFKDVIRFLNWTK 80 (149)
Q Consensus 63 ~~~~~ai~~ll~~~~W~~ 80 (149)
..+..++.+.++..||.=
T Consensus 15 ~~~~~gi~~~~~~~~~~~ 32 (264)
T cd01574 15 SSTLAAIESAAREAGYAV 32 (264)
T ss_pred HHHHHHHHHHHHHCCCeE
Confidence 345667777777777763
No 425
>COG3946 VirJ Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]
Probab=27.81 E-value=89 Score=24.72 Aligned_cols=62 Identities=13% Similarity=0.196 Sum_probs=39.5
Q ss_pred CcEEEEEeecCcchhhHHH-HHhCCCCCCceEE-EE--ec-----CC----CchHHHHHHHHh-CCCceEEEecCc
Q psy18065 78 WTKVAIVYEEDNGLFKLQE-LVKTPPTLKTEMY-IR--HA-----NP----STYRNVLREIRQ-KEIFNLIIDTST 139 (149)
Q Consensus 78 W~~v~vi~~~~~~~~~l~~-l~~~~~~~~~~v~-~~--~~-----~~----~d~~~~l~~i~~-~~~~~iil~~~~ 139 (149)
=-.++++|++|.|+..+.+ +-+.+.+.|+.|. +. |+ ++ .|+..+++.-.+ -+.+++++.+..
T Consensus 259 sd~~av~~SGDGGWr~lDk~v~~~l~~~gvpVvGvdsLRYfW~~rtPe~~a~Dl~r~i~~y~~~w~~~~~~liGyS 334 (456)
T COG3946 259 SDTVAVFYSGDGGWRDLDKEVAEALQKQGVPVVGVDSLRYFWSERTPEQIAADLSRLIRFYARRWGAKRVLLIGYS 334 (456)
T ss_pred cceEEEEEecCCchhhhhHHHHHHHHHCCCceeeeehhhhhhccCCHHHHHHHHHHHHHHHHHhhCcceEEEEeec
Confidence 4579999999988877765 4455666787653 21 22 12 366666665544 466777776644
No 426
>TIGR00262 trpA tryptophan synthase, alpha subunit. Tryptophan synthase catalyzes the last step in the biosynthesis of tryptophan. The alpha chain is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate. In bacteria and plants each domain is found on a separate subunit (alpha and beta chains), while in fungi the two domains are fused together on a single multifunctional protein. The signature pattern for trpA contains three conserved acidic residues. [LIVM]-E-[LIVM]-G-x(2)-[FYC]-[ST]-[DE]-[PA]-[LIVMY]-[AGLI]-[DE]-G and this is located between residues 43-58 of the model. The Sulfolobus solfataricus trpA is known to be quite divergent from other known trpA sequences.
Probab=27.69 E-value=2.4e+02 Score=20.47 Aligned_cols=129 Identities=5% Similarity=0.015 Sum_probs=71.0
Q ss_pred EEEcCCCCCcHHHHHHhhcccCCCceeeccCCC---CCCcccEEEecCChhHHH-----HHHHHHHHh-----cCCcEEE
Q psy18065 16 ALFGPSDALLGPHVQSICEALDVPHMESRLDLE---LNSKEFSVNLYPSQKLLN-----AAFKDVIRF-----LNWTKVA 82 (149)
Q Consensus 16 aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~---~~~~~~~~~~~p~~~~~~-----~ai~~ll~~-----~~W~~v~ 82 (149)
...|..+-..+..+.......++-.|..+.+.+ .+. |. ++-. +...+. ..+.++++. .+-.-+.
T Consensus 16 ~~aG~P~~~~~~~~~~~l~~~Gad~iElGiPfsDP~aDG-pv-Iq~a-~~~al~~G~~~~~~~~~v~~ir~~~~~~plv~ 92 (256)
T TIGR00262 16 VTAGDPTLETSLEIIKTLIEAGADALELGVPFSDPLADG-PT-IQAA-DLRALRAGMTPEKCFELLKKVRQKHPNIPIGL 92 (256)
T ss_pred EeCCCCCHHHHHHHHHHHHHcCCCEEEECCCCCCCCCcC-HH-HHHH-HHHHHHcCCCHHHHHHHHHHHHhcCCCCCEEE
Confidence 344666666677766767777888888774332 222 11 1111 111111 233333332 2434455
Q ss_pred EEeecCcchhhHHHHHhCCCCCCceE-EEEecCCCchHHHHHHHHhCCCceEEEecCch---hHHHHHh
Q psy18065 83 IVYEEDNGLFKLQELVKTPPTLKTEM-YIRHANPSTYRNVLREIRQKEIFNLIIDTSTT---HISQFFR 147 (149)
Q Consensus 83 vi~~~~~~~~~l~~l~~~~~~~~~~v-~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~~---~~~~il~ 147 (149)
+.|.|.--..+.+.+.+.+.+.|+.- .+...+.++..+.+..+++.+.+.+.+..+.. ....+.+
T Consensus 93 m~Y~Npi~~~G~e~f~~~~~~aGvdgviipDlp~ee~~~~~~~~~~~gl~~i~lv~P~T~~eri~~i~~ 161 (256)
T TIGR00262 93 LTYYNLIFRKGVEEFYAKCKEVGVDGVLVADLPLEESGDLVEAAKKHGVKPIFLVAPNADDERLKQIAE 161 (256)
T ss_pred EEeccHHhhhhHHHHHHHHHHcCCCEEEECCCChHHHHHHHHHHHHCCCcEEEEECCCCCHHHHHHHHH
Confidence 56777533455666666666666543 33445556678888999999988877766543 3444444
No 427
>PRK05625 5-amino-6-(5-phosphoribosylamino)uracil reductase; Validated
Probab=27.54 E-value=1.2e+02 Score=21.13 Aligned_cols=33 Identities=18% Similarity=0.386 Sum_probs=27.5
Q ss_pred CchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 116 STYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 116 ~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
.|..++++.+++.+.+.|.+.+-..-+..++++
T Consensus 127 ~dl~~~l~~L~~~g~~~vlveGG~~l~~~fl~~ 159 (217)
T PRK05625 127 VDLPDLLEDLYERGIKRLMVEGGGTLIWSMFKE 159 (217)
T ss_pred cCHHHHHHHHHHCCCCEEEEecCHHHHHHHHHC
Confidence 478899999999998899998888877777764
No 428
>PF03625 DUF302: Domain of unknown function DUF302 ; InterPro: IPR005180 This domain is found in an undescribed set of proteins. It normally occurs uniquely within a sequence, but is found as a tandem repeat (Q9X8B8 from SWISSPROT). It has an interesting phylogenetic distribution with the majority of examples in bacteria and archaea, but it is also found in Drosophila melanogaster (e.g. Q9VA18 from SWISSPROT). The hypothetical protein TT1751 from Thermus thermophilus has a beta-alpha-beta(4)-alpha structural fold [].; PDB: 1Q9U_A 1J3M_B.
Probab=27.41 E-value=49 Score=18.19 Aligned_cols=20 Identities=10% Similarity=0.139 Sum_probs=13.5
Q ss_pred CCceEEEecCchhHHHHHhh
Q psy18065 129 EIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 129 ~~~~iil~~~~~~~~~il~q 148 (149)
..-.++.+|++..+..++++
T Consensus 17 ~~~~i~~~cnp~~a~~ll~~ 36 (65)
T PF03625_consen 17 PPYRILEFCNPKIAYQLLKA 36 (65)
T ss_dssp S-EEEEEEE-HHHHHHHHCC
T ss_pred CCeEEEEECChHHHHHHHHh
Confidence 34467778998888888764
No 429
>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=27.36 E-value=74 Score=24.83 Aligned_cols=29 Identities=17% Similarity=0.287 Sum_probs=26.0
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCce
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHM 41 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~i 41 (149)
.++.|+|+.+|+.+..++.+|...+.|..
T Consensus 290 D~miVVGG~nSSNT~rL~eia~~~g~~ty 318 (387)
T PRK13371 290 DLMVVIGGYNSSNTTHLQEIAIERGIPSY 318 (387)
T ss_pred CEEEEECCCCCccHHHHHHHHHhcCCCEE
Confidence 58899999999999999999999988843
No 430
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=27.06 E-value=2.6e+02 Score=20.55 Aligned_cols=129 Identities=11% Similarity=0.039 Sum_probs=67.3
Q ss_pred HHhhCCcEE-EEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHH-HhcC-CcEEEEE
Q psy18065 8 RQLQNGVQA-LFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVI-RFLN-WTKVAIV 84 (149)
Q Consensus 8 ~~~~~~v~a-iiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll-~~~~-W~~v~vi 84 (149)
+++..++.+ ++.|.++.....+..-+...+||+|++....... ......+.......+....+.+ ++++ ..++.++
T Consensus 86 ~~ia~~~daIiv~~~d~~~~~~~v~~a~~aGIpVv~~d~~~~~~-~~~~~~vg~dn~~~G~~~a~~l~~~~~~~g~v~~~ 164 (322)
T COG1879 86 DLIAQGVDAIIINPVDPDALTPAVKKAKAAGIPVVTVDSDIPGP-GDRVAYVGSDNYKAGRLAAEYLAKALGGKGKVVVL 164 (322)
T ss_pred HHHHcCCCEEEEcCCChhhhHHHHHHHHHCCCcEEEEecCCCCC-CceeEEEecCcHHHHHHHHHHHHHHhCCCCeEEEE
Confidence 445566644 5567777777777778889999999987543221 2222333334444455545544 4442 3446665
Q ss_pred eec-C--cchhhHHHHHhCCCCCC--ceEEEEecCC---CchHHHHHHHHhCCCceEEEec
Q psy18065 85 YEE-D--NGLFKLQELVKTPPTLK--TEMYIRHANP---STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 85 ~~~-~--~~~~~l~~l~~~~~~~~--~~v~~~~~~~---~d~~~~l~~i~~~~~~~iil~~ 137 (149)
... . ....+...+.+.+.+.+ +.+....... ..-.+....+..+.++.-.+++
T Consensus 165 ~g~~~~~~~~~R~~G~~~~l~~~~~~~~v~~~~~~~~~~~~a~~~~~~~L~~~pdi~~i~~ 225 (322)
T COG1879 165 VGSPGNSSAEERVKGFRDALKEHPPDIEVVDVQTGDWDRDKALEVMEDLLAANPDIDGIYA 225 (322)
T ss_pred ecCCCCchHHHHHhhHHHHHHhCCCcEEEeeccCCcccHHHHHHHHHHHHHhCCCceEEEE
Confidence 543 2 24456666666655443 2222222211 1233444555555545544444
No 431
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=27.00 E-value=1.7e+02 Score=20.88 Aligned_cols=18 Identities=6% Similarity=0.305 Sum_probs=7.4
Q ss_pred hHHHHHHHHhCCCceEEE
Q psy18065 118 YRNVLREIRQKEIFNLII 135 (149)
Q Consensus 118 ~~~~l~~i~~~~~~~iil 135 (149)
+.++.+.|++.+.+.|+.
T Consensus 188 l~~l~~~ik~~~v~~i~~ 205 (256)
T PF01297_consen 188 LAELIKLIKENKVKCIFT 205 (256)
T ss_dssp HHHHHHHHHHTT-SEEEE
T ss_pred HHHHHHHhhhcCCcEEEe
Confidence 344444444444444443
No 432
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=26.91 E-value=90 Score=21.44 Aligned_cols=44 Identities=18% Similarity=0.255 Sum_probs=32.5
Q ss_pred hHHHHHHHhhCCcEEEEcCCC-CCcHHHHHHhhcccCCCceeecc
Q psy18065 2 AEATMCRQLQNGVQALFGPSD-ALLGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 2 ~~~~~c~~~~~~v~aiiGp~~-s~~~~~v~~~~~~~~iP~is~~~ 45 (149)
|.++...+-.-++.++-|..- ...+.++..+-...+||.||...
