Query psy12591
Match_columns 144
No_of_seqs 151 out of 1365
Neff 8.6
Searched_HMMs 46136
Date Fri Aug 16 23:13:45 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12591.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12591hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06375 PBP1_mGluR_groupII Lig 99.9 2.1E-23 4.5E-28 168.7 12.3 138 1-141 133-294 (458)
2 cd06365 PBP1_Pheromone_recepto 99.9 1.6E-23 3.5E-28 169.8 10.9 137 1-139 131-292 (469)
3 cd06361 PBP1_GPC6A_like Ligand 99.9 3.8E-23 8.2E-28 164.9 12.0 137 1-138 131-294 (403)
4 KOG1056|consensus 99.9 2.5E-22 5.4E-27 169.2 11.1 138 1-141 153-316 (878)
5 cd06364 PBP1_CaSR Ligand-bindi 99.9 1.6E-21 3.4E-26 159.7 14.2 108 1-112 146-253 (510)
6 cd06374 PBP1_mGluR_groupI Liga 99.9 7.8E-21 1.7E-25 154.1 13.5 108 1-111 145-253 (472)
7 cd06379 PBP1_iGluR_NMDA_NR1 N- 99.8 3.3E-20 7.1E-25 146.2 12.5 127 1-138 113-243 (377)
8 cd06362 PBP1_mGluR Ligand bind 99.8 4.6E-20 1E-24 148.5 13.3 108 1-111 131-238 (452)
9 cd06376 PBP1_mGluR_groupIII Li 99.8 8.6E-20 1.9E-24 147.6 12.9 108 1-111 131-239 (463)
10 cd06367 PBP1_iGluR_NMDA N-term 99.8 2.1E-19 4.6E-24 140.7 11.6 128 1-138 94-224 (362)
11 cd06350 PBP1_GPCR_family_C_lik 99.8 2.2E-18 4.7E-23 133.7 12.8 108 1-112 119-226 (348)
12 cd06371 PBP1_sensory_GC_DEF_li 99.8 5.4E-18 1.2E-22 134.2 12.9 128 1-136 94-221 (382)
13 cd06363 PBP1_Taste_receptor Li 99.8 8E-18 1.7E-22 134.2 13.6 108 1-111 135-242 (410)
14 cd06386 PBP1_NPR_C_like Ligand 99.8 4.8E-18 1E-22 134.7 11.6 105 1-112 95-203 (387)
15 cd06366 PBP1_GABAb_receptor Li 99.8 2.3E-17 5.1E-22 128.4 13.2 108 1-112 94-201 (350)
16 cd06370 PBP1_Speract_GC_like L 99.7 7.6E-17 1.6E-21 128.4 11.9 109 1-111 95-205 (404)
17 cd06269 PBP1_glutamate_recepto 99.7 1.5E-16 3.3E-21 119.3 12.6 106 1-112 99-204 (298)
18 cd06385 PBP1_NPR_A Ligand-bind 99.7 1.2E-16 2.6E-21 127.1 11.7 105 1-112 102-211 (405)
19 cd06378 PBP1_iGluR_NMDA_NR2 N- 99.7 2.5E-16 5.4E-21 124.2 11.8 123 8-138 101-223 (362)
20 PF01094 ANF_receptor: Recepto 99.7 4.1E-16 8.9E-21 120.1 10.8 108 1-112 79-188 (348)
21 cd06373 PBP1_NPR_like Ligand b 99.7 7.8E-16 1.7E-20 122.0 11.4 106 1-112 101-210 (396)
22 cd06384 PBP1_NPR_B Ligand-bind 99.7 1.1E-15 2.3E-20 121.5 11.3 127 1-139 101-233 (399)
23 cd06346 PBP1_ABC_ligand_bindin 99.7 2.1E-15 4.5E-20 116.0 12.5 105 1-111 96-200 (312)
24 cd06352 PBP1_NPR_GC_like Ligan 99.6 3.6E-15 7.8E-20 117.6 12.1 106 1-111 96-202 (389)
25 cd06372 PBP1_GC_G_like Ligand- 99.6 1.5E-14 3.2E-19 114.5 11.9 105 1-112 96-205 (391)
26 cd06338 PBP1_ABC_ligand_bindin 99.6 5.1E-14 1.1E-18 109.2 11.2 104 1-111 99-204 (345)
27 cd06345 PBP1_ABC_ligand_bindin 99.5 2.2E-13 4.7E-18 106.0 12.3 105 2-112 96-208 (344)
28 cd06393 PBP1_iGluR_Kainate_Glu 99.5 2.3E-13 5E-18 107.7 12.0 102 1-112 100-201 (384)
29 cd06342 PBP1_ABC_LIVBP_like Ty 99.5 6.3E-13 1.4E-17 102.4 11.5 103 2-111 95-198 (334)
30 cd06343 PBP1_ABC_ligand_bindin 99.5 6.5E-13 1.4E-17 103.9 11.0 104 2-111 103-207 (362)
31 cd06380 PBP1_iGluR_AMPA N-term 99.5 1.4E-12 3E-17 102.9 12.6 101 1-112 90-192 (382)
32 cd06340 PBP1_ABC_ligand_bindin 99.4 6E-13 1.3E-17 103.8 9.8 103 2-111 99-207 (347)
33 cd06336 PBP1_ABC_ligand_bindin 99.4 1.1E-12 2.3E-17 102.4 11.1 103 2-111 99-201 (347)
34 cd06382 PBP1_iGluR_Kainate N-t 99.4 1.3E-12 2.9E-17 100.9 11.2 116 1-136 91-209 (327)
35 cd06390 PBP1_iGluR_AMPA_GluR1 99.4 2.7E-12 5.8E-17 101.4 11.9 87 16-112 94-180 (364)
36 cd06329 PBP1_SBP_like_3 Peripl 99.4 2.1E-12 4.6E-17 100.5 10.6 104 2-111 102-209 (342)
37 cd06335 PBP1_ABC_ligand_bindin 99.4 5.4E-12 1.2E-16 98.5 12.5 104 2-111 96-201 (347)
38 cd06334 PBP1_ABC_ligand_bindin 99.4 3.1E-12 6.7E-17 100.4 11.0 104 2-111 95-203 (351)
39 cd06368 PBP1_iGluR_non_NMDA_li 99.4 3.6E-12 7.9E-17 98.1 11.2 118 1-135 90-207 (324)
40 PRK15404 leucine ABC transport 99.4 2.7E-12 5.8E-17 101.3 10.1 103 1-110 120-223 (369)
41 cd06383 PBP1_iGluR_AMPA_Like N 99.4 6.7E-12 1.5E-16 99.3 12.4 108 15-138 106-215 (368)
42 cd04509 PBP1_ABC_transporter_G 99.4 8.4E-12 1.8E-16 93.4 12.3 105 2-112 96-200 (299)
43 cd06349 PBP1_ABC_ligand_bindin 99.4 7.2E-12 1.6E-16 97.2 12.1 102 2-111 96-198 (340)
44 cd06351 PBP1_iGluR_N_LIVBP_lik 99.4 7.6E-12 1.6E-16 95.8 12.0 125 2-139 92-217 (328)
45 cd06327 PBP1_SBP_like_1 Peripl 99.4 4E-12 8.7E-17 98.5 10.5 105 2-112 95-199 (334)
46 cd06360 PBP1_alkylbenzenes_lik 99.4 1.2E-11 2.5E-16 95.5 12.1 104 2-111 94-197 (336)
47 cd06344 PBP1_ABC_ligand_bindin 99.4 7.5E-12 1.6E-16 97.0 10.6 103 1-111 94-199 (332)
48 COG0683 LivK ABC-type branched 99.3 1.5E-11 3.3E-16 97.0 11.0 104 1-110 106-210 (366)
49 cd06347 PBP1_ABC_ligand_bindin 99.3 3.5E-11 7.6E-16 92.6 12.1 102 2-111 96-199 (334)
50 cd06328 PBP1_SBP_like_2 Peripl 99.3 2.4E-11 5.3E-16 94.3 11.2 102 2-110 97-198 (333)
51 cd06330 PBP1_Arsenic_SBP_like 99.3 1.7E-11 3.7E-16 95.2 10.2 105 2-112 96-204 (346)
52 KOG1055|consensus 99.3 7.2E-13 1.6E-17 110.6 1.8 102 1-111 140-241 (865)
53 cd06391 PBP1_iGluR_delta_2 N-t 99.3 4.4E-11 9.5E-16 95.7 11.9 95 13-112 112-208 (400)
54 cd06348 PBP1_ABC_ligand_bindin 99.3 5.3E-11 1.2E-15 92.5 11.8 102 2-111 96-200 (344)
55 cd06389 PBP1_iGluR_AMPA_GluR2 99.2 1.5E-10 3.4E-15 91.5 11.2 90 15-112 94-185 (370)
56 cd06359 PBP1_Nba_like Type I p 99.2 3.7E-10 8E-15 87.5 10.4 101 2-111 94-194 (333)
57 cd06332 PBP1_aromatic_compound 99.1 9.3E-10 2E-14 84.6 11.8 101 2-111 94-194 (333)
58 cd06268 PBP1_ABC_transporter_L 99.1 1.3E-09 2.8E-14 81.5 12.1 103 3-112 96-199 (298)
59 TIGR03863 PQQ_ABC_bind ABC tra 99.1 2.5E-10 5.4E-15 89.8 8.5 107 2-110 88-194 (347)
60 cd06339 PBP1_YraM_LppC_lipopro 99.1 6.4E-10 1.4E-14 86.7 10.7 81 16-102 98-178 (336)
61 cd06333 PBP1_ABC-type_HAAT_lik 99.1 1.5E-09 3.3E-14 83.1 12.1 91 15-111 106-196 (312)
62 cd06355 PBP1_FmdD_like Peripla 99.1 1.3E-09 2.9E-14 85.2 11.6 91 15-111 105-196 (348)
63 cd06331 PBP1_AmiC_like Type I 99.1 1.2E-09 2.5E-14 84.7 10.6 91 15-111 105-195 (333)
64 cd06326 PBP1_STKc_like Type I 99.1 1.9E-09 4.1E-14 83.2 11.1 91 15-111 109-199 (336)
65 cd06394 PBP1_iGluR_Kainate_KA1 99.1 1.3E-09 2.9E-14 85.2 9.8 84 20-112 112-195 (333)
66 cd06358 PBP1_NHase Type I peri 99.0 3.4E-09 7.3E-14 82.1 11.4 90 15-110 104-194 (333)
67 TIGR03407 urea_ABC_UrtA urea A 99.0 2.6E-09 5.7E-14 83.9 10.4 90 15-110 106-196 (359)
68 KOG4440|consensus 99.0 9.4E-10 2E-14 90.5 7.5 103 4-112 131-233 (993)
69 TIGR03669 urea_ABC_arch urea A 99.0 6.1E-09 1.3E-13 82.6 11.0 89 16-111 107-196 (374)
70 cd06337 PBP1_ABC_ligand_bindin 99.0 5.3E-09 1.1E-13 82.0 10.3 91 15-111 117-211 (357)
71 cd06388 PBP1_iGluR_AMPA_GluR4 99.0 8E-09 1.7E-13 81.9 11.4 86 18-111 101-186 (371)
72 cd06356 PBP1_Amide_Urea_BP_lik 99.0 5.7E-09 1.2E-13 81.1 10.1 90 16-111 106-195 (334)
73 PF13458 Peripla_BP_6: Peripla 99.0 6.7E-09 1.5E-13 80.2 10.2 92 14-111 106-198 (343)
74 cd06387 PBP1_iGluR_AMPA_GluR3 98.9 2.7E-08 5.9E-13 79.0 11.5 89 15-112 100-188 (372)
75 cd06392 PBP1_iGluR_delta_1 N-t 98.8 7.5E-08 1.6E-12 77.2 10.8 91 15-112 114-208 (400)
76 cd06341 PBP1_ABC_ligand_bindin 98.7 2.2E-07 4.8E-12 72.0 10.1 90 16-111 106-196 (341)
77 cd06357 PBP1_AmiC Periplasmic 98.6 6.1E-07 1.3E-11 70.5 11.9 91 17-111 107-197 (360)
78 cd06381 PBP1_iGluR_delta_like 98.6 9.1E-07 2E-11 70.1 11.3 57 15-75 114-170 (363)
79 cd06377 PBP1_iGluR_NMDA_NR3 N- 98.5 1.5E-06 3.3E-11 69.2 10.8 91 18-112 127-220 (382)
80 cd01391 Periplasmic_Binding_Pr 98.5 2.1E-06 4.5E-11 62.5 10.9 93 15-111 97-190 (269)
81 PF13433 Peripla_BP_5: Peripla 98.1 3.4E-05 7.3E-10 61.0 9.0 103 16-126 107-210 (363)
82 KOG1053|consensus 97.8 0.00047 1E-08 59.7 11.6 124 7-140 138-263 (1258)
83 cd06369 PBP1_GC_C_enterotoxin_ 97.4 0.00049 1.1E-08 54.7 6.6 88 16-112 121-217 (380)
84 KOG1054|consensus 97.0 0.012 2.7E-07 49.3 11.0 90 14-111 126-215 (897)
85 TIGR02990 ectoine_eutA ectoine 96.6 0.061 1.3E-06 40.4 10.8 97 26-131 104-204 (239)
86 PF04348 LppC: LppC putative l 95.1 0.085 1.8E-06 44.2 7.0 88 17-111 320-407 (536)
87 cd01537 PBP1_Repressors_Sugar_ 95.1 0.15 3.1E-06 37.1 7.6 89 17-110 93-185 (264)
88 cd01536 PBP1_ABC_sugar_binding 94.9 0.63 1.4E-05 34.0 10.4 89 18-111 95-189 (267)
89 PRK09860 putative alcohol dehy 94.7 0.19 4.2E-06 40.2 7.8 78 31-112 20-97 (383)
90 cd08192 Fe-ADH7 Iron-containin 94.4 0.28 6E-06 39.0 8.0 78 31-112 13-90 (370)
91 COG1454 EutG Alcohol dehydroge 94.4 0.43 9.4E-06 38.3 9.0 78 31-112 18-95 (377)
92 cd08190 HOT Hydroxyacid-oxoaci 94.1 0.41 9E-06 38.7 8.5 78 31-112 12-89 (414)
93 cd08551 Fe-ADH iron-containing 94.1 0.4 8.6E-06 38.0 8.2 78 31-112 12-89 (370)
94 PRK15454 ethanol dehydrogenase 94.0 0.33 7.2E-06 39.1 7.6 78 31-112 38-115 (395)
95 PRK10624 L-1,2-propanediol oxi 93.9 0.4 8.7E-06 38.3 8.0 78 31-112 19-96 (382)
96 cd06325 PBP1_ABC_uncharacteriz 93.7 0.95 2.1E-05 33.6 9.2 77 25-110 112-191 (281)
97 cd08193 HVD 5-hydroxyvalerate 93.7 0.54 1.2E-05 37.5 8.3 78 31-112 15-92 (376)
98 PF00465 Fe-ADH: Iron-containi 93.5 0.47 1E-05 37.6 7.6 76 31-112 12-87 (366)
99 cd08189 Fe-ADH5 Iron-containin 93.4 0.68 1.5E-05 36.9 8.4 78 31-112 15-92 (374)
100 cd06267 PBP1_LacI_sugar_bindin 93.3 0.73 1.6E-05 33.4 8.0 90 18-110 92-184 (264)
101 cd08194 Fe-ADH6 Iron-containin 93.1 0.69 1.5E-05 36.9 8.1 77 32-112 13-89 (375)
102 cd06282 PBP1_GntR_like_2 Ligan 92.9 0.82 1.8E-05 33.5 7.8 82 24-110 98-183 (266)
103 cd08185 Fe-ADH1 Iron-containin 92.7 0.97 2.1E-05 36.1 8.3 77 31-112 15-92 (380)
104 TIGR02638 lactal_redase lactal 92.6 0.88 1.9E-05 36.3 8.1 78 31-112 18-95 (379)
105 cd08188 Fe-ADH4 Iron-containin 92.1 1.3 2.7E-05 35.4 8.4 78 31-112 17-94 (377)
106 KOG3857|consensus 92.0 1.8 3.9E-05 34.6 8.7 94 14-111 38-135 (465)
107 cd08176 LPO Lactadehyde:propan 91.2 1.2 2.6E-05 35.5 7.4 78 31-112 17-94 (377)
108 cd08191 HHD 6-hydroxyhexanoate 91.1 2 4.4E-05 34.4 8.6 76 32-112 13-88 (386)
109 cd06300 PBP1_ABC_sugar_binding 91.0 3.8 8.2E-05 30.2 9.5 89 17-110 98-192 (272)
110 cd08181 PPD-like 1,3-propanedi 90.9 2 4.2E-05 34.1 8.3 76 32-112 16-92 (357)
111 cd08182 HEPD Hydroxyethylphosp 90.8 2 4.3E-05 34.1 8.3 74 32-112 13-86 (367)
112 cd08170 GlyDH Glycerol dehydro 90.3 2.1 4.6E-05 33.7 8.0 73 32-111 13-85 (351)
113 cd08187 BDH Butanol dehydrogen 90.1 1.9 4.2E-05 34.4 7.6 77 31-112 18-95 (382)
114 cd08171 GlyDH-like2 Glycerol d 89.4 2.9 6.3E-05 32.9 8.0 74 32-111 13-86 (345)
115 PF13685 Fe-ADH_2: Iron-contai 89.1 2.3 5E-05 32.2 7.0 76 32-112 9-84 (250)
116 cd07766 DHQ_Fe-ADH Dehydroquin 88.8 4.1 8.9E-05 31.7 8.5 75 32-112 13-87 (332)
117 cd08186 Fe-ADH8 Iron-containin 88.7 3.5 7.6E-05 33.0 8.2 77 32-112 13-93 (383)
118 cd06273 PBP1_GntR_like_1 This 88.4 4.4 9.5E-05 29.7 8.1 84 24-110 98-185 (268)
119 PRK09423 gldA glycerol dehydro 87.4 4.9 0.00011 31.9 8.2 74 31-111 19-92 (366)
120 cd08550 GlyDH-like Glycerol_de 87.0 4.6 0.0001 31.8 7.8 74 31-111 12-85 (349)
121 cd08183 Fe-ADH2 Iron-containin 85.3 8 0.00017 30.8 8.5 72 32-112 13-84 (374)
122 TIGR02667 moaB_proteo molybden 85.0 11 0.00023 26.5 8.2 66 41-111 3-71 (163)
123 cd06320 PBP1_allose_binding Pe 84.8 12 0.00026 27.6 8.8 84 22-110 100-189 (275)
124 cd03364 TOPRIM_DnaG_primases T 84.5 5.1 0.00011 24.3 5.7 42 32-74 34-75 (79)
125 cd08179 NADPH_BDH NADPH-depend 84.4 4 8.8E-05 32.5 6.4 71 38-112 19-90 (375)
126 cd06323 PBP1_ribose_binding Pe 84.3 14 0.0003 26.9 9.7 55 20-74 96-156 (268)
127 cd08178 AAD_C C-terminal alcoh 84.0 5 0.00011 32.3 6.8 70 39-112 18-87 (398)
128 cd06278 PBP1_LacI_like_2 Ligan 82.5 11 0.00024 27.4 7.8 54 20-73 93-148 (266)
129 COG2984 ABC-type uncharacteriz 82.5 18 0.00039 28.5 9.0 80 22-110 137-219 (322)
130 cd06353 PBP1_BmpA_Med_like Per 82.3 8.6 0.00019 28.9 7.2 60 44-110 1-64 (258)
131 cd08175 G1PDH Glycerol-1-phosp 82.0 11 0.00024 29.6 8.0 76 32-111 13-88 (348)
132 TIGR01481 ccpA catabolite cont 81.8 15 0.00031 28.0 8.4 82 25-110 159-243 (329)
133 cd06301 PBP1_rhizopine_binding 81.7 6.5 0.00014 28.9 6.3 22 53-74 12-34 (272)
134 cd08180 PDD 1,3-propanediol de 81.4 6.3 0.00014 30.8 6.3 73 35-112 15-87 (332)
135 cd00886 MogA_MoaB MogA_MoaB fa 81.3 15 0.00032 25.4 7.6 63 44-111 2-69 (152)
136 PF13407 Peripla_BP_4: Peripla 80.9 6.4 0.00014 28.8 6.0 22 54-75 12-33 (257)
137 cd06310 PBP1_ABC_sugar_binding 80.7 6.8 0.00015 28.8 6.1 14 31-44 19-32 (273)
138 PF13607 Succ_CoA_lig: Succiny 80.7 11 0.00023 25.9 6.6 38 31-68 15-52 (138)
139 cd06284 PBP1_LacI_like_6 Ligan 80.4 17 0.00036 26.5 8.1 51 22-72 95-147 (267)
140 cd06298 PBP1_CcpA_like Ligand- 79.5 19 0.00041 26.2 8.2 51 23-73 97-150 (268)
141 PF03808 Glyco_tran_WecB: Glyc 79.3 14 0.0003 26.1 7.1 73 29-112 36-110 (172)
142 PF13362 Toprim_3: Toprim doma 79.0 13 0.00027 23.4 6.2 52 40-97 39-92 (96)
143 cd08177 MAR Maleylacetate redu 79.0 11 0.00025 29.5 7.1 75 31-112 12-86 (337)
144 cd08549 G1PDH_related Glycerol 78.6 21 0.00045 28.0 8.4 75 32-112 13-89 (332)
145 PF04392 ABC_sub_bind: ABC tra 78.6 23 0.00049 27.0 8.5 76 26-110 113-191 (294)
146 cd01537 PBP1_Repressors_Sugar_ 78.4 9.7 0.00021 27.3 6.2 13 31-43 19-31 (264)
147 PF01297 TroA: Periplasmic sol 78.1 15 0.00032 27.4 7.3 64 35-108 162-227 (256)
148 cd06304 PBP1_BmpA_like Peripla 77.9 11 0.00023 27.9 6.4 9 34-42 24-32 (260)
149 cd06303 PBP1_LuxPQ_Quorum_Sens 77.8 8.7 0.00019 28.6 5.9 14 32-45 21-34 (280)
150 PF00532 Peripla_BP_1: Peripla 77.6 28 0.00061 26.3 9.0 81 26-110 102-187 (279)
151 cd06295 PBP1_CelR Ligand bindi 77.2 20 0.00043 26.4 7.7 52 22-73 105-158 (275)
152 cd06305 PBP1_methylthioribose_ 76.9 14 0.0003 27.1 6.8 13 31-43 19-31 (273)
153 PF02608 Bmp: Basic membrane p 75.4 15 0.00032 28.4 6.7 62 44-111 3-69 (306)
154 cd06277 PBP1_LacI_like_1 Ligan 75.2 24 0.00053 25.8 7.7 17 29-45 20-36 (268)
155 cd08173 Gro1PDH Sn-glycerol-1- 75.1 30 0.00066 27.1 8.5 72 33-112 15-87 (339)
156 cd06320 PBP1_allose_binding Pe 74.4 15 0.00031 27.1 6.3 14 31-44 19-32 (275)
157 PRK00002 aroB 3-dehydroquinate 74.1 31 0.00068 27.3 8.4 78 32-111 21-100 (358)
158 cd06296 PBP1_CatR_like Ligand- 74.1 20 0.00042 26.2 6.9 14 30-43 18-31 (270)
159 TIGR00177 molyb_syn molybdenum 74.0 24 0.00051 24.1 6.8 45 59-110 29-73 (144)
160 PRK10936 TMAO reductase system 74.0 18 0.00039 28.1 7.0 34 43-76 47-82 (343)
161 cd08197 DOIS 2-deoxy-scyllo-in 73.9 37 0.00081 27.0 8.8 76 33-111 14-92 (355)
162 cd06306 PBP1_TorT-like TorT-li 73.4 14 0.0003 27.3 6.0 13 31-43 19-31 (268)
163 cd01018 ZntC Metal binding pro 73.3 14 0.00031 27.8 6.1 43 36-78 183-225 (266)
164 cd06312 PBP1_ABC_sugar_binding 73.2 15 0.00032 27.1 6.1 13 31-43 20-32 (271)
165 PRK10014 DNA-binding transcrip 73.1 34 0.00074 26.1 8.3 50 24-73 164-215 (342)
166 cd01545 PBP1_SalR Ligand-bindi 73.0 27 0.00059 25.4 7.5 49 25-73 101-151 (270)
167 cd01536 PBP1_ABC_sugar_binding 72.6 19 0.00041 26.0 6.5 9 35-43 23-31 (267)
168 cd00758 MoCF_BD MoCF_BD: molyb 72.4 26 0.00057 23.5 6.8 46 59-111 21-66 (133)
169 cd01545 PBP1_SalR Ligand-bindi 72.3 29 0.00062 25.3 7.5 14 31-44 19-32 (270)
170 cd08184 Fe-ADH3 Iron-containin 72.3 29 0.00063 27.5 7.8 73 31-111 12-89 (347)
171 PF13377 Peripla_BP_3: Peripla 72.2 19 0.00041 24.1 6.0 71 35-110 2-75 (160)
172 cd06273 PBP1_GntR_like_1 This 72.0 26 0.00056 25.5 7.2 13 31-43 19-31 (268)
173 PF13155 Toprim_2: Toprim-like 71.9 20 0.00043 22.3 5.7 45 26-70 31-75 (96)
174 cd06299 PBP1_LacI_like_13 Liga 71.9 28 0.0006 25.3 7.3 17 29-45 17-33 (265)
175 PRK09401 reverse gyrase; Revie 71.7 31 0.00067 32.1 8.7 79 31-123 318-398 (1176)
176 cd06354 PBP1_BmpA_PnrA_like Pe 71.7 18 0.0004 26.8 6.3 13 31-43 22-34 (265)
177 cd01137 PsaA Metal binding pro 71.4 18 0.00039 27.7 6.3 44 36-79 190-235 (287)
178 PRK00843 egsA NAD(P)-dependent 71.2 40 0.00086 26.6 8.4 73 32-112 23-96 (350)
179 COG1794 RacX Aspartate racemas 71.0 31 0.00067 25.9 7.1 83 27-113 102-198 (230)
180 cd06312 PBP1_ABC_sugar_binding 70.8 39 0.00085 24.8 10.2 56 18-73 100-158 (271)
181 cd06286 PBP1_CcpB_like Ligand- 70.0 30 0.00066 25.1 7.1 12 33-44 21-32 (260)
182 cd06271 PBP1_AglR_RafR_like Li 69.8 30 0.00064 25.1 7.1 13 31-43 23-35 (268)
183 cd06292 PBP1_LacI_like_10 Liga 69.4 31 0.00068 25.2 7.1 16 29-44 17-32 (273)
184 cd00885 cinA Competence-damage 69.2 37 0.00081 24.0 7.1 47 58-111 20-66 (170)
185 cd06288 PBP1_sucrose_transcrip 69.0 38 0.00082 24.6 7.5 52 21-72 95-148 (269)
186 PF06057 VirJ: Bacterial virul 69.0 22 0.00047 26.0 5.9 67 44-110 3-73 (192)
187 cd06286 PBP1_CcpB_like Ligand- 68.8 38 0.00083 24.5 7.4 52 22-73 94-147 (260)
188 PF13662 Toprim_4: Toprim doma 68.7 23 0.00051 21.4 6.0 33 42-74 46-78 (81)
189 cd06319 PBP1_ABC_sugar_binding 68.3 44 0.00096 24.4 9.2 51 24-74 101-159 (277)
190 cd01542 PBP1_TreR_like Ligand- 68.2 38 0.00081 24.5 7.3 15 29-43 17-31 (259)
191 cd01538 PBP1_ABC_xylose_bindin 67.7 27 0.00058 26.1 6.5 12 32-43 20-31 (288)
192 cd01017 AdcA Metal binding pro 67.6 23 0.00049 27.0 6.1 45 35-79 183-229 (282)
193 TIGR00035 asp_race aspartate r 67.3 41 0.00089 24.8 7.3 80 30-113 105-197 (229)
194 cd06533 Glyco_transf_WecG_TagA 67.3 41 0.00089 23.7 8.1 74 29-111 34-107 (171)
195 cd06318 PBP1_ABC_sugar_binding 66.8 28 0.00061 25.6 6.5 15 29-43 17-31 (282)
196 KOG0025|consensus 66.6 14 0.00031 29.0 4.7 54 18-77 163-216 (354)
197 cd06300 PBP1_ABC_sugar_binding 66.3 30 0.00066 25.3 6.5 18 91-109 74-91 (272)
198 PRK15408 autoinducer 2-binding 66.2 30 0.00065 27.1 6.7 33 43-75 24-58 (336)
199 COG1058 CinA Predicted nucleot 66.1 24 0.00051 26.9 5.8 61 44-111 3-68 (255)
200 cd06267 PBP1_LacI_sugar_bindin 65.7 36 0.00079 24.3 6.8 15 31-45 19-33 (264)
201 cd06274 PBP1_FruR Ligand bindi 65.5 39 0.00084 24.6 6.9 12 32-43 20-31 (264)
202 PF00532 Peripla_BP_1: Peripla 65.4 24 0.00053 26.7 5.9 31 44-74 3-35 (279)
203 PRK10355 xylF D-xylose transpo 65.3 35 0.00077 26.4 6.9 61 43-110 26-88 (330)
204 cd06290 PBP1_LacI_like_9 Ligan 65.2 41 0.00088 24.5 7.0 15 30-44 18-32 (265)
205 cd06317 PBP1_ABC_sugar_binding 65.2 51 0.0011 24.0 9.0 45 27-71 108-156 (275)
206 cd06316 PBP1_ABC_sugar_binding 65.2 26 0.00057 26.2 6.1 17 29-45 17-33 (294)
207 cd06275 PBP1_PurR Ligand-bindi 64.9 41 0.00089 24.5 7.0 14 31-44 19-32 (269)
208 cd01575 PBP1_GntR Ligand-bindi 64.9 51 0.0011 23.9 9.1 50 23-72 97-148 (268)
209 PF13676 TIR_2: TIR domain; PD 64.7 7.9 0.00017 24.3 2.7 23 57-79 11-33 (102)
210 cd06302 PBP1_LsrB_Quorum_Sensi 64.5 32 0.00069 25.9 6.4 14 31-44 19-32 (298)
211 cd01574 PBP1_LacI Ligand-bindi 63.7 53 0.0011 23.8 7.4 17 28-44 16-32 (264)
212 cd06280 PBP1_LacI_like_4 Ligan 63.4 49 0.0011 24.1 7.1 20 54-73 13-32 (263)
213 cd06270 PBP1_GalS_like Ligand 63.2 55 0.0012 23.9 7.4 17 29-45 17-33 (268)
214 cd06293 PBP1_LacI_like_11 Liga 63.2 47 0.001 24.2 7.0 15 30-44 18-32 (269)
215 cd06307 PBP1_uncharacterized_s 63.0 30 0.00066 25.4 6.0 18 31-48 19-36 (275)
216 cd03522 MoeA_like MoeA_like. T 63.0 73 0.0016 25.0 10.3 87 20-112 127-228 (312)
217 PRK09492 treR trehalose repres 62.7 64 0.0014 24.3 8.7 53 22-74 155-210 (315)
218 cd06271 PBP1_AglR_RafR_like Li 62.5 56 0.0012 23.6 7.9 50 24-73 102-153 (268)
219 PRK09701 D-allose transporter 62.4 67 0.0015 24.4 9.0 66 40-110 22-89 (311)
220 PF02502 LacAB_rpiB: Ribose/Ga 62.3 49 0.0011 22.8 7.2 63 49-113 4-67 (140)
221 cd06289 PBP1_MalI_like Ligand- 62.0 46 0.001 24.1 6.8 15 30-44 18-32 (268)
222 PRK10401 DNA-binding transcrip 61.7 65 0.0014 24.7 7.8 49 25-73 159-209 (346)
223 PF02602 HEM4: Uroporphyrinoge 61.5 48 0.001 23.9 6.7 78 23-110 97-175 (231)
224 cd06281 PBP1_LacI_like_5 Ligan 61.5 55 0.0012 23.9 7.1 17 27-43 15-31 (269)
225 PRK01215 competence damage-ind 61.4 56 0.0012 24.9 7.2 61 44-111 5-70 (264)
226 cd01540 PBP1_arabinose_binding 61.3 32 0.0007 25.4 5.9 15 29-43 17-31 (289)
227 cd06294 PBP1_ycjW_transcriptio 61.3 60 0.0013 23.5 7.9 48 24-71 104-153 (270)
228 cd01019 ZnuA Zinc binding prot 61.1 51 0.0011 25.2 7.0 46 34-79 190-237 (286)
229 COG3473 Maleate cis-trans isom 60.9 68 0.0015 24.0 10.8 83 31-117 107-193 (238)
230 TIGR00646 MG010 DNA primase-re 60.9 61 0.0013 24.2 7.0 63 28-96 140-202 (218)
231 cd01575 PBP1_GntR Ligand-bindi 60.8 51 0.0011 23.8 6.8 14 31-44 19-32 (268)
232 cd06285 PBP1_LacI_like_7 Ligan 60.7 55 0.0012 23.8 7.0 13 31-43 19-31 (265)
233 cd06322 PBP1_ABC_sugar_binding 60.7 44 0.00095 24.3 6.5 14 31-44 19-32 (267)
234 PRK09189 uroporphyrinogen-III 60.7 51 0.0011 24.2 6.8 75 27-110 101-177 (240)
235 cd01016 TroA Metal binding pro 60.6 49 0.0011 25.2 6.8 46 34-79 172-219 (276)
236 PF00994 MoCF_biosynth: Probab 60.3 46 0.00099 22.5 6.0 48 57-111 17-64 (144)
237 TIGR02955 TMAO_TorT TMAO reduc 59.9 41 0.00089 25.3 6.3 11 33-43 21-31 (295)
238 cd06314 PBP1_tmGBP Periplasmic 59.6 45 0.00098 24.4 6.4 17 29-45 16-32 (271)
239 cd06291 PBP1_Qymf_like Ligand 59.6 65 0.0014 23.4 8.3 50 24-73 94-146 (265)
240 cd06285 PBP1_LacI_like_7 Ligan 59.4 66 0.0014 23.4 7.5 49 25-73 97-147 (265)
241 cd06284 PBP1_LacI_like_6 Ligan 59.2 56 0.0012 23.6 6.8 16 29-44 17-32 (267)
242 COG2607 Predicted ATPase (AAA+ 59.2 81 0.0017 24.3 8.3 100 34-141 77-176 (287)
243 PF08901 DUF1847: Protein of u 59.2 26 0.00057 24.7 4.6 46 30-77 43-88 (157)
244 COG0021 TktA Transketolase [Ca 59.1 86 0.0019 27.3 8.4 76 30-111 165-247 (663)
245 PF10566 Glyco_hydro_97: Glyco 58.9 82 0.0018 24.3 8.0 80 24-107 28-123 (273)
246 cd06298 PBP1_CcpA_like Ligand- 58.8 55 0.0012 23.7 6.7 14 31-44 19-32 (268)
247 PRK10653 D-ribose transporter 58.6 45 0.00097 25.0 6.3 10 35-44 50-59 (295)
248 cd01541 PBP1_AraR Ligand-bindi 58.6 67 0.0014 23.5 7.2 14 31-44 19-32 (273)
249 cd06283 PBP1_RegR_EndR_KdgR_li 58.5 60 0.0013 23.4 6.9 14 31-44 19-32 (267)
250 PF09651 Cas_APE2256: CRISPR-a 58.4 56 0.0012 22.2 9.0 97 31-136 8-119 (136)
251 PRK09526 lacI lac repressor; R 58.3 81 0.0017 24.0 9.6 51 23-73 162-214 (342)
252 cd01539 PBP1_GGBP Periplasmic 58.2 54 0.0012 24.8 6.7 18 91-109 71-88 (303)
253 TIGR01054 rgy reverse gyrase. 58.1 57 0.0012 30.4 7.7 80 31-123 316-397 (1171)
254 TIGR02133 RPI_actino ribose 5- 58.1 61 0.0013 22.6 7.1 65 48-113 4-69 (148)
255 COG0758 Smf Predicted Rossmann 58.0 5.9 0.00013 31.6 1.4 74 15-99 85-162 (350)
256 smart00852 MoCF_biosynth Proba 58.0 49 0.0011 22.0 5.8 45 59-110 20-64 (135)
257 cd06282 PBP1_GntR_like_2 Ligan 58.0 69 0.0015 23.1 7.2 18 29-46 17-34 (266)
258 PRK10014 DNA-binding transcrip 57.9 82 0.0018 24.0 8.3 62 43-111 65-128 (342)
259 cd06317 PBP1_ABC_sugar_binding 57.8 58 0.0012 23.7 6.7 13 31-43 20-32 (275)
260 PF00070 Pyr_redox: Pyridine n 57.6 39 0.00084 20.2 6.7 49 30-79 11-63 (80)
261 cd06291 PBP1_Qymf_like Ligand 57.6 57 0.0012 23.7 6.6 21 53-73 12-32 (265)
262 cd06296 PBP1_CatR_like Ligand- 57.5 64 0.0014 23.4 6.9 51 23-73 98-150 (270)
263 PRK10727 DNA-binding transcrip 57.5 74 0.0016 24.4 7.5 49 25-73 159-209 (343)
264 cd06323 PBP1_ribose_binding Pe 57.4 44 0.00095 24.2 6.0 15 30-44 18-32 (268)
265 cd06272 PBP1_hexuronate_repres 57.3 61 0.0013 23.5 6.7 51 22-72 91-143 (261)
266 PRK11041 DNA-binding transcrip 57.2 72 0.0016 23.8 7.3 49 25-73 135-185 (309)
267 PRK10703 DNA-binding transcrip 57.1 75 0.0016 24.2 7.4 48 27-74 163-212 (341)
268 PF13344 Hydrolase_6: Haloacid 57.0 42 0.0009 21.4 5.1 68 31-110 20-87 (101)
269 cd06293 PBP1_LacI_like_11 Liga 57.0 74 0.0016 23.2 8.3 52 22-73 96-149 (269)
270 cd08172 GlyDH-like1 Glycerol d 56.7 65 0.0014 25.3 7.1 71 32-111 14-84 (347)
271 PRK13805 bifunctional acetalde 56.7 65 0.0014 28.8 7.7 68 41-112 479-548 (862)
272 PRK11303 DNA-binding transcrip 56.6 85 0.0018 23.8 8.1 62 42-110 61-124 (328)
273 cd08195 DHQS Dehydroquinate sy 56.4 97 0.0021 24.3 8.0 69 40-111 22-93 (345)
274 cd03770 SR_TndX_transposase Se 56.4 59 0.0013 21.9 9.4 82 27-110 21-106 (140)
275 cd06288 PBP1_sucrose_transcrip 56.3 71 0.0015 23.1 7.0 13 31-43 20-32 (269)
276 cd06278 PBP1_LacI_like_2 Ligan 56.3 60 0.0013 23.4 6.5 15 30-44 18-32 (266)
277 PRK09526 lacI lac repressor; R 56.2 88 0.0019 23.8 8.1 62 43-110 64-127 (342)
278 cd06277 PBP1_LacI_like_1 Ligan 56.1 51 0.0011 24.0 6.2 49 25-73 101-151 (268)
279 COG1609 PurR Transcriptional r 55.9 96 0.0021 24.2 9.2 52 22-73 155-208 (333)
280 PRK10727 DNA-binding transcrip 55.8 91 0.002 23.9 7.8 62 43-111 60-123 (343)
281 cd06321 PBP1_ABC_sugar_binding 55.8 65 0.0014 23.5 6.7 9 31-39 19-27 (271)
282 PRK03692 putative UDP-N-acetyl 55.7 87 0.0019 23.6 7.9 73 29-112 93-166 (243)
283 PF04392 ABC_sub_bind: ABC tra 55.6 58 0.0013 24.7 6.5 61 45-110 2-66 (294)
284 TIGR02637 RhaS rhamnose ABC tr 55.2 56 0.0012 24.5 6.4 12 31-42 18-29 (302)
285 COG3946 VirJ Type IV secretory 55.0 54 0.0012 27.0 6.3 71 41-111 258-332 (456)
286 cd00338 Ser_Recombinase Serine 55.0 57 0.0012 21.3 10.5 78 27-110 17-102 (137)
287 cd06319 PBP1_ABC_sugar_binding 54.7 60 0.0013 23.7 6.3 15 31-45 19-33 (277)
288 TIGR02634 xylF D-xylose ABC tr 54.5 47 0.001 25.1 5.9 14 31-44 18-31 (302)
289 cd06292 PBP1_LacI_like_10 Liga 54.4 82 0.0018 22.9 7.6 49 23-71 103-153 (273)
290 TIGR00200 cinA_nterm competenc 54.4 86 0.0019 25.6 7.5 61 44-111 2-67 (413)
291 PRK05571 ribose-5-phosphate is 54.2 72 0.0016 22.2 7.0 64 48-113 4-69 (148)
292 COG2240 PdxK Pyridoxal/pyridox 54.2 65 0.0014 25.0 6.4 86 32-122 19-120 (281)
293 PF00106 adh_short: short chai 54.0 64 0.0014 21.6 10.0 104 25-136 8-115 (167)
294 cd08511 PBP2_NikA_DppA_OppA_li 54.0 52 0.0011 26.5 6.3 46 31-76 305-352 (467)
295 cd06324 PBP1_ABC_sugar_binding 53.9 61 0.0013 24.5 6.4 12 32-43 21-32 (305)
296 cd08169 DHQ-like Dehydroquinat 53.3 1.1E+02 0.0024 24.1 8.6 75 33-111 14-91 (344)
297 PLN02522 ATP citrate (pro-S)-l 53.3 1.1E+02 0.0025 26.4 8.3 64 43-112 168-231 (608)
298 cd06315 PBP1_ABC_sugar_binding 53.3 70 0.0015 23.7 6.6 13 31-43 20-32 (280)
299 PF12683 DUF3798: Protein of u 53.1 76 0.0016 24.5 6.6 9 102-110 61-69 (275)
300 TIGR02717 AcCoA-syn-alpha acet 53.1 99 0.0021 25.4 7.8 50 59-112 163-212 (447)
301 PF08659 KR: KR domain; Inter 52.7 78 0.0017 22.2 9.6 89 26-121 9-98 (181)
302 cd06290 PBP1_LacI_like_9 Ligan 52.5 87 0.0019 22.7 8.1 50 24-73 97-148 (265)
303 PRK15138 aldehyde reductase; P 52.5 72 0.0016 25.6 6.8 72 33-112 22-94 (387)
304 PRK10401 DNA-binding transcrip 51.8 1.1E+02 0.0023 23.5 7.6 62 43-111 60-123 (346)
305 cd06311 PBP1_ABC_sugar_binding 51.6 93 0.002 22.7 9.0 53 22-74 105-160 (274)
306 PRK11041 DNA-binding transcrip 51.5 1E+02 0.0022 23.1 8.6 62 43-111 36-99 (309)
307 COG1448 TyrB Aspartate/tyrosin 51.2 1.3E+02 0.0029 24.4 8.2 72 31-111 108-179 (396)
308 COG3107 LppC Putative lipoprot 51.0 29 0.00063 29.4 4.3 63 17-79 358-420 (604)
309 TIGR03772 anch_rpt_subst ancho 50.6 1.4E+02 0.0029 25.1 8.2 70 34-111 382-453 (479)
310 cd02069 methionine_synthase_B1 50.6 59 0.0013 23.9 5.6 83 17-111 90-175 (213)
311 COG1922 WecG Teichoic acid bio 50.5 79 0.0017 24.1 6.3 73 30-111 97-169 (253)
312 cd01391 Periplasmic_Binding_Pr 50.2 71 0.0015 22.4 6.0 8 32-39 21-28 (269)
313 COG1197 Mfd Transcription-repa 50.2 80 0.0017 29.3 7.2 65 38-109 639-703 (1139)
314 COG0521 MoaB Molybdopterin bio 50.1 92 0.002 22.3 6.7 72 43-120 8-85 (169)
315 PRK11303 DNA-binding transcrip 50.1 1.1E+02 0.0024 23.1 9.6 51 23-73 160-212 (328)
316 cd06308 PBP1_sensor_kinase_lik 49.9 99 0.0021 22.5 10.2 53 22-74 100-157 (270)
317 TIGR01120 rpiB ribose 5-phosph 49.8 85 0.0018 21.7 7.0 63 49-113 4-67 (143)
318 cd06167 LabA_like LabA_like pr 49.8 76 0.0017 21.2 5.8 73 31-112 55-132 (149)
319 cd06275 PBP1_PurR Ligand-bindi 49.2 1E+02 0.0022 22.4 7.5 49 25-73 100-150 (269)
320 PRK00549 competence damage-ind 49.2 1.1E+02 0.0024 24.9 7.4 61 44-111 2-67 (414)
321 PRK10423 transcriptional repre 49.1 1.1E+02 0.0025 23.0 7.9 45 29-73 161-207 (327)
322 PRK10586 putative oxidoreducta 49.1 1E+02 0.0022 24.6 7.1 72 31-111 23-94 (362)
323 cd06270 PBP1_GalS_like Ligand 49.1 1E+02 0.0022 22.4 9.0 86 23-111 97-185 (268)
324 cd08494 PBP2_NikA_DppA_OppA_li 49.1 72 0.0016 25.5 6.4 47 30-76 300-349 (448)
325 cd06289 PBP1_MalI_like Ligand- 49.0 99 0.0021 22.3 7.2 48 24-71 99-148 (268)
326 cd06280 PBP1_LacI_like_4 Ligan 49.0 1E+02 0.0022 22.4 7.3 49 25-73 98-147 (263)
327 PLN02834 3-dehydroquinate synt 48.9 1.5E+02 0.0032 24.4 8.2 68 42-111 100-171 (433)
328 smart00255 TIR Toll - interleu 48.8 74 0.0016 20.8 6.3 11 61-71 47-57 (140)
329 TIGR01481 ccpA catabolite cont 48.4 1.2E+02 0.0025 23.0 8.5 63 41-110 58-122 (329)
330 PF13840 ACT_7: ACT domain ; P 48.0 54 0.0012 19.0 4.3 59 41-99 5-64 (65)
331 PHA02031 putative DnaG-like pr 47.7 91 0.002 24.0 6.3 54 29-83 193-246 (266)
332 PF00763 THF_DHG_CYH: Tetrahyd 47.3 80 0.0017 20.8 7.6 75 43-123 30-105 (117)
333 cd06325 PBP1_ABC_uncharacteriz 47.2 1.1E+02 0.0023 22.4 6.7 42 29-70 16-60 (281)
334 PRK09545 znuA high-affinity zi 47.2 1.2E+02 0.0026 23.6 7.1 46 34-79 214-261 (311)
335 PLN00125 Succinyl-CoA ligase [ 47.0 1.1E+02 0.0023 23.9 6.8 49 62-112 166-214 (300)
336 PRK05752 uroporphyrinogen-III 46.9 98 0.0021 23.0 6.4 77 24-109 107-188 (255)
337 PF00731 AIRC: AIR carboxylase 46.9 98 0.0021 21.6 8.8 61 44-111 2-63 (150)
338 cd06305 PBP1_methylthioribose_ 46.8 1.1E+02 0.0024 22.2 9.2 55 20-74 96-154 (273)
339 cd06309 PBP1_YtfQ_like Peripla 46.0 62 0.0014 23.7 5.3 15 31-45 19-33 (273)
340 PRK14174 bifunctional 5,10-met 46.0 1.2E+02 0.0026 23.6 6.9 66 30-109 143-212 (295)
341 cd06299 PBP1_LacI_like_13 Liga 45.8 1.1E+02 0.0024 22.0 7.4 44 29-72 103-148 (265)
342 COG1419 FlhF Flagellar GTP-bin 45.6 1.7E+02 0.0037 24.0 8.0 78 19-109 206-287 (407)
343 cd06308 PBP1_sensor_kinase_lik 45.5 1.2E+02 0.0025 22.2 6.6 15 30-44 18-33 (270)
344 cd00419 Ferrochelatase_C Ferro 45.4 94 0.002 21.0 8.3 59 58-119 46-106 (135)
345 PRK12615 galactose-6-phosphate 45.3 1.1E+02 0.0024 21.9 6.9 64 48-113 4-68 (171)
346 cd06295 PBP1_CelR Ligand bindi 45.3 1.2E+02 0.0026 22.1 7.6 14 31-44 30-43 (275)
347 TIGR01357 aroB 3-dehydroquinat 45.2 1.5E+02 0.0032 23.2 8.3 75 33-111 13-89 (344)
348 cd06294 PBP1_ycjW_transcriptio 45.0 1.2E+02 0.0025 22.0 6.8 37 29-68 22-58 (270)
349 TIGR00696 wecB_tagA_cpsF bacte 44.9 1.1E+02 0.0024 21.7 7.9 73 28-112 35-109 (177)
350 TIGR02417 fruct_sucro_rep D-fr 44.6 1.4E+02 0.003 22.6 8.4 48 25-72 161-210 (327)
351 TIGR02417 fruct_sucro_rep D-fr 44.4 1.4E+02 0.003 22.6 8.5 63 42-111 60-124 (327)
352 cd01543 PBP1_XylR Ligand-bindi 44.1 1.2E+02 0.0027 22.0 8.3 54 20-73 87-141 (265)
353 COG1105 FruK Fructose-1-phosph 44.1 75 0.0016 25.0 5.5 46 59-109 120-165 (310)
354 PRK08622 galactose-6-phosphate 43.9 1.2E+02 0.0026 21.7 6.9 64 48-113 4-68 (171)
355 PRK14987 gluconate operon tran 43.9 1.4E+02 0.0031 22.6 8.1 61 43-110 64-126 (331)
356 COG0276 HemH Protoheme ferro-l 43.8 1.6E+02 0.0035 23.3 8.5 87 25-114 161-268 (320)
357 PRK09273 hypothetical protein; 43.7 1.3E+02 0.0029 22.3 6.5 68 44-112 2-73 (211)
358 cd06310 PBP1_ABC_sugar_binding 43.7 1.3E+02 0.0027 21.9 9.5 54 21-74 99-158 (273)
359 COG1110 Reverse gyrase [DNA re 43.4 1.6E+02 0.0035 27.3 7.9 80 31-124 325-406 (1187)
360 cd06309 PBP1_YtfQ_like Peripla 43.0 1.3E+02 0.0028 21.9 10.8 57 18-74 98-159 (273)
361 PRK03670 competence damage-ind 42.9 1.5E+02 0.0032 22.5 7.8 61 45-111 3-68 (252)
362 PRK14171 bifunctional 5,10-met 42.6 1.6E+02 0.0035 22.9 7.9 75 44-124 34-109 (288)
363 KOG3131|consensus 42.3 61 0.0013 24.7 4.5 83 25-112 98-190 (281)
364 PRK14178 bifunctional 5,10-met 42.2 1.6E+02 0.0035 22.8 7.6 80 39-124 22-103 (279)
365 PRK15395 methyl-galactoside AB 42.2 1.6E+02 0.0034 22.7 7.4 28 43-70 25-54 (330)
366 PRK03604 moaC bifunctional mol 42.1 1.7E+02 0.0037 23.0 7.8 62 44-111 157-223 (312)
367 PLN03194 putative disease resi 42.1 1E+02 0.0022 22.4 5.5 58 15-75 26-87 (187)
368 PRK14186 bifunctional 5,10-met 42.0 1.7E+02 0.0036 22.9 7.7 78 41-124 30-109 (297)
369 cd06287 PBP1_LacI_like_8 Ligan 41.9 1.4E+02 0.0031 22.0 9.0 83 24-110 100-185 (269)
370 PRK14690 molybdopterin biosynt 41.9 1.5E+02 0.0033 24.2 7.1 75 30-111 173-267 (419)
371 cd06321 PBP1_ABC_sugar_binding 41.9 1.3E+02 0.0029 21.8 9.6 52 22-73 99-154 (271)
372 TIGR01119 lacB galactose-6-pho 41.9 1.3E+02 0.0028 21.6 7.1 64 48-113 4-68 (171)
373 PF14359 DUF4406: Domain of un 41.8 87 0.0019 19.8 4.7 69 53-126 12-82 (92)
374 cd00578 L-fuc_L-ara-isomerases 41.6 1.1E+02 0.0025 24.9 6.5 46 59-110 25-70 (452)
375 cd06297 PBP1_LacI_like_12 Liga 41.3 1.4E+02 0.003 21.8 7.4 50 23-73 95-152 (269)
376 PF09338 Gly_reductase: Glycin 41.2 2.1E+02 0.0045 23.7 7.9 88 24-118 250-347 (428)
377 TIGR01019 sucCoAalpha succinyl 40.9 1.5E+02 0.0033 22.9 6.7 23 90-112 185-207 (286)
378 PF00456 Transketolase_N: Tran 40.7 1.8E+02 0.004 23.0 8.2 79 34-119 164-248 (332)
379 cd01029 TOPRIM_primases TOPRIM 40.6 77 0.0017 18.7 5.0 33 42-74 43-75 (79)
380 cd06297 PBP1_LacI_like_12 Liga 40.5 1.4E+02 0.0031 21.8 7.0 15 31-45 19-33 (269)
381 cd00887 MoeA MoeA family. Memb 40.3 1.5E+02 0.0032 23.9 6.8 76 29-111 147-242 (394)
382 PF14097 SpoVAE: Stage V sporu 40.1 1.4E+02 0.003 21.5 7.3 58 45-111 2-60 (180)
383 cd06322 PBP1_ABC_sugar_binding 40.1 1.4E+02 0.0031 21.5 10.4 53 22-74 99-155 (267)
384 PRK14466 ribosomal RNA large s 40.0 1.6E+02 0.0035 23.5 6.9 17 57-73 266-282 (345)
385 PRK09492 treR trehalose repres 39.7 1.6E+02 0.0035 22.1 8.9 62 43-111 63-126 (315)
386 PLN02699 Bifunctional molybdop 39.7 2.5E+02 0.0055 24.5 8.5 77 29-111 160-257 (659)
387 cd08508 PBP2_NikA_DppA_OppA_li 39.6 1.2E+02 0.0026 24.6 6.4 45 31-75 311-358 (470)
388 PTZ00187 succinyl-CoA syntheta 39.5 1.9E+02 0.0041 22.8 8.1 66 43-114 170-235 (317)
389 PRK14719 bifunctional RNAse/5- 39.4 56 0.0012 26.2 4.3 42 33-74 58-99 (360)
390 TIGR00689 rpiB_lacA_lacB sugar 39.0 1.3E+02 0.0028 20.8 6.2 61 51-113 5-66 (144)
391 cd03411 Ferrochelatase_N Ferro 38.9 1.3E+02 0.0028 20.8 6.0 73 54-132 69-141 (159)
392 cd01544 PBP1_GalR Ligand-bindi 38.9 1.5E+02 0.0033 21.6 7.6 50 22-71 92-148 (270)
393 PRK14461 ribosomal RNA large s 38.8 1.7E+02 0.0037 23.6 6.9 53 24-76 283-347 (371)
394 PF03162 Y_phosphatase2: Tyros 38.8 1.4E+02 0.003 21.0 7.8 111 17-136 12-135 (164)
395 PRK10423 transcriptional repre 38.7 1.7E+02 0.0037 22.0 8.8 62 43-111 57-120 (327)
396 PF00496 SBP_bac_5: Bacterial 38.7 77 0.0017 24.5 4.9 48 30-77 269-329 (374)
397 PF01582 TIR: TIR domain; Int 38.4 36 0.00077 22.8 2.7 58 53-112 39-97 (141)
398 cd01574 PBP1_LacI Ligand-bindi 38.3 1.5E+02 0.0033 21.3 9.2 53 22-74 96-150 (264)
399 PRK00536 speE spermidine synth 37.9 1.3E+02 0.0028 23.0 5.9 51 45-100 140-190 (262)
400 PRK14194 bifunctional 5,10-met 37.7 2E+02 0.0043 22.5 7.6 75 44-124 35-110 (301)
401 PRK05678 succinyl-CoA syntheta 37.3 1.7E+02 0.0037 22.7 6.5 24 89-112 186-209 (291)
402 TIGR02405 trehalos_R_Ecol treh 36.9 1.8E+02 0.0039 21.9 8.5 50 23-72 153-205 (311)
403 PRK14190 bifunctional 5,10-met 36.9 2E+02 0.0043 22.3 7.5 75 44-124 34-109 (284)
404 PRK12613 galactose-6-phosphate 36.8 1.4E+02 0.0031 20.6 6.6 62 48-114 4-66 (141)
405 PRK14701 reverse gyrase; Provi 36.8 2.4E+02 0.0052 27.6 8.4 79 31-123 320-400 (1638)
406 TIGR02405 trehalos_R_Ecol treh 36.8 1.8E+02 0.004 21.9 7.7 62 43-111 60-123 (311)
407 COG4130 Predicted sugar epimer 36.7 1.9E+02 0.004 21.9 7.8 81 30-112 19-105 (272)
408 cd08520 PBP2_NikA_DppA_OppA_li 36.7 1.4E+02 0.003 24.2 6.2 46 31-76 305-363 (468)
409 cd08499 PBP2_Ylib_like The sub 36.6 1.4E+02 0.0031 24.1 6.4 46 31-76 304-352 (474)
410 PF04244 DPRP: Deoxyribodipyri 36.6 69 0.0015 23.8 4.1 20 58-77 50-69 (224)
411 PRK14498 putative molybdopteri 36.5 1.8E+02 0.0039 24.9 7.2 77 28-111 164-260 (633)
412 smart00857 Resolvase Resolvase 36.4 1.3E+02 0.0028 20.0 10.0 78 27-110 18-102 (148)
413 cd06303 PBP1_LuxPQ_Quorum_Sens 36.1 1.8E+02 0.0038 21.5 10.2 52 22-73 109-164 (280)
414 COG3910 Predicted ATPase [Gene 36.0 1E+02 0.0022 23.0 4.7 54 54-110 132-185 (233)
415 PRK08811 uroporphyrinogen-III 35.9 1.3E+02 0.0027 22.9 5.6 49 28-81 123-172 (266)
416 cd06281 PBP1_LacI_like_5 Ligan 35.6 1.7E+02 0.0036 21.3 6.2 48 26-73 99-149 (269)
417 PF09002 DUF1887: Domain of un 35.3 2.4E+02 0.0051 22.7 7.3 43 32-76 15-59 (381)
418 cd06313 PBP1_ABC_sugar_binding 35.3 1.3E+02 0.0028 22.1 5.6 16 29-44 17-32 (272)
419 cd01027 TOPRIM_RNase_M5_like T 35.2 92 0.002 19.1 3.9 37 31-68 35-71 (81)
420 PLN02616 tetrahydrofolate dehy 34.8 2.4E+02 0.0053 22.7 7.8 75 44-124 105-180 (364)
421 cd06306 PBP1_TorT-like TorT-li 34.8 1.8E+02 0.0039 21.2 8.7 81 24-109 102-190 (268)
422 PTZ00215 ribose 5-phosphate is 34.7 1.6E+02 0.0035 20.6 6.6 66 47-114 5-73 (151)
423 PRK10680 molybdopterin biosynt 34.7 2.5E+02 0.0055 22.9 8.4 76 29-111 156-251 (411)
424 PRK14180 bifunctional 5,10-met 34.5 2.2E+02 0.0048 22.1 7.5 75 44-124 33-108 (282)
425 PRK14170 bifunctional 5,10-met 34.5 2.2E+02 0.0048 22.1 7.6 75 44-124 33-108 (284)
426 PRK11914 diacylglycerol kinase 34.4 2.1E+02 0.0045 21.9 6.7 15 59-73 28-42 (306)
427 cd08500 PBP2_NikA_DppA_OppA_li 34.0 1.4E+02 0.0029 24.6 5.9 46 31-76 316-378 (499)
428 PRK09417 mogA molybdenum cofac 33.9 1.8E+02 0.004 21.0 7.6 63 43-111 4-74 (193)
429 PF05706 CDKN3: Cyclin-depende 33.9 88 0.0019 22.3 4.1 79 34-114 64-144 (168)
430 PRK14172 bifunctional 5,10-met 33.8 2.2E+02 0.0048 22.0 7.4 75 44-124 34-109 (278)
431 PRK10703 DNA-binding transcrip 33.7 2.1E+02 0.0046 21.7 8.7 62 43-111 60-123 (341)
432 cd06354 PBP1_BmpA_PnrA_like Pe 33.5 1.9E+02 0.0042 21.2 9.0 77 31-110 109-190 (265)
433 PRK14169 bifunctional 5,10-met 33.4 2.3E+02 0.005 22.0 7.8 75 44-124 32-107 (282)
434 COG0078 ArgF Ornithine carbamo 33.4 2.4E+02 0.0052 22.2 10.4 109 27-143 132-255 (310)
435 PLN02516 methylenetetrahydrofo 33.4 2.4E+02 0.0051 22.1 7.8 75 44-124 41-116 (299)
436 PF00762 Ferrochelatase: Ferro 32.9 1.1E+02 0.0025 23.8 5.0 87 24-113 158-265 (316)
437 cd02826 Piwi-like Piwi-like: P 32.8 1.4E+02 0.0029 24.0 5.5 66 43-111 36-104 (393)
438 cd08512 PBP2_NikA_DppA_OppA_li 32.6 1.7E+02 0.0037 23.6 6.2 46 31-76 319-368 (476)
439 PF07071 DUF1341: Protein of u 32.3 2.1E+02 0.0046 21.2 7.1 74 29-110 136-209 (218)
440 PRK14166 bifunctional 5,10-met 32.3 2.4E+02 0.0052 21.9 7.6 75 44-124 32-107 (282)
441 KOG2749|consensus 32.0 2E+02 0.0043 23.5 6.1 56 69-140 212-267 (415)
442 PF13361 UvrD_C: UvrD-like hel 31.9 1.4E+02 0.0031 22.4 5.4 56 19-78 49-109 (351)
443 TIGR00288 conserved hypothetic 31.9 1.5E+02 0.0032 21.0 5.0 65 32-111 70-137 (160)
444 cd08503 PBP2_NikA_DppA_OppA_li 31.7 1.9E+02 0.0041 23.3 6.3 49 28-76 305-356 (460)
445 PF00107 ADH_zinc_N: Zinc-bind 31.7 1.4E+02 0.0031 19.1 5.7 18 30-48 3-20 (130)
446 PRK08621 galactose-6-phosphate 31.5 1.8E+02 0.0039 20.1 6.8 63 48-114 4-67 (142)
447 TIGR03405 Phn_Fe-ADH phosphona 31.5 2.6E+02 0.0057 22.0 7.9 66 41-112 22-89 (355)
448 PRK14175 bifunctional 5,10-met 31.4 2.5E+02 0.0054 21.8 7.5 75 44-124 34-109 (286)
449 PRK14021 bifunctional shikimat 31.4 2.9E+02 0.0062 23.4 7.4 75 33-111 201-277 (542)
450 KOG1014|consensus 31.3 2.6E+02 0.0057 22.0 7.4 10 90-99 114-123 (312)
451 PRK14168 bifunctional 5,10-met 31.1 2.6E+02 0.0056 21.9 7.5 75 44-124 35-110 (297)
452 TIGR01118 lacA galactose-6-pho 31.0 1.8E+02 0.0039 20.1 6.9 63 48-114 4-67 (141)
453 PF01261 AP_endonuc_2: Xylose 30.9 1.8E+02 0.0039 20.1 5.8 77 35-112 2-93 (213)
454 PRK14187 bifunctional 5,10-met 30.8 2.6E+02 0.0056 21.8 7.8 75 44-124 34-109 (294)
455 COG1908 FrhD Coenzyme F420-red 30.5 1.8E+02 0.0038 19.8 7.0 72 2-74 12-95 (132)
456 TIGR00114 lumazine-synth 6,7-d 30.5 1.8E+02 0.0039 19.9 7.0 66 44-115 2-71 (138)
457 PRK13835 conjugal transfer pro 30.5 1.9E+02 0.0041 20.1 5.9 50 24-75 37-87 (145)
458 PF02310 B12-binding: B12 bind 30.2 1.5E+02 0.0032 18.8 7.8 68 32-111 19-87 (121)
459 COG0698 RpiB Ribose 5-phosphat 30.1 2E+02 0.0043 20.2 7.2 62 51-114 7-70 (151)
460 cd01016 TroA Metal binding pro 30.0 84 0.0018 23.9 3.8 47 62-110 171-217 (276)
461 PRK14193 bifunctional 5,10-met 29.9 2.7E+02 0.0058 21.6 7.5 75 44-124 34-109 (284)
462 PF00875 DNA_photolyase: DNA p 29.7 1.4E+02 0.003 20.4 4.6 18 58-75 105-122 (165)
463 PF11735 CAP59_mtransfer: Cryp 29.6 2.5E+02 0.0054 21.2 6.4 46 29-74 19-67 (241)
464 PRK08125 bifunctional UDP-gluc 29.6 2.1E+02 0.0046 24.6 6.5 72 29-111 11-83 (660)
465 COG0108 RibB 3,4-dihydroxy-2-b 29.5 1.6E+02 0.0035 21.7 4.9 58 18-75 127-190 (203)
466 COG0807 RibA GTP cyclohydrolas 29.1 2.3E+02 0.005 20.7 6.8 51 25-83 124-174 (193)
467 COG0223 Fmt Methionyl-tRNA for 28.9 2.4E+02 0.0052 22.2 6.1 75 25-111 9-87 (307)
468 cd08490 PBP2_NikA_DppA_OppA_li 28.7 2.3E+02 0.0049 22.8 6.3 46 31-76 295-355 (470)
469 cd08517 PBP2_NikA_DppA_OppA_li 28.5 2.4E+02 0.0053 22.7 6.4 48 29-76 312-368 (480)
470 PRK14183 bifunctional 5,10-met 28.5 2.8E+02 0.0061 21.5 7.3 74 44-123 33-107 (281)
471 cd01137 PsaA Metal binding pro 28.4 1.1E+02 0.0024 23.4 4.2 46 62-109 187-232 (287)
472 TIGR01917 gly_red_sel_B glycin 28.4 2.9E+02 0.0063 22.9 6.6 65 14-79 303-373 (431)
473 cd00995 PBP2_NikA_DppA_OppA_li 28.4 2.3E+02 0.0049 22.6 6.2 46 31-76 306-357 (466)
474 cd08489 PBP2_NikA The substrat 28.3 2.1E+02 0.0044 23.3 6.0 47 30-76 306-368 (488)
475 cd06301 PBP1_rhizopine_binding 28.3 2.3E+02 0.005 20.5 9.8 52 19-70 98-153 (272)
476 cd01460 vWA_midasin VWA_Midasi 28.2 2.2E+02 0.0048 21.8 5.8 33 44-76 166-200 (266)
477 PRK03673 hypothetical protein; 28.0 3.3E+02 0.0072 22.2 7.6 61 44-111 3-68 (396)
478 cd01017 AdcA Metal binding pro 27.9 1.1E+02 0.0025 23.1 4.2 48 61-110 180-227 (282)
479 PRK14177 bifunctional 5,10-met 27.9 2.9E+02 0.0063 21.4 7.5 77 42-124 33-110 (284)
480 cd02071 MM_CoA_mut_B12_BD meth 27.8 1.8E+02 0.0039 19.0 5.3 71 20-100 4-76 (122)
481 smart00493 TOPRIM topoisomeras 27.3 1.2E+02 0.0025 17.6 3.4 28 43-70 48-75 (76)
482 PF01177 Asp_Glu_race: Asp/Glu 27.2 2.3E+02 0.005 20.0 8.5 78 31-113 97-185 (216)
483 cd08516 PBP2_NikA_DppA_OppA_li 26.9 2.6E+02 0.0056 22.4 6.3 45 31-75 303-351 (457)
484 PRK12744 short chain dehydroge 26.8 2.5E+02 0.0054 20.4 10.0 85 22-112 13-98 (257)
485 KOG0207|consensus 26.8 3.7E+02 0.008 24.6 7.4 86 19-126 717-802 (951)
486 cd08514 PBP2_AppA_like The sub 26.6 2.4E+02 0.0051 22.9 6.0 46 31-76 312-373 (483)
487 PF09342 DUF1986: Domain of un 26.3 57 0.0012 24.9 2.2 22 34-55 4-29 (267)
488 PRK14189 bifunctional 5,10-met 26.3 3.1E+02 0.0068 21.3 7.8 66 43-112 33-99 (285)
489 cd06313 PBP1_ABC_sugar_binding 26.2 2.6E+02 0.0057 20.4 10.1 85 21-110 100-190 (272)
490 PTZ00445 p36-lilke protein; Pr 26.2 2.8E+02 0.0061 20.7 6.4 57 55-112 27-100 (219)
491 PRK07814 short chain dehydroge 26.2 2.6E+02 0.0057 20.4 8.8 80 23-112 16-96 (263)
492 PF08029 HisG_C: HisG, C-termi 26.2 89 0.0019 19.0 2.7 23 88-111 49-71 (75)
493 PRK14191 bifunctional 5,10-met 26.1 3.2E+02 0.0068 21.3 7.7 74 44-123 33-107 (285)
494 PF00885 DMRL_synthase: 6,7-di 26.1 1.8E+02 0.0038 20.0 4.5 68 43-117 4-76 (144)
495 TIGR00288 conserved hypothetic 26.0 2.4E+02 0.0052 19.9 8.0 69 31-112 44-114 (160)
496 cd06279 PBP1_LacI_like_3 Ligan 26.0 2.7E+02 0.0058 20.5 8.3 52 22-73 96-166 (283)
497 CHL00041 rps11 ribosomal prote 26.0 2E+02 0.0044 19.0 7.1 50 30-82 62-111 (116)
498 PF12017 Tnp_P_element: Transp 26.0 1.8E+02 0.0038 22.0 4.8 38 40-77 179-216 (236)
499 cd08504 PBP2_OppA The substrat 25.9 2.2E+02 0.0047 23.1 5.7 45 32-76 327-378 (498)
500 PRK00035 hemH ferrochelatase; 25.9 3.2E+02 0.0069 21.3 6.5 21 90-111 106-126 (333)
No 1
>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=99.90 E-value=2.1e-23 Score=168.71 Aligned_cols=138 Identities=34% Similarity=0.551 Sum_probs=118.4
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
||++++++.|+++.+|||||||.|+|..|+.++++++++|+|+||++|+++++||...++.|.+.+++.|+||+..+.++
T Consensus 133 Is~~sts~~Ls~~~~~~~ffRt~psd~~qa~ai~~ll~~~~W~~Vaii~~~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~ 212 (458)
T cd06375 133 ISYASTSAKLSDKSRYDYFARTVPPDFYQAKAMAEILRFFNWTYVSTVASEGDYGETGIEAFEQEARLRNICIATSEKVG 212 (458)
T ss_pred eeeccCChhhcccccCCCeEEecCCcHHHHHHHHHHHHHCCCeEEEEEEeCchHHHHHHHHHHHHHHHCCeeEEEEEEec
Confidence 68899999999988899999999999999999999999999999999999999999999999999999999999999897
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEee-------------------EEeeeCCcchhh-h----hHHHHHHHhcCc
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRL-------------------KLVKDSGVAEET-A----YDDIVLKLLTKP 136 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~-------------------~~~~~~g~~~~~-~----~~~~~~~~~~~~ 136 (144)
..+ .+.++..+|++|++.+++||||++. .|+..+||.... . -+.++|.+++.|
T Consensus 213 ~~~---~~~d~~~~l~~l~~~~~a~vVvl~~~~~~~~~ll~~a~~~g~~~~wigs~~~~~~~~~~~~~~~~~~G~i~~~~ 289 (458)
T cd06375 213 RSA---DRKSYDSVIRKLLQKPNARVVVLFTRSEDARELLAAAKRLNASFTWVASDGWGAQESIVKGSEDVAEGAITIEL 289 (458)
T ss_pred CCC---CHHHHHHHHHHHhccCCCEEEEEecChHHHHHHHHHHHHcCCcEEEEEeccccccchhhhccchhhceEEEEEe
Confidence 654 3689999999998457899999874 468888886542 2 236777777777
Q ss_pred ccccc
Q psy12591 137 RARAV 141 (144)
Q Consensus 137 ~~~~~ 141 (144)
+..-+
T Consensus 290 ~~~~i 294 (458)
T cd06375 290 ASHPI 294 (458)
T ss_pred ccccc
Confidence 66443
No 2
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=99.90 E-value=1.6e-23 Score=169.75 Aligned_cols=137 Identities=16% Similarity=0.274 Sum_probs=116.3
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
|||+++++.|+++.+|||||||.|+|..|+.++++++++|+|+||++|+++++||....+.|.+++++.|+||+..+.++
T Consensus 131 Is~~sts~~lsd~~~yp~ffRt~psd~~q~~ai~~li~~f~W~~Vaiv~~d~~yg~~~~~~~~~~~~~~gi~I~~~~~i~ 210 (469)
T cd06365 131 LTYGPFDPLLSDRVQFPSLYQMAPKDTSLPLGMVSLMLHFSWTWVGLVISDDDRGEQFLSDLREEMQRNGICLAFVEKIP 210 (469)
T ss_pred eeeccCCccccchhhCCcceEecCCchhHHHHHHHHHHhcCCeEEEEEEecChhHHHHHHHHHHHHHHCCeEEEEEEEec
Confidence 68899999999988899999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEee--------------------EEeeeCCcchhh-----hhHHHHHHHhcC
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRL--------------------KLVKDSGVAEET-----AYDDIVLKLLTK 135 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~--------------------~~~~~~g~~~~~-----~~~~~~~~~~~~ 135 (144)
.... ..+.++..+|++|+ .+++|+||+++ .|+.++||.... ..+.++|.+++.