T Consensus 132 AVkAV~rLpRv~iLVLAGslMGGkIteaVk~lr~~hgI~VISL~M 176 (218)
T COG1707 132 AVKAVARLPRVGILVLAGSLMGGKITEAVKELREEHGIPVISLNM 176 (218)
T ss_pred HHHHHhccccceeEEEecccccchHHHHHHHHHHhcCCeEEEecc
Confidence 444555555556666666643 78899999999999999999863
No 433
>KOG0734|consensus
Probab=26.77 E-value=94 Score=25.79 Aligned_cols=33 Identities=18% Similarity=0.276 Sum_probs=27.6
Q ss_pred hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 11 QNGVQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 11 ~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
++| +.+.||.+..-+.-...++++.++|++..+
T Consensus 337 PKG-VLLvGPPGTGKTlLARAvAGEA~VPFF~~s 369 (752)
T KOG0734|consen 337 PKG-VLLVGPPGTGKTLLARAVAGEAGVPFFYAS 369 (752)
T ss_pred CCc-eEEeCCCCCchhHHHHHhhcccCCCeEecc
Confidence 455 567799999999999999999999998743
No 434
>PLN02908 threonyl-tRNA synthetase
Probab=26.65 E-value=4e+02 Score=22.59 Aligned_cols=75 Identities=8% Similarity=0.116 Sum_probs=46.5
Q ss_pred HHHHHHHHHHhcC--C------cEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEe
Q psy18065 65 LNAAFKDVIRFLN--W------TKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIID 136 (149)
Q Consensus 65 ~~~ai~~ll~~~~--W------~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~ 136 (149)
..+.+.-++.+++ | ..|.|+..++........+.+.++..|+.+.+. .....+...++...+.+.+.+++.
T Consensus 568 iERli~iL~e~~~g~~p~wlsp~qv~Vipv~~~~~~~A~~va~~LR~~Gi~vevd-~~~~~l~kkir~A~~~g~~~viiv 646 (686)
T PLN02908 568 VERMFAILLEHYAGKWPFWLSPRQAIVVPISEKSQDYAEEVRAQLHAAGFYVDVD-VTDRKIQKKVREAQLAQYNYILVV 646 (686)
T ss_pred HHHHHHHHHHHcCCCCCCCCCCceEEEEEECHHHHHHHHHHHHHHHHCCCEEEEE-CCCCCHHHHHHHHHHcCCCEEEEE
Confidence 4444444556653 3 346666665544444455555555668777652 334568888888888888888887
Q ss_pred cCch
Q psy18065 137 TSTT 140 (149)
Q Consensus 137 ~~~~ 140 (149)
+..+
T Consensus 647 G~~E 650 (686)
T PLN02908 647 GEAE 650 (686)
T ss_pred CchH
Confidence 7544
No 435
>PRK10481 hypothetical protein; Provisional
Probab=26.54 E-value=2.5e+02 Score=20.16 Aligned_cols=23 Identities=9% Similarity=0.091 Sum_probs=18.8
Q ss_pred chHHHHHHHHhCCCceEEEecCc
Q psy18065 117 TYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 117 d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
...+..++++..+++.|+++|-.
T Consensus 170 ~l~~aa~~L~~~gaD~Ivl~C~G 192 (224)
T PRK10481 170 ELIDAGKELLDQGADVIVLDCLG 192 (224)
T ss_pred HHHHHHHHhhcCCCCEEEEeCCC
Confidence 45667788888999999999954
No 436
>PF07109 Mg-por_mtran_C: Magnesium-protoporphyrin IX methyltransferase C-terminus; InterPro: IPR010940 This entry represents the C terminus (approximately 100 residues) of bacterial and eukaryotic Magnesium-protoporphyrin IX methyltransferase (2.1.1.11 from EC). This converts magnesium-protoporphyrin IX to magnesium-protoporphyrin IX metylester using S-adenosyl-L-methionine as a cofactor [].; GO: 0046406 magnesium protoporphyrin IX methyltransferase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process
Probab=26.44 E-value=1.5e+02 Score=18.24 Aligned_cols=33 Identities=12% Similarity=0.138 Sum_probs=15.8
Q ss_pred CCchHHHHHHHHhCCCceEEE-ecCchhHHHHHh
Q psy18065 115 PSTYRNVLREIRQKEIFNLII-DTSTTHISQFFR 147 (149)
Q Consensus 115 ~~d~~~~l~~i~~~~~~~iil-~~~~~~~~~il~ 147 (149)
.+|+..++..+-......+|+ +++......+|+
T Consensus 10 ~~d~~~~l~~La~~t~~~~ifTfAP~T~~L~~m~ 43 (97)
T PF07109_consen 10 AEDAAQMLAHLASRTRGSLIFTFAPRTPLLALMH 43 (97)
T ss_pred HHHHHHHHHHHHHhccCcEEEEECCCCHHHHHHH
Confidence 345555555555444334433 444444444443
No 437
>PF11923 DUF3441: Domain of unknown function (DUF3441); InterPro: IPR021846 This presumed domain is functionally uncharacterised. This domain is found in archaea and eukaryotes. This domain is typically between 104 to 119 amino acids in length. This domain is found associated with PF05833 from PFAM, PF05670 from PFAM. This domain has two conserved residues (P and G) that may be functionally important.
Probab=26.42 E-value=38 Score=21.39 Aligned_cols=29 Identities=17% Similarity=0.371 Sum_probs=25.1
Q ss_pred CCcccEEEecCChhHHHHHHHHHHHhcCC
Q psy18065 50 NSKEFSVNLYPSQKLLNAAFKDVIRFLNW 78 (149)
Q Consensus 50 ~~~~~~~~~~p~~~~~~~ai~~ll~~~~W 78 (149)
..|.|-+.+.|....-++++-+++.+|.=
T Consensus 42 ~~yKYkvKl~PG~~KKGKaak~il~~f~~ 70 (112)
T PF11923_consen 42 SKYKYKVKLQPGNAKKGKAAKEILEYFTA 70 (112)
T ss_pred hhCceeEEEcCCCcchHHHHHHHHHHHHh
Confidence 46788899999999999999999998843
No 438
>PRK10586 putative oxidoreductase; Provisional
Probab=26.36 E-value=2.4e+02 Score=21.69 Aligned_cols=70 Identities=9% Similarity=-0.095 Sum_probs=37.2
Q ss_pred HHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCC----CchHHHHHHHHhCCCceEEEecC
Q psy18065 66 NAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANP----STYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 66 ~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~----~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
..-+-++++.+|++++.++++...-......+.+.+++.|+.+. .+.. ++..++.+.. +.+.+.||-.+-
T Consensus 22 ~~~l~~~~~~~g~~~~lvv~g~~~~~~~~~~~~~~l~~~~~~~~--~~~g~~~~~~v~~l~~~~-~~~~d~iiavGG 95 (362)
T PRK10586 22 IDHLHDFFTDEQLSRAVWIYGERAIAAAQPYLPPAFELPGAKHI--LFRGHCSESDVAQLAAAS-GDDRQVVIGVGG 95 (362)
T ss_pred HHHHHHHHHhcCCCeEEEEEChHHHHHHHHHHHHHHHHcCCeEE--EeCCCCCHHHHHHHHHHh-ccCCCEEEEecC
Confidence 34677888999999998887753211111223333444455432 3321 2344443333 346677776653
No 439
>PF06057 VirJ: Bacterial virulence protein (VirJ); InterPro: IPR010333 This entry contains several bacterial VirJ virulence proteins. VirJ is thought to be involved in the type IV secretion system. It is thought that the substrate proteins localised to the periplasm may associate with the pilus in a manner that is mediated by VirJ, and suggest a two-step process for type IV secretion in Agrobacterium [].
Probab=26.05 E-value=1.5e+02 Score=20.79 Aligned_cols=60 Identities=12% Similarity=0.246 Sum_probs=37.1
Q ss_pred EEEEEeecCcchhhHHH-HHhCCCCCCceEE-E--Eec-----CC----CchHHHHHHHH-hCCCceEEEecCc
Q psy18065 80 KVAIVYEEDNGLFKLQE-LVKTPPTLKTEMY-I--RHA-----NP----STYRNVLREIR-QKEIFNLIIDTST 139 (149)
Q Consensus 80 ~v~vi~~~~~~~~~l~~-l~~~~~~~~~~v~-~--~~~-----~~----~d~~~~l~~i~-~~~~~~iil~~~~ 139 (149)
.+++++++|.|+..+.. +-+.+.+.|+.+. + .++ ++ .|...++..-. +-+.+.++|.+..
T Consensus 3 t~~v~~SGDgGw~~~d~~~a~~l~~~G~~VvGvdsl~Yfw~~rtP~~~a~Dl~~~i~~y~~~w~~~~vvLiGYS 76 (192)
T PF06057_consen 3 TLAVFFSGDGGWRDLDKQIAEALAKQGVPVVGVDSLRYFWSERTPEQTAADLARIIRHYRARWGRKRVVLIGYS 76 (192)
T ss_pred EEEEEEeCCCCchhhhHHHHHHHHHCCCeEEEechHHHHhhhCCHHHHHHHHHHHHHHHHHHhCCceEEEEeec
Confidence 47889999888766654 5556677787654 2 122 12 35566665543 3366777877654
No 440
>PHA03169 hypothetical protein; Provisional
Probab=25.96 E-value=54 Score=25.37 Aligned_cols=24 Identities=17% Similarity=0.475 Sum_probs=19.0
Q ss_pred CCcEEEEEeecCcchhhHHHHHhC
Q psy18065 77 NWTKVAIVYEEDNGLFKLQELVKT 100 (149)
Q Consensus 77 ~W~~v~vi~~~~~~~~~l~~l~~~ 100 (149)
.|+|++++..+.+.+.+|...+..
T Consensus 321 ~W~~~v~fWgdP~~LyrLsraLqf 344 (413)
T PHA03169 321 PWCWVVFCWGDPYSLYRLSRCLQF 344 (413)
T ss_pred ceeEEEEecCCcHHHHHHHHHhcc
Confidence 599988888877888888776654
No 441
>PLN02591 tryptophan synthase
Probab=25.84 E-value=2.7e+02 Score=20.30 Aligned_cols=121 Identities=10% Similarity=0.073 Sum_probs=69.2
Q ss_pred EEEcCCCCCcHHHHHHhhcccCCCceeeccCCC---CCCcccEEEecCChhHHH-----HHHHHHHHhcC----CcEEEE
Q psy18065 16 ALFGPSDALLGPHVQSICEALDVPHMESRLDLE---LNSKEFSVNLYPSQKLLN-----AAFKDVIRFLN----WTKVAI 83 (149)
Q Consensus 16 aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~---~~~~~~~~~~~p~~~~~~-----~ai~~ll~~~~----W~~v~v 83 (149)
...|..+-..+..+.......++-.|..+...+ .+. |. ++-. +...+. ..+.++++.+. -.-+.+
T Consensus 8 i~aG~P~~e~~~~~~~~l~~~Gad~iElGiPfSDP~aDG-pv-Iq~a-~~rAL~~G~~~~~~~~~~~~~r~~~~~p~ilm 84 (250)
T PLN02591 8 ITAGDPDLDTTAEALRLLDACGADVIELGVPYSDPLADG-PV-IQAA-ATRALEKGTTLDSVISMLKEVAPQLSCPIVLF 84 (250)
T ss_pred EeCCCCCHHHHHHHHHHHHHCCCCEEEECCCCCCCcccC-HH-HHHH-HHHHHHcCCCHHHHHHHHHHHhcCCCCCEEEE
Confidence 344666666666666666667777777774332 222 21 1111 111111 23455555443 222444
Q ss_pred EeecCcchhhHHHHHhCCCCCCce-EEEEecCCCchHHHHHHHHhCCCceEEEecCc
Q psy18065 84 VYEEDNGLFKLQELVKTPPTLKTE-MYIRHANPSTYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 84 i~~~~~~~~~l~~l~~~~~~~~~~-v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
-|-|.--..++++|.+.+++.|+. +-+..++.++..+.....++.+...|.+..+.