T Consensus 211 ~~~~-~~~~~~~~~l~~i~-~~~arvIvl~~~~~~~~~l~~~~~~~~~~~~~wi~s~~w~~~~~~~~~~~~~~~G~lg~~ 288 (469)
T cd06365 211 VNMQ-LYLTRAEKYYNQIM-TSSAKVIIIYGDTDSLLEVSFRLWQYLLIGKVWITTSQWDVTTSPKDFTLNSFHGTLIFS 288 (469)
T ss_pred CCch-hhHHHHHHHHHHhh-cCCCeEEEEEcCcHHHHHHHHHHHHhccCceEEEeeccccccccccccccceeeEEEEEE
Confidence 7642 11348899999998 79999999985 367777775432 234667777776
Q ss_pred cccc
Q psy12591 136 PRAR 139 (144)
Q Consensus 136 ~~~~ 139 (144)
|+..
T Consensus 289 ~~~~ 292 (469)
T cd06365 289 HHHS 292 (469)
T ss_pred eccC
Confidence 6654
No 3
>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=99.90 E-value=3.8e-23 Score=164.85 Aligned_cols=137 Identities=27% Similarity=0.352 Sum_probs=111.9
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
|||+++++.|+++.+|||||||.|+|..|+.++++++++|+|+||++|+++++||++..+.|.+.++++|+||+..+.++
T Consensus 131 IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~~d~yG~~~~~~f~~~~~~~GicIa~~e~~~ 210 (403)
T cd06361 131 VSYASTAEILSDKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIITDDDYGRSALETFIIQAEANGVCIAFKEILP 210 (403)
T ss_pred EecCcCCcccCCcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEecCchHHHHHHHHHHHHHHCCeEEEEEEEec
Confidence 58999999999988899999999999999999999999999999999999999999999999999999999999999997
Q ss_pred CCCCCc--chhhHHHHHHHHhcCCCceEEEEee-------------------EEeeeCCcchh-hhh-----HHHHHHHh
Q psy12591 81 KDSGVA--EETAYDDIVLKLLTKPRARGLFKRL-------------------KLVKDSGVAEE-TAY-----DDIVLKLL 133 (144)
Q Consensus 81 ~~~~~~--~~~~~~~~l~~lk~~~~arvii~~~-------------------~~~~~~g~~~~-~~~-----~~~~~~~~ 133 (144)
.+.+.. ...+++.+++.+| .+++|+||+++ .|+..+||... .++ ..+.|.++
T Consensus 211 ~~~~~~~~~~~~~~~~~~~ik-~~~a~vVvv~~~~~~~~~l~~~a~~~g~~~~wigs~~w~~~~~~~~~~~~~~~~g~ig 289 (403)
T cd06361 211 ASLSDNTKLNRIIRTTEKIIE-ENKVNVIVVFARQFHVFLLFNKAIERNINKVWIASDNWSTAKKILTDPNVKKIGKVVG 289 (403)
T ss_pred CccCcchhHHHHHHHHHHHHh-cCCCeEEEEEeChHHHHHHHHHHHHhCCCeEEEEECcccCccccccCCcccccceEEE
Confidence 753200 0145666666677 78999999875 37888888763 222 34455555
Q ss_pred cCccc
Q psy12591 134 TKPRA 138 (144)
Q Consensus 134 ~~~~~ 138 (144)
+.|+.
T Consensus 290 ~~~~~ 294 (403)
T cd06361 290 FTFKS 294 (403)
T ss_pred EEecC
Confidence 55543
No 4
>KOG1056|consensus
Probab=99.88 E-value=2.5e-22 Score=169.22 Aligned_cols=138 Identities=37% Similarity=0.568 Sum_probs=117.9
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
|||+++++.|+|+.+|+||.|++|+|.+|++|+++++++|+|+||+.+++.++||+.+.++|++..+++|+||+.+++++
T Consensus 153 isyaSts~~LSdk~ry~~F~RtVP~D~~Qa~Am~~il~~f~W~yVstv~s~~dYGE~Gieaf~~~a~~~~iCIa~s~ki~ 232 (878)
T KOG1056|consen 153 ISYASTSPDLSDKTRYDYFLRTVPSDVFQAQAMVDILKKFNWNYVSTVASEGDYGESGIEAFKEEAAERGICIAFSEKIY 232 (878)
T ss_pred eccccCCcccccchhhhceeeecCChHHHHHHHHHHHHHhCeeEeeehhcCccchhhhHHHHHHhHHhcCceEEehhhcc
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999998887
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEee---------------------EEeeeCCcchh-----hhhHHHHHHHhc
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRL---------------------KLVKDSGVAEE-----TAYDDIVLKLLT 134 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~---------------------~~~~~~g~~~~-----~~~~~~~~~~~~ 134 (144)
..+ .+..|+.++++|...+++|++|+|. .|+.++||.+. ..-...+|.+..
T Consensus 233 ~~~---~~~~~~~~l~kl~~~~~a~vvV~F~~~~~~r~~~~aa~~~n~~g~~~wiaSd~W~~~~~~~~~~e~~a~g~i~i 309 (878)
T KOG1056|consen 233 QLS---IEQEFDCVLRKLLETPNARVVVVFCRGEDARRLLKAARRANLTGEFLWIASDGWASQNSPTEAPEREAEGAITI 309 (878)
T ss_pred ccc---chhHHHHHHHHHhhcCCCeEEEEecCcchHHHHHHHHHHhCCCcceEEEecchhhccCChhhhhhhhhceeEEE
Confidence 764 4889999999999669999999985 35667777662 112245555555
Q ss_pred Ccccccc
Q psy12591 135 KPRARAV 141 (144)
Q Consensus 135 ~~~~~~~ 141 (144)
++..+.|
T Consensus 310 ~l~~~~v 316 (878)
T KOG1056|consen 310 KLASPQV 316 (878)
T ss_pred EecCCcc
Confidence 5555444
No 5
>cd06364 PBP1_CaSR Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. CaSR provides feedback control of extracellular calcium homeostasis by responding sensitively to acute fluctuations in extracellular ionized Ca2+ concentration. This ligand-binding domain has homology to the bacterial leucine-isoleucine-valine binding protein (LIVBP) and a leucine binding protein (LBP). CaSR is widely expressed in mammalian tissues and is active in tissues that are not directly involved in extracellular calcium homeostasis. Moreover, CaSR responds to aromatic, aliphatic, and polar amino acids, but not to positively charged or branched chain amino acids, which suggests that changes in plasma amino acid levels are likely to modulate whole body calci
Probab=99.87 E-value=1.6e-21 Score=159.67 Aligned_cols=108 Identities=31% Similarity=0.506 Sum_probs=99.4
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
||++++++.|+++..||+||||.|+|..|+.++++++++|+|+||++|+.+++||+...+.|.+.+++.|+||+..+.++
T Consensus 146 IS~~sss~~ls~~~~yp~ffRt~psd~~q~~Ai~~l~~~f~wk~VaiI~~dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~ 225 (510)
T cd06364 146 VSYASSSRLLSNKNQFKSFLRTIPNDEHQATAMADIIEYFRWNWVGTIAADDDYGRPGIEKFREEAEERDICIDFSELIS 225 (510)
T ss_pred cccccCCcccCCccccCCeeEcCCChHHHHHHHHHHHHHcCCeEEEEEEecCcchHHHHHHHHHHHHHCCcEEEEEEEeC
Confidence 58889999999988899999999999999999999999999999999999999999999999999999999999998887
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
... .+.++..+|++|+ .+++|+||++..
T Consensus 226 ~~~---~~~d~~~~l~klk-~~~a~vVvl~~~ 253 (510)
T cd06364 226 QYS---DEEEIQRVVEVIQ-NSTAKVIVVFSS 253 (510)
T ss_pred CCC---CHHHHHHHHHHHH-hcCCeEEEEEeC
Confidence 643 2679999999999 689999998764
No 6
>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=99.86 E-value=7.8e-21 Score=154.07 Aligned_cols=108 Identities=37% Similarity=0.654 Sum_probs=97.8
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
||++++++.++++..||||||+.|++..++.++++++++|+|++|++|+++++||+...+.|.+.+++.|+||+..+.++
T Consensus 145 Is~~ats~~ls~~~~~p~~fRt~p~d~~~~~al~~l~~~~~W~~Vaii~~~~~yg~~~~~~~~~~~~~~gi~i~~~~~i~ 224 (472)
T cd06374 145 IAYSATSIDLSDKTLFKYFLRVVPSDTLQARAMLDIVKRYNWTYVSAVHTEGNYGESGMEAFKELAAHEGLCIAHSDKIY 224 (472)
T ss_pred cccccCchhhcccccCCceEEcCCChHHHHHHHHHHHHHCCCcEEEEEEecchHHHHHHHHHHHHHHHCCeeEEEEEEec
Confidence 67889999999988899999999999999999999999999999999999999999999999999999999999998886
Q ss_pred CCCCCcchhhHHHHHHHHhc-CCCceEEEEee
Q psy12591 81 KDSGVAEETAYDDIVLKLLT-KPRARGLFKRL 111 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~-~~~arvii~~~ 111 (144)
... .+.+++.+|++||+ .+++|||+++.
T Consensus 225 ~~~---~~~d~~~~l~~lk~~~~da~vvv~~~ 253 (472)
T cd06374 225 SNA---GEQSFDRLLRKLRSRLPKARVVVCFC 253 (472)
T ss_pred CCC---chHHHHHHHHHHHhcCCCcEEEEEEe
Confidence 543 26899999999995 36788888763
No 7
>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=99.84 E-value=3.3e-20 Score=146.21 Aligned_cols=127 Identities=17% Similarity=0.242 Sum_probs=108.1
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCce----EEEEE
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSI----CIAIK 76 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi----~V~~~ 76 (144)
|+++++++.++++..||||||+.|++..|+.++++++++|+|++|++++++++||.+..+.|++.+++.|+ ||+..
T Consensus 113 Is~~a~~~~ls~~~~~~~~~R~~psd~~~~~a~~~~l~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~~~~~v~~~ 192 (377)
T cd06379 113 VGISTRDSIFSDKNIHLSFLRTVPPYSHQADVWLEMLRSFKWNKVILLVSDDHEGRAAQKRFETLLEEREIEFKIKVEKV 192 (377)
T ss_pred EecccCCccccCccccccEEEecCCHHHHHHHHHHHHHHcCCeEEEEEEEcCcchhHHHHHHHHHHHhcCCccceeeeEE
Confidence 46788888898877799999999999999999999999999999999999999999999999999999999 88888
Q ss_pred ecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchhhhhHHHHHHHhcCccc
Q psy12591 77 EKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEETAYDDIVLKLLTKPRA 138 (144)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~ 138 (144)
+.++.+ +.|++.+|++|| ..++|+||+++. .-+...++.++.....+++.|
T Consensus 193 ~~~~~~-----~~d~~~~l~~ik-~~~~~vIvl~~~-----~~~~~~l~~qa~~~g~~~~~~ 243 (377)
T cd06379 193 VEFEPG-----EKNVTSLLQEAK-ELTSRVILLSAS-----EDDAAVIYRNAGMLNMTGEGY 243 (377)
T ss_pred EecCCc-----hhhHHHHHHHHh-hcCCeEEEEEcC-----HHHHHHHHHHHHHcCCCCCCE
Confidence 888654 578999999999 689999998875 333445566666666665544
No 8
>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=99.84 E-value=4.6e-20 Score=148.45 Aligned_cols=108 Identities=48% Similarity=0.786 Sum_probs=98.3
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
|+++++++.++++..||||||+.|++..++.++++++++|+|++|++|+++++||....+.|.+.+++.|+||+..+.++
T Consensus 131 Is~~sts~~ls~~~~~~~~fR~~p~d~~~~~a~~~~l~~~~w~~vaii~~~~~~G~~~~~~~~~~~~~~gi~i~~~~~~~ 210 (452)
T cd06362 131 ISYASTSPELSDKTRYDYFSRTVPPDSFQAQAMVDIVKAFNWTYVSTVASEGNYGEKGIEAFEKLAAERGICIAGSEKIP 210 (452)
T ss_pred cccccCchhhccccccCCEEEecCChHHHHHHHHHHHHHCCCcEEEEEEeCCHHHHHHHHHHHHHHHHCCeeEEEEEEcC
Confidence 57889999999887899999999999999999999999999999999999999999999999999999999999988887
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
... .+.+++.+|++|++.+++|+||++.
T Consensus 211 ~~~---~~~d~~~~l~~l~~~~~a~viil~~ 238 (452)
T cd06362 211 SSA---TEEEFDNIIRKLLSKPNARVVVLFC 238 (452)
T ss_pred CCC---CHHHHHHHHHHHhhcCCCeEEEEEc
Confidence 653 2689999999998446799998875
No 9
>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=99.83 E-value=8.6e-20 Score=147.61 Aligned_cols=108 Identities=38% Similarity=0.724 Sum_probs=95.8
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhC-ceEEEEEecc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKY-SICIAIKEKL 79 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~-Gi~V~~~~~~ 79 (144)
||++++++.|+++..||||||+.|++..|+.++++++++|+|++|++|+++++||....+.|.+.+++. |+||+..+.+
T Consensus 131 Is~~ats~~ls~~~~~~~ffR~~p~d~~~~~ai~~~i~~~~w~~Vaii~~~~~yg~~~~~~~~~~~~~~g~~~v~~~~~i 210 (463)
T cd06376 131 ISYASTAPELSDDRRYDFFSRVVPPDSFQAQAMVDIVKALGWNYVSTLASEGNYGESGVEAFTQISREAGGVCIAQSIKI 210 (463)
T ss_pred cccccCChhhcccccCCceEEccCCHHHHHHHHHHHHHHcCCeEEEEEEeCChHHHHHHHHHHHHHHHcCCceEEEEEec
Confidence 578899999998778999999999999999999999999999999999999999999999999999986 5899877766
Q ss_pred cCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 80 VKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 80 ~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+..+ .+.||+.+|++||+.+++|+||+++
T Consensus 211 ~~~~---~~~d~~~~l~~ik~~~~~~vIvl~~ 239 (463)
T cd06376 211 PREP---RPGEFDKIIKRLLETPNARAVIIFA 239 (463)
T ss_pred CCCC---CHHHHHHHHHHHhccCCCeEEEEec
Confidence 5554 3689999999998447899999865
No 10
>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=99.81 E-value=2.1e-19 Score=140.73 Aligned_cols=128 Identities=18% Similarity=0.196 Sum_probs=104.9
Q ss_pred CcccCCCCCC-cCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceE--EEEEe
Q psy12591 1 VSFWSTSPEL-SNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSIC--IAIKE 77 (144)
Q Consensus 1 Is~~at~~~l-s~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~--V~~~~ 77 (144)
||++++++.+ +++..||||||+.|++..|+.++++++++|+|++|++|+++++||++..+.+++.+++.|+| ++...
T Consensus 94 Is~~~~~~~~~s~~~~~~~~~R~~p~~~~~~~ai~~ll~~~~w~~vaii~~~~~~g~~~~~~l~~~l~~~g~~~~i~~~~ 173 (362)
T cd06367 94 VGISGRESIFMSDKNIHSLFLQTGPSLEQQADVMLEILEEYDWHQFSVVTSRDPGYRDFLDRVETTLEESFVGWEFQLVL 173 (362)
T ss_pred EEeeccccccccCCCcccceEeecCcHHHHHHHHHHHHHHcCCeEEEEEEEcCcccHHHHHHHHHHHHhcccceeeeeeE
Confidence 5788888888 88888999999999999999999999999999999999999999999999999999999999 77666
Q ss_pred cccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchhhhhHHHHHHHhcCccc
Q psy12591 78 KLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEETAYDDIVLKLLTKPRA 138 (144)
Q Consensus 78 ~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~ 138 (144)
.++... ..+++.++.+|+ +.++|+||+++.. .+...++.++.....++|.|
T Consensus 174 ~~~~~~----~~~~~~~l~~l~-~~~~~vivl~~~~-----~~~~~il~~a~~~g~~~~~~ 224 (362)
T cd06367 174 TLDLSD----DDGDARLLRQLK-KLESRVILLYCSK-----EEAERIFEAAASLGLTGPGY 224 (362)
T ss_pred EeccCC----CcchHHHHHHHH-hcCCcEEEEeCCH-----HHHHHHHHHHHHcCCCCCCc
Confidence 666542 237889999999 6889999988752 23344555555555555433
No 11
>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=99.79 E-value=2.2e-18 Score=133.74 Aligned_cols=108 Identities=37% Similarity=0.603 Sum_probs=98.6
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
|+++++++.++++..||+|||+.|++..++.++++++++++|+++++++.+++||....+.|.+.+++.|+||+..+.++
T Consensus 119 is~~~~~~~ls~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~gi~v~~~~~~~ 198 (348)
T cd06350 119 ISYGATSPLLSDKLQFPSFFRTVPSDTSQALAIVALLKHFGWTWVGLVYSDDDYGRSGLSDLEEELEKNGICIAFVEAIP 198 (348)
T ss_pred ecccCCChhhccccccCCeeEecCCcHHHHHHHHHHHHHCCCeEEEEEEecchhHHHHHHHHHHHHHHCCCcEEEEEEcc
Confidence 57888889998887899999999999999999999999999999999999999999999999999999999999999988
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
.+. +..++..++++|| .+++|+||++..
T Consensus 199 ~~~---~~~d~~~~l~~l~-~~~~~vvv~~~~ 226 (348)
T cd06350 199 PSS---TEEDIKRILKKLK-SSTARVIVVFGD 226 (348)
T ss_pred CCC---cHHHHHHHHHHHH-hCCCcEEEEEeC
Confidence 753 2579999999999 688899998864
No 12
>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=99.77 E-value=5.4e-18 Score=134.23 Aligned_cols=128 Identities=17% Similarity=0.267 Sum_probs=104.2
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
||++++++.++++..||+|+|+.|++ +.++++++++|+|++|++|+++++||.+..+.+.+.+++.|+||+..+.++
T Consensus 94 Is~~a~~~~lt~~~~y~~f~r~~~~~---~~~~~~~~~~~~w~~vaii~~~~~~~~~~~~~l~~~l~~~gi~v~~~~~~~ 170 (382)
T cd06371 94 FSWGCVNYELDDVRSYPTFARTLPSP---SRVLFTVLRYFRWAHVAIVSSPQDIWVETAQKLASALRAHGLPVGLVTSMG 170 (382)
T ss_pred EecccCchhhcCcccCCCceecCCCc---HHHHHHHHHHCCCeEEEEEEecccchHHHHHHHHHHHHHCCCcEEEEEEec
Confidence 57888999999877899999999987 466888999999999999999999999999999999999999999888887
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchhhhhHHHHHHHhcCc
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEETAYDDIVLKLLTKP 136 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~~~~~~~~~~~~~~~ 136 (144)
.+ +.|++.+|++||....+||||++.......|-+...++.++...-.++.
T Consensus 171 ~~-----~~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~qa~~~Gm~~~ 221 (382)
T cd06371 171 PD-----EKGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLETALEMGMTDG 221 (382)
T ss_pred CC-----HHHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHHHHHcCCcCC
Confidence 55 5799999999994334799999876544333344466666666555543
No 13
>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=99.77 E-value=8e-18 Score=134.20 Aligned_cols=108 Identities=30% Similarity=0.570 Sum_probs=97.2
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
|+++++++.++++..|||+||+.|++..++.++++++++|+|++|++++++++||....+.+.+.+++.|+||+..+.++
T Consensus 135 is~~~~~~~lt~~~~~~~~fr~~~~~~~~~~al~~~l~~~~~k~vaii~~~~~~g~~~~~~~~~~l~~~gi~i~~~~~~~ 214 (410)
T cd06363 135 ISYGASSEVLSNKELYPSFLRTVPSDKDQIEAMVQLLQEFGWNWVAFLGSDDEYGRDGLQLFSELIANTGICIAYQGLIP 214 (410)
T ss_pred ccccccCccccccccCCCeeEecCCcHHHHHHHHHHHHHCCCcEEEEEEeCChhHHHHHHHHHHHHHHCCeEEEEEEEec
Confidence 56788888898877799999999999999999999999999999999999999999999999999999999999988887
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.... .+.|++.+|++|| .+++++||++.
T Consensus 215 ~~~~--~~~d~~~~l~~i~-~~~~dvIil~~ 242 (410)
T cd06363 215 LDTD--PETDYQQILKQIN-QTKVNVIVVFA 242 (410)
T ss_pred CCCc--hHHHHHHHHHHHh-cCCCeEEEEEc
Confidence 5421 3689999999999 68899998865
No 14
>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=99.77 E-value=4.8e-18 Score=134.70 Aligned_cols=105 Identities=14% Similarity=0.237 Sum_probs=92.0
Q ss_pred CcccCCCCCCcC-CCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHH---HHHHHHHhhhCceEEEEE
Q psy12591 1 VSFWSTSPELSN-KQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKA---FEELEVLLAKYSICIAIK 76 (144)
Q Consensus 1 Is~~at~~~ls~-~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~---~~~~~~~l~~~Gi~V~~~ 76 (144)
||++++++.+++ +..||++||+.|++..++.++++++++|+|++|++|+++++||++. .+.|.+.+++.|+||+..
T Consensus 95 Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~W~~vaiiy~~~~~~~~~~~~~~~l~~~~~~~gi~v~~~ 174 (387)
T cd06386 95 ISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFHWRSALLVYEDDKQERNCYFTLEGVHHVFQEEGYHMSIY 174 (387)
T ss_pred EccccCchhhccCcccCCeeEEecCchHHHHHHHHHHHHhCCCeEEEEEEEcCCCCccceehHHHHHHHHHhcCceEEEE
Confidence 578888899987 6679999999999999999999999999999999999999999876 899999999999999876
Q ss_pred ecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 77 EKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
+.++.. +.++..+|++|| ... |+||+++.
T Consensus 175 ~~~~~~-----~~d~~~~l~~ik-~~~-rvii~~~~ 203 (387)
T cd06386 175 PFDETK-----DLDLDEIIRAIQ-ASE-RVVIMCAG 203 (387)
T ss_pred ecCCCC-----cccHHHHHHHHH-hcC-cEEEEecC
Confidence 655333 468999999999 454 99999875
No 15
>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=99.75 E-value=2.3e-17 Score=128.38 Aligned_cols=108 Identities=31% Similarity=0.541 Sum_probs=97.0
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
|+++++++.++++..+||+||+.|++..++.++++++++++|+++++++.+++||....+.+++.+++.|+||+..+.++
T Consensus 94 i~~~~~~~~l~~~~~~~~~~r~~p~~~~~~~a~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~ 173 (350)
T cd06366 94 LSFAATSPSLSSRLQYPYFFRTTPSDSSQNPAIAALLKKFGWRRVATIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFP 173 (350)
T ss_pred EeccCCCccccccccCCceEEcccchHhHHHHHHHHHHHCCCcEEEEEEEcCcccchhHHHHHHHHHHcCCEEEEEeccC
Confidence 46778888887777799999999999999999999999999999999999999999999999999999999999998887
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
.+. +..|+..+|++|+ .+++++|+++..
T Consensus 174 ~~~---~~~d~~~~l~~i~-~~~~dvvi~~~~ 201 (350)
T cd06366 174 PSA---NDDDITDALKKLK-EKDSRVIVVHFS 201 (350)
T ss_pred CCC---ChhHHHHHHHHHh-cCCCeEEEEECC
Confidence 752 2579999999999 678999998764
No 16
>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=99.72 E-value=7.6e-17 Score=128.36 Aligned_cols=109 Identities=21% Similarity=0.333 Sum_probs=94.2
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
|+++++++.++++..||+|||+.|++..++.++++++++|+|++|++|+++++||++..+.|++.+++.|+||+..+.++
T Consensus 95 Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~g~~~~~~~~~~~~~~g~~iv~~~~~~ 174 (404)
T cd06370 95 ISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSVIALLKHFNWNKFSVVYENDSKYSSVFETLKEEAELRNITISHVEYYA 174 (404)
T ss_pred EecccCCccccccccCCCeEEcCCCHHHHHHHHHHHHHHCCCcEEEEEEecCcccHHHHHHHHHHHHHcCCEEEEEEEEC
Confidence 47788888999887899999999999999999999999999999999999999999999999999999999999999887
Q ss_pred CCCCC--cchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 81 KDSGV--AEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 81 ~~~~~--~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+... ....++..+|++++ +.++++|++.
T Consensus 175 ~~~~~~~~~~~~~~~~l~~~~--~~~~~~v~~~ 205 (404)
T cd06370 175 DFYPPDPIMDNPFEDIIQRTK--ETTRIYVFIG 205 (404)
T ss_pred CCCCchhhhHHHHHHHHHhcc--CCCEEEEEEc
Confidence 65200 01468999999887 3578888765
No 17
>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=99.72 E-value=1.5e-16 Score=119.33 Aligned_cols=106 Identities=34% Similarity=0.623 Sum_probs=96.4
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
|+++++++.++++..+|+++|+.|++..++.++++++++++|++++++++++++|....+.+++.+++.|+|+.....++
T Consensus 99 is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~~v~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~ 178 (298)
T cd06269 99 ISYSATSPLLSDKEQFPSFLRTVPSDSSQAQAIVDLLKHFGWTWVGLVYSDDDYGRRLLELLEEELEKNGICVAFVESIP 178 (298)
T ss_pred EecccCchhhcChhhCCCeEecCCCcHHHHHHHHHHHHHCCCeEEEEEEecchhhHHHHHHHHHHHHHCCeeEEEEEEcC
Confidence 46777788888877899999999999999999999999999999999999999999999999999999999999988887
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
.. ..++..++++|+ ..++||||++..
T Consensus 179 ~~-----~~~~~~~l~~l~-~~~~~viv~~~~ 204 (298)
T cd06269 179 DG-----SEDIRRLLKELK-SSTARVIVVFSS 204 (298)
T ss_pred CC-----HHHHHHHHHHHH-hcCCcEEEEEec
Confidence 65 478999999999 677899999875
No 18
>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=99.71 E-value=1.2e-16 Score=127.08 Aligned_cols=105 Identities=19% Similarity=0.305 Sum_probs=86.1
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEE-EEEeCC-cchH---HHHHHHHHhhhCceEEEE
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSI-IYEESN-YGVK---AFEELEVLLAKYSICIAI 75 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vai-i~~~~~-~g~~---~~~~~~~~l~~~Gi~V~~ 75 (144)
||++++++.++++..||||||+.|++..++.++++++++|+|+++++ ++.+++ +++. ..+.+.+.+++.|+||+.
T Consensus 102 Is~~a~~~~l~~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii~~~~~~~~~~~~~~~~~l~~~~~~~gi~v~~ 181 (405)
T cd06385 102 VTAGAPALGFGVKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLIYSDNKVDDRPCYFAMEGLYMELKKNNITVVD 181 (405)
T ss_pred EccccChhhcCCcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEEEecCcccccchHHHHHHHHHHHHhCCeEEEE
Confidence 57889999999888899999999999999999999999999999995 555443 3333 568899999999999988
Q ss_pred EecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 76 KEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
.+ +... ++.+++.+|++|| . .+|+||+++.
T Consensus 182 ~~-~~~~----~~~d~~~~l~~ik-~-~~~iii~~~~ 211 (405)
T cd06385 182 LV-FEED----DLINYTTLLQDIK-Q-KGRVIYVCCS 211 (405)
T ss_pred ee-ccCC----chhhHHHHHHHHh-h-cceEEEEeCC
Confidence 76 4322 1578999999998 3 4599998774
No 19
>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=99.69 E-value=2.5e-16 Score=124.24 Aligned_cols=123 Identities=14% Similarity=0.094 Sum_probs=96.8
Q ss_pred CCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcc
Q psy12591 8 PELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAE 87 (144)
Q Consensus 8 ~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~ 87 (144)
..++++..+|+|+|+.|++.+|+.++++++++|+|++|++|++.++.+..+.+.+++.+...++|+.....++...+ .
T Consensus 101 ~~ls~~~~~p~flr~~Psd~~q~~Ai~~Ii~~f~W~~v~iV~~~~~g~~~~~~~l~~~~~~~~~~~~i~~~~~~~~~--~ 178 (362)
T cd06378 101 MIMAAKDSGSTFLQFGPSIEQQAAVMLKIMEEYDWHAFSVVTSRFPGYDDFVSAVRTTVDNSFVGWELQSVLTLDMS--D 178 (362)
T ss_pred ccccCCCCCceEEEeCCCHHHHHHHHHHHHHHCCCeEEEEEEEcCCCHHHHHHHHHHHHhhcccceeEEEEEeeccC--C
Confidence 46677778999999999999999999999999999999999999888888888888888777788766554444321 1
Q ss_pred hhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchhhhhHHHHHHHhcCccc
Q psy12591 88 ETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEETAYDDIVLKLLTKPRA 138 (144)
Q Consensus 88 ~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~ 138 (144)
+.++..++.+|| +.++|+||++++. -....++..+.....|++.|
T Consensus 179 ~~~~~~~l~~lk-~~~arViVl~~s~-----~~a~~if~~A~~~gm~g~~y 223 (362)
T cd06378 179 DDGDARTQRQLK-KLESQVILLYCSK-----EEAEYIFRAARSAGLTGPGY 223 (362)
T ss_pred CcchHHHHHHHH-hcCCCEEEEECCH-----HHHHHHHHHHHHcCCcCCCe
Confidence 334778888998 6889999999862 23356677777777777655
No 20
>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=99.68 E-value=4.1e-16 Score=120.10 Aligned_cols=108 Identities=31% Similarity=0.563 Sum_probs=86.8
Q ss_pred CcccCCCCCCcC-CCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhC-ceEEEEEec
Q psy12591 1 VSFWSTSPELSN-KQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKY-SICIAIKEK 78 (144)
Q Consensus 1 Is~~at~~~ls~-~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~-Gi~V~~~~~ 78 (144)
||++++++.|++ +..||+|+|+.|++..++.++++++++|+|++|++|++++++|.+..+.|++.+++. +.|+.....
T Consensus 79 is~~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~w~~v~vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 158 (348)
T PF01094_consen 79 ISPGSTSPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFGWTRVSVVYSDDDYGNSLADSFQDLLRERGGICVAFISV 158 (348)
T ss_dssp EESSGGSGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTTSSEEEEEEESSHHHHHHHHHHHHHHHHHTTCEEEEEEE
T ss_pred eeccccccccccchhhccccccccccHHHHHHHHHHhhhcCCCceeeeeccccccccccchhhhhhhcccccceeccccc
Confidence 578899999999 889999999999999999999999999999999999999999999999999999994 577766233
Q ss_pred ccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 79 LVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 79 ~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
..... .+..++...+.+ + +.++|+||+++.
T Consensus 159 ~~~~~--~~~~~~~~~l~~-~-~~~~rvvil~~~ 188 (348)
T PF01094_consen 159 VISSD--SDAEELLKKLKE-I-KSGARVVILCSS 188 (348)
T ss_dssp EETTT--SHHHHHHHHHHH-H-TTTTSEEEEESB
T ss_pred ccccc--cchhhhhhhhhh-c-cccceeeeeecc
Confidence 33321 123444445544 3 488999999875
No 21
>cd06373 PBP1_NPR_like Ligand binding domain of natriuretic peptide receptor (NPR) family. Ligand binding domain of natriuretic peptide receptor (NPR) family which consists of three different subtypes: type A natriuretic peptide receptor (NPR-A, or GC-A), type B natriuretic peptide receptors (NPR-B, or GC-B), and type C natriuretic peptide receptor (NPR-C). There are three types of natriuretic peptide (NP) ligands specific to the receptors: atrial NP (ANP), brain or B-type NP (BNP), and C-type NP (CNP). The NP family is thought to have arisen through gene duplication during evolution and plays an essential role in cardiovascular and body fluid homeostasis. ANP and BNP bind mainly to NPR-A, while CNP binds specifically to NPR-B. Both NPR-A and NPR-B have guanylyl cyclase catalytic activity and produces intracellular secondary messenger cGMP in response to peptide-ligand binding. Consequently, the NPR-A activation results in vasodilation and inhibition of vascular smooth muscle cell proli
Probab=99.66 E-value=7.8e-16 Score=122.00 Aligned_cols=106 Identities=17% Similarity=0.282 Sum_probs=88.2
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcc----hHHHHHHHHHhhhCceEEEEE
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYG----VKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g----~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
||++++++.|+++..||||||+.|++..++.++++++++|+|+++++++++++++ ....+.+.+.+++.|+||+..
T Consensus 101 Is~~as~~~lt~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~~~~~~~~~~~~~~~~~~~g~~v~~~ 180 (396)
T cd06373 101 LTAGAPAAGFSDKSEYSTLTRTGPSYTKLGEFVLALHEHFNWSRAALLYHDDKNDDRPCYFTLEGVYTVLKEENITVSDF 180 (396)
T ss_pred ECccCCccccccchhcCceeeccccHHHHHHHHHHHHHHcCCeEEEEEEECCCCCcchHHHHHHHHHHHHhhcCceeeEE
Confidence 5788888999986679999999999999999999999999999999999988764 557888999999999999754
Q ss_pred ecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 77 EKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
.+..+. ...|++.+|++|| .. +|+||+++.
T Consensus 181 -~~~~~~---~~~d~~~~l~~ik-~~-~~vii~~~~ 210 (396)
T cd06373 181 -PFDEDK---ELDDYKELLRDIS-KK-GRVVIMCAS 210 (396)
T ss_pred -eecCCc---cccCHHHHHHHHH-hc-CcEEEEecC
Confidence 354331 1368999999999 44 488888764
No 22
>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=99.66 E-value=1.1e-15 Score=121.50 Aligned_cols=127 Identities=12% Similarity=0.058 Sum_probs=96.2
Q ss_pred CcccCCCCCCcCC-CCCCceEEecCCchHHHHHHHHHHHhCCCc-EEEEEEEeCCc---ch-HHHHHHHHHhhhCceEEE
Q psy12591 1 VSFWSTSPELSNK-QRFEYFTRTIPSDHHQVKAMVEIVKKLGWS-YVSIIYEESNY---GV-KAFEELEVLLAKYSICIA 74 (144)
Q Consensus 1 Is~~at~~~ls~~-~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~-~Vaii~~~~~~---g~-~~~~~~~~~l~~~Gi~V~ 74 (144)
|+++++++.++++ ..||+|||+.|++..++.++..++++|+|+ ++++|+.++.+ +. ...+.+.+.++++|+||+
T Consensus 101 Is~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaiiy~~~~~~~~~~~~~~~~~~~~~~~~gi~v~ 180 (399)
T cd06384 101 ITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALLYLDLKTDDRPHYFISEGVFLALQEENANVS 180 (399)
T ss_pred EeeccchhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEEEecCCccCCcceEehHHHHHHHHhcCceEE
Confidence 5788888889876 579999999999999999988899999999 58899865322 21 135667788899999998
Q ss_pred EEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchhhhhHHHHHHHhcCcccc
Q psy12591 75 IKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEETAYDDIVLKLLTKPRAR 139 (144)
Q Consensus 75 ~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~ 139 (144)
..+.+..+ +.|++.+|++|| . ++||||+++. ......+..++..+-.++|.|-
T Consensus 181 ~~~~~~~~-----~~d~~~~l~~ik-~-~~~vIi~~~~-----~~~~~~i~~qa~~~g~~~~~y~ 233 (399)
T cd06384 181 AHPYHIEK-----NSDIIEIIQFIK-Q-NGRIVYICGP-----LETFLEIMLQAQREGLTPGDYV 233 (399)
T ss_pred EEEEeccc-----hhhHHHHHHHHh-h-cccEEEEeCC-----chHHHHHHHHHHHcCCCCCcEE
Confidence 76554433 579999999999 4 7999998764 2233455667666666666553
No 23
>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=99.66 E-value=2.1e-15 Score=116.05 Aligned_cols=105 Identities=22% Similarity=0.242 Sum_probs=94.7
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
|+++++++.++++..++||||+.|++..++.++++++.+++|+++++++.+++||+...+.+++.+++.|++|+..+.++
T Consensus 96 i~~~~~~~~l~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~~vail~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~ 175 (312)
T cd06346 96 ISPSSTSPTLTTLDDNGLFFRTAPSDALQGQALAQLAAERGYKSVATTYINNDYGVGLADAFTKAFEALGGTVTNVVAHE 175 (312)
T ss_pred EecCCCCccceecCCCceEEEecCCcHHHHHHHHHHHHHcCCCeEEEEEccCchhhHHHHHHHHHHHHcCCEEEEEEeeC
Confidence 45677788888876689999999999999999999999999999999999999999999999999999999999988887
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+ +.||+.++++|+ ..++++|++..
T Consensus 176 ~~-----~~d~~~~v~~l~-~~~pd~v~~~~ 200 (312)
T cd06346 176 EG-----KSSYSSEVAAAA-AGGPDALVVIG 200 (312)
T ss_pred CC-----CCCHHHHHHHHH-hcCCCEEEEec
Confidence 66 578999999999 68899988764
No 24
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=99.63 E-value=3.6e-15 Score=117.58 Aligned_cols=106 Identities=17% Similarity=0.320 Sum_probs=93.2
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCC-cchHHHHHHHHHhhhCceEEEEEecc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESN-YGVKAFEELEVLLAKYSICIAIKEKL 79 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~-~g~~~~~~~~~~l~~~Gi~V~~~~~~ 79 (144)
|+++++++.++++..|||+||+.|++..++.++++++++++|++++++++++. ||....+.+.+.+++.|+||+..+.+
T Consensus 96 Is~~~~~~~~~~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~~v~ii~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~ 175 (389)
T cd06352 96 ISWGCVALSLSDKSEYPTLTRTLPPARKLGEAVLALLRWFNWHVAVVVYSDDSENCFFTLEALEAALREFNLTVSHVVFM 175 (389)
T ss_pred ecccccccccCccccCCceeecCCcHHHHHHHHHHHHHHcCceEEEEEEecCCccHHHHHHHHHHHHHhcCCeEEEEEEe
Confidence 46788888888776799999999999999999999999999999999999887 99999999999999999999999888
Q ss_pred cCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 80 VKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 80 ~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+.+. ...++..+|++++ ... |+||+++
T Consensus 176 ~~~~---~~~d~~~~l~~i~-~~~-~vii~~~ 202 (389)
T cd06352 176 EDNS---GAEDLLEILQDIK-RRS-RIIIMCG 202 (389)
T ss_pred cCCc---cchhHHHHHHHhh-hcc-eEEEEEC
Confidence 7652 1468999999999 455 8888765
No 25
>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=99.59 E-value=1.5e-14 Score=114.49 Aligned_cols=105 Identities=12% Similarity=0.288 Sum_probs=82.8
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeC---Ccc--hHHHHHHHHHhhhCceEEEE
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEES---NYG--VKAFEELEVLLAKYSICIAI 75 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~---~~g--~~~~~~~~~~l~~~Gi~V~~ 75 (144)
||++++++.++++..||+++|+.|++..++.++++++++|+|++|+++++++ .|+ ....+.+.+.++ .|+++..
T Consensus 96 is~~s~s~~ls~~~~~~~~~r~~p~~~~~~~a~~~l~~~~~w~~vaii~~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~~ 174 (391)
T cd06372 96 FGFVGQTAKLDNRFLYDTYVKLVPPKQKIGEVLQKSLQHFGWKHIGLFGGSSRDSSWDEVDELWKAVENQLK-FHFNITA 174 (391)
T ss_pred EEeecCCccccccccCCceEEecCchhhHHHHHHHHHHHCCCeEEEEEEeccccchhhhHHHHHHHHHHHHh-hCEEEEE
Confidence 5788889999988889999999999999999999999999999999998542 344 234555566664 6799988
Q ss_pred EecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 76 KEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
.+.+..+ +.++...+.+.+ .+++|+||+++.
T Consensus 175 ~~~~~~~-----~~d~~~~~l~~~-~~~~~vii~~~~ 205 (391)
T cd06372 175 TVRYSSS-----NPDLLQEKLRYI-SSVARVIILICS 205 (391)
T ss_pred EEecCCC-----ChHHHHHHHHhh-hccceEEEEEcC
Confidence 8877655 356766665666 478999998864
No 26
>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=99.55 E-value=5.1e-14 Score=109.23 Aligned_cols=104 Identities=15% Similarity=0.187 Sum_probs=90.9
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCC--CcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEec
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLG--WSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEK 78 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~--W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~ 78 (144)
|+++++++.++ +..+|++||+.|++..++.++++++++++ |+++++++.++.||....+.+.+.+++.|++|+....
T Consensus 99 i~~~~~~~~~~-~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~ 177 (345)
T cd06338 99 VAGSGASDSIF-AQGFKYVFGTLPPASQYAKSLLEMLVALDPRPKKVAILYADDPFSQDVAEGAREKAEAAGLEVVYDET 177 (345)
T ss_pred EecCCCCchHh-hcCCceEEEecCchHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHHcCCEEEEEec
Confidence 35566666666 44689999999999999999999999888 9999999999999999999999999999999998887
Q ss_pred ccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 79 LVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 79 ~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
++.+ ..||+.++++|+ ..++++|+++.
T Consensus 178 ~~~~-----~~d~~~~v~~l~-~~~~d~i~~~~ 204 (345)
T cd06338 178 YPPG-----TADLSPLISKAK-AAGPDAVVVAG 204 (345)
T ss_pred cCCC-----ccchHHHHHHHH-hcCCCEEEECC
Confidence 8755 468999999999 68899998765
No 27
>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=99.52 E-value=2.2e-13 Score=105.96 Aligned_cols=105 Identities=16% Similarity=0.333 Sum_probs=90.8
Q ss_pred cccCCCCCCcC---CCCCCceEEecCCchHHHHHHHHHHHh-----CCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEE
Q psy12591 2 SFWSTSPELSN---KQRFEYFTRTIPSDHHQVKAMVEIVKK-----LGWSYVSIIYEESNYGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 2 s~~at~~~ls~---~~~~p~ffRt~p~d~~~~~a~~~ll~~-----f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V 73 (144)
+++++++.+++ +..+|++||+.|++..++..++.++++ ++|++|++++.++.||......+++.+++.|++|
T Consensus 96 ~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~va~l~~~~~~g~~~~~~~~~~~~~~G~~v 175 (344)
T cd06345 96 VTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKETLVDKHGFKTAAIVAEDAAWGKGIDAGIKALLPEAGLEV 175 (344)
T ss_pred eccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHHhhcccCCCceEEEEecCchhhhHHHHHHHHHHHHcCCeE
Confidence 55666677763 556999999999999999999998875 8999999999999999999999999999999999
Q ss_pred EEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 74 AIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
+..+.++.+ ..+++.++++|+ .+++++|++...
T Consensus 176 v~~~~~~~~-----~~d~~~~v~~l~-~~~~d~v~~~~~ 208 (344)
T cd06345 176 VSVERFSPD-----TTDFTPILQQIK-AADPDVIIAGFS 208 (344)
T ss_pred EEEEecCCC-----CCchHHHHHHHH-hcCCCEEEEeec
Confidence 988888765 468999999999 688998887653
No 28
>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=99.51 E-value=2.3e-13 Score=107.73 Aligned_cols=102 Identities=19% Similarity=0.372 Sum_probs=82.3
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
|+++++++.++++ .++|+|+.|++..++.++++++++|+|++|+++|++++ |....+.|.+.+++.|+||+. +.++
T Consensus 100 Is~~~t~~~lt~~--~~~~~~~~~~~~~~~~a~~~~~~~~~wk~vaily~~~~-g~~~l~~~~~~~~~~g~~v~~-~~~~ 175 (384)
T cd06393 100 IQLRWKHHPLDNK--DTFYVNLYPDYASLSHAILDLVQYLKWRSATVVYDDST-GLIRLQELIMAPSRYNIRLKI-RQLP 175 (384)
T ss_pred EeccCCCcccCcc--ceeEEEeccCHHHHHHHHHHHHHHcCCcEEEEEEeCch-hHHHHHHHHHhhhccCceEEE-EECC
Confidence 4677888888865 35778888888899999999999999999999998764 655566788888899999986 4465
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
.+ +.||+.+|++|| ..++++||+.+.
T Consensus 176 ~~-----~~d~~~~L~~ik-~~~~~~iil~~~ 201 (384)
T cd06393 176 TD-----SDDARPLLKEMK-RGREFRIIFDCS 201 (384)
T ss_pred CC-----chHHHHHHHHHh-hcCceEEEEECC
Confidence 44 579999999999 677887777653
No 29
>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=99.47 E-value=6.3e-13 Score=102.38 Aligned_cols=103 Identities=20% Similarity=0.262 Sum_probs=88.6
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHH-HhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIV-KKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll-~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
+++++++.+++. .||++||+.|++..++.++++++ ++++|++|++++.+++||+...+.+.+.+++.|++|+..+.++
T Consensus 95 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~ 173 (334)
T cd06342 95 SPAATNPKLTER-GYKNVFRVVARDDQQGPAAAKYAVETLKAKKVAIIDDKTAYGQGLADEFKKALKAAGGKVVAREGTT 173 (334)
T ss_pred ecCCCCchhhcC-CCceEEeccCCcHHHHHHHHHHHHHhcCCCEEEEEeCCcchhhHHHHHHHHHHHHcCCEEEEEecCC
Confidence 455555556554 58999999999999999999975 6789999999999999999999999999999999999988887
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+ ..+++.++.+|+ ..++++|++..
T Consensus 174 ~~-----~~d~~~~l~~i~-~~~~~~vi~~~ 198 (334)
T cd06342 174 DG-----ATDFSAILTKIK-AANPDAVFFGG 198 (334)
T ss_pred CC-----CccHHHHHHHHH-hcCCCEEEEcC
Confidence 65 468999999999 67889888753
No 30
>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=99.46 E-value=6.5e-13 Score=103.86 Aligned_cols=104 Identities=15% Similarity=0.183 Sum_probs=90.9
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHH-HHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEI-VKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~l-l~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
++.++++.++++..+||+||+.|++..++.+++++ +++++|+++++++.++.||....+.+.+.+++.|+|++..+.++
T Consensus 103 ~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~ii~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~ 182 (362)
T cd06343 103 FPASGASKWNDPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAKIAVLYQNDDFGKDYLKGLKDGLGDAGLEIVAETSYE 182 (362)
T ss_pred ecccccHhhhCCCCCCceEecCCChHHHHHHHHHHHHHhCCCceEEEEEeccHHHHHHHHHHHHHHHHcCCeEEEEeeec
Confidence 44455666777656999999999999999999996 56789999999999999999999999999999999999988887
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+ ..|++.++++|+ ..++++|+++.
T Consensus 183 ~~-----~~d~~~~v~~i~-~~~~d~v~~~~ 207 (362)
T cd06343 183 VT-----EPDFDSQVAKLK-AAGADVVVLAT 207 (362)
T ss_pred CC-----CccHHHHHHHHH-hcCCCEEEEEc
Confidence 65 568999999999 68899998865
No 31
>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=99.46 E-value=1.4e-12 Score=102.94 Aligned_cols=101 Identities=14% Similarity=0.329 Sum_probs=76.4
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCc--eEEEEEec
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYS--ICIAIKEK 78 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~G--i~V~~~~~ 78 (144)
|+++++.+.+++ .+||+||+.|+. ..++++++++++|++|++++++++ |....+.+.+.+++.| +.|... .
T Consensus 90 i~~~~~~~~l~~--~~~~~fr~~p~~---~~a~~~~~~~~~wk~vaii~~~~~-~~~~~~~~~~~~~~~g~~i~v~~~-~ 162 (382)
T cd06380 90 ITPSFPTNDLDD--GNQFVLQMRPSL---IQALVDLIEHYGWRKVVYLYDSDR-GLLRLQQLLDYLREKDNKWQVTAR-R 162 (382)
T ss_pred EecCCCcccCCC--CCcEEEEeccch---hHHHHHHHHhcCCeEEEEEECCCc-chHHHHHHHHHHhccCCceEEEEE-E
Confidence 456677777743 589999998863 458889999999999999998775 5566777888888888 666543 2
Q ss_pred ccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 79 LVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 79 ~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
+.... .+.||+.+|++|| ..++|+||+.+.
T Consensus 163 ~~~~~---~~~d~~~~L~~ik-~~~~~~iil~~~ 192 (382)
T cd06380 163 VDNVT---DEEEFLRLLEDLD-RRKEKRIVLDCE 192 (382)
T ss_pred ecCCC---cHHHHHHHHHHhh-cccceEEEEECC
Confidence 33221 2579999999999 678999998754
No 32
>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=99.45 E-value=6e-13 Score=103.82 Aligned_cols=103 Identities=17% Similarity=0.267 Sum_probs=89.0
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCC------CcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEE
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLG------WSYVSIIYEESNYGVKAFEELEVLLAKYSICIAI 75 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~------W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~ 75 (144)
+++++++.++.. .+||+||+.|++..++.++++++.+++ |+++++++.++.||....+.+...+++.|++|+.
T Consensus 99 ~~~~~~~~l~~~-~~~~~fr~~p~~~~~~~~~~~~l~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~G~~vv~ 177 (347)
T cd06340 99 VDGAVSDSITER-GFKYTFRITPHDGMFTRDMFDFLKDLNEKTGKPLKTVALVHEDTEFGTSVAEAIKKFAKERGFEIVE 177 (347)
T ss_pred eccccchHHhhc-CCceEEecCCChHHHHHHHHHHHHHhhHhcCCCCceEEEEecCchHhHHHHHHHHHHHHHcCCEEEE
Confidence 445566667643 589999999999999999999988764 5999999999999999999999999999999999
Q ss_pred EecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 76 KEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+.++.+ +.||+.++.+|+ ..++++|++..
T Consensus 178 ~~~~~~~-----~~d~~~~i~~l~-~~~~d~v~~~~ 207 (347)
T cd06340 178 DISYPAN-----ARDLTSEVLKLK-AANPDAILPAS 207 (347)
T ss_pred eeccCCC-----CcchHHHHHHHH-hcCCCEEEEcc
Confidence 8888765 468999999999 68899888764
No 33
>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=99.45 E-value=1.1e-12 Score=102.43 Aligned_cols=103 Identities=17% Similarity=0.125 Sum_probs=90.3
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccC
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVK 81 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~ 81 (144)
++.++++.++.. .+|++||+.|++..++.+++++++..+|++|++++.|+.||....+.+++.+++.|++|+....++.
T Consensus 99 ~~~~~~~~~~~~-~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~~~l~~~G~~vv~~~~~~~ 177 (347)
T cd06336 99 TAYSSDLSIDTA-GNPLTFRVPPIYNVYGVPFLAYAKKPGGKKVALLGPNDAYGQPWVAAYKAAWEAAGGKVVSEEPYDP 177 (347)
T ss_pred eccCCccccccc-CCceEEEecCCchhHHHHHHHHHhhcCCceEEEEccCCchhHHHHHHHHHHHHHcCCEEeeecccCC
Confidence 455666666633 4799999999999999999999887999999999999999999999999999999999998888876
Q ss_pred CCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 82 DSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 82 ~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+ ..||+.++.+|| .+++++|+++.
T Consensus 178 ~-----~~D~s~~i~~i~-~~~~d~v~~~~ 201 (347)
T cd06336 178 G-----TTDFSPIVTKLL-AEKPDVIFLGG 201 (347)
T ss_pred C-----CcchHHHHHHHH-hcCCCEEEEcC
Confidence 5 578999999999 68899988764
No 34
>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=99.44 E-value=1.3e-12 Score=100.90 Aligned_cols=116 Identities=16% Similarity=0.214 Sum_probs=81.8
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCce---EEEEEe
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSI---CIAIKE 77 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi---~V~~~~ 77 (144)
|+++++++.++ .++++||+.|++..++.++++++++++|+++++++++++++..+. +.+++.|. .+.. +
T Consensus 91 Is~~~~~~~~~---~~~~~fr~~p~~~~~~~a~~~~~~~~~w~~vavl~~~~~~~~~l~----~~~~~~~~~g~~v~~-~ 162 (327)
T cd06382 91 IQTRWDPEPKS---NRQFTINLYPSNADLSRAYADIVKSFNWKSFTIIYESAEGLLRLQ----ELLQAFGISGITITV-R 162 (327)
T ss_pred eeccCCcCccc---cccceEEeCCCHHHHHHHHHHHHHhcCCcEEEEEecChHHHHHHH----HHHHhhccCCCeEEE-E
Confidence 35566666665 367899999999999999999999999999999999988765544 44444444 3443 4
Q ss_pred cccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchhhhhHHHHHHHhcCc
Q psy12591 78 KLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEETAYDDIVLKLLTKP 136 (144)
Q Consensus 78 ~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~~~~~~~~~~~~~~~ 136 (144)
.++.+ . ||+.+|++|| ..++++||+++. +-+...++.++.....++|
T Consensus 163 ~~~~~-----~-d~~~~l~~i~-~~~~d~vv~~~~-----~~~~~~~~~qa~~~g~~~~ 209 (327)
T cd06382 163 QLDDD-----L-DYRPLLKEIK-NSGDNRIIIDCS-----ADILIELLKQAQQVGMMSE 209 (327)
T ss_pred EccCC-----c-cHHHHHHHHH-hcCceEEEEECC-----HHHHHHHHHHHHHhCcccc
Confidence 45443 4 8999999999 688999988764 2223344444444444443
No 35
>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=99.42 E-value=2.7e-12 Score=101.43 Aligned_cols=87 Identities=15% Similarity=0.286 Sum_probs=77.0
Q ss_pred CCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHH
Q psy12591 16 FEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIV 95 (144)
Q Consensus 16 ~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l 95 (144)
.+|+.++.|+ +++|+++++++|+|++|++||+++ ||....+.|.+.++++|+||.....++.+ +.+++.+|
T Consensus 94 ~~~~i~~~P~---~~~Ai~diI~~~~W~~v~iIYd~d-~g~~~lq~l~~~~~~~~~~I~~~~~~~~~-----~~d~~~~L 164 (364)
T cd06390 94 NQFVLQLRPE---LQDALISVIEHYKWQKFVYIYDAD-RGLSVLQKVLDTAAEKNWQVTAVNILTTT-----EEGYRKLF 164 (364)
T ss_pred CceEEEeChh---HHHHHHHHHHHcCCcEEEEEEeCC-ccHHHHHHHHHhhhccCceeeEEEeecCC-----hHHHHHHH
Confidence 4578999997 899999999999999999999655 99999999999999999999987766533 56899999
Q ss_pred HHHhcCCCceEEEEeeE
Q psy12591 96 LKLLTKPRARGLFKRLK 112 (144)
Q Consensus 96 ~~lk~~~~arvii~~~~ 112 (144)
++|| +.++|+||++++
T Consensus 165 ~~ik-~~~~rvIVl~~~ 180 (364)
T cd06390 165 QDLD-KKKERLIVVDCE 180 (364)
T ss_pred Hhcc-ccCCeEEEEECC
Confidence 9998 789999999874
No 36
>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=99.41 E-value=2.1e-12 Score=100.50 Aligned_cols=104 Identities=17% Similarity=0.203 Sum_probs=89.6
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCC-CcEEEEEEEeCCcchHHHHHHHHHhhh--CceEEEEEec
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLG-WSYVSIIYEESNYGVKAFEELEVLLAK--YSICIAIKEK 78 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~-W~~Vaii~~~~~~g~~~~~~~~~~l~~--~Gi~V~~~~~ 78 (144)
+++++++.+++...+|++||+.|++..++..+++++...+ |+++++++.++.||....+.+.+.+++ .|++|+..+.
T Consensus 102 ~~~~~~~~~~~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~~~k~v~i~~~~~~~g~~~~~~~~~~~~~~~~G~~vv~~~~ 181 (342)
T cd06329 102 NYASVAPALTGEKCSFWHFRTDANTDMKMEALASYIKKQPDGKKVYLINQDYSWGQDVAAAFKAMLAAKRPDIQIVGEDL 181 (342)
T ss_pred ecCCCCchhhhccCcceEEEecCChHHHHHHHHHHHHhcccCceEEEEeCChHHHHHHHHHHHHHHHhhcCCcEEeceec
Confidence 4455666777655689999999999999999999987765 999999999999999999999999999 9999998877
Q ss_pred ccCCCCCcch-hhHHHHHHHHhcCCCceEEEEee
Q psy12591 79 LVKDSGVAEE-TAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 79 ~~~~~~~~~~-~~~~~~l~~lk~~~~arvii~~~ 111 (144)
++.+ . .|++.++++|+ ..++++|++..
T Consensus 182 ~~~~-----~~~d~~~~i~~l~-~~~~d~v~~~~ 209 (342)
T cd06329 182 HPLG-----KVKDFSPYVAKIK-ASGADTVITGN 209 (342)
T ss_pred cCCC-----CCCchHHHHHHHH-HcCCCEEEEcc
Confidence 7655 4 68999999999 68888888754
No 37
>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=99.40 E-value=5.4e-12 Score=98.46 Aligned_cols=104 Identities=15% Similarity=0.220 Sum_probs=88.3
Q ss_pred cccCCCCCCcCC-CCCCceEEecCCchHHHHHHHHHH-HhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecc
Q psy12591 2 SFWSTSPELSNK-QRFEYFTRTIPSDHHQVKAMVEIV-KKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKL 79 (144)
Q Consensus 2 s~~at~~~ls~~-~~~p~ffRt~p~d~~~~~a~~~ll-~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~ 79 (144)
++.++.+.++.. ..++|+||+.|++..++.++++++ ++.+|++|++++.+++||+...+.+.+.+++.|++++....+
T Consensus 96 ~~~~~~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~ 175 (347)
T cd06335 96 GPWAAGTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKKVALLLDNTGWGRSNRKDLTAALAARGLKPVAVEWF 175 (347)
T ss_pred ecCCCCcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCeEEEEeccCchhhhHHHHHHHHHHHcCCeeEEEeee
Confidence 445555556543 347899999999999999999976 567799999999999999999999999999999999988888
Q ss_pred cCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 80 VKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 80 ~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+.+ ..|++.++++|+ ..++++|++..
T Consensus 176 ~~~-----~~d~s~~i~~i~-~~~~d~v~~~~ 201 (347)
T cd06335 176 NWG-----DKDMTAQLLRAK-AAGADAIIIVG 201 (347)
T ss_pred cCC-----CccHHHHHHHHH-hCCCCEEEEEe
Confidence 765 468999999999 68898888765
No 38
>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=99.40 E-value=3.1e-12 Score=100.37 Aligned_cols=104 Identities=14% Similarity=0.159 Sum_probs=88.8
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCC-----CcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEE
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLG-----WSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~-----W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
+++++++.+++...+||+||+.|++..++.++++++...+ .++|++++.|+.||+...+.+.+.+++.|++|+..
T Consensus 95 ~~~~~~~~~~~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~~~~~~~~~~G~~vv~~ 174 (351)
T cd06334 95 SGSYGATLADDGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIEALKALAEKLGFEVVLE 174 (351)
T ss_pred ecccchhhccCCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHHHHHHHHHHcCCeeeee
Confidence 3444455555455699999999999999999999886654 69999999999999999999999999999999988
Q ss_pred ecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 77 EKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+.++.+ ..||+.++.+|| ..++++|++..
T Consensus 175 ~~~~~~-----~~D~~~~v~~i~-~~~pd~V~~~~ 203 (351)
T cd06334 175 PVPPPG-----PNDQKAQWLQIR-RSGPDYVILWG 203 (351)
T ss_pred ccCCCC-----cccHHHHHHHHH-HcCCCEEEEec
Confidence 888766 579999999999 68899998764
No 39
>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=99.40 E-value=3.6e-12 Score=98.06 Aligned_cols=118 Identities=14% Similarity=0.226 Sum_probs=82.7
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
|+++++++.++. .+++.| .|++..++.++++++++++|+++++++++++++.. .+.+.+.++++|++|+..+..
T Consensus 90 is~~~~~~~~~~--~~~~~~--~~~~~~~~~a~~~~~~~~~w~~vaii~~~~~~~~~-l~~~~~~~~~~g~~v~~~~~~- 163 (324)
T cd06368 90 ITTSWSPNPKPR--QFTINL--YPSMRDLSDALLDLIKYFGWRKFVYIYDSDEGLLR-LQELLDALSPKGIQVTVRRLD- 163 (324)
T ss_pred EEecCCcCCCCC--cceEEe--cCCHHHHHHHHHHHHHhcCCCEEEEEECCcHhHHH-HHHHHHhhccCCceEEEEEec-
Confidence 456677776662 355544 47777999999999999999999999987765544 455667788889999876533
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchhhhhHHHHHHHhcC
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEETAYDDIVLKLLTK 135 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~~~~~~~~~~~~~~ 135 (144)
.. ..|++.+|++|| ..++++||+++. +-+...+++++.....+.