T Consensus 85 ~Y~N~i~~~G~~~F~~~~~~aGv~GviipDLP~ee~~~~~~~~~~~gl~~I~lv~Pt 141 (250)
T PLN02591 85 TYYNPILKRGIDKFMATIKEAGVHGLVVPDLPLEETEALRAEAAKNGIELVLLTTPT 141 (250)
T ss_pred ecccHHHHhHHHHHHHHHHHcCCCEEEeCCCCHHHHHHHHHHHHHcCCeEEEEeCCC
Confidence 566753345677777777666764 44456665667788888888888888877644
No 442
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=25.76 E-value=1.6e+02 Score=17.60 Aligned_cols=40 Identities=13% Similarity=0.079 Sum_probs=28.3
Q ss_pred HHHHHhhC---CcEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 5 TMCRQLQN---GVQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 5 ~~c~~~~~---~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
...+.+++ +.+.|=++.+......+-.+|...+||.+-..
T Consensus 20 qt~Kai~kg~~~~v~iA~Da~~~vv~~l~~lceek~Ip~v~V~ 62 (84)
T PRK13600 20 ETLKALKKDQVTSLIIAEDVEVYLMTRVLSQINQKNIPVSFFK 62 (84)
T ss_pred HHHHHHhcCCceEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence 34455543 35556666777778888899999999987653
No 443
>PF02593 dTMP_synthase: Thymidylate synthase; InterPro: IPR003745 This entry describes proteins of unknown function.
Probab=25.59 E-value=2.5e+02 Score=20.01 Aligned_cols=73 Identities=12% Similarity=0.220 Sum_probs=37.4
Q ss_pred HHHHHHH-HHHhcCCcEEEEEee--c--CcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecC
Q psy18065 65 LNAAFKD-VIRFLNWTKVAIVYE--E--DNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 65 ~~~ai~~-ll~~~~W~~v~vi~~--~--~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
++..... +..+++..++..+++ + ++-...-++.+....+..+.+.. .+.++-..++...+++++.+.||+-+.
T Consensus 8 yGeR~~~~i~~~~~~~~~v~~~~~p~~l~efId~pee~Lp~i~~~Dl~I~y-~lHPDl~~~l~~~~~e~g~kavIvp~~ 85 (217)
T PF02593_consen 8 YGERVIENIKNYFDFCRSVIVYEIPEDLPEFIDDPEEYLPKIPEADLLIAY-GLHPDLTYELPEIAKEAGVKAVIVPSE 85 (217)
T ss_pred chHHHHHHHHhcCCCCceEEEEeCCccccccccChHHHccCCCCCCEEEEe-ccCchhHHHHHHHHHHcCCCEEEEecC
Confidence 4444444 556666665554444 2 12223344444444333333322 233333456677777788888888664
No 444
>smart00857 Resolvase Resolvase, N terminal domain. The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.
Probab=25.53 E-value=1.9e+02 Score=18.43 Aligned_cols=76 Identities=16% Similarity=0.155 Sum_probs=47.8
Q ss_pred ChhHHHHHHHHHHHhcCCcEEEEEeecC-cc----hhhHHHHHhCCCCCCc-eEEEEecC---C--CchHHHHHHHHhCC
Q psy18065 61 SQKLLNAAFKDVIRFLNWTKVAIVYEED-NG----LFKLQELVKTPPTLKT-EMYIRHAN---P--STYRNVLREIRQKE 129 (149)
Q Consensus 61 ~~~~~~~ai~~ll~~~~W~~v~vi~~~~-~~----~~~l~~l~~~~~~~~~-~v~~~~~~---~--~d~~~~l~~i~~~~ 129 (149)
+...|...+-+++...||.-+.+..+.+ .| ...++.+++......+ .+.+..++ . .+...++..++..+
T Consensus 16 s~~~Q~~~~~~~a~~~g~~i~~~~~d~~~Sg~~~~Rp~l~~ll~~~~~g~~~~ivv~~~~Rl~R~~~~~~~~~~~l~~~g 95 (148)
T smart00857 16 SLERQLEALRAYAKANGWEVVRIYEDEGVSGKKADRPGLQRLLADLRAGDIDVLVVYKLDRLGRSLRDLLALLELLEKKG 95 (148)
T ss_pred CHHHHHHHHHHHHHHCCCEEEEEEEeCCCcCCCCCCHHHHHHHHHHHcCCCCEEEEeccchhhCcHHHHHHHHHHHHHCC
Confidence 3445777888888888998776554543 22 3457777776655443 34444443 2 35667778888888
Q ss_pred CceEEEe
Q psy18065 130 IFNLIID 136 (149)
Q Consensus 130 ~~~iil~ 136 (149)
.+.+.+.
T Consensus 96 i~l~~~~ 102 (148)
T smart00857 96 VRLVSVT 102 (148)
T ss_pred CEEEECc
Confidence 7666553
No 445
>KOG2451|consensus
Probab=25.44 E-value=1e+02 Score=24.22 Aligned_cols=40 Identities=20% Similarity=0.334 Sum_probs=30.1
Q ss_pred ChHHHHHHHhhCCcEEEEcCCC--CCcHHHHHHhhcccCCCc
Q psy18065 1 MAEATMCRQLQNGVQALFGPSD--ALLGPHVQSICEALDVPH 40 (149)
Q Consensus 1 ~~~~~~c~~~~~~v~aiiGp~~--s~~~~~v~~~~~~~~iP~ 40 (149)
|.+++.-.-+..|+.+|+-|.. +-++.+++.++...++|-
T Consensus 175 MItRK~gAALAaGCTvVvkPs~~TPlsaLala~lA~~AGiP~ 216 (503)
T KOG2451|consen 175 MITRKAGAALAAGCTVVVKPSEDTPLSALALAKLAEEAGIPA 216 (503)
T ss_pred HHHhHHHHHHhcCceEEEccCCCCchHHHHHHHHHHHcCCCC
Confidence 3455555556678888888876 556888999999999994
No 446
>PF02863 Arg_repressor_C: Arginine repressor, C-terminal domain; InterPro: IPR020899 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1B4B_B 1B4A_A 3V4G_A 1F9N_F 2P5M_A 1XXA_E 1XXC_C 1XXB_F 3LAJ_D 3BUE_D ....
Probab=25.38 E-value=1.3e+02 Score=17.02 Aligned_cols=31 Identities=19% Similarity=0.273 Sum_probs=22.2
Q ss_pred EEEecCChhHHHHHHHHHHHhcCCcEEE-EEeecC
Q psy18065 55 SVNLYPSQKLLNAAFKDVIRFLNWTKVA-IVYEED 88 (149)
Q Consensus 55 ~~~~~p~~~~~~~ai~~ll~~~~W~~v~-vi~~~~ 88 (149)
.+++.|. .+.+++.++...+|..+. .|..+|
T Consensus 17 vikt~pG---~A~~va~~iD~~~~~~I~GtIAgdD 48 (70)
T PF02863_consen 17 VIKTLPG---NAQAVAAAIDQLNLPEIFGTIAGDD 48 (70)
T ss_dssp EEEESTT---CHHHHHHHHHHHCGTTEEEEEEESS
T ss_pred EEEeCCC---cHHHHHHHHHhcCCcccEEEEeCCC
Confidence 7899998 566888888877887754 344444
No 447
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=25.26 E-value=2.9e+02 Score=20.46 Aligned_cols=58 Identities=10% Similarity=0.095 Sum_probs=26.1
Q ss_pred EEEEEeec--C-cchhhHHHHHhCCCCCCceEEEEecCC--CchHHHHHHHHhCCCceEEEec
Q psy18065 80 KVAIVYEE--D-NGLFKLQELVKTPPTLKTEMYIRHANP--STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 80 ~v~vi~~~--~-~~~~~l~~l~~~~~~~~~~v~~~~~~~--~d~~~~l~~i~~~~~~~iil~~ 137 (149)
.++++..+ + +....++.+.+.+++.|+.+.+..... +...+.++.+.+.+.+.||+..
T Consensus 61 ~Igvi~~~~~~~f~~~l~~gi~~~~~~~gy~~~~~~~~~~~~~~~~~i~~l~~~~vdGiIi~~ 123 (346)
T PRK10401 61 TIGVVVMDVSDAFFGALVKAVDLVAQQHQKYVLIGNSYHEAEKERHAIEVLIRQRCNALIVHS 123 (346)
T ss_pred EEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEcCCCChHHHHHHHHHHHhcCCCEEEEeC
Confidence 46665543 1 222333444444445555544322211 1223445555555666666653
No 448
>TIGR01508 rib_reduct_arch 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine 1'-reductase, archaeal. in riboflavin biosynthesis is reduced first, and then deaminated, in both Archaea and Fungi, opposite the order in Bacteria. The subsequent deaminase is not presently known and is not closely homologous to the deaminase domain (3.5.4.26) fused to the reductase domain (1.1.1.193) similar to this protein but found in most bacteria.
Probab=25.04 E-value=1.5e+02 Score=20.75 Aligned_cols=33 Identities=18% Similarity=0.340 Sum_probs=27.9
Q ss_pred CchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 116 STYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 116 ~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
-|...+++.+++.+.+.|.+.+-..-+..|+++
T Consensus 123 ~dl~~~l~~L~~~g~~~vlveGG~~l~~~fl~~ 155 (210)
T TIGR01508 123 VDLKKLLDILYDKGVRRLMVEGGGTLIWSLFKE 155 (210)
T ss_pred cCHHHHHHHHHHCCCCEEEEeeCHHHHHHHHHC
Confidence 378899999999999999998888877777764
No 449
>PF05841 Apc15p: Apc15p protein; InterPro: IPR008402 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. Members of this family are components of the anaphase-promoting complex homologous to subunit Apc15/MND2 [].; GO: 0030071 regulation of mitotic metaphase/anaphase transition, 0031145 anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process, 0005680 anaphase-promoting complex
Probab=24.83 E-value=83 Score=20.20 Aligned_cols=21 Identities=14% Similarity=0.031 Sum_probs=14.9
Q ss_pred HHHHHHHHHHhcCCcEEEEEe
Q psy18065 65 LNAAFKDVIRFLNWTKVAIVY 85 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~vi~ 85 (149)
....-..-++.|||+|+--+.
T Consensus 83 ~~~~r~~~Ir~~G~~wikPiG 103 (125)
T PF05841_consen 83 QLERRKQNIRNFGYNWIKPIG 103 (125)
T ss_pred HHHHHHHHHHHhCccceeCCC
Confidence 344445567889999998764
No 450
>COG1433 Uncharacterized conserved protein [Function unknown]
Probab=24.74 E-value=1.6e+02 Score=18.84 Aligned_cols=28 Identities=7% Similarity=0.064 Sum_probs=14.4
Q ss_pred HHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 121 VLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 121 ~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
+.+.+++.+++++|+---...+...|++
T Consensus 57 ~a~~l~~~gvdvvi~~~iG~~a~~~l~~ 84 (121)
T COG1433 57 IAELLVDEGVDVVIASNIGPNAYNALKA 84 (121)
T ss_pred HHHHHHHcCCCEEEECccCHHHHHHHHH
Confidence 4555555555555554444445555444
No 451
>PF10566 Glyco_hydro_97: Glycoside hydrolase 97 ; InterPro: IPR019563 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This is the 97th family of glycosidases, in this case bacterial. The central part of the GH97 family protein sequences represents a typical and complete (beta/alpha)8-barrel or catalytic TIM-barrel type domain. The N- and C-terminal parts of the sequences, mainly consisting of beta-strands, most probably form two additional non-catalytic domains with as yet unknown functions. The non-catalytic domains of glycosidases from the alpha-galactosidase and alpha-glucosidase superfamilies are also predominantly composed of beta-strands, and at least some of these domains are involved in oligomerisation and carbohydrate binding. In all known glycosidases with the (beta-alpha)8-barrel fold, the amino acid residues at the active site are located on the C-termini of the beta-strands []. ; PDB: 2JKP_A 2JKE_A 2D73_B 2ZQ0_B 2JKA_A 3A24_A.
Probab=24.50 E-value=3e+02 Score=20.43 Aligned_cols=74 Identities=12% Similarity=0.126 Sum_probs=50.2
Q ss_pred hhHHHHHHHHHHHhcCCcEEEEEeecCc---------------chhhHHHHHhCCCCCCceEEE--EecC-------CCc
Q psy18065 62 QKLLNAAFKDVIRFLNWTKVAIVYEEDN---------------GLFKLQELVKTPPTLKTEMYI--RHAN-------PST 117 (149)
Q Consensus 62 ~~~~~~ai~~ll~~~~W~~v~vi~~~~~---------------~~~~l~~l~~~~~~~~~~v~~--~~~~-------~~d 117 (149)
.+.-.+..+|+.-.+||.-+.+ +..+ ....++++.+..+++|+.+.+ ..-. ...
T Consensus 30 ~t~~~k~yIDfAa~~G~eYvlv--D~GW~~~~~~~~~d~~~~~~~~dl~elv~Ya~~KgVgi~lw~~~~~~~~~~~~~~~ 107 (273)
T PF10566_consen 30 TTETQKRYIDFAAEMGIEYVLV--DAGWYGWEKDDDFDFTKPIPDFDLPELVDYAKEKGVGIWLWYHSETGGNVANLEKQ 107 (273)
T ss_dssp SHHHHHHHHHHHHHTT-SEEEE--BTTCCGS--TTT--TT-B-TT--HHHHHHHHHHTT-EEEEEEECCHTTBHHHHHCC
T ss_pred CHHHHHHHHHHHHHcCCCEEEe--ccccccccccccccccccCCccCHHHHHHHHHHcCCCEEEEEeCCcchhhHhHHHH
Confidence 4457789999999999999887 4333 245688888888888876644 2111 123
Q ss_pred hHHHHHHHHhCCCceEEEec
Q psy18065 118 YRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 118 ~~~~l~~i~~~~~~~iil~~ 137 (149)
.++.+..+++-+++.|=++-
T Consensus 108 ~~~~f~~~~~~Gv~GvKidF 127 (273)
T PF10566_consen 108 LDEAFKLYAKWGVKGVKIDF 127 (273)
T ss_dssp HHHHHHHHHHCTEEEEEEE-
T ss_pred HHHHHHHHHHcCCCEEeeCc
Confidence 68888999999998888865
No 452
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=24.44 E-value=1.1e+02 Score=25.59 Aligned_cols=28 Identities=14% Similarity=0.207 Sum_probs=25.4
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCc
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPH 40 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~ 40 (149)
.++.|+|+.+|+.+..+..+|...+.|-
T Consensus 208 d~~~vvGg~~SsNt~~L~~i~~~~~~~~ 235 (647)
T PRK00087 208 DVMIVVGGKNSSNTTKLYEICKSNCTNT 235 (647)
T ss_pred CEEEEECCCCCccHHHHHHHHHHHCCCE
Confidence 5899999999999999999999988774
No 453
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=24.41 E-value=2.8e+02 Score=20.11 Aligned_cols=43 Identities=14% Similarity=0.406 Sum_probs=32.6
Q ss_pred HHHHHHHhh-CCcEEEEcCCCCC---cHHHHHHhhcccCCCceeecc
Q psy18065 3 EATMCRQLQ-NGVQALFGPSDAL---LGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 3 ~~~~c~~~~-~~v~aiiGp~~s~---~~~~v~~~~~~~~iP~is~~~ 45 (149)
.+.+.+++. +++.+||-.+.+. .+..+...|...+||++-+-.
T Consensus 54 ~~~l~~~l~~~~i~~VIDATHPfA~~is~~a~~ac~~~~ipyiR~eR 100 (248)
T PRK08057 54 AEGLAAYLREEGIDLVIDATHPYAAQISANAAAACRALGIPYLRLER 100 (248)
T ss_pred HHHHHHHHHHCCCCEEEECCCccHHHHHHHHHHHHHHhCCcEEEEeC
Confidence 345666664 6899999877754 466677799999999999864
No 454
>KOG0357|consensus
Probab=24.30 E-value=1.2e+02 Score=23.35 Aligned_cols=33 Identities=6% Similarity=0.081 Sum_probs=25.9
Q ss_pred CchHHHHHHHHhCCCceEEE-ecCchhHHHHHhh
Q psy18065 116 STYRNVLREIRQKEIFNLII-DTSTTHISQFFRA 148 (149)
Q Consensus 116 ~d~~~~l~~i~~~~~~~iil-~~~~~~~~~il~q 148 (149)
-+|.++++.+|+++++.++. |+-.+.+..+|.|
T Consensus 142 ~ef~emi~~vK~~ga~l~icqwgfddeanhll~~ 175 (400)
T KOG0357|consen 142 FEFEEMIQQIKETGANLAICQWGFDDEANHLLLQ 175 (400)
T ss_pred ccHHHHHHHHHhhCCcEEEEecccCchhhhHHhh
Confidence 35999999999999988888 5555667766654
No 455
>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=24.26 E-value=90 Score=22.63 Aligned_cols=25 Identities=24% Similarity=0.387 Sum_probs=22.2
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccC
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALD 37 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~ 37 (149)
.+.||+||.++.-+.-+..+++++.
T Consensus 28 ev~ailGPNGAGKSTlLk~LsGel~ 52 (259)
T COG4559 28 EVLAILGPNGAGKSTLLKALSGELS 52 (259)
T ss_pred cEEEEECCCCccHHHHHHHhhCccC
Confidence 4999999999988888999998876
No 456
>KOG1014|consensus
Probab=24.22 E-value=3.2e+02 Score=20.74 Aligned_cols=79 Identities=14% Similarity=0.303 Sum_probs=34.1
Q ss_pred ccEEEecCChhHHHHHHHHHHHhcCCcEEEEEeecCcchhhHHHHHhCC-CCCCceEEEE--ecCCC--chHHHHHHHHh
Q psy18065 53 EFSVNLYPSQKLLNAAFKDVIRFLNWTKVAIVYEEDNGLFKLQELVKTP-PTLKTEMYIR--HANPS--TYRNVLREIRQ 127 (149)
Q Consensus 53 ~~~~~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~~~~~~l~~l~~~~-~~~~~~v~~~--~~~~~--d~~~~l~~i~~ 127 (149)
.|.+=+.-+|. .+++.+.=+-+-|.+ |.+|..+.+ .|+.+.++. +++++.+... .+... ++..+.+.+..
T Consensus 50 ~WAVVTGaTDG-IGKayA~eLAkrG~n-vvLIsRt~~---KL~~v~kEI~~~~~vev~~i~~Dft~~~~~ye~i~~~l~~ 124 (312)
T KOG1014|consen 50 SWAVVTGATDG-IGKAYARELAKRGFN-VVLISRTQE---KLEAVAKEIEEKYKVEVRIIAIDFTKGDEVYEKLLEKLAG 124 (312)
T ss_pred CEEEEECCCCc-chHHHHHHHHHcCCE-EEEEeCCHH---HHHHHHHHHHHHhCcEEEEEEEecCCCchhHHHHHHHhcC
Confidence 44444444443 566665533224555 544443322 222222221 1233333332 33222 36666666666
Q ss_pred CCCceEEEec
Q psy18065 128 KEIFNLIIDT 137 (149)
Q Consensus 128 ~~~~~iil~~ 137 (149)
-.. .|++.+
T Consensus 125 ~~V-gILVNN 133 (312)
T KOG1014|consen 125 LDV-GILVNN 133 (312)
T ss_pred Cce-EEEEec
Confidence 553 344433
No 457
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=24.11 E-value=3.2e+02 Score=21.45 Aligned_cols=59 Identities=14% Similarity=0.005 Sum_probs=36.1
Q ss_pred EEEEEeecCcchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCc
Q psy18065 80 KVAIVYEEDNGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 80 ~v~vi~~~~~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~ 139 (149)
.|.++..++........+...++..|+.+.+. .....+...++...+.++..+|+.+..
T Consensus 276 qV~IIpl~eel~e~AlkLA~eLR~aGIrVeiD-l~srSLgKQiK~AdK~GaPfvIIIGed 334 (387)
T PRK14938 276 QVRILPVKKDFLDFSIQVAERLRKEGIRVNVD-DLDDSLGNKIRRAGTEWIPFVIIIGER 334 (387)
T ss_pred eEEEEEeChHHHHHHHHHHHHHHHCCCEEEEE-CCCCCHHHHHHHHHHcCCCEEEEECch
Confidence 35666555433333344445555567776552 223568888888888888887777754
No 458
>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=24.08 E-value=2.9e+02 Score=20.15 Aligned_cols=18 Identities=6% Similarity=0.220 Sum_probs=8.5
Q ss_pred HHHHHHHhCCCceEEEec
Q psy18065 120 NVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 120 ~~l~~i~~~~~~~iil~~ 137 (149)
+.++.+++.+.-+|+++.
T Consensus 131 ~~~~~l~~~~iPvV~~~~ 148 (327)
T TIGR02417 131 AYYQKLQNEGLPVVALDR 148 (327)
T ss_pred HHHHHHHhcCCCEEEEcc
Confidence 444555554444444443
No 459
>PRK07524 hypothetical protein; Provisional
Probab=24.02 E-value=1.3e+02 Score=24.33 Aligned_cols=42 Identities=19% Similarity=0.193 Sum_probs=32.6
Q ss_pred HHHHHHHhh--CCcEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 3 EATMCRQLQ--NGVQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 3 ~~~~c~~~~--~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
.+..++++. ++++.++|.........+..+++.+++|+++..
T Consensus 191 i~~~~~~L~~AkrPvil~G~g~~~a~~~l~~lae~l~~pV~tt~ 234 (535)
T PRK07524 191 LAQAAERLAAARRPLILAGGGALAAAAALRALAERLDAPVALTI 234 (535)
T ss_pred HHHHHHHHHhCCCcEEEECCChHHHHHHHHHHHHHHCCCEEEcc
Confidence 345667664 457888888776677889999999999999764
No 460
>TIGR02884 spore_pdaA delta-lactam-biosynthetic de-N-acetylase. Muramic delta-lactam is an unusual constituent of peptidoglycan, found only in bacterial spores in the peptidoglycan wall, or spore cortex. The proteins in this family are PdaA (yfjS), a member of a larger family of polysaccharide deacetylases, and are specificially involved in delta-lactam biosynthesis. PdaA acts immediately after CwlD, an N-acetylmuramoyl-L-alanine amidase and performs a de-N-acetylation. PdaA may also perform the following transpeptidation for lactam ring formation, as heterologous expression in E. coli of CwlD and PdaA together is sufficient for delta-lactam production.
Probab=24.02 E-value=1.3e+02 Score=21.28 Aligned_cols=20 Identities=15% Similarity=0.119 Sum_probs=14.5
Q ss_pred HHHHHHHHHHhcCCcEEEEE
Q psy18065 65 LNAAFKDVIRFLNWTKVAIV 84 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~vi 84 (149)
....++++|+.++.+-.-++
T Consensus 51 ~t~~lL~~L~~~~vkATFFv 70 (224)
T TIGR02884 51 YTPKILDVLKEKKVPAAFFV 70 (224)
T ss_pred chHHHHHHHHHcCCCeEEEe
Confidence 45679999999998743333
No 461
>PHA01627 DNA binding protein
Probab=23.59 E-value=1.2e+02 Score=19.00 Aligned_cols=36 Identities=11% Similarity=0.278 Sum_probs=26.2
Q ss_pred hHHHHHHHhh-CCcEEEEcCCCCCcHHHHHHhhcccCCCc
Q psy18065 2 AEATMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPH 40 (149)
Q Consensus 2 ~~~~~c~~~~-~~v~aiiGp~~s~~~~~v~~~~~~~~iP~ 40 (149)
..+.+|++++ ++.+--|| ..+++..+..+++ .++|.
T Consensus 27 ~~~Eak~~v~~~~~vSaIG--H~sTA~lls~llg-~~ip~ 63 (107)
T PHA01627 27 DIEEAKELLENEEFVSAIG--HDATANLLSNLCG-VNLPK 63 (107)
T ss_pred CHHHHHHHhcccCeEEeec--cHHHHHHHHHHhC-ccccc
Confidence 3567899885 56666777 5567778888888 67774
No 462
>PRK13477 bifunctional pantoate ligase/cytidylate kinase; Provisional
Probab=23.53 E-value=88 Score=25.41 Aligned_cols=33 Identities=15% Similarity=0.237 Sum_probs=28.6
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCceeecc
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~ 45 (149)
.+.+|.||+++.=+.....++..+++++++.+.