T Consensus 164 ~~-----~~d~~~~l~~i~-~~~~d~Vi~~~~-----~~~~~~i~~qa~~~g~~~ 207 (324)
T cd06368 164 DD-----TDMYRPLLKEIK-REKERRIILDCS-----PERLKEFLEQAVEVGMMS 207 (324)
T ss_pred CC-----chHHHHHHHHHh-hccCceEEEECC-----HHHHHHHHHHHHHhcccc
Confidence 33 238999999999 688999988763 233334455544443333
No 40
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=99.39 E-value=2.7e-12 Score=101.34 Aligned_cols=103 Identities=17% Similarity=0.270 Sum_probs=90.0
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHH-HhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIV-KKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKL 79 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll-~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~ 79 (144)
|++.++++.+++. .+||+||+.|.+..++.++++++ +.++|+++++++.|+.||+...+.+.+.+++.|++++..+.+
T Consensus 120 i~~~s~~~~l~~~-~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~va~i~~d~~~g~~~~~~~~~~~~~~G~~v~~~~~~ 198 (369)
T PRK15404 120 ITPAATAPELTAR-GYQLIFRTIGLDSDQGPTAAKYILEKVKPKRIAVLHDKQQYGEGLARSVKDGLKKAGANVVFFEGI 198 (369)
T ss_pred EecCCCCHHHhcC-CCceEEeCCCCcHHHHHHHHHHHHHhcCCCEEEEEeCCCchhHHHHHHHHHHHHHcCCEEEEEEee
Confidence 3566777888763 58999999999999999999965 667999999999999999999999999999999999988888
Q ss_pred cCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 80 VKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 80 ~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
+.+ ..||+.++++|| ..++++|++.
T Consensus 199 ~~g-----~~D~~~~v~~l~-~~~~d~v~~~ 223 (369)
T PRK15404 199 TAG-----DKDFSALIAKLK-KENVDFVYYG 223 (369)
T ss_pred CCC-----CCchHHHHHHHH-hcCCCEEEEC
Confidence 776 468999999999 6889988753
No 41
>cd06383 PBP1_iGluR_AMPA_Like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excitatory synaptic current.
Probab=99.39 E-value=6.7e-12 Score=99.30 Aligned_cols=108 Identities=13% Similarity=0.081 Sum_probs=74.3
Q ss_pred CCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcch-HHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH
Q psy12591 15 RFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGV-KAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD 93 (144)
Q Consensus 15 ~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~-~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~ 93 (144)
+||+|+|+.|++..++.++++++++|+|++|++||++++.+. ...+.+++.....++|+. +.. ..++..
T Consensus 106 ~~p~~ir~~Ps~~~~~~Ai~dlI~~f~W~~v~iIYddd~gl~~~l~~~l~~~~~~~~~~v~-----~~~-----~~~~~~ 175 (368)
T cd06383 106 EQPYLIQLMPPADDIVEAIRDIVSYYNITNAAILYDDDFVMDHKYKSLLQNWPTRHVITII-----NSI-----IDEVRE 175 (368)
T ss_pred cCceEEEEeCChHHHHHHHHHHHHHCCCcEEEEEEEcCchhhHHHHHHHHhHHhcCCEEEE-----ecc-----chhHHH
Confidence 699999999999999999999999999999999997776544 233344434445566653 111 246889
Q ss_pred HHHHHhcCCCc-eEEEEeeEEeeeCCcchhhhhHHHHHHHhcCccc
Q psy12591 94 IVLKLLTKPRA-RGLFKRLKLVKDSGVAEETAYDDIVLKLLTKPRA 138 (144)
Q Consensus 94 ~l~~lk~~~~a-rvii~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~ 138 (144)
+|++|| ..++ ||||.+.. .-....++..+.....++..|
T Consensus 176 ~Lk~lk-~~~~~rIIi~~s~-----~~~~~~il~qA~~lgm~~~~y 215 (368)
T cd06383 176 QIKRLR-NLDIKNIFILGST-----EEIIRYVLDQALAEGFMGRKY 215 (368)
T ss_pred HHHHHH-hCCCeEEEEEeCC-----HHHHHHHHHHHHHcCCcCCce
Confidence 999999 5667 55555442 012344556666555555554
No 42
>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=99.39 E-value=8.4e-12 Score=93.42 Aligned_cols=105 Identities=25% Similarity=0.409 Sum_probs=88.0
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccC
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVK 81 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~ 81 (144)
++.+..+.++++..+|++||+.|++..++..+++++++++|+++++++.++.+|....+.+++.+++.|+++.....++.
T Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv~~~~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~ 175 (299)
T cd04509 96 SPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAILYDDDSYGRGLLEAFKAAFKKKGGTVVGEEYYPL 175 (299)
T ss_pred eccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEEecCchHHHHHHHHHHHHHHHcCCEEEEEecCCC
Confidence 34445555555556999999999999999999999999999999999999889999999999999999999987766665
Q ss_pred CCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 82 DSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 82 ~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
+ ..++...+++++ ..++++|+++..
T Consensus 176 ~-----~~~~~~~~~~l~-~~~~~~v~~~~~ 200 (299)
T cd04509 176 G-----TTDFTSLLQKLK-AAKPDVIVLCGS 200 (299)
T ss_pred C-----CccHHHHHHHHH-hcCCCEEEEccc
Confidence 4 357889999998 566888888764
No 43
>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=99.39 E-value=7.2e-12 Score=97.20 Aligned_cols=102 Identities=15% Similarity=0.236 Sum_probs=88.1
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHH-HhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIV-KKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll-~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
+++++.+.+++. .+|+||+.|++..++.++++++ ++++|+++++++.+++||......+...+++.|++|+....++
T Consensus 96 ~~~~~~~~~~~~--~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~ 173 (340)
T cd06349 96 SPTNSHPDFTKG--GDFIFRNSTSQAIEAPLLADYAVKDLGFKKVAILSVNTDWGRTSADIFVKAAEKLGGQVVAHEEYV 173 (340)
T ss_pred ecCCCCCccccC--CCeEEEccCCcHHHHHHHHHHHHHHcCCcEEEEEecCChHhHHHHHHHHHHHHHcCCEEEEEEEeC
Confidence 455566666653 6899999999999999999975 7789999999999999999999999999999999999888777
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+ ..|++.++.+|+ .+++++|++..
T Consensus 174 ~~-----~~d~~~~v~~l~-~~~~d~v~~~~ 198 (340)
T cd06349 174 PG-----EKDFRPTITRLR-DANPDAIILIS 198 (340)
T ss_pred CC-----CCcHHHHHHHHH-hcCCCEEEEcc
Confidence 65 468999999999 68899988765
No 44
>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=99.39 E-value=7.6e-12 Score=95.82 Aligned_cols=125 Identities=17% Similarity=0.190 Sum_probs=86.4
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccC
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVK 81 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~ 81 (144)
+++++.+.++++..+|+++|+.|++..++.++++++++|+|++++++|+++++.....+ +.+.....|.++... .+..
T Consensus 92 s~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~~~~l~~~~w~~v~iiy~~~~~~~~l~~-~~~~~~~~~~~v~~~-~~~~ 169 (328)
T cd06351 92 SISGGSEGLSDKEESSTTLQLYPSLEDLADALLDLLEYYNWTKFAIIYDSDEGLSRLQE-LLDESGIKGIQVTVR-RLDL 169 (328)
T ss_pred EeecCcccccccccccceEEecCCHHHHHHHHHHHHHHcCCcEEEEEEeCchHHHHHHH-HHHhhcccCceEEEE-EecC
Confidence 45666676776567999999999999999999999999999999999999886544433 333333445555443 4444
Q ss_pred CCCCcchhhHHHHHHHHhcCCCc-eEEEEeeEEeeeCCcchhhhhHHHHHHHhcCcccc
Q psy12591 82 DSGVAEETAYDDIVLKLLTKPRA-RGLFKRLKLVKDSGVAEETAYDDIVLKLLTKPRAR 139 (144)
Q Consensus 82 ~~~~~~~~~~~~~l~~lk~~~~a-rvii~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~ 139 (144)
+ ..+++.+|++++ ..++ ++|+++... -....++.++.....+++.|.
T Consensus 170 ~-----~~~~~~~l~~l~-~~~~~~vil~~~~~-----~~~~~~l~~a~~~gm~~~~~~ 217 (328)
T cd06351 170 D-----DDNYRQLLKELK-RSESRRIILDCSSE-----EEAKEILEQAVELGMMGYGYH 217 (328)
T ss_pred C-----chhHHHHHHHHh-hcccceEEEECCcH-----HHHHHHHHHHHHhccccCCcE
Confidence 3 237999999999 6777 777666531 222345666555555555553
No 45
>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=99.38 E-value=4e-12 Score=98.48 Aligned_cols=105 Identities=10% Similarity=-0.019 Sum_probs=91.5
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccC
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVK 81 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~ 81 (144)
+++++++.+++...+||+||+.|++..++..+++++...+++++++++.++.||+...+.+++.+++.|++|+....++.
T Consensus 95 ~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~ 174 (334)
T cd06327 95 VTGAGSDDLTGKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTADYAFGHSLERDARKVVKANGGKVVGSVRHPL 174 (334)
T ss_pred ecCCCccccccCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEecchHHhHHHHHHHHHHHHhcCCEEcCcccCCC
Confidence 55666777776655899999999999999999998766679999999999999999999999999999999998888876
Q ss_pred CCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 82 DSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 82 ~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
+ ..||+.++++|+ ..++++|++...
T Consensus 175 ~-----~~d~~~~v~~l~-~~~~d~v~~~~~ 199 (334)
T cd06327 175 G-----TSDFSSYLLQAQ-ASGADVLVLANA 199 (334)
T ss_pred C-----CccHHHHHHHHH-hCCCCEEEEecc
Confidence 5 568999999999 688999888653
No 46
>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=99.37 E-value=1.2e-11 Score=95.51 Aligned_cols=104 Identities=12% Similarity=0.088 Sum_probs=89.3
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccC
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVK 81 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~ 81 (144)
+++++++.+++...+|++||+.|++..++..+++++...+|+++++++.++.||+...+.+.+.+++.|++++....++.
T Consensus 94 ~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~ 173 (336)
T cd06360 94 NPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTVAWDYAFGYEVVEGFKEAFTEAGGKIVKELWVPF 173 (336)
T ss_pred ecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEEeccchhhHHHHHHHHHHHHHcCCEEEEEEecCC
Confidence 44556666776656899999999999999999999988899999999999999999999999999999999988777765
Q ss_pred CCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 82 DSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 82 ~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+ ..||+.++++|+ ..++++|++..
T Consensus 174 ~-----~~d~~~~v~~~~-~~~pd~v~~~~ 197 (336)
T cd06360 174 G-----TSDFASYLAQIP-DDVPDAVFVFF 197 (336)
T ss_pred C-----CcchHHHHHHHH-hcCCCEEEEec
Confidence 5 569999999999 67888887653
No 47
>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=99.36 E-value=7.5e-12 Score=96.96 Aligned_cols=103 Identities=25% Similarity=0.241 Sum_probs=85.2
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCC-CcEEEEEEEeCC-cchHHHHHHHHHhhh-CceEEEEEe
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLG-WSYVSIIYEESN-YGVKAFEELEVLLAK-YSICIAIKE 77 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~-W~~Vaii~~~~~-~g~~~~~~~~~~l~~-~Gi~V~~~~ 77 (144)
|+++++++.+++ .+||+||+.|++..++.++++++++.+ |+++++++.+++ ||+...+.+.+.+++ .|+++....
T Consensus 94 i~~~a~~~~lt~--~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~~~~~~g~~~~~~~~~~~~~~~g~~v~~~~ 171 (332)
T cd06344 94 ISPTSTSVKLSN--PGPYFFRTVPSNAVAARALAKYLKKKNKIKKVAIFYNSTSPYSQSLKQEFTSALLERGGGIVVTPC 171 (332)
T ss_pred EccCcCchhhcC--CCCcEEEeCCCcHHHHHHHHHHHHhhcCCCeEEEEeCCCchHhHHHHHHHHHHHHHhcCCeeeeec
Confidence 355566677763 489999999999999999999998776 999999999876 999999999999999 599987655
Q ss_pred cccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 78 KLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 78 ~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+... +.++..++.+|+ ..++++|++..
T Consensus 172 ~~~~~-----~~~~~~~v~~i~-~~~~d~v~~~~ 199 (332)
T cd06344 172 DLSSP-----DFNANTAVSQAI-NNGATVLVLFP 199 (332)
T ss_pred cCCCC-----CCCHHHHHHHHH-hcCCCEEEEeC
Confidence 44432 467889999999 67889888764
No 48
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=99.33 E-value=1.5e-11 Score=97.01 Aligned_cols=104 Identities=22% Similarity=0.282 Sum_probs=88.3
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHH-HhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIV-KKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKL 79 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll-~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~ 79 (144)
|+++++++.+......+++||+.|++..|+..+++++ +.++.+++++++.++.||++..+.+++.++++|++++..+.+
T Consensus 106 i~p~st~~~~~~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v~ii~~~~~yg~~~~~~~~~~l~~~G~~~~~~~~~ 185 (366)
T COG0683 106 ISPSATAPQLTGRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRVAIIGDDYAYGEGLADAFKAALKALGGEVVVEEVY 185 (366)
T ss_pred EeecCCCCcccccccccceEEecCChHHHHHHHHHHHHHhcCCcEEEEEeCCCCcchhHHHHHHHHHHhCCCeEEEEEee
Confidence 4677888888777655669999999999999999976 567777999999999999999999999999999986666777
Q ss_pred cCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 80 VKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 80 ~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
.+.. .+|..++++++ ..++++|++.
T Consensus 186 ~~~~-----~~~~~~v~~i~-~~~~d~v~~~ 210 (366)
T COG0683 186 APGD-----TDFSALVAKIK-AAGPDAVLVG 210 (366)
T ss_pred CCCC-----CChHHHHHHHH-hcCCCEEEEC
Confidence 7663 45999999999 6888876654
No 49
>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=99.32 E-value=3.5e-11 Score=92.57 Aligned_cols=102 Identities=17% Similarity=0.216 Sum_probs=85.5
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHH-HhCCCcEEEEEEEeC-CcchHHHHHHHHHhhhCceEEEEEecc
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIV-KKLGWSYVSIIYEES-NYGVKAFEELEVLLAKYSICIAIKEKL 79 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll-~~f~W~~Vaii~~~~-~~g~~~~~~~~~~l~~~Gi~V~~~~~~ 79 (144)
+++++.+.+++. .+++||+.|++..++.++++++ ++++|++|++|+.++ +|+....+.+++.+++.|+|++....+
T Consensus 96 ~~~~~~~~~~~~--~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~v~ii~~~~~~~~~~~~~~~~~~~~~~g~~v~~~~~~ 173 (334)
T cd06347 96 TPSATNPKVTQG--KDYVFRVCFIDPFQGTVMAKFATENLKAKKAAVLYDNSSDYSKGLAKAFKEAFKKLGGEIVAEETF 173 (334)
T ss_pred cCCCCCCCcccC--CCeEEEeeCCcHHHHHHHHHHHHHhcCCcEEEEEEeCCCchhHHHHHHHHHHHHHcCCEEEEEEEe
Confidence 455556666554 3489999999999999999976 678999999999876 899999999999999999999988888
Q ss_pred cCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 80 VKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 80 ~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+.+ ..++..++++++ ..++++|++..
T Consensus 174 ~~~-----~~d~~~~~~~~~-~~~~d~i~~~~ 199 (334)
T cd06347 174 NAG-----DTDFSAQLTKIK-AKNPDVIFLPG 199 (334)
T ss_pred cCC-----CCcHHHHHHHHH-hcCCCEEEEcC
Confidence 765 457999999999 67899888764
No 50
>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=99.31 E-value=2.4e-11 Score=94.34 Aligned_cols=102 Identities=17% Similarity=0.178 Sum_probs=87.0
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccC
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVK 81 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~ 81 (144)
+++++++.++....++|+||+.+++..+...+...+... +++|++++.+++||++..+.+.+.+++.|++++....++.
T Consensus 97 ~~~~~~~~l~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~ 175 (333)
T cd06328 97 VEPAAADSITGKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKIATLAQDYAFGRDGVAAFKAALEKLGAAIVTEEYAPT 175 (333)
T ss_pred ecCCCCchhhccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeEEEEecCccccHHHHHHHHHHHHhCCCEEeeeeeCCC
Confidence 455667777765546999999998888888888777655 8999999999999999999999999999999999888877
Q ss_pred CCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 82 DSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 82 ~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
+ ..||+.++.+|+ ..++++|++.
T Consensus 176 ~-----~~d~~~~v~~l~-~~~pd~V~~~ 198 (333)
T cd06328 176 D-----TTDFTPYAQRLL-DALKKVLFVI 198 (333)
T ss_pred C-----CcchHHHHHHHH-hcCCCEEEEE
Confidence 5 578999999999 6888888764
No 51
>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=99.31 E-value=1.7e-11 Score=95.18 Aligned_cols=105 Identities=18% Similarity=0.188 Sum_probs=84.6
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCC--CcEEEEEEEeCCcchHHHHHHHHHhhhCceE--EEEEe
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLG--WSYVSIIYEESNYGVKAFEELEVLLAKYSIC--IAIKE 77 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~--W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~--V~~~~ 77 (144)
++.++++.+.+...+|++||+.|++..+...+++++++++ |+++++++.++.||....+.+++.+++.|++ ++...
T Consensus 96 ~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~g~~~~~~~~~~~~~~g~~~~~v~~~ 175 (346)
T cd06330 96 ATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGALYAAKLDKKAKTWATINPDYAYGQDAWADFKAALKRLRPDVEVVSEQ 175 (346)
T ss_pred EcCCCCcccccCCCCCceEEecCChHHHHHHHHHHHHHhCcCccEEEEECCchHHHHHHHHHHHHHHHHhCCCCeecccc
Confidence 4456666676655699999999999999999999988774 9999999999999999999999999998654 44333
Q ss_pred cccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 78 KLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 78 ~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
.++.. ..|++.++.+|+ ..++++|+++..
T Consensus 176 ~~~~~-----~~d~~~~v~~i~-~~~~d~ii~~~~ 204 (346)
T cd06330 176 WPKLG-----APDYGSEITALL-AAKPDAIFSSLW 204 (346)
T ss_pred cCCCC-----CcccHHHHHHHH-hcCCCEEEEecc
Confidence 33322 578999999999 678888887643
No 52
>KOG1055|consensus
Probab=99.30 E-value=7.2e-13 Score=110.55 Aligned_cols=102 Identities=28% Similarity=0.457 Sum_probs=92.4
Q ss_pred CcccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc
Q psy12591 1 VSFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV 80 (144)
Q Consensus 1 Is~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~ 80 (144)
.||++++|.|+++++||+||||.|+...+.+..+.++++|+|++|+.+..+..-.....+.+...+.+.|++++..+.|.
T Consensus 140 lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~~f~~~~~dl~~~~~~~~ieiv~~qsf~ 219 (865)
T KOG1055|consen 140 LSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEEVFSSTLNDLEARLKEAGIEIVFRQSFS 219 (865)
T ss_pred ecccCCCccccchhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehhhhcchHHHHHHhhhccccEEEEeeccc
Confidence 38999999999999999999999999999999999999999999999999998888899999999999999999998886
Q ss_pred CCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 81 KDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 81 ~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.++ ...+.+++ .+++|+|+-++
T Consensus 220 ~dp--------~~~vk~l~-~~D~RiI~g~f 241 (865)
T KOG1055|consen 220 SDP--------ADSVKNLK-RQDARIIVGLF 241 (865)
T ss_pred cCH--------HHHHhhcc-ccchhheeccc
Confidence 653 45778898 78999998654
No 53
>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=99.30 E-value=4.4e-11 Score=95.67 Aligned_cols=95 Identities=11% Similarity=0.253 Sum_probs=67.7
Q ss_pred CCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHH
Q psy12591 13 KQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYD 92 (144)
Q Consensus 13 ~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~ 92 (144)
+..||+++| |+ ..++.++++++++|+|++++++ .+++||....+.+.+.++++|+||.... +......+-...++
T Consensus 112 ~~~y~~~~r--p~-~~~~~ai~~li~~f~W~~v~i~-~d~~~~~~~l~~l~~~~~~~~i~I~~~~-~~~~~~~~~~~~~~ 186 (400)
T cd06391 112 NDDYTLSVR--PP-VYLNDVILRVVTEYAWQKFIIF-YDTDYDIRGIQEFLDKVSQQGMDVALQK-VENNINKMITGLFR 186 (400)
T ss_pred cccceEEec--Ch-HHHHHHHHHHHHHcCCcEEEEE-EeCCccHHHHHHHHHHHHHcCCeEEEEe-cCcchhhhhHHHHH
Confidence 556888988 43 6788999999999999998875 5677888999999999999999999743 22211000012233
Q ss_pred H-HHHHHhc-CCCceEEEEeeE
Q psy12591 93 D-IVLKLLT-KPRARGLFKRLK 112 (144)
Q Consensus 93 ~-~l~~lk~-~~~arvii~~~~ 112 (144)
. .+++|++ .+.+|+||+++.
T Consensus 187 ~~~~~~l~~~~~~~rviVl~~~ 208 (400)
T cd06391 187 TMRIEELNRYRDTLRRAILVMN 208 (400)
T ss_pred HHHHHHHHhhcccccEEEEECC
Confidence 2 4556652 166899999875
No 54
>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=99.29 E-value=5.3e-11 Score=92.45 Aligned_cols=102 Identities=13% Similarity=0.180 Sum_probs=81.7
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHH-HHHHHhC-CCcEEEEEEEeCC-cchHHHHHHHHHhhhCceEEEEEec
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAM-VEIVKKL-GWSYVSIIYEESN-YGVKAFEELEVLLAKYSICIAIKEK 78 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~-~~ll~~f-~W~~Vaii~~~~~-~g~~~~~~~~~~l~~~Gi~V~~~~~ 78 (144)
+++++++.+.. .+||+||+.+++..+...+ ..+++++ +|+++++++.+++ ||....+.+++.+++.|++|+....
T Consensus 96 ~~~~~~~~~~~--~~~~~fr~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~ 173 (344)
T cd06348 96 GPSNTAKGIPE--IGPYVFRVSAPEAVVAPAAIAAALKLNPGIKRVAVFYAQDDAFSVSETEIFQKALRDQGLNLVTVQT 173 (344)
T ss_pred eccCCCCCcCC--CCCeEEEccCcHHHHHHHHHHHHHHHhcCCeEEEEEEeCCchHHHHHHHHHHHHHHHcCCEEEEEEe
Confidence 44444454433 4789999988776655444 4567788 9999999997655 9999999999999999999998888
Q ss_pred ccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 79 LVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 79 ~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
++.+ +.||+.++.+|| .+++++|++..
T Consensus 174 ~~~~-----~~d~~~~v~~i~-~~~~d~vi~~~ 200 (344)
T cd06348 174 FQTG-----DTDFQAQITAVL-NSKPDLIVISA 200 (344)
T ss_pred eCCC-----CCCHHHHHHHHH-hcCCCEEEECC
Confidence 8765 568999999999 78899988764
No 55
>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=99.22 E-value=1.5e-10 Score=91.49 Aligned_cols=90 Identities=13% Similarity=0.303 Sum_probs=73.7
Q ss_pred CCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEe--cccCCCCCcchhhHH
Q psy12591 15 RFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKE--KLVKDSGVAEETAYD 92 (144)
Q Consensus 15 ~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~--~~~~~~~~~~~~~~~ 92 (144)
.|++.+++.|+ ...++++++++|+|++++++|+ ++||....+.+.+.+++.|+.|+..+ .+.... .+.||+
T Consensus 94 ~~~f~~~~~p~---~~~ai~d~i~~~~wk~vailYd-sd~gl~~lq~l~~~~~~~g~~V~~~~~~~i~~~~---~~~d~~ 166 (370)
T cd06389 94 THPFVIQMRPD---LKGALLSLIEYYQWDKFAYLYD-SDRGLSTLQAVLDSAAEKKWQVTAINVGNINNDR---KDEAYR 166 (370)
T ss_pred CCceEEEecch---hhhHHHHHHHhcCCcEEEEEec-CchHHHHHHHHHHhhccCCceEEEEEeecCCCcc---chHHHH
Confidence 57888888888 5789999999999999999997 56999999999999999997776443 222111 256999
Q ss_pred HHHHHHhcCCCceEEEEeeE
Q psy12591 93 DIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 93 ~~l~~lk~~~~arvii~~~~ 112 (144)
.+|++|| ..++++||+.+.
T Consensus 167 ~~L~~ik-~~~~~~Iil~~~ 185 (370)
T cd06389 167 SLFQDLE-NKKERRVILDCE 185 (370)
T ss_pred HHHHHhc-cccceEEEEECC
Confidence 9999999 789999998653
No 56
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=99.16 E-value=3.7e-10 Score=87.53 Aligned_cols=101 Identities=16% Similarity=0.134 Sum_probs=80.8
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccC
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVK 81 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~ 81 (144)
+++++.+.+.+...+||+||+.|++..++.++.+++...+|+++++++.+++||+...+.+++.++ ..++....++.
T Consensus 94 ~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~~~~~g~~~~~~~~~~~~---~~v~~~~~~~~ 170 (333)
T cd06359 94 STNAGPSQLAGKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAPNYQAGKDALAGFKRTFK---GEVVGEVYTKL 170 (333)
T ss_pred ecCCCccccccccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEecCchhhHHHHHHHHHHhC---ceeeeeecCCC
Confidence 344444556554458999999999999999999999888999999999999999999998888874 34555554543
Q ss_pred CCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 82 DSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 82 ~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+ ..||+.++.+|+ ..++++|+++.
T Consensus 171 ~-----~~d~~~~i~~l~-~~~pd~v~~~~ 194 (333)
T cd06359 171 G-----QLDFSAELAQIR-AAKPDAVFVFL 194 (333)
T ss_pred C-----CcchHHHHHHHH-hCCCCEEEEEc
Confidence 3 578999999999 68899998753
No 57
>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=99.14 E-value=9.3e-10 Score=84.62 Aligned_cols=101 Identities=16% Similarity=0.125 Sum_probs=81.8
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccC
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVK 81 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~ 81 (144)
++++..+.+++...+|++||+.|++..++..+++++...+|+++++++.++.||....+.+.+.++ | .+.....++.
T Consensus 94 ~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~~~~~~~~~~~~~~~~~~--~-~~~~~~~~~~ 170 (333)
T cd06332 94 SPNAGPSDLAGKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAPDYAAGKDAVAGFKRTFK--G-EVVEEVYTPL 170 (333)
T ss_pred ecCCCCccccccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEecCcchhHHHHHHHHHhhc--E-EEeeEEecCC
Confidence 445555666666558999999999999999999999888999999999999999999999999887 3 5555555544
Q ss_pred CCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 82 DSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 82 ~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+ ..|+..++++|+ ..++++|+++.
T Consensus 171 ~-----~~d~~~~i~~l~-~~~~d~i~~~~ 194 (333)
T cd06332 171 G-----QLDFSAELAQIR-AAKPDAVFVFL 194 (333)
T ss_pred C-----CcchHHHHHHHH-hcCCCEEEEec
Confidence 3 457889999998 67889888764
No 58
>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=99.13 E-value=1.3e-09 Score=81.52 Aligned_cols=103 Identities=25% Similarity=0.321 Sum_probs=83.9
Q ss_pred ccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCC-CcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccC
Q psy12591 3 FWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLG-WSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVK 81 (144)
Q Consensus 3 ~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~-W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~ 81 (144)
+.+..+.+.+ ..+|++|++.|++..++..++++++..+ |+++++++.+++++....+.+.+.+++.|+++.....++.
T Consensus 96 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~~~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~ 174 (298)
T cd06268 96 PGATSPALTG-KGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIYDDYAYGRGLAAAFREALKKLGGEVVAEETYPP 174 (298)
T ss_pred cCCCCccccc-CCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEEcCCchhHHHHHHHHHHHHHcCCEEEEEeccCC
Confidence 3444444443 2489999999999999999999998887 9999999999899999999999999999999887766654
Q ss_pred CCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 82 DSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 82 ~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
+ ..++...+++|+ ..++++|++...
T Consensus 175 ~-----~~~~~~~~~~l~-~~~~~~vi~~~~ 199 (298)
T cd06268 175 G-----ATDFSPLIAKLK-AAGPDAVFLAGY 199 (298)
T ss_pred C-----CccHHHHHHHHH-hcCCCEEEEccc
Confidence 4 357889999998 567788877653
No 59
>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=99.13 E-value=2.5e-10 Score=89.78 Aligned_cols=107 Identities=9% Similarity=0.067 Sum_probs=84.9
Q ss_pred cccCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccC
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVK 81 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~ 81 (144)
+++++++.++.+.-+||+||+.|++..++.++++++..-+.+++++|+.|++||....+.+++.+++.|++|+..+.++.
T Consensus 88 ~~~a~~~~lt~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkvaii~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~ 167 (347)
T TIGR03863 88 NAGAPDDALRGADCRANLLHTLPSRAMLADALAQYLAAKRWRRILLIQGPLPADALYADAFRRSAKRFGAKIVAERPFTF 167 (347)
T ss_pred eCCCCChHHhCCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEEEEEeCCCcccHHHHHHHHHHHHHCCCEEEEeEEecc
Confidence 45677777887656799999999999999999998876799999999999999999999999999999999999888876
Q ss_pred CCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 82 DSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 82 ~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
+.+ ....+++.....++ .+++++|++.
T Consensus 168 ~~~-~~~~d~s~~~~~~~-~s~pDvv~~~ 194 (347)
T TIGR03863 168 SGD-PRRTDQSEVPLFTQ-GADYDVVVVA 194 (347)
T ss_pred CCc-hhhhhcccCceeec-CCCCCEEEEe
Confidence 531 11234543222234 4678888763
No 60
>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=99.13 E-value=6.4e-10 Score=86.66 Aligned_cols=81 Identities=12% Similarity=0.095 Sum_probs=74.7
Q ss_pred CCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHH
Q psy12591 16 FEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIV 95 (144)
Q Consensus 16 ~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l 95 (144)
.|++||+.+++..++.++++++...|++++++++.+++||....+.|.+.+++.|++|+..+.++.+ ..||+.++
T Consensus 98 ~~~~f~~~~~~~~~~~~~~~~~~~~g~k~vaii~~~~~~g~~~~~~f~~~~~~~G~~vv~~~~~~~~-----~~d~~~~i 172 (336)
T cd06339 98 GPNLFYFGLSPEDEARRAAEYARSQGKRRPLVLAPDGAYGQRVADAFRQAWQQLGGTVVAIESYDPS-----PTDLSDAI 172 (336)
T ss_pred CCCEEEecCChHHHHHHHHHHHHhcCccceEEEecCChHHHHHHHHHHHHHHHcCCceeeeEecCCC-----HHHHHHHH
Confidence 6899999999999999999998777999999999999999999999999999999999998888765 67999999
Q ss_pred HHHhcCC
Q psy12591 96 LKLLTKP 102 (144)
Q Consensus 96 ~~lk~~~ 102 (144)
++|+ ..
T Consensus 173 ~~i~-~~ 178 (336)
T cd06339 173 RRLL-GV 178 (336)
T ss_pred HHHh-cc
Confidence 9999 45
No 61
>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=99.11 E-value=1.5e-09 Score=83.12 Aligned_cols=91 Identities=23% Similarity=0.314 Sum_probs=79.1
Q ss_pred CCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHH
Q psy12591 15 RFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDI 94 (144)
Q Consensus 15 ~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~ 94 (144)
..+++||+.+++..++..+++++...||++|++++.++.+|....+.+.+.+++.|+++.....++.+ +.++...
T Consensus 106 ~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~vail~~~~~~~~~~~~~~~~~~~~~G~~v~~~~~~~~~-----~~d~~~~ 180 (312)
T cd06333 106 KRKWVFKTPQNDRLMAEAILADMKKRGVKTVAFIGFSDAYGESGLKELKALAPKYGIEVVADERYGRT-----DTSVTAQ 180 (312)
T ss_pred CCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEEEEecCcHHHHHHHHHHHHHHHHcCCEEEEEEeeCCC-----CcCHHHH
Confidence 36899999999999999999999999999999999988899999999999999999999877777654 3578889
Q ss_pred HHHHhcCCCceEEEEee
Q psy12591 95 VLKLLTKPRARGLFKRL 111 (144)
Q Consensus 95 l~~lk~~~~arvii~~~ 111 (144)
+.+++ ..++++|++..
T Consensus 181 ~~~l~-~~~pdaIi~~~ 196 (312)
T cd06333 181 LLKIR-AARPDAVLIWG 196 (312)
T ss_pred HHHHH-hCCCCEEEEec
Confidence 99998 56788888764
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=99.11 E-value=1.3e-09 Score=85.15 Aligned_cols=91 Identities=14% Similarity=0.093 Sum_probs=81.0
Q ss_pred CCCceEEecCCchHHHHHHHHHHH-hCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH
Q psy12591 15 RFEYFTRTIPSDHHQVKAMVEIVK-KLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD 93 (144)
Q Consensus 15 ~~p~ffRt~p~d~~~~~a~~~ll~-~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~ 93 (144)
..|++||+.+.+..++..+++++. ..+++++++++.|++||....+.+++.+++.|+.|+..+.++.+ ..||+.
T Consensus 105 ~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~-----~~D~~~ 179 (348)
T cd06355 105 QSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLVGSDYVYPRTANKILKAQLESLGGEVVGEEYLPLG-----HTDFQS 179 (348)
T ss_pred CCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEECCcchHHHHHHHHHHHHHHHcCCeEEeeEEecCC-----hhhHHH
Confidence 478999999999999998989765 46899999999999999999999999999999999998888765 579999
Q ss_pred HHHHHhcCCCceEEEEee
Q psy12591 94 IVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 94 ~l~~lk~~~~arvii~~~ 111 (144)
++++|+ ..++++|++..
T Consensus 180 ~v~~l~-~~~pd~v~~~~ 196 (348)
T cd06355 180 IINKIK-AAKPDVVVSTV 196 (348)
T ss_pred HHHHHH-HhCCCEEEEec
Confidence 999999 68899888753
No 63
>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=99.09 E-value=1.2e-09 Score=84.68 Aligned_cols=91 Identities=10% Similarity=0.023 Sum_probs=80.8
Q ss_pred CCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHH
Q psy12591 15 RFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDI 94 (144)
Q Consensus 15 ~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~ 94 (144)
..|++||+.|++..++.++++++...+|++|++++.|+.||....+.+.+.+++.|.+|+....++.+ ..||+.+
T Consensus 105 ~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~il~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~-----~~d~~~~ 179 (333)
T cd06331 105 CSPNVFYTGATPNQQLLPLIPYLMEKYGKRFYLIGSDYVWPRESNRIARALLEELGGEVVGEEYLPLG-----TSDFGSV 179 (333)
T ss_pred CCCCeEEccCChHHhHHHHHHHHHHhcCCeEEEECCCchhHHHHHHHHHHHHHHcCCEEEEEEEecCC-----cccHHHH
Confidence 36899999999999999999977555599999999999999999999999999999999988888865 5789999
Q ss_pred HHHHhcCCCceEEEEee
Q psy12591 95 VLKLLTKPRARGLFKRL 111 (144)
Q Consensus 95 l~~lk~~~~arvii~~~ 111 (144)
+.+++ ..++++|+++.
T Consensus 180 v~~~~-~~~~d~v~~~~ 195 (333)
T cd06331 180 IEKIK-AAGPDVVLSTL 195 (333)
T ss_pred HHHHH-HcCCCEEEEec
Confidence 99999 68899888764
No 64
>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=99.07 E-value=1.9e-09 Score=83.16 Aligned_cols=91 Identities=14% Similarity=0.200 Sum_probs=80.1
Q ss_pred CCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHH
Q psy12591 15 RFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDI 94 (144)
Q Consensus 15 ~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~ 94 (144)
..|++||+.+++..++..+++++...||+++++++.++.++....+.+++.+++.|+++.....++.+ ..++..+
T Consensus 109 ~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~-----~~d~~~~ 183 (336)
T cd06326 109 PDRNVFNVRASYADEIAAIVRHLVTLGLKRIAVFYQDDAFGKDGLAGVEKALAARGLKPVATASYERN-----TADVAAA 183 (336)
T ss_pred CCCceEEeCCChHHHHHHHHHHHHHhCCceEEEEEecCcchHHHHHHHHHHHHHcCCCeEEEEeecCC-----cccHHHH
Confidence 37899999999999999999999899999999999988899999999999999999998777667654 4689999
Q ss_pred HHHHhcCCCceEEEEee
Q psy12591 95 VLKLLTKPRARGLFKRL 111 (144)
Q Consensus 95 l~~lk~~~~arvii~~~ 111 (144)
+.+|+ .+++++|++..
T Consensus 184 ~~~l~-~~~~dav~~~~ 199 (336)
T cd06326 184 VAQLA-AARPQAVIMVG 199 (336)
T ss_pred HHHHH-hcCCCEEEEEc
Confidence 99999 56788888764
No 65
>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=99.06 E-value=1.3e-09 Score=85.25 Aligned_cols=84 Identities=10% Similarity=0.136 Sum_probs=62.8
Q ss_pred EEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHh
Q psy12591 20 TRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLL 99 (144)
Q Consensus 20 fRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk 99 (144)
.++.|++..|++|+++++++|+|+++.+||+++++...+.+.++.. ...+..+... ... .+.||+.+|++||
T Consensus 112 i~l~P~~~~~~~Ai~dli~~~~W~~v~~iYe~d~~l~~L~~~l~~~-~~~~~~i~~~----~~~---~~~d~~~~L~~ik 183 (333)
T cd06394 112 VNLHPSNEDISVAVAGILNSFNYPTASLICAKAECLLRLEELLRQF-LISKETLSVR----MLD---DSRDPTPLLKEIR 183 (333)
T ss_pred EEecCCHHHHHHHHHHHHHhcCCCEEEEEEeCcHHHHHHHHHHHhh-cccCCceeeE----Ecc---CcccHHHHHHHHH
Confidence 7888999999999999999999999999999999855554444432 1222222211 111 2568999999999
Q ss_pred cCCCceEEEEeeE
Q psy12591 100 TKPRARGLFKRLK 112 (144)
Q Consensus 100 ~~~~arvii~~~~ 112 (144)
..++|+||+.++
T Consensus 184 -~~~~~~iVv~~~ 195 (333)
T cd06394 184 -DDKTATIIIDAN 195 (333)
T ss_pred -hcCCCEEEEECC
Confidence 688999998764
No 66
>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=99.04 E-value=3.4e-09 Score=82.14 Aligned_cols=90 Identities=9% Similarity=0.039 Sum_probs=79.0
Q ss_pred CCCceEEecCCchHHHHHHHHHH-HhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH
Q psy12591 15 RFEYFTRTIPSDHHQVKAMVEIV-KKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD 93 (144)
Q Consensus 15 ~~p~ffRt~p~d~~~~~a~~~ll-~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~ 93 (144)
..|++||+.+++..++..++..+ +..+|++|++++.++.||+...+.+++.+++.|+.|+....++.+ ..||+.
T Consensus 104 ~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~i~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~-----~~d~~~ 178 (333)
T cd06358 104 CNPGVFLTGETPEQQLAPAIPWLAEEKGARRWYLIGNDYVWPRGSLAAAKRYIAELGGEVVGEEYVPLG-----TTDFTS 178 (333)
T ss_pred CCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeEEEEeccchhhHHHHHHHHHHHHHcCCEEeeeeeecCC-----hHHHHH
Confidence 46899999999998887777765 668999999999999999999999999999999999988888765 579999
Q ss_pred HHHHHhcCCCceEEEEe
Q psy12591 94 IVLKLLTKPRARGLFKR 110 (144)
Q Consensus 94 ~l~~lk~~~~arvii~~ 110 (144)
++++|| ..++++|++.
T Consensus 179 ~v~~l~-~~~pd~v~~~ 194 (333)
T cd06358 179 VLERIA-ASGADAVLST 194 (333)
T ss_pred HHHHHH-HcCCCEEEEe
Confidence 999999 6788888764
No 67
>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=99.03 E-value=2.6e-09 Score=83.85 Aligned_cols=90 Identities=11% Similarity=0.061 Sum_probs=80.0
Q ss_pred CCCceEEecCCchHHHHHHHHHHHh-CCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH
Q psy12591 15 RFEYFTRTIPSDHHQVKAMVEIVKK-LGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD 93 (144)
Q Consensus 15 ~~p~ffRt~p~d~~~~~a~~~ll~~-f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~ 93 (144)
..|++||+.+++..++..+++++.. .|.+++++++.|++||....+.+++.+++.|+.|+....++.+ ..||+.
T Consensus 106 ~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~-----~~D~s~ 180 (359)
T TIGR03407 106 CSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLLGSDYVFPRTANKIIKAYLKSLGGTVVGEDYTPLG-----HTDFQT 180 (359)
T ss_pred cCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEecCccHHHHHHHHHHHHHHHHcCCEEEeeEEecCC-----hHhHHH
Confidence 4789999999999999999897755 6999999999999999999999999999999999988888765 579999
Q ss_pred HHHHHhcCCCceEEEEe
Q psy12591 94 IVLKLLTKPRARGLFKR 110 (144)
Q Consensus 94 ~l~~lk~~~~arvii~~ 110 (144)
++++|+ ..++++|++.
T Consensus 181 ~v~~l~-~~~pDav~~~ 196 (359)
T TIGR03407 181 IINKIK-AFKPDVVFNT 196 (359)
T ss_pred HHHHHH-HhCCCEEEEe
Confidence 999999 6888888754
No 68
>KOG4440|consensus
Probab=99.02 E-value=9.4e-10 Score=90.48 Aligned_cols=103 Identities=17% Similarity=0.209 Sum_probs=90.3
Q ss_pred cCCCCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCC
Q psy12591 4 WSTSPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDS 83 (144)
Q Consensus 4 ~at~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~ 83 (144)
...+..++++..|+.|+|+.|+..+|+...+.+|.+|.|++|.++.++|.-|+.....++..+++..-++.....|.++
T Consensus 131 ~~Rda~fSdKnIh~sFlRtvpPyshqa~VwleMl~~~~y~~vi~l~s~d~~gra~~~r~qt~~e~~~~~~e~v~~f~p~- 209 (993)
T KOG4440|consen 131 TTRDAIFSDKNIHLSFLRTVPPYSHQASVWLEMLRVYSYNHVILLVSDDHEGRAAQKRLQTLLEERESKAEKVLQFDPG- 209 (993)
T ss_pred eehhhhhccCceeeeEeecCCCccchhHHHHHHHHHhhcceEEEEEcccccchhHHhHHHHHHHHHhhhhhhheecCcc-
Confidence 3456779999999999999999999999999999999999999999999999888888888888777677666677766
Q ss_pred CCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 84 GVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 84 ~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
.+++++.|...| ...+||+++.++
T Consensus 210 ----~~~~t~~l~~~k-~~~~rv~~~~as 233 (993)
T KOG4440|consen 210 ----TKNVTALLMEAK-ELEARVIILSAS 233 (993)
T ss_pred ----cchHHHHHhhhh-hhhheeEEeecc
Confidence 468999999999 789999999874
No 69
>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=98.99 E-value=6.1e-09 Score=82.60 Aligned_cols=89 Identities=13% Similarity=0.157 Sum_probs=79.0
Q ss_pred CCceEEecCCchHHHHHHHHHHH-hCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHH
Q psy12591 16 FEYFTRTIPSDHHQVKAMVEIVK-KLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDI 94 (144)
Q Consensus 16 ~p~ffRt~p~d~~~~~a~~~ll~-~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~ 94 (144)
.||+||+.|++..++.++++++. ..+ +++++++.|++||+...+.+++.+++.|+.|+..+.++.+ ..||+.+
T Consensus 107 ~~~~Fr~~~~~~~~~~~~~~~~~~~~g-~~va~l~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~g-----~~Df~~~ 180 (374)
T TIGR03669 107 DEYTFAVGATARQQLGTVVPYMVEEYG-KKIYTIAADYNFGQLSADWVRVIAKENGAEVVGEEFIPLS-----VSQFSST 180 (374)
T ss_pred CCCEEEcCCChHHHHHHHHHHHHHcCC-CeEEEEcCCcHHHHHHHHHHHHHHHHcCCeEEeEEecCCC-----cchHHHH
Confidence 58999999999999999999875 456 5799999999999999999999999999999988888766 5799999
Q ss_pred HHHHhcCCCceEEEEee
Q psy12591 95 VLKLLTKPRARGLFKRL 111 (144)
Q Consensus 95 l~~lk~~~~arvii~~~ 111 (144)
+++|| ..++++|+++.
T Consensus 181 l~~i~-~~~pD~V~~~~ 196 (374)
T TIGR03669 181 IQNIQ-KADPDFVMSML 196 (374)
T ss_pred HHHHH-HcCCCEEEEcC
Confidence 99999 68899998753
No 70
>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=98.98 E-value=5.3e-09 Score=82.03 Aligned_cols=91 Identities=12% Similarity=0.076 Sum_probs=77.9
Q ss_pred CCCceEEecCCchHHHHHHHHHHHhCC-CcEEEEEEEeCCcchHHHHHHH---HHhhhCceEEEEEecccCCCCCcchhh
Q psy12591 15 RFEYFTRTIPSDHHQVKAMVEIVKKLG-WSYVSIIYEESNYGVKAFEELE---VLLAKYSICIAIKEKLVKDSGVAEETA 90 (144)
Q Consensus 15 ~~p~ffRt~p~d~~~~~a~~~ll~~f~-W~~Vaii~~~~~~g~~~~~~~~---~~l~~~Gi~V~~~~~~~~~~~~~~~~~ 90 (144)
.++|+||..+++..+..+++.+++..+ ++++++++.++.||....+.+. +.+++.|+.|+..+.++.+ ..|
T Consensus 117 ~~~~~f~~~~~~~~~~~~~~~~~~~~~~~k~v~ii~~~~~~g~~~~~~~~~~~~~~~~~G~~vv~~~~~~~~-----~~D 191 (357)
T cd06337 117 GFKWTYHFFWGAEDVVATYVGMWKQLETNKKVGILYPNDPDGNAFADPVIGLPAALADAGYKLVDPGRFEPG-----TDD 191 (357)
T ss_pred CCceeEEecCCHHHHHHHHHHHHHhCCCCceEEEEeecCchhHHHHHhhhcccHHHHhCCcEEecccccCCC-----CCc
Confidence 378999999988888888888888777 9999999999999998777665 5667799999988888876 568
Q ss_pred HHHHHHHHhcCCCceEEEEee
Q psy12591 91 YDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 91 ~~~~l~~lk~~~~arvii~~~ 111 (144)
|+.++++|| .+++++|++..
T Consensus 192 ~~~~v~~ik-~a~pD~v~~~~ 211 (357)
T cd06337 192 FSSQINAFK-REGVDIVTGFA 211 (357)
T ss_pred HHHHHHHHH-hcCCCEEEeCC
Confidence 999999999 78899988653
No 71
>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=98.98 E-value=8e-09 Score=81.86 Aligned_cols=86 Identities=7% Similarity=0.102 Sum_probs=65.2
Q ss_pred ceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHH
Q psy12591 18 YFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLK 97 (144)
Q Consensus 18 ~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~ 97 (144)
+.||+...+. +..++++++++|+|++++++|+++ +|....+.|.+.+++.|+.|+..+....+ +.||+.+|++
T Consensus 101 ~~f~i~~~p~-~~~a~~~~i~~~~wk~vaiiYd~~-~~~~~lq~l~~~~~~~g~~v~~~~~~~~~-----~~d~~~~L~~ 173 (371)
T cd06388 101 SQFVLQLRPS-LRGALLSLLDHYEWNRFVFLYDTD-RGYSILQAIMEKAGQNGWQVSAICVENFN-----DASYRRLLED 173 (371)
T ss_pred CceEEEeChh-hhhHHHHHHHhcCceEEEEEecCC-ccHHHHHHHHHhhHhcCCeeeeEEeccCC-----cHHHHHHHHH
Confidence 3344444443 457788899999999999999633 44467889999999999998875544332 4599999999
Q ss_pred HhcCCCceEEEEee
Q psy12591 98 LLTKPRARGLFKRL 111 (144)
Q Consensus 98 lk~~~~arvii~~~ 111 (144)
|| ..+.++||+.+
T Consensus 174 ik-~~~~~~iil~~ 186 (371)
T cd06388 174 LD-RRQEKKFVIDC 186 (371)
T ss_pred hc-ccccEEEEEEC
Confidence 99 68899888765
No 72
>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=98.97 E-value=5.7e-09 Score=81.10 Aligned_cols=90 Identities=13% Similarity=0.051 Sum_probs=79.0
Q ss_pred CCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHH
Q psy12591 16 FEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIV 95 (144)
Q Consensus 16 ~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l 95 (144)
.|++||+.+++..++.++++++...+-+++++++.|++||......+.+.+++.|+.++....++.+ ..||+.++
T Consensus 106 ~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~-----~~d~~~~v 180 (334)
T cd06356 106 DRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIAADYNFGQISAEWVRKIVEENGGEVVGEEFIPLD-----VSDFGSTI 180 (334)
T ss_pred cCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEECCCchhhHHHHHHHHHHHHHcCCEEEeeeecCCC-----chhHHHHH
Confidence 5799999999999999999987654337899999999999999999999999999999988888776 57999999
Q ss_pred HHHhcCCCceEEEEee
Q psy12591 96 LKLLTKPRARGLFKRL 111 (144)
Q Consensus 96 ~~lk~~~~arvii~~~ 111 (144)
++|+ ..++++|++..
T Consensus 181 ~~l~-~~~pd~v~~~~ 195 (334)
T cd06356 181 QKIQ-AAKPDFVMSIL 195 (334)
T ss_pred HHHH-hcCCCEEEEec
Confidence 9999 68899888643
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=98.96 E-value=6.7e-09 Score=80.15 Aligned_cols=92 Identities=23% Similarity=0.248 Sum_probs=79.2
Q ss_pred CCCCceEEecCCchHHHHHHHHHH-HhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHH
Q psy12591 14 QRFEYFTRTIPSDHHQVKAMVEIV-KKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYD 92 (144)
Q Consensus 14 ~~~p~ffRt~p~d~~~~~a~~~ll-~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~ 92 (144)
..+|++||..|++..++.++++.+ ++++.+++++++.++.||....+.+.+.+++.|+.++....++.+ ..|++
T Consensus 106 ~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~-----~~d~~ 180 (343)
T PF13458_consen 106 PDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVYPDDPYGRSLAEAFRKALEAAGGKVVGEIRYPPG-----DTDFS 180 (343)
T ss_dssp TTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEEESSHHHHHHHHHHHHHHHHTTCEEEEEEEE-TT-----SSHHH
T ss_pred CCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEecCchhhhHHHHHHHHHHhhcCceeccceecccc-----cccch
Confidence 458999999999999999999975 568999999999999999999999999999999999888888866 47999
Q ss_pred HHHHHHhcCCCceEEEEee
Q psy12591 93 DIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 93 ~~l~~lk~~~~arvii~~~ 111 (144)
.++++|+ ..++++|+++.
T Consensus 181 ~~~~~l~-~~~~d~v~~~~ 198 (343)
T PF13458_consen 181 ALVQQLK-SAGPDVVVLAG 198 (343)
T ss_dssp HHHHHHH-HTTTSEEEEES
T ss_pred HHHHHHh-hcCCCEEEEec
Confidence 9999999 57888877654
No 74
>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=98.89 E-value=2.7e-08 Score=78.98 Aligned_cols=89 Identities=7% Similarity=0.207 Sum_probs=72.5
Q ss_pred CCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHH
Q psy12591 15 RFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDI 94 (144)
Q Consensus 15 ~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~ 94 (144)
..++.+.+.|+ ++.|+++++++|+|+++.++| ++++|....+.+.+.+...+..|......+... ..+++.+
T Consensus 100 ~~~~~l~l~P~---l~~Ai~diI~~~~Wr~~~~iY-d~d~gl~~Lq~L~~~~~~~~~~V~~~~v~~~~~----~~~~~~~ 171 (372)
T cd06387 100 DVQFVIQMRPA---LKGAILSLLAHYKWEKFVYLY-DTERGFSILQAIMEAAVQNNWQVTARSVGNIKD----VQEFRRI 171 (372)
T ss_pred CCceEEEEChh---HHHHHHHHHHhcCCCEEEEEe-cCchhHHHHHHHHHhhccCCceEEEEEeccCCc----hHHHHHH
Confidence 34677788888 789999999999999999999 668898899999999999998887664333222 4689999
Q ss_pred HHHHhcCCCceEEEEeeE
Q psy12591 95 VLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 95 l~~lk~~~~arvii~~~~ 112 (144)
+++|+ +.+.|+||+.++
T Consensus 172 l~el~-~~~~r~iIld~s 188 (372)
T cd06387 172 IEEMD-RRQEKRYLIDCE 188 (372)
T ss_pred HHHhc-cccceEEEEECC
Confidence 99999 677888888764
No 75
>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=98.79 E-value=7.5e-08 Score=77.17 Aligned_cols=91 Identities=12% Similarity=0.271 Sum_probs=63.5
Q ss_pred CCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCC--C--cchhh
Q psy12591 15 RFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSG--V--AEETA 90 (144)
Q Consensus 15 ~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~--~--~~~~~ 90 (144)
+||++.|+ + ..+..|+++++.+|+|+++.++| |++||....+.+.+.+.+.+..|.+.. +..+.. . .-...
T Consensus 114 ~~~~~lrp--~-~~~~~Ai~dlV~~~~W~~v~~iY-D~d~gl~~lq~L~~~~~~~~~~I~~~~-v~~~~~~~~~~~l~~~ 188 (400)
T cd06392 114 EYTLAARP--P-VRLNDVMLKLVTELRWQKFIVFY-DSEYDIRGLQSFLDQASRLGLDVSLQK-VDRNISRVFTNLFTTM 188 (400)
T ss_pred ceeEEecC--c-hHHHHHHHHHHHhCCCcEEEEEE-ECcccHHHHHHHHHHHhhcCceEEEEE-cccCcchhhhhHHHHH
Confidence 46666665 3 46778999999999999999999 799999999999999999998888654 221100 0 00223
Q ss_pred HHHHHHHHhcCCCceEEEEeeE
Q psy12591 91 YDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 91 ~~~~l~~lk~~~~arvii~~~~ 112 (144)
..+.|.+++ ... |+||+.++
T Consensus 189 ~~~~L~~~~-~~~-r~iVv~~s 208 (400)
T cd06392 189 KTEELNRYR-DTL-RRAILLLS 208 (400)
T ss_pred HHhhhhhcc-ccc-eEEEEEcC
Confidence 344555565 234 67766653
No 76
>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=98.68 E-value=2.2e-07 Score=71.99 Aligned_cols=90 Identities=10% Similarity=-0.064 Sum_probs=76.8
Q ss_pred CCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCC-cchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHH
Q psy12591 16 FEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESN-YGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDI 94 (144)
Q Consensus 16 ~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~-~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~ 94 (144)
.|++||+.+++..++..+++++..-+.+++++++.++. ||......+++.+++.|+.++....++.+ ..|+..+
T Consensus 106 ~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~-----~~d~~~~ 180 (341)
T cd06341 106 SPNSFPFSGGTPASLTTWGDFAKDQGGTRAVALVTALSAAVSAAAALLARSLAAAGVSVAGIVVITAT-----APDPTPQ 180 (341)
T ss_pred CCCeEEecCCCcchhHHHHHHHHHcCCcEEEEEEeCCcHHHHHHHHHHHHHHHHcCCccccccccCCC-----CCCHHHH
Confidence 57889999999999999999988888999999987665 99999999999999999998877666654 4689999
Q ss_pred HHHHhcCCCceEEEEee
Q psy12591 95 VLKLLTKPRARGLFKRL 111 (144)
Q Consensus 95 l~~lk~~~~arvii~~~ 111 (144)
+++|+ ..++++|++..
T Consensus 181 ~~~i~-~~~pdaV~~~~ 196 (341)
T cd06341 181 AQQAA-AAGADAIITVL 196 (341)
T ss_pred HHHHH-hcCCCEEEEec
Confidence 99999 57899887764
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=98.64 E-value=6.1e-07 Score=70.53 Aligned_cols=91 Identities=11% Similarity=0.060 Sum_probs=74.7
Q ss_pred CceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHH
Q psy12591 17 EYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVL 96 (144)
Q Consensus 17 p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~ 96 (144)
|++|++.++...+..++++++..-+-+++++++.|+.||+...+.+.+.+++.|+.++....++.++ .+.||+.+++
T Consensus 107 ~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~d~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~---~~~d~s~~v~ 183 (360)
T cd06357 107 PNVIYTGAAPNQNSVPLADYLLRHYGKRVFLVGSNYIYPYESNRIMRDLLEQRGGEVLGERYLPLGA---SDEDFARIVE 183 (360)
T ss_pred CCEEEeCCCcHHHHHHHHHHHHhcCCcEEEEECCCCcchHHHHHHHHHHHHHcCCEEEEEEEecCCC---chhhHHHHHH
Confidence 6788888887777888888775434489999999999999999999999999999998765555443 2679999999
Q ss_pred HHhcCCCceEEEEee
Q psy12591 97 KLLTKPRARGLFKRL 111 (144)
Q Consensus 97 ~lk~~~~arvii~~~ 111 (144)
+|| ..++++|++..
T Consensus 184 ~l~-~~~pd~V~~~~ 197 (360)
T cd06357 184 EIR-EAQPDFIFSTL 197 (360)
T ss_pred HHH-HcCCCEEEEeC
Confidence 999 68899888653
No 78
>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=98.59 E-value=9.1e-07 Score=70.05 Aligned_cols=57 Identities=16% Similarity=0.320 Sum_probs=43.8
Q ss_pred CCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEE
Q psy12591 15 RFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAI 75 (144)
Q Consensus 15 ~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~ 75 (144)
.|++++| |++ .++.++.+++++|+|++|+++|++++++ ...+.+.+.+++.|+.+..
T Consensus 114 ~~~f~~r--p~~-~~~~ai~~lv~~~~wkkvavly~~d~g~-~~l~~~~~~~~~~g~~v~~ 170 (363)
T cd06381 114 QYTLALR--PPV-RLNDVMLRLVTEWRWQKFVYFYDNDYDI-RGLQEFLDQLSRQGIDVLL 170 (363)
T ss_pred eeEEEEe--ccH-HHHHHHHHHHHhCCCeEEEEEEECCchH-HHHHHHHHHHHhcCceEEE
Confidence 3555544 664 6889999999999999999999987754 4447777888899986653
No 79
>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=98.51 E-value=1.5e-06 Score=69.22 Aligned_cols=91 Identities=8% Similarity=0.069 Sum_probs=60.8
Q ss_pred ceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCce-EEEEEecccCCCCCcchhhH-HHHH
Q psy12591 18 YFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSI-CIAIKEKLVKDSGVAEETAY-DDIV 95 (144)
Q Consensus 18 ~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi-~V~~~~~~~~~~~~~~~~~~-~~~l 95 (144)
+-.++.|+..+++.++++++++|+|+++.+||+.+.....+.+.++.... .+. .+.......... .+..++ +.+|
T Consensus 127 l~L~l~P~~~~l~~a~~~ll~~~~W~~f~~iy~~~~gl~~lq~l~~~~~~-~~~~~~i~v~~~~~~~--~d~~~~~~~~L 203 (382)
T cd06377 127 LQMSWASPLSTLLDVLLSVLQRNGWEDVSLVLCRERDPTGLLLLWTNHAR-FHLGSVLNLSRNDPST--ADLLDFLRAQL 203 (382)
T ss_pred EEEEecCCHHHHHHHHHHHHHHCCCcEEEEEEecCcCHHHHHHHHHHhcc-cccCceEEEEeccCcc--CChhHHHHHHH
Confidence 34577999999999999999999999999999988765544443333322 121 122222232111 013345 9999
Q ss_pred HHHhcCCC-ceEEEEeeE
Q psy12591 96 LKLLTKPR-ARGLFKRLK 112 (144)
Q Consensus 96 ~~lk~~~~-arvii~~~~ 112 (144)
+.|| ++. +++|++.++
T Consensus 204 ~~i~-~~~~~~~ill~cs 220 (382)
T cd06377 204 ELLK-DPPGPAVVLFGCD 220 (382)
T ss_pred HHhh-cccCceEEEEECC
Confidence 9999 677 888888875
No 80
>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=98.51 E-value=2.1e-06 Score=62.49 Aligned_cols=93 Identities=24% Similarity=0.415 Sum_probs=74.3
Q ss_pred CCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeC-CcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH
Q psy12591 15 RFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEES-NYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD 93 (144)
Q Consensus 15 ~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~-~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~ 93 (144)
.+++++++.+++..++..+++++.+++|+++++++.+. .++....+.+++.+++.|+++......... ++.+++.
T Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~ 172 (269)
T cd01391 97 GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIYGDDGAYGRERLEGFKAALKKAGIEVVAIEYGDLD----TEKGFQA 172 (269)
T ss_pred CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEecCCcchhhHHHHHHHHHHHhcCcEEEeccccCCC----ccccHHH
Confidence 36899999999999999999999999999999999877 677778899999999999777654444333 1357777
Q ss_pred HHHHHhcCCCceEEEEee
Q psy12591 94 IVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 94 ~l~~lk~~~~arvii~~~ 111 (144)
....|+..+++++|+++.
T Consensus 173 ~~~~l~~~~~~~~i~~~~ 190 (269)
T cd01391 173 LLQLLKAAPKPDAIFACN 190 (269)
T ss_pred HHHHHhcCCCCCEEEEcC
Confidence 888887433788888775
No 81
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=98.06 E-value=3.4e-05 Score=61.00 Aligned_cols=103 Identities=17% Similarity=0.147 Sum_probs=75.4
Q ss_pred CCceEEecCCchHHHHHHHHH-HHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHH
Q psy12591 16 FEYFTRTIPSDHHQVKAMVEI-VKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDI 94 (144)
Q Consensus 16 ~p~ffRt~p~d~~~~~a~~~l-l~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~ 94 (144)
-|+++=|.....+|..-+++. +.+||-+++.+|.+|-.|++.....+++.+++.|+.|+....++-+ .++|..+
T Consensus 107 S~nviYtGa~PNQ~~~pl~~~~~~~~G~~r~~lvGSdYv~pre~Nri~r~~l~~~GgevvgE~Y~plg-----~td~~~i 181 (363)
T PF13433_consen 107 SPNVIYTGAAPNQQLLPLIDYLLENFGAKRFYLVGSDYVYPRESNRIIRDLLEARGGEVVGERYLPLG-----ATDFDPI 181 (363)
T ss_dssp -TTEEE-S--GGGTHHHHHHHHHHHS--SEEEEEEESSHHHHHHHHHHHHHHHHTT-EEEEEEEE-S------HHHHHHH
T ss_pred CCceEEcCCCchhhHHHHHHHHHhccCCceEEEecCCccchHHHHHHHHHHHHHcCCEEEEEEEecCC-----chhHHHH
Confidence 467888999999999999995 5899999999999999999999999999999999999999999987 6899999
Q ss_pred HHHHhcCCCceEEEEeeEEeeeCCcchhhhhH
Q psy12591 95 VLKLLTKPRARGLFKRLKLVKDSGVAEETAYD 126 (144)
Q Consensus 95 l~~lk~~~~arvii~~~~~~~~~g~~~~~~~~ 126 (144)
+.+|+ ..++++| +.+.+.++.+...+.+.
T Consensus 182 i~~I~-~~~Pd~V--~stlvG~s~~aF~r~~~ 210 (363)
T PF13433_consen 182 IAEIK-AAKPDFV--FSTLVGDSNVAFYRAYA 210 (363)
T ss_dssp HHHHH-HHT-SEE--EEE--TTCHHHHHHHHH
T ss_pred HHHHH-hhCCCEE--EEeCcCCcHHHHHHHHH
Confidence 99999 5566654 55556444444444433
No 82
>KOG1053|consensus
Probab=97.78 E-value=0.00047 Score=59.66 Aligned_cols=124 Identities=15% Similarity=0.083 Sum_probs=86.1
Q ss_pred CCCCcCCCCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhh--CceEEEEEecccCCCC
Q psy12591 7 SPELSNKQRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAK--YSICIAIKEKLVKDSG 84 (144)
Q Consensus 7 ~~~ls~~~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~--~Gi~V~~~~~~~~~~~ 84 (144)
...++++..-..|++..|+-.+|+.+++++|..|+|..++++..--+..+.+...++..... .|..+........+.
T Consensus 138 a~~~~~kd~gs~flQlg~Sieqqa~Vml~iL~~ydW~~Fs~vtt~~pg~~~f~~~ir~~~d~s~vgwe~i~v~~l~~s~- 216 (1258)
T KOG1053|consen 138 AMVLTPKDLGSTFLQLGPSIEQQAQVMLKILEEYDWYNFSLVTTQFPGNRTFVSLIRQTNDNSHVGWEMINVLTLDPST- 216 (1258)
T ss_pred cceecCCCCcceEEEeCCcHHHHHHHHHHHHHHcCcceeEEEEeecCchHHHHHHHHHhhhhccccceeeeeeecCCCC-
Confidence 34455555456899999999999999999999999999999998877777777777776654 454444333333332
Q ss_pred CcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchhhhhHHHHHHHhcCccccc
Q psy12591 85 VAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEETAYDDIVLKLLTKPRARA 140 (144)
Q Consensus 85 ~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~ 140 (144)
+........+|| +-++.||+++++ -=..+.+|.+.+..=.|+|.|+-
T Consensus 217 ---~d~~a~~q~qLk-ki~a~VillyC~-----~eea~~IF~~A~q~Gl~g~~y~W 263 (1258)
T KOG1053|consen 217 ---DDLLAKLQAQLK-KIQAPVILLYCS-----REEAERIFEEAEQAGLTGPGYVW 263 (1258)
T ss_pred ---CchHHHHHHHHH-hcCCcEEEEEec-----HHHHHHHHHHHHhcCCcCCceEE
Confidence 222333444555 455889999885 11224668888888888888763
No 83
>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=97.42 E-value=0.00049 Score=54.65 Aligned_cols=88 Identities=19% Similarity=0.236 Sum_probs=63.9
Q ss_pred CCceEEecCCchHHHHHHHHHH------HhCCCcEEEEEEEeCCc---chHHHHHHHHHhhhCceEEEEEecccCCCCCc
Q psy12591 16 FEYFTRTIPSDHHQVKAMVEIV------KKLGWSYVSIIYEESNY---GVKAFEELEVLLAKYSICIAIKEKLVKDSGVA 86 (144)
Q Consensus 16 ~p~ffRt~p~d~~~~~a~~~ll------~~f~W~~Vaii~~~~~~---g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~ 86 (144)
++++-|..|+.+..+..++++. ++++|+..- ||.+++- |--...+++.....-+..+...+....
T Consensus 121 k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~ay-vyk~~~~~edCf~~i~al~a~~~~f~~~~~~~~~l~~----- 194 (380)
T cd06369 121 KENLTRLLPPARKISDFFVDFWKEKNFPKKPKWETAY-VYKKQENTEDCFWYINALEAGVAYFSSALKFKELLRT----- 194 (380)
T ss_pred hhhhhhcCchHHHHHHHHHHHHhcccccCCCCCceeE-EEcCCCCccceeeEhHhhhhhhhhhhhcccceeeecC-----
Confidence 4489999999999999999999 599998555 8876533 222456666655555555554444332
Q ss_pred chhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 87 EETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 87 ~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
+.++.++|++++ ..+||||+|++
T Consensus 195 -~~~~~~il~~~~--~~sRIiImCG~ 217 (380)
T cd06369 195 -EEELQKLLTDKN--RKSNVIIMCGT 217 (380)
T ss_pred -chhHHHHHHHhc--cCccEEEEeCC
Confidence 468999999887 67999999975
No 84
>KOG1054|consensus
Probab=97.04 E-value=0.012 Score=49.29 Aligned_cols=90 Identities=11% Similarity=0.197 Sum_probs=67.5
Q ss_pred CCCCceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH
Q psy12591 14 QRFEYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD 93 (144)
Q Consensus 14 ~~~p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~ 93 (144)
...++..++.|+-. .++++++.|++|.++..+|+ .+-|.+..+++-+.+.+++..|.....-..+ ++..++.
T Consensus 126 ~~~~Fviq~RP~l~---~al~s~i~hy~W~~fv~lyD-~~rg~s~Lqai~~~a~~~nw~VtA~~v~~~~----d~~~yr~ 197 (897)
T KOG1054|consen 126 GDNQFVIQMRPALK---GALLSLIDHYKWEKFVYLYD-TDRGLSILQAIMEAAAQNNWQVTAINVGNIN----DVKEYRM 197 (897)
T ss_pred CCceEEEEeCchHH---HHHHHHHHhcccceEEEEEc-ccchHHHHHHHHHHHHhcCceEEEEEcCCcc----cHHHHHH
Confidence 34567777877654 78999999999999999985 4567788899999999999988766433322 2455888
Q ss_pred HHHHHhcCCCceEEEEee
Q psy12591 94 IVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 94 ~l~~lk~~~~arvii~~~ 111 (144)
+++.|..+..-|++|=|.
T Consensus 198 ~f~~l~~r~e~rv~iDce 215 (897)
T KOG1054|consen 198 LFEMLDRRQENRVLIDCE 215 (897)
T ss_pred HHHHHhccccceEEEEcc
Confidence 998888545555776554
No 85
>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=96.55 E-value=0.061 Score=40.44 Aligned_cols=97 Identities=16% Similarity=0.118 Sum_probs=69.7
Q ss_pred chHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCC--C--cchhhHHHHHHHHhcC
Q psy12591 26 DHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSG--V--AEETAYDDIVLKLLTK 101 (144)
Q Consensus 26 d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~--~--~~~~~~~~~l~~lk~~ 101 (144)
-..-+.++++.|+++|-++|+++. .|-....+.+.+.+++.|+.|.....+..... . .+...+.+.+.++. .
T Consensus 104 ~tt~~~A~~~AL~alg~~RIalvT---PY~~~v~~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~-~ 179 (239)
T TIGR02990 104 VVTPSSAAVDGLAALGVRRISLLT---PYTPETSRPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAF-D 179 (239)
T ss_pred eeCHHHHHHHHHHHcCCCEEEEEC---CCcHHHHHHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhc-C
Confidence 344567888899999999999996 67788899999999999999987755543211 1 23456666666665 6
Q ss_pred CCceEEEEeeEEeeeCCcchhhhhHHHHHH
Q psy12591 102 PRARGLFKRLKLVKDSGVAEETAYDDIVLK 131 (144)
Q Consensus 102 ~~arvii~~~~~~~~~g~~~~~~~~~~~~~ 131 (144)
+++++|++.++.+ -.-.+++++|..
T Consensus 180 ~~aDAifisCTnL-----rt~~vi~~lE~~ 204 (239)
T TIGR02990 180 PDADALFLSCTAL-----RAATCAQRIEQA 204 (239)
T ss_pred CCCCEEEEeCCCc-----hhHHHHHHHHHH
Confidence 8899999888744 344455555554
No 86
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=95.14 E-value=0.085 Score=44.16 Aligned_cols=88 Identities=7% Similarity=0.023 Sum_probs=58.6
Q ss_pred CceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHH
Q psy12591 17 EYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVL 96 (144)
Q Consensus 17 p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~ 96 (144)
+-++...-+....+..++..+..-|+++..|++.+++||....++|.....+.|..+.....+.. ..++...|+
T Consensus 320 ~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~p~~~~g~R~~~aF~~~W~~~gg~~~~~~~~~~------~~~~~~~i~ 393 (536)
T PF04348_consen 320 PNLYQFGLSPEDEARQAAQKAFQDGYRRALVLAPQNAWGQRMAEAFNQQWQALGGQVAEVSYYGS------PADLQAAIQ 393 (536)
T ss_dssp TTEEE----HHHHHHHHHHHHHHTT--S-EEEEESSHHHHHHHHHHHHHHHHHHSS--EEEEESS------TTHHHHHHH
T ss_pred cceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEcCCChHHHHHHHHHHHHHHHcCCCceeeEecCC------HHHHHHHHh
Confidence 45566666777788999999988999999999999999999999999999998888866665642 357777776
Q ss_pred HHhcCCCceEEEEee
Q psy12591 97 KLLTKPRARGLFKRL 111 (144)
Q Consensus 97 ~lk~~~~arvii~~~ 111 (144)
.-. ..+.+.|++..
T Consensus 394 ~r~-r~d~D~ifl~a 407 (536)
T PF04348_consen 394 PRR-RQDIDAIFLVA 407 (536)
T ss_dssp HS---TT--EEEE--
T ss_pred hcC-CCCCCEEEEeC
Confidence 433 35677777654
No 87
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=95.14 E-value=0.15 Score=37.12 Aligned_cols=89 Identities=11% Similarity=0.071 Sum_probs=58.9
Q ss_pred CceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCc-eEEEEEecccCCCCCcchhhHHH
Q psy12591 17 EYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYS-ICIAIKEKLVKDSGVAEETAYDD 93 (144)
Q Consensus 17 p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~G-i~V~~~~~~~~~~~~~~~~~~~~ 93 (144)
+++++..+.+...+..+++.+...+-++|+++..+.. ++....+.|.+.+++.| ..+........ ...+...
T Consensus 93 ~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~ 167 (264)
T cd01537 93 DRVPSVGSDNEQAGYLAGEHLAEKGHRRIALLAGPLGSSTARERVAGFKDALKEAGPIEIVLVQEGDW-----DAEKGYQ 167 (264)
T ss_pred cccceEecCcHHHHHHHHHHHHHhcCCcEEEEECCCCCCcHHHHHHHHHHHHHHcCCcChhhhccCCC-----CHHHHHH
Confidence 4667777788888888899888888999999987654 55667888999998887 43332222221 1445666
Q ss_pred HHHHHhcC-CCceEEEEe
Q psy12591 94 IVLKLLTK-PRARGLFKR 110 (144)
Q Consensus 94 ~l~~lk~~-~~arvii~~ 110 (144)
.+.++.+. +++.++++.
T Consensus 168 ~~~~~l~~~~~~~~i~~~ 185 (264)
T cd01537 168 AAEELLTAHPDPTAIFAA 185 (264)
T ss_pred HHHHHHhcCCCCCEEEEc
Confidence 77776632 225555543
No 88
>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=94.86 E-value=0.63 Score=33.97 Aligned_cols=89 Identities=17% Similarity=0.130 Sum_probs=56.3
Q ss_pred ceEEecCCchHHHHHHHHHHHhC--CCcEEEEEEEeC--CcchHHHHHHHHHhhhC-ceEEEEEecccCCCCCcchhhHH
Q psy12591 18 YFTRTIPSDHHQVKAMVEIVKKL--GWSYVSIIYEES--NYGVKAFEELEVLLAKY-SICIAIKEKLVKDSGVAEETAYD 92 (144)
Q Consensus 18 ~ffRt~p~d~~~~~a~~~ll~~f--~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~-Gi~V~~~~~~~~~~~~~~~~~~~ 92 (144)
.+....+++...+..+++.+... |-++++++.... .++....+.|.+.+++. |+++........ +..+..
T Consensus 95 ~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~-----~~~~~~ 169 (267)
T cd01536 95 RLAYVGTDNYEAGRLAGEYLAKLLGGKGKVAIIEGPPGSSNAQERVKGFRDALKEYPDIEIVAVQDGNW-----DREKAL 169 (267)
T ss_pred eeEEEecCHHHHHHHHHHHHHHHhCCCceEEEEEcccccchHHHHHHHHHHHHHhCCCcEEEEEecCCC-----cHHHHH
Confidence 34455566666677778877665 889999998654 36677888899999988 466543322221 134555
Q ss_pred HHHHHHhc-CCCceEEEEee
Q psy12591 93 DIVLKLLT-KPRARGLFKRL 111 (144)
Q Consensus 93 ~~l~~lk~-~~~arvii~~~ 111 (144)
..+.++.+ .++..+|++..
T Consensus 170 ~~~~~~~~~~~~~~~i~~~~ 189 (267)
T cd01536 170 QAMEDLLQANPDIDAIFAAN 189 (267)
T ss_pred HHHHHHHHhCCCccEEEEec
Confidence 66666652 24455665543
No 89
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=94.74 E-value=0.19 Score=40.19 Aligned_cols=78 Identities=8% Similarity=0.057 Sum_probs=58.8
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.+.++.+|.+++.++++..-...+..+.+.+.|++.|+.+.....+.+++ +.++..+.+...| ..+++.||-.
T Consensus 20 ~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~np---~~~~v~~~~~~~~-~~~~D~Iiai 95 (383)
T PRK09860 20 TDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPNP---TTENVAAGLKLLK-ENNCDSVISL 95 (383)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCc---CHHHHHHHHHHHH-HcCCCEEEEe
Confidence 34566788899999998886543334567789999999998876555666665 3678888888888 6789999876
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 96 GG 97 (383)
T PRK09860 96 GG 97 (383)
T ss_pred CC
Confidence 53
No 90
>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=94.43 E-value=0.28 Score=39.01 Aligned_cols=78 Identities=13% Similarity=0.103 Sum_probs=57.9
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.++++.++.+++.++++...+..+..+.+.+.|++.|+++.....+..++ +.+.+.+.+...+ ..+++.||-.
T Consensus 13 ~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p---~~~~v~~~~~~~~-~~~~d~IIai 88 (370)
T cd08192 13 KELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAALFDEVPPNP---TEAAVEAGLAAYR-AGGCDGVIAF 88 (370)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCC---CHHHHHHHHHHHH-hcCCCEEEEe
Confidence 34567788889999888876554444467889999999998876555565554 3677888888888 6788998876
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 89 GG 90 (370)
T cd08192 89 GG 90 (370)
T ss_pred CC
Confidence 54
No 91
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=94.42 E-value=0.43 Score=38.28 Aligned_cols=78 Identities=12% Similarity=0.018 Sum_probs=65.0
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
+.+.+.++.+|++++-||++..-...+..+.+.+.|++.|+.+.....+.+++ +.+...+-+..++ ..+.+.||.+
T Consensus 18 ~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~v~p~P---~~~~v~~~~~~~~-~~~~D~iIal 93 (377)
T COG1454 18 KELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDEVEPEP---TIETVEAGAEVAR-EFGPDTIIAL 93 (377)
T ss_pred HHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeEEEecCCCCCC---CHHHHHHHHHHHH-hcCCCEEEEe
Confidence 45667778899999999998877777899999999999998877777777776 4778888888888 6889999988
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 94 GG 95 (377)
T COG1454 94 GG 95 (377)
T ss_pred CC
Confidence 64
No 92
>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=94.11 E-value=0.41 Score=38.72 Aligned_cols=78 Identities=10% Similarity=0.072 Sum_probs=58.9
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.++++.++.+++.++++...+..+..+.+.+.|++.|+.+.....+..++ +.+...+.+...+ ..+++.||-.
T Consensus 12 ~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p---~~~~v~~~~~~~~-~~~~D~IIai 87 (414)
T cd08190 12 AEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVEP---TDESFKDAIAFAK-KGQFDAFVAV 87 (414)
T ss_pred HHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCCc---CHHHHHHHHHHHH-hcCCCEEEEe
Confidence 44567788899999999987665544567889999999998876555566665 3677888888888 6788998877
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 88 GG 89 (414)
T cd08190 88 GG 89 (414)
T ss_pred CC
Confidence 64
No 93
>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=94.10 E-value=0.4 Score=38.05 Aligned_cols=78 Identities=14% Similarity=0.111 Sum_probs=58.2
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.++++.++.+++.++++...+.....+.+.+.|+++|+.+.....+..++ +.+++.+.+..++ ..+++.||..
T Consensus 12 ~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~p---~~~~v~~~~~~~~-~~~~d~Iiai 87 (370)
T cd08551 12 EKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPNP---TLSNVDAAVAAYR-EEGCDGVIAV 87 (370)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCC---CHHHHHHHHHHHH-hcCCCEEEEe
Confidence 45566778889999999987654444677889999999998775444565554 3778889999888 5778888876
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 88 GG 89 (370)
T cd08551 88 GG 89 (370)
T ss_pred CC
Confidence 54
No 94
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=93.99 E-value=0.33 Score=39.08 Aligned_cols=78 Identities=13% Similarity=-0.002 Sum_probs=57.3
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.+.++.+|++++-++.+..-...+..+.+.+.|++.|+.+.....+.+++ +.+...+.+...| ..+++.||-.
T Consensus 38 ~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~P---~~~~v~~~~~~~r-~~~~D~Iiav 113 (395)
T PRK15454 38 SSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPCPVGEP---CITDVCAAVAQLR-ESGCDGVIAF 113 (395)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCc---CHHHHHHHHHHHH-hcCcCEEEEe
Confidence 34556778899988887765443344567889999999998876555566665 3667888888888 6789999877
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 114 GG 115 (395)
T PRK15454 114 GG 115 (395)
T ss_pred CC
Confidence 64
No 95
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=93.90 E-value=0.4 Score=38.31 Aligned_cols=78 Identities=13% Similarity=0.091 Sum_probs=57.4
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.+.++.+|.+++.++++..-+-.+..+.+.+.+++.|+.+.....+.+++ +.++.++.+..++ ..+++.||-.
T Consensus 19 ~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p---~~~~v~~~~~~~~-~~~~D~IIai 94 (382)
T PRK10624 19 GALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPNP---TIEVVKEGVEVFK-ASGADYLIAI 94 (382)
T ss_pred HHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCCc---CHHHHHHHHHHHH-hcCCCEEEEe
Confidence 44667788889999988887544444577889999999998776555565554 3677888888888 5788988876
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 95 GG 96 (382)
T PRK10624 95 GG 96 (382)
T ss_pred CC
Confidence 54
No 96
>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=93.66 E-value=0.95 Score=33.56 Aligned_cols=77 Identities=22% Similarity=0.290 Sum_probs=52.8
Q ss_pred CchHHHHHHHHHHHhC--CCcEEEEEEEeC-CcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcC
Q psy12591 25 SDHHQVKAMVEIVKKL--GWSYVSIIYEES-NYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTK 101 (144)
Q Consensus 25 ~d~~~~~a~~~ll~~f--~W~~Vaii~~~~-~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~ 101 (144)
.+...+..+++++... |.+++++++.+. .++....+.+++.+++.|+.+.... . .. ..++...++++.+
T Consensus 112 ~~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~~~~~~~g~~~~~~~-~-~~-----~~~~~~~~~~~~~- 183 (281)
T cd06325 112 SDLVPVETQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELKKAAAKLGIEVVEAT-V-SS-----SNDVQQAAQSLAG- 183 (281)
T ss_pred ecccchHHHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHHHHHHhCCCEEEEEe-c-CC-----HHHHHHHHHHhcc-
Confidence 4455566777777664 999999997654 3677778889999999998876532 1 11 3567777888862
Q ss_pred CCceEEEEe
Q psy12591 102 PRARGLFKR 110 (144)
Q Consensus 102 ~~arvii~~ 110 (144)
..++|++.
T Consensus 184 -~~dai~~~ 191 (281)
T cd06325 184 -KVDAIYVP 191 (281)
T ss_pred -cCCEEEEc
Confidence 24666654
No 97
>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=93.65 E-value=0.54 Score=37.47 Aligned_cols=78 Identities=15% Similarity=0.137 Sum_probs=57.5
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.++++.++.+++.++++..-...+..+.+.+.+++.|+.+.....+..++ +.+++.+.+..++ ..+++.||-.
T Consensus 15 ~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p---~~~~v~~~~~~~~-~~~~D~IIai 90 (376)
T cd08193 15 ARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEVTVFDDVEADP---PEAVVEAAVEAAR-AAGADGVIGF 90 (376)
T ss_pred HHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCc---CHHHHHHHHHHHH-hcCCCEEEEe
Confidence 34556778889999988876553334467888899999998776555565654 4778888888888 5788888877
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 91 GG 92 (376)
T cd08193 91 GG 92 (376)
T ss_pred CC
Confidence 64
No 98
>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=93.46 E-value=0.47 Score=37.56 Aligned_cols=76 Identities=14% Similarity=0.080 Sum_probs=58.4
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.+.++.+| ++.+|++..-...+..+.+.+.|++.|+.+.....+..++ +..++.+.+..++ ..+++.||..
T Consensus 12 ~~l~~~l~~~g--r~lvVt~~~~~~~~~~~~v~~~L~~~~i~~~~~~~~~~~p---~~~~v~~~~~~~~-~~~~D~IIai 85 (366)
T PF00465_consen 12 EELGEELKRLG--RVLVVTDPSLSKSGLVDRVLDALEEAGIEVQVFDGVGPNP---TLEDVDEAAEQAR-KFGADCIIAI 85 (366)
T ss_dssp GGHHHHHHCTT--EEEEEEEHHHHHHTHHHHHHHHHHHTTCEEEEEEEESSS----BHHHHHHHHHHHH-HTTSSEEEEE
T ss_pred HHHHHHHHhcC--CEEEEECchHHhCccHHHHHHHHhhCceEEEEEecCCCCC---cHHHHHHHHHHHH-hcCCCEEEEc
Confidence 44566778887 8888887633333478999999999999987777777765 4788999999999 6789999877
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 86 GG 87 (366)
T PF00465_consen 86 GG 87 (366)
T ss_dssp ES
T ss_pred CC
Confidence 63
No 99
>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=93.36 E-value=0.68 Score=36.90 Aligned_cols=78 Identities=10% Similarity=0.066 Sum_probs=57.7
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
+.+.+.++.+|-+++.++++..-+..+..+.+.+.|++.|+.+.....+..++ +.+...+.+..++ ..+++.||..
T Consensus 15 ~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p---~~~~v~~~~~~~~-~~~~d~IIai 90 (374)
T cd08189 15 AQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDGVPPDP---TIENVEAGLALYR-ENGCDAILAV 90 (374)
T ss_pred HHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCCCCCCc---CHHHHHHHHHHHH-hcCCCEEEEe
Confidence 34566778888889988886554434467888999999998776555666665 3677888888888 5789998877
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 91 GG 92 (374)
T cd08189 91 GG 92 (374)
T ss_pred CC
Confidence 64
No 100
>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=93.31 E-value=0.73 Score=33.43 Aligned_cols=90 Identities=16% Similarity=0.102 Sum_probs=54.9
Q ss_pred ceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHH
Q psy12591 18 YFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIV 95 (144)
Q Consensus 18 ~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l 95 (144)
.+....++....+..+++.+...|.+++++++.+.. ++....+.+++.+++.|..+.....+.... ...+....+
T Consensus 92 ~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~ 168 (264)
T cd06267 92 GVDSVGIDNRAGAYLAVEHLIELGHRRIAFIGGPPDLSTARERLEGYREALEEAGIPLDEELIVEGDF---SEESGYEAA 168 (264)
T ss_pred CCCEEeeccHHHHHHHHHHHHHCCCceEEEecCCCccchHHHHHHHHHHHHHHcCCCCCcceEEeccc---chhhHHHHH
Confidence 445566666777788888777779999999986544 666777888999988885332221122221 123445555
Q ss_pred HHHhc-CCCceEEEEe
Q psy12591 96 LKLLT-KPRARGLFKR 110 (144)
Q Consensus 96 ~~lk~-~~~arvii~~ 110 (144)
+++.. .++.++|+..
T Consensus 169 ~~~l~~~~~~~~i~~~ 184 (264)
T cd06267 169 RELLASGERPTAIFAA 184 (264)
T ss_pred HHHHhcCCCCcEEEEc
Confidence 55552 2335555543
No 101
>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=93.13 E-value=0.69 Score=36.86 Aligned_cols=77 Identities=14% Similarity=0.076 Sum_probs=57.7
Q ss_pred HHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 32 AMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 32 a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+.++++.++.+++.++++...+..+..+.+.+.|++.|+.+.....+..++ +.+...+.+..++ ..+++.||-..
T Consensus 13 ~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~p---~~~~v~~~~~~~~-~~~~D~IIaiG 88 (375)
T cd08194 13 ETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSEP---TDESVEEGVKLAK-EGGCDVIIALG 88 (375)
T ss_pred HHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCCc---CHHHHHHHHHHHH-hcCCCEEEEeC
Confidence 4456677778899999986555544467889999999998876555666665 3677888888888 67899998776
Q ss_pred E
Q psy12591 112 K 112 (144)
Q Consensus 112 ~ 112 (144)
.
T Consensus 89 G 89 (375)
T cd08194 89 G 89 (375)
T ss_pred C
Confidence 4
No 102
>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=92.88 E-value=0.82 Score=33.48 Aligned_cols=82 Identities=10% Similarity=0.197 Sum_probs=50.3
Q ss_pred CCchHHHHHHHHHHHhCCCcEEEEEEEe---CCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHH-Hh
Q psy12591 24 PSDHHQVKAMVEIVKKLGWSYVSIIYEE---SNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLK-LL 99 (144)
Q Consensus 24 p~d~~~~~a~~~ll~~f~W~~Vaii~~~---~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~-lk 99 (144)
..+...+..+++.|...|.++++++... .+++....+.|.+.++++|+.+........+ ..+....+.+ ++
T Consensus 98 ~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~-----~~~~~~~~~~~l~ 172 (266)
T cd06282 98 VDNRAAARDVAQALAALGHRRIAMLAGRLAASDRARQRYAGYRAAMRAAGLAPLPPVEIPFN-----TAALPSALLALLT 172 (266)
T ss_pred eCcHHHHHHHHHHHHHcCcccEEEeccccccCchHHHHHHHHHHHHHHcCCCCCccccCCCc-----HHHHHHHHHHHhc
Confidence 4555667778888777799999999642 3456667788999999988764332222211 2223344444 44
Q ss_pred cCCCceEEEEe
Q psy12591 100 TKPRARGLFKR 110 (144)
Q Consensus 100 ~~~~arvii~~ 110 (144)
..+..++|+..
T Consensus 173 ~~~~~~ai~~~ 183 (266)
T cd06282 173 AHPAPTAIFCS 183 (266)
T ss_pred CCCCCCEEEEC
Confidence 22356677664
No 103
>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=92.66 E-value=0.97 Score=36.07 Aligned_cols=77 Identities=10% Similarity=0.010 Sum_probs=56.9
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCc-chHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEE
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNY-GVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFK 109 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~-g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~ 109 (144)
..+.++++.++ +++-+|++...+ ..+..+.+.+.|++.|+.+.....+.+++ +.++..+.+...+ ..+++.||-
T Consensus 15 ~~l~~~~~~~g-~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~p---~~~~v~~~~~~~~-~~~~D~Iia 89 (380)
T cd08185 15 NELGEEALKPG-KKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPNP---TTTTVMEGAALAR-EEGCDFVVG 89 (380)
T ss_pred HHHHHHHHhcC-CeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCCC---CHHHHHHHHHHHH-HcCCCEEEE
Confidence 34556677778 898888865542 45677889999999998876555666665 3677888888888 578999987
Q ss_pred eeE
Q psy12591 110 RLK 112 (144)
Q Consensus 110 ~~~ 112 (144)
...
T Consensus 90 vGG 92 (380)
T cd08185 90 LGG 92 (380)
T ss_pred eCC
Confidence 653
No 104
>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=92.64 E-value=0.88 Score=36.34 Aligned_cols=78 Identities=14% Similarity=0.129 Sum_probs=56.4
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.+.++.+|.+++-++++..-+-.+..+.+.+.|++.|+.+.....+.+++ +.+...+.+..++ ..+++.||..
T Consensus 18 ~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~v~~~p---~~~~v~~~~~~~~-~~~~D~Iiai 93 (379)
T TIGR02638 18 EDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDEVKPNP---TITVVKAGVAAFK-ASGADYLIAI 93 (379)
T ss_pred HHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECCCCCCc---CHHHHHHHHHHHH-hcCCCEEEEe
Confidence 34556778889999988886543333467888999999998765544555554 3677888888888 5788999877
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 94 GG 95 (379)
T TIGR02638 94 GG 95 (379)
T ss_pred CC
Confidence 64
No 105
>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=92.14 E-value=1.3 Score=35.43 Aligned_cols=78 Identities=8% Similarity=-0.010 Sum_probs=55.9
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.++++.++.+++.++++....-.+..+.+.+.+++.|+.+.....+..++ +..+..+.+...+ ..+++.||..
T Consensus 17 ~~l~~~l~~~g~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p---~~~~v~~~~~~~~-~~~~d~IIai 92 (377)
T cd08188 17 KLAGRYARRLGAKKVLLVSDPGVIKAGWVDRVIESLEEAGLEYVVFSDVSPNP---RDEEVMAGAELYL-ENGCDVIIAV 92 (377)
T ss_pred HHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCC---CHHHHHHHHHHHH-hcCCCEEEEe
Confidence 34556678888899998886543333467788999999888765444455554 3667888888888 5788999877
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 93 GG 94 (377)
T cd08188 93 GG 94 (377)
T ss_pred CC
Confidence 64
No 106
>KOG3857|consensus
Probab=91.99 E-value=1.8 Score=34.59 Aligned_cols=94 Identities=12% Similarity=0.058 Sum_probs=73.1
Q ss_pred CCCCceEEecCCchHHHHHHH----HHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchh
Q psy12591 14 QRFEYFTRTIPSDHHQVKAMV----EIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEET 89 (144)
Q Consensus 14 ~~~p~ffRt~p~d~~~~~a~~----~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~ 89 (144)
+.-++-|-++|+....++... .-++..|.+++.++++.+---....+..++.|+++||.+.........++ ..
T Consensus 38 k~~~~af~m~~s~~rfG~gv~~Evg~dikn~gaKk~llvTDkni~~~~~~~~a~~~L~~~~I~~~vyD~v~~ePt---v~ 114 (465)
T KOG3857|consen 38 KMMSVAFFMIPSTSRFGKGVLAEVGDDIKNLGAKKTLLVTDKNIAKLGLVKVAQDSLEENGINVEVYDKVQPEPT---VG 114 (465)
T ss_pred ccceeeEEeccchhhhcchhHHHHHHHHHhcCccceEEeeCCChhhcccHHHHHHHHHHcCCceEEecCccCCCc---hh
Confidence 345677778888888877554 34788999999999988777677888899999999999988777777763 77
Q ss_pred hHHHHHHHHhcCCCceEEEEee
Q psy12591 90 AYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 90 ~~~~~l~~lk~~~~arvii~~~ 111 (144)
++...|.=.| +.+-+.+|...
T Consensus 115 s~~~alefak-~~~fDs~vaiG 135 (465)
T KOG3857|consen 115 SVTAALEFAK-KKNFDSFVAIG 135 (465)
T ss_pred hHHHHHHHHH-hcccceEEEEc
Confidence 8888888777 56666666543
No 107
>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=91.23 E-value=1.2 Score=35.51 Aligned_cols=78 Identities=15% Similarity=0.129 Sum_probs=55.8
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.+.++.+|-+++-++++...+-....+.+.+.|++.|+.+.....+..++ +.+...+.+...+ ..+++.||-.
T Consensus 17 ~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~p---~~~~v~~~~~~~~-~~~~D~IIav 92 (377)
T cd08176 17 KEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPNP---TITNVKDGLAVFK-KEGCDFIISI 92 (377)
T ss_pred HHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCC---CHHHHHHHHHHHH-hcCCCEEEEe
Confidence 34556777888888888875443333567889999999998775554555554 3677888888888 5789999876
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 93 GG 94 (377)
T cd08176 93 GG 94 (377)
T ss_pred CC
Confidence 64
No 108
>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=91.11 E-value=2 Score=34.36 Aligned_cols=76 Identities=17% Similarity=0.194 Sum_probs=52.7
Q ss_pred HHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 32 AMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 32 a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+.++++.+| +++-++++...+.....+.+.+.+++.|+.+.....+.+++ +..+....+...+ ..+++.||-..
T Consensus 13 ~l~~~~~~~g-~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~~---~~~~v~~~~~~~~-~~~~D~IIaiG 87 (386)
T cd08191 13 QLPRLAARLG-SRALIVTDERMAGTPVFAELVQALAAAGVEVEVFDGVLPDL---PRSELCDAASAAA-RAGPDVIIGLG 87 (386)
T ss_pred HHHHHHHHcC-CeEEEEECcchhhcchHHHHHHHHHHcCCeEEEECCCCCCc---CHHHHHHHHHHHH-hcCCCEEEEeC
Confidence 4556778888 88888885443334677889999999998765444444332 3556777777777 57888888776
Q ss_pred E
Q psy12591 112 K 112 (144)
Q Consensus 112 ~ 112 (144)
.
T Consensus 88 G 88 (386)
T cd08191 88 G 88 (386)
T ss_pred C
Confidence 4
No 109
>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=90.96 E-value=3.8 Score=30.24 Aligned_cols=89 Identities=16% Similarity=0.154 Sum_probs=55.6
Q ss_pred CceEEecCCchHHHHHHHHHHHhC--CCcEEEEEEEe--CCcchHHHHHHHHHhhhCc-eEEEEEecccCCCCCcchhhH
Q psy12591 17 EYFTRTIPSDHHQVKAMVEIVKKL--GWSYVSIIYEE--SNYGVKAFEELEVLLAKYS-ICIAIKEKLVKDSGVAEETAY 91 (144)
Q Consensus 17 p~ffRt~p~d~~~~~a~~~ll~~f--~W~~Vaii~~~--~~~g~~~~~~~~~~l~~~G-i~V~~~~~~~~~~~~~~~~~~ 91 (144)
+.+.+..+++...+..+++.|... +-++++++... ...+......|++.+.+.| +.+.... ..+. +..+.
T Consensus 98 ~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~g~~~a~~~~~~~~~~~~~--~~~~---~~~~~ 172 (272)
T cd06300 98 PCAYNVNEDQAEFGKQGAEWLVKELGGKGNVLVVRGLAGHPVDEDRYAGAKEVLKEYPGIKIVGEV--YGDW---DQAVA 172 (272)
T ss_pred CceeEecCCHHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchHHHHHHHHHHHHHCCCcEEEeec--CCCC---CHHHH
Confidence 345667777777888888877554 78899999743 2345566778888888887 7765322 1121 13445
Q ss_pred HHHHHHHhc-CCCceEEEEe
Q psy12591 92 DDIVLKLLT-KPRARGLFKR 110 (144)
Q Consensus 92 ~~~l~~lk~-~~~arvii~~ 110 (144)
...+.++.. .++.++|++.
T Consensus 173 ~~~~~~~l~~~~~~~~i~~~ 192 (272)
T cd06300 173 QKAVADFLASNPDVDGIWTQ 192 (272)
T ss_pred HHHHHHHHHhCCCcCEEEec
Confidence 556666652 2345665554
No 110
>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=90.91 E-value=2 Score=34.07 Aligned_cols=76 Identities=14% Similarity=0.042 Sum_probs=55.1
Q ss_pred HHHHHHHhCCCcEEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 32 AMVEIVKKLGWSYVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 32 a~~~ll~~f~W~~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
.+.++++.+| +++-++++...+- .+..+.+.+.|++.|+.+.....+.+++ +.++..+.+..++ ..+++.||-.
T Consensus 16 ~l~~~~~~~g-~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p---~~~~v~~~~~~~~-~~~~D~IIav 90 (357)
T cd08181 16 KHGEELAALG-KRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEENP---SLETIMEAVEIAK-KFNADFVIGI 90 (357)
T ss_pred HHHHHHHHcC-CEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCc---CHHHHHHHHHHHH-hcCCCEEEEe
Confidence 3456677788 8888887655433 2356778899999998876555566665 3677888888888 6789999877
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 91 GG 92 (357)
T cd08181 91 GG 92 (357)
T ss_pred CC
Confidence 64
No 111
>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=90.83 E-value=2 Score=34.10 Aligned_cols=74 Identities=9% Similarity=0.059 Sum_probs=53.4
Q ss_pred HHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 32 AMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 32 a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+.++++.++.+++.+|++...+ ..+.+.+.+++.|+.+.....+..++ +.++..+.+..++ ..+++.||-..
T Consensus 13 ~l~~~~~~~g~~~~livtd~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~p---~~~~v~~~~~~~~-~~~~D~IIavG 85 (367)
T cd08182 13 KLPSLLKGLGGKRVLLVTGPRSA---IASGLTDILKPLGTLVVVFDDVQPNP---DLEDLAAGIRLLR-EFGPDAVLAVG 85 (367)
T ss_pred HHHHHHHhcCCCeEEEEeCchHH---HHHHHHHHHHHcCCeEEEEcCcCCCc---CHHHHHHHHHHHH-hcCcCEEEEeC
Confidence 45567788888999999866554 44667778888887766555566664 3677888888888 57788888765
Q ss_pred E
Q psy12591 112 K 112 (144)
Q Consensus 112 ~ 112 (144)
.
T Consensus 86 G 86 (367)
T cd08182 86 G 86 (367)
T ss_pred C
Confidence 4
No 112
>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=90.32 E-value=2.1 Score=33.66 Aligned_cols=73 Identities=15% Similarity=0.053 Sum_probs=52.5
Q ss_pred HHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 32 AMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 32 a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+.++++.++ +++-+++....+. ...+.+.+.|++.|+.+.+. .+..++ +.++..+.++..+ ..+++.||...
T Consensus 13 ~l~~~~~~~~-~r~livt~~~~~~-~~~~~v~~~L~~~~i~~~~~-~~~~~p---~~~~v~~~~~~~~-~~~~D~IIavG 85 (351)
T cd08170 13 ELGEYLARLG-KRALIIADEFVLD-LVGAKIEESLAAAGIDARFE-VFGGEC---TRAEIERLAEIAR-DNGADVVIGIG 85 (351)
T ss_pred HHHHHHHHhC-CeEEEEECHHHHH-HHHHHHHHHHHhCCCeEEEE-EeCCcC---CHHHHHHHHHHHh-hcCCCEEEEec
Confidence 4556677776 8888887544443 77888999999999887533 455554 3677888888888 57888888765
No 113
>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=90.10 E-value=1.9 Score=34.40 Aligned_cols=77 Identities=9% Similarity=0.052 Sum_probs=54.6
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCc-chHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEE
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNY-GVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFK 109 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~-g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~ 109 (144)
..+.++++.++ +++.+++....+ ..+..+.+.+.|+..|+.+.....+.+++ +..+..+.+..++ ..+++.||-
T Consensus 18 ~~l~~~~~~~~-~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p---~~~~v~~~~~~~~-~~~~D~IIa 92 (382)
T cd08187 18 SELGKELKKYG-KKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPNP---RLETVREGIELCK-EEKVDFILA 92 (382)
T ss_pred HHHHHHHHHhC-CEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCCC---CHHHHHHHHHHHH-HcCCCEEEE
Confidence 34556677775 888888764433 23456889999999998876555566664 3677888888888 578899887
Q ss_pred eeE
Q psy12591 110 RLK 112 (144)
Q Consensus 110 ~~~ 112 (144)
...
T Consensus 93 iGG 95 (382)
T cd08187 93 VGG 95 (382)
T ss_pred eCC
Confidence 653
No 114
>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=89.36 E-value=2.9 Score=32.92 Aligned_cols=74 Identities=16% Similarity=0.092 Sum_probs=51.0
Q ss_pred HHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 32 AMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 32 a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+.+.++.++ +++-+|++...+ ....+.+.+.+++.|+.+.....+..++ +.++..+.+...+ ..+++.||-..
T Consensus 13 ~l~~~~~~~~-~r~liv~d~~~~-~~~~~~v~~~l~~~~~~~~~~~~~~~~p---~~~~v~~~~~~~~-~~~~d~iiavG 86 (345)
T cd08171 13 KIPEVCEKYG-KKVVVIGGKTAL-AAAKDKIKAALEQSGIEITDFIWYGGES---TYENVERLKKNPA-VQEADMIFAVG 86 (345)
T ss_pred HHHHHHHhcC-CEEEEEeCHHHH-HHHHHHHHHHHHHCCCeEEEEEecCCCC---CHHHHHHHHHHHh-hcCCCEEEEeC
Confidence 3455666677 888888765444 4557788888999998776555565554 3667777777776 56788888654
No 115
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=89.08 E-value=2.3 Score=32.22 Aligned_cols=76 Identities=26% Similarity=0.311 Sum_probs=46.8
Q ss_pred HHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 32 AMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 32 a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+.++++.++++++.++.+.+.| .-..+.+++.++..|+.+.........+ +..+..+++.+++ ..+++.||-..
T Consensus 9 ~l~~~l~~~~~~~~lvv~d~~t~-~~~g~~v~~~l~~~g~~v~~~~~~~~~~---~~~~~~~~~~~~~-~~~~d~ii~vG 83 (250)
T PF13685_consen 9 KLPEILSELGLKKVLVVTDENTY-KAAGEKVEESLKSAGIEVAVIEEFVGDA---DEDEVEKLVEALR-PKDADLIIGVG 83 (250)
T ss_dssp GHHHHHGGGT-SEEEEEEETTHH-HHHHHHHHHHHHTTT-EEEEEE-EE------BHHHHHHHHTTS---TT--EEEEEE
T ss_pred HHHHHHHhcCCCcEEEEEcCCHH-HHHHHHHHHHHHHcCCeEEEEecCCCCC---CHHHHHHHHHHhc-ccCCCEEEEeC
Confidence 35678888888998888876654 3466788899999999887544333332 2556666777776 46777887654
Q ss_pred E
Q psy12591 112 K 112 (144)
Q Consensus 112 ~ 112 (144)
.
T Consensus 84 g 84 (250)
T PF13685_consen 84 G 84 (250)
T ss_dssp S
T ss_pred C
Confidence 3
No 116
>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=88.77 E-value=4.1 Score=31.68 Aligned_cols=75 Identities=13% Similarity=0.101 Sum_probs=52.0
Q ss_pred HHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 32 AMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 32 a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+.++++.++.+++.++++...+- ...+.+.+.+++. +.+.......+++ +.++..+.+..++ ..+++.||...
T Consensus 13 ~l~~~~~~~g~~~~liv~~~~~~~-~~~~~v~~~l~~~-~~~~~~~~~~~~p---~~~~v~~~~~~~~-~~~~d~IIaiG 86 (332)
T cd07766 13 KIGEEIKRGGFDRALVVSDEGVVK-GVGEKVADSLKKL-IAVHIFDGVGPNP---TFEEVKEAVERAR-AAEVDAVIAVG 86 (332)
T ss_pred HHHHHHHhcCCCeEEEEeCCchhh-hHHHHHHHHHHhc-CcEEEeCCcCCCc---CHHHHHHHHHHHH-hcCcCEEEEeC
Confidence 345667778889998888544433 6778888888876 6554443344333 4678888888888 56788888765
Q ss_pred E
Q psy12591 112 K 112 (144)
Q Consensus 112 ~ 112 (144)
.
T Consensus 87 G 87 (332)
T cd07766 87 G 87 (332)
T ss_pred C
Confidence 3
No 117
>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=88.68 E-value=3.5 Score=32.97 Aligned_cols=77 Identities=21% Similarity=0.198 Sum_probs=54.0
Q ss_pred HHHHHHHhC---CCcEEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEE
Q psy12591 32 AMVEIVKKL---GWSYVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGL 107 (144)
Q Consensus 32 a~~~ll~~f---~W~~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvi 107 (144)
.+.++++.+ |.+++-++++...+. .+..+.+.+.+++.|+.+.....+.+++ +.+++...+..++ ..+++.|
T Consensus 13 ~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p---~~~~v~~~~~~~~-~~~~D~I 88 (383)
T cd08186 13 KIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPNP---TVDQVDEAAKLGR-EFGAQAV 88 (383)
T ss_pred HHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCCC---CHHHHHHHHHHHH-HcCCCEE
Confidence 345566665 788988888654433 2346788889999998765444555554 3677888888888 5778888
Q ss_pred EEeeE
Q psy12591 108 FKRLK 112 (144)
Q Consensus 108 i~~~~ 112 (144)
|....
T Consensus 89 IaiGG 93 (383)
T cd08186 89 IAIGG 93 (383)
T ss_pred EEeCC
Confidence 87754
No 118
>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=88.44 E-value=4.4 Score=29.71 Aligned_cols=84 Identities=11% Similarity=0.096 Sum_probs=49.6
Q ss_pred CCchHHHHHHHHHHHhCCCcEEEEEEEe---CCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhc
Q psy12591 24 PSDHHQVKAMVEIVKKLGWSYVSIIYEE---SNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLT 100 (144)
Q Consensus 24 p~d~~~~~a~~~ll~~f~W~~Vaii~~~---~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~ 100 (144)
..+...+..+++.+...|.++|+++... ..++......|.+.++++|+.+.....+.... +..+....+.++.+
T Consensus 98 ~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~ 174 (268)
T cd06273 98 FDNREAGRLAARHLIALGHRRIAMIFGPTQGNDRARARRAGVRAALAEAGLELPELWQVEAPY---SIADGRAALRQLLE 174 (268)
T ss_pred eChHHHHHHHHHHHHHCCCCeEEEEeccccCCccHHHHHHHHHHHHHHcCCCCCHHHeeeCCC---cHHHHHHHHHHHHc
Confidence 3445566777787766699999999743 23466678889999999886543222222111 12223344555542
Q ss_pred -CCCceEEEEe
Q psy12591 101 -KPRARGLFKR 110 (144)
Q Consensus 101 -~~~arvii~~ 110 (144)
.+..++|++.
T Consensus 175 ~~~~~~ai~~~ 185 (268)
T cd06273 175 QPPRPTAVICG 185 (268)
T ss_pred CCCCCCEEEEc
Confidence 2456676653
No 119
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=87.41 E-value=4.9 Score=31.93 Aligned_cols=74 Identities=14% Similarity=0.104 Sum_probs=51.6
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.+.++.+| +++-+|++...+ ....+.+.+.++..|+.+.+. .+..++ +.+...+.+..++ ..+++.||..
T Consensus 19 ~~l~~~l~~~g-~~~livtd~~~~-~~~~~~v~~~l~~~~~~~~~~-~~~~ep---~~~~v~~~~~~~~-~~~~d~IIav 91 (366)
T PRK09423 19 ARLGEYLKPLG-KRALVIADEFVL-GIVGDRVEASLKEAGLTVVFE-VFNGEC---SDNEIDRLVAIAE-ENGCDVVIGI 91 (366)
T ss_pred HHHHHHHHHcC-CEEEEEEChhHH-HHHHHHHHHHHHhCCCeEEEE-EeCCCC---CHHHHHHHHHHHH-hcCCCEEEEe
Confidence 34456677888 888888854444 347788888899899876433 355554 3567888888888 5678888866
Q ss_pred e
Q psy12591 111 L 111 (144)
Q Consensus 111 ~ 111 (144)
.
T Consensus 92 G 92 (366)
T PRK09423 92 G 92 (366)
T ss_pred c
Confidence 4
No 120
>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=87.01 E-value=4.6 Score=31.80 Aligned_cols=74 Identities=16% Similarity=0.139 Sum_probs=49.2
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.++++.+| +++.++++...+ ....+.+.+.+++.|+.+.... |..++ +.+...+.+..++ ..+++.||..
T Consensus 12 ~~l~~~~~~~g-~~~liv~~~~~~-~~~~~~v~~~l~~~~i~~~~~~-~~~~p---~~~~v~~~~~~~~-~~~~d~IIav 84 (349)
T cd08550 12 KEIAAILSTFG-SKVAVVGGKTVL-KKSRPRFEAALAKSIIVVDVIV-FGGEC---STEEVVKALCGAE-EQEADVIIGV 84 (349)
T ss_pred HHHHHHHHHcC-CeEEEEEChHHH-HHHHHHHHHHHHhcCCeeEEEE-cCCCC---CHHHHHHHHHHHH-hcCCCEEEEe
Confidence 34556778888 888777654433 3566888888988887654332 44343 2566777888887 5678888765
Q ss_pred e
Q psy12591 111 L 111 (144)
Q Consensus 111 ~ 111 (144)
.
T Consensus 85 G 85 (349)
T cd08550 85 G 85 (349)
T ss_pred c
Confidence 4
No 121
>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=85.32 E-value=8 Score=30.79 Aligned_cols=72 Identities=13% Similarity=0.034 Sum_probs=50.9
Q ss_pred HHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 32 AMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 32 a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+.++++.++ +++.++++.... ..+.+.+.|++.|+.+.... +..++ +.+++.+.+...| ..+++.||...
T Consensus 13 ~l~~~l~~~~-~r~livtd~~~~---~~~~v~~~L~~~g~~~~~~~-~~~~p---~~~~v~~~~~~~~-~~~~D~IIaiG 83 (374)
T cd08183 13 ELPALAAELG-RRVLLVTGASSL---RAAWLIEALRAAGIEVTHVV-VAGEP---SVELVDAAVAEAR-NAGCDVVIAIG 83 (374)
T ss_pred HHHHHHHHcC-CcEEEEECCchH---HHHHHHHHHHHcCCeEEEec-CCCCc---CHHHHHHHHHHHH-hcCCCEEEEec
Confidence 4556677775 888888765443 66778888999998765433 44444 3677888888888 67899998876
Q ss_pred E
Q psy12591 112 K 112 (144)
Q Consensus 112 ~ 112 (144)
.
T Consensus 84 G 84 (374)
T cd08183 84 G 84 (374)
T ss_pred C
Confidence 4
No 122
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=85.04 E-value=11 Score=26.52 Aligned_cols=66 Identities=11% Similarity=-0.048 Sum_probs=43.9
Q ss_pred CCcEEEEEEEeCCcch---HHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 41 GWSYVSIIYEESNYGV---KAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 41 ~W~~Vaii~~~~~~g~---~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
..-++++|...|.-+. .....+...+++.|+.+.....++.+ ...+.+.|.+..+..++++||.-.
T Consensus 3 ~~~rv~vit~~d~~~~~~d~n~~~l~~~L~~~G~~v~~~~iv~Dd-----~~~i~~~l~~~~~~~~~DlVIttG 71 (163)
T TIGR02667 3 IPLRIAILTVSDTRTEEDDTSGQYLVERLTEAGHRLADRAIVKDD-----IYQIRAQVSAWIADPDVQVILITG 71 (163)
T ss_pred CccEEEEEEEeCcCCccCCCcHHHHHHHHHHCCCeEEEEEEcCCC-----HHHHHHHHHHHHhcCCCCEEEECC
Confidence 3457888865553322 23557778899999988877777655 566777777764224688887764
No 123
>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=84.80 E-value=12 Score=27.57 Aligned_cols=84 Identities=13% Similarity=0.143 Sum_probs=48.7
Q ss_pred ecCCchHHHHHHHHHHHhC--CCcEEEEEEEeCC-c-chHHHHHHHHHhhhC-ceEEEEEecccCCCCCcchhhHHHHHH
Q psy12591 22 TIPSDHHQVKAMVEIVKKL--GWSYVSIIYEESN-Y-GVKAFEELEVLLAKY-SICIAIKEKLVKDSGVAEETAYDDIVL 96 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f--~W~~Vaii~~~~~-~-g~~~~~~~~~~l~~~-Gi~V~~~~~~~~~~~~~~~~~~~~~l~ 96 (144)
...++...+..+++.+... |.++++++....+ . .....+.|.+.++++ |+.+...... .. ...+....++
T Consensus 100 V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~--~~---~~~~~~~~~~ 174 (275)
T cd06320 100 VGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTEAIKKASGIEVVASQPA--DW---DREKAYDVAT 174 (275)
T ss_pred EecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHHHhhCCCcEEEEecCC--Cc---cHHHHHHHHH
Confidence 3444555577777776544 8999999975332 2 344567789999998 8876543211 11 1233444555
Q ss_pred HHhc-CCCceEEEEe
Q psy12591 97 KLLT-KPRARGLFKR 110 (144)
Q Consensus 97 ~lk~-~~~arvii~~ 110 (144)
++.. .++.++|+..
T Consensus 175 ~~l~~~~~~~ai~~~ 189 (275)
T cd06320 175 TILQRNPDLKAIYCN 189 (275)
T ss_pred HHHHhCCCccEEEEC
Confidence 5542 3445565544
No 124
>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=84.50 E-value=5.1 Score=24.29 Aligned_cols=42 Identities=24% Similarity=0.278 Sum_probs=34.5
Q ss_pred HHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEE
Q psy12591 32 AMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIA 74 (144)
Q Consensus 32 a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~ 74 (144)
...++++.+ -++|.+.+++|.-|...+..+.+.+.+.|..+.
T Consensus 34 ~~~~~L~~~-~~~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~ 75 (79)
T cd03364 34 EQAELLKRL-AKEVILAFDGDEAGQKAALRALELLLKLGLNVR 75 (79)
T ss_pred HHHHHHHhc-CCeEEEEECCCHHHHHHHHHHHHHHHHCCCeEE
Confidence 456666655 588889999999999999999999999987764
No 125
>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=84.40 E-value=4 Score=32.49 Aligned_cols=71 Identities=11% Similarity=0.001 Sum_probs=49.6
Q ss_pred HhCCCcEEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 38 KKLGWSYVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 38 ~~f~W~~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
..++-+++.++++...+- .+..+.+.+.|++.|+.+.....+.+++ +.+.+.+.+..++ ..+++.||-...
T Consensus 19 ~~~~~~r~livt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p---~~~~v~~~~~~~~-~~~~D~IIavGG 90 (375)
T cd08179 19 KTLKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPDP---SVETVLKGAEAMR-EFEPDWIIALGG 90 (375)
T ss_pred HHhcCCeEEEEeCchHHHhCChHHHHHHHHHHcCCeEEEeCCCCCCc---CHHHHHHHHHHHH-hcCCCEEEEeCC
Confidence 334457888887544332 3456788889999998776555555554 3677888888888 678899987764
No 126
>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=84.28 E-value=14 Score=26.94 Aligned_cols=55 Identities=20% Similarity=0.175 Sum_probs=37.1
Q ss_pred EEecCCchH-HHHHHHHHHHhC--CCcEEEEEEEeC--CcchHHHHHHHHHhhhC-ceEEE
Q psy12591 20 TRTIPSDHH-QVKAMVEIVKKL--GWSYVSIIYEES--NYGVKAFEELEVLLAKY-SICIA 74 (144)
Q Consensus 20 fRt~p~d~~-~~~a~~~ll~~f--~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~-Gi~V~ 74 (144)
+..+..|.. .+..+++.|... |-++++++..+. .++....+.|.+.++++ |+.+.
T Consensus 96 ~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~l~~~~~~~~~ 156 (268)
T cd06323 96 VSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHEVVDKYPGLKVV 156 (268)
T ss_pred EEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHHHHhCCCcEEE
Confidence 344444444 567777876555 789999997643 34556678888888884 77654
No 127
>cd08178 AAD_C C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD). Alcohol dehydrogenase domain located on the C-terminal of a bifunctional two-domain protein. The N-terminal of the protein contains an acetaldehyde-CoA dehydrogenase domain. This protein is involved in pyruvate metabolism. Pyruvate is converted to acetyl-CoA and formate by pyruvate formate-lysase (PFL). Under anaerobic condition, acetyl-CoA is reduced to acetaldehyde and ethanol by this two-domain protein. Acetyl-CoA is first converted into an enzyme-bound thiohemiacetal by the N-terminal acetaldehyde dehydrogenase domain. The enzyme-bound thiohemiacetal is subsequently reduced by the C-terminal NAD+-dependent alcohol dehydrogenase domain. In E. coli, this protein is called AdhE and was shown pyruvate formate-lysase (PFL) deactivase activity, which is involved in the inactivation of PFL, a key enzyme in anaerobic metabolism. In Escherichi
Probab=83.98 E-value=5 Score=32.29 Aligned_cols=70 Identities=6% Similarity=-0.053 Sum_probs=50.6
Q ss_pred hCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 39 KLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 39 ~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
..+.+++.+|++..-...+..+.+.+.|++.|+.+.....+.+++ +.+...+.+..++ ..++++||-...
T Consensus 18 ~~~~~k~liVtd~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p---~~~~v~~~~~~~~-~~~~D~IIaiGG 87 (398)
T cd08178 18 LKGKKRAFIVTDRFMVKLGYVDKVIDVLKRRGVETEVFSDVEPDP---SLETVRKGLELMN-SFKPDTIIALGG 87 (398)
T ss_pred hcCCCeEEEEcChhHHhCccHHHHHHHHHHCCCeEEEecCCCCCc---CHHHHHHHHHHHH-hcCCCEEEEeCC
Confidence 346688888875433333477888999999998876555666665 3677888888888 678999987764
No 128
>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=82.51 E-value=11 Score=27.36 Aligned_cols=54 Identities=9% Similarity=0.063 Sum_probs=39.4
Q ss_pred EEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCceEE
Q psy12591 20 TRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 20 fRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~V 73 (144)
....++....+..+++.+...|-++|+++..+.. ......+.|.+.+++.|..+
T Consensus 93 ~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~ 148 (266)
T cd06278 93 DAVCSDNYEAGRLAAELLLAKGCRRIAFIGGPADTSTSRERERGFRDALAAAGVPV 148 (266)
T ss_pred CEEEEChHHHHHHHHHHHHHCCCceEEEEcCCCcccchHHHHHHHHHHHHHcCCCh
Confidence 3455666777788888887778899999975433 34456678888888888754
No 129
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=82.48 E-value=18 Score=28.49 Aligned_cols=80 Identities=19% Similarity=0.189 Sum_probs=54.8
Q ss_pred ecCCchHHHHHHHHHHHh--CCCcEEEEEEEeCC-cchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHH
Q psy12591 22 TIPSDHHQVKAMVEIVKK--LGWSYVSIIYEESN-YGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKL 98 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~--f~W~~Vaii~~~~~-~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~l 98 (144)
|.-+|..-...-++|++. =+-++|+++|..++ ......+.+++.+++.|++|.-. .++.. .+....++.|
T Consensus 137 TGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns~~l~eelk~~A~~~Gl~vve~-~v~~~------ndi~~a~~~l 209 (322)
T COG2984 137 TGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANSVSLVEELKKEARKAGLEVVEA-AVTSV------NDIPRAVQAL 209 (322)
T ss_pred eecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCcccHHHHHHHHHHHHHCCCEEEEE-ecCcc------cccHHHHHHh
Confidence 555666655556666654 37899999997654 67788999999999999998533 33332 3566677777
Q ss_pred hcCCCceEEEEe
Q psy12591 99 LTKPRARGLFKR 110 (144)
Q Consensus 99 k~~~~arvii~~ 110 (144)
. .++++|+.-
T Consensus 210 ~--g~~d~i~~p 219 (322)
T COG2984 210 L--GKVDVIYIP 219 (322)
T ss_pred c--CCCcEEEEe
Confidence 6 456666543
No 130
>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=82.31 E-value=8.6 Score=28.88 Aligned_cols=60 Identities=10% Similarity=0.145 Sum_probs=41.1
Q ss_pred EEEEEEE----eCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 44 YVSIIYE----ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 44 ~Vaii~~----~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
+|++++. |..|.....+.+++..++.|+.+.+.+... . ..++...++++. ..+.++||..
T Consensus 1 kva~l~~g~~~D~~~n~~~~~G~~~~~~~~gv~~~~~e~~~-~-----~~~~~~~i~~~~-~~g~dlIi~~ 64 (258)
T cd06353 1 KVAFVYVGPIGDQGWNYAHDEGRKAAEKALGVEVTYVENVP-E-----GADAERVLRELA-AQGYDLIFGT 64 (258)
T ss_pred CEEEEEeCCCCccchhHHHHHHHHHHHHhcCCeEEEEecCC-c-----hHhHHHHHHHHH-HcCCCEEEEC
Confidence 3677765 334555567777777777888887776553 1 457788888887 5678888773
No 131
>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=82.01 E-value=11 Score=29.60 Aligned_cols=76 Identities=21% Similarity=0.317 Sum_probs=49.0
Q ss_pred HHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 32 AMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 32 a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+.++++.++.+++.++++...+.. ..+.+.+.+++.|+.+.........+ .++.+...+.+..++ . +++.||...
T Consensus 13 ~l~~~~~~~~~~~~livtd~~~~~~-~~~~v~~~l~~~~i~~~~~~~~~~~~-~pt~~~v~~~~~~~~-~-~~d~IIaIG 88 (348)
T cd08175 13 RLPEILKEFGYKKALIVADENTYAA-AGKKVEALLKRAGVVVLLIVLPAGDL-IADEKAVGRVLKELE-R-DTDLIIAVG 88 (348)
T ss_pred HHHHHHHhcCCCcEEEEECCcHHHH-HHHHHHHHHHHCCCeeEEeecCCCcc-cCCHHHHHHHHHHhh-c-cCCEEEEEC
Confidence 4566777788889888875443332 35788889999998664333333220 123667777777777 4 788887654
No 132
>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=81.77 E-value=15 Score=28.04 Aligned_cols=82 Identities=13% Similarity=0.024 Sum_probs=47.2
Q ss_pred CchHHHHHHHHHHHhCCCcEEEEEEEeC--C-cchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcC
Q psy12591 25 SDHHQVKAMVEIVKKLGWSYVSIIYEES--N-YGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTK 101 (144)
Q Consensus 25 ~d~~~~~a~~~ll~~f~W~~Vaii~~~~--~-~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~ 101 (144)
.+..-+..+++.|...|.++|+++.... . .+....+.|.+.++++|+.+.......... +..+-...+.++. .
T Consensus 159 D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~~~~~~---~~~~~~~~~~~ll-~ 234 (329)
T TIGR01481 159 DYKQATKEAVGELIAKGHKSIAFVGGPLSDSINGEDRLEGYKEALNKAGIQFGEDLVCEGKY---SYDAGYKAFAELK-G 234 (329)
T ss_pred CcHHHHHHHHHHHHHCCCCeEEEEecCcccccchHHHHHHHHHHHHHcCCCCCcceEEecCC---ChHHHHHHHHHHh-C
Confidence 3444446667777677999999996432 2 235667888999999887643211111111 1222334555655 3
Q ss_pred CCceEEEEe
Q psy12591 102 PRARGLFKR 110 (144)
Q Consensus 102 ~~arvii~~ 110 (144)
....+|++.
T Consensus 235 ~~p~ai~~~ 243 (329)
T TIGR01481 235 SLPTAVFVA 243 (329)
T ss_pred CCCCEEEEc
Confidence 345677664
No 133
>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=81.69 E-value=6.5 Score=28.89 Aligned_cols=22 Identities=5% Similarity=-0.075 Sum_probs=10.5
Q ss_pred CcchHHHHHHHHHhhh-CceEEE
Q psy12591 53 NYGVKAFEELEVLLAK-YSICIA 74 (144)
Q Consensus 53 ~~g~~~~~~~~~~l~~-~Gi~V~ 74 (144)
.|+......+.+.+++ .|+.+.
T Consensus 12 ~~~~~~~~gi~~~~~~~~~~~~~ 34 (272)
T cd06301 12 NFLTLLRNAMKEHAKVLGGVELQ 34 (272)
T ss_pred HHHHHHHHHHHHHHHHcCCcEEE
Confidence 3444444445555555 444443
No 134
>cd08180 PDD 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism. 1,3-propanediol dehydrogenase (PPD) plays a role in glycerol metabolism of some bacteria in anaerobic conditions. In this degradation pathway, glycerol is converted in a two-step process to 1,3-propanediol (1,3-PD) which is then excreted into the extracellular medium. The first reaction involves the transformation of glycerol into 3-hydroxypropionaldehyde (3-HPA) by a coenzyme B-12-dependent dehydratase. The second reaction involves the dismutation of the 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol by the NADH-linked 1,3-propanediol dehydrogenase (PPD). The enzyme require iron ion for its function. Because many genes in this pathway are present in the pdu (propanediol utilisation) operon, they are also named pdu genes. PPD is a member of the iron-containing alcohol dehydrogenase superfamily. The PPD structure has a dehydroquinat
Probab=81.41 E-value=6.3 Score=30.82 Aligned_cols=73 Identities=16% Similarity=0.070 Sum_probs=46.8
Q ss_pred HHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 35 EIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 35 ~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
+-+..++.+++.++++..-+..+..+.+.+.+++. +.+.....+..++ +.+...+.+..++ ..+++.||-...
T Consensus 15 ~~l~~~~~~~~lvv~~~~~~~~g~~~~v~~~l~~~-~~~~~~~~v~~~p---~~~~v~~~~~~~~-~~~~d~IiaiGG 87 (332)
T cd08180 15 ERLKELKNKRVLIVTDPFMVKSGMLDKVTDHLDSS-IEVEIFSDVVPDP---PIEVVAKGIKKFL-DFKPDIVIALGG 87 (332)
T ss_pred HHHHHhCCCeEEEEeCchhhhCccHHHHHHHHHhc-CcEEEeCCCCCCc---CHHHHHHHHHHHH-hcCCCEEEEECC
Confidence 33455566888888754333334667788888776 5544334444454 3667778888888 567888886653
No 135
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=81.35 E-value=15 Score=25.36 Aligned_cols=63 Identities=10% Similarity=0.076 Sum_probs=41.2
Q ss_pred EEEEEEEeCC--cch---HHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 44 YVSIIYEESN--YGV---KAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 44 ~Vaii~~~~~--~g~---~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
++++|..+++ .|+ .....+...+++.|..+.....++.+ .+.+.+.|++..+.+++++||...
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~~~v~Dd-----~~~i~~~l~~~~~~~~~DlVittG 69 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAYEIVPDD-----KDEIREALIEWADEDGVDLILTTG 69 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeEEEcCCC-----HHHHHHHHHHHHhcCCCCEEEECC
Confidence 5677765542 222 24556888899999888776666655 466777777665223688887764
No 136
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=80.93 E-value=6.4 Score=28.76 Aligned_cols=22 Identities=5% Similarity=0.076 Sum_probs=11.2
Q ss_pred cchHHHHHHHHHhhhCceEEEE
Q psy12591 54 YGVKAFEELEVLLAKYSICIAI 75 (144)
Q Consensus 54 ~g~~~~~~~~~~l~~~Gi~V~~ 75 (144)
|+......+++.+++.|+.+..
T Consensus 12 ~~~~~~~g~~~~a~~~g~~~~~ 33 (257)
T PF13407_consen 12 FWQQVIKGAKAAAKELGYEVEI 33 (257)
T ss_dssp HHHHHHHHHHHHHHHHTCEEEE
T ss_pred HHHHHHHHHHHHHHHcCCEEEE
Confidence 4445555555555555554443
No 137
>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=80.70 E-value=6.8 Score=28.79 Aligned_cols=14 Identities=21% Similarity=0.197 Sum_probs=7.7
Q ss_pred HHHHHHHHhCCCcE
Q psy12591 31 KAMVEIVKKLGWSY 44 (144)
Q Consensus 31 ~a~~~ll~~f~W~~ 44 (144)
..+.+.++..||+-
T Consensus 19 ~g~~~~~~~~g~~~ 32 (273)
T cd06310 19 AGAEAAAKELGVKV 32 (273)
T ss_pred HHHHHHHHHcCCEE
Confidence 44445556667653
No 138
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=80.67 E-value=11 Score=25.88 Aligned_cols=38 Identities=16% Similarity=0.224 Sum_probs=13.1
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhh
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAK 68 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~ 68 (144)
..++..+...|..--.++...++-..+..+.++...+.
T Consensus 15 ~~~~~~~~~~g~g~s~~vs~Gn~~dv~~~d~l~~~~~D 52 (138)
T PF13607_consen 15 TAILDWAQDRGIGFSYVVSVGNEADVDFADLLEYLAED 52 (138)
T ss_dssp HHHHHHHHHTT-EESEEEE-TT-SSS-HHHHHHHHCT-
T ss_pred HHHHHHHHHcCCCeeEEEEeCccccCCHHHHHHHHhcC
Confidence 33444444433322223333333344444444444433
No 139
>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=80.44 E-value=17 Score=26.46 Aligned_cols=51 Identities=14% Similarity=0.145 Sum_probs=37.1
Q ss_pred ecCCchHHHHHHHHHHHhCCCcEEEEEEEe--CCcchHHHHHHHHHhhhCceE
Q psy12591 22 TIPSDHHQVKAMVEIVKKLGWSYVSIIYEE--SNYGVKAFEELEVLLAKYSIC 72 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f~W~~Vaii~~~--~~~g~~~~~~~~~~l~~~Gi~ 72 (144)
...++...+..+++.+..-|.++++++... +..+....+.|.+.++++|+.
T Consensus 95 v~~d~~~~g~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~~~~~~~~ 147 (267)
T cd06284 95 VSIDNVAAARLAVDHLISLGHRRIALITGPRDNPLARDRLEGYRQALAEAGLP 147 (267)
T ss_pred EEecccHHHHHHHHHHHHcCCceEEEEcCCccchhHHHHHHHHHHHHHHcCCC
Confidence 444555666777887777799999999764 234566778888999888854
No 140
>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=79.54 E-value=19 Score=26.22 Aligned_cols=51 Identities=14% Similarity=0.090 Sum_probs=36.8
Q ss_pred cCCchHHHHHHHHHHHhCCCcEEEEEEEeCC---cchHHHHHHHHHhhhCceEE
Q psy12591 23 IPSDHHQVKAMVEIVKKLGWSYVSIIYEESN---YGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 23 ~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~---~g~~~~~~~~~~l~~~Gi~V 73 (144)
.+++...+..+++.|...|-++++++..+.. ++....+.|.+.++++|+.+
T Consensus 97 ~~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~~r~~gf~~~~~~~~~~~ 150 (268)
T cd06298 97 NIDYKKAAFEATELLIKNGHKKIAFISGPLEDSINGDERLAGYKEALSEANIEF 150 (268)
T ss_pred EECcHHHHHHHHHHHHHcCCceEEEEeCCcccccchhHHHHHHHHHHHHcCCCC
Confidence 4444556677778776678999999975433 55667788899998888654
No 141
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=79.34 E-value=14 Score=26.07 Aligned_cols=73 Identities=12% Similarity=0.089 Sum_probs=44.2
Q ss_pred HHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhh--CceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceE
Q psy12591 29 QVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAK--YSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARG 106 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~--~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arv 106 (144)
....+++.+..-++ ++.++....+ ..+.+...+++ .|+.|+....-+.+ +.+.+++++.|. .+++++
T Consensus 36 l~~~l~~~~~~~~~-~ifllG~~~~----~~~~~~~~l~~~yP~l~ivg~~~g~f~-----~~~~~~i~~~I~-~~~pdi 104 (172)
T PF03808_consen 36 LFPDLLRRAEQRGK-RIFLLGGSEE----VLEKAAANLRRRYPGLRIVGYHHGYFD-----EEEEEAIINRIN-ASGPDI 104 (172)
T ss_pred HHHHHHHHHHHcCC-eEEEEeCCHH----HHHHHHHHHHHHCCCeEEEEecCCCCC-----hhhHHHHHHHHH-HcCCCE
Confidence 34455555555555 7777776553 34445555554 36666643321112 456788999999 789999
Q ss_pred EEEeeE
Q psy12591 107 LFKRLK 112 (144)
Q Consensus 107 ii~~~~ 112 (144)
|++...