T Consensus 285 ~ii~i~G~sgsGKst~a~~la~~l~~~~~d~g~ 317 (512)
T PRK13477 285 PIIAIDGPAGAGKSTVTRAVAKKLGLLYLDTGA 317 (512)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHcCCeEecCCc
Confidence 489999999999988889999999988887553
No 463
>PRK14059 hypothetical protein; Provisional
Probab=23.44 E-value=1.5e+02 Score=21.45 Aligned_cols=33 Identities=9% Similarity=0.225 Sum_probs=27.4
Q ss_pred CchHHHHHHHHhCCCceEEEecCchhHHHHHhh
Q psy18065 116 STYRNVLREIRQKEIFNLIIDTSTTHISQFFRA 148 (149)
Q Consensus 116 ~d~~~~l~~i~~~~~~~iil~~~~~~~~~il~q 148 (149)
.|..++++++++.+.+.|++.+-...+..++++
T Consensus 165 ~dl~~~l~~L~~~g~~~vlveGG~~l~~~fl~~ 197 (251)
T PRK14059 165 VDLAAAVAALAARGLRRILCEGGPTLLGQLLAA 197 (251)
T ss_pred CCHHHHHHHHHhCCCCEEEEechHHHHHHHHHc
Confidence 478899999999999999998887777777754
No 464
>PF00290 Trp_syntA: Tryptophan synthase alpha chain; InterPro: IPR002028 Tryptophan synthase (4.2.1.20 from EC) catalyzes the last step in the biosynthesis of tryptophan [, ]: L-serine + 1-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O It has two functional domains, each found in bacteria and plants on a separate subunit. In Escherichia coli, the 2 subunits, A and B, are encoded by the trpA and trpB genes respectively. The alpha chain is for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate and the beta chain IPR006653 from INTERPRO is for the synthesis of tryptophan from indole and serine. In fungi the two domains are fused together in a single multifunctional protein, in the order: (NH2-A-B-COOH) [, ]. The two domains of the Neurospora crassa polypeptide are linked by a connector of 54-amino acid residues that has less than 25% identity to the 45-residue connector of the Saccharomyces cerevisiae (Baker's yeast) polypeptide. Two acidic residues are believed to serve as proton donors/acceptors in the enzyme's catalytic mechanism.; GO: 0004834 tryptophan synthase activity, 0006568 tryptophan metabolic process; PDB: 1TJR_B 1RD5_B 1K8X_A 1QOQ_A 1KFE_A 1KFB_A 2CLO_A 1TTP_A 2RH9_A 1K7F_A ....
Probab=23.37 E-value=1.6e+02 Score=21.63 Aligned_cols=129 Identities=9% Similarity=0.063 Sum_probs=64.4
Q ss_pred EcCCCCCcHHHHHHhhcccCCCceeeccC---CCCCCccc-------EEEecCChhHHHHHHHHHH-HhcCCcEEEEEee
Q psy18065 18 FGPSDALLGPHVQSICEALDVPHMESRLD---LELNSKEF-------SVNLYPSQKLLNAAFKDVI-RFLNWTKVAIVYE 86 (149)
Q Consensus 18 iGp~~s~~~~~v~~~~~~~~iP~is~~~~---~~~~~~~~-------~~~~~p~~~~~~~ai~~ll-~~~~W~~v~vi~~ 86 (149)
.|..+-..+..+...+...++..|..+.+ |..+. |. .++-.-+.......+.++- ++.+-.-+.+-|-
T Consensus 18 aG~P~~~~~~~~~~~l~~~GaD~iEiGiPfSDP~ADG-pvIq~A~~rAL~~G~~~~~~~~~~~~ir~~~~~~pivlm~Y~ 96 (259)
T PF00290_consen 18 AGYPDLETTLEILKALEEAGADIIEIGIPFSDPVADG-PVIQKASQRALKNGFTLEKIFELVKEIRKKEPDIPIVLMTYY 96 (259)
T ss_dssp TTSSSHHHHHHHHHHHHHTTBSSEEEE--SSSCTTSS-HHHHHHHHHHHHTT--HHHHHHHHHHHHHHCTSSEEEEEE-H
T ss_pred CCCCCHHHHHHHHHHHHHcCCCEEEECCCCCCCCCCC-HHHHHHHHHHHHCCCCHHHHHHHHHHHhccCCCCCEEEEeec
Confidence 35555566677777778888888887743 32222 11 0011111111222223333 2233434445566
Q ss_pred cCcchhhHHHHHhCCCCCCce-EEEEecCCCchHHHHHHHHhCCCceEEEecC---chhHHHHHh
Q psy18065 87 EDNGLFKLQELVKTPPTLKTE-MYIRHANPSTYRNVLREIRQKEIFNLIIDTS---TTHISQFFR 147 (149)
Q Consensus 87 ~~~~~~~l~~l~~~~~~~~~~-v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~---~~~~~~il~ 147 (149)
|.--..+++.+.+.+++.|+. +.+..++.++..++....++.+.+.|-+..+ .+....+.+
T Consensus 97 N~i~~~G~e~F~~~~~~aGvdGlIipDLP~ee~~~~~~~~~~~gl~~I~lv~p~t~~~Ri~~i~~ 161 (259)
T PF00290_consen 97 NPIFQYGIERFFKEAKEAGVDGLIIPDLPPEESEELREAAKKHGLDLIPLVAPTTPEERIKKIAK 161 (259)
T ss_dssp HHHHHH-HHHHHHHHHHHTEEEEEETTSBGGGHHHHHHHHHHTT-EEEEEEETTS-HHHHHHHHH
T ss_pred cHHhccchHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHHcCCeEEEEECCCCCHHHHHHHHH
Confidence 654444556666665555653 3345555556666666777777777777665 234445444
No 465
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=23.33 E-value=1.5e+02 Score=22.01 Aligned_cols=41 Identities=17% Similarity=0.293 Sum_probs=32.3
Q ss_pred HHHHHHh-hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 4 ATMCRQL-QNGVQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 4 ~~~c~~~-~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
..+|+.+ +.++.+++=.=++.++.++..+-..+.+|++..-
T Consensus 57 ~~i~~~l~~~~ik~lVIACNTASa~al~~LR~~~~iPVvGvi 98 (269)
T COG0796 57 LEIVDFLLERGIKALVIACNTASAVALEDLREKFDIPVVGVI 98 (269)
T ss_pred HHHHHHHHHcCCCEEEEecchHHHHHHHHHHHhCCCCEEEec
Confidence 3456655 5667777777788999999999999999998865
No 466
>KOG3079|consensus
Probab=23.32 E-value=91 Score=21.81 Aligned_cols=33 Identities=15% Similarity=0.270 Sum_probs=28.0
Q ss_pred CCcEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 12 NGVQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 12 ~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
..|+-|+|+.+|.=...=..+...|..-|+|.+
T Consensus 8 ~~IifVlGGPGsgKgTqC~kiv~ky~ftHlSaG 40 (195)
T KOG3079|consen 8 PPIIFVLGGPGSGKGTQCEKIVEKYGFTHLSAG 40 (195)
T ss_pred CCEEEEEcCCCCCcchHHHHHHHHcCceeecHH
Confidence 358889999888877788889999999999977
No 467
>TIGR03471 HpnJ hopanoid biosynthesis associated radical SAM protein HpnJ. One of the well-described hopanoid intermediates is bacteriohopanetetrol. In the conversion from hopene several reactions must occur in the side chain for which a radical mechanism might be reasonable. These include the four (presumably anaerobic) hydroxylations and a methyl shift.
Probab=23.31 E-value=3.8e+02 Score=21.26 Aligned_cols=78 Identities=9% Similarity=0.075 Sum_probs=43.6
Q ss_pred EEecCChhHHHHHHHHHHHhc-CCcEEEEEeecCc--chhhHHHHHhCCCCCCceEEEE-ecCCCchHHHHHHHHhCCCc
Q psy18065 56 VNLYPSQKLLNAAFKDVIRFL-NWTKVAIVYEEDN--GLFKLQELVKTPPTLKTEMYIR-HANPSTYRNVLREIRQKEIF 131 (149)
Q Consensus 56 ~~~~p~~~~~~~ai~~ll~~~-~W~~v~vi~~~~~--~~~~l~~l~~~~~~~~~~v~~~-~~~~~d~~~~l~~i~~~~~~ 131 (149)
+|..+.+ ....-+-.+.+.+ +.+.+.+ .++.. ....+.++.+...+.++..... +.+ - -.++++.+++.+.+
T Consensus 224 ~r~rs~e-~V~~Ei~~~~~~~~~~~~i~f-~Dd~f~~~~~~~~~l~~~l~~~~i~~~~~~~~~-~-~~e~l~~l~~aG~~ 299 (472)
T TIGR03471 224 YRTRSAE-SVIEEVKYALENFPEVREFFF-DDDTFTDDKPRAEEIARKLGPLGVTWSCNARAN-V-DYETLKVMKENGLR 299 (472)
T ss_pred eEeCCHH-HHHHHHHHHHHhcCCCcEEEE-eCCCCCCCHHHHHHHHHHHhhcCceEEEEecCC-C-CHHHHHHHHHcCCC
Confidence 5666544 3555556666666 5566554 34332 3345566665555555443221 111 1 25778889999888
Q ss_pred eEEEec
Q psy18065 132 NLIIDT 137 (149)
Q Consensus 132 ~iil~~ 137 (149)
.|.+-.
T Consensus 300 ~v~iGi 305 (472)
T TIGR03471 300 LLLVGY 305 (472)
T ss_pred EEEEcC
Confidence 777644
No 468
>PF02754 CCG: Cysteine-rich domain; InterPro: IPR004017 This domain is usually found in two copies per protein. It contains up to four conserved cysteines. The group includes proteins characterised as: heterodisulphide reductase, subunit B (HrdB); succinate dehydrogenase, subunit C (SdhC, 1.3.99.1 from EC); Fe-S oxidoreductase; glycerol-3-phosphate dehydrogenase subunit C (Anaerobic GlpC, 1.1.99.5 from EC); and glycolate oxidase iron-sulphur subunit (GlcF) [].
Probab=23.25 E-value=1.2e+02 Score=16.88 Aligned_cols=22 Identities=14% Similarity=0.264 Sum_probs=17.6
Q ss_pred hHHHHHHHHhCCCceEEEecCc
Q psy18065 118 YRNVLREIRQKEIFNLIIDTST 139 (149)
Q Consensus 118 ~~~~l~~i~~~~~~~iil~~~~ 139 (149)
....++.+++.+.+.||..|+.
T Consensus 58 ~~~~~~~~~~~~~~~iv~~c~~ 79 (85)
T PF02754_consen 58 AKRNLKEIKEAGADTIVTPCPS 79 (85)
T ss_pred HHHHHHHHHHcCCCEEEEeChh
Confidence 4566778888889999999875
No 469
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=23.19 E-value=1.1e+02 Score=21.20 Aligned_cols=32 Identities=9% Similarity=-0.085 Sum_probs=25.6
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
.+..+.|++++.-+.....++...+++++..+
T Consensus 4 ~~i~i~G~~G~GKst~a~~l~~~~~~~~~~~~ 35 (197)
T PRK12339 4 TIHFIGGIPGVGKTSISGYIARHRAIDIVLSG 35 (197)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhcCCeEEehh
Confidence 47788888888888777889999999887654
No 470
>PF00781 DAGK_cat: Diacylglycerol kinase catalytic domain; InterPro: IPR001206 The DAG-kinase catalytic domain or DAGKc domain is present in mammalian lipid kinases, such as diacylglycerol (DAG), ceramide and sphingosine kinases, as well as in related bacterial proteins [, ]. Eukaryotic DAG-kinase (2.7.1.107 from EC) catalyses the phosphorylation of DAG to phosphatidic acid, thus modulating the balance between the two signaling lipids. At least ten different isoforms have been identified in mammals, which form 5 groups characterised by different functional domains, such as the calcium-binding EF hand (see PDOC00018 from PROSITEDOC), PH (see PDOC50003 from PROSITEDOC), SAM (see PDOC50105 from PROSITEDOC) , DAG/PE-binding C1 domain (see PDOC00379 from PROSITEDOC) and ankyrin repeats (see PDOC50088 from PROSITEDOC) []. In bacteria, an integral membrane DAG kinase forms a homotrimeric protein that lacks the DAGKc domain (see PDOC00820 from PROSITEDOC). In contrast, the bacterial yegS protein is a soluble cytosolic protein that contains the DAGKc domain in the N-terminal part. YegS is a lipid kinase with two structural domains, wherein the active site is located in the interdomain cleft, C-terminal to the DAGKc domain which forms an alpha/beta fold []. The tertiary structure resembles that of NAD kinases and contains a metal-binding site in the C-terminal region [, ]. This domain is usually associated with an accessory domain (see IPR000756 from INTERPRO).; GO: 0004143 diacylglycerol kinase activity, 0007205 activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway; PDB: 2JGR_A 2BON_A 3T5P_D 3S40_A 2P1R_A 2QV7_A 2QVL_A.