T Consensus 105 v~vglG 110 (172)
T PF03808_consen 105 VFVGLG 110 (172)
T ss_pred EEEECC
Confidence 988753
No 142
>PF13362 Toprim_3: Toprim domain
Probab=79.00 E-value=13 Score=23.36 Aligned_cols=52 Identities=21% Similarity=0.194 Sum_probs=39.4
Q ss_pred CCCcEEEEEEEeCCc--chHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHH
Q psy12591 40 LGWSYVSIIYEESNY--GVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLK 97 (144)
Q Consensus 40 f~W~~Vaii~~~~~~--g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~ 97 (144)
..+++|.|..++|.- |...+..+.+.+...|+.+..... ... -.|+.+.+++
T Consensus 39 ~~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~~~~~~p-~~~-----g~D~ND~l~~ 92 (96)
T PF13362_consen 39 EPGRRVIIAADNDKANEGQKAAEKAAERLEAAGIAVSIVEP-GPE-----GKDWNDLLQA 92 (96)
T ss_pred CCCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCeEEEECC-CCC-----CchHHHHHHh
Confidence 478889777888877 899999999999999988766544 111 3578887764
No 143
>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=78.97 E-value=11 Score=29.45 Aligned_cols=75 Identities=15% Similarity=0.048 Sum_probs=50.5
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.+.++.++.+++.++++...+-. ..+.+.+.+++.++.+ ...+..++ +.+...+.+..++ ..+++.||..
T Consensus 12 ~~l~~~l~~~g~~~~livt~~~~~~~-~~~~v~~~l~~~~~~~--~~~~~~~p---~~~~v~~~~~~~~-~~~~d~IIai 84 (337)
T cd08177 12 AALAAELERLGASRALVLTTPSLATK-LAERVASALGDRVAGT--FDGAVMHT---PVEVTEAAVAAAR-EAGADGIVAI 84 (337)
T ss_pred HHHHHHHHHcCCCeEEEEcChHHHHH-HHHHHHHHhccCCcEE--eCCCCCCC---CHHHHHHHHHHHH-hcCCCEEEEe
Confidence 44567788899999988876544433 6677788887775432 23344443 3667888888887 5678888866
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 85 GG 86 (337)
T cd08177 85 GG 86 (337)
T ss_pred CC
Confidence 53
No 144
>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=78.58 E-value=21 Score=27.99 Aligned_cols=75 Identities=21% Similarity=0.227 Sum_probs=48.0
Q ss_pred HHHHHHHhCCC-cEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEe-cccCCCCCcchhhHHHHHHHHhcCCCceEEEE
Q psy12591 32 AMVEIVKKLGW-SYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKE-KLVKDSGVAEETAYDDIVLKLLTKPRARGLFK 109 (144)
Q Consensus 32 a~~~ll~~f~W-~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~-~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~ 109 (144)
.+.++++.++. +++.++++...+-. ..+.+.+.|++.|+.+.... ....++ +.+.+.+.+..++ . +.+.||.
T Consensus 13 ~l~~~~~~~~~~~kvlivtd~~~~~~-~~~~i~~~L~~~~~~~~i~~~~~~~~p---~~~~v~~~~~~~~-~-~~d~IIa 86 (332)
T cd08549 13 DIGPIINKIGVNSKIMIVCGNNTYKV-AGKEIIERLESNNFTKEVLERDSLLIP---DEYELGEVLIKLD-K-DTEFLLG 86 (332)
T ss_pred HHHHHHHHcCCCCcEEEEECCcHHHH-HHHHHHHHHHHcCCeEEEEecCCCCCC---CHHHHHHHHHHhh-c-CCCEEEE
Confidence 34556677776 67878876555433 34788888988887554321 222232 3667778888888 4 7888886
Q ss_pred eeE
Q psy12591 110 RLK 112 (144)
Q Consensus 110 ~~~ 112 (144)
...
T Consensus 87 iGG 89 (332)
T cd08549 87 IGS 89 (332)
T ss_pred ECC
Confidence 643
No 145
>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=78.55 E-value=23 Score=27.00 Aligned_cols=76 Identities=17% Similarity=0.281 Sum_probs=45.6
Q ss_pred chHHHHHHHHHHHhC--CCcEEEEEEEeCCc-chHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCC
Q psy12591 26 DHHQVKAMVEIVKKL--GWSYVSIIYEESNY-GVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKP 102 (144)
Q Consensus 26 d~~~~~a~~~ll~~f--~W~~Vaii~~~~~~-g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~ 102 (144)
+.......+++++.+ +-++++++++++.- +....+.+++.+++.|+++... .++. ..++...+..+. .
T Consensus 113 ~~~~~~~~l~l~~~l~P~~k~igvl~~~~~~~~~~~~~~~~~~a~~~g~~l~~~-~v~~------~~~~~~~~~~l~--~ 183 (294)
T PF04392_consen 113 ERPPIEKQLELIKKLFPDAKRIGVLYDPSEPNSVAQIEQLRKAAKKLGIELVEI-PVPS------SEDLEQALEALA--E 183 (294)
T ss_dssp E---HHHHHHHHHHHSTT--EEEEEEETT-HHHHHHHHHHHHHHHHTT-EEEEE-EESS------GGGHHHHHHHHC--T
T ss_pred CCcCHHHHHHHHHHhCCCCCEEEEEecCCCccHHHHHHHHHHHHHHcCCEEEEE-ecCc------HhHHHHHHHHhh--c
Confidence 444455666766554 46999999987654 4567788888899999987543 2322 457788888886 3
Q ss_pred CceEEEEe
Q psy12591 103 RARGLFKR 110 (144)
Q Consensus 103 ~arvii~~ 110 (144)
+..++++-
T Consensus 184 ~~da~~~~ 191 (294)
T PF04392_consen 184 KVDALYLL 191 (294)
T ss_dssp T-SEEEE-
T ss_pred cCCEEEEE
Confidence 45566553
No 146
>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=78.37 E-value=9.7 Score=27.33 Aligned_cols=13 Identities=31% Similarity=0.506 Sum_probs=6.4
Q ss_pred HHHHHHHHhCCCc
Q psy12591 31 KAMVEIVKKLGWS 43 (144)
Q Consensus 31 ~a~~~ll~~f~W~ 43 (144)
..+.+.++.+||+
T Consensus 19 ~g~~~~~~~~g~~ 31 (264)
T cd01537 19 KGIEEAAKAAGYQ 31 (264)
T ss_pred HHHHHHHHHcCCe
Confidence 3444445555653
No 147
>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=78.14 E-value=15 Score=27.39 Aligned_cols=64 Identities=14% Similarity=0.205 Sum_probs=36.5
Q ss_pred HHHHhCCCcEEEEE--EEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEE
Q psy12591 35 EIVKKLGWSYVSII--YEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLF 108 (144)
Q Consensus 35 ~ll~~f~W~~Vaii--~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii 108 (144)
-+++.||++.++++ ....+.+..-...+.+.++++|+.+.+.+.-... +.++.|.+..+++++.
T Consensus 162 Y~~~~~gl~~~~~~~~~~~~~ps~~~l~~l~~~ik~~~v~~i~~e~~~~~----------~~~~~la~~~g~~vv~ 227 (256)
T PF01297_consen 162 YFAKRYGLKVIGVIEISPGEEPSPKDLAELIKLIKENKVKCIFTEPQFSS----------KLAEALAKETGVKVVY 227 (256)
T ss_dssp HHHHHTT-EEEEEESSSSSSSS-HHHHHHHHHHHHHTT-SEEEEETTS-T----------HHHHHHHHCCT-EEEE
T ss_pred HHHHhcCCceeeeeccccccCCCHHHHHHHHHHhhhcCCcEEEecCCCCh----------HHHHHHHHHcCCcEEE
Confidence 35678999998888 2334455566777888888999866655433222 2344443356677743
No 148
>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=77.91 E-value=11 Score=27.86 Aligned_cols=9 Identities=33% Similarity=0.335 Sum_probs=3.9
Q ss_pred HHHHHhCCC
Q psy12591 34 VEIVKKLGW 42 (144)
Q Consensus 34 ~~ll~~f~W 42 (144)
-+.++.+|.
T Consensus 24 ~~~~~~~gy 32 (260)
T cd06304 24 EKAEKELGV 32 (260)
T ss_pred HHHHHhcCc
Confidence 334444444
No 149
>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=77.77 E-value=8.7 Score=28.63 Aligned_cols=14 Identities=14% Similarity=0.321 Sum_probs=6.7
Q ss_pred HHHHHHHhCCCcEE
Q psy12591 32 AMVEIVKKLGWSYV 45 (144)
Q Consensus 32 a~~~ll~~f~W~~V 45 (144)
.+.+.++.+|+.-+
T Consensus 21 ~i~~~~~~~g~~~~ 34 (280)
T cd06303 21 SFTARLEELNIPYE 34 (280)
T ss_pred HHHHHHHHcCCcEE
Confidence 33444555565443
No 150
>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=77.60 E-value=28 Score=26.31 Aligned_cols=81 Identities=12% Similarity=0.052 Sum_probs=51.0
Q ss_pred chHHHHHHHHHHHhCCCcE-EEEEEEeCCcc--hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCC
Q psy12591 26 DHHQVKAMVEIVKKLGWSY-VSIIYEESNYG--VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKP 102 (144)
Q Consensus 26 d~~~~~a~~~ll~~f~W~~-Vaii~~~~~~g--~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~ 102 (144)
+..-+..+.+.|...|-++ |+++..+.+.. ....+-+.+++++.|+++.....+....+ .++-...++++.+ .
T Consensus 102 ~~~a~~~a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~Al~~~Gl~~~~~~i~~~~~~---~~~g~~~~~~ll~-~ 177 (279)
T PF00532_consen 102 NYEAGYEATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDALKEAGLPIDEEWIFEGDFD---YESGYEAARELLE-S 177 (279)
T ss_dssp HHHHHHHHHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHHHHHTTSCEEEEEEEESSSS---HHHHHHHHHHHHH-T
T ss_pred chHHHHHHHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHHHHHcCCCCCcccccccCCC---HHHHHHHHHHHHh-h
Confidence 3334456677788889999 99998866543 44566799999999997765554443322 2333345555542 3
Q ss_pred Cce--EEEEe
Q psy12591 103 RAR--GLFKR 110 (144)
Q Consensus 103 ~ar--vii~~ 110 (144)
.+. +|++.
T Consensus 178 ~p~idai~~~ 187 (279)
T PF00532_consen 178 HPDIDAIFCA 187 (279)
T ss_dssp STT-SEEEES
T ss_pred CCCCEEEEEe
Confidence 344 66554
No 151
>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=77.19 E-value=20 Score=26.36 Aligned_cols=52 Identities=12% Similarity=0.075 Sum_probs=36.5
Q ss_pred ecCCchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCceEE
Q psy12591 22 TIPSDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~V 73 (144)
..+.+...+..+++.+...|.++++++..+.. .+....+.|.+.+++.|+.+
T Consensus 105 V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~ 158 (275)
T cd06295 105 VGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGEERLEGYREALAEAGLPL 158 (275)
T ss_pred EEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhHHHHHHHHHHHHHcCCCC
Confidence 44455566777778777779999999975432 34456678888888887543
No 152
>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=76.93 E-value=14 Score=27.06 Aligned_cols=13 Identities=15% Similarity=0.082 Sum_probs=7.5
Q ss_pred HHHHHHHHhCCCc
Q psy12591 31 KAMVEIVKKLGWS 43 (144)
Q Consensus 31 ~a~~~ll~~f~W~ 43 (144)
..+.+.++.+||+
T Consensus 19 ~gi~~~~~~~g~~ 31 (273)
T cd06305 19 AGTKAEAEALGGD 31 (273)
T ss_pred HHHHHHHHHcCCE
Confidence 4445556666765
No 153
>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=75.40 E-value=15 Score=28.39 Aligned_cols=62 Identities=15% Similarity=0.228 Sum_probs=44.5
Q ss_pred EEEEEEE----eCCcchHHHHHHHHHhhhC-ceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 44 YVSIIYE----ESNYGVKAFEELEVLLAKY-SICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 44 ~Vaii~~----~~~~g~~~~~~~~~~l~~~-Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+++++.. |..|.....+.+++..++. |+.+...+..+.. ..++...+.++. ..+.++||+..
T Consensus 3 ~v~~~~~g~~~D~g~n~~~~~G~~~~~~~~~~i~~~~~e~~~~~-----~~~~~~~~~~~~-~~g~dlIi~~g 69 (306)
T PF02608_consen 3 KVALLDPGGINDKGFNQSAYEGLKRAEKELDGIEIIYVENVPET-----DADYEEAIRQLA-DQGYDLIIGHG 69 (306)
T ss_dssp EEEEESSS-CCCSSHHHHHHHHHHHHHHHCTTEEEEEEES-S-T-----CHHHHHHHHHHH-HTT-SEEEEES
T ss_pred EEEEEECCCCCCccHHHHHHHHHHHHHHHcCCceEEEEecCCcc-----HHHHHHHHHHHH-HcCCCEEEEcc
Confidence 4556542 4567778888888888888 9999888877632 467888888887 57899998754
No 154
>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=75.24 E-value=24 Score=25.78 Aligned_cols=17 Identities=29% Similarity=0.487 Sum_probs=9.2
Q ss_pred HHHHHHHHHHhCCCcEE
Q psy12591 29 QVKAMVEIVKKLGWSYV 45 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~V 45 (144)
....+.+.++.+||+-+
T Consensus 20 ~~~~i~~~~~~~g~~~~ 36 (268)
T cd06277 20 IYRAIEEEAKKYGYNLI 36 (268)
T ss_pred HHHHHHHHHHHcCCEEE
Confidence 33445555666776443
No 155
>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=75.12 E-value=30 Score=27.07 Aligned_cols=72 Identities=13% Similarity=0.054 Sum_probs=48.1
Q ss_pred HHHHHH-hCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 33 MVEIVK-KLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 33 ~~~ll~-~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+.++++ ..+.+++.++++...+ ....+.+.+.+++.| .+... +..++ +.+.+.+.+..++ ..++++||...
T Consensus 15 l~~~l~~~~~~~~~liv~d~~~~-~~~~~~v~~~l~~~~-~~~~~--~~~~~---~~~~v~~~~~~~~-~~~~d~iIaiG 86 (339)
T cd08173 15 IPNVLRDLLLGGRVLVVTGPTTK-SIAGKKVEALLEDEG-EVDVV--IVEDA---TYEEVEKVESSAR-DIGADFVIGVG 86 (339)
T ss_pred HHHHHHHhCCCCeEEEEECCchH-HHHHHHHHHHHHhcC-CeEEE--EeCCC---CHHHHHHHHHHhh-hcCCCEEEEeC
Confidence 455666 4577888888854443 367788888898887 43222 33333 3677888888888 56788888665
Q ss_pred E
Q psy12591 112 K 112 (144)
Q Consensus 112 ~ 112 (144)
.
T Consensus 87 G 87 (339)
T cd08173 87 G 87 (339)
T ss_pred C
Confidence 3
No 156
>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=74.36 E-value=15 Score=27.10 Aligned_cols=14 Identities=36% Similarity=0.321 Sum_probs=8.3
Q ss_pred HHHHHHHHhCCCcE
Q psy12591 31 KAMVEIVKKLGWSY 44 (144)
Q Consensus 31 ~a~~~ll~~f~W~~ 44 (144)
..+-+.++..||+-
T Consensus 19 ~gi~~~~~~~g~~~ 32 (275)
T cd06320 19 EGYENEAKKLGVSV 32 (275)
T ss_pred HHHHHHHHHhCCeE
Confidence 44455566777753
No 157
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=74.12 E-value=31 Score=27.27 Aligned_cols=78 Identities=18% Similarity=0.148 Sum_probs=48.8
Q ss_pred HHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcC--CCceEEEE
Q psy12591 32 AMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTK--PRARGLFK 109 (144)
Q Consensus 32 a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~--~~arvii~ 109 (144)
.+.+.++.++++++.++++... .....+.+.+.+++.|+.+... .++.....++.+.+.+.++.+++. .+.+.||.
T Consensus 21 ~l~~~l~~~~~~~~livtd~~~-~~~~~~~v~~~L~~~gi~~~~~-~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIa 98 (358)
T PRK00002 21 ELGELLAPLKGKKVAIVTDETV-APLYLEKLRASLEAAGFEVDVV-VLPDGEQYKSLETLEKIYDALLEAGLDRSDTLIA 98 (358)
T ss_pred HHHHHHHhcCCCeEEEEECCch-HHHHHHHHHHHHHhcCCceEEE-EeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEE
Confidence 4555667778899988886544 3467788888898888765421 132221112367777888888731 23477776
Q ss_pred ee
Q psy12591 110 RL 111 (144)
Q Consensus 110 ~~ 111 (144)
..
T Consensus 99 vG 100 (358)
T PRK00002 99 LG 100 (358)
T ss_pred Ec
Confidence 54
No 158
>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=74.10 E-value=20 Score=26.22 Aligned_cols=14 Identities=14% Similarity=0.401 Sum_probs=7.7
Q ss_pred HHHHHHHHHhCCCc
Q psy12591 30 VKAMVEIVKKLGWS 43 (144)
Q Consensus 30 ~~a~~~ll~~f~W~ 43 (144)
...+.+.++.+||+
T Consensus 18 ~~gi~~~~~~~g~~ 31 (270)
T cd06296 18 LRGVEEAAAAAGYD 31 (270)
T ss_pred HHHHHHHHHHcCCe
Confidence 34445556666664
No 159
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=74.03 E-value=24 Score=24.08 Aligned_cols=45 Identities=16% Similarity=0.113 Sum_probs=23.8
Q ss_pred HHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 59 FEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 59 ~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
...+...+++.|+.+.....++.+ .+.+.+.|.++. .++++||..
T Consensus 29 ~~~l~~~l~~~G~~v~~~~~v~Dd-----~~~i~~~l~~~~--~~~DliItt 73 (144)
T TIGR00177 29 GPLLAALLEEAGFNVSRLGIVPDD-----PEEIREILRKAV--DEADVVLTT 73 (144)
T ss_pred HHHHHHHHHHCCCeEEEEeecCCC-----HHHHHHHHHHHH--hCCCEEEEC
Confidence 345556666666666555444433 344555555543 245555554
No 160
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=74.02 E-value=18 Score=28.14 Aligned_cols=34 Identities=6% Similarity=0.079 Sum_probs=22.4
Q ss_pred cEEEEEEEe--CCcchHHHHHHHHHhhhCceEEEEE
Q psy12591 43 SYVSIIYEE--SNYGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 43 ~~Vaii~~~--~~~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
+.|+++..+ +.|+....+.+++.+++.|..+...
T Consensus 47 ~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~ 82 (343)
T PRK10936 47 WKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVL 82 (343)
T ss_pred eEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEE
Confidence 456666533 4566677777777777777766543
No 161
>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=73.86 E-value=37 Score=26.98 Aligned_cols=76 Identities=9% Similarity=-0.018 Sum_probs=48.2
Q ss_pred HHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCce---EEEE
Q psy12591 33 MVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRAR---GLFK 109 (144)
Q Consensus 33 ~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~ar---vii~ 109 (144)
+.++++.++-+++.++++.+.+ ....+.+.+.+++.|+.+... .++.....++.+.+.+.+..++ ..+++ .||.
T Consensus 14 l~~~l~~~g~~rvlvVtd~~v~-~~~~~~l~~~L~~~g~~~~~~-~~~~~e~~k~~~~v~~~~~~~~-~~~~dr~~~IIA 90 (355)
T cd08197 14 VLGYLPELNADKYLLVTDSNVE-DLYGHRLLEYLREAGAPVELL-SVPSGEEHKTLSTLSDLVERAL-ALGATRRSVIVA 90 (355)
T ss_pred HHHHHHhcCCCeEEEEECccHH-HHHHHHHHHHHHhcCCceEEE-EeCCCCCCCCHHHHHHHHHHHH-HcCCCCCcEEEE
Confidence 4456677777888888865544 346778888998888765322 2333221123567778888887 45666 7765
Q ss_pred ee
Q psy12591 110 RL 111 (144)
Q Consensus 110 ~~ 111 (144)
..
T Consensus 91 vG 92 (355)
T cd08197 91 LG 92 (355)
T ss_pred EC
Confidence 54
No 162
>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=73.45 E-value=14 Score=27.31 Aligned_cols=13 Identities=54% Similarity=0.595 Sum_probs=7.0
Q ss_pred HHHHHHHHhCCCc
Q psy12591 31 KAMVEIVKKLGWS 43 (144)
Q Consensus 31 ~a~~~ll~~f~W~ 43 (144)
..+-+-++..|++
T Consensus 19 ~gi~~~a~~~g~~ 31 (268)
T cd06306 19 YGMVEEAKRLGVS 31 (268)
T ss_pred HHHHHHHHHcCCE
Confidence 3444555666764
No 163
>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=73.26 E-value=14 Score=27.83 Aligned_cols=43 Identities=12% Similarity=0.150 Sum_probs=24.8
Q ss_pred HHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEec
Q psy12591 36 IVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEK 78 (144)
Q Consensus 36 ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~ 78 (144)
|.+.||++.+++...+.+.+..-...+.+.++++|+...+.+.
T Consensus 183 ~~~~ygl~~~~~~~~~~eps~~~l~~l~~~ik~~~v~~if~e~ 225 (266)
T cd01018 183 FARDYGLTQIPIEEEGKEPSPADLKRLIDLAKEKGVRVVFVQP 225 (266)
T ss_pred HHHHcCCEEEecCCCCCCCCHHHHHHHHHHHHHcCCCEEEEcC
Confidence 4566777766654333344445556666667777766555543
No 164
>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=73.19 E-value=15 Score=27.10 Aligned_cols=13 Identities=23% Similarity=0.332 Sum_probs=6.3
Q ss_pred HHHHHHHHhCCCc
Q psy12591 31 KAMVEIVKKLGWS 43 (144)
Q Consensus 31 ~a~~~ll~~f~W~ 43 (144)
..+-+.++..|+.
T Consensus 20 ~g~~~~~~~~g~~ 32 (271)
T cd06312 20 NGAEDAAKDLGVD 32 (271)
T ss_pred HHHHHHHHHhCCE
Confidence 3344445555554
No 165
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=73.14 E-value=34 Score=26.14 Aligned_cols=50 Identities=12% Similarity=0.187 Sum_probs=34.7
Q ss_pred CCchHHHHHHHHHHHhCCCcEEEEEEEeCCc--chHHHHHHHHHhhhCceEE
Q psy12591 24 PSDHHQVKAMVEIVKKLGWSYVSIIYEESNY--GVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 24 p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~--g~~~~~~~~~~l~~~Gi~V 73 (144)
..+...+..+++.|...|.++|+++...... .....+.|.+.+++.|+.+
T Consensus 164 ~D~~~~~~~a~~~L~~~G~~~I~~i~g~~~~~~~~~R~~Gf~~al~~~g~~~ 215 (342)
T PRK10014 164 PDNMQAAQLLTEHLIRNGHQRIAWLGGQSSSLTRAERVGGYCATLLKFGLPF 215 (342)
T ss_pred eCCHHHHHHHHHHHHHCCCCEEEEEcCCcccccHHHHHHHHHHHHHHcCCCC
Confidence 3444556677787777899999999654332 2345677888898888754
No 166
>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=73.05 E-value=27 Score=25.39 Aligned_cols=49 Identities=16% Similarity=0.228 Sum_probs=34.1
Q ss_pred CchHHHHHHHHHHHhCCCcEEEEEEEeCCcc--hHHHHHHHHHhhhCceEE
Q psy12591 25 SDHHQVKAMVEIVKKLGWSYVSIIYEESNYG--VKAFEELEVLLAKYSICI 73 (144)
Q Consensus 25 ~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g--~~~~~~~~~~l~~~Gi~V 73 (144)
+....+..+++.+...|.++++++..+..+. ....+.|.+.+++.|+.+
T Consensus 101 d~~~~g~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~~~~~ 151 (270)
T cd01545 101 DDRAAAREMTRHLIDLGHRRIAFIAGPPDHRASAERLEGYRDALAEAGLPL 151 (270)
T ss_pred ccHHHHHHHHHHHHHCCCceEEEEeCCCCchhHHHHHHHHHHHHHHcCCCC
Confidence 3344556777777677999999998655443 334677888888888754
No 167
>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=72.60 E-value=19 Score=26.01 Aligned_cols=9 Identities=33% Similarity=0.442 Sum_probs=3.7
Q ss_pred HHHHhCCCc
Q psy12591 35 EIVKKLGWS 43 (144)
Q Consensus 35 ~ll~~f~W~ 43 (144)
+.++..||+
T Consensus 23 ~~a~~~g~~ 31 (267)
T cd01536 23 AAAKELGVE 31 (267)
T ss_pred HHHHhcCce
Confidence 334444443
No 168
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=72.40 E-value=26 Score=23.45 Aligned_cols=46 Identities=13% Similarity=0.091 Sum_probs=25.0
Q ss_pred HHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 59 FEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 59 ~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
...+...+++.|..+.....++.+ ...+.+.+.+.. . ++++||...
T Consensus 21 ~~~l~~~l~~~G~~v~~~~~v~Dd-----~~~i~~~i~~~~-~-~~DlvittG 66 (133)
T cd00758 21 GPALEALLEDLGCEVIYAGVVPDD-----ADSIRAALIEAS-R-EADLVLTTG 66 (133)
T ss_pred HHHHHHHHHHCCCEEEEeeecCCC-----HHHHHHHHHHHH-h-cCCEEEECC
Confidence 445566666677666554444433 345566665554 1 266665553
No 169
>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=72.32 E-value=29 Score=25.28 Aligned_cols=14 Identities=7% Similarity=0.339 Sum_probs=7.3
Q ss_pred HHHHHHHHhCCCcE
Q psy12591 31 KAMVEIVKKLGWSY 44 (144)
Q Consensus 31 ~a~~~ll~~f~W~~ 44 (144)
..+.+.++..||.-
T Consensus 19 ~gi~~~~~~~g~~~ 32 (270)
T cd01545 19 LGALDACRDTGYQL 32 (270)
T ss_pred HHHHHHHHhCCCeE
Confidence 34444556666544
No 170
>cd08184 Fe-ADH3 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the iron-containing alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron or zinc ions. Members of this family are mainly found in bacteria.
Probab=72.31 E-value=29 Score=27.50 Aligned_cols=73 Identities=7% Similarity=-0.011 Sum_probs=46.5
Q ss_pred HHHHHHHHhCCC--cEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCC---Cce
Q psy12591 31 KAMVEIVKKLGW--SYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKP---RAR 105 (144)
Q Consensus 31 ~a~~~ll~~f~W--~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~---~ar 105 (144)
..+.++++.++. +.+.+++ +..... ..+.+.+++.|+.+.....+..++ +.++..+.++..| .. +++
T Consensus 12 ~~l~~~~~~~g~~~~~~lvvt-d~~~~~---~~v~~~L~~~g~~~~~f~~v~~nP---t~~~v~~~~~~~~-~~~~~~~D 83 (347)
T cd08184 12 DQLNDLLAPKRKNKDPAVFFV-DDVFQG---KDLISRLPVESEDMIIWVDATEEP---KTDQIDALTAQVK-SFDGKLPC 83 (347)
T ss_pred HHHHHHHHHcCCCCCeEEEEE-Ccchhh---hHHHHHHHhcCCcEEEEcCCCCCc---CHHHHHHHHHHHH-hhCCCCCC
Confidence 345566677764 5565656 332221 556777888787655545666665 3677888888887 44 788
Q ss_pred EEEEee
Q psy12591 106 GLFKRL 111 (144)
Q Consensus 106 vii~~~ 111 (144)
.||-..
T Consensus 84 ~IIaiG 89 (347)
T cd08184 84 AIVGIG 89 (347)
T ss_pred EEEEeC
Confidence 888665
No 171
>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=72.23 E-value=19 Score=24.13 Aligned_cols=71 Identities=13% Similarity=0.091 Sum_probs=41.8
Q ss_pred HHHHhCCCcEEEEEEEeC--CcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHH-HHHhcCCCceEEEEe
Q psy12591 35 EIVKKLGWSYVSIIYEES--NYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIV-LKLLTKPRARGLFKR 110 (144)
Q Consensus 35 ~ll~~f~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l-~~lk~~~~arvii~~ 110 (144)
+.|..-|.++++++.... .+.....+.|+..+++.|+............ ..+..... ..++ +..+++||+.
T Consensus 2 ~~L~~~G~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~l~-~~~pdaii~~ 75 (160)
T PF13377_consen 2 DYLIERGHRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSDDD----SEDAREAQLLWLR-RLRPDAIICS 75 (160)
T ss_dssp HHHHHTT-SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESSS----HHHHHHHHHHHHH-TCSSSEEEES
T ss_pred hHHHHCCCCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCCc----chhHHHHHHHHHh-cCCCcEEEEc
Confidence 456677999999999332 3345567889999999998865544444332 22232222 2344 2355677663
No 172
>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=72.01 E-value=26 Score=25.51 Aligned_cols=13 Identities=23% Similarity=0.470 Sum_probs=6.3
Q ss_pred HHHHHHHHhCCCc
Q psy12591 31 KAMVEIVKKLGWS 43 (144)
Q Consensus 31 ~a~~~ll~~f~W~ 43 (144)
..+.+-++.+|+.
T Consensus 19 ~~i~~~~~~~g~~ 31 (268)
T cd06273 19 QAFQETLAAHGYT 31 (268)
T ss_pred HHHHHHHHHCCCE
Confidence 3444445555543
No 173
>PF13155 Toprim_2: Toprim-like
Probab=71.88 E-value=20 Score=22.26 Aligned_cols=45 Identities=18% Similarity=0.265 Sum_probs=36.5
Q ss_pred chHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCc
Q psy12591 26 DHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYS 70 (144)
Q Consensus 26 d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~G 70 (144)
.+...+.+.+++...+-+.|.+..++|.-|....+.+.+.+...+
T Consensus 31 ~~~~~~~~~~~l~~~~~~~i~l~~DnD~aG~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 31 GTLSEKQQIKFLKENPYKKIVLAFDNDEAGRKAAEKLQKELKEEG 75 (96)
T ss_pred chHHHHHHHHHHHhCCCCcEEEEeCCCHHHHHHHHHHHHHHHhhC
Confidence 333446778888666668888889999999999999999999877
No 174
>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=71.86 E-value=28 Score=25.31 Aligned_cols=17 Identities=18% Similarity=0.327 Sum_probs=9.6
Q ss_pred HHHHHHHHHHhCCCcEE
Q psy12591 29 QVKAMVEIVKKLGWSYV 45 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~V 45 (144)
....+.+.++.+||+-.
T Consensus 17 ~~~gi~~~~~~~g~~~~ 33 (265)
T cd06299 17 LATAIQDAASAAGYSTI 33 (265)
T ss_pred HHHHHHHHHHHcCCEEE
Confidence 33455556677777444
No 175
>PRK09401 reverse gyrase; Reviewed
Probab=71.74 E-value=31 Score=32.08 Aligned_cols=79 Identities=23% Similarity=0.251 Sum_probs=58.6
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.++++.++. =++|+.++..+...++.+.+.|+..|+.+... ..+ +...+.+.+ +...+|+|..
T Consensus 318 ~~L~~ll~~l~~--~~LIFv~t~~~~~~ae~l~~~L~~~gi~v~~~---hg~--------l~~~l~~F~-~G~~~VLVat 383 (1176)
T PRK09401 318 EKLVELVKRLGD--GGLIFVPSDKGKEYAEELAEYLEDLGINAELA---ISG--------FERKFEKFE-EGEVDVLVGV 383 (1176)
T ss_pred HHHHHHHHhcCC--CEEEEEecccChHHHHHHHHHHHHCCCcEEEE---eCc--------HHHHHHHHH-CCCCCEEEEe
Confidence 456778888875 37888888888888999999999999876532 211 245568888 6778888876
Q ss_pred e--EEeeeCCcchhh
Q psy12591 111 L--KLVKDSGVAEET 123 (144)
Q Consensus 111 ~--~~~~~~g~~~~~ 123 (144)
+ +.+.+.|+|.+.
T Consensus 384 as~tdv~aRGIDiP~ 398 (1176)
T PRK09401 384 ASYYGVLVRGIDLPE 398 (1176)
T ss_pred cCCCCceeecCCCCc
Confidence 4 457889999865
No 176
>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=71.70 E-value=18 Score=26.78 Aligned_cols=13 Identities=23% Similarity=0.404 Sum_probs=7.0
Q ss_pred HHHHHHHHhCCCc
Q psy12591 31 KAMVEIVKKLGWS 43 (144)
Q Consensus 31 ~a~~~ll~~f~W~ 43 (144)
.++-+.++.+|++
T Consensus 22 ~gi~~~~~~~gy~ 34 (265)
T cd06354 22 EGLERAAKELGIE 34 (265)
T ss_pred HHHHHHHHHcCCe
Confidence 3444555666664
No 177
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=71.39 E-value=18 Score=27.71 Aligned_cols=44 Identities=16% Similarity=0.019 Sum_probs=28.7
Q ss_pred HHHhCCCcEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEEEecc
Q psy12591 36 IVKKLGWSYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAIKEKL 79 (144)
Q Consensus 36 ll~~f~W~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~ 79 (144)
+.++||++.++++.. +.+-+..-...+.+.+++.|+.+.+.+..
T Consensus 190 ~~~~yGl~~~~~~~~~~~~eps~~~l~~l~~~ik~~~v~~if~e~~ 235 (287)
T cd01137 190 FAKAYGLKEAYLWPINTEEEGTPKQVATLIEQVKKEKVPAVFVEST 235 (287)
T ss_pred HHHHcCCeEeecccCCCCCCCCHHHHHHHHHHHHHhCCCEEEEeCC
Confidence 457788888877643 33445556667777788888776655433
No 178
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=71.19 E-value=40 Score=26.61 Aligned_cols=73 Identities=12% Similarity=0.047 Sum_probs=47.8
Q ss_pred HHHHHHHhCCC-cEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 32 AMVEIVKKLGW-SYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 32 a~~~ll~~f~W-~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
.+.++++.++. +++.+|++...+- ...+.+.+.+++.| .+... +.+++ +.+.+.+.+..++ ..++++||..
T Consensus 23 ~l~~~l~~~~~~~~~livtd~~~~~-~~~~~l~~~l~~~~-~~~~~--~~~~~---t~~~v~~~~~~~~-~~~~d~IIai 94 (350)
T PRK00843 23 DIGDVCSDLKLTGRALIVTGPTTKK-IAGDRVEENLEDAG-DVEVV--IVDEA---TMEEVEKVEEKAK-DVNAGFLIGV 94 (350)
T ss_pred HHHHHHHHhCCCCeEEEEECCcHHH-HHHHHHHHHHHhcC-CeeEE--eCCCC---CHHHHHHHHHHhh-ccCCCEEEEe
Confidence 34556777776 7888887655543 35577888888777 44221 33343 3677888888888 4668888866
Q ss_pred eE
Q psy12591 111 LK 112 (144)
Q Consensus 111 ~~ 112 (144)
..
T Consensus 95 GG 96 (350)
T PRK00843 95 GG 96 (350)
T ss_pred CC
Confidence 53
No 179
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=71.00 E-value=31 Score=25.90 Aligned_cols=83 Identities=14% Similarity=0.124 Sum_probs=54.2
Q ss_pred hHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEec----------c---cCCCC-CcchhhHH
Q psy12591 27 HHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEK----------L---VKDSG-VAEETAYD 92 (144)
Q Consensus 27 ~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~----------~---~~~~~-~~~~~~~~ 92 (144)
-+..++.++-+++-|-++++++...-. =...-.++.|.++|+.++..+. | -.+.- .....-+.
T Consensus 102 lhIidaTa~~ik~~g~kkvgLLgT~~T---m~~~fY~~~l~~~gievvvPdd~~q~~v~~iIy~El~~G~~~~~sr~~~~ 178 (230)
T COG1794 102 LHIIDATAKAIKAAGAKKVGLLGTRFT---MEQGFYRKRLEEKGIEVVVPDDDEQAEVNRIIYEELCQGIVKDASRELYL 178 (230)
T ss_pred ehHHHHHHHHHHhcCCceeEEeeccch---HHhHHHHHHHHHCCceEecCCHHHHHHHHHHHHHHHhcccchHHHHHHHH
Confidence 345667777788889999999975321 2334467889999988765332 1 11110 01244567
Q ss_pred HHHHHHhcCCCceEEEEeeEE
Q psy12591 93 DIVLKLLTKPRARGLFKRLKL 113 (144)
Q Consensus 93 ~~l~~lk~~~~arvii~~~~~ 113 (144)
.++.+|+ ..+++.||+-++.
T Consensus 179 ~ii~~l~-~~Gae~vIlGCTE 198 (230)
T COG1794 179 AVIERLA-ERGAEGVILGCTE 198 (230)
T ss_pred HHHHHHH-HcCCCEEEEeccc
Confidence 7888888 5689999987764
No 180
>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=70.78 E-value=39 Score=24.79 Aligned_cols=56 Identities=13% Similarity=-0.085 Sum_probs=40.4
Q ss_pred ceEEecCCchHHHHHHHHHHHh-CCCcEEEEEEEeC--CcchHHHHHHHHHhhhCceEE
Q psy12591 18 YFTRTIPSDHHQVKAMVEIVKK-LGWSYVSIIYEES--NYGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 18 ~ffRt~p~d~~~~~a~~~ll~~-f~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~Gi~V 73 (144)
.+..+..++...+..+++.|.. .|-++++++..+. ..+....+.|.+.++++|+.+
T Consensus 100 ~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~~i~g~~~~~~~~~r~~g~~~~~~~~~~~~ 158 (271)
T cd06312 100 ALAYVGQDEYAAGEAAGERLAELKGGKNVLCVIHEPGNVTLEDRCAGFADGLGGAGITE 158 (271)
T ss_pred ceEEeccChHHHHHHHHHHHHHhcCCCeEEEEecCCCCccHHHHHHHHHHHHHhcCcee
Confidence 3455666667777888888777 7999999997533 334566788888888888654
No 181
>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=70.00 E-value=30 Score=25.07 Aligned_cols=12 Identities=17% Similarity=0.279 Sum_probs=5.0
Q ss_pred HHHHHHhCCCcE
Q psy12591 33 MVEIVKKLGWSY 44 (144)
Q Consensus 33 ~~~ll~~f~W~~ 44 (144)
+-+-++.+||+-
T Consensus 21 i~~~~~~~g~~~ 32 (260)
T cd06286 21 IEKAALKHGYKV 32 (260)
T ss_pred HHHHHHHcCCEE
Confidence 333344445433
No 182
>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=69.81 E-value=30 Score=25.11 Aligned_cols=13 Identities=15% Similarity=0.440 Sum_probs=6.9
Q ss_pred HHHHHHHHhCCCc
Q psy12591 31 KAMVEIVKKLGWS 43 (144)
Q Consensus 31 ~a~~~ll~~f~W~ 43 (144)
..+.+.++.+||.
T Consensus 23 ~~i~~~~~~~g~~ 35 (268)
T cd06271 23 SGLSEALAEHGYD 35 (268)
T ss_pred HHHHHHHHHCCce
Confidence 3444455566665
No 183
>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=69.41 E-value=31 Score=25.21 Aligned_cols=16 Identities=13% Similarity=0.312 Sum_probs=9.2
Q ss_pred HHHHHHHHHHhCCCcE
Q psy12591 29 QVKAMVEIVKKLGWSY 44 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~ 44 (144)
....+.+.++..||.-
T Consensus 17 ~~~gi~~~~~~~g~~~ 32 (273)
T cd06292 17 FAEAIEAALAQYGYTV 32 (273)
T ss_pred HHHHHHHHHHHCCCEE
Confidence 3445556666677653
No 184
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=69.19 E-value=37 Score=23.97 Aligned_cols=47 Identities=17% Similarity=0.029 Sum_probs=32.1
Q ss_pred HHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 58 AFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 58 ~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
....+...+++.|+.+.....++.+ ...+.+.|.++. .++++||...
T Consensus 20 n~~~l~~~L~~~G~~v~~~~~v~Dd-----~~~I~~~l~~~~--~~~dlVIttG 66 (170)
T cd00885 20 NAAFLAKELAELGIEVYRVTVVGDD-----EDRIAEALRRAS--ERADLVITTG 66 (170)
T ss_pred HHHHHHHHHHHCCCEEEEEEEeCCC-----HHHHHHHHHHHH--hCCCEEEECC
Confidence 4567778888889888776666544 456777777665 3577776653
No 185
>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=68.97 E-value=38 Score=24.62 Aligned_cols=52 Identities=13% Similarity=0.122 Sum_probs=37.0
Q ss_pred EecCCchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCceE
Q psy12591 21 RTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSIC 72 (144)
Q Consensus 21 Rt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~ 72 (144)
.+.+++...+..+++.+...|-++++++..... ......+.|.+.++++|+.
T Consensus 95 ~v~~d~~~~~~~a~~~l~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~~~~~~~~ 148 (269)
T cd06288 95 SVVPDEEQGGYDATRHLLAAGHRRIAFINGEPWMLAAKDRLKGYRQALAEAGIP 148 (269)
T ss_pred eEEEccHHHHHHHHHHHHHcCCceEEEEeCCccchhHHHHHHHHHHHHHHcCCC
Confidence 345566666778888776669999999975433 2345677788888888864
No 186
>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=68.96 E-value=22 Score=25.97 Aligned_cols=67 Identities=7% Similarity=0.026 Sum_probs=45.1
Q ss_pred EEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecc--cCCCCC--cchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 44 YVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKL--VKDSGV--AEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 44 ~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~--~~~~~~--~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
.++++++.|.=|..+-+.+.+.|.++|+.|+-.... ...... ....|+..++....+..+.+=++|.
T Consensus 3 t~~v~~SGDgGw~~~d~~~a~~l~~~G~~VvGvdsl~Yfw~~rtP~~~a~Dl~~~i~~y~~~w~~~~vvLi 73 (192)
T PF06057_consen 3 TLAVFFSGDGGWRDLDKQIAEALAKQGVPVVGVDSLRYFWSERTPEQTAADLARIIRHYRARWGRKRVVLI 73 (192)
T ss_pred EEEEEEeCCCCchhhhHHHHHHHHHCCCeEEEechHHHHhhhCCHHHHHHHHHHHHHHHHHHhCCceEEEE
Confidence 578888888777899999999999999998765432 111110 1256677777777655555555554
No 187
>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=68.77 E-value=38 Score=24.54 Aligned_cols=52 Identities=6% Similarity=0.042 Sum_probs=37.1
Q ss_pred ecCCchHHHHHHHHHHHhCCCcEEEEEEEeC--CcchHHHHHHHHHhhhCceEE
Q psy12591 22 TIPSDHHQVKAMVEIVKKLGWSYVSIIYEES--NYGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~Gi~V 73 (144)
..++....+..+++.|...|-++++++..+. .......+.|.+.+++.|+.+
T Consensus 94 v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~~~~ 147 (260)
T cd06286 94 VYIDHYEAFYEALKYLIQKGYRKIAYCIGRKKSLNSQSRKKAYKDALEEYGLTP 147 (260)
T ss_pred EEECChHHHHHHHHHHHHCCCceEEEEcCCcccchhHHHHHHHHHHHHHcCCCC
Confidence 4445556667777877777999999997543 334456788888999888654
No 188
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=68.70 E-value=23 Score=21.40 Aligned_cols=33 Identities=21% Similarity=0.258 Sum_probs=23.5
Q ss_pred CcEEEEEEEeCCcchHHHHHHHHHhhhCceEEE
Q psy12591 42 WSYVSIIYEESNYGVKAFEELEVLLAKYSICIA 74 (144)
Q Consensus 42 W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~ 74 (144)
-++|.+.+++|.-|+..+..+.+.+...|+.+.
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi~v~ 78 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPLGIRVT 78 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG-------
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhhccccc
Confidence 589999999999999999999999888887663
No 189
>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=68.26 E-value=44 Score=24.41 Aligned_cols=51 Identities=8% Similarity=0.038 Sum_probs=32.6
Q ss_pred CCchHHHHHHHHHHHhC------CCcEEEEEEEeC--CcchHHHHHHHHHhhhCceEEE
Q psy12591 24 PSDHHQVKAMVEIVKKL------GWSYVSIIYEES--NYGVKAFEELEVLLAKYSICIA 74 (144)
Q Consensus 24 p~d~~~~~a~~~ll~~f------~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~Gi~V~ 74 (144)
+++..-+..+++++... |-++++++.... ..+....+.|++.++++|+.+.
T Consensus 101 ~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~ 159 (277)
T cd06319 101 SDNYEGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNGQKRTKGFKEAMKEAGCDLA 159 (277)
T ss_pred eccHHHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccHHHHHHHHHHHHHhcCCceE
Confidence 33333345566654332 668999997432 3456677888999999987654
No 190
>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=68.17 E-value=38 Score=24.51 Aligned_cols=15 Identities=20% Similarity=0.432 Sum_probs=7.8
Q ss_pred HHHHHHHHHHhCCCc
Q psy12591 29 QVKAMVEIVKKLGWS 43 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~ 43 (144)
....+-+-++..||+
T Consensus 17 ~~~gi~~~~~~~g~~ 31 (259)
T cd01542 17 TVKGILAALYENGYQ 31 (259)
T ss_pred HHHHHHHHHHHCCCE
Confidence 334444445566665
No 191
>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=67.66 E-value=27 Score=26.12 Aligned_cols=12 Identities=25% Similarity=0.335 Sum_probs=6.5
Q ss_pred HHHHHHHhCCCc
Q psy12591 32 AMVEIVKKLGWS 43 (144)
Q Consensus 32 a~~~ll~~f~W~ 43 (144)
.+.+.++.+||+
T Consensus 20 gi~~~a~~~g~~ 31 (288)
T cd01538 20 NFEAALKELGAE 31 (288)
T ss_pred HHHHHHHHcCCE
Confidence 344445566665
No 192
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins 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 they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=67.58 E-value=23 Score=26.96 Aligned_cols=45 Identities=18% Similarity=0.199 Sum_probs=31.1
Q ss_pred HHHHhCCCcEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEEEecc
Q psy12591 35 EIVKKLGWSYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAIKEKL 79 (144)
Q Consensus 35 ~ll~~f~W~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~ 79 (144)
-+.+.||.+.++++.. +.+-+..-...+.+.++++|+...+.+.-
T Consensus 183 Y~~~~~gl~~~~~~~~~~~~eps~~~l~~l~~~ik~~~v~~if~e~~ 229 (282)
T cd01017 183 YLARRYGLKQIAIVGVSPEVEPSPKQLAELVEFVKKSDVKYIFFEEN 229 (282)
T ss_pred HHHHHCCCeEEecccCCCCCCCCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 3557888888887643 34555666777788888888877666544
No 193
>TIGR00035 asp_race aspartate racemase.
Probab=67.33 E-value=41 Score=24.76 Aligned_cols=80 Identities=16% Similarity=0.079 Sum_probs=48.9
Q ss_pred HHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEec---------cc----CCCCCcchhhHHHHHH
Q psy12591 30 VKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEK---------LV----KDSGVAEETAYDDIVL 96 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~---------~~----~~~~~~~~~~~~~~l~ 96 (144)
.++.++-++..+.++|+++.... +-....+++.+++.|+.+..... +. .+........+.+.++
T Consensus 105 ~~~~~~~~~~~~~~~VgvLaT~~---T~~s~~y~~~l~~~g~~v~~p~~~~~~~i~~~i~~~~~~g~~~~~~~~l~~~~~ 181 (229)
T TIGR00035 105 IEETAEAVKEDGVKKAGLLGTKG---TMKDGVYEREMKKHGIEIVTPDKEEQEAIMSGIYDEVKAGNIELGRELLLKIAK 181 (229)
T ss_pred HHHHHHHHHHcCCCEEEEEecHH---HHHhHHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Confidence 34445555667899999996432 22334577888888987764321 11 0100012345777788
Q ss_pred HHhcCCCceEEEEeeEE
Q psy12591 97 KLLTKPRARGLFKRLKL 113 (144)
Q Consensus 97 ~lk~~~~arvii~~~~~ 113 (144)
++. ..++++||+-++.
T Consensus 182 ~l~-~~gad~iILgCTe 197 (229)
T TIGR00035 182 ELE-ERGAEGIILGCTE 197 (229)
T ss_pred HHH-hCCCCEEEEeCcc
Confidence 887 5789999997765
No 194
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=67.31 E-value=41 Score=23.67 Aligned_cols=74 Identities=19% Similarity=0.112 Sum_probs=41.2
Q ss_pred HHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEE
Q psy12591 29 QVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLF 108 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii 108 (144)
....+++.+..-+ .+|.++....+......+.+++. ..|+.|+....-+.+ ..+-..++..|. .+++++|+
T Consensus 34 l~~~ll~~~~~~~-~~v~llG~~~~~~~~~~~~l~~~--yp~l~i~g~~~g~~~-----~~~~~~i~~~I~-~~~pdiv~ 104 (171)
T cd06533 34 LMPALLELAAQKG-LRVFLLGAKPEVLEKAAERLRAR--YPGLKIVGYHHGYFG-----PEEEEEIIERIN-ASGADILF 104 (171)
T ss_pred HHHHHHHHHHHcC-CeEEEECCCHHHHHHHHHHHHHH--CCCcEEEEecCCCCC-----hhhHHHHHHHHH-HcCCCEEE
Confidence 4455555554444 47777766554433333333332 257777653222222 223334888898 78899998
Q ss_pred Eee
Q psy12591 109 KRL 111 (144)
Q Consensus 109 ~~~ 111 (144)
+..
T Consensus 105 vgl 107 (171)
T cd06533 105 VGL 107 (171)
T ss_pred EEC
Confidence 865
No 195
>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=66.83 E-value=28 Score=25.59 Aligned_cols=15 Identities=27% Similarity=0.339 Sum_probs=9.0
Q ss_pred HHHHHHHHHHhCCCc
Q psy12591 29 QVKAMVEIVKKLGWS 43 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~ 43 (144)
....+.+.++.+|++
T Consensus 17 ~~~~i~~~~~~~g~~ 31 (282)
T cd06318 17 LTEAAKAHAKALGYE 31 (282)
T ss_pred HHHHHHHHHHHcCCE
Confidence 334555666777775
No 196
>KOG0025|consensus
Probab=66.59 E-value=14 Score=28.97 Aligned_cols=54 Identities=20% Similarity=0.292 Sum_probs=41.8
Q ss_pred ceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEe
Q psy12591 18 YFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKE 77 (144)
Q Consensus 18 ~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~ 77 (144)
|+.+-. ..+..+++.+++.+.+|.+.|.+|-+.++. +.+.+.|+..|.+.+.++
T Consensus 163 ~vIQNg-anS~VG~~ViQlaka~GiktinvVRdR~~i-----eel~~~Lk~lGA~~ViTe 216 (354)
T KOG0025|consen 163 SVIQNG-ANSGVGQAVIQLAKALGIKTINVVRDRPNI-----EELKKQLKSLGATEVITE 216 (354)
T ss_pred eeeecC-cccHHHHHHHHHHHHhCcceEEEeecCccH-----HHHHHHHHHcCCceEecH
Confidence 544443 334578899999999999999999876654 788889988888776654
No 197
>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=66.25 E-value=30 Score=25.30 Aligned_cols=18 Identities=0% Similarity=-0.097 Sum_probs=9.0
Q ss_pred HHHHHHHHhcCCCceEEEE
Q psy12591 91 YDDIVLKLLTKPRARGLFK 109 (144)
Q Consensus 91 ~~~~l~~lk~~~~arvii~ 109 (144)
+...+..++ ..+..+|++
T Consensus 74 ~~~~l~~~~-~~~iPvv~~ 91 (272)
T cd06300 74 LNPVIEEAC-EAGIPVVSF 91 (272)
T ss_pred hHHHHHHHH-HCCCeEEEE
Confidence 345666666 334444443
No 198
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=66.22 E-value=30 Score=27.05 Aligned_cols=33 Identities=3% Similarity=-0.035 Sum_probs=20.4
Q ss_pred cEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEE
Q psy12591 43 SYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAI 75 (144)
Q Consensus 43 ~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~ 75 (144)
.+|+++.. ++.|+....+.+++.+++.|+++..
T Consensus 24 ~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~ 58 (336)
T PRK15408 24 ERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTY 58 (336)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEE
Confidence 35666653 3456666666677777777766653
No 199
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=66.12 E-value=24 Score=26.94 Aligned_cols=61 Identities=13% Similarity=0.020 Sum_probs=44.2
Q ss_pred EEEEEEEeCCc--ch---HHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 44 YVSIIYEESNY--GV---KAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 44 ~Vaii~~~~~~--g~---~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+++||...++- |+ .-+..+.+.|.+.|+.+.....+.++ ..++.+.|..+. .++++||+..
T Consensus 3 ~a~iI~vG~ElL~G~ivdtNa~~la~~L~~~G~~v~~~~~VgD~-----~~~I~~~l~~a~--~r~D~vI~tG 68 (255)
T COG1058 3 KAEIIAVGDELLSGRIVDTNAAFLADELTELGVDLARITTVGDN-----PDRIVEALREAS--ERADVVITTG 68 (255)
T ss_pred eEEEEEEccceecCceecchHHHHHHHHHhcCceEEEEEecCCC-----HHHHHHHHHHHH--hCCCEEEECC
Confidence 34555554432 22 24677899999999999988888765 678888888887 3499988764
No 200
>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=65.67 E-value=36 Score=24.31 Aligned_cols=15 Identities=20% Similarity=0.512 Sum_probs=8.1
Q ss_pred HHHHHHHHhCCCcEE
Q psy12591 31 KAMVEIVKKLGWSYV 45 (144)
Q Consensus 31 ~a~~~ll~~f~W~~V 45 (144)
..+.+.++.+||+-+
T Consensus 19 ~g~~~~~~~~g~~~~ 33 (264)
T cd06267 19 RGIEEAAREAGYSVL 33 (264)
T ss_pred HHHHHHHHHcCCEEE
Confidence 444455566676543
No 201
>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=65.48 E-value=39 Score=24.61 Aligned_cols=12 Identities=8% Similarity=0.440 Sum_probs=5.8
Q ss_pred HHHHHHHhCCCc
Q psy12591 32 AMVEIVKKLGWS 43 (144)
Q Consensus 32 a~~~ll~~f~W~ 43 (144)
.+.+.++..|+.
T Consensus 20 ~~~~~~~~~g~~ 31 (264)
T cd06274 20 RLEALARERGYQ 31 (264)
T ss_pred HHHHHHHHCCCE
Confidence 333445555554
No 202
>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=65.39 E-value=24 Score=26.68 Aligned_cols=31 Identities=6% Similarity=0.099 Sum_probs=16.5
Q ss_pred EEEEEEEe--CCcchHHHHHHHHHhhhCceEEE
Q psy12591 44 YVSIIYEE--SNYGVKAFEELEVLLAKYSICIA 74 (144)
Q Consensus 44 ~Vaii~~~--~~~g~~~~~~~~~~l~~~Gi~V~ 74 (144)
.|++|..+ +.|.......++++++++|..+.
T Consensus 3 ~IGvivp~~~npff~~ii~gIe~~a~~~Gy~l~ 35 (279)
T PF00532_consen 3 TIGVIVPDISNPFFAEIIRGIEQEAREHGYQLL 35 (279)
T ss_dssp EEEEEESSSTSHHHHHHHHHHHHHHHHTTCEEE
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHHcCCEEE
Confidence 34555432 34555556666666666665554
No 203
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=65.26 E-value=35 Score=26.42 Aligned_cols=61 Identities=5% Similarity=-0.044 Sum_probs=36.6
Q ss_pred cEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 43 SYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 43 ~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..|+++.. ++.|+....+.+++++++.|..+..... . . +.....+.++.+. ..+++.||+.
T Consensus 26 ~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l~i~~~-~-~----~~~~~~~~i~~l~-~~~vDGiIi~ 88 (330)
T PRK10355 26 VKIGMAIDDLRLERWQKDRDIFVKKAESLGAKVFVQSA-N-G----NEETQMSQIENMI-NRGVDVLVII 88 (330)
T ss_pred ceEEEEecCCCchHHHHHHHHHHHHHHHcCCEEEEECC-C-C----CHHHHHHHHHHHH-HcCCCEEEEe
Confidence 45666653 4567778888888888888877654321 1 1 1233445566665 4566666654
No 204
>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=65.25 E-value=41 Score=24.47 Aligned_cols=15 Identities=27% Similarity=0.290 Sum_probs=8.2
Q ss_pred HHHHHHHHHhCCCcE
Q psy12591 30 VKAMVEIVKKLGWSY 44 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~ 44 (144)
...+.+.++.+||+-
T Consensus 18 ~~gi~~~~~~~gy~~ 32 (265)
T cd06290 18 LKGMERGLNGSGYSP 32 (265)
T ss_pred HHHHHHHHHHCCCEE
Confidence 344455566666653
No 205
>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=65.15 E-value=51 Score=23.99 Aligned_cols=45 Identities=22% Similarity=0.214 Sum_probs=29.2
Q ss_pred hHHHHHHHHHH-HhC-CCcEEEEEEEeCCcc--hHHHHHHHHHhhhCce
Q psy12591 27 HHQVKAMVEIV-KKL-GWSYVSIIYEESNYG--VKAFEELEVLLAKYSI 71 (144)
Q Consensus 27 ~~~~~a~~~ll-~~f-~W~~Vaii~~~~~~g--~~~~~~~~~~l~~~Gi 71 (144)
...+..+++.+ +++ |-++|+++....++. ....+.|++.++++|.
T Consensus 108 ~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~~~~~~~ 156 (275)
T cd06317 108 ISQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQKGFEDELAEVCP 156 (275)
T ss_pred HHHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHHHHHHHHHhhCC
Confidence 34555566655 433 778999997644443 3446778888888864
No 206
>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=65.15 E-value=26 Score=26.15 Aligned_cols=17 Identities=35% Similarity=0.415 Sum_probs=10.4
Q ss_pred HHHHHHHHHHhCCCcEE
Q psy12591 29 QVKAMVEIVKKLGWSYV 45 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~V 45 (144)
....+.+.++.+|++-+
T Consensus 17 ~~~gi~~~a~~~g~~~~ 33 (294)
T cd06316 17 QVRGAKDEFAKLGIEVV 33 (294)
T ss_pred HHHHHHHHHHHcCCEEE
Confidence 33455566777787654
No 207
>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=64.95 E-value=41 Score=24.46 Aligned_cols=14 Identities=7% Similarity=0.347 Sum_probs=7.6
Q ss_pred HHHHHHHHhCCCcE
Q psy12591 31 KAMVEIVKKLGWSY 44 (144)
Q Consensus 31 ~a~~~ll~~f~W~~ 44 (144)
..+.+.++.+||+-
T Consensus 19 ~gi~~~~~~~g~~~ 32 (269)
T cd06275 19 RGVEQYCYRQGYNL 32 (269)
T ss_pred HHHHHHHHHcCCEE
Confidence 34445556667653
No 208
>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=64.90 E-value=51 Score=23.86 Aligned_cols=50 Identities=12% Similarity=0.092 Sum_probs=35.5
Q ss_pred cCCchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCceE
Q psy12591 23 IPSDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSIC 72 (144)
Q Consensus 23 ~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~ 72 (144)
.......+..+++.+...|-++++++..+.+ ......+.|++.+++.|..
T Consensus 97 ~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~ 148 (268)
T cd01575 97 GFSHAEAGRAMARHLLARGYRRIGFLGARMDDTRAQQRLEGFRAALRAAGLD 148 (268)
T ss_pred EeCcHHHHHHHHHHHHHCCCCcEEEecCCCCcccHHHHHHHHHHHHHHcCCC
Confidence 3344556677777777779999999986543 4445567888899888863
No 209
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=64.67 E-value=7.9 Score=24.32 Aligned_cols=23 Identities=17% Similarity=0.182 Sum_probs=11.2
Q ss_pred HHHHHHHHHhhhCceEEEEEecc
Q psy12591 57 KAFEELEVLLAKYSICIAIKEKL 79 (144)
Q Consensus 57 ~~~~~~~~~l~~~Gi~V~~~~~~ 79 (144)
..++.+...|+..|+.+-....+
T Consensus 11 ~~a~~l~~~L~~~g~~v~~d~~~ 33 (102)
T PF13676_consen 11 EFAERLAERLESAGIRVFLDRDI 33 (102)
T ss_dssp CCHHHHHHHHHHTT--EE-GGEE
T ss_pred HHHHHHHHHHhhcCCEEEEEEeC
Confidence 45566666666666655444333
No 210
>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=64.46 E-value=32 Score=25.94 Aligned_cols=14 Identities=29% Similarity=0.309 Sum_probs=8.1
Q ss_pred HHHHHHHHhCCCcE
Q psy12591 31 KAMVEIVKKLGWSY 44 (144)
Q Consensus 31 ~a~~~ll~~f~W~~ 44 (144)
..+-+.++.+||+-
T Consensus 19 ~gi~~~a~~~g~~v 32 (298)
T cd06302 19 EGAKEAAKELGVDA 32 (298)
T ss_pred HHHHHHHHHhCCeE
Confidence 44455566677753
No 211
>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=63.70 E-value=53 Score=23.78 Aligned_cols=17 Identities=12% Similarity=0.337 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHhCCCcE
Q psy12591 28 HQVKAMVEIVKKLGWSY 44 (144)
Q Consensus 28 ~~~~a~~~ll~~f~W~~ 44 (144)
.....+.+.++..||.-
T Consensus 16 ~~~~gi~~~~~~~~~~~ 32 (264)
T cd01574 16 STLAAIESAAREAGYAV 32 (264)
T ss_pred HHHHHHHHHHHHCCCeE
Confidence 34455666666777753
No 212
>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=63.36 E-value=49 Score=24.11 Aligned_cols=20 Identities=5% Similarity=-0.003 Sum_probs=8.1
Q ss_pred cchHHHHHHHHHhhhCceEE
Q psy12591 54 YGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 54 ~g~~~~~~~~~~l~~~Gi~V 73 (144)
|.....+.+...+++.|.++
T Consensus 13 ~~~~~~~~i~~~~~~~g~~~ 32 (263)
T cd06280 13 FFTAVSRAVEDAAYRAGLRV 32 (263)
T ss_pred cHHHHHHHHHHHHHHCCCEE
Confidence 33334444444444444333
No 213
>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=63.20 E-value=55 Score=23.86 Aligned_cols=17 Identities=12% Similarity=0.288 Sum_probs=9.7
Q ss_pred HHHHHHHHHHhCCCcEE
Q psy12591 29 QVKAMVEIVKKLGWSYV 45 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~V 45 (144)
....+.+.++..||+-+
T Consensus 17 ~~~g~~~~a~~~g~~~~ 33 (268)
T cd06270 17 LLSGVESVARKAGKHLI 33 (268)
T ss_pred HHHHHHHHHHHCCCEEE
Confidence 34455555666777544
No 214
>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=63.16 E-value=47 Score=24.21 Aligned_cols=15 Identities=27% Similarity=0.217 Sum_probs=7.6
Q ss_pred HHHHHHHHHhCCCcE
Q psy12591 30 VKAMVEIVKKLGWSY 44 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~ 44 (144)
...+.+.++.+||+-
T Consensus 18 ~~gi~~~~~~~gy~v 32 (269)
T cd06293 18 ADAVEEEADARGLSL 32 (269)
T ss_pred HHHHHHHHHHCCCEE
Confidence 344445555566543
No 215
>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=62.98 E-value=30 Score=25.40 Aligned_cols=18 Identities=6% Similarity=-0.007 Sum_probs=9.5
Q ss_pred HHHHHHHHhCCCcEEEEE
Q psy12591 31 KAMVEIVKKLGWSYVSII 48 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii 48 (144)
..+.+.++..|+.-+.+.
T Consensus 19 ~~i~~~~~~~g~~~~~~~ 36 (275)
T cd06307 19 AALEAAAAAFPDARIRVR 36 (275)
T ss_pred HHHHHHHhhhhccCceEE
Confidence 444555566666544443
No 216
>cd03522 MoeA_like MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is unknown.
Probab=62.97 E-value=73 Score=25.01 Aligned_cols=87 Identities=20% Similarity=0.109 Sum_probs=54.1
Q ss_pred EEecCCc--hHHHHHHHHHHHhCC--------CcEEEEEEEeCCc--c---hHHHHHHHHHhhhCceEEEEEecccCCCC
Q psy12591 20 TRTIPSD--HHQVKAMVEIVKKLG--------WSYVSIIYEESNY--G---VKAFEELEVLLAKYSICIAIKEKLVKDSG 84 (144)
Q Consensus 20 fRt~p~d--~~~~~a~~~ll~~f~--------W~~Vaii~~~~~~--g---~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~ 84 (144)
+|.+|-. ..+......++...+ -.+++++...++- | ......+...+++.|+.+.....++.+
T Consensus 127 ~riiPl~v~~~~~~~a~~~~~~~gi~~V~v~r~~rv~II~TG~Ev~~G~i~D~~~~~l~~~L~~~G~~v~~~~iv~Dd-- 204 (312)
T cd03522 127 VKIIPLAVPEALVERAEALARDGPLLRVAPFRPLRVGLIVTGSEVYGGRIEDKFGPVLRARLAALGVELVEQVIVPHD-- 204 (312)
T ss_pred EEEeeeecCHHHHHHHHHHHHhCCCcEEEecCCCEEEEEEcCCcCCCCcEEEhHHHHHHHHHHHCCCEEEEEEEcCCC--
Confidence 5666633 333344444444333 3467788765432 2 234667888899999988877777654
Q ss_pred CcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 85 VAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 85 ~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
...+.+.+.++. ..++++||+-..
T Consensus 205 ---~~~I~~ai~~~~-~~g~DlIItTGG 228 (312)
T cd03522 205 ---EAAIAAAIAEAL-EAGAELLILTGG 228 (312)
T ss_pred ---HHHHHHHHHHHh-cCCCCEEEEeCC
Confidence 567778887776 345788877643
No 217
>PRK09492 treR trehalose repressor; Provisional
Probab=62.71 E-value=64 Score=24.28 Aligned_cols=53 Identities=11% Similarity=0.133 Sum_probs=36.7
Q ss_pred ecCCchHHHHHHHHHHHhCCCcEEEEEEEe-C--CcchHHHHHHHHHhhhCceEEE
Q psy12591 22 TIPSDHHQVKAMVEIVKKLGWSYVSIIYEE-S--NYGVKAFEELEVLLAKYSICIA 74 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f~W~~Vaii~~~-~--~~g~~~~~~~~~~l~~~Gi~V~ 74 (144)
..+++..-+..+++.|...|-++|+++... . ..+....+.|.+.+++.|+.+.
T Consensus 155 V~~D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~~R~~Gf~~al~~~g~~~~ 210 (315)
T PRK09492 155 VCYDDEGAIKLLMQRLYDQGHRHISYLGVDHSDVTTGKRRHQAYLAFCKQHKLTPV 210 (315)
T ss_pred EEECcHHHHHHHHHHHHHcCCCeEEEEcCCcccchhHHHHHHHHHHHHHHcCCCce
Confidence 344444455667777767799999999632 2 2345667889999999998654
No 218
>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=62.53 E-value=56 Score=23.60 Aligned_cols=50 Identities=10% Similarity=0.131 Sum_probs=34.5
Q ss_pred CCchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCceEE
Q psy12591 24 PSDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 24 p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~V 73 (144)
+++...+..+++.+...|-++++++..... .+....+.|.+.++++|+.+
T Consensus 102 ~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~ 153 (268)
T cd06271 102 FDNEAAAYQAVRRLIALGHRRIALLNPPEDLTFAQHRRAGYRRALAEAGLPL 153 (268)
T ss_pred eCcHHHHHHHHHHHHHcCCCcEEEecCccccchHHHHHHHHHHHHHHhCCCC
Confidence 344555566777776779999999965432 34455678888888888654
No 219
>PRK09701 D-allose transporter subunit; Provisional
Probab=62.40 E-value=67 Score=24.42 Aligned_cols=66 Identities=8% Similarity=0.083 Sum_probs=38.4
Q ss_pred CCCcEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 40 LGWSYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 40 f~W~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
+--..|+++.. .+.|+....+.+++.+++.|+.+..... +... +...-...+.++. ..+++.||+.
T Consensus 22 ~~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~v~~~~~-~~~~---~~~~~~~~i~~l~-~~~vDgiIi~ 89 (311)
T PRK09701 22 FAAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVSVDIFAS-PSEG---DFQSQLQLFEDLS-NKNYKGIAFA 89 (311)
T ss_pred ccCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCeEEEecC-CCCC---CHHHHHHHHHHHH-HcCCCEEEEe
Confidence 44567888874 4567788888888888888877754321 1111 1222334455554 3456665554
No 220
>PF02502 LacAB_rpiB: Ribose/Galactose Isomerase; InterPro: IPR003500 This entry represents the sugar isomerase enzymes ribose 5-phosphate isomerase B (rpiB), galactose isomerase subunit A (LacA) and galactose isomerase subunit B (LacB). Galactose-6-phosphate isomerase (5.3.1.26 from EC) is a heteromultimeric protein consisting of subunits LacA and LacB, and catalyses the conversion of D-galactose 6-phosphate to D-tagatose and 6-phosphate in the tagatose 6-phosphate pathway of lactose catabolism []. Galactose-6-phosphate isomerase is induced by galactose or lactose. This entry represents the LacB subunit. Ribose 5-phosphate isomerase (5.3.1.6 from EC) forms a homodimer and catalyses the interconversion of D-ribose 5-phosphate and D-ribulose 5-phosphate in the non-oxidative branch of the pentose phosphate pathway. This reaction permits the synthesis of ribose from other sugars, as well as the recycling of sugars from nucleotide breakdown. Two unrelated enzymes can catalyse this reaction: RpiA (found in most organisms) and RpiB (found in some bacteria and eukaryotes). RpiB is also involved in metabolism of the rare sugar, allose, in addition to ribose sugars. The structures of RpiA and RpiB are distinct, RpiB having a Rossmann-type alpha/beta/alpha sandwich topology [].; GO: 0005975 carbohydrate metabolic process; PDB: 3HEE_A 3HE8_A 3PH3_B 3PH4_B 3ONO_A 4EM8_B 3S5P_B 1O1X_A 2BES_D 2VVP_D ....
Probab=62.33 E-value=49 Score=22.79 Aligned_cols=63 Identities=11% Similarity=0.084 Sum_probs=39.3
Q ss_pred EEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH-HHHHHhcCCCceEEEEeeEE
Q psy12591 49 YEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD-IVLKLLTKPRARGLFKRLKL 113 (144)
Q Consensus 49 ~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~-~l~~lk~~~~arvii~~~~~ 113 (144)
...|..|....+.+.+.|+++|.+|.-......++. +=.++.. .-..+.+..-.+.|++|.+.
T Consensus 4 igsDh~g~~lK~~i~~~L~~~g~eV~D~G~~~~~~~--dy~~~a~~va~~V~~~~~d~GIliCgtG 67 (140)
T PF02502_consen 4 IGSDHAGFELKEAIKEYLEEKGYEVIDFGTYSEDSV--DYPDFAEKVAEAVASGEADRGILICGTG 67 (140)
T ss_dssp EEE-GGGHHHHHHHHHHHHHTTEEEEEESESSTST----HHHHHHHHHHHHHTTSSSEEEEEESSS
T ss_pred EEeCHHHHHHHHHHHHHHHHCCCEEEEeCCCCCCCC--CHHHHHHHHHHHHHcccCCeEEEEcCCC
Confidence 344667889999999999999999876655543321 1122322 33445533445788888763
No 221
>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=62.02 E-value=46 Score=24.08 Aligned_cols=15 Identities=13% Similarity=0.488 Sum_probs=9.6
Q ss_pred HHHHHHHHHhCCCcE
Q psy12591 30 VKAMVEIVKKLGWSY 44 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~ 44 (144)
...+-+.++.+||+-
T Consensus 18 ~~g~~~~a~~~g~~~ 32 (268)
T cd06289 18 AAGLEEVLEEAGYTV 32 (268)
T ss_pred HHHHHHHHHHcCCeE
Confidence 345556677888853
No 222
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=61.65 E-value=65 Score=24.72 Aligned_cols=49 Identities=6% Similarity=0.007 Sum_probs=34.1
Q ss_pred CchHHHHHHHHHHHhCCCcEEEEEEEeC--CcchHHHHHHHHHhhhCceEE
Q psy12591 25 SDHHQVKAMVEIVKKLGWSYVSIIYEES--NYGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 25 ~d~~~~~a~~~ll~~f~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~Gi~V 73 (144)
.+..-+..+++.|...|-++++++.... .......+.|.+.+++.|+.+
T Consensus 159 D~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~ 209 (346)
T PRK10401 159 DNVSGARMATRMLLNNGHQRIGYLSSSHGIEDDAMRRAGWMSALKEQGIIP 209 (346)
T ss_pred CcHHHHHHHHHHHHHCCCCeEEEEeCCCcCcchHHHHHHHHHHHHHcCCCC
Confidence 3333445666777777999999996543 234556788999999999754
No 223
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=61.49 E-value=48 Score=23.94 Aligned_cols=78 Identities=17% Similarity=0.135 Sum_probs=48.8
Q ss_pred cCCchHHHHHHHHHHHh-CCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcC
Q psy12591 23 IPSDHHQVKAMVEIVKK-LGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTK 101 (144)
Q Consensus 23 ~p~d~~~~~a~~~ll~~-f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~ 101 (144)
.|.....++.+++++.. ..=+++.++..+. ....+.+.|++.|+.|.....+.. . ....-......++ .
T Consensus 97 ~~~~~~~s~~L~~~l~~~~~~~~vl~~~g~~-----~~~~l~~~L~~~g~~v~~~~vY~~-~---~~~~~~~~~~~l~-~ 166 (231)
T PF02602_consen 97 VPSSEGSSEGLAELLKEQLRGKRVLILRGEG-----GRPDLPEKLREAGIEVTEVIVYET-P---PEELSPELKEALD-R 166 (231)
T ss_dssp E-TTSSSHHHHHGGHHHCCTTEEEEEEESSS-----SCHHHHHHHHHTTEEEEEEECEEE-E---EHHHHHHHHHHHH-H
T ss_pred cCCCCCCHHHHHHHHHhhCCCCeEEEEcCCC-----ccHHHHHHHHHCCCeEEEEEEeec-c---cccchHHHHHHHH-c
Confidence 56656667888887763 3337777766443 356788999999999887776665 2 1333444555565 3
Q ss_pred CCceEEEEe
Q psy12591 102 PRARGLFKR 110 (144)
Q Consensus 102 ~~arvii~~ 110 (144)
....+|++.
T Consensus 167 ~~~~~v~ft 175 (231)
T PF02602_consen 167 GEIDAVVFT 175 (231)
T ss_dssp TTTSEEEES
T ss_pred CCCCEEEEC
Confidence 556555543
No 224
>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=61.48 E-value=55 Score=23.91 Aligned_cols=17 Identities=12% Similarity=0.257 Sum_probs=11.1
Q ss_pred hHHHHHHHHHHHhCCCc
Q psy12591 27 HHQVKAMVEIVKKLGWS 43 (144)
Q Consensus 27 ~~~~~a~~~ll~~f~W~ 43 (144)
......+.+.++.+||.
T Consensus 15 ~~~~~~i~~~a~~~g~~ 31 (269)
T cd06281 15 AQLFSGAEDRLRAAGYS 31 (269)
T ss_pred HHHHHHHHHHHHHcCCE
Confidence 33445666777778876
No 225
>PRK01215 competence damage-inducible protein A; Provisional
Probab=61.41 E-value=56 Score=24.91 Aligned_cols=61 Identities=11% Similarity=0.018 Sum_probs=40.6
Q ss_pred EEEEEEEeCC--cch---HHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 44 YVSIIYEESN--YGV---KAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 44 ~Vaii~~~~~--~g~---~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+++||...|+ .|. .....+...+.+.|+.+.....++++ ..++.+.|.+.. .++++||+..
T Consensus 5 ~v~Ii~~GdEll~G~i~dtn~~~l~~~L~~~G~~v~~~~~v~Dd-----~~~I~~~l~~a~--~~~DlVIttG 70 (264)
T PRK01215 5 FAWIITIGNELLIGRTVNTNASWIARRLTYLGYTVRRITVVMDD-----IEEIVSAFREAI--DRADVVVSTG 70 (264)
T ss_pred EEEEEEEChhccCCeEEEhhHHHHHHHHHHCCCeEEEEEEeCCC-----HHHHHHHHHHHh--cCCCEEEEeC
Confidence 5677765554 232 24567788888899888776666554 566777777776 3567777664
No 226
>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=61.27 E-value=32 Score=25.42 Aligned_cols=15 Identities=20% Similarity=0.271 Sum_probs=9.9
Q ss_pred HHHHHHHHHHhCCCc
Q psy12591 29 QVKAMVEIVKKLGWS 43 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~ 43 (144)
....+.+.++..||+
T Consensus 17 ~~~gi~~~~~~~g~~ 31 (289)
T cd01540 17 EWKFAKKAAKEKGFT 31 (289)
T ss_pred HHHHHHHHHHHcCCE
Confidence 345556667778877
No 227
>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=61.27 E-value=60 Score=23.52 Aligned_cols=48 Identities=13% Similarity=0.138 Sum_probs=33.1
Q ss_pred CCchHHHHHHHHHHHhCCCcEEEEEEEeCCc--chHHHHHHHHHhhhCce
Q psy12591 24 PSDHHQVKAMVEIVKKLGWSYVSIIYEESNY--GVKAFEELEVLLAKYSI 71 (144)
Q Consensus 24 p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~--g~~~~~~~~~~l~~~Gi 71 (144)
..+...+..+++.|...|-++++++.....+ .....+.|.+.+++.|+
T Consensus 104 ~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~ 153 (270)
T cd06294 104 NDNIQAGYDATEYLIKLGHKKIAFVGGDLDLEVTQDRLQGYKQALEDHGI 153 (270)
T ss_pred ECcHHHHHHHHHHHHHcCCccEEEecCCcccHHHHHHHHHHHHHHHHcCC
Confidence 3444555677777766699999999754433 33456788888988875
No 228
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=61.11 E-value=51 Score=25.19 Aligned_cols=46 Identities=11% Similarity=0.129 Sum_probs=31.4
Q ss_pred HHHHHhCCCcEEEEEEEe--CCcchHHHHHHHHHhhhCceEEEEEecc
Q psy12591 34 VEIVKKLGWSYVSIIYEE--SNYGVKAFEELEVLLAKYSICIAIKEKL 79 (144)
Q Consensus 34 ~~ll~~f~W~~Vaii~~~--~~~g~~~~~~~~~~l~~~Gi~V~~~~~~ 79 (144)
--|++.||++.++++... ..-+..-...+.+.+++.++.+.+.+..
T Consensus 190 ~Yl~~~~gl~~~~~~~~~~~~eps~~~l~~l~~~ik~~~v~~If~e~~ 237 (286)
T cd01019 190 GYFEKRYGLTQAGVFTIDPEIDPGAKRLAKIRKEIKEKGATCVFAEPQ 237 (286)
T ss_pred HHHHHHcCCceeeeecCCCCCCCCHHHHHHHHHHHHHcCCcEEEecCC
Confidence 345688999988877533 3444555667778888888877665544
No 229
>COG3473 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=60.89 E-value=68 Score=23.99 Aligned_cols=83 Identities=18% Similarity=0.180 Sum_probs=57.3
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecc--cCCCCC--cchhhHHHHHHHHhcCCCceE
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKL--VKDSGV--AEETAYDDIVLKLLTKPRARG 106 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~--~~~~~~--~~~~~~~~~l~~lk~~~~arv 106 (144)
.+.++-|+.++-+++.++. .|-....+...+.++.+|+.|+..... ..+-.. -+..-.-+.-.++. .++++.
T Consensus 107 ~Avv~aL~al~a~ri~vlT---PY~~evn~~e~ef~~~~Gfeiv~~~~Lgi~dn~eigr~~P~~~y~lAk~~~-~~~~Da 182 (238)
T COG3473 107 TAVVEALNALGAQRISVLT---PYIDEVNQREIEFLEANGFEIVDFKGLGITDNLEIGRQEPWAVYRLAKEVF-TPDADA 182 (238)
T ss_pred HHHHHHHHhhCcceEEEec---cchhhhhhHHHHHHHhCCeEEEEeeccCCcccchhcccChHHHHHHHHHhc-CCCCCe
Confidence 4677888999999999996 576778888889999999999876543 322111 01222334556666 689999
Q ss_pred EEEeeEEeeeC
Q psy12591 107 LFKRLKLVKDS 117 (144)
Q Consensus 107 ii~~~~~~~~~ 117 (144)
|++-+..+-+-
T Consensus 183 iFiSCTnlRt~ 193 (238)
T COG3473 183 IFISCTNLRTF 193 (238)
T ss_pred EEEEeeccccH
Confidence 88877655333
No 230
>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=60.87 E-value=61 Score=24.17 Aligned_cols=63 Identities=16% Similarity=0.232 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHH
Q psy12591 28 HQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVL 96 (144)
Q Consensus 28 ~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~ 96 (144)
.....-+.+++++.-++|.+.+++|.-|+..+....+.+.+.|..+.. ..++.. ..|..+.+.
T Consensus 140 ALT~~q~~lLkr~~~~~Iil~~D~D~AG~~Aa~r~~~~L~~~G~~v~v-v~lP~~-----~KDwNEllk 202 (218)
T TIGR00646 140 TISDKQMKFFKQKKIEKIFICFDNDFAGKNAAANLEEILKKAGFITKV-IEIKAA-----AKDWNDLFL 202 (218)
T ss_pred HhHHHHHHHHhccCCCEEEEEeCCCHHHHHHHHHHHHHHHHCCCeEEE-EeCCCc-----CCChhHHHH
Confidence 344444667776656788888888889999998888999888876532 334433 245655554
No 231
>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=60.81 E-value=51 Score=23.84 Aligned_cols=14 Identities=7% Similarity=0.515 Sum_probs=8.4
Q ss_pred HHHHHHHHhCCCcE
Q psy12591 31 KAMVEIVKKLGWSY 44 (144)
Q Consensus 31 ~a~~~ll~~f~W~~ 44 (144)
..+.+.++.+||+-
T Consensus 19 ~gi~~~~~~~g~~~ 32 (268)
T cd01575 19 QGISDVLEAAGYQL 32 (268)
T ss_pred HHHHHHHHHcCCEE
Confidence 45555566777763
No 232
>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=60.75 E-value=55 Score=23.78 Aligned_cols=13 Identities=23% Similarity=0.429 Sum_probs=6.7
Q ss_pred HHHHHHHHhCCCc
Q psy12591 31 KAMVEIVKKLGWS 43 (144)
Q Consensus 31 ~a~~~ll~~f~W~ 43 (144)
..+.+.++..|++
T Consensus 19 ~gi~~~~~~~~~~ 31 (265)
T cd06285 19 EGIEEAAAERGYS 31 (265)
T ss_pred HHHHHHHHHCCCE
Confidence 3444555555654
No 233
>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=60.71 E-value=44 Score=24.31 Aligned_cols=14 Identities=36% Similarity=0.211 Sum_probs=7.6
Q ss_pred HHHHHHHHhCCCcE
Q psy12591 31 KAMVEIVKKLGWSY 44 (144)
Q Consensus 31 ~a~~~ll~~f~W~~ 44 (144)
..+-+.++..||.-
T Consensus 19 ~~i~~~~~~~g~~~ 32 (267)
T cd06322 19 NAMKEEAKKQKVNL 32 (267)
T ss_pred HHHHHHHHhcCCEE
Confidence 44445566666643
No 234
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=60.68 E-value=51 Score=24.22 Aligned_cols=75 Identities=12% Similarity=-0.092 Sum_probs=40.8
Q ss_pred hHHHHHHHHHHHhC--CCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCc
Q psy12591 27 HHQVKAMVEIVKKL--GWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRA 104 (144)
Q Consensus 27 ~~~~~a~~~ll~~f--~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~a 104 (144)
...++.+++++... .=++|.++. |....+.+.+.|++.|+.|.....|..... ..+-......++ ..+.
T Consensus 101 ~~~~e~L~~~~~~~~~~~~~vL~~r-----g~~~r~~l~~~L~~~G~~v~~~~vY~~~~~---~~~~~~~~~~l~-~~~~ 171 (240)
T PRK09189 101 GGDGVRLAETVAAALAPTARLLYLA-----GRPRAPVFEDRLAAAGIPFRVAECYDMLPV---MYSPATLSAILG-GAPF 171 (240)
T ss_pred CCCHHHHHHHHHHhcCCCCcEEEec-----cCcccchhHHHHHhCCCeeEEEEEEEeecC---CCChHHHHHHHh-cCCC
Confidence 34567777766432 234455554 333457788999999988776655543221 112233444555 3445
Q ss_pred eEEEEe
Q psy12591 105 RGLFKR 110 (144)
Q Consensus 105 rvii~~ 110 (144)
++|+++
T Consensus 172 d~i~f~ 177 (240)
T PRK09189 172 DAVLLY 177 (240)
T ss_pred CEEEEe
Confidence 555443
No 235
>cd01016 TroA Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=60.57 E-value=49 Score=25.17 Aligned_cols=46 Identities=17% Similarity=0.182 Sum_probs=29.9
Q ss_pred HHHHHhCCCcEEEEEE--EeCCcchHHHHHHHHHhhhCceEEEEEecc
Q psy12591 34 VEIVKKLGWSYVSIIY--EESNYGVKAFEELEVLLAKYSICIAIKEKL 79 (144)
Q Consensus 34 ~~ll~~f~W~~Vaii~--~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~ 79 (144)
--|.++||.+.+++.. .+.+-+..-...+.+.++++|+.+.+.+.-
T Consensus 172 ~Y~~~~ygl~~~~~~~~~~~~eps~~~l~~l~~~ik~~~v~~if~e~~ 219 (276)
T cd01016 172 GYFGRAYGFEVKGLQGISTDSEAGLRDINELVDLIVERKIKAIFVESS 219 (276)
T ss_pred HHHHHHcCCeEecCcCCCcccCCCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 3355788888887653 233445556677778888888776665544
No 236
>PF00994 MoCF_biosynth: Probable molybdopterin binding domain; InterPro: IPR001453 Eukaryotic and prokaryotic molybdoenzymes require a molybdopterin cofactor (MoCF) for their activity. The biosynthesis of this cofactor involves a complex multistep enzymatic pathway. One of the eukaryotic proteins involved in this pathway is the Drosophila protein cinnamon [] which is highly similar to gephyrin, a rat microtubule-associated protein which was thought to anchor the glycine receptor to subsynaptic microtubules. Cinnamon and gephyrin are evolutionary related, in their N-terminal half, to the Escherichia coli MoCF biosynthesis proteins mog/chlG and moaB/chlA2 and, in their C-terminal half, to E. coli moeA/chlE.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 3TCR_B 1O8O_B 1O8Q_G 1EAV_D 1O8N_C 1UUX_A 1UUY_A 2G2C_A 2G4R_C 3K6A_F ....
Probab=60.27 E-value=46 Score=22.47 Aligned_cols=48 Identities=19% Similarity=0.097 Sum_probs=32.6
Q ss_pred HHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 57 KAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 57 ~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.....+.+.+++.|+.+.....++++ ...+.+.|.+.. .++++||...
T Consensus 17 ~n~~~l~~~l~~~G~~v~~~~~v~Dd-----~~~i~~~l~~~~--~~~D~VittG 64 (144)
T PF00994_consen 17 SNGPFLAALLEELGIEVIRYGIVPDD-----PDAIKEALRRAL--DRADLVITTG 64 (144)
T ss_dssp HHHHHHHHHHHHTTEEEEEEEEEESS-----HHHHHHHHHHHH--HTTSEEEEES
T ss_pred hHHHHHHHHHHHcCCeeeEEEEECCC-----HHHHHHHHHhhh--ccCCEEEEcC
Confidence 35567788888888888777777665 566777775554 2357777664
No 237
>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=59.87 E-value=41 Score=25.27 Aligned_cols=11 Identities=55% Similarity=0.652 Sum_probs=5.5
Q ss_pred HHHHHHhCCCc
Q psy12591 33 MVEIVKKLGWS 43 (144)
Q Consensus 33 ~~~ll~~f~W~ 43 (144)
+-+.++..|+.
T Consensus 21 i~~~a~~~g~~ 31 (295)
T TIGR02955 21 MVEQAKHLGVE 31 (295)
T ss_pred HHHHHHHhCCE
Confidence 33445555653
No 238
>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=59.59 E-value=45 Score=24.45 Aligned_cols=17 Identities=18% Similarity=0.075 Sum_probs=9.9
Q ss_pred HHHHHHHHHHhCCCcEE
Q psy12591 29 QVKAMVEIVKKLGWSYV 45 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~V 45 (144)
....+-+.++..||+-.
T Consensus 16 ~~~gi~~~~~~~g~~~~ 32 (271)
T cd06314 16 AEAGVKAAGKELGVDVE 32 (271)
T ss_pred HHHHHHHHHHHcCCeEE
Confidence 34455556677777643
No 239
>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=59.56 E-value=65 Score=23.36 Aligned_cols=50 Identities=12% Similarity=0.069 Sum_probs=34.5
Q ss_pred CCchHHHHHHHHHHHhCCCcEEEEEEEeCC---cchHHHHHHHHHhhhCceEE
Q psy12591 24 PSDHHQVKAMVEIVKKLGWSYVSIIYEESN---YGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 24 p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~---~g~~~~~~~~~~l~~~Gi~V 73 (144)
++....+..+++.|...|.++++++....+ .+....+.|.+.++++|+.+
T Consensus 94 ~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~ 146 (265)
T cd06291 94 SDNYEGGRLAAEELIERGCKHIAHIGGPNNTVSPTNLRYEGFLDVLKENGLEV 146 (265)
T ss_pred echHHHHHHHHHHHHHcCCcEEEEEccCcccccchHHHHHHHHHHHHHcCCCC
Confidence 344445567777776679999999964332 34455678888998888754
No 240
>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=59.43 E-value=66 Score=23.37 Aligned_cols=49 Identities=12% Similarity=0.144 Sum_probs=34.3
Q ss_pred CchHHHHHHHHHHHhCCCcEEEEEEEeC--CcchHHHHHHHHHhhhCceEE
Q psy12591 25 SDHHQVKAMVEIVKKLGWSYVSIIYEES--NYGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 25 ~d~~~~~a~~~ll~~f~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~Gi~V 73 (144)
+...-+..+++.|...|-++++++.... ..+....+.|.+.+++.|+.+
T Consensus 97 d~~~ag~~a~~~L~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~~~~~ 147 (265)
T cd06285 97 DDVLGGRLATRHLLDLGHRRIAVLAGPDYASTARDRLAGFRAALAEAGIEV 147 (265)
T ss_pred CcHHHHHHHHHHHHHCCCccEEEEeCCcccccHHHHHHHHHHHHHHcCCCC
Confidence 4444556667777777999999997543 234556778888888888754
No 241
>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=59.24 E-value=56 Score=23.61 Aligned_cols=16 Identities=13% Similarity=0.356 Sum_probs=9.9
Q ss_pred HHHHHHHHHHhCCCcE
Q psy12591 29 QVKAMVEIVKKLGWSY 44 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~ 44 (144)
....+.+.++..||.-
T Consensus 17 ~~~~i~~~~~~~g~~~ 32 (267)
T cd06284 17 ILKGIEDEAREAGYGV 32 (267)
T ss_pred HHHHHHHHHHHcCCeE
Confidence 3355556667778754
No 242
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=59.20 E-value=81 Score=24.31 Aligned_cols=100 Identities=12% Similarity=0.002 Sum_probs=65.3
Q ss_pred HHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEE
Q psy12591 34 VEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKL 113 (144)
Q Consensus 34 ~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~ 113 (144)
..+++.+.-+.|-+......-=.+...++...+...|..++-.. .. +-.++-.++..|| ...-|.|+.|...
T Consensus 77 ~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~---k~----dl~~Lp~l~~~Lr-~~~~kFIlFcDDL 148 (287)
T COG2607 77 EQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVD---KE----DLATLPDLVELLR-ARPEKFILFCDDL 148 (287)
T ss_pred HHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEc---HH----HHhhHHHHHHHHh-cCCceEEEEecCC
Confidence 34666667777766544332223567888888888887754322 11 1345778899999 5667788888777
Q ss_pred eeeCCcchhhhhHHHHHHHhcCcccccc
Q psy12591 114 VKDSGVAEETAYDDIVLKLLTKPRARAV 141 (144)
Q Consensus 114 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~ 141 (144)
-.++|=+..++.+.+.-.-+.++-.||+
T Consensus 149 SFe~gd~~yK~LKs~LeG~ve~rP~NVl 176 (287)
T COG2607 149 SFEEGDDAYKALKSALEGGVEGRPANVL 176 (287)
T ss_pred CCCCCchHHHHHHHHhcCCcccCCCeEE
Confidence 7777777777777666556666666664
No 243
>PF08901 DUF1847: Protein of unknown function (DUF1847); InterPro: IPR014997 This group of proteins are functionally uncharacterised. They contain 4 N-terminal cysteines that may form a zinc-binding domain.
Probab=59.19 E-value=26 Score=24.66 Aligned_cols=46 Identities=17% Similarity=0.227 Sum_probs=34.1
Q ss_pred HHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEe
Q psy12591 30 VKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKE 77 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~ 77 (144)
.+-++++.+++||+++++-+--. -..-+..|.+.|+.+|..|...-
T Consensus 43 veEiieFak~mgykkiGiAfCiG--L~~EA~~~~~iL~~~gFev~sV~ 88 (157)
T PF08901_consen 43 VEEIIEFAKRMGYKKIGIAFCIG--LRKEARILAKILEANGFEVYSVC 88 (157)
T ss_pred HHHHHHHHHHcCCCeeeehhhHh--HHHHHHHHHHHHHHCCCEEEEEE
Confidence 35678889999999999975311 12356788889999999887653
No 244
>COG0021 TktA Transketolase [Carbohydrate transport and metabolism]
Probab=59.11 E-value=86 Score=27.27 Aligned_cols=76 Identities=8% Similarity=0.128 Sum_probs=53.0
Q ss_pred HHHHHHHHHhCCCcEEEEEEEeCCcch------HHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhc-CC
Q psy12591 30 VKAMVEIVKKLGWSYVSIIYEESNYGV------KAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLT-KP 102 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~Vaii~~~~~~g~------~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~-~~ 102 (144)
+.-.++|..+++-.+..++|++++... .+.+++.+.++..|+.+...+.= . +-+.+...+.+-|. +.
T Consensus 165 s~EA~slAG~l~L~kLIvlyD~N~IsiDG~~~~~f~ed~~~RfeAyGW~vi~~~DG--~----D~e~I~~Ai~~Ak~~~d 238 (663)
T COG0021 165 SHEAASLAGHLKLGKLIVLYDSNDISIDGDTSLSFTEDVAKRFEAYGWNVIRVIDG--H----DLEAIDKAIEEAKASTD 238 (663)
T ss_pred HHHHHHHHhhcCCCcEEEEEeCCCceeccCcccccchhHHHHHHhcCCeEEEecCC--C----CHHHHHHHHHHHHhcCC
Confidence 345577889999999999998776643 35789999999999998644321 1 14567777777774 33
Q ss_pred CceEEEEee
Q psy12591 103 RARGLFKRL 111 (144)
Q Consensus 103 ~arvii~~~ 111 (144)
++-+|++.+
T Consensus 239 kPtlI~~kT 247 (663)
T COG0021 239 KPTLIIVKT 247 (663)
T ss_pred CCeEEEEEe
Confidence 555555544
No 245
>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=58.90 E-value=82 Score=24.29 Aligned_cols=80 Identities=14% Similarity=0.141 Sum_probs=48.9
Q ss_pred CCchHHHHHHHHHHHhCCCcEEEEEEEeCCc---------------chHHHHHHHHHhhhCceEEEEEecccC-CCCCcc
Q psy12591 24 PSDHHQVKAMVEIVKKLGWSYVSIIYEESNY---------------GVKAFEELEVLLAKYSICIAIKEKLVK-DSGVAE 87 (144)
Q Consensus 24 p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~---------------g~~~~~~~~~~l~~~Gi~V~~~~~~~~-~~~~~~ 87 (144)
+.+....+..+++...+||..+-+ |..| ...-...+.+.++++|+-|..-.--.. .....-
T Consensus 28 g~~t~~~k~yIDfAa~~G~eYvlv---D~GW~~~~~~~~~d~~~~~~~~dl~elv~Ya~~KgVgi~lw~~~~~~~~~~~~ 104 (273)
T PF10566_consen 28 GATTETQKRYIDFAAEMGIEYVLV---DAGWYGWEKDDDFDFTKPIPDFDLPELVDYAKEKGVGIWLWYHSETGGNVANL 104 (273)
T ss_dssp SSSHHHHHHHHHHHHHTT-SEEEE---BTTCCGS--TTT--TT-B-TT--HHHHHHHHHHTT-EEEEEEECCHTTBHHHH
T ss_pred CCCHHHHHHHHHHHHHcCCCEEEe---ccccccccccccccccccCCccCHHHHHHHHHHcCCCEEEEEeCCcchhhHhH
Confidence 456677789999999999999888 4444 234578888899999977654322222 000000
Q ss_pred hhhHHHHHHHHhcCCCceEE
Q psy12591 88 ETAYDDIVLKLLTKPRARGL 107 (144)
Q Consensus 88 ~~~~~~~l~~lk~~~~arvi 107 (144)
+..+++.+..++ +-+++.|
T Consensus 105 ~~~~~~~f~~~~-~~Gv~Gv 123 (273)
T PF10566_consen 105 EKQLDEAFKLYA-KWGVKGV 123 (273)
T ss_dssp HCCHHHHHHHHH-HCTEEEE
T ss_pred HHHHHHHHHHHH-HcCCCEE
Confidence 222577788887 5666655
No 246
>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=58.79 E-value=55 Score=23.70 Aligned_cols=14 Identities=7% Similarity=0.275 Sum_probs=7.5
Q ss_pred HHHHHHHHhCCCcE
Q psy12591 31 KAMVEIVKKLGWSY 44 (144)
Q Consensus 31 ~a~~~ll~~f~W~~ 44 (144)
..+.+.++..|+.-
T Consensus 19 ~~~~~~~~~~g~~~ 32 (268)
T cd06298 19 RGIDDIATMYKYNI 32 (268)
T ss_pred HHHHHHHHHcCCeE
Confidence 44445556666643
No 247
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=58.61 E-value=45 Score=24.99 Aligned_cols=10 Identities=30% Similarity=0.597 Sum_probs=4.5
Q ss_pred HHHHhCCCcE
Q psy12591 35 EIVKKLGWSY 44 (144)
Q Consensus 35 ~ll~~f~W~~ 44 (144)
+.++.+|++-
T Consensus 50 ~~~~~~G~~~ 59 (295)
T PRK10653 50 KEADKLGYNL 59 (295)
T ss_pred HHHHHcCCeE
Confidence 3444555433
No 248
>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=58.56 E-value=67 Score=23.47 Aligned_cols=14 Identities=14% Similarity=0.501 Sum_probs=8.0
Q ss_pred HHHHHHHHhCCCcE
Q psy12591 31 KAMVEIVKKLGWSY 44 (144)
Q Consensus 31 ~a~~~ll~~f~W~~ 44 (144)
..+.+.++.+||+-
T Consensus 19 ~gi~~~~~~~g~~~ 32 (273)
T cd01541 19 RGIESVLSEKGYSL 32 (273)
T ss_pred HHHHHHHHHcCCEE
Confidence 44455566667654
No 249
>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=58.51 E-value=60 Score=23.44 Aligned_cols=14 Identities=14% Similarity=0.484 Sum_probs=7.7
Q ss_pred HHHHHHHHhCCCcE
Q psy12591 31 KAMVEIVKKLGWSY 44 (144)
Q Consensus 31 ~a~~~ll~~f~W~~ 44 (144)
..+.+.++.+||+-
T Consensus 19 ~~i~~~a~~~g~~~ 32 (267)
T cd06283 19 KGIEDVCRAHGYQV 32 (267)
T ss_pred HHHHHHHHHcCCEE
Confidence 44445556667654
No 250
>PF09651 Cas_APE2256: CRISPR-associated protein (Cas_APE2256); InterPro: IPR013442 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a conserved region of about 150 amino acids found in a family of Cas proteins in at least five archaeal and three bacterial species. In six of eight species, the protein is encoded the vicinity of a CRISPR/Cas locus.; PDB: 3QYF_A.
Probab=58.37 E-value=56 Score=22.20 Aligned_cols=97 Identities=19% Similarity=0.239 Sum_probs=54.6
Q ss_pred HHHHHHHHhCCCc---EEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEe--cccCCCCCcchhhHHHHHHHHh------
Q psy12591 31 KAMVEIVKKLGWS---YVSIIYEESNYGVKAFEELEVLLAKYSICIAIKE--KLVKDSGVAEETAYDDIVLKLL------ 99 (144)
Q Consensus 31 ~a~~~ll~~f~W~---~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~--~~~~~~~~~~~~~~~~~l~~lk------ 99 (144)
..+..++...... .+.++++|+.-|+-.++.+++.++++|+.+.... .+.... ..+|..-|.+|-
T Consensus 8 nsl~~~~~~~~~~~~~~~~Ll~SDT~~G~~~a~il~~~l~~~g~~v~~~~i~~l~~~~----~~~F~~Gl~~Lv~~~~~~ 83 (136)
T PF09651_consen 8 NSLVRLLEKGKDDDKDEVVLLHSDTPDGRLCAEILKEYLEEKGINVEVVEIEGLQTED----PEKFREGLRNLVRWVAEE 83 (136)
T ss_dssp HHHHHHHHHHT--GGGEEEEEEESSHHHHHHHHHHHHHHHHTT-EEEEEE---E--------HHHHHHHHHHHHHHTHHH
T ss_pred HHHHHHHHhCccccCcEEEEEeCCCHHHHHHHHHHHHHHHHcCCeEEEEEeeeecccc----hHHHHHHHHHHHHHHHHH
Confidence 3455555443332 7899999999999999999999999988754432 233221 233443222221
Q ss_pred ----cCCCceEEEEeeEEeeeCCcchhhhhHHHHHHHhcCc
Q psy12591 100 ----TKPRARGLFKRLKLVKDSGVAEETAYDDIVLKLLTKP 136 (144)
Q Consensus 100 ----~~~~arvii~~~~~~~~~g~~~~~~~~~~~~~~~~~~ 136 (144)
...+-++++--. -|+..+..|-.+.|++.--|
T Consensus 84 v~~~~~~~~~v~~n~T-----GGfK~~~~~~~~~g~~~~~~ 119 (136)
T PF09651_consen 84 VKNYKGRGYEVIFNAT-----GGFKAEIAYLTLLGMLYGDP 119 (136)
T ss_dssp HHHHHHTT-EEEEE-S-----SS-HHHHHHHHHHHHHT--E
T ss_pred HHHhhcCCCeEEEEeC-----CChHHHHHHHHHHHHHcCCC
Confidence 123344443333 48888888888888874433
No 251
>PRK09526 lacI lac repressor; Reviewed
Probab=58.35 E-value=81 Score=24.04 Aligned_cols=51 Identities=12% Similarity=0.075 Sum_probs=35.1
Q ss_pred cCCchHHHHHHHHHHHhCCCcEEEEEEEeC--CcchHHHHHHHHHhhhCceEE
Q psy12591 23 IPSDHHQVKAMVEIVKKLGWSYVSIIYEES--NYGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 23 ~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~Gi~V 73 (144)
..++..-+..+++.|...|.++|+++.... .........|.+.+++.|+.+
T Consensus 162 ~~d~~~~~~~a~~~L~~~G~~~I~~l~g~~~~~~~~~R~~Gf~~al~~~gi~~ 214 (342)
T PRK09526 162 SFDPEDGTRLGVEHLVELGHQRIALLAGPESSVSARLRLAGWLEYLTDYQLQP 214 (342)
T ss_pred EECcHHHHHHHHHHHHHCCCCeEEEEeCCCccccHHHHHHHHHHHHHHcCCCc
Confidence 334444556677777777999999997532 233445677888888888764
No 252
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=58.17 E-value=54 Score=24.78 Aligned_cols=18 Identities=11% Similarity=0.086 Sum_probs=9.3
Q ss_pred HHHHHHHHhcCCCceEEEE
Q psy12591 91 YDDIVLKLLTKPRARGLFK 109 (144)
Q Consensus 91 ~~~~l~~lk~~~~arvii~ 109 (144)
....+++++ ..+..+|++
T Consensus 71 ~~~~~~~~~-~~giPvV~~ 88 (303)
T cd01539 71 AQTVINKAK-QKNIPVIFF 88 (303)
T ss_pred HHHHHHHHH-HCCCCEEEe
Confidence 345666676 344444443
No 253
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=58.14 E-value=57 Score=30.39 Aligned_cols=80 Identities=21% Similarity=0.211 Sum_probs=58.2
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.++++.++. =++|+.++.+|...++.+...|++.|+.+... ..+ .. ...+.+.+ +...+++|..
T Consensus 316 ~~L~~ll~~l~~--~~IVFv~t~~~~~~a~~l~~~L~~~g~~a~~l---hg~-----~~--~~~l~~Fr-~G~~~vLVat 382 (1171)
T TIGR01054 316 ETLLEIVKKLGT--GGIVYVSIDYGKEKAEEIAEFLENHGVKAVAY---HAT-----KP--KEDYEKFA-EGEIDVLIGV 382 (1171)
T ss_pred HHHHHHHHHcCC--CEEEEEeccccHHHHHHHHHHHHhCCceEEEE---eCC-----CC--HHHHHHHH-cCCCCEEEEe
Confidence 457788887763 46888888899999999999999999875432 211 11 25778888 6777787775
Q ss_pred e--EEeeeCCcchhh
Q psy12591 111 L--KLVKDSGVAEET 123 (144)
Q Consensus 111 ~--~~~~~~g~~~~~ 123 (144)
. +.+.+.|+|...
T Consensus 383 a~~tdv~aRGIDip~ 397 (1171)
T TIGR01054 383 ASYYGTLVRGLDLPE 397 (1171)
T ss_pred ccccCcccccCCCCc
Confidence 4 457889998765
No 254
>TIGR02133 RPI_actino ribose 5-phosphate isomerase. This family is a member of the RpiB/LacA/LacB subfamily (TIGR00689) but lies outside the RpiB equivalog (TIGR01120) which is also a member of that subfamily. Ribose 5-phosphate isomerase is an essential enzyme of the pentose phosphate pathway; a pathway that appears to be present in the actinobacteria. The only candidates for ribose 5-phosphate isomerase in the Actinobacteria are members of this family.
Probab=58.06 E-value=61 Score=22.55 Aligned_cols=65 Identities=11% Similarity=-0.052 Sum_probs=39.4
Q ss_pred EEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH-HHHHHhcCCCceEEEEeeEE
Q psy12591 48 IYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD-IVLKLLTKPRARGLFKRLKL 113 (144)
Q Consensus 48 i~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~-~l~~lk~~~~arvii~~~~~ 113 (144)
....|.-|....+.+.+.|+++|..|.-.-.+...+.+ +=.++.. .-+.+.+..-.+.|++|.+.
T Consensus 4 ~igsDhaG~~lK~~l~~~L~~~g~eV~D~G~~~~~~~~-dYpd~a~~va~~V~~~~~~~GIliCGtG 69 (148)
T TIGR02133 4 VLGHDHAGFEYKEALWLDLAAHEPEVCDVGVYDADDDD-DYPCFCIAAAEAVARDAADLGIVIGGSG 69 (148)
T ss_pred EEEeCchhHHHHHHHHHHHHHCCCEEEECCCCCCCCCC-CchHHHHHHHHHHhcCCCceEEEEcCCC
Confidence 34456678899999999999999888654433222111 1123433 33555534445788888764
No 255
>COG0758 Smf Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]
Probab=58.03 E-value=5.9 Score=31.57 Aligned_cols=74 Identities=19% Similarity=0.240 Sum_probs=50.1
Q ss_pred CCCceEEecC--CchHHHHHHHHHHHhCCCcEEEEEEEe--CCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhh
Q psy12591 15 RFEYFTRTIP--SDHHQVKAMVEIVKKLGWSYVSIIYEE--SNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETA 90 (144)
Q Consensus 15 ~~p~ffRt~p--~d~~~~~a~~~ll~~f~W~~Vaii~~~--~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~ 90 (144)
.||-.++-+. +.-...+.-++++.. ..++||.+. +.||......|.+.+.+.|+||+.- +-.+ -|
T Consensus 85 ~YP~~Lk~i~~pP~vLf~kGnl~ll~~---~~vaIVGsR~~S~~g~~~~~~~a~~L~~~g~~IvSG--lA~G------ID 153 (350)
T COG0758 85 DYPKLLKEINDPPPVLFYKGNLDLLEA---PSVAIVGSRKPSKYGLDYTRDLAEYLAQNGITIVSG--LARG------ID 153 (350)
T ss_pred cchHHHHhccCCCeEEEEecCHhHhcc---CceEEEeCCCCCHhHHHHHHHHHHHHHhCCeEEEec--Ccce------ec
Confidence 4776555543 333344445666655 789999876 5799999999999999999999754 3333 23
Q ss_pred HHHHHHHHh
Q psy12591 91 YDDIVLKLL 99 (144)
Q Consensus 91 ~~~~l~~lk 99 (144)
....-..|+
T Consensus 154 ~~AH~aaL~ 162 (350)
T COG0758 154 TEAHKAALN 162 (350)
T ss_pred HHHHHHHHH
Confidence 445555666
No 256
>smart00852 MoCF_biosynth Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor. The domain is presumed to bind molybdopterin. The structure of this domain is known, and it forms an alpha/beta structure. In the known structure of Gephyrin this domain mediates trimerisation.
Probab=58.02 E-value=49 Score=22.05 Aligned_cols=45 Identities=20% Similarity=0.160 Sum_probs=23.2
Q ss_pred HHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 59 FEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 59 ~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
...+.+.+++.|..+.....++.+ ...+.+.|.++. ..+++||..
T Consensus 20 ~~~l~~~l~~~G~~~~~~~~v~Dd-----~~~I~~~l~~~~--~~~dliitt 64 (135)
T smart00852 20 GPALAELLTELGIEVTRYVIVPDD-----KEAIKEALREAL--ERADLVITT 64 (135)
T ss_pred HHHHHHHHHHCCCeEEEEEEeCCC-----HHHHHHHHHHHH--hCCCEEEEc
Confidence 345555666666665554444422 445555555554 235555444
No 257
>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=57.95 E-value=69 Score=23.11 Aligned_cols=18 Identities=22% Similarity=0.348 Sum_probs=10.3
Q ss_pred HHHHHHHHHHhCCCcEEE
Q psy12591 29 QVKAMVEIVKKLGWSYVS 46 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~Va 46 (144)
....+.+.++.+||+-+.
T Consensus 17 ~~~~i~~~~~~~g~~~~~ 34 (266)
T cd06282 17 CVQGIQEEARAAGYSLLL 34 (266)
T ss_pred HHHHHHHHHHHCCCEEEE
Confidence 334555666777775443
No 258
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=57.90 E-value=82 Score=24.00 Aligned_cols=62 Identities=10% Similarity=0.090 Sum_probs=39.1
Q ss_pred cEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 43 SYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 43 ~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+.|+++.. .+.|+......+.+.+++.|.++..... .. +.......+..+. ..+++.||+..
T Consensus 65 ~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~~~~~~~---~~---~~~~~~~~~~~l~-~~~vdgiIi~~ 128 (342)
T PRK10014 65 GVIGLIVRDLSAPFYAELTAGLTEALEAQGRMVFLLQG---GK---DGEQLAQRFSTLL-NQGVDGVVIAG 128 (342)
T ss_pred CEEEEEeCCCccchHHHHHHHHHHHHHHcCCEEEEEeC---CC---CHHHHHHHHHHHH-hCCCCEEEEeC
Confidence 45787775 3567788888899999999977643321 11 1233445666666 45677777653
No 259
>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=57.83 E-value=58 Score=23.70 Aligned_cols=13 Identities=23% Similarity=0.197 Sum_probs=7.1
Q ss_pred HHHHHHHHhCCCc
Q psy12591 31 KAMVEIVKKLGWS 43 (144)
Q Consensus 31 ~a~~~ll~~f~W~ 43 (144)
..+...++.+||.
T Consensus 20 ~g~~~~~~~~g~~ 32 (275)
T cd06317 20 KAFQAAAEEDGVE 32 (275)
T ss_pred HHHHHHHHhcCCE
Confidence 3444455566765
No 260
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=57.59 E-value=39 Score=20.16 Aligned_cols=49 Identities=22% Similarity=0.224 Sum_probs=32.1
Q ss_pred HHHHHHHHHhCCCcEEEEEEEeCCcc----hHHHHHHHHHhhhCceEEEEEecc
Q psy12591 30 VKAMVEIVKKLGWSYVSIIYEESNYG----VKAFEELEVLLAKYSICIAIKEKL 79 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~Vaii~~~~~~g----~~~~~~~~~~l~~~Gi~V~~~~~~ 79 (144)
+--++..+.+++ .++.++...+... ......+.+.++++|+.+.....+
T Consensus 11 g~E~A~~l~~~g-~~vtli~~~~~~~~~~~~~~~~~~~~~l~~~gV~v~~~~~v 63 (80)
T PF00070_consen 11 GIELAEALAELG-KEVTLIERSDRLLPGFDPDAAKILEEYLRKRGVEVHTNTKV 63 (80)
T ss_dssp HHHHHHHHHHTT-SEEEEEESSSSSSTTSSHHHHHHHHHHHHHTTEEEEESEEE
T ss_pred HHHHHHHHHHhC-cEEEEEeccchhhhhcCHHHHHHHHHHHHHCCCEEEeCCEE
Confidence 344555566655 5777777655443 556777788888888888765544
No 261
>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=57.57 E-value=57 Score=23.66 Aligned_cols=21 Identities=14% Similarity=-0.004 Sum_probs=9.7
Q ss_pred CcchHHHHHHHHHhhhCceEE
Q psy12591 53 NYGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 53 ~~g~~~~~~~~~~l~~~Gi~V 73 (144)
.|+....+.+++.+++.|..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~ 32 (265)
T cd06291 12 PFFSELARAVEKELYKKGYKL 32 (265)
T ss_pred hhHHHHHHHHHHHHHHCCCeE
Confidence 344444444444444444443
No 262
>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=57.48 E-value=64 Score=23.42 Aligned_cols=51 Identities=16% Similarity=0.106 Sum_probs=34.7
Q ss_pred cCCchHHHHHHHHHHHhCCCcEEEEEEEeC--CcchHHHHHHHHHhhhCceEE
Q psy12591 23 IPSDHHQVKAMVEIVKKLGWSYVSIIYEES--NYGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 23 ~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~Gi~V 73 (144)
.++....+..+++.+..-|+++++++.... .......+.|.+.+++.|+.+
T Consensus 98 ~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~ 150 (270)
T cd06296 98 GATNWAGGLAATEHLLELGHRRIGFITGPPDLLCSRARLDGYRAALAEAGIPV 150 (270)
T ss_pred EeCcHHHHHHHHHHHHHcCCCcEEEEcCCCcchhHHHHHHHHHHHHHHcCCCC
Confidence 344455666777776667999999996533 234456788888888877643
No 263
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=57.46 E-value=74 Score=24.36 Aligned_cols=49 Identities=10% Similarity=0.040 Sum_probs=33.8
Q ss_pred CchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCceEE
Q psy12591 25 SDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 25 ~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~V 73 (144)
.+..-+..+++.|...|.++++++..... ....-.+.|.+.+++.|+.+
T Consensus 159 Dn~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~ 209 (343)
T PRK10727 159 DDRYGAWLATRHLIQQGHTRIGYLCSNHSISDAEDRLQGYYDALAESGIPA 209 (343)
T ss_pred CcHHHHHHHHHHHHHCCCccEEEEeCCccccchHHHHHHHHHHHHHCCCCC
Confidence 44444555667676779999999975432 33456678899999998754
No 264
>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=57.41 E-value=44 Score=24.19 Aligned_cols=15 Identities=20% Similarity=0.335 Sum_probs=8.4
Q ss_pred HHHHHHHHHhCCCcE
Q psy12591 30 VKAMVEIVKKLGWSY 44 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~ 44 (144)
...+.+.++.+||.-
T Consensus 18 ~~~i~~~~~~~g~~v 32 (268)
T cd06323 18 KDGAQKEAKELGYEL 32 (268)
T ss_pred HHHHHHHHHHcCceE
Confidence 345555566667543
No 265
>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=57.34 E-value=61 Score=23.49 Aligned_cols=51 Identities=14% Similarity=0.070 Sum_probs=34.7
Q ss_pred ecCCchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCceE
Q psy12591 22 TIPSDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSIC 72 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~ 72 (144)
...++...+..+++.+...|-++++++..... ........|.+.+++.|+.
T Consensus 91 V~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~ 143 (261)
T cd06272 91 VNVDNEKAMELAVLYLAEKGHKKIAYIGDLSLDRRQRKRFKGFLETCDENGIS 143 (261)
T ss_pred EEEChHHHHHHHHHHHHHcCchhEEEeecccccccHHHHHHHHHHHHHHcCCC
Confidence 34445555677777776679999999975433 2334567788888888863
No 266
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=57.23 E-value=72 Score=23.81 Aligned_cols=49 Identities=12% Similarity=0.142 Sum_probs=34.0
Q ss_pred CchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCceEE
Q psy12591 25 SDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 25 ~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~V 73 (144)
.+...+..+++.|...|-++|+++..... ......+.|.+.+++.|+.+
T Consensus 135 Dn~~~g~~a~~~l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~ 185 (309)
T PRK11041 135 DNLTAAFEAVNYLHELGHKRIACIAGPEEMPLCHYRLQGYVQALRRCGITV 185 (309)
T ss_pred CcHHHHHHHHHHHHHcCCceEEEEeCCccccchHHHHHHHHHHHHHcCCCC
Confidence 34445566667776679999999964432 23456788889998888765
No 267
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=57.07 E-value=75 Score=24.23 Aligned_cols=48 Identities=10% Similarity=0.061 Sum_probs=33.6
Q ss_pred hHHHHHHHHHHHhCCCcEEEEEEEe--CCcchHHHHHHHHHhhhCceEEE
Q psy12591 27 HHQVKAMVEIVKKLGWSYVSIIYEE--SNYGVKAFEELEVLLAKYSICIA 74 (144)
Q Consensus 27 ~~~~~a~~~ll~~f~W~~Vaii~~~--~~~g~~~~~~~~~~l~~~Gi~V~ 74 (144)
...+..+++.|...|-++++++... +..+....+.|.+.++++|+.+.
T Consensus 163 ~~~g~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~gi~~~ 212 (341)
T PRK10703 163 FEGGYLAGRYLIERGHRDIGVIPGPLERNTGAGRLAGFMKAMEEANIKVP 212 (341)
T ss_pred HHHHHHHHHHHHHCCCCcEEEEeCCccccchHHHHHHHHHHHHHcCCCCC
Confidence 3455677777766699999999643 23445567788889999997653
No 268
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=57.00 E-value=42 Score=21.40 Aligned_cols=68 Identities=16% Similarity=0.135 Sum_probs=37.5
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
...++.|+..| +.+.+++.++.. ..+.+.+.|+..|+.+...+-+.+. .-....|++- ..+.++.++-
T Consensus 20 ~e~l~~L~~~g-~~~~~lTNns~~---s~~~~~~~L~~~Gi~~~~~~i~ts~------~~~~~~l~~~--~~~~~v~vlG 87 (101)
T PF13344_consen 20 VEALDALRERG-KPVVFLTNNSSR---SREEYAKKLKKLGIPVDEDEIITSG------MAAAEYLKEH--KGGKKVYVLG 87 (101)
T ss_dssp HHHHHHHHHTT-SEEEEEES-SSS----HHHHHHHHHHTTTT--GGGEEEHH------HHHHHHHHHH--TTSSEEEEES
T ss_pred HHHHHHHHHcC-CCEEEEeCCCCC---CHHHHHHHHHhcCcCCCcCEEEChH------HHHHHHHHhc--CCCCEEEEEc
Confidence 34455555555 677777765433 4566777778889887654445433 2344555553 3567777654
No 269
>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=56.98 E-value=74 Score=23.17 Aligned_cols=52 Identities=8% Similarity=0.060 Sum_probs=36.6
Q ss_pred ecCCchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCceEE
Q psy12591 22 TIPSDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~V 73 (144)
..+.+...+..+++.|...|-++++++..... ......+.|.+.+++.|+.+
T Consensus 96 V~~d~~~~~~~~~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~~~~~~~ 149 (269)
T cd06293 96 VFCDNEQGGRLATRHLARAGHRRIAFVGGPDALISARERYAGYREALAEAHIPE 149 (269)
T ss_pred EEECCHHHHHHHHHHHHHCCCceEEEEecCcccccHHHHHHHHHHHHHHcCCCC
Confidence 44566667777788777779999999975433 23345678888888888643
No 270
>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=56.75 E-value=65 Score=25.32 Aligned_cols=71 Identities=14% Similarity=0.112 Sum_probs=44.8
Q ss_pred HHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 32 AMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 32 a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+.++++.++ +++.++++...+ ....+.+.+.|++.++.+. .|...+ +.+.+.+.+..++ ..+++.||...
T Consensus 14 ~l~~~~~~~~-~~~liv~d~~~~-~~~~~~l~~~L~~~~~~~~---~~~~~p---~~~~v~~~~~~~~-~~~~D~iIavG 84 (347)
T cd08172 14 ELGELLKRFG-KRPLIVTGPRSW-AAAKPYLPESLAAGEAFVL---RYDGEC---SEENIERLAAQAK-ENGADVIIGIG 84 (347)
T ss_pred HHHHHHHHhC-CeEEEEECHHHH-HHHHHHHHHHHhcCeEEEE---EeCCCC---CHHHHHHHHHHHH-hcCCCEEEEeC
Confidence 3445666664 788888765544 3566777777755555432 222222 3678888888888 56788887654
No 271
>PRK13805 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional
Probab=56.65 E-value=65 Score=28.81 Aligned_cols=68 Identities=6% Similarity=-0.021 Sum_probs=49.5
Q ss_pred CCcEEEEEEEeCCcchHHHHHHHHHhh--hCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 41 GWSYVSIIYEESNYGVKAFEELEVLLA--KYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 41 ~W~~Vaii~~~~~~g~~~~~~~~~~l~--~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
+.+++-++++...+..+..+.+.+.|+ ..|+.+.....+.+++ +.+...+.+..++ ..+++.||....
T Consensus 479 ~~~~~lvVtd~~~~~~g~~~~v~~~L~~~~~~i~~~~~~~v~~np---~~~~v~~~~~~~~-~~~~D~IIaiGG 548 (862)
T PRK13805 479 GKKRAFIVTDRFMVELGYVDKVTDVLKKRENGVEYEVFSEVEPDP---TLSTVRKGAELMR-SFKPDTIIALGG 548 (862)
T ss_pred CCCEEEEEECcchhhcchHHHHHHHHhcccCCCeEEEeCCCCCCc---CHHHHHHHHHHHH-hcCCCEEEEeCC
Confidence 668888887654444447778888888 7788776555666665 3677888888888 678899887764
No 272
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=56.57 E-value=85 Score=23.75 Aligned_cols=62 Identities=15% Similarity=0.063 Sum_probs=39.4
Q ss_pred CcEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 42 WSYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 42 W~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
-..|+++.. .+.|+....+.+++.+++.|+.+..... ... .......+..+. ..+++.||+.
T Consensus 61 ~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~~~~--~~~----~~~~~~~~~~l~-~~~vdgiIi~ 124 (328)
T PRK11303 61 TRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLIACS--DDQ----PDNEMRCAEHLL-QRQVDALIVS 124 (328)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEEeC--CCC----HHHHHHHHHHHH-HcCCCEEEEc
Confidence 346888764 3567778888999999999988765422 111 222334566665 4567777764
No 273
>cd08195 DHQS Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway, which involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds, is found in bacteria, microbial eukaryotes, and plants, but not in mammals. Therefore, enzymes of this pathway are attractive targets for the development of non-toxic antimicrobial compounds, herbicides and anti-parasitic agents. The activity of DHQS requires nicotinamide adenine dinucleotide (NAD) as cofactor. A single active site in DHQS catalyzes five sequential reactions involving alcohol oxidation, phosphate elimination, carbonyl reduction, ring opening, and intramolecular aldol
Probab=56.36 E-value=97 Score=24.33 Aligned_cols=69 Identities=12% Similarity=0.034 Sum_probs=43.4
Q ss_pred CCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCc---eEEEEee
Q psy12591 40 LGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRA---RGLFKRL 111 (144)
Q Consensus 40 f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~a---rvii~~~ 111 (144)
.+.+++.++++...+ ....+.+.+.+++.|+.+... .++.+...++.+.+.+.+..++ ..+. +.||...
T Consensus 22 ~~~~~~livtd~~~~-~~~~~~l~~~L~~~g~~~~~~-~~~~~e~~~~~~~v~~~~~~~~-~~~~~r~d~IIaiG 93 (345)
T cd08195 22 PKGSKILIVTDENVA-PLYLEKLKAALEAAGFEVEVI-VIPAGEASKSLETLEKLYDALL-EAGLDRKSLIIALG 93 (345)
T ss_pred cCCCeEEEEECCchH-HHHHHHHHHHHHhcCCceEEE-EeCCCCCcCCHHHHHHHHHHHH-HcCCCCCCeEEEEC
Confidence 456888888754444 367788889999888665432 2333221124677888888887 3333 6777654
No 274
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=56.36 E-value=59 Score=21.90 Aligned_cols=82 Identities=15% Similarity=0.081 Sum_probs=45.5
Q ss_pred hHHHHHHHHHHHhCCCcEEEEEEEeCCcc----hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCC
Q psy12591 27 HHQVKAMVEIVKKLGWSYVSIIYEESNYG----VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKP 102 (144)
Q Consensus 27 ~~~~~a~~~ll~~f~W~~Vaii~~~~~~g----~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~ 102 (144)
..|-..+-++.+..||.-+.+..++...| +...+.+.+.++...+.+.....+..-.- +..++...+..+....
T Consensus 21 e~Q~~~l~~~a~~~g~~i~~~~~D~~~SG~~~~Rp~l~~ll~~~~~g~vd~vvv~~ldRl~R--~~~d~~~~~~~l~~~~ 98 (140)
T cd03770 21 ENQKAILEEYAKENGLENIRHYIDDGFSGTTFDRPGFNRMIEDIEAGKIDIVIVKDMSRLGR--NYLKVGLYMEILFPKK 98 (140)
T ss_pred HHHHHHHHHHHHHCCCEEEEEEEcCCCcCCcCCCHHHHHHHHHHHcCCCCEEEEeccchhcc--CHHHHHHHHHHHHhhc
Confidence 34556666777888998666544332233 44455555555555344333333433221 1456666777777323
Q ss_pred CceEEEEe
Q psy12591 103 RARGLFKR 110 (144)
Q Consensus 103 ~arvii~~ 110 (144)
+.+++.+-
T Consensus 99 gv~l~~~~ 106 (140)
T cd03770 99 GVRFIAIN 106 (140)
T ss_pred CcEEEEec
Confidence 78887765
No 275
>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=56.34 E-value=71 Score=23.11 Aligned_cols=13 Identities=8% Similarity=0.228 Sum_probs=6.5
Q ss_pred HHHHHHHHhCCCc
Q psy12591 31 KAMVEIVKKLGWS 43 (144)
Q Consensus 31 ~a~~~ll~~f~W~ 43 (144)
..+.+.++.+||+
T Consensus 20 ~~i~~~~~~~g~~ 32 (269)
T cd06288 20 LGAQDAAREHGYL 32 (269)
T ss_pred HHHHHHHHHCCCE
Confidence 3444445555654
No 276
>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=56.29 E-value=60 Score=23.41 Aligned_cols=15 Identities=13% Similarity=0.341 Sum_probs=9.4
Q ss_pred HHHHHHHHHhCCCcE
Q psy12591 30 VKAMVEIVKKLGWSY 44 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~ 44 (144)
...+.+.++.+||+-
T Consensus 18 ~~~i~~~~~~~g~~~ 32 (266)
T cd06278 18 LEALSRALQARGYQP 32 (266)
T ss_pred HHHHHHHHHHCCCeE
Confidence 345556677778753
No 277
>PRK09526 lacI lac repressor; Reviewed
Probab=56.24 E-value=88 Score=23.83 Aligned_cols=62 Identities=11% Similarity=0.105 Sum_probs=38.0
Q ss_pred cEEEEEEEe--CCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 43 SYVSIIYEE--SNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 43 ~~Vaii~~~--~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
+.|+++..+ +.|.....+.+++.+++.|..+..... .... .......+..+. ..+.+.||+.
T Consensus 64 ~~Igvv~~~~~~~~~~~~~~gi~~~a~~~g~~~~i~~~-~~~~----~~~~~~~l~~l~-~~~vdGiii~ 127 (342)
T PRK09526 64 LTIGLATTSLALHAPSQIAAAIKSRADQLGYSVVISMV-ERSG----VEACQAAVNELL-AQRVSGVIIN 127 (342)
T ss_pred ceEEEEeCCCCcccHHHHHHHHHHHHHHCCCEEEEEeC-CCCh----HHHHHHHHHHHH-hcCCCEEEEe
Confidence 357877643 345567788888888889987765321 1111 123345666676 4667777764
No 278
>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=56.12 E-value=51 Score=24.00 Aligned_cols=49 Identities=12% Similarity=0.055 Sum_probs=32.9
Q ss_pred CchHHHHHHHHHHHhCCCcEEEEEEEeCCc--chHHHHHHHHHhhhCceEE
Q psy12591 25 SDHHQVKAMVEIVKKLGWSYVSIIYEESNY--GVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 25 ~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~--g~~~~~~~~~~l~~~Gi~V 73 (144)
+....+..+++.+...|.++++++...... .....+.|.+.+++.|+.+
T Consensus 101 d~~~~~~~a~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~ 151 (268)
T cd06277 101 DNYSGAYAATEYLIEKGHRKIGFVGDPLYSPSFEERYEGYKKALLDHGIPF 151 (268)
T ss_pred cchHHHHHHHHHHHHCCCCcEEEECCCCCCcchHHHHHHHHHHHHHcCCCC
Confidence 334444556667767799999999755432 2345677888888888654
No 279
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=55.92 E-value=96 Score=24.18 Aligned_cols=52 Identities=15% Similarity=0.094 Sum_probs=41.2
Q ss_pred ecCCchHHHHHHHHHHHhCCCcEEEEEEEe--CCcchHHHHHHHHHhhhCceEE
Q psy12591 22 TIPSDHHQVKAMVEIVKKLGWSYVSIIYEE--SNYGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f~W~~Vaii~~~--~~~g~~~~~~~~~~l~~~Gi~V 73 (144)
...++..-+..+++.|...|-++++++... ...+..-.+.|.+.+++.|+..
T Consensus 155 V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~ 208 (333)
T COG1609 155 VGIDNFAGAYLATEHLIELGHRRIAFIGGPLDSSASRERLEGYRAALREAGLPI 208 (333)
T ss_pred EEEChHHHHHHHHHHHHHCCCceEEEEeCCCccccHhHHHHHHHHHHHHCCCCC
Confidence 445556666788888888999999999875 3455677899999999999875
No 280
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=55.77 E-value=91 Score=23.87 Aligned_cols=62 Identities=11% Similarity=0.137 Sum_probs=38.8
Q ss_pred cEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 43 SYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 43 ~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+.|+++.. .+.|.....+.+++.+++.|..+...... .+ .......+..+. ..+++.+|+..
T Consensus 60 ~~Igvi~~~~~~~f~~~~~~gi~~~~~~~g~~~~~~~~~-~~-----~~~~~~~i~~l~-~~~vdgiIi~~ 123 (343)
T PRK10727 60 ETVGLVVGDVSDPFFGAMVKAVEQVAYHTGNFLLIGNGY-HN-----EQKERQAIEQLI-RHRCAALVVHA 123 (343)
T ss_pred CeEEEEeCCCCcchHHHHHHHHHHHHHHcCCEEEEEeCC-CC-----HHHHHHHHHHHH-hcCCCEEEEec
Confidence 45777764 35677888888999999999876543221 11 222334555665 45677777653
No 281
>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=55.77 E-value=65 Score=23.51 Aligned_cols=9 Identities=33% Similarity=0.254 Sum_probs=4.2
Q ss_pred HHHHHHHHh
Q psy12591 31 KAMVEIVKK 39 (144)
Q Consensus 31 ~a~~~ll~~ 39 (144)
..+.+.++.