Probab=23.17 E-value=2e+02 Score=18.01 Aligned_cols=48 Identities=2% Similarity=0.034 Sum_probs=18.7
Q ss_pred HHHhCCCCCCceEEEEecCCCchHHHHHH-HHhCCC-ceEEEecCchhHH
Q psy18065 96 ELVKTPPTLKTEMYIRHANPSTYRNVLRE-IRQKEI-FNLIIDTSTTHIS 143 (149)
Q Consensus 96 ~l~~~~~~~~~~v~~~~~~~~d~~~~l~~-i~~~~~-~~iil~~~~~~~~ 143 (149)
.+.+.+...+..+.+......+....+.. .+.... +.||+.+-.-.+.
T Consensus 19 ~v~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~ivv~GGDGTl~ 68 (130)
T PF00781_consen 19 KVEPALRAAGIDYEVIETESAGHAEALARILALDDYPDVIVVVGGDGTLN 68 (130)
T ss_dssp HHHHHHHHTTCEEEEEEESSTTHHHHHHHHHHHTTS-SEEEEEESHHHHH
T ss_pred HHHHHHHHcCCceEEEEEeccchHHHHHHHHhhccCccEEEEEcCccHHH
Confidence 34443333444444433332333333333 222222 4555555433333
No 471
>KOG0745|consensus
Probab=23.13 E-value=98 Score=24.93 Aligned_cols=30 Identities=27% Similarity=0.362 Sum_probs=26.6
Q ss_pred EEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 15 QALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 15 ~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
+.++||+++.-+...+.++.-.++|+.-..
T Consensus 229 vLllGPtGsGKTllaqTLAr~ldVPfaIcD 258 (564)
T KOG0745|consen 229 VLLLGPTGSGKTLLAQTLARVLDVPFAICD 258 (564)
T ss_pred EEEECCCCCchhHHHHHHHHHhCCCeEEec
Confidence 678899999999999999999999986543
No 472
>PF00391 PEP-utilizers: PEP-utilising enzyme, mobile domain; InterPro: IPR008279 A number of enzymes that catalyze the transfer of a phosphoryl group from phosphoenolpyruvate (PEP) via a phospho-histidine intermediate have been shown to be structurally related [, , , ]. All these enzymes share the same catalytic mechanism: they bind PEP and transfer the phosphoryl group from it to a histidine residue. This domain is a "swivelling" beta/beta/alpha domain which is thought to be mobile in all proteins known to contain it []. It is often found associated with the pyruvate phosphate dikinase, PEP/pyruvate-binding domain (IPR002192 from INTERPRO) at its N terminus.; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0016310 phosphorylation; PDB: 2X0S_A 2OLS_A 2HRO_A 2E28_A 2WQD_A 3T05_D 3T0T_D 3T07_B 2DIK_A 2FM4_A ....
Probab=23.12 E-value=65 Score=18.64 Aligned_cols=31 Identities=13% Similarity=0.272 Sum_probs=22.2
Q ss_pred CCcEEEEcCCCCCcHHHHHHhhcccCCCceee
Q psy18065 12 NGVQALFGPSDALLGPHVQSICEALDVPHMES 43 (149)
Q Consensus 12 ~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~ 43 (149)
.++.+|+-...+.. .+.+-++..+++|.+.-
T Consensus 29 ~~~~Giv~~~Gg~~-SH~aIlAr~~giP~ivg 59 (80)
T PF00391_consen 29 QRVAGIVTEEGGPT-SHAAILARELGIPAIVG 59 (80)
T ss_dssp TTSSEEEESSSSTT-SHHHHHHHHTT-EEEES
T ss_pred hheEEEEEEcCCcc-chHHHHHHHcCCCEEEe
Confidence 46778887666555 46688899999998874
No 473
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=23.03 E-value=4.3e+02 Score=21.73 Aligned_cols=66 Identities=18% Similarity=0.196 Sum_probs=39.1
Q ss_pred HHHHHHHHHHhcCCcEEEEE-eec-CcchhhHHHHHhCCCCCCceEEEEecC-CCchHHHHHHHHhCCCceEEEecC
Q psy18065 65 LNAAFKDVIRFLNWTKVAIV-YEE-DNGLFKLQELVKTPPTLKTEMYIRHAN-PSTYRNVLREIRQKEIFNLIIDTS 138 (149)
Q Consensus 65 ~~~ai~~ll~~~~W~~v~vi-~~~-~~~~~~l~~l~~~~~~~~~~v~~~~~~-~~d~~~~l~~i~~~~~~~iil~~~ 138 (149)
..+++ ...+.++= ++++| |.+ -.+...+++++.. .+....+. .+|.+..++++++.+.++||-+..
T Consensus 96 il~al-~~a~~~~~-~iavv~~~~~~~~~~~~~~~l~~------~i~~~~~~~~~e~~~~v~~lk~~G~~~vvG~~~ 164 (538)
T PRK15424 96 VMQAL-ARARKLTS-SIGVVTYQETIPALVAFQKTFNL------RIEQRSYVTEEDARGQINELKANGIEAVVGAGL 164 (538)
T ss_pred HHHHH-HHHHhcCC-cEEEEecCcccHHHHHHHHHhCC------ceEEEEecCHHHHHHHHHHHHHCCCCEEEcCch
Confidence 34444 33355543 56665 444 3455555555433 44444443 368999999999999888876543
No 474
>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]
Probab=23.02 E-value=64 Score=22.80 Aligned_cols=29 Identities=24% Similarity=0.416 Sum_probs=20.1
Q ss_pred hCCcEEEEcCCCCCcHHHHHHhhcccCCCc
Q psy18065 11 QNGVQALFGPSDALLGPHVQSICEALDVPH 40 (149)
Q Consensus 11 ~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~ 40 (149)
...++||+||+++.-+.-..-++ -+..|.
T Consensus 24 ~ge~vAi~GpSGaGKSTLLnLIA-GF~~P~ 52 (231)
T COG3840 24 AGEIVAILGPSGAGKSTLLNLIA-GFETPA 52 (231)
T ss_pred CCcEEEEECCCCccHHHHHHHHH-hccCCC
Confidence 34589999999988775555444 455665
No 475
>KOG3670|consensus
Probab=22.79 E-value=2.9e+02 Score=21.77 Aligned_cols=32 Identities=13% Similarity=0.209 Sum_probs=19.4
Q ss_pred chHHHHHHHHhCCCceEEEecCchhHHHHHhhC
Q psy18065 117 TYRNVLREIRQKEIFNLIIDTSTTHISQFFRAV 149 (149)
Q Consensus 117 d~~~~l~~i~~~~~~~iil~~~~~~~~~il~qA 149 (149)
+++..+..|++.=+|.+|.....-.+ .+++||
T Consensus 217 ~i~~Al~~L~~nvPR~iV~lvg~~~~-~~l~q~ 248 (397)
T KOG3670|consen 217 NIRKALEILRDNVPRTIVSLVGMFNV-SLLRQA 248 (397)
T ss_pred HHHHHHHHHHhcCCceEEEEecCCCH-HHHHHh
Confidence 46666777777766666665544444 566654
No 476
>PRK12361 hypothetical protein; Provisional
Probab=22.74 E-value=4.2e+02 Score=21.55 Aligned_cols=66 Identities=5% Similarity=0.049 Sum_probs=37.0
Q ss_pred EEEEEeecCcc----hhhHHHHHhCCCCCCceEEEEecC-CCchHHHHHHHHhCCCceEEEecCchhHHHHH
Q psy18065 80 KVAIVYEEDNG----LFKLQELVKTPPTLKTEMYIRHAN-PSTYRNVLREIRQKEIFNLIIDTSTTHISQFF 146 (149)
Q Consensus 80 ~v~vi~~~~~~----~~~l~~l~~~~~~~~~~v~~~~~~-~~d~~~~l~~i~~~~~~~iil~~~~~~~~~il 146 (149)
++.+|+....| ....+.+.+.+++. +.+.+.... ..+..++.++....+.+.||+.+-.-.+..++
T Consensus 244 ~~~iI~NP~SG~g~~~~~~~~i~~~L~~~-~~~~v~~t~~~~~a~~la~~~~~~~~d~Viv~GGDGTl~ev~ 314 (547)
T PRK12361 244 RAWLIANPVSGGGKWQEYGEQIQRELKAY-FDLTVKLTTPEISAEALAKQARKAGADIVIACGGDGTVTEVA 314 (547)
T ss_pred ceEEEECCCCCCCcHHHHHHHHHHHHhcC-CceEEEECCCCccHHHHHHHHHhcCCCEEEEECCCcHHHHHH
Confidence 56667764222 23455555554443 444443332 35667777777777777887766555454444
No 477
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=22.68 E-value=1.2e+02 Score=20.57 Aligned_cols=30 Identities=13% Similarity=0.072 Sum_probs=24.1
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCcee
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHME 42 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is 42 (149)
.+.+++|++++.=+.....+++..+.+++.
T Consensus 4 e~i~l~G~sGsGKSTl~~~la~~l~~~~i~ 33 (176)
T PRK09825 4 ESYILMGVSGSGKSLIGSKIAALFSAKFID 33 (176)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhcCCEEEC
Confidence 478999999988887888888888776554
No 478
>COG0283 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=22.55 E-value=1.1e+02 Score=21.96 Aligned_cols=66 Identities=12% Similarity=0.070 Sum_probs=41.9
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCceeeccCCCCCCc-ccEEEecCChhHHHHHHHHHHHhcCCcEE
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSK-EFSVNLYPSQKLLNAAFKDVIRFLNWTKV 81 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~-~~~~~~~p~~~~~~~ai~~ll~~~~W~~v 81 (149)
-+.||=||..+.=+.....++..++.+++..|.-.+.-.+ -.--..-+. -..++..++.+..|.-.
T Consensus 5 ~~IAIDGPagsGKsTvak~lA~~Lg~~yldTGamYRa~a~~~l~~~~~~~---d~~~~~~l~~~~~i~f~ 71 (222)
T COG0283 5 IIIAIDGPAGSGKSTVAKILAEKLGFHYLDTGAMYRAVALAALKHGVDLD---DEDALVALAKELDISFV 71 (222)
T ss_pred eEEEEeCCCccChHHHHHHHHHHhCCCeecccHHHHHHHHHHHHcCCCCc---cHHHHHHHHHhCCceec
Confidence 3688999999888888888999999999998753321000 000111122 23567777777666544
No 479
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=22.42 E-value=1.8e+02 Score=22.24 Aligned_cols=39 Identities=8% Similarity=0.052 Sum_probs=30.8
Q ss_pred HHHhhCC-cEEEEcCCCCCcHHHHHHhhcccCCCceeecc
Q psy18065 7 CRQLQNG-VQALFGPSDALLGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 7 c~~~~~~-v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~ 45 (149)
-.++.+| -+.||++.++.....+-..+...+||+|+|..
T Consensus 75 en~i~qg~~vlvi~a~d~~~l~~~i~~A~~~gikViaYDR 114 (341)
T COG4213 75 ENMINQGVKVLVIGAIDGGVLSNAVEKAKSEGIKVIAYDR 114 (341)
T ss_pred HHHHhcCCCEEEEEeccchhHHHHHHHHHHcCCeEEEeec
Confidence 3455666 45677899988888888889999999999874
No 480
>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=22.40 E-value=1.2e+02 Score=20.88 Aligned_cols=26 Identities=19% Similarity=0.279 Sum_probs=21.4
Q ss_pred CCcEEEEcCCCCCcHHHHHHhhcccC
Q psy18065 12 NGVQALFGPSDALLGPHVQSICEALD 37 (149)
Q Consensus 12 ~~v~aiiGp~~s~~~~~v~~~~~~~~ 37 (149)
.|+.+++||.++.=+.-+.-+++...
T Consensus 25 ~g~~~i~G~nGsGKSTLl~~l~Gl~~ 50 (211)
T cd03264 25 PGMYGLLGPNGAGKTTLMRILATLTP 50 (211)
T ss_pred CCcEEEECCCCCCHHHHHHHHhCCCC
Confidence 46999999999888888888887653
No 481
>COG0022 AcoB Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]
Probab=22.35 E-value=3.6e+02 Score=20.57 Aligned_cols=34 Identities=9% Similarity=0.184 Sum_probs=24.1
Q ss_pred CCCCceEEE---EecCCCchHHHHHHHHhCCCceEEEe
Q psy18065 102 PTLKTEMYI---RHANPSTYRNVLREIRQKEIFNLIID 136 (149)
Q Consensus 102 ~~~~~~v~~---~~~~~~d~~~~l~~i~~~~~~~iil~ 136 (149)
.+.|+.+.+ +.+.+-|...+++.+|+.+ |.+|++
T Consensus 223 ~~~Gis~EVIDLRTl~PlD~etIi~SvkKTg-R~viV~ 259 (324)
T COG0022 223 EKEGISAEVIDLRTLSPLDKETIIASVKKTG-RLVIVH 259 (324)
T ss_pred hhcCCCeEEEeccccCccCHHHHHHHHHhhC-cEEEEE
Confidence 344777655 3445679999999999998 456654
No 482
>PRK00300 gmk guanylate kinase; Provisional
Probab=22.34 E-value=1e+02 Score=20.97 Aligned_cols=25 Identities=28% Similarity=0.181 Sum_probs=20.6
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccC
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALD 37 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~ 37 (149)
.+.+++||+++.=+..+..+++.+.
T Consensus 6 ~~i~i~G~sGsGKstl~~~l~~~~~ 30 (205)
T PRK00300 6 LLIVLSGPSGAGKSTLVKALLERDP 30 (205)
T ss_pred CEEEEECCCCCCHHHHHHHHHhhCc
Confidence 4899999999888877787877765
No 483
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=22.28 E-value=1.5e+02 Score=21.51 Aligned_cols=72 Identities=7% Similarity=0.114 Sum_probs=43.7
Q ss_pred HHh-hCCcEEEEcCCCCCcHHHHHHhhcccCCCceeec-c--CCC--CCCcccEEEecCChhHHHHHHHHHHHhcCCc
Q psy18065 8 RQL-QNGVQALFGPSDALLGPHVQSICEALDVPHMESR-L--DLE--LNSKEFSVNLYPSQKLLNAAFKDVIRFLNWT 79 (149)
Q Consensus 8 ~~~-~~~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~-~--~~~--~~~~~~~~~~~p~~~~~~~ai~~ll~~~~W~ 79 (149)
.+. +.|+.+++=|=++..+.....+.+.+++|+|..- + ... .....-.-=+..+.+..+...-+.+..++.+
T Consensus 55 ~L~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~iie~~v~~a~~~~~~~~IgvLAT~~Ti~s~~y~~~i~~~~~~ 132 (251)
T TIGR00067 55 FLKERHNIKLLVVACNTASALALEDLQRNFDFPVVGVIEPAIKAAIRLTANGRVLVIATNATIKSNAYHEALKEIAND 132 (251)
T ss_pred HHHHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEEeecHHHHHHHHHhCCCCeEEEEeCHHHHhhhHHHHHHHHhCCC
Confidence 444 5678888888887777778888888999999842 2 111 1111112222333444556666677777765
No 484
>cd01465 vWA_subgroup VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if n
Probab=22.26 E-value=2.3e+02 Score=18.31 Aligned_cols=49 Identities=10% Similarity=-0.017 Sum_probs=26.8
Q ss_pred HHHHHhCCCCCCceEEEEecCCCchHHHHHHHHhCCCceEEEecCchhH
Q psy18065 94 LQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQKEIFNLIIDTSTTHI 142 (149)
Q Consensus 94 l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~~~~~~iil~~~~~~~ 142 (149)
+.+..+..+..++++....+....-...|++|-+.+.......-+...+
T Consensus 118 ~~~~~~~~~~~~v~i~~i~~g~~~~~~~l~~ia~~~~g~~~~~~~~~~~ 166 (170)
T cd01465 118 LARLVAQKRESGITLSTLGFGDNYNEDLMEAIADAGNGNTAYIDNLAEA 166 (170)
T ss_pred HHHHHHHhhcCCeEEEEEEeCCCcCHHHHHHHHhcCCceEEEeCCHHHH
Confidence 3444444455677777666653323567888876654444443333333
No 485
>PRK13059 putative lipid kinase; Reviewed
Probab=22.20 E-value=3.3e+02 Score=20.06 Aligned_cols=6 Identities=33% Similarity=0.877 Sum_probs=2.4
Q ss_pred EEEEee
Q psy18065 81 VAIVYE 86 (149)
Q Consensus 81 v~vi~~ 86 (149)
+.+|+.
T Consensus 4 ~~~I~N 9 (295)
T PRK13059 4 VKFIYN 9 (295)
T ss_pred EEEEEC
Confidence 334443
No 486
>TIGR00249 sixA phosphohistidine phosphatase SixA.
Probab=22.20 E-value=2.4e+02 Score=18.48 Aligned_cols=89 Identities=2% Similarity=-0.081 Sum_probs=45.9
Q ss_pred EecCChhHHHHHHHHHHHhcCCcEEEEEeecC--cchhhHHHHHhCCCCCCceEEE-EecC-CC---chHHHHHHHHhCC
Q psy18065 57 NLYPSQKLLNAAFKDVIRFLNWTKVAIVYEED--NGLFKLQELVKTPPTLKTEMYI-RHAN-PS---TYRNVLREIRQKE 129 (149)
Q Consensus 57 ~~~p~~~~~~~ai~~ll~~~~W~~v~vi~~~~--~~~~~l~~l~~~~~~~~~~v~~-~~~~-~~---d~~~~l~~i~~~~ 129 (149)
.+.+.-..+++.+.+.+...++.. ..||... ......+.+.+..... ..+.. ..+. .. +..+.+..+...+
T Consensus 22 ~Lt~~G~~qa~~~~~~l~~~~~~~-d~i~sSp~~Ra~qTa~~l~~~~~~~-~~~~~~~~l~p~~~~~~~~~~l~~~~~~~ 99 (152)
T TIGR00249 22 PLTTNGCDESRLVAQWLKGQGVEI-ERILVSPFVRAEQTAEIVGDCLNLP-SSAEVLEGLTPCGDIGLVSDYLEALTNEG 99 (152)
T ss_pred CcCHHHHHHHHHHHHHHHhCCCCC-CEEEECCcHHHHHHHHHHHHHcCCC-cceEEccCcCCCCCHHHHHHHHHHHHhcC
Confidence 344444567778888887655433 3455543 3445555555443211 12222 2333 22 3445556655544
Q ss_pred CceEEEecCchhHHHHHh
Q psy18065 130 IFNLIIDTSTTHISQFFR 147 (149)
Q Consensus 130 ~~~iil~~~~~~~~~il~ 147 (149)
.+.+++.+.......++.
T Consensus 100 ~~~vliVgH~P~i~~l~~ 117 (152)
T TIGR00249 100 VASVLLVSHLPLVGYLVA 117 (152)
T ss_pred CCEEEEEeCCCCHHHHHH
Confidence 567777777665555543
No 487
>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional
Probab=22.19 E-value=1.2e+02 Score=23.75 Aligned_cols=30 Identities=10% Similarity=0.117 Sum_probs=25.7
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCcee
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHME 42 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is 42 (149)
..++|+|+.++.=|.-+..++..++.+.+.
T Consensus 220 ~~IvI~G~~gsGKTTL~~~La~~~g~~~v~ 249 (399)
T PRK08099 220 RTVAILGGESSGKSTLVNKLANIFNTTSAW 249 (399)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHhCCCeee
Confidence 468999999988888889999999988654
No 488
>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=22.12 E-value=1.6e+02 Score=22.56 Aligned_cols=63 Identities=17% Similarity=-0.014 Sum_probs=37.8
Q ss_pred hcCCcEEEEEeecC-cc-hhhHHHHHhCCCCCCceEEEE-ecC--C--CchHHHHHHHHhCCCceEEEec
Q psy18065 75 FLNWTKVAIVYEED-NG-LFKLQELVKTPPTLKTEMYIR-HAN--P--STYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 75 ~~~W~~v~vi~~~~-~~-~~~l~~l~~~~~~~~~~v~~~-~~~--~--~d~~~~l~~i~~~~~~~iil~~ 137 (149)
.++-+++.++++.. .. ...++.+.+.++..|+.+... .+. + +...+..+.+++.+++.||-.+
T Consensus 20 ~~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavG 89 (375)
T cd08179 20 TLKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPDPSVETVLKGAEAMREFEPDWIIALG 89 (375)
T ss_pred HhcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 33457888887643 21 223344555554556655432 232 2 3467778889999999999876
No 489
>PRK06683 hypothetical protein; Provisional
Probab=22.00 E-value=1.8e+02 Score=17.06 Aligned_cols=39 Identities=10% Similarity=0.169 Sum_probs=24.9
Q ss_pred HHHHhhCC--cEEEEcCCC-CCcHHHHHHhhcccCCCceeec
Q psy18065 6 MCRQLQNG--VQALFGPSD-ALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 6 ~c~~~~~~--v~aiiGp~~-s~~~~~v~~~~~~~~iP~is~~ 44 (149)
..+.+..| -..++.... ......+...|..++||.+.+.
T Consensus 19 v~kaik~gkaklViiA~Da~~~~~~~i~~~~~~~~Vpv~~~~ 60 (82)
T PRK06683 19 TLEAIKNGIVKEVVIAEDADMRLTHVIIRTALQHNIPITKVE 60 (82)
T ss_pred HHHHHHcCCeeEEEEECCCCHHHHHHHHHHHHhcCCCEEEEC
Confidence 44544432 445555444 4445666888999999998765
No 490
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=21.99 E-value=1.4e+02 Score=23.60 Aligned_cols=32 Identities=22% Similarity=0.282 Sum_probs=27.5
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
+.+.+.||+++.=+..+..++..+++|+..+.
T Consensus 117 ~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~d 148 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLAQTLARILNVPFAIAD 148 (413)
T ss_pred ceEEEECCCCcCHHHHHHHHHHhcCCCeEEec
Confidence 46889999999999888999999999987654
No 491
>PRK13055 putative lipid kinase; Reviewed
Probab=21.99 E-value=3.5e+02 Score=20.35 Aligned_cols=58 Identities=10% Similarity=0.185 Sum_probs=27.2
Q ss_pred EEEEEeecCcc----hhhHHHHHhCCCCCCceEEEEecC--CCchHHHHHHHHhCCCceEEEec
Q psy18065 80 KVAIVYEEDNG----LFKLQELVKTPPTLKTEMYIRHAN--PSTYRNVLREIRQKEIFNLIIDT 137 (149)
Q Consensus 80 ~v~vi~~~~~~----~~~l~~l~~~~~~~~~~v~~~~~~--~~d~~~~l~~i~~~~~~~iil~~ 137 (149)
++.+|+.-..| ....+.+.+.+.+.|+.+.+.... ..+..++.++....+.+.||+.+
T Consensus 4 r~~iI~NP~sG~~~~~~~~~~i~~~l~~~g~~~~i~~t~~~~~~a~~~~~~~~~~~~d~vvv~G 67 (334)
T PRK13055 4 RARLIYNPTSGQEIMKKNVADILDILEQAGYETSAFQTTPEPNSAKNEAKRAAEAGFDLIIAAG 67 (334)
T ss_pred eEEEEECCCCCchhHHHHHHHHHHHHHHcCCeEEEEEeecCCccHHHHHHHHhhcCCCEEEEEC
Confidence 45555553212 233344444455555554432221 23455556555555555655544
No 492
>PF02677 DUF208: Uncharacterized BCR, COG1636; InterPro: IPR003828 This entry describes proteins of unknown function.