T Consensus 19 ~gi~~~~~~ 27 (271)
T cd06321 19 KGAEAAAKK 27 (271)
T ss_pred HHHHHHHHH
Confidence 344444555
No 282
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=55.66 E-value=87 Score=23.60 Aligned_cols=73 Identities=10% Similarity=0.044 Sum_probs=41.8
Q ss_pred HHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEe-cccCCCCCcchhhHHHHHHHHhcCCCceEE
Q psy12591 29 QVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKE-KLVKDSGVAEETAYDDIVLKLLTKPRARGL 107 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~-~~~~~~~~~~~~~~~~~l~~lk~~~~arvi 107 (144)
....+++.....+ .+|.++.....-.....+.+++.. |+.|+... .+. + .++-..++.+|. .++++++
T Consensus 93 l~~~ll~~~~~~~-~~v~llG~~~~v~~~a~~~l~~~y---~l~i~g~~~Gyf-~-----~~e~~~i~~~I~-~s~~dil 161 (243)
T PRK03692 93 LWEALMARAGKEG-TPVFLVGGKPEVLAQTEAKLRTQW---NVNIVGSQDGYF-T-----PEQRQALFERIH-ASGAKIV 161 (243)
T ss_pred HHHHHHHHHHhcC-CeEEEECCCHHHHHHHHHHHHHHh---CCEEEEEeCCCC-C-----HHHHHHHHHHHH-hcCCCEE
Confidence 3444555555556 467777655443334444444432 66665322 222 1 234456889998 7899999
Q ss_pred EEeeE
Q psy12591 108 FKRLK 112 (144)
Q Consensus 108 i~~~~ 112 (144)
++-..
T Consensus 162 ~VglG 166 (243)
T PRK03692 162 TVAMG 166 (243)
T ss_pred EEECC
Confidence 88653
No 283
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=55.63 E-value=58 Score=24.74 Aligned_cols=61 Identities=13% Similarity=-0.014 Sum_probs=28.8
Q ss_pred EEEEEEeC-CcchHHHHHHHHHhhhCceEE---EEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 45 VSIIYEES-NYGVKAFEELEVLLAKYSICI---AIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 45 Vaii~~~~-~~g~~~~~~~~~~l~~~Gi~V---~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
|+|+..-+ +.-....+.|++.|++.|+.. .+.. ..... +...+..++++|+ ..+.++|+..
T Consensus 2 v~i~~~~~~~~~~~~~~gf~~~L~~~g~~~~~~~~~~-~~a~~---d~~~~~~~~~~l~-~~~~DlIi~~ 66 (294)
T PF04392_consen 2 VGILQFISHPALDDIVRGFKDGLKELGYDEKNVEIEY-KNAEG---DPEKLRQIARKLK-AQKPDLIIAI 66 (294)
T ss_dssp EEEEESS--HHHHHHHHHHHHHHHHTT--CCCEEEEE-EE-TT----HHHHHHHHHHHC-CTS-SEEEEE
T ss_pred eEEEEEeccHHHHHHHHHHHHHHHHcCCccccEEEEE-ecCCC---CHHHHHHHHHHHh-cCCCCEEEEe
Confidence 45554322 222345666777777766543 2211 11111 2455666666676 5667776655
No 284
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=55.19 E-value=56 Score=24.50 Aligned_cols=12 Identities=42% Similarity=0.437 Sum_probs=7.6
Q ss_pred HHHHHHHHhCCC
Q psy12591 31 KAMVEIVKKLGW 42 (144)
Q Consensus 31 ~a~~~ll~~f~W 42 (144)
..+.+.++.+||
T Consensus 18 ~gi~~~a~~~g~ 29 (302)
T TIGR02637 18 KGAEEAAKELGS 29 (302)
T ss_pred HHHHHHHHHhCC
Confidence 445556677786
No 285
>COG3946 VirJ Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]
Probab=54.98 E-value=54 Score=26.96 Aligned_cols=71 Identities=10% Similarity=-0.011 Sum_probs=49.4
Q ss_pred CCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEeccc--CCCCCc--chhhHHHHHHHHhcCCCceEEEEee
Q psy12591 41 GWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLV--KDSGVA--EETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 41 ~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~--~~~~~~--~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+-..++++|+.|.-|++.=+.+.+.|.++|+.|+-..... -...++ -..|++++++.-....+++-+++..
T Consensus 258 ~sd~~av~~SGDGGWr~lDk~v~~~l~~~gvpVvGvdsLRYfW~~rtPe~~a~Dl~r~i~~y~~~w~~~~~~liG 332 (456)
T COG3946 258 NSDTVAVFYSGDGGWRDLDKEVAEALQKQGVPVVGVDSLRYFWSERTPEQIAADLSRLIRFYARRWGAKRVLLIG 332 (456)
T ss_pred CcceEEEEEecCCchhhhhHHHHHHHHHCCCceeeeehhhhhhccCCHHHHHHHHHHHHHHHHHhhCcceEEEEe
Confidence 3678999999999999999999999999999988765431 111101 2456777776666446666555543
No 286
>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=54.96 E-value=57 Score=21.31 Aligned_cols=78 Identities=14% Similarity=0.104 Sum_probs=46.0
Q ss_pred hHHHHHHHHHHHhCCCcEEEEEEEeCCcc-----hHHHHHHHHHhhhCceEEEEEe---cccCCCCCcchhhHHHHHHHH
Q psy12591 27 HHQVKAMVEIVKKLGWSYVSIIYEESNYG-----VKAFEELEVLLAKYSICIAIKE---KLVKDSGVAEETAYDDIVLKL 98 (144)
Q Consensus 27 ~~~~~a~~~ll~~f~W~~Vaii~~~~~~g-----~~~~~~~~~~l~~~Gi~V~~~~---~~~~~~~~~~~~~~~~~l~~l 98 (144)
..|-..+-+++...||.-+.++.+...-+ +...+.+.+.++...+.+.... .+..+ ..+....+..|
T Consensus 17 ~~Q~~~~~~~a~~~g~~i~~~~~d~~~s~~~~~~R~~~~~ll~~~~~~~~d~ivv~~~~Rl~R~-----~~~~~~~~~~l 91 (137)
T cd00338 17 ERQREALREYAARNGLEVVGEYEDAGSSATSLVDRPGLQRLLADVKAGKIDVVLVEKLDRLSRN-----LVDLLELLELL 91 (137)
T ss_pred HHHHHHHHHHHHHCCCEEEEEEEeCCCCcccccCCHHHHHHHHHHHcCCCCEEEEEecchhhCC-----HHHHHHHHHHH
Confidence 35667777788778998777666544333 3344555555554333333333 34333 34566777778
Q ss_pred hcCCCceEEEEe
Q psy12591 99 LTKPRARGLFKR 110 (144)
Q Consensus 99 k~~~~arvii~~ 110 (144)
+ ..+.+++++-
T Consensus 92 ~-~~gi~l~~~~ 102 (137)
T cd00338 92 E-AHGVRVVTAD 102 (137)
T ss_pred H-HCCCEEEEec
Confidence 7 5678887776
No 287
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=54.65 E-value=60 Score=23.68 Aligned_cols=15 Identities=27% Similarity=0.457 Sum_probs=8.3
Q ss_pred HHHHHHHHhCCCcEE
Q psy12591 31 KAMVEIVKKLGWSYV 45 (144)
Q Consensus 31 ~a~~~ll~~f~W~~V 45 (144)
..+.+.++..|++-+
T Consensus 19 ~~i~~~~~~~g~~~~ 33 (277)
T cd06319 19 RGVKSKAKALGYDAV 33 (277)
T ss_pred HHHHHHHHhcCCeEE
Confidence 444455666676543
No 288
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=54.49 E-value=47 Score=25.14 Aligned_cols=14 Identities=21% Similarity=0.271 Sum_probs=8.2
Q ss_pred HHHHHHHHhCCCcE
Q psy12591 31 KAMVEIVKKLGWSY 44 (144)
Q Consensus 31 ~a~~~ll~~f~W~~ 44 (144)
..+-+.++.+||+-
T Consensus 18 ~~i~~~a~~~g~~v 31 (302)
T TIGR02634 18 DIFVAAAESLGAKV 31 (302)
T ss_pred HHHHHHHHhcCCEE
Confidence 34555666777743
No 289
>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=54.44 E-value=82 Score=22.93 Aligned_cols=49 Identities=10% Similarity=0.119 Sum_probs=34.2
Q ss_pred cCCchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCce
Q psy12591 23 IPSDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSI 71 (144)
Q Consensus 23 ~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi 71 (144)
..++...+..+++.|...|-++++++....+ ......+.|.+.++++|+
T Consensus 103 ~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~ 153 (273)
T cd06292 103 STDDALAMRLAVRHLVALGHRRIGFASGPGRTVPRRRKIAGFRAALEEAGL 153 (273)
T ss_pred EECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHHHcCC
Confidence 3344556667777776779999999975432 234557788888888885
No 290
>TIGR00200 cinA_nterm competence/damage-inducible protein CinA N-terminal domain. cinA is a DNA damage- or competence-inducible protein that is polycistronic with recA in a number of species
Probab=54.42 E-value=86 Score=25.63 Aligned_cols=61 Identities=16% Similarity=0.091 Sum_probs=40.1
Q ss_pred EEEEEEEeCCc--ch---HHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 44 YVSIIYEESNY--GV---KAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 44 ~Vaii~~~~~~--g~---~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+++||...++- |+ .....+.+.+++.|+.+.....++++ ...+.+.|.++. .++++||+..
T Consensus 2 ~v~Ii~tGdEll~G~i~dtN~~~l~~~L~~~G~~v~~~~~v~Dd-----~~~i~~~l~~a~--~~~DlVIttG 67 (413)
T TIGR00200 2 KAEIISVGDELLLGQIVNTNAQWLADFLAHQGLPLSRRTTVGDN-----PERLKTIIRIAS--ERADVLIFNG 67 (413)
T ss_pred EEEEEEECccccCCcEEEchHHHHHHHHHHCCCeEEEEEEeCCC-----HHHHHHHHHHHh--cCCCEEEEcC
Confidence 45666555432 21 24567788888899988877777654 456777777665 4577887764
No 291
>PRK05571 ribose-5-phosphate isomerase B; Provisional
Probab=54.25 E-value=72 Score=22.22 Aligned_cols=64 Identities=14% Similarity=0.048 Sum_probs=39.8
Q ss_pred EEEeCCcchHHHHHHHHHhhhCceEEEEEecccCC-CCCcchhhHHH-HHHHHhcCCCceEEEEeeEE
Q psy12591 48 IYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKD-SGVAEETAYDD-IVLKLLTKPRARGLFKRLKL 113 (144)
Q Consensus 48 i~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~-~~~~~~~~~~~-~l~~lk~~~~arvii~~~~~ 113 (144)
....|.-|..+.+.+.+.|+++|..|.-.-..... +. +=.++.. .-+.+.+....|.|++|.+.
T Consensus 4 ~igsDhaG~~lK~~l~~~L~~~g~eV~D~G~~~~~~~~--dYpd~a~~va~~V~~g~~~~GIliCGtG 69 (148)
T PRK05571 4 AIGSDHAGFELKEEIIEHLEELGHEVIDLGPDSYDASV--DYPDYAKKVAEAVVAGEADRGILICGTG 69 (148)
T ss_pred EEEeCCchHHHHHHHHHHHHHCCCEEEEcCCCCCCCCC--CHHHHHHHHHHHHHcCCCCEEEEEcCCc
Confidence 34456678899999999999999988654333322 11 1123433 33455544556888888774
No 292
>COG2240 PdxK Pyridoxal/pyridoxine/pyridoxamine kinase [Coenzyme metabolism]
Probab=54.24 E-value=65 Score=24.98 Aligned_cols=86 Identities=16% Similarity=0.179 Sum_probs=52.0
Q ss_pred HHHHHHHhCCCcEEEE---EEEe-CCcchH--------HHHHHHHHhhhCce----EEEEEecccCCCCCcchhhHHHHH
Q psy12591 32 AMVEIVKKLGWSYVSI---IYEE-SNYGVK--------AFEELEVLLAKYSI----CIAIKEKLVKDSGVAEETAYDDIV 95 (144)
Q Consensus 32 a~~~ll~~f~W~~Vai---i~~~-~~~g~~--------~~~~~~~~l~~~Gi----~V~~~~~~~~~~~~~~~~~~~~~l 95 (144)
+.+=.|+.+||.-.++ +.+| ..||.. -...+.+.+.+.+. .-.++-.+.... .-.-+.+.+
T Consensus 19 AA~f~lq~~G~~V~~vpTV~fSnHtgyg~~~g~v~~~e~l~~~l~~l~~~~~~~~~davltGYlgs~~---qv~~i~~~v 95 (281)
T COG2240 19 AAIFPLQRLGLDVWAVPTVQFSNHTGYGKWTGIVMPPEQLADLLNGLEAIDKLGECDAVLTGYLGSAE---QVRAIAGIV 95 (281)
T ss_pred hHHHHHHHcCCceeeeceEEecCCCCCCCCCCcCCCHHHHHHHHHHHHhcccccccCEEEEccCCCHH---HHHHHHHHH
Confidence 4444679999988775 3444 356641 22333333444222 223344444332 234566788
Q ss_pred HHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 96 LKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 96 ~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
.++| ..++++++++.-.++++| .+.
T Consensus 96 ~~vk-~~~P~~~~l~DPVMGD~g-glY 120 (281)
T COG2240 96 KAVK-EANPNALYLCDPVMGDPG-GLY 120 (281)
T ss_pred HHHh-ccCCCeEEEeCCcccCCC-cee
Confidence 8998 678999999999988888 553
No 293
>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=54.01 E-value=64 Score=21.60 Aligned_cols=104 Identities=12% Similarity=0.091 Sum_probs=61.0
Q ss_pred CchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhc-CCC
Q psy12591 25 SDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLT-KPR 103 (144)
Q Consensus 25 ~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~-~~~ 103 (144)
...-.+.+++..+..-|+.+|.++..+ --....+.+...++..|..+...+ .... +.++.++.++.+.+ ...
T Consensus 8 a~~giG~~~a~~l~~~g~~~v~~~~r~--~~~~~~~~l~~~l~~~~~~~~~~~-~D~~----~~~~~~~~~~~~~~~~~~ 80 (167)
T PF00106_consen 8 ASSGIGRALARALARRGARVVILTSRS--EDSEGAQELIQELKAPGAKITFIE-CDLS----DPESIRALIEEVIKRFGP 80 (167)
T ss_dssp TTSHHHHHHHHHHHHTTTEEEEEEESS--CHHHHHHHHHHHHHHTTSEEEEEE-SETT----SHHHHHHHHHHHHHHHSS
T ss_pred CCCHHHHHHHHHHHhcCceEEEEeeec--cccccccccccccccccccccccc-cccc----cccccccccccccccccc
Confidence 445678888886555488787777655 112345566666777776555443 3222 36788888888873 245
Q ss_pred ceEEEEeeEEeeeCCcchh---hhhHHHHHHHhcCc
Q psy12591 104 ARGLFKRLKLVKDSGVAEE---TAYDDIVLKLLTKP 136 (144)
Q Consensus 104 arvii~~~~~~~~~g~~~~---~~~~~~~~~~~~~~ 136 (144)
-+++|.+..... .+...+ ..+..+...|.+.|
T Consensus 81 ld~li~~ag~~~-~~~~~~~~~~~~~~~~~~n~~~~ 115 (167)
T PF00106_consen 81 LDILINNAGIFS-DGSLDDLSEEELERVFRVNLFGP 115 (167)
T ss_dssp ESEEEEECSCTT-SBSGGGSHHHHHHHHHHHHTHHH
T ss_pred cccccccccccc-ccccccccchhhhhcccccccee
Confidence 667777765554 333333 33445555554443
No 294
>cd08511 PBP2_NikA_DppA_OppA_like_5 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This family represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is mos
Probab=53.97 E-value=52 Score=26.53 Aligned_cols=46 Identities=7% Similarity=0.167 Sum_probs=35.0
Q ss_pred HHHHHHHHhCCCc--EEEEEEEeCCcchHHHHHHHHHhhhCceEEEEE
Q psy12591 31 KAMVEIVKKLGWS--YVSIIYEESNYGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 31 ~a~~~ll~~f~W~--~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
+...++|..-||+ .+.+++.++......++.+++.+++.|+.+...
T Consensus 305 ~~A~~lL~~aG~~~~~l~i~~~~~~~~~~~a~~i~~~l~~~Gi~v~i~ 352 (467)
T cd08511 305 AKAKALLAEAGVPTVTFELTTANTPTGRQLAQVIQAMAAEAGFTVKLR 352 (467)
T ss_pred HHHHHHHHHcCCCCceEEEEecCCCchhHHHHHHHHHHHhcCcEeEEE
Confidence 4455677888997 677777655555778999999999999987654
No 295
>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=53.88 E-value=61 Score=24.46 Aligned_cols=12 Identities=25% Similarity=0.274 Sum_probs=6.7
Q ss_pred HHHHHHHhCCCc
Q psy12591 32 AMVEIVKKLGWS 43 (144)
Q Consensus 32 a~~~ll~~f~W~ 43 (144)
.+-+.++..|++
T Consensus 21 gi~~~~~~~g~~ 32 (305)
T cd06324 21 FMQAAADDLGIE 32 (305)
T ss_pred HHHHHHHhcCCe
Confidence 344455666775
No 296
>cd08169 DHQ-like Dehydroquinate synthase-like which includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. Dehydroquinate synthase-like. This group contains dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. They exhibit the dehydroquinate synthase structural fold. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-Deoxystreptamine (DOS)-containing aminoglycoside antibiotics includes ne
Probab=53.28 E-value=1.1e+02 Score=24.12 Aligned_cols=75 Identities=9% Similarity=-0.003 Sum_probs=44.8
Q ss_pred HHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhh-CceEEEEEecccCCCCCcchhhHHHHHHHHhc--CCCceEEEE
Q psy12591 33 MVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAK-YSICIAIKEKLVKDSGVAEETAYDDIVLKLLT--KPRARGLFK 109 (144)
Q Consensus 33 ~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~-~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~--~~~arvii~ 109 (144)
+.++++.++-+++.++++..-+. ...+.+.+.++. .++.+........++ +.+.+.+.+..+++ ..+.+.||.
T Consensus 14 l~~~~~~~~~~k~livtd~~v~~-~~~~~v~~~L~~~~~~~~~~~~~~e~~k---~~~~v~~~~~~~~~~~~~r~d~IIa 89 (344)
T cd08169 14 VESYTTRDLFDQYFFISDSGVAD-LIAHYIAEYLSKILPVHILVIEGGEEYK---TFETVTRILERAIALGANRRTAIVA 89 (344)
T ss_pred HHHHHHhcCCCeEEEEECccHHH-HHHHHHHHHHHhhcCceEEEeCCCCCCC---CHHHHHHHHHHHHHcCCCCCcEEEE
Confidence 44566667778888877544333 566777777776 566543322333332 35667777777773 234667776
Q ss_pred ee
Q psy12591 110 RL 111 (144)
Q Consensus 110 ~~ 111 (144)
..
T Consensus 90 iG 91 (344)
T cd08169 90 VG 91 (344)
T ss_pred EC
Confidence 54
No 297
>PLN02522 ATP citrate (pro-S)-lyase
Probab=53.27 E-value=1.1e+02 Score=26.37 Aligned_cols=64 Identities=14% Similarity=0.087 Sum_probs=37.3
Q ss_pred cEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 43 SYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 43 ~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
-.|++|..... +...+...+.+.|+-+.....+-.+.. ...++.+.|..+.+.++.++|+++..
T Consensus 168 G~VgiVSqSGt----L~~ei~~~~~~~GlG~S~~VsiGnd~~--~g~~~~D~L~~~~~Dp~Tk~IvlygE 231 (608)
T PLN02522 168 GSVGFVSKSGG----MSNEMYNVIARVTDGIYEGIAIGGDVF--PGSTLSDHVLRFNNIPQIKMIVVLGE 231 (608)
T ss_pred CcEEEEeccHH----HHHHHHHHHHHcCCCeEEEEEeCCCCC--CCCCHHHHHHHHhcCCCCCEEEEEEe
Confidence 44666654332 234455566666655544444433221 13567888888876788888888873
No 298
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=53.26 E-value=70 Score=23.69 Aligned_cols=13 Identities=31% Similarity=0.808 Sum_probs=6.8
Q ss_pred HHHHHHHHhCCCc
Q psy12591 31 KAMVEIVKKLGWS 43 (144)
Q Consensus 31 ~a~~~ll~~f~W~ 43 (144)
..+.+-++..||+
T Consensus 20 ~gi~~~a~~~gy~ 32 (280)
T cd06315 20 EGVREAAKAIGWN 32 (280)
T ss_pred HHHHHHHHHcCcE
Confidence 3444445566664
No 299
>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria. They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.
Probab=53.14 E-value=76 Score=24.51 Aligned_cols=9 Identities=11% Similarity=0.401 Sum_probs=3.9
Q ss_pred CCceEEEEe
Q psy12591 102 PRARGLFKR 110 (144)
Q Consensus 102 ~~arvii~~ 110 (144)
+..++||++
T Consensus 61 p~mKaIVv~ 69 (275)
T PF12683_consen 61 PDMKAIVVS 69 (275)
T ss_dssp TTEEEEEEE
T ss_pred CCccEEEEe
Confidence 444444443
No 300
>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain. Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.
Probab=53.06 E-value=99 Score=25.38 Aligned_cols=50 Identities=14% Similarity=0.147 Sum_probs=32.4
Q ss_pred HHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 59 FEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 59 ~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
...+...+.++|+-+.+....-+.. +.++.+.|.-+.+.++.++|++|..
T Consensus 163 ~~~~~~~~~~~g~g~s~~vs~Gn~~----d~~~~d~l~~l~~D~~t~~I~ly~E 212 (447)
T TIGR02717 163 LTALLDWAEKNGVGFSYFVSLGNKA----DIDESDLLEYLADDPDTKVILLYLE 212 (447)
T ss_pred HHHHHHHHHhcCCCcceEEECCchh----hCCHHHHHHHHhhCCCCCEEEEEec
Confidence 3445566667777666555454332 4567777777776678888888864
No 301
>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=52.69 E-value=78 Score=22.16 Aligned_cols=89 Identities=7% Similarity=-0.126 Sum_probs=48.0
Q ss_pred chHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCce
Q psy12591 26 DHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRAR 105 (144)
Q Consensus 26 d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~ar 105 (144)
....+..+++.|..-+..++.++.... -.........+.+++.|..|.+.. .... +.+++.+.+.+++. ...+
T Consensus 9 ~gglg~~la~~La~~~~~~~il~~r~~-~~~~~~~~~i~~l~~~g~~v~~~~-~Dv~----d~~~v~~~~~~~~~-~~~~ 81 (181)
T PF08659_consen 9 LGGLGQSLARWLAERGARRLILLGRSG-APSAEAEAAIRELESAGARVEYVQ-CDVT----DPEAVAAALAQLRQ-RFGP 81 (181)
T ss_dssp TSHHHHHHHHHHHHTT-SEEEEEESSG-GGSTTHHHHHHHHHHTT-EEEEEE---TT----SHHHHHHHHHTSHT-TSS-
T ss_pred ccHHHHHHHHHHHHcCCCEEEEeccCC-CccHHHHHHHHHHHhCCCceeeec-cCcc----CHHHHHHHHHHHHh-ccCC
Confidence 345677888877766788888776542 223344567777888898876543 2111 36788888888883 3334
Q ss_pred E-EEEeeEEeeeCCcch
Q psy12591 106 G-LFKRLKLVKDSGVAE 121 (144)
Q Consensus 106 v-ii~~~~~~~~~g~~~ 121 (144)
+ -|+++..+..++...
T Consensus 82 i~gVih~ag~~~~~~~~ 98 (181)
T PF08659_consen 82 IDGVIHAAGVLADAPIQ 98 (181)
T ss_dssp EEEEEE-------B-GC
T ss_pred cceeeeeeeeecccccc
Confidence 4 345555444444443
No 302
>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=52.53 E-value=87 Score=22.67 Aligned_cols=50 Identities=8% Similarity=0.013 Sum_probs=33.7
Q ss_pred CCchHHHHHHHHHHHhCCCcEEEEEEEeC--CcchHHHHHHHHHhhhCceEE
Q psy12591 24 PSDHHQVKAMVEIVKKLGWSYVSIIYEES--NYGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 24 p~d~~~~~a~~~ll~~f~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~Gi~V 73 (144)
.++...+..+++.|...|-++++++.... .......+.|.+.+.+.|+.+
T Consensus 97 ~d~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~ 148 (265)
T cd06290 97 VDNFQGGYLATQHLIDLGHRRIAHITGPRGHIDARDRLAGYRKALEEAGLEV 148 (265)
T ss_pred ECcHHHHHHHHHHHHHCCCCeEEEEeCccccchhhHHHHHHHHHHHHcCCCC
Confidence 34455556777766666999999997542 333456677888888887654
No 303
>PRK15138 aldehyde reductase; Provisional
Probab=52.50 E-value=72 Score=25.62 Aligned_cols=72 Identities=10% Similarity=0.016 Sum_probs=45.0
Q ss_pred HHHHHHhCCCcEEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 33 MVEIVKKLGWSYVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 33 ~~~ll~~f~W~~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+.++++. + +++.+++.+..+- .+..+.+.+.|+ |+.+.....+.+++ +.++..+.+...+ ..+++.||-..
T Consensus 22 l~~~l~~-~-~~~livt~~~~~~~~g~~~~v~~~L~--~~~~~~f~~v~~~p---~~~~v~~~~~~~~-~~~~D~IIaiG 93 (387)
T PRK15138 22 LREQIPA-D-ARVLITYGGGSVKKTGVLDQVLDALK--GMDVLEFGGIEPNP---TYETLMKAVKLVR-EEKITFLLAVG 93 (387)
T ss_pred HHHHHhc-C-CeEEEECCCchHHhcCcHHHHHHHhc--CCeEEEECCccCCC---CHHHHHHHHHHHH-HcCCCEEEEeC
Confidence 3445555 3 7777776543322 344566777774 66554444555554 3677888888888 57899998765
Q ss_pred E
Q psy12591 112 K 112 (144)
Q Consensus 112 ~ 112 (144)
.
T Consensus 94 G 94 (387)
T PRK15138 94 G 94 (387)
T ss_pred C
Confidence 3
No 304
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=51.82 E-value=1.1e+02 Score=23.51 Aligned_cols=62 Identities=6% Similarity=0.144 Sum_probs=39.6
Q ss_pred cEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 43 SYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 43 ~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+.|+++.. .+.|.....+.+.+.+++.|..+...... .+ .......+..+. ..+++.||+..
T Consensus 60 ~~Igvi~~~~~~~f~~~l~~gi~~~~~~~gy~~~~~~~~-~~-----~~~~~~~i~~l~-~~~vdGiIi~~ 123 (346)
T PRK10401 60 DTIGVVVMDVSDAFFGALVKAVDLVAQQHQKYVLIGNSY-HE-----AEKERHAIEVLI-RQRCNALIVHS 123 (346)
T ss_pred CEEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEcCC-CC-----hHHHHHHHHHHH-hcCCCEEEEeC
Confidence 36888865 35677888889999999999876543211 11 223345566666 46677777653
No 305
>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=51.60 E-value=93 Score=22.73 Aligned_cols=53 Identities=13% Similarity=0.161 Sum_probs=34.4
Q ss_pred ecCCchHHHHHHHHHHHhC--CCcEEEEEEEeCC-cchHHHHHHHHHhhhCceEEE
Q psy12591 22 TIPSDHHQVKAMVEIVKKL--GWSYVSIIYEESN-YGVKAFEELEVLLAKYSICIA 74 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f--~W~~Vaii~~~~~-~g~~~~~~~~~~l~~~Gi~V~ 74 (144)
..+.....+..+++++... +..+|+++..... ......+.|.+.+++.|+.+.
T Consensus 105 V~~d~~~~g~~aa~~l~~~~~g~~~i~~~~g~~~~~~~~R~~gf~~~l~~~~~~~~ 160 (274)
T cd06311 105 VAGDNYGMGRVAGEYIATKLGGNGNIVVLRGIPTPIDNERVDAFDAAIAKYPIKIL 160 (274)
T ss_pred EcCCcHHHHHHHHHHHHHHhCCCCeEEEEECCCCcchhHHHHHHHHHHhhCCcEEE
Confidence 3444445566677766544 7899999865332 233456778888888886654
No 306
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=51.54 E-value=1e+02 Score=23.05 Aligned_cols=62 Identities=11% Similarity=0.110 Sum_probs=38.6
Q ss_pred cEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 43 SYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 43 ~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+.|+++.. .+.|+....+.+++.+++.|+++..... ..+ ...-...+..+. ..+++.||+..
T Consensus 36 ~~ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~~~-----~~~~~~~i~~l~-~~~vDgiIi~~ 99 (309)
T PRK11041 36 RTILVIVPDICDPFFSEIIRGIEVTAAEHGYLVLIGDC-AHQ-----NQQEKTFVNLII-TKQIDGMLLLG 99 (309)
T ss_pred cEEEEEeCCCcCccHHHHHHHHHHHHHHCCCEEEEEeC-CCC-----hHHHHHHHHHHH-HcCCCEEEEec
Confidence 56787764 3567888888888999888887765321 111 222334555555 45677666653
No 307
>COG1448 TyrB Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]
Probab=51.23 E-value=1.3e+02 Score=24.44 Aligned_cols=72 Identities=6% Similarity=0.087 Sum_probs=45.4
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
+..+++++++.-..- |+-.+.-|... ...+...|.+|..-..+.... ...||+..|..|++.+.-.||+|+
T Consensus 108 ~~~A~fl~~~~~~~~--vwis~PtW~NH----~~If~~aGl~v~~Y~Yyd~~~---~~~df~~mla~L~~a~~~~vvLLH 178 (396)
T COG1448 108 RVAADFLARFFPDAT--VWISDPTWPNH----KAIFEAAGLEVETYPYYDAET---KGLDFDGMLADLKTAPEGSVVLLH 178 (396)
T ss_pred HHHHHHHHHhCCCce--EEeCCCCcHhH----HHHHHhcCCceeeeecccccc---ccccHHHHHHHHHhCCCCCEEEEe
Confidence 455677766543322 33333333222 345667799998777776654 368999999999976666688876
Q ss_pred e
Q psy12591 111 L 111 (144)
Q Consensus 111 ~ 111 (144)
.
T Consensus 179 ~ 179 (396)
T COG1448 179 G 179 (396)
T ss_pred c
Confidence 4
No 308
>COG3107 LppC Putative lipoprotein [General function prediction only]
Probab=51.05 E-value=29 Score=29.42 Aligned_cols=63 Identities=8% Similarity=0.058 Sum_probs=49.0
Q ss_pred CceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecc
Q psy12591 17 EYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKL 79 (144)
Q Consensus 17 p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~ 79 (144)
+-.+-..-+....+...+.-+-.-|-+...++...+++|+...++|..+.++.|...+..+.|
T Consensus 358 ~~~cyfaLSPEDEa~~AA~~l~~qG~R~plvlvPr~~lG~Rv~~AF~~~Wq~~gg~~v~~~~f 420 (604)
T COG3107 358 AQLCYFALSPEDEARDAANHLWDQGKRNPLVLVPRNDLGDRVANAFNQEWQKLGGGTVLQQKF 420 (604)
T ss_pred ccceeeecChhHHHHHHHHHHHHccccCceEEecchHHHHHHHHHHHHHHHHhcCCchhHhhc
Confidence 333444445555677788888788999999999999999999999999999988755555555
No 309
>TIGR03772 anch_rpt_subst anchored repeat ABC transporter, substrate-binding protein. Members of this protein family are ABC transporter permease subunits as identified by pfam00950, but additionally contain the Actinobacterial insert domain described by TIGR03769. Some homologs (lacking the insert) have been described as transporters of manganese or of chelated iron. Members of this family typically are found along with an ATP-binding cassette protein, a permease, and an LPXTG-anchored protein with two or three copies of the TIGR03769 insert that occurs just once in this protein family.
Probab=50.61 E-value=1.4e+02 Score=25.08 Aligned_cols=70 Identities=6% Similarity=-0.029 Sum_probs=43.8
Q ss_pred HHHHHhCCCcEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 34 VEIVKKLGWSYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 34 ~~ll~~f~W~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.-|.++||++.++++.. +.+-+..-...+.+.+++.++...+.+...... .+.++.|.+..+.+++.++.
T Consensus 382 ~YLa~~YGL~~~~~~~~~~~~ePS~~~L~~Li~~IK~~~V~~IF~Epq~~~~--------~~~l~~IA~e~Gv~V~~l~~ 453 (479)
T TIGR03772 382 SYLGQAYGLNIAGFVTPNPAVEPSLADRRRLTRTIENLKVPAVFLEPNLAAR--------STTLNEIADELGVRVCAIYG 453 (479)
T ss_pred HHHHHHCCCeEEeeeccCCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCCCCc--------hHHHHHHHHHcCCcEEeeec
Confidence 33567899999887643 334455567778888899998877766543321 13344444445677765543
No 310
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=50.61 E-value=59 Score=23.89 Aligned_cols=83 Identities=14% Similarity=0.101 Sum_probs=51.1
Q ss_pred CceEEecCCchH-HHHHHHH-HHHhCCCcEEEEEEEeCCcchH-HHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH
Q psy12591 17 EYFTRTIPSDHH-QVKAMVE-IVKKLGWSYVSIIYEESNYGVK-AFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD 93 (144)
Q Consensus 17 p~ffRt~p~d~~-~~~a~~~-ll~~f~W~~Vaii~~~~~~g~~-~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~ 93 (144)
..++=|.+.|.| .+..++. +++..||+-+-+ |.+ ..+.|.+.+.+.+..++........ ....+..
T Consensus 90 ~vvl~t~~gd~HdiG~~iv~~~l~~~G~~Vi~L-------G~~vp~e~~v~~~~~~~~~~V~lS~~~~~----~~~~~~~ 158 (213)
T cd02069 90 KIVLATVKGDVHDIGKNLVGVILSNNGYEVIDL-------GVMVPIEKILEAAKEHKADIIGLSGLLVP----SLDEMVE 158 (213)
T ss_pred eEEEEeCCCchhHHHHHHHHHHHHhCCCEEEEC-------CCCCCHHHHHHHHHHcCCCEEEEccchhc----cHHHHHH
Confidence 456777776755 5666666 568899965422 322 4577788887777655443322222 2678888
Q ss_pred HHHHHhcCCCceEEEEee
Q psy12591 94 IVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 94 ~l~~lk~~~~arvii~~~ 111 (144)
.+..|++ ...++-|+..
T Consensus 159 ~i~~L~~-~~~~~~i~vG 175 (213)
T cd02069 159 VAEEMNR-RGIKIPLLIG 175 (213)
T ss_pred HHHHHHh-cCCCCeEEEE
Confidence 9999984 4445555443
No 311
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=50.45 E-value=79 Score=24.13 Aligned_cols=73 Identities=15% Similarity=0.133 Sum_probs=38.4
Q ss_pred HHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEE
Q psy12591 30 VKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFK 109 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~ 109 (144)
..++++.+..-+ ++|.++....+-.....+.++.......++-...-.|.. ++. .+++++|+ .++++++++
T Consensus 97 ~~~Ll~~a~~~~-~~vfllGgkp~V~~~a~~~l~~~~p~l~ivg~h~GYf~~------~e~-~~i~~~I~-~s~pdil~V 167 (253)
T COG1922 97 VEALLKRAAEEG-KRVFLLGGKPGVAEQAAAKLRAKYPGLKIVGSHDGYFDP------EEE-EAIVERIA-ASGPDILLV 167 (253)
T ss_pred HHHHHHHhCccC-ceEEEecCCHHHHHHHHHHHHHHCCCceEEEecCCCCCh------hhH-HHHHHHHH-hcCCCEEEE
Confidence 344444443323 366666554433333444444444333333333334432 233 68999999 789999887
Q ss_pred ee
Q psy12591 110 RL 111 (144)
Q Consensus 110 ~~ 111 (144)
-+
T Consensus 168 gm 169 (253)
T COG1922 168 GM 169 (253)
T ss_pred eC
Confidence 54
No 312
>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=50.23 E-value=71 Score=22.40 Aligned_cols=8 Identities=0% Similarity=0.003 Sum_probs=3.3
Q ss_pred HHHHHHHh
Q psy12591 32 AMVEIVKK 39 (144)
Q Consensus 32 a~~~ll~~ 39 (144)
++.+.++.
T Consensus 21 ~~~~~~~~ 28 (269)
T cd01391 21 GIELAAEE 28 (269)
T ss_pred HHHHHHHH
Confidence 33334444
No 313
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=50.17 E-value=80 Score=29.34 Aligned_cols=65 Identities=9% Similarity=0.174 Sum_probs=52.8
Q ss_pred HhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEE
Q psy12591 38 KKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFK 109 (144)
Q Consensus 38 ~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~ 109 (144)
.-++=++|+++.-.+--.+..-+.|.+.++.-++.|..-..|... ...+.++++|+ ....+|||-
T Consensus 639 AV~~GKQVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~~LSRF~s~------kE~~~il~~la-~G~vDIvIG 703 (1139)
T COG1197 639 AVMDGKQVAVLVPTTLLAQQHYETFKERFAGFPVRIEVLSRFRSA------KEQKEILKGLA-EGKVDIVIG 703 (1139)
T ss_pred HhcCCCeEEEEcccHHhHHHHHHHHHHHhcCCCeeEEEecccCCH------HHHHHHHHHHh-cCCccEEEe
Confidence 334559999999888888888899999999999999887778653 45778999999 678888873
No 314
>COG0521 MoaB Molybdopterin biosynthesis enzymes [Coenzyme metabolism]
Probab=50.10 E-value=92 Score=22.25 Aligned_cols=72 Identities=13% Similarity=0.094 Sum_probs=44.2
Q ss_pred cEEEEEEEeCC--cch---HHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee-EEeee
Q psy12591 43 SYVSIIYEESN--YGV---KAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL-KLVKD 116 (144)
Q Consensus 43 ~~Vaii~~~~~--~g~---~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~-~~~~~ 116 (144)
-++++|..+|. -|. .....+.+.|++.|..+.....++.+ ...+...+.++-+.. .++|+.-. +.+..
T Consensus 8 ~~~~VvTVSd~r~~~~~~D~sG~~l~~~L~~ag~~~~~~~iV~D~-----~~~I~~~l~~~~~~~-~DvvlttGGTG~t~ 81 (169)
T COG0521 8 LRIAVVTVSDRRSTGEYEDKSGPLLVELLEEAGHNVAAYTIVPDD-----KEQIRATLIALIDED-VDVVLTTGGTGITP 81 (169)
T ss_pred eeEEEEEEecccccCCccccchhHHHHHHHHcCCccceEEEeCCC-----HHHHHHHHHHHhcCC-CCEEEEcCCccCCC
Confidence 45777764432 232 26788999999999998666666654 345667776665333 77777653 33433
Q ss_pred CCcc
Q psy12591 117 SGVA 120 (144)
Q Consensus 117 ~g~~ 120 (144)
+-+.
T Consensus 82 RDvT 85 (169)
T COG0521 82 RDVT 85 (169)
T ss_pred CcCC
Confidence 4443
No 315
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=50.05 E-value=1.1e+02 Score=23.12 Aligned_cols=51 Identities=8% Similarity=0.079 Sum_probs=35.2
Q ss_pred cCCchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCceEE
Q psy12591 23 IPSDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 23 ~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~V 73 (144)
.+.+...+..+++.|...|-++|+++....+ .+....+.|.+.++++|+.+
T Consensus 160 ~~d~~~~~~~a~~~L~~~G~r~I~~i~~~~~~~~~~~R~~Gf~~al~~~g~~~ 212 (328)
T PRK11303 160 VSDDQDDAEMLAESLLKFPAESILLLGALPELSVSFEREQGFRQALKDDPREV 212 (328)
T ss_pred EeCCHHHHHHHHHHHHHCCCCeEEEEeCccccccHHHHHHHHHHHHHHcCCCc
Confidence 3444455566677666678999999975432 34456678889999988754
No 316
>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=49.90 E-value=99 Score=22.54 Aligned_cols=53 Identities=17% Similarity=0.197 Sum_probs=35.7
Q ss_pred ecCCchHHHHHHHHHHHhC--CCcEEEEEEEeCCc--chHHHHHHHHHhhhC-ceEEE
Q psy12591 22 TIPSDHHQVKAMVEIVKKL--GWSYVSIIYEESNY--GVKAFEELEVLLAKY-SICIA 74 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f--~W~~Vaii~~~~~~--g~~~~~~~~~~l~~~-Gi~V~ 74 (144)
+..++...+..+++.+... |-++++++...... .....+.+++.++++ |+++.
T Consensus 100 V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~~l~~~~~~~~~ 157 (270)
T cd06308 100 IGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKEALSKYPKIKIV 157 (270)
T ss_pred eecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHHHHHHCCCCEEE
Confidence 4455555667777776554 88999999754332 234567788888888 87764
No 317
>TIGR01120 rpiB ribose 5-phosphate isomerase B. Involved in the non-oxidative branch of the pentose phospate pathway.
Probab=49.81 E-value=85 Score=21.73 Aligned_cols=63 Identities=13% Similarity=0.098 Sum_probs=38.9
Q ss_pred EEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH-HHHHHhcCCCceEEEEeeEE
Q psy12591 49 YEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD-IVLKLLTKPRARGLFKRLKL 113 (144)
Q Consensus 49 ~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~-~l~~lk~~~~arvii~~~~~ 113 (144)
...|.-|..+.+.+.+.|+++|.+|.-.-.....+.. =.++.. .-+.+.+..-.|.|++|.+.
T Consensus 4 igsDhaG~~lK~~l~~~L~~~g~eV~D~G~~~~~~~d--Ypd~a~~va~~V~~~~~~~GIliCGtG 67 (143)
T TIGR01120 4 IGSDHAGFILKEEIKAFLVERGVKVIDKGTWSSERTD--YPHYAKQVALAVAGGEVDGGILICGTG 67 (143)
T ss_pred EEeCcchHHHHHHHHHHHHHCCCEEEEeCCCCCCCCC--HHHHHHHHHHHHHCCCCceEEEEcCCc
Confidence 3446678889999999999999988654443322211 123333 33445434456788888764
No 318
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=49.78 E-value=76 Score=21.20 Aligned_cols=73 Identities=12% Similarity=0.174 Sum_probs=41.7
Q ss_pred HHHHHHHHhCCCcEEEEEEEe-----CCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCce
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEE-----SNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRAR 105 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~-----~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~ar 105 (144)
....+-|+..|++-+-.-... ..--...+-++.+.+.++++.... -+. + +.||...+++++ ..+-+
T Consensus 55 ~~~~~~L~~~g~~~~~~~~~~~~~~~~~~D~~l~~d~~~~~~~~~~d~iv--LvS-g-----D~Df~~~i~~lr-~~G~~ 125 (149)
T cd06167 55 RGFLDALRRLGFEPIQKPLRTRGSGKKGVDVALAIDALELAYKRRIDTIV--LVS-G-----DSDFVPLVERLR-ELGKR 125 (149)
T ss_pred HHHHHHHHHCCcEEEEEcceecCCcccCccHHHHHHHHHHhhhcCCCEEE--EEE-C-----CccHHHHHHHHH-HcCCE
Confidence 456667788887665544321 112223444445555554432211 122 2 468999999999 57888
Q ss_pred EEEEeeE
Q psy12591 106 GLFKRLK 112 (144)
Q Consensus 106 vii~~~~ 112 (144)
|+++...
T Consensus 126 V~v~~~~ 132 (149)
T cd06167 126 VIVVGFE 132 (149)
T ss_pred EEEEccC
Confidence 8877764
No 319
>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=49.21 E-value=1e+02 Score=22.37 Aligned_cols=49 Identities=8% Similarity=0.053 Sum_probs=33.4
Q ss_pred CchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCceEE
Q psy12591 25 SDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 25 ~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~V 73 (144)
.....+..+++.+...|-++++++....+ ......+.|.+.+++.|+.+
T Consensus 100 d~~~~~~~~~~~l~~~G~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~ 150 (269)
T cd06275 100 NSEEGGYLATRHLIELGHRRIGCITGPLEKAPAQQRLAGFRRAMAEAGLPV 150 (269)
T ss_pred CcHHHHHHHHHHHHHCCCceEEEEeCCCCCccHHHHHHHHHHHHHHcCCCC
Confidence 33445566677777779999999974322 23445677888888888664
No 320
>PRK00549 competence damage-inducible protein A; Provisional
Probab=49.20 E-value=1.1e+02 Score=24.93 Aligned_cols=61 Identities=13% Similarity=0.003 Sum_probs=39.5
Q ss_pred EEEEEEEeCC--cch---HHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 44 YVSIIYEESN--YGV---KAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 44 ~Vaii~~~~~--~g~---~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+++||...++ .|+ .....+...+.+.|+.+.....++++ ...+.+.|.++. .++++||+..
T Consensus 2 ~~~ii~~G~Ell~G~i~DtN~~~L~~~L~~~G~~v~~~~~v~Dd-----~~~I~~~l~~a~--~~~DlVItTG 67 (414)
T PRK00549 2 KAEIIAVGTELLLGQIVNTNAQFLSEKLAELGIDVYHQTVVGDN-----PERLLSALEIAE--ERSDLIITTG 67 (414)
T ss_pred EEEEEEecccccCCceeEhhHHHHHHHHHHCCCeEEEEEEeCCC-----HHHHHHHHHHhc--cCCCEEEECC
Confidence 3566655443 232 24567788888999988877767654 456777776654 4677777764
No 321
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=49.13 E-value=1.1e+02 Score=23.00 Aligned_cols=45 Identities=9% Similarity=0.085 Sum_probs=33.0
Q ss_pred HHHHHHHHHHhCCCcEEEEEEEeC--CcchHHHHHHHHHhhhCceEE
Q psy12591 29 QVKAMVEIVKKLGWSYVSIIYEES--NYGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~Gi~V 73 (144)
-+..+++.|...|-++|+++.... .......+.|.+.++++|+.+
T Consensus 161 ~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~ 207 (327)
T PRK10423 161 GGDLATQYLIDKGYTRIACITGPLDKTPARLRLEGYRAAMKRAGLNI 207 (327)
T ss_pred HHHHHHHHHHHcCCCeEEEEeCCccccchHHHHHHHHHHHHHcCCCC
Confidence 456777777778999999996432 334456788899999998754
No 322
>PRK10586 putative oxidoreductase; Provisional
Probab=49.12 E-value=1e+02 Score=24.62 Aligned_cols=72 Identities=10% Similarity=-0.054 Sum_probs=43.0
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
.-+.++++.+|++++.+|+....+- .....+...+++.|+.+. .|.... +..+++++.+..+ .++++||-.
T Consensus 23 ~~l~~~~~~~g~~~~lvv~g~~~~~-~~~~~~~~~l~~~~~~~~---~~~g~~---~~~~v~~l~~~~~--~~~d~iiav 93 (362)
T PRK10586 23 DHLHDFFTDEQLSRAVWIYGERAIA-AAQPYLPPAFELPGAKHI---LFRGHC---SESDVAQLAAASG--DDRQVVIGV 93 (362)
T ss_pred HHHHHHHHhcCCCeEEEEEChHHHH-HHHHHHHHHHHHcCCeEE---EeCCCC---CHHHHHHHHHHhc--cCCCEEEEe
Confidence 3466788889999988887654442 233556677888886542 233222 2455655544332 467888755
Q ss_pred e
Q psy12591 111 L 111 (144)
Q Consensus 111 ~ 111 (144)
.
T Consensus 94 G 94 (362)
T PRK10586 94 G 94 (362)
T ss_pred c
Confidence 3
No 323
>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=49.10 E-value=1e+02 Score=22.41 Aligned_cols=86 Identities=14% Similarity=0.032 Sum_probs=48.6
Q ss_pred cCCchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhc
Q psy12591 23 IPSDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLT 100 (144)
Q Consensus 23 ~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~ 100 (144)
..+....+..+++.|...|-++++++..... ......+.|++.+++.|+.+.......... ...+....+.++..
T Consensus 97 ~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~ 173 (268)
T cd06270 97 WLDNEQGGYLATEHLIELGHRKIACITGPLTKEDARLRLQGYRDALAEAGIALDESLIIEGDF---TEEGGYAAMQELLA 173 (268)
T ss_pred EECcHHHHHHHHHHHHHCCCceEEEEeCCcccccHHHHHHHHHHHHHHcCCCCCcceEEECCC---CHHHHHHHHHHHHh
Confidence 3455556677778777779999999975422 233456778888888886542111111111 12333445555542
Q ss_pred -CCCceEEEEee
Q psy12591 101 -KPRARGLFKRL 111 (144)
Q Consensus 101 -~~~arvii~~~ 111 (144)
.++.++|+...
T Consensus 174 ~~~~~~ai~~~~ 185 (268)
T cd06270 174 RGAPFTAVFCAN 185 (268)
T ss_pred CCCCCCEEEEcC
Confidence 34566776554
No 324
>cd08494 PBP2_NikA_DppA_OppA_like_6 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most si
Probab=49.07 E-value=72 Score=25.48 Aligned_cols=47 Identities=15% Similarity=0.175 Sum_probs=34.7
Q ss_pred HHHHHHHHHhCCC---cEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEE
Q psy12591 30 VKAMVEIVKKLGW---SYVSIIYEESNYGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 30 ~~a~~~ll~~f~W---~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
.+...++|+.-|| ..+-+++.++.+....++.+++.+++.||.+...
T Consensus 300 ~~kA~~lL~~aG~~~g~~l~l~~~~~~~~~~~a~~i~~~l~~~GI~v~i~ 349 (448)
T cd08494 300 PDKARQLLAEAGAAYGLTLTLTLPPLPYARRIGEIIASQLAEVGITVKIE 349 (448)
T ss_pred HHHHHHHHHHcCCCCCeEEEEEecCCcchhHHHHHHHHHHHhcCcEEEEE
Confidence 3445568888898 4466666655566778999999999999987653
No 325
>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=49.02 E-value=99 Score=22.28 Aligned_cols=48 Identities=15% Similarity=0.176 Sum_probs=32.9
Q ss_pred CCchHHHHHHHHHHHhCCCcEEEEEEEeC--CcchHHHHHHHHHhhhCce
Q psy12591 24 PSDHHQVKAMVEIVKKLGWSYVSIIYEES--NYGVKAFEELEVLLAKYSI 71 (144)
Q Consensus 24 p~d~~~~~a~~~ll~~f~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~Gi 71 (144)
++....+..+++.+...|-++|+++..+. .......+.|.+.+++.|+
T Consensus 99 ~d~~~~~~~~~~~l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~~~~~ 148 (268)
T cd06289 99 PDNAAGARLATEHLISLGHRRIAFIGGLEDSSTRRERLAGYRAALAEAGL 148 (268)
T ss_pred ecchHHHHHHHHHHHHCCCCCEEEecCCccccchHHHHHHHHHHHHHcCC
Confidence 34445566677776666889999886433 2445567888888888774
No 326
>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=48.99 E-value=1e+02 Score=22.38 Aligned_cols=49 Identities=10% Similarity=0.229 Sum_probs=33.9
Q ss_pred CchHHHHHHHHHHHhCCCcEEEEEEEeC-CcchHHHHHHHHHhhhCceEE
Q psy12591 25 SDHHQVKAMVEIVKKLGWSYVSIIYEES-NYGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 25 ~d~~~~~a~~~ll~~f~W~~Vaii~~~~-~~g~~~~~~~~~~l~~~Gi~V 73 (144)
++..-+..+++.|...|-++++++.... .........|.+.++++|+..
T Consensus 98 d~~~~g~~a~~~L~~~g~~~i~~~~~~~~~~~~~R~~gf~~~~~~~~~~~ 147 (263)
T cd06280 98 DNRAAARTLVEHLVAQGYRRIGGLFGNASTTGAERRAGYEDAMRRHGLAP 147 (263)
T ss_pred CcHHHHHHHHHHHHHCCCceEEEEeCCCCCCHHHHHHHHHHHHHHcCCCC
Confidence 4444556667777778999999986532 233455677888888888654
No 327
>PLN02834 3-dehydroquinate synthase
Probab=48.88 E-value=1.5e+02 Score=24.36 Aligned_cols=68 Identities=12% Similarity=0.017 Sum_probs=42.5
Q ss_pred CcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEE-ecccCCCCCcchhhHHHHHHHHhcCCCce---EEEEee
Q psy12591 42 WSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIK-EKLVKDSGVAEETAYDDIVLKLLTKPRAR---GLFKRL 111 (144)
Q Consensus 42 W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~-~~~~~~~~~~~~~~~~~~l~~lk~~~~ar---vii~~~ 111 (144)
.+++.+|++..-+. ...+.+.+.+++.|+.+... ..++.+...++.+.+.+.+..++ ..+.+ .||...
T Consensus 100 g~rvlIVtD~~v~~-~~~~~v~~~L~~~g~~~~v~~~v~~~gE~~ksl~~v~~~~~~l~-~~~~dr~~~VIAiG 171 (433)
T PLN02834 100 GKRVLVVTNETVAP-LYLEKVVEALTAKGPELTVESVILPDGEKYKDMETLMKVFDKAL-ESRLDRRCTFVALG 171 (433)
T ss_pred CCEEEEEECccHHH-HHHHHHHHHHHhcCCceEEEEEEecCCcCCCCHHHHHHHHHHHH-hcCCCcCcEEEEEC
Confidence 48888888555444 37788888999989765432 23444322224566777777777 34444 777654
No 328
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=48.84 E-value=74 Score=20.80 Aligned_cols=11 Identities=27% Similarity=0.422 Sum_probs=5.2
Q ss_pred HHHHHhhhCce
Q psy12591 61 ELEVLLAKYSI 71 (144)
Q Consensus 61 ~~~~~l~~~Gi 71 (144)
.+.+.+.+...
T Consensus 47 ~i~~~i~~s~~ 57 (140)
T smart00255 47 EIDEAIEKSRI 57 (140)
T ss_pred HHHHHHHHCcE
Confidence 45555544433
No 329
>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=48.44 E-value=1.2e+02 Score=22.98 Aligned_cols=63 Identities=16% Similarity=0.179 Sum_probs=38.5
Q ss_pred CCcEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 41 GWSYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 41 ~W~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
.-..|+++.. .+.|.....+.+++.+++.|..+.....- .+ .......+..+. ..+++.||+.
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~~g~~~~i~~~~-~~-----~~~~~~~~~~l~-~~~vdGiIi~ 122 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATMYKYNIILSNSD-ED-----PEKEVQVLNTLL-SKQVDGIIFM 122 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHHcCCEEEEEeCC-CC-----HHHHHHHHHHHH-hCCCCEEEEe
Confidence 3456888774 35677778888888888888776543211 11 223344555565 4567777664
No 330
>PF13840 ACT_7: ACT domain ; PDB: 3S1T_A 1ZHV_A 3AB4_K 3AB2_O 2DTJ_A 3AAW_A 2RE1_B 3MAH_A 1ZVP_D.
Probab=47.98 E-value=54 Score=19.01 Aligned_cols=59 Identities=17% Similarity=0.160 Sum_probs=36.2
Q ss_pred CCcEEEEEEEeCCc-chHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHh
Q psy12591 41 GWSYVSIIYEESNY-GVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLL 99 (144)
Q Consensus 41 ~W~~Vaii~~~~~~-g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk 99 (144)
+|..+.+....-.. -.+....+-..|.+.||.|.....+....-.-++.+..+.++.|+
T Consensus 5 ~~~~i~v~g~g~~~~~~Gv~a~i~~~La~~~I~i~~isS~~~~~ilV~~~~~~~A~~~L~ 64 (65)
T PF13840_consen 5 DWAKISVVGPGLRFDVPGVAAKIFSALAEAGINIFMISSEISISILVKEEDLEKAVEALH 64 (65)
T ss_dssp EEEEEEEEEECGTTTSHHHHHHHHHHHHHTTS-ECEEEESSEEEEEEEGGGHHHHHHHHH
T ss_pred CEEEEEEEccccCCCcccHHHHHHHHHHHCCCCEEEEEEeeeEEEEEeHHHHHHHHHHhc
Confidence 57777777764333 456788888899999998765443322110113567777776664
No 331
>PHA02031 putative DnaG-like primase
Probab=47.74 E-value=91 Score=23.99 Aligned_cols=54 Identities=13% Similarity=-0.058 Sum_probs=35.6
Q ss_pred HHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCC
Q psy12591 29 QVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDS 83 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~ 83 (144)
.....+.+|+++.-++|.+.++.|.-|+..+..-.+.+...|..+- ...+|.+.
T Consensus 193 LT~~q~~~L~r~~~~~Vil~fDgD~AG~~Aa~ra~~~l~~~~~~v~-vv~lP~g~ 246 (266)
T PHA02031 193 LRDRLAAILLQQTCPRVLIFLDGDPAGVDGSAGAMRRLRPLLIEGQ-VIITPDGF 246 (266)
T ss_pred CCHHHHHHHHhcCCCCEEEEeCCCHHHHHHHHHHHHHHHHcCCceE-EEECCCCC
Confidence 3344566777776678888888888888777766777766675543 23345443
No 332
>PF00763 THF_DHG_CYH: Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; InterPro: IPR020630 Enzymes that participate in the transfer of one-carbon units require the coenzyme tetrahydrofolate (THF). Various reactions generate one-carbon derivatives of THF, which can be interconverted between different oxidation states by methylene-THF dehydrogenase (1.5.1.5 from EC), methenyl-THF cyclohydrolase (3.5.4.9 from EC) and formyl-THF synthetase (6.3.4.3 from EC) [, ]. The dehydrogenase and cyclohydrolase activities are expressed by a variety of multifunctional enzymes, including the tri-functional eukaryotic C1-tetrahydrofolate synthase []; a bifunctional eukaryotic mitochondrial protein; and the bifunctional Escherichia coli folD protein [, ]. Methylene-tetrahydrofolate dehydrogenase and methenyltetrahydrofolate cyclo-hydrolase share an overlapping active site [], and as such are usually located together in proteins, acting in tandem on the carbon-nitrogen bonds of substrates other than peptide bonds. This entry represents the N-terminal catalytic domain of these enzymes. ; GO: 0003824 catalytic activity, 0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity, 0009396 folic acid-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 2C2X_B 2C2Y_A 1EDZ_A 1EE9_A 4A26_B 3NGL_C 3NGX_A 1B0A_A 1DIA_A 1A4I_B ....
Probab=47.30 E-value=80 Score=20.75 Aligned_cols=75 Identities=19% Similarity=0.247 Sum_probs=46.2
Q ss_pred cEEEEEEEeCCcch-HHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcch
Q psy12591 43 SYVSIIYEESNYGV-KAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAE 121 (144)
Q Consensus 43 ~~Vaii~~~~~~g~-~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~ 121 (144)
-..++|..+++.+. ...+...+.+++-|+..... .++.+. ++..+.+.+.+|-..++...|++..-. ..+++.
T Consensus 30 P~Laii~vg~d~~S~~Y~~~k~k~~~~~Gi~~~~~-~l~~~~---~~~el~~~i~~lN~D~~V~GIlvq~PL--P~~i~~ 103 (117)
T PF00763_consen 30 PKLAIILVGDDPASISYVRSKQKAAEKLGIEFELI-ELPEDI---SEEELLELIEKLNEDPSVHGILVQLPL--PKHIDE 103 (117)
T ss_dssp -EEEEEEES--HHHHHHHHHHHHHHHHHT-EEEEE-EE-TTS---SHHHHHHHHHHHHH-TT-SEEEEESSS--STTSHH
T ss_pred cEEEEEecCCChhHHHHHHHHHHHHHHcCCceEEE-ECCCCc---CHHHHHHHHHHHhCCCCCCEEEEcCCC--CCCccH
Confidence 45777777766554 46777778888899877654 355554 378899999998766778888876543 344444
Q ss_pred hh
Q psy12591 122 ET 123 (144)
Q Consensus 122 ~~ 123 (144)
..
T Consensus 104 ~~ 105 (117)
T PF00763_consen 104 RK 105 (117)
T ss_dssp HH
T ss_pred HH
Confidence 33
No 333
>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=47.16 E-value=1.1e+02 Score=22.40 Aligned_cols=42 Identities=14% Similarity=0.188 Sum_probs=20.2
Q ss_pred HHHHHHHHHHhCCCc---EEEEEEEeCCcchHHHHHHHHHhhhCc
Q psy12591 29 QVKAMVEIVKKLGWS---YVSIIYEESNYGVKAFEELEVLLAKYS 70 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~---~Vaii~~~~~~g~~~~~~~~~~l~~~G 70 (144)
....+-+-+...|+. .+-+++.++.+.......+.+.+...+
T Consensus 16 ~~~gi~~~~~~~g~~~g~~v~l~~~~~~~~~~~~~~~~~~l~~~~ 60 (281)
T cd06325 16 ARKGFKDGLKEAGYKEGKNVKIDYQNAQGDQSNLPTIARKFVADK 60 (281)
T ss_pred HHHHHHHHHHHhCccCCceEEEEEecCCCCHHHHHHHHHHHHhcC
Confidence 334555556666663 455555554443333333444444433
No 334
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=47.16 E-value=1.2e+02 Score=23.60 Aligned_cols=46 Identities=13% Similarity=0.101 Sum_probs=29.0
Q ss_pred HHHHHhCCCcEEEEEEEe--CCcchHHHHHHHHHhhhCceEEEEEecc
Q psy12591 34 VEIVKKLGWSYVSIIYEE--SNYGVKAFEELEVLLAKYSICIAIKEKL 79 (144)
Q Consensus 34 ~~ll~~f~W~~Vaii~~~--~~~g~~~~~~~~~~l~~~Gi~V~~~~~~ 79 (144)
.-+.++||.+.++++... .+-+..-...+.+.++++++.+.+.+..
T Consensus 214 ~Yf~~~ygl~~~~~~~~~~~~eps~~~l~~l~~~ik~~~v~~If~e~~ 261 (311)
T PRK09545 214 GYFEKHYGLTPLGHFTVNPEIQPGAQRLHEIRTQLVEQKATCVFAEPQ 261 (311)
T ss_pred HHHHHhCCCceeeeeccCCCCCCCHHHHHHHHHHHHHcCCCEEEecCC
Confidence 335578888888766432 2334445566777778888777666544
No 335
>PLN00125 Succinyl-CoA ligase [GDP-forming] subunit alpha
Probab=46.97 E-value=1.1e+02 Score=23.93 Aligned_cols=49 Identities=12% Similarity=0.091 Sum_probs=24.5
Q ss_pred HHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 62 LEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 62 ~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
+...+.++|+-+.....+-..+- .+.++.+.|.-+.+.++.++|+++..
T Consensus 166 l~~~~~~~giG~S~~VS~Gn~~~--adv~~~d~L~yl~~Dp~T~~I~ly~E 214 (300)
T PLN00125 166 AVFQTTAVGLGQSTCVGIGGDPF--NGTNFVDCLEKFVKDPQTEGIILIGE 214 (300)
T ss_pred HHHHHHHcCCCeEEEEEeCCCCC--CCCCHHHHHHHHhhCCCCcEEEEEec
Confidence 44445555555554444432200 13455566665654566666666653
No 336
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=46.89 E-value=98 Score=23.03 Aligned_cols=77 Identities=16% Similarity=0.159 Sum_probs=40.1
Q ss_pred CCchHHHHHHHHH--HHhC---CCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHH
Q psy12591 24 PSDHHQVKAMVEI--VKKL---GWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKL 98 (144)
Q Consensus 24 p~d~~~~~a~~~l--l~~f---~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~l 98 (144)
|+....++.++++ +... .=.+|-++. |....+.+.+.|++.|..|.....|..... ..+-......+
T Consensus 107 ~p~~~~se~Ll~~~~l~~~~~~~~~~vLi~r-----g~~~r~~L~~~L~~~G~~v~~~~vY~~~~~---~~~~~~~~~~~ 178 (255)
T PRK05752 107 PEQGDDSEALLALPALRQALAVPDPRVLIMR-----GEGGRELLAERLREQGASVDYLELYRRCLP---DYPAGTLLQRV 178 (255)
T ss_pred CCCCCCcHHHHhChhhhccccCCCCEEEEEc-----cCccHHHHHHHHHHCCCEEeEEEEEeecCC---CCCHHHHHHHH
Confidence 3344455666665 3221 123344443 334556789999999988877665543221 12223444555
Q ss_pred hcCCCceEEEE
Q psy12591 99 LTKPRARGLFK 109 (144)
Q Consensus 99 k~~~~arvii~ 109 (144)
. ....++|++
T Consensus 179 ~-~~~~d~v~f 188 (255)
T PRK05752 179 E-AERLNGLVV 188 (255)
T ss_pred H-hCCCCEEEE
Confidence 5 334444443
No 337
>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=46.88 E-value=98 Score=21.62 Aligned_cols=61 Identities=16% Similarity=0.114 Sum_probs=34.8
Q ss_pred EEEEEEEe-CCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 44 YVSIIYEE-SNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 44 ~Vaii~~~-~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+|+|+... +|. ..++...+.|++-|+...... ..... ....+.+.++++. ..+.++||..+
T Consensus 2 ~V~Ii~gs~SD~--~~~~~a~~~L~~~gi~~~~~V-~saHR---~p~~l~~~~~~~~-~~~~~viIa~A 63 (150)
T PF00731_consen 2 KVAIIMGSTSDL--PIAEEAAKTLEEFGIPYEVRV-ASAHR---TPERLLEFVKEYE-ARGADVIIAVA 63 (150)
T ss_dssp EEEEEESSGGGH--HHHHHHHHHHHHTT-EEEEEE---TTT---SHHHHHHHHHHTT-TTTESEEEEEE
T ss_pred eEEEEeCCHHHH--HHHHHHHHHHHHcCCCEEEEE-EeccC---CHHHHHHHHHHhc-cCCCEEEEEEC
Confidence 45666532 233 566777778888885544321 11111 2456777777777 46788888765
No 338
>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=46.81 E-value=1.1e+02 Score=22.19 Aligned_cols=55 Identities=15% Similarity=0.126 Sum_probs=34.8
Q ss_pred EEecCCchHHHHHHHHHHHh--CCCcEEEEEEEeC-CcchHHHHHHHHHhhhCc-eEEE
Q psy12591 20 TRTIPSDHHQVKAMVEIVKK--LGWSYVSIIYEES-NYGVKAFEELEVLLAKYS-ICIA 74 (144)
Q Consensus 20 fRt~p~d~~~~~a~~~ll~~--f~W~~Vaii~~~~-~~g~~~~~~~~~~l~~~G-i~V~ 74 (144)
..+.+++...+..+++.+.. .|.++|+++...+ .........|.+.+++.| +.+.