Probab=21.95 E-value=1.8e+02 Score=20.04 Aligned_cols=52 Identities=13% Similarity=0.142 Sum_probs=31.3
Q ss_pred HHHHHHHhcCCcEEEEEeecC-----cchhhHHHHHhCCCCCCceEEEEecCCCchH
Q psy18065 68 AFKDVIRFLNWTKVAIVYEED-----NGLFKLQELVKTPPTLKTEMYIRHANPSTYR 119 (149)
Q Consensus 68 ai~~ll~~~~W~~v~vi~~~~-----~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~ 119 (149)
..+..|+..||.-.++.|... +-..+++++.+..+..++.+....++++++.
T Consensus 13 ~~~~~L~~~g~~vt~~fyNPNIhP~~Ey~~R~~~~~~~~~~~~i~~i~~~Y~~~~w~ 69 (176)
T PF02677_consen 13 YPLERLREEGFDVTGYFYNPNIHPYEEYERRLEELKRFAEKLGIPLIEGDYDPEEWL 69 (176)
T ss_pred HHHHHHHHCCCCeEEEEeCCCCCcHHHHHHHHHHHHHHHHHcCCCEEecCCCHHHHH
Confidence 445556666888777777632 3456777777766666776655444333333
No 493
>PF02633 Creatininase: Creatinine amidohydrolase; InterPro: IPR003785 This family includes the enzymes creatininase and 2-amino-5-formylamino-6-ribosylaminopyrimidin-4(3H)-one 5'-monophosphate deformylase, also known as formamide hydrolase. Creatinase or creatinine amidohydrolase (3.5.2.10 from EC) catalyses the hydrolysis of creatinine to creatine, which can then be metabolised to urea and sarcosine by creatinase (3.5.3.3 from EC). Creatininase is a member of the urease-related amidohydrolase superfamily []. Formamide hydrolase catalyzes the hydrolysis of the formamide of 2-amino-5-formylamino-6-ribosylamino-4(3H)-pyrimidinone 5'-monophosphate (FAPy) to form 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate (APy) (3.5.1.102 from EC). ; PDB: 3A6K_F 3A6F_A 3A6D_B 1J2U_B 3A6J_C 1J2T_A 3A6G_C 3A6H_F 1Q3K_E 3A6L_C ....
Probab=21.90 E-value=3e+02 Score=19.51 Aligned_cols=60 Identities=17% Similarity=0.184 Sum_probs=26.7
Q ss_pred HHHHHHhhc-ccCCCceeeccCCCCCCcccEEEecCChhHHHHHHHHHH---HhcCCcEEEEEeec
Q psy18065 26 GPHVQSICE-ALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVI---RFLNWTKVAIVYEE 87 (149)
Q Consensus 26 ~~~v~~~~~-~~~iP~is~~~~~~~~~~~~~~~~~p~~~~~~~ai~~ll---~~~~W~~v~vi~~~ 87 (149)
+..++.-++ -.-.|.+.|+.++.-..+|-.+.+.|. .+...+.+++ .+.|++++.++-..
T Consensus 46 a~~~a~~~~~~lv~P~i~yG~s~~h~~fpGTisl~~~--t~~~~l~di~~sl~~~Gf~~ivivngH 109 (237)
T PF02633_consen 46 AERAAERLGEALVLPPIPYGCSPHHMGFPGTISLSPE--TLIALLRDILRSLARHGFRRIVIVNGH 109 (237)
T ss_dssp HHHHHHHHTHEEE---B--BB-GCCTTSTT-BBB-HH--HHHHHHHHHHHHHHHHT--EEEEEESS
T ss_pred HHHHHHHCCcEEEeCCCccccCcccCCCCCeEEeCHH--HHHHHHHHHHHHHHHcCCCEEEEEECC
Confidence 344444445 555777777764432233434555543 3444555554 45799998888654
No 494
>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.
Probab=21.86 E-value=1.5e+02 Score=19.87 Aligned_cols=30 Identities=17% Similarity=0.244 Sum_probs=22.2
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
+.++.|+.++.=+.....+.+ +++|+++..
T Consensus 1 ii~itG~~gsGKst~~~~l~~-~g~~~i~~D 30 (179)
T cd02022 1 IIGLTGGIGSGKSTVAKLLKE-LGIPVIDAD 30 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHH-CCCCEEecC
Confidence 367888888777766666665 899998854
No 495
>PRK11860 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional
Probab=21.78 E-value=81 Score=26.37 Aligned_cols=32 Identities=25% Similarity=0.309 Sum_probs=28.7
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeecc
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESRL 45 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~~ 45 (149)
+.+|.||.++.-+.....++..+++|++..+.
T Consensus 444 ~i~i~g~~~~gks~~~~~l~~~~~~~~~~~~~ 475 (661)
T PRK11860 444 VICIDGPTASGKGTVAARVAEALGYHYLDSGA 475 (661)
T ss_pred eEEeeCCCCCCHHHHHHHHHHHhCCeEecHHH
Confidence 68999999999999999999999999987653
No 496
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=21.74 E-value=3.5e+02 Score=20.18 Aligned_cols=62 Identities=16% Similarity=0.183 Sum_probs=41.1
Q ss_pred cEEEEEeecCcc----hhhHHHHHhCCCCCCceEEEEecCC-CchHHHHHHHHhCCCceEEEecCch
Q psy18065 79 TKVAIVYEEDNG----LFKLQELVKTPPTLKTEMYIRHANP-STYRNVLREIRQKEIFNLIIDTSTT 140 (149)
Q Consensus 79 ~~v~vi~~~~~~----~~~l~~l~~~~~~~~~~v~~~~~~~-~d~~~~l~~i~~~~~~~iil~~~~~ 140 (149)
+++.+||.-..| ...+..+.+.+++.|.++..+.... .+..+..+++...+.+.||..+-.-
T Consensus 3 ~~~~~i~Np~sG~~~~~~~~~~~~~~l~~~g~~~~~~~t~~~g~a~~~a~~a~~~~~D~via~GGDG 69 (301)
T COG1597 3 KKALLIYNPTSGKGKAKKLLREVEELLEEAGHELSVRVTEEAGDAIEIAREAAVEGYDTVIAAGGDG 69 (301)
T ss_pred ceEEEEEcccccccchhhHHHHHHHHHHhcCCeEEEEEeecCccHHHHHHHHHhcCCCEEEEecCcc
Confidence 456677764333 3445556666666787777655543 4888999998888888888866443
No 497
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=21.59 E-value=3.2e+02 Score=19.73 Aligned_cols=58 Identities=19% Similarity=0.198 Sum_probs=36.7
Q ss_pred Eeec-CcchhhHHHHHhCCCCCCceEEEE--ecC--C---Cc----hHHHHHHHH-hCCCceEEEecCchh
Q psy18065 84 VYEE-DNGLFKLQELVKTPPTLKTEMYIR--HAN--P---ST----YRNVLREIR-QKEIFNLIIDTSTTH 141 (149)
Q Consensus 84 i~~~-~~~~~~l~~l~~~~~~~~~~v~~~--~~~--~---~d----~~~~l~~i~-~~~~~~iil~~~~~~ 141 (149)
++|. -.|+..+.++.+.+-...+-.... +++ . ++ +.+.++.+. +.+++.|++-|+...
T Consensus 3 vfDSGiGGltv~~~l~~~~p~~~~iy~~D~~~~PYG~ks~~~i~~~~~~~~~~L~~~~g~d~ivIaCNTA~ 73 (251)
T TIGR00067 3 VFDSGVGGLSVLKEIRKQLPKEHYIYVGDTKRFPYGEKSPEFILEYVLELLTFLKERHNIKLLVVACNTAS 73 (251)
T ss_pred EEeCCccHHHHHHHHHHHCCCCCEEEEecCCCCCCCCCCHHHHHHHHHHHHHHHHHhCCCCEEEEeCchHH
Confidence 3444 357788888888775554422222 232 1 12 345567788 889999999999765
No 498
>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type. E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.
Probab=21.55 E-value=1.2e+02 Score=22.92 Aligned_cols=30 Identities=10% Similarity=0.110 Sum_probs=25.8
Q ss_pred CcEEEEcCCCCCcHHHHHHhhcccCCCcee
Q psy18065 13 GVQALFGPSDALLGPHVQSICEALDVPHME 42 (149)
Q Consensus 13 ~v~aiiGp~~s~~~~~v~~~~~~~~iP~is 42 (149)
..++++|+.++.-+.-+..++..++.|++.
T Consensus 163 ~~~~~~G~~~~gkstl~~~l~~~~~~~~v~ 192 (325)
T TIGR01526 163 KTVAILGGESTGKSTLVNKLAAVFNTTSAW 192 (325)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhhCCCEEe
Confidence 468999999999988889999999998743
No 499
>PRK00081 coaE dephospho-CoA kinase; Reviewed
Probab=21.48 E-value=1.4e+02 Score=20.47 Aligned_cols=30 Identities=17% Similarity=0.218 Sum_probs=22.4
Q ss_pred cEEEEcCCCCCcHHHHHHhhcccCCCceeec
Q psy18065 14 VQALFGPSDALLGPHVQSICEALDVPHMESR 44 (149)
Q Consensus 14 v~aiiGp~~s~~~~~v~~~~~~~~iP~is~~ 44 (149)
++++.|+.++.=+.....+.+ +++|++...
T Consensus 4 ~i~ltG~~gsGKst~~~~l~~-~g~~~i~~D 33 (194)
T PRK00081 4 IIGLTGGIGSGKSTVANLFAE-LGAPVIDAD 33 (194)
T ss_pred EEEEECCCCCCHHHHHHHHHH-cCCEEEEec
Confidence 688999998887755555555 899988753
No 500
>PF10138 vWA-TerF-like: vWA found in TerF C terminus ; InterPro: IPR019303 This entry represents the N-terminal domain of a family of proteins that confer resistance to the metalloid element tellurium and its salts.
Probab=21.47 E-value=3e+02 Score=19.39 Aligned_cols=64 Identities=9% Similarity=0.100 Sum_probs=38.0
Q ss_pred hHHHHHHHHHHHhcCCcE-------EEEEeecC-cchhhHHHHHhCCCCCCceEEEEecCCCchHHHHHHHHh
Q psy18065 63 KLLNAAFKDVIRFLNWTK-------VAIVYEED-NGLFKLQELVKTPPTLKTEMYIRHANPSTYRNVLREIRQ 127 (149)
Q Consensus 63 ~~~~~ai~~ll~~~~W~~-------v~vi~~~~-~~~~~l~~l~~~~~~~~~~v~~~~~~~~d~~~~l~~i~~ 127 (149)
+.+..++-+++.+|.++. |.++.+++ .......+++...+...+=..+..+...+ ...|+++.+
T Consensus 83 t~y~~vm~~v~~~y~~~~~~~~P~~VlFiTDG~~~~~~~~~~~i~~as~~pifwqFVgiG~~~-f~fL~kLD~ 154 (200)
T PF10138_consen 83 TNYAPVMEDVLDHYFKREPSDAPALVLFITDGGPDDRRAIEKLIREASDEPIFWQFVGIGDSN-FGFLEKLDD 154 (200)
T ss_pred cchHHHHHHHHHHHhhcCCCCCCeEEEEEecCCccchHHHHHHHHhccCCCeeEEEEEecCCc-chHHHHhhc
Confidence 567889999998887542 22333433 34455667776665554444444554444 566666665
Done!