T Consensus 96 ~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~g~~~~~~~~~~~~~~ 154 (273)
T cd06305 96 NNTTQDDYSLARLSLDQLVKDLGGKGNVGYVNVAGFPPLDRRYDVWQAVLKAYPGIKEV 154 (273)
T ss_pred ceeeechHHHHHHHHHHHHHHhCCCCCEEEEEccCCchHHHHHHHHHHHHHHCCCcEEe
Confidence 33555666667777776644 5889999997532 223344567777777777 5543
No 339
>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=46.04 E-value=62 Score=23.67 Aligned_cols=15 Identities=20% Similarity=0.408 Sum_probs=7.8
Q ss_pred HHHHHHHHhCCCcEE
Q psy12591 31 KAMVEIVKKLGWSYV 45 (144)
Q Consensus 31 ~a~~~ll~~f~W~~V 45 (144)
..+.+.++.+||+-+
T Consensus 19 ~~~~~~a~~~g~~~~ 33 (273)
T cd06309 19 KSIKDAAEKRGFDLK 33 (273)
T ss_pred HHHHHHHHhcCCEEE
Confidence 444455556666443
No 340
>PRK14174 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=45.99 E-value=1.2e+02 Score=23.63 Aligned_cols=66 Identities=14% Similarity=0.075 Sum_probs=0.0
Q ss_pred HHHHHHHHHhCCC----cEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCce
Q psy12591 30 VKAMVEIVKKLGW----SYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRAR 105 (144)
Q Consensus 30 ~~a~~~ll~~f~W----~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~ar 105 (144)
+.+++++|++|+- +++.|+.....-|+..+.-|.+.++.+|.+|..-..-..+ +-..++ +|+
T Consensus 143 p~ail~ll~~y~i~l~Gk~vvViGrS~iVG~Pla~lL~~~~~~~~atVt~~hs~t~~-----------l~~~~~---~AD 208 (295)
T PRK14174 143 PYGILELLGRYNIETKGKHCVVVGRSNIVGKPMANLMLQKLKESNCTVTICHSATKD-----------IPSYTR---QAD 208 (295)
T ss_pred HHHHHHHHHHhCCCCCCCEEEEECCCCcchHHHHHHHHhccccCCCEEEEEeCCchh-----------HHHHHH---hCC
Q ss_pred EEEE
Q psy12591 106 GLFK 109 (144)
Q Consensus 106 vii~ 109 (144)
++|.
T Consensus 209 IvI~ 212 (295)
T PRK14174 209 ILIA 212 (295)
T ss_pred EEEE
No 341
>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=45.79 E-value=1.1e+02 Score=22.02 Aligned_cols=44 Identities=16% Similarity=0.217 Sum_probs=29.5
Q ss_pred HHHHHHHHHHhCCCcEEEEEEEeC--CcchHHHHHHHHHhhhCceE
Q psy12591 29 QVKAMVEIVKKLGWSYVSIIYEES--NYGVKAFEELEVLLAKYSIC 72 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~Gi~ 72 (144)
-+..+++.+...|-++|+++.... .......+.|.+.+++.|+.
T Consensus 103 ~~~~~~~~l~~~g~~~I~~i~~~~~~~~~~~R~~gf~~~~~~~~~~ 148 (265)
T cd06299 103 GMTEAVSLLVALGHKKIGYISGPQDTSTGRERLEAFRQACASLGLE 148 (265)
T ss_pred HHHHHHHHHHHcCCCcEEEEeCCCCcccHHHHHHHHHHHHHHCCCC
Confidence 344555666667899999996533 23344567788888888853
No 342
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=45.60 E-value=1.7e+02 Score=24.01 Aligned_cols=78 Identities=12% Similarity=0.149 Sum_probs=48.0
Q ss_pred eEEecCCchHHHHHHHHHH----HhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHH
Q psy12591 19 FTRTIPSDHHQVKAMVEIV----KKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDI 94 (144)
Q Consensus 19 ffRt~p~d~~~~~a~~~ll----~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~ 94 (144)
+.=+.|+.----..+++|. ...+=++|++|+.| .|-.+..+.++...+--|+.+..... ..+|...
T Consensus 206 i~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtD-tYRIGA~EQLk~Ya~im~vp~~vv~~---------~~el~~a 275 (407)
T COG1419 206 IALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTD-TYRIGAVEQLKTYADIMGVPLEVVYS---------PKELAEA 275 (407)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEec-cchhhHHHHHHHHHHHhCCceEEecC---------HHHHHHH
Confidence 3334444333333444443 33467889999875 58888999999999988877654321 3456666
Q ss_pred HHHHhcCCCceEEEE
Q psy12591 95 VLKLLTKPRARGLFK 109 (144)
Q Consensus 95 l~~lk~~~~arvii~ 109 (144)
+..++. -++|++
T Consensus 276 i~~l~~---~d~ILV 287 (407)
T COG1419 276 IEALRD---CDVILV 287 (407)
T ss_pred HHHhhc---CCEEEE
Confidence 666662 355544
No 343
>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=45.47 E-value=1.2e+02 Score=22.17 Aligned_cols=15 Identities=0% Similarity=-0.093 Sum_probs=7.3
Q ss_pred HHHHHHHHHhC-CCcE
Q psy12591 30 VKAMVEIVKKL-GWSY 44 (144)
Q Consensus 30 ~~a~~~ll~~f-~W~~ 44 (144)
...+.+.+... ||+-
T Consensus 18 ~~~i~~~~~~~~g~~~ 33 (270)
T cd06308 18 NDEIQREASNYPDVEL 33 (270)
T ss_pred HHHHHHHHHhcCCcEE
Confidence 34444555554 5544
No 344
>cd00419 Ferrochelatase_C Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=45.36 E-value=94 Score=21.01 Aligned_cols=59 Identities=12% Similarity=-0.009 Sum_probs=35.2
Q ss_pred HHHHHHHHhh--hCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCc
Q psy12591 58 AFEELEVLLA--KYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGV 119 (144)
Q Consensus 58 ~~~~~~~~l~--~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~ 119 (144)
.++.+.+.+. ...+.+++...+.+.. +-..+..+.|.++. +.+.+-|++..-.-.+++.
T Consensus 46 ~~~~v~~~l~~~~~~~~~~fqS~~g~~~--Wl~P~~~~~l~~l~-~~G~~~i~v~p~gF~~D~~ 106 (135)
T cd00419 46 TARLVAERLGLPFDEYELAYQSRFGPGE--WLEPSTDDALEELA-KEGVKNVVVVPIGFVSDHL 106 (135)
T ss_pred HHHHHHHHhCCCCCCEEEEecCCCCCCC--CCCCCHHHHHHHHH-HcCCCeEEEECCccccccH
Confidence 3444555554 3447777766665444 23556888999998 4566666666553334554
No 345
>PRK12615 galactose-6-phosphate isomerase subunit LacB; Reviewed
Probab=45.34 E-value=1.1e+02 Score=21.86 Aligned_cols=64 Identities=3% Similarity=-0.155 Sum_probs=39.2
Q ss_pred EEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH-HHHHHhcCCCceEEEEeeEE
Q psy12591 48 IYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD-IVLKLLTKPRARGLFKRLKL 113 (144)
Q Consensus 48 i~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~-~l~~lk~~~~arvii~~~~~ 113 (144)
....|.-|..+.+.+.+.|++.|..|.-.-.....+.. =.++.. .-+.+.+....+.|++|.+.
T Consensus 4 ~igsDhaG~~lK~~l~~~L~~~G~eV~D~G~~~~~~~d--Ypd~a~~va~~V~~g~~d~GIliCGTG 68 (171)
T PRK12615 4 AIGCDHIVTNEKMAVSDFLKSKGYDVIDCGTYDHTRTH--YPIFGKKVGEAVVNGQADLGVCICGTG 68 (171)
T ss_pred EEEeCchhHHHHHHHHHHHHHCCCEEEEcCCCCCCCCC--hHHHHHHHHHHHHcCCCCEEEEEcCCc
Confidence 34455677889999999999999988654433322211 123333 33455534445788888764
No 346
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=45.27 E-value=1.2e+02 Score=22.13 Aligned_cols=14 Identities=7% Similarity=0.370 Sum_probs=8.0
Q ss_pred HHHHHHHHhCCCcE
Q psy12591 31 KAMVEIVKKLGWSY 44 (144)
Q Consensus 31 ~a~~~ll~~f~W~~ 44 (144)
..+.+.++.+||+-
T Consensus 30 ~gi~~~~~~~g~~~ 43 (275)
T cd06295 30 GGIADALAERGYDL 43 (275)
T ss_pred HHHHHHHHHcCCEE
Confidence 44455566667753
No 347
>TIGR01357 aroB 3-dehydroquinate synthase. This model represents 3-dehydroquinate synthase, the enzyme catalyzing the second of seven steps in the shikimate pathway of chorismate biosynthesis. Chorismate is the last common intermediate in the biosynthesis of all three aromatic amino acids.
Probab=45.17 E-value=1.5e+02 Score=23.22 Aligned_cols=75 Identities=15% Similarity=0.047 Sum_probs=43.8
Q ss_pred HHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcC--CCceEEEEe
Q psy12591 33 MVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTK--PRARGLFKR 110 (144)
Q Consensus 33 ~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~--~~arvii~~ 110 (144)
+.+.++. .+++.++++...+ ....+.+.+.+++.|+.+... .++.....++.+.+.+.+..+++. .+.+.||..
T Consensus 13 l~~~l~~--~~~~livtd~~~~-~~~~~~v~~~L~~~g~~~~~~-~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIav 88 (344)
T TIGR01357 13 LVEELAE--PSKLVIITDETVA-DLYADKLLEALQALGYNVLKL-TVPDGEESKSLETVQRLYDQLLEAGLDRSSTIIAL 88 (344)
T ss_pred HHHHhhc--CCeEEEEECCchH-HHHHHHHHHHHHhcCCceeEE-EeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEEE
Confidence 3344544 3788888754444 446788888898888765322 133222112356777888888732 223677765
Q ss_pred e
Q psy12591 111 L 111 (144)
Q Consensus 111 ~ 111 (144)
.
T Consensus 89 G 89 (344)
T TIGR01357 89 G 89 (344)
T ss_pred c
Confidence 4
No 348
>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=44.97 E-value=1.2e+02 Score=21.96 Aligned_cols=37 Identities=8% Similarity=0.276 Sum_probs=18.0
Q ss_pred HHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhh
Q psy12591 29 QVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAK 68 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~ 68 (144)
....+.+.++.+||+-+ +...+ ......+.+...+..
T Consensus 22 ~~~~~~~~~~~~g~~~~-~~~~~--~~~~~~~~~~~~~~~ 58 (270)
T cd06294 22 VLRGISAVANENGYDIS-LATGK--NEEELLEEVKKMIQQ 58 (270)
T ss_pred HHHHHHHHHHHCCCEEE-EecCC--CcHHHHHHHHHHHHH
Confidence 44555566777787633 22222 123334455555543
No 349
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=44.86 E-value=1.1e+02 Score=21.75 Aligned_cols=73 Identities=14% Similarity=0.102 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhh--CceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCce
Q psy12591 28 HQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAK--YSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRAR 105 (144)
Q Consensus 28 ~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~--~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~ar 105 (144)
.....+++....-+| ++.++....+ ..+.+.+.+++ .|+.|+....+- + +.+-..++.+|. .++++
T Consensus 35 dl~~~l~~~~~~~~~-~vfllG~~~~----v~~~~~~~l~~~yP~l~i~g~~g~f-~-----~~~~~~i~~~I~-~s~~d 102 (177)
T TIGR00696 35 DLMEELCQRAGKEKL-PIFLYGGKPD----VLQQLKVKLIKEYPKLKIVGAFGPL-E-----PEERKAALAKIA-RSGAG 102 (177)
T ss_pred HHHHHHHHHHHHcCC-eEEEECCCHH----HHHHHHHHHHHHCCCCEEEEECCCC-C-----hHHHHHHHHHHH-HcCCC
Confidence 344555555555564 6777765443 34444444443 577776542221 1 334466889998 68999
Q ss_pred EEEEeeE
Q psy12591 106 GLFKRLK 112 (144)
Q Consensus 106 vii~~~~ 112 (144)
++++...
T Consensus 103 il~VglG 109 (177)
T TIGR00696 103 IVFVGLG 109 (177)
T ss_pred EEEEEcC
Confidence 9988653
No 350
>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=44.56 E-value=1.4e+02 Score=22.63 Aligned_cols=48 Identities=6% Similarity=0.012 Sum_probs=32.7
Q ss_pred CchHHHHHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCceE
Q psy12591 25 SDHHQVKAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSIC 72 (144)
Q Consensus 25 ~d~~~~~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~ 72 (144)
.+..-+..+++.|...|.++|+++....+ ....-.+.|.+.+++.|+.
T Consensus 161 dn~~~~~~~~~~L~~~G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~ 210 (327)
T TIGR02417 161 DDVDAAAELIERLLSQHADEFWYLGAQPELSVSRDRLAGFRQALKQATLE 210 (327)
T ss_pred CcHHHHHHHHHHHHHCCCCeEEEEeCcccchhHHHHHHHHHHHHHHcCCC
Confidence 34444455566676778999999975433 2345667788888888875
No 351
>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=44.38 E-value=1.4e+02 Score=22.61 Aligned_cols=63 Identities=13% Similarity=0.064 Sum_probs=39.4
Q ss_pred CcEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 42 WSYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 42 W~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
-..|+++.. .+.|.....+.+.+.+++.|..+.....- .+ .......+..+. ..+++.||+..
T Consensus 60 ~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~~-~~-----~~~~~~~~~~l~-~~~vdgiIi~~ 124 (327)
T TIGR02417 60 SRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIACSD-DN-----PDQEKVVIENLL-ARQVDALIVAS 124 (327)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEEeCC-CC-----HHHHHHHHHHHH-HcCCCEEEEeC
Confidence 356888764 35677788888999999999887643221 11 223344566665 45677766653
No 352
>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=44.13 E-value=1.2e+02 Score=21.98 Aligned_cols=54 Identities=11% Similarity=0.050 Sum_probs=37.1
Q ss_pred EEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCC-cchHHHHHHHHHhhhCceEE
Q psy12591 20 TRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESN-YGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 20 fRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~-~g~~~~~~~~~~l~~~Gi~V 73 (144)
-.....+...+..+++.+...|-++++++..... ......+.|++++++.|+.+
T Consensus 87 ~~v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~~~~~~~~ 141 (265)
T cd01543 87 PRVTTDNAAIGRMAAEHFLERGFRHFAFYGLPGARWSDEREEAFRQLVAEAGYEC 141 (265)
T ss_pred CEEeeCHHHHHHHHHHHHHHCCCcEEEEEcCCCCHHHHHHHHHHHHHHHHcCCcc
Confidence 3455556666677777777779999999864433 22334577888898888765
No 353
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=44.10 E-value=75 Score=24.99 Aligned_cols=46 Identities=22% Similarity=0.370 Sum_probs=32.7
Q ss_pred HHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEE
Q psy12591 59 FEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFK 109 (144)
Q Consensus 59 ~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~ 109 (144)
.+.+...+++.++ |+..-.+|++- +...|.+++..++ ..++++++=
T Consensus 120 l~~~~~~l~~~d~-VvlsGSlP~g~---~~d~y~~li~~~~-~~g~~vilD 165 (310)
T COG1105 120 LEQLKALLESDDI-VVLSGSLPPGV---PPDAYAELIRILR-QQGAKVILD 165 (310)
T ss_pred HHHHHHhcccCCE-EEEeCCCCCCC---CHHHHHHHHHHHH-hcCCeEEEE
Confidence 4444444445554 88888898885 4788999999999 678887753
No 354
>PRK08622 galactose-6-phosphate isomerase subunit LacB; Reviewed
Probab=43.94 E-value=1.2e+02 Score=21.74 Aligned_cols=64 Identities=3% Similarity=-0.200 Sum_probs=39.6
Q ss_pred EEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH-HHHHHhcCCCceEEEEeeEE
Q psy12591 48 IYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD-IVLKLLTKPRARGLFKRLKL 113 (144)
Q Consensus 48 i~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~-~l~~lk~~~~arvii~~~~~ 113 (144)
....|.-|..+.+.+.+.|++.|..|.-.-.....+.. =.++.. .-..+.+....|.|++|.+.
T Consensus 4 ~IgsDhaG~~lK~~l~~~L~~~G~eV~D~G~~~~e~~d--Ypd~a~~va~~V~~g~~d~GIliCGTG 68 (171)
T PRK08622 4 AIGCDHIVTDEKMAVSDYLKSKGHEVIDVGTYDFTRTH--YPIFGKKVGEAVASGEADLGVCICGTG 68 (171)
T ss_pred EEEeCcchHHHHHHHHHHHHHCCCEEEEcCCCCCCCCC--hHHHHHHHHHHHHcCCCcEEEEEcCCc
Confidence 34456677889999999999999988655444322211 123333 33445534456788888764
No 355
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=43.90 E-value=1.4e+02 Score=22.62 Aligned_cols=61 Identities=7% Similarity=0.038 Sum_probs=39.5
Q ss_pred cEEEEEEEe--CCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 43 SYVSIIYEE--SNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 43 ~~Vaii~~~--~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
+.|+++..+ +.|+....+.+.+.+++.|+.+..... ..+ .......+..+. ..+++.||+.
T Consensus 64 ~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~-~~~-----~~~~~~~~~~~~-~~~vdgiI~~ 126 (331)
T PRK14987 64 RAIGVLLPSLTNQVFAEVLRGIESVTDAHGYQTMLAHY-GYK-----PEMEQERLESML-SWNIDGLILT 126 (331)
T ss_pred CEEEEEeCCCcchhHHHHHHHHHHHHHHCCCEEEEecC-CCC-----HHHHHHHHHHHH-hcCCCEEEEc
Confidence 467887643 567788889999999999987754321 111 222334556666 4677877765
No 356
>COG0276 HemH Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]
Probab=43.80 E-value=1.6e+02 Score=23.27 Aligned_cols=87 Identities=9% Similarity=0.140 Sum_probs=51.3
Q ss_pred CchHHHHHHHHH----HHhCCCcEEEEEEE-----------eCCcchH---HHHHHHHHhh--hCceEEEEEecccCCCC
Q psy12591 25 SDHHQVKAMVEI----VKKLGWSYVSIIYE-----------ESNYGVK---AFEELEVLLA--KYSICIAIKEKLVKDSG 84 (144)
Q Consensus 25 ~d~~~~~a~~~l----l~~f~W~~Vaii~~-----------~~~~g~~---~~~~~~~~l~--~~Gi~V~~~~~~~~~~~ 84 (144)
.+.....++++. ++.++|+...++.+ +|.|-.. ....+.+.+. .....+.+...+.+.+.
T Consensus 161 ~~p~yI~a~a~~I~~~~~~~~~~~~~llfSaHglP~~~~~~GDpY~~q~~~t~~li~e~lg~~~~~~~~~~QS~~G~~~W 240 (320)
T COG0276 161 DEPLYIEALADSIREKLAKHPRDDDVLLFSAHGLPKRYIDEGDPYPQQCQETTRLIAEALGLPEEEYDLTFQSRFGPEPW 240 (320)
T ss_pred CChHHHHHHHHHHHHHHHhcCCCCeEEEEecCCCchhhhhcCCchHHHHHHHHHHHHHHcCCCchheeEEeecCCCCCCC
Confidence 444455666654 34566777777765 4455444 3444444544 45567777777776664
Q ss_pred CcchhhHHHHHHHHhcCCCce-EEEEeeEEe
Q psy12591 85 VAEETAYDDIVLKLLTKPRAR-GLFKRLKLV 114 (144)
Q Consensus 85 ~~~~~~~~~~l~~lk~~~~ar-vii~~~~~~ 114 (144)
+ ..+....+.+|. ..+.+ ++|++..++
T Consensus 241 L--~P~t~~~l~~L~-~~g~k~iiv~pigFv 268 (320)
T COG0276 241 L--QPYTDDLLEELG-EKGVKKIIVVPIGFV 268 (320)
T ss_pred C--CCCHHHHHHHHH-hcCCCeEEEECCchh
Confidence 3 456677888888 44555 555554433
No 357
>PRK09273 hypothetical protein; Provisional
Probab=43.69 E-value=1.3e+02 Score=22.27 Aligned_cols=68 Identities=10% Similarity=-0.037 Sum_probs=40.6
Q ss_pred EEEEEEEeCCcchH--HHHHHHHHhhhCceEEEEEecccCCC-CCcchhhHHHHHH-HHhcCCCceEEEEeeE
Q psy12591 44 YVSIIYEESNYGVK--AFEELEVLLAKYSICIAIKEKLVKDS-GVAEETAYDDIVL-KLLTKPRARGLFKRLK 112 (144)
Q Consensus 44 ~Vaii~~~~~~g~~--~~~~~~~~l~~~Gi~V~~~~~~~~~~-~~~~~~~~~~~l~-~lk~~~~arvii~~~~ 112 (144)
+|++|-+++.-.+. ..+.+.+.++++|..|.-.-.....+ ++ +=.++...+. .+.+....++|++|.+
T Consensus 2 kiali~e~sqa~kn~~i~~~L~~~L~~~G~eV~D~G~~~~~~~s~-dYpd~a~~vA~~V~~g~~d~GIliCGT 73 (211)
T PRK09273 2 KIALINENSQAAKNAIIYEALKKVADPKGHEVFNYGMYDEEDHQL-TYVQNGIMASILLNSKAVDFVVTGCGT 73 (211)
T ss_pred eEEeecccchhhhhHHHHHHHHHHHHHCCCEEEEeCCCCCCCCCC-ChHHHHHHHHHHHHcCCCCEEEEEcCc
Confidence 57888877766554 67889999999999886555443321 11 1123333333 3433344567777765
No 358
>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=43.66 E-value=1.3e+02 Score=21.93 Aligned_cols=54 Identities=20% Similarity=0.107 Sum_probs=35.0
Q ss_pred EecCCchH-HHHHHHHHHHhC--CCcEEEEEEEeCCc--chHHHHHHHHHhhhC-ceEEE
Q psy12591 21 RTIPSDHH-QVKAMVEIVKKL--GWSYVSIIYEESNY--GVKAFEELEVLLAKY-SICIA 74 (144)
Q Consensus 21 Rt~p~d~~-~~~a~~~ll~~f--~W~~Vaii~~~~~~--g~~~~~~~~~~l~~~-Gi~V~ 74 (144)
..+..|.. .+..+++.+... |.++++++....++ .....+.|++.+++. |+.+.
T Consensus 99 ~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~a~~~~~~~~~~ 158 (273)
T cd06310 99 SFVATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLEGLKEYPGIEIV 158 (273)
T ss_pred EEEeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHHHHHhCCCcEEE
Confidence 33445554 446667766555 89999999754333 234567788888888 87654
No 359
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=43.41 E-value=1.6e+02 Score=27.32 Aligned_cols=80 Identities=23% Similarity=0.216 Sum_probs=57.3
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
...+++++.+|= =++|+...+||.+.++.+.+.++.+|+.+.....-. ...+.... ....++.|--
T Consensus 325 e~~~elvk~lG~--GgLIfV~~d~G~e~aeel~e~Lr~~Gi~a~~~~a~~-----------~~~le~F~-~GeidvLVGv 390 (1187)
T COG1110 325 EKVVELVKKLGD--GGLIFVPIDYGREKAEELAEYLRSHGINAELIHAEK-----------EEALEDFE-EGEVDVLVGV 390 (1187)
T ss_pred HHHHHHHHHhCC--CeEEEEEcHHhHHHHHHHHHHHHhcCceEEEeeccc-----------hhhhhhhc-cCceeEEEEe
Confidence 456778888886 567788889999999999999999999886543211 34445555 5667777765
Q ss_pred eE--EeeeCCcchhhh
Q psy12591 111 LK--LVKDSGVAEETA 124 (144)
Q Consensus 111 ~~--~~~~~g~~~~~~ 124 (144)
++ .+.-.|+|....
T Consensus 391 AsyYG~lVRGlDLP~r 406 (1187)
T COG1110 391 ASYYGVLVRGLDLPHR 406 (1187)
T ss_pred cccccceeecCCchhh
Confidence 54 355678887654
No 360
>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=42.96 E-value=1.3e+02 Score=21.93 Aligned_cols=57 Identities=12% Similarity=0.124 Sum_probs=38.4
Q ss_pred ceEEecCCchHHHHHHHHHHHhC--CCcEEEEEEEeCCc--chHHHHHHHHHhhhC-ceEEE
Q psy12591 18 YFTRTIPSDHHQVKAMVEIVKKL--GWSYVSIIYEESNY--GVKAFEELEVLLAKY-SICIA 74 (144)
Q Consensus 18 ~ffRt~p~d~~~~~a~~~ll~~f--~W~~Vaii~~~~~~--g~~~~~~~~~~l~~~-Gi~V~ 74 (144)
++.+..+.+...+..+++.|... |-.+++++..+.+. .....+.|.+.++++ ++++.
T Consensus 98 ~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~~~~~~ 159 (273)
T cd06309 98 YVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAEVIKKYPNMKIV 159 (273)
T ss_pred eeeEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHHHHHHCCCCEEe
Confidence 45666777777778888876555 88899999754322 234567788888876 45543
No 361
>PRK03670 competence damage-inducible protein A; Provisional
Probab=42.93 E-value=1.5e+02 Score=22.51 Aligned_cols=61 Identities=15% Similarity=0.108 Sum_probs=38.4
Q ss_pred EEEEEEeCCc--ch---HHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 45 VSIIYEESNY--GV---KAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 45 Vaii~~~~~~--g~---~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
++||...++- |+ .....+.+.+.+.|+.+.....++.+ ...+.+.|.+.. ....++||+..
T Consensus 3 a~Ii~iGdEll~G~i~dtN~~~la~~L~~~G~~v~~~~iV~Dd-----~~~I~~~l~~a~-~~~~DlVIttG 68 (252)
T PRK03670 3 AEIITVGDELLTGNTVDSNSAFIAQKLTEKGYWVRRITTVGDD-----VEEIKSVVLEIL-SRKPEVLVISG 68 (252)
T ss_pred EEEEEeCCcCcCCeEEehhHHHHHHHHHHCCCEEEEEEEcCCC-----HHHHHHHHHHHh-hCCCCEEEECC
Confidence 4555544432 32 24557888899999988776666654 456777777654 23457777664
No 362
>PRK14171 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=42.59 E-value=1.6e+02 Score=22.89 Aligned_cols=75 Identities=13% Similarity=0.092 Sum_probs=49.3
Q ss_pred EEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
+.++|..+++.. ....+.-.+.+++-|+..... .++.+. +++++.+.+++|-..++..-|++.... ..+++..
T Consensus 34 ~LaiI~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~-~l~~~~---~~~~l~~~I~~LN~D~~V~GIlvqlPL--P~~id~~ 107 (288)
T PRK14171 34 KLAIVLVGDNPASIIYVKNKIKNAHKIGIDTLLV-NLSTTI---HTNDLISKINELNLDNEISGIIVQLPL--PSSIDKN 107 (288)
T ss_pred eEEEEEeCCCccHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHcCCCCCCEEEEeCCC--CCCCCHH
Confidence 467776655554 445667788888999877543 466554 367888899988756677778877543 2345544
Q ss_pred hh
Q psy12591 123 TA 124 (144)
Q Consensus 123 ~~ 124 (144)
.+
T Consensus 108 ~i 109 (288)
T PRK14171 108 KI 109 (288)
T ss_pred HH
Confidence 33
No 363
>KOG3131|consensus
Probab=42.31 E-value=61 Score=24.74 Aligned_cols=83 Identities=17% Similarity=0.211 Sum_probs=52.0
Q ss_pred CchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCC----C-----CcchhhHHHHH
Q psy12591 25 SDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDS----G-----VAEETAYDDIV 95 (144)
Q Consensus 25 ~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~----~-----~~~~~~~~~~l 95 (144)
+..+|..-++.+.++|+|.-+-+-+.|-.+-.+ =.+.++..|.||-.....+... + ..+..-+..+|
T Consensus 98 ~a~~Qlal~iei~r~fk~~~~~~s~fDPvf~k~----E~eyLeslG~cvLs~~e~~~~ealkpTLyylPHcp~~LyeNiL 173 (281)
T KOG3131|consen 98 HALHQLALVIEIHRHFKIRDVEASYFDPVFRKS----EKEYLESLGGCVLSKDEAGKHEALKPTLYYLPHCPYALYENIL 173 (281)
T ss_pred cHHHHHHHHHHHHHHhccccceeeeeCcchhhh----HHHHHHhcCCeEeccCccccccccceeeEecCCCchHHHHHHH
Confidence 456788888899999999987777766655433 3445667799987665544431 1 01334455566
Q ss_pred HH-HhcCCCceEEEEeeE
Q psy12591 96 LK-LLTKPRARGLFKRLK 112 (144)
Q Consensus 96 ~~-lk~~~~arvii~~~~ 112 (144)
.. -+ ..+.+-++||..
T Consensus 174 ~snw~-~Drl~k~~LcgN 190 (281)
T KOG3131|consen 174 WSNWK-RDRLPKVFLCGN 190 (281)
T ss_pred HHhhh-hccccceEEecC
Confidence 54 34 355666667654
No 364
>PRK14178 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=42.25 E-value=1.6e+02 Score=22.78 Aligned_cols=80 Identities=15% Similarity=0.138 Sum_probs=51.9
Q ss_pred hCCCc-EEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeee
Q psy12591 39 KLGWS-YVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKD 116 (144)
Q Consensus 39 ~f~W~-~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~ 116 (144)
++|.+ +.++|..+++.. ....+.-.+.+++-|+..... .++.+. +++++.+.+.+|-..++..-|++.... .
T Consensus 22 ~lg~~P~Laii~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~-~l~~~~---~~~el~~~I~~lN~D~~V~GIlvqlPL--p 95 (279)
T PRK14178 22 ESGLYPRLATVIVGDDPASQMYVRMKHRACERVGIGSVGI-ELPGDA---TTRTVLERIRRLNEDPDINGILVQLPL--P 95 (279)
T ss_pred HhCCCCeEEEEEeCCChhHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHhCCCCCCeEEEcCCC--C
Confidence 34543 466776655554 446677778888999887544 356554 377888999988756777778877543 2
Q ss_pred CCcchhhh
Q psy12591 117 SGVAEETA 124 (144)
Q Consensus 117 ~g~~~~~~ 124 (144)
.+++...+
T Consensus 96 ~~i~~~~v 103 (279)
T PRK14178 96 KGVDTERV 103 (279)
T ss_pred CCCCHHHH
Confidence 45554433
No 365
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=42.23 E-value=1.6e+02 Score=22.68 Aligned_cols=28 Identities=7% Similarity=0.023 Sum_probs=16.5
Q ss_pred cEEEEEEEe--CCcchHHHHHHHHHhhhCc
Q psy12591 43 SYVSIIYEE--SNYGVKAFEELEVLLAKYS 70 (144)
Q Consensus 43 ~~Vaii~~~--~~~g~~~~~~~~~~l~~~G 70 (144)
+.|+++..+ +.|.....+.+++.+++.|
T Consensus 25 ~~Igvv~~~~~~~f~~~~~~gi~~~a~~~g 54 (330)
T PRK15395 25 TRIGVTIYKYDDNFMSVVRKAIEKDAKAAP 54 (330)
T ss_pred ceEEEEEecCcchHHHHHHHHHHHHHHhcC
Confidence 456666532 3455666666777777664
No 366
>PRK03604 moaC bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional
Probab=42.09 E-value=1.7e+02 Score=23.01 Aligned_cols=62 Identities=5% Similarity=-0.044 Sum_probs=41.6
Q ss_pred EEEEEEEeCC--cc---hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 44 YVSIIYEESN--YG---VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 44 ~Vaii~~~~~--~g---~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
.++++...|. .| ......+...+++.|..+.....++++ ...+.+.++++. ..++++||.-.
T Consensus 157 ~~aIltvsde~~~G~i~Dsn~~~L~~~L~~~G~~v~~~~iVpDD-----~~~I~~al~~a~-~~~~DlIITTG 223 (312)
T PRK03604 157 SAAVLVLSDSIAAGTKEDRSGKLIVEGLEEAGFEVSHYTIIPDE-----PAEIAAAVAAWI-AEGYALIITTG 223 (312)
T ss_pred EEEEEEECCcCCCCcEEEhHHHHHHHHHHHCCCEEEEEEEcCCC-----HHHHHHHHHHhh-hCCCCEEEECC
Confidence 3667765553 23 235667888899999998877777655 456777777764 24577776653
No 367
>PLN03194 putative disease resistance protein; Provisional
Probab=42.05 E-value=1e+02 Score=22.43 Aligned_cols=58 Identities=12% Similarity=0.259 Sum_probs=33.0
Q ss_pred CCCceEEecCCch--HHHHHHHHHHHhCCCcEEEEEEEeC--CcchHHHHHHHHHhhhCceEEEE
Q psy12591 15 RFEYFTRTIPSDH--HQVKAMVEIVKKLGWSYVSIIYEES--NYGVKAFEELEVLLAKYSICIAI 75 (144)
Q Consensus 15 ~~p~ffRt~p~d~--~~~~a~~~ll~~f~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~Gi~V~~ 75 (144)
.|.-|..-...|+ ..+.-+..-|..-| +-+..++. ..|......+.+++++..++|+.
T Consensus 26 ~yDVFISFrG~DtR~~FvshL~~aL~~~G---I~vF~D~~el~~G~~i~~~L~~AIeeSri~IvV 87 (187)
T PLN03194 26 PCDVFINHRGIDTKRTIATLLYDHLSRLN---LRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAV 87 (187)
T ss_pred CCcEEEeCCCccccccHHHHHHHHHHHCC---CEEEEcCccccCCCcHHHHHHHHHHhCeEEEEE
Confidence 4677777766664 23444455455444 33333332 24566677777777777777653
No 368
>PRK14186 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=41.97 E-value=1.7e+02 Score=22.90 Aligned_cols=78 Identities=17% Similarity=0.199 Sum_probs=50.7
Q ss_pred CCc-EEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCC
Q psy12591 41 GWS-YVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSG 118 (144)
Q Consensus 41 ~W~-~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g 118 (144)
|.+ +.++|..+++.. ....+.-.+.+++-|+.....+ ++.+. +++++.+.+.+|-+.++..-|++.... ..+
T Consensus 30 g~~p~LaiI~vgdd~as~~Yv~~k~k~a~~~Gi~~~~~~-l~~~~---~~~el~~~I~~lN~D~~V~GIivq~PL--P~~ 103 (297)
T PRK14186 30 GRPPGLAVLRVGDDPASAVYVRNKEKACARVGIASFGKH-LPADT---SQAEVEALIAQLNQDERVDGILLQLPL--PKH 103 (297)
T ss_pred CCCceEEEEEeCCChHHHHHHHHHHHHHHHcCCEEEEEE-CCCCC---CHHHHHHHHHHHhCCCCCCEEEEeCCC--CCC
Confidence 443 477776665544 4467777788888998775443 55443 377888999999766677788877543 245
Q ss_pred cchhhh
Q psy12591 119 VAEETA 124 (144)
Q Consensus 119 ~~~~~~ 124 (144)
++...+
T Consensus 104 i~~~~i 109 (297)
T PRK14186 104 LDEVPL 109 (297)
T ss_pred CCHHHH
Confidence 544433
No 369
>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=41.92 E-value=1.4e+02 Score=22.03 Aligned_cols=83 Identities=16% Similarity=0.175 Sum_probs=46.9
Q ss_pred CCchHHHHHHHHHHHhCCCcEEEEEEEeC--CcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhc-
Q psy12591 24 PSDHHQVKAMVEIVKKLGWSYVSIIYEES--NYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLT- 100 (144)
Q Consensus 24 p~d~~~~~a~~~ll~~f~W~~Vaii~~~~--~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~- 100 (144)
..+..-+..+++.|...|.++++++.... ..+......|.+.+++.|+..... .+....+ ..+-...++++..
T Consensus 100 ~d~~~~~~~a~~~L~~~G~~~I~~i~~~~~~~~~~~R~~gf~~a~~~~g~~~~~~-~~~~~~~---~~~~~~~~~~~l~~ 175 (269)
T cd06287 100 LQSAATARMLLEHLRAQGARQIALIVGSARRNSYLEAEAAYRAFAAEHGMPPVVL-RVDEAGG---EEAGYAACAQLLAQ 175 (269)
T ss_pred eCcHHHHHHHHHHHHHcCCCcEEEEeCCcccccHHHHHHHHHHHHHHcCCCccee-EecCCCC---hHHHHHHHHHHHhC
Confidence 34444556667777777999999996432 334456678888999888754321 1111111 1222344455432
Q ss_pred CCCceEEEEe
Q psy12591 101 KPRARGLFKR 110 (144)
Q Consensus 101 ~~~arvii~~ 110 (144)
.+..++|++.
T Consensus 176 ~~~~~ai~~~ 185 (269)
T cd06287 176 HPDLDALCVP 185 (269)
T ss_pred CCCCCEEEEc
Confidence 2346777765
No 370
>PRK14690 molybdopterin biosynthesis protein MoeA; Provisional
Probab=41.86 E-value=1.5e+02 Score=24.25 Aligned_cols=75 Identities=12% Similarity=0.100 Sum_probs=47.8
Q ss_pred HHHHHHHHHhCCCcE--------EEEEEEeCC---------cc---hHHHHHHHHHhhhCceEEEEEecccCCCCCcchh
Q psy12591 30 VKAMVEIVKKLGWSY--------VSIIYEESN---------YG---VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEET 89 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~--------Vaii~~~~~---------~g---~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~ 89 (144)
....+.+|..+|..+ |+|+...++ .| ......+...+++.|+.+......+.+ .+
T Consensus 173 ~p~~i~~Las~G~~~V~V~~~prV~IisTGdEl~~~g~~~~~g~i~dsN~~~L~a~l~~~G~~v~~~~~v~Dd-----~~ 247 (419)
T PRK14690 173 TPADLALLSAVGLTRVSVRRPLRVAVLSTGDELVEPGALAEVGQIYDANRPMLLALARRWGHAPVDLGRVGDD-----RA 247 (419)
T ss_pred CHHHHHHHHhCCCCeeEeecCCEEEEEEccccccCCCCCCCCCeEEeCHHHHHHHHHHHCCCEEEEEeeeCCC-----HH
Confidence 345566677777444 567765443 12 234567788899999888766666544 56
Q ss_pred hHHHHHHHHhcCCCceEEEEee
Q psy12591 90 AYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 90 ~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+.+.|++.. .++++||...
T Consensus 248 ~i~~~l~~a~--~~~DlIItTG 267 (419)
T PRK14690 248 ALAARLDRAA--AEADVILTSG 267 (419)
T ss_pred HHHHHHHHhC--ccCCEEEEcC
Confidence 6777777664 4577777654
No 371
>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=41.86 E-value=1.3e+02 Score=21.78 Aligned_cols=52 Identities=15% Similarity=0.146 Sum_probs=34.1
Q ss_pred ecCCchHHHHHHHHHHHhC--CCcEEEEEEEeCC-cchHHHHHHHHHhhhC-ceEE
Q psy12591 22 TIPSDHHQVKAMVEIVKKL--GWSYVSIIYEESN-YGVKAFEELEVLLAKY-SICI 73 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f--~W~~Vaii~~~~~-~g~~~~~~~~~~l~~~-Gi~V 73 (144)
...++...+..+++.+... |.++++++..... ......+.|.+.+++. |++.
T Consensus 99 V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~g~~~~~~~~R~~g~~~~~~~~~~~~~ 154 (271)
T cd06321 99 VTTDNVQAGEISCQYLADRLGGKGNVAILNGPPVSAVLDRVAGCKAALAKYPGIKL 154 (271)
T ss_pred eeechHHHHHHHHHHHHHHhCCCceEEEEeCCCCchHHHHHHHHHHHHHhCCCcEE
Confidence 3444455566677776655 9999999975432 2344567788888887 6653
No 372
>TIGR01119 lacB galactose-6-phosphate isomerase, LacB subunit. This family contains four members from low GC gram-positive bacteria. Galactose-6-phosphate isomerase is involved in lactose catabolism by the tagatose-6-phosphate pathway.
Probab=41.85 E-value=1.3e+02 Score=21.56 Aligned_cols=64 Identities=5% Similarity=-0.144 Sum_probs=39.3
Q ss_pred EEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH-HHHHHhcCCCceEEEEeeEE
Q psy12591 48 IYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD-IVLKLLTKPRARGLFKRLKL 113 (144)
Q Consensus 48 i~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~-~l~~lk~~~~arvii~~~~~ 113 (144)
....|.-|..+.+.+.+.|+++|..|.-.-.....+.. =.++.. .-..+.+....+.|++|.+.
T Consensus 4 ~igsDhaG~~lK~~l~~~L~~~G~eV~D~G~~~~~~~d--Ypd~a~~va~~V~~g~~~~GIliCGTG 68 (171)
T TIGR01119 4 AIGCDHIVTDVKMEVSEFLKSKGYEVLDVGTYDFTRTH--YPIFGKKVGEAVVSGEADLGVCICGTG 68 (171)
T ss_pred EEEeCCchHHHHHHHHHHHHHCCCEEEEeCCCCCCCCC--hHHHHHHHHHHHHcCCCCEEEEEcCCc
Confidence 33455678899999999999999988654433322211 123333 33445434456788888764
No 373
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=41.77 E-value=87 Score=19.78 Aligned_cols=69 Identities=13% Similarity=0.065 Sum_probs=43.8
Q ss_pred CcchHHHHHHHHHhhhCceEEEEEecc--cCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchhhhhH
Q psy12591 53 NYGVKAFEELEVLLAKYSICIAIKEKL--VKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEETAYD 126 (144)
Q Consensus 53 ~~g~~~~~~~~~~l~~~Gi~V~~~~~~--~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~~~~~ 126 (144)
++.+.......+.+++.|..|...... +.+. ..+.-++.-+..|. .++.|+++..|-.+.|...|-.+.
T Consensus 12 ~~N~~~f~~~a~~L~~~G~~vvnPa~~~~~~~~--~~~~ym~~~l~~L~---~cD~i~~l~gWe~S~GA~~E~~~A 82 (92)
T PF14359_consen 12 DYNRPAFNAAAKRLRAKGYEVVNPAELGIPEGL--SWEEYMRICLAMLS---DCDAIYMLPGWENSRGARLEHELA 82 (92)
T ss_pred chHHHHHHHHHHHHHHCCCEEeCchhhCCCCCC--CHHHHHHHHHHHHH---hCCEEEEcCCcccCcchHHHHHHH
Confidence 455556666778888999777654433 3322 12344555666665 588899988777777776654443
No 374
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=41.59 E-value=1.1e+02 Score=24.91 Aligned_cols=46 Identities=13% Similarity=0.135 Sum_probs=20.3
Q ss_pred HHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 59 FEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 59 ~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
.+.+.+.+++.|+.++....... +..+.++...+++ +.+.+.||++
T Consensus 25 ~~~~~~~l~~~~~~vv~~~~~~~-----~~~~~~~~~~~~~-~~~~d~ii~~ 70 (452)
T cd00578 25 AREVADLLNELPVEVVDKPEVTG-----TPDEARKAAEEFN-EANCDGLIVW 70 (452)
T ss_pred HHHHHHHHhcCCceEEecCcccC-----CHHHHHHHHHHHh-hcCCcEEEEc
Confidence 34444444444554444332221 1345555555555 2345555444
No 375
>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=41.30 E-value=1.4e+02 Score=21.82 Aligned_cols=50 Identities=6% Similarity=-0.087 Sum_probs=33.4
Q ss_pred cCCchHHHHHHHHHHHhCCCcEEEEEEEeC--C------cchHHHHHHHHHhhhCceEE
Q psy12591 23 IPSDHHQVKAMVEIVKKLGWSYVSIIYEES--N------YGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 23 ~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~--~------~g~~~~~~~~~~l~~~Gi~V 73 (144)
.+++..-+..+++.|... .++++++.... . .+....+.|++.+++.|+.+
T Consensus 95 ~~d~~~~g~~a~~~L~~~-~~~i~~i~~~~~~~~~~~~~~~~~R~~gf~~~~~~~g~~~ 152 (269)
T cd06297 95 YLDNRLGGRLAGAYLADF-PGRIGAITVEEEPDRAFRRTVFAERRAGFQQALKDAGRPF 152 (269)
T ss_pred EECcHHHHHHHHHHHHHh-CCceEEEeCccccccccccccHHHHHHHHHHHHHHcCCCC
Confidence 345555566666766555 79999886432 2 34456788899998888764
No 376
>PF09338 Gly_reductase: Glycine/sarcosine/betaine reductase component B subunits; InterPro: IPR015417 This is a family of glycine reductase, sarcosine reductase and betaine reductases. These enzymes catalyse the following reactions: sarcosine reductase: Acetyl phosphate + methylamine + thioredoxin disulphide = N-methylglycine + phosphate + thioredoxin. glycine reductase: Acetyl phosphate + NH3 + thioredoxin disulphide = glycine + phosphate + thioredoxin. betaine reductase: Acetyl phosphate + trimethylamine + thioredoxin disulphide = N,N,N-trimethylglycine + phosphate + thioredoxin. ; GO: 0050485 oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond, with a disulfide as acceptor, 0055114 oxidation-reduction process
Probab=41.16 E-value=2.1e+02 Score=23.71 Aligned_cols=88 Identities=15% Similarity=0.203 Sum_probs=56.5
Q ss_pred CCchHHHHHHHH-HHHhC--CCcEEEEEEEeCCc-------chHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH
Q psy12591 24 PSDHHQVKAMVE-IVKKL--GWSYVSIIYEESNY-------GVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD 93 (144)
Q Consensus 24 p~d~~~~~a~~~-ll~~f--~W~~Vaii~~~~~~-------g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~ 93 (144)
++..+|...+++ |+++. .++-+++|..+..- .......+.+.|...| .|...+.+-.. +.|+..
T Consensus 250 tTy~h~n~P~i~~Ly~~HGkdinF~GVI~~~~~~~~~~K~r~s~~~~~la~~LgaDG-aIvs~eG~GN~-----d~D~~~ 323 (428)
T PF09338_consen 250 TTYHHQNNPLIKELYKRHGKDINFVGVIITNENVTLADKERVSQRAAKLAEMLGADG-AIVSEEGFGNP-----DVDFAM 323 (428)
T ss_pred cChhhccChHHHHHHHhcCCceEEEEEEEeCCccchHHHHHHHHHHHHHHHHhCCCE-EEEEecCCCch-----hHHHHH
Confidence 455566666664 77766 47788988765432 2233444555555555 46666777532 789999
Q ss_pred HHHHHhcCCCceEEEEeeEEeeeCC
Q psy12591 94 IVLKLLTKPRARGLFKRLKLVKDSG 118 (144)
Q Consensus 94 ~l~~lk~~~~arvii~~~~~~~~~g 118 (144)
.+.++- +.+-+++.+-+.....+|
T Consensus 324 ~~~~~e-~~GIktV~it~e~~G~dG 347 (428)
T PF09338_consen 324 NIEEIE-KRGIKTVGITDEYAGRDG 347 (428)
T ss_pred HHHHHH-HCCCCEEEecceeeccCC
Confidence 999998 678888877665554444
No 377
>TIGR01019 sucCoAalpha succinyl-CoA synthetase, alpha subunit. ATP citrate lyases appear to form an outgroup.
Probab=40.90 E-value=1.5e+02 Score=22.89 Aligned_cols=23 Identities=9% Similarity=0.205 Sum_probs=11.2
Q ss_pred hHHHHHHHHhcCCCceEEEEeeE
Q psy12591 90 AYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 90 ~~~~~l~~lk~~~~arvii~~~~ 112 (144)
++.+.|.-+.+.++.|+|+++..
T Consensus 185 ~~~D~l~~l~~Dp~T~~I~lylE 207 (286)
T TIGR01019 185 SFIDVLEAFEKDPETEAIVMIGE 207 (286)
T ss_pred CHHHHHHHHhhCCCCcEEEEEEe
Confidence 44444444443455555555543
No 378
>PF00456 Transketolase_N: Transketolase, thiamine diphosphate binding domain; InterPro: IPR005474 Transketolase 2.2.1.1 from EC (TK) catalyzes the reversible transfer of a two-carbon ketol unit from xylulose 5-phosphate to an aldose receptor, such as ribose 5-phosphate, to form sedoheptulose 7-phosphate and glyceraldehyde 3- phosphate. This enzyme, together with transaldolase, provides a link between the glycolytic and pentose-phosphate pathways. TK requires thiamine pyrophosphate as a cofactor. In most sources where TK has been purified, it is a homodimer of approximately 70 Kd subunits. TK sequences from a variety of eukaryotic and prokaryotic sources [, ] show that the enzyme has been evolutionarily conserved. In the peroxisomes of methylotrophic yeast Pichia angusta (Yeast) (Hansenula polymorpha), there is a highly related enzyme, dihydroxy-acetone synthase (DHAS) 2.2.1.3 from EC (also known as formaldehyde transketolase), which exhibits a very unusual specificity by including formaldehyde amongst its substrates. 1-deoxyxylulose-5-phosphate synthase (DXP synthase) [] is an enzyme so far found in bacteria (gene dxs) and plants (gene CLA1) which catalyzes the thiamine pyrophosphoate-dependent acyloin condensation reaction between carbon atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D- xylulose-5-phosphate (dxp), a precursor in the biosynthetic pathway to isoprenoids, thiamine (vitamin B1), and pyridoxol (vitamin B6). DXP synthase is evolutionary related to TK. The N-terminal section, contains a histidine residue which appears to function in proton transfer during catalysis []. In the central section there are conserved acidic residues that are part of the active cleft and may participate in substrate-binding []. This family includes transketolase enzymes 2.2.1.1 from EC and also partially matches to 2-oxoisovalerate dehydrogenase beta subunit P37941 from SWISSPROT 1.2.4.4 from EC. Both these enzymes utilise thiamine pyrophosphate as a cofactor, suggesting there may be common aspects in their mechanism of catalysis.; PDB: 3M49_B 1NGS_B 1TKA_A 1TRK_B 1TKB_A 1GPU_B 1AY0_B 1TKC_B 3HYL_A 3RIM_A ....
Probab=40.73 E-value=1.8e+02 Score=22.98 Aligned_cols=79 Identities=10% Similarity=0.146 Sum_probs=45.6
Q ss_pred HHHHHhCCCcEEEEEEEeCCcc------hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEE
Q psy12591 34 VEIVKKLGWSYVSIIYEESNYG------VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGL 107 (144)
Q Consensus 34 ~~ll~~f~W~~Vaii~~~~~~g------~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvi 107 (144)
+.+..+++-..+.+|++++... ....+.+.+.++.-|..|... ..+. +-..+.+.+.+.+. ..-+..
T Consensus 164 ~~~A~~~~L~nLi~i~D~N~~q~dg~~~~~~~~~~~~k~~a~Gw~v~~v---~dGh---d~~~i~~A~~~a~~-~~~kP~ 236 (332)
T PF00456_consen 164 ASLAGHYKLDNLIVIYDSNGIQIDGPTDIVFSEDIAKKFEAFGWNVIEV---CDGH---DVEAIYAAIEEAKA-SKGKPT 236 (332)
T ss_dssp HHHHHHTT-TTEEEEEEEESEETTEEGGGTHHSHHHHHHHHTT-EEEEE---EETT---BHHHHHHHHHHHHH-STSS-E
T ss_pred HHHHHHhCCCCEEEEEecCCcccCCCcccccchHHHHHHHHhhhhhccc---ccCc---HHHHHHHHHHHHHh-cCCCCc
Confidence 4566889998888888765432 123466788899999988654 1221 24556667766663 323444
Q ss_pred EEeeEEeeeCCc
Q psy12591 108 FKRLKLVKDSGV 119 (144)
Q Consensus 108 i~~~~~~~~~g~ 119 (144)
++.+..++..|+
T Consensus 237 ~Ii~~TvkG~G~ 248 (332)
T PF00456_consen 237 VIIARTVKGKGV 248 (332)
T ss_dssp EEEEEE-TTTTS
T ss_pred eeecceEEecCc
Confidence 444555566666
No 379
>cd01029 TOPRIM_primases TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. 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. The prototypical bacterial primase. Escherichia coli DnaG is a single subunit enzyme.
Probab=40.65 E-value=77 Score=18.66 Aligned_cols=33 Identities=18% Similarity=0.114 Sum_probs=24.1
Q ss_pred CcEEEEEEEeCCcchHHHHHHHHHhhhCceEEE
Q psy12591 42 WSYVSIIYEESNYGVKAFEELEVLLAKYSICIA 74 (144)
Q Consensus 42 W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~ 74 (144)
-++|.+..++|.-|........+.+...|..+.
T Consensus 43 ~~~vii~~D~D~~G~~~~~~~~~~~~~~~~~~~ 75 (79)
T cd01029 43 ARTVILAFDNDEAGKKAAARALELLLALGGRVR 75 (79)
T ss_pred CCEEEEEECCCHHHHHHHHHHHHHHHHCCCEEE
Confidence 477888888888887777777777777665443
No 380
>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=40.54 E-value=1.4e+02 Score=21.75 Aligned_cols=15 Identities=0% Similarity=0.085 Sum_probs=7.3
Q ss_pred HHHHHHHHhCCCcEE
Q psy12591 31 KAMVEIVKKLGWSYV 45 (144)
Q Consensus 31 ~a~~~ll~~f~W~~V 45 (144)
..+.+.++..|++-+
T Consensus 19 ~~i~~~~~~~gy~~~ 33 (269)
T cd06297 19 EGIEGALLEQRYDLA 33 (269)
T ss_pred HHHHHHHHHCCCEEE
Confidence 344444555555433
No 381
>cd00887 MoeA MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MoeA, together with MoaB, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes.
Probab=40.30 E-value=1.5e+02 Score=23.91 Aligned_cols=76 Identities=18% Similarity=0.135 Sum_probs=46.6
Q ss_pred HHHHHHHHHHhCCCcE--------EEEEEEeCCc---------c---hHHHHHHHHHhhhCceEEEEEecccCCCCCcch
Q psy12591 29 QVKAMVEIVKKLGWSY--------VSIIYEESNY---------G---VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEE 88 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~--------Vaii~~~~~~---------g---~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~ 88 (144)
.....+.+|...|-.+ |+++...++- | ......+...+++.|..+.....++.+ .
T Consensus 147 l~p~~i~~Las~Gi~~v~V~~~~rv~ii~tGdEl~~~g~~~~~g~i~dsn~~~l~~~l~~~G~~~~~~~~v~Dd-----~ 221 (394)
T cd00887 147 LTPADIGLLASLGIAEVPVYRRPRVAIISTGDELVEPGEPLAPGQIYDSNSYMLAALLRELGAEVVDLGIVPDD-----P 221 (394)
T ss_pred CCHHHHHHHHhCCCCEEEEecCCEEEEEeCCCcccCCCCCCCCCEEEEChHHHHHHHHHHCCCEEEEeceeCCC-----H
Confidence 3445566666777555 4555544431 2 234567777888889888766666544 4
Q ss_pred hhHHHHHHHHhcCCCceEEEEee
Q psy12591 89 TAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 89 ~~~~~~l~~lk~~~~arvii~~~ 111 (144)
..+.+.|++.. ..+++||...
T Consensus 222 ~~i~~~l~~a~--~~~DliittG 242 (394)
T cd00887 222 EALREALEEAL--EEADVVITSG 242 (394)
T ss_pred HHHHHHHHHHh--hCCCEEEEeC
Confidence 56777776665 3477777654
No 382
>PF14097 SpoVAE: Stage V sporulation protein AE1
Probab=40.11 E-value=1.4e+02 Score=21.49 Aligned_cols=58 Identities=16% Similarity=0.157 Sum_probs=31.7
Q ss_pred EEEEEEeCCcchHHHHHHHHHhhh-CceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 45 VSIIYEESNYGVKAFEELEVLLAK-YSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 45 Vaii~~~~~~g~~~~~~~~~~l~~-~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
|.++++.|.+ ..+.++..+++ .|-||+.+..=|.. -+=..+++-||+++.--|+|||.
T Consensus 2 VIlvTDGD~~---A~ravE~aa~~iGgRCIS~S~GNPT~------lsG~elV~lIk~a~~DPV~VMfD 60 (180)
T PF14097_consen 2 VILVTDGDEY---AKRAVEIAAKNIGGRCISQSAGNPTP------LSGEELVELIKQAPHDPVLVMFD 60 (180)
T ss_pred EEEEECChHH---HHHHHHHHHHHhCcEEEeccCCCCCc------CCHHHHHHHHHhCCCCCEEEEEe
Confidence 4555655555 34555566666 45788766543321 22244556566444444777775
No 383
>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=40.08 E-value=1.4e+02 Score=21.55 Aligned_cols=53 Identities=23% Similarity=0.161 Sum_probs=33.8
Q ss_pred ecCCchHHHHHHHHHHHhC--CCcEEEEEEEeCC-cchHHHHHHHHHhhhC-ceEEE
Q psy12591 22 TIPSDHHQVKAMVEIVKKL--GWSYVSIIYEESN-YGVKAFEELEVLLAKY-SICIA 74 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f--~W~~Vaii~~~~~-~g~~~~~~~~~~l~~~-Gi~V~ 74 (144)
..+....-+..+++.+... |-++++++...+. ......+.|++.+++. |+.+.
T Consensus 99 v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~~~~~~~~~~ 155 (267)
T cd06322 99 VATDNYAGGVLAGELAAKVLNGKGQVAIIDYPTVQSVVDRVRGFKEALADYPNIKIV 155 (267)
T ss_pred EecChHHHHHHHHHHHHHHhCCCceEEEEecCCCccHHHHHHHHHHHHHhCCCcEEE
Confidence 3344444556667766544 7889999974332 2334567788888887 88763
No 384
>PRK14466 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=39.98 E-value=1.6e+02 Score=23.49 Aligned_cols=17 Identities=29% Similarity=0.221 Sum_probs=8.7
Q ss_pred HHHHHHHHHhhhCceEE
Q psy12591 57 KAFEELEVLLAKYSICI 73 (144)
Q Consensus 57 ~~~~~~~~~l~~~Gi~V 73 (144)
.-+..+.+.++..+..|
T Consensus 266 e~a~~L~~ll~~~~~~V 282 (345)
T PRK14466 266 KHAKELVKLLRGIDCRV 282 (345)
T ss_pred HHHHHHHHHHcCCCceE
Confidence 44555666655544333
No 385
>PRK09492 treR trehalose repressor; Provisional
Probab=39.69 E-value=1.6e+02 Score=22.05 Aligned_cols=62 Identities=15% Similarity=0.003 Sum_probs=40.1
Q ss_pred cEEEEEEEe--CCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 43 SYVSIIYEE--SNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 43 ~~Vaii~~~--~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+.|+++..+ +.|.....+.+.+.+.+.|..+..... ..+ .......+..+. ..+.+.+|++.
T Consensus 63 ~~Ig~i~~~~~~~~~~~~~~~i~~~~~~~gy~~~~~~~-~~~-----~~~~~~~~~~l~-~~~vdgiIi~~ 126 (315)
T PRK09492 63 KVVGIIVSRLDSLSENQAVRTMLPAFYEQGYDPIIMES-QFS-----PEKVNEHLGVLK-RRNVDGVILFG 126 (315)
T ss_pred CeEEEEecCCcCcccHHHHHHHHHHHHHcCCeEEEEec-CCC-----hHHHHHHHHHHH-hcCCCEEEEeC
Confidence 468888753 457778889999999999987754322 111 223345566676 46677777653
No 386
>PLN02699 Bifunctional molybdopterin adenylyltransferase/molybdopterin molybdenumtransferase
Probab=39.66 E-value=2.5e+02 Score=24.50 Aligned_cols=77 Identities=10% Similarity=0.026 Sum_probs=49.0
Q ss_pred HHHHHHHHHHhCCCcEE--------EEEEEeCCc---c----------hHHHHHHHHHhhhCceEEEEEecccCCCCCcc
Q psy12591 29 QVKAMVEIVKKLGWSYV--------SIIYEESNY---G----------VKAFEELEVLLAKYSICIAIKEKLVKDSGVAE 87 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~V--------aii~~~~~~---g----------~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~ 87 (144)
.....+.+|...|+.+| +++...++- | ......+...+++.|+.+.....++.+
T Consensus 160 l~p~~i~lLas~Gi~~V~V~~kprV~visTGdELv~~g~~~~~~g~i~dsN~~~L~a~l~~~G~~v~~~~iv~Dd----- 234 (659)
T PLN02699 160 LGASEIGLLATVGVTMVKVYPRPTVAILSTGDELVEPTTGTLGRGQIRDSNRAMLLAAAIQQQCKVVDLGIARDD----- 234 (659)
T ss_pred CCHHHHHHHHHCCCCeEEeecCCeEEEEeCCcccccCCCCCCCCCcEEeChHHHHHHHHHHCCCEEEEEEEeCCC-----
Confidence 34455667778887665 555544432 1 112456788889999888777666654
Q ss_pred hhhHHHHHHHHhcCCCceEEEEee
Q psy12591 88 ETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 88 ~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
...+.+.|+++. .+++++||.-.
T Consensus 235 ~~~i~~~l~~a~-~~~~DlvItTG 257 (659)
T PLN02699 235 EEELERILDEAI-SSGVDILLTSG 257 (659)
T ss_pred HHHHHHHHHHhh-cCCCCEEEECC
Confidence 456777777765 35678877653
No 387
>cd08508 PBP2_NikA_DppA_OppA_like_1 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most si
Probab=39.59 E-value=1.2e+02 Score=24.60 Aligned_cols=45 Identities=11% Similarity=0.203 Sum_probs=33.1
Q ss_pred HHHHHHHHhCCCc---EEEEEEEeCCcchHHHHHHHHHhhhCceEEEE
Q psy12591 31 KAMVEIVKKLGWS---YVSIIYEESNYGVKAFEELEVLLAKYSICIAI 75 (144)
Q Consensus 31 ~a~~~ll~~f~W~---~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~ 75 (144)
+...++|+.-||+ .+.+++.++......++.++..+++.|+.|..
T Consensus 311 ~kA~~lL~eaG~~~g~~l~~~~~~~~~~~~~a~~l~~~l~~~Gi~v~~ 358 (470)
T cd08508 311 AKAKALLAEAGFPNGLTLTFLVSPAAGQQSIMQVVQAQLAEAGINLEI 358 (470)
T ss_pred HHHHHHHHHcCCCCCceEEEEecCCchHHHHHHHHHHHHHhcCcEEEE
Confidence 4456677788996 56666555444567889999999999998764
No 388
>PTZ00187 succinyl-CoA synthetase alpha subunit; Provisional
Probab=39.50 E-value=1.9e+02 Score=22.83 Aligned_cols=66 Identities=12% Similarity=0.074 Sum_probs=40.1
Q ss_pred cEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEe
Q psy12591 43 SYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLV 114 (144)
Q Consensus 43 ~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~ 114 (144)
-.|+++.... .+...+...+.+.|+-+.....+-.++- ...++.+.|+-+.+.++.++|+++....
T Consensus 170 G~VgiVSqSG----tl~~ei~~~~~~~GlG~S~~VsiGnd~~--~g~~~~D~L~~~~~Dp~T~~Ivl~~E~g 235 (317)
T PTZ00187 170 GKIGIVSRSG----TLTYEAVAQTTAVGLGQSTCVGIGGDPF--NGTNFIDCLKLFLNDPETEGIILIGEIG 235 (317)
T ss_pred CCEEEEeCCH----HHHHHHHHHHHHcCCCEEEEEEeCCCCC--CCCCHHHHHHHHhhCCCccEEEEEEecC
Confidence 3466665432 2334455666677766655555543320 1467778888887678888888888644
No 389
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=39.44 E-value=56 Score=26.15 Aligned_cols=42 Identities=10% Similarity=0.002 Sum_probs=34.4
Q ss_pred HHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEE
Q psy12591 33 MVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIA 74 (144)
Q Consensus 33 ~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~ 74 (144)
.++.+..-|+++|.+..+-|.-|+..+..+.+.|++.|+.|.
T Consensus 58 cad~ii~~gi~rVVi~~D~d~~G~~~~~~~~~~L~~aGi~V~ 99 (360)
T PRK14719 58 IADDLIAENISEVILLTDFDRAGRVYAKNIMEEFQSRGIKVN 99 (360)
T ss_pred HHHHHHHcCCCEEEEEECCCCCCCccchHHHHHHHHCCCEEE
Confidence 566666679999999994456788888899999999999984
No 390
>TIGR00689 rpiB_lacA_lacB sugar-phosphate isomerases, RpiB/LacA/LacB family. Proteins of known function in this family act as sugar (pentose and/or hexose)-phosphate isomerases, including the LacA and LacB subunits of galactose-6-phosphate isomerases from Gram-positive bacteria and RpiB. RpiB is the second ribose phosphate isomerase of E. coli. It lacks homology to RpiA, its inducer is unknown (but is not ribose), and it can be replaced by the homologous galactose-6-phosphate isomerase of Streptococcus mutans, all of which suggests that the ribose phosphate isomerase activity of RpiB is a secondary function. On the other hand, there appear to be a significant number of species which contain rpiB, lack rpiA and seem to require rpi activity in order to copplete the pentose phosphate pathway.
Probab=38.98 E-value=1.3e+02 Score=20.82 Aligned_cols=61 Identities=13% Similarity=0.036 Sum_probs=37.1
Q ss_pred eCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHH-HHHhcCCCceEEEEeeEE
Q psy12591 51 ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIV-LKLLTKPRARGLFKRLKL 113 (144)
Q Consensus 51 ~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l-~~lk~~~~arvii~~~~~ 113 (144)
.|.-|..+.+.+.+.|+++|..|.-.-.....+.. =.++...+ +.+.+..-.|.|++|.+.
T Consensus 5 sDhaG~~lK~~l~~~L~~~g~eV~D~G~~~~~~~d--Ypd~a~~va~~V~~g~~~~GIliCGtG 66 (144)
T TIGR00689 5 SDHAGLELKSEIIEHLKQKGHEVIDCGTLYDERVD--YPDYAKLVADKVVAGEVSLGILICGTG 66 (144)
T ss_pred eCcchHHHHHHHHHHHHHCCCEEEEcCCCCCCCCC--hHHHHHHHHHHHHcCCCceEEEEcCCc
Confidence 45567889999999999999988654433322211 12333333 444433445788888764
No 391
>cd03411 Ferrochelatase_N Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=38.91 E-value=1.3e+02 Score=20.77 Aligned_cols=73 Identities=12% Similarity=0.052 Sum_probs=41.1
Q ss_pred cchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchhhhhHHHHHHH
Q psy12591 54 YGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEETAYDDIVLKL 132 (144)
Q Consensus 54 ~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~~~~~~~~~~~ 132 (144)
+.+..++.+++.+.+.+..+.....+.-. ...+.+.|++++ ..+.+-||++.-.-.++.....+.++.+...+
T Consensus 69 ~t~~q~~~l~~~L~~~~~~~~v~~amry~-----~P~i~~~l~~l~-~~g~~~iivlPl~P~~S~~Tt~s~~~~~~~~~ 141 (159)
T cd03411 69 ITRAQAEALEKALDERGIDVKVYLAMRYG-----PPSIEEALEELK-ADGVDRIVVLPLYPQYSASTTGSYLDEVERAL 141 (159)
T ss_pred HHHHHHHHHHHHHhccCCCcEEEehHhcC-----CCCHHHHHHHHH-HcCCCEEEEEECCcccccccHHHHHHHHHHHH
Confidence 34556677777777654222222223222 235788899998 56667666665544455555555555554433
No 392
>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=38.87 E-value=1.5e+02 Score=21.58 Aligned_cols=50 Identities=12% Similarity=0.200 Sum_probs=34.6
Q ss_pred ecCCchHHHHHHHHHHHhCCCcEEEEEEEeCC-------cchHHHHHHHHHhhhCce
Q psy12591 22 TIPSDHHQVKAMVEIVKKLGWSYVSIIYEESN-------YGVKAFEELEVLLAKYSI 71 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~-------~g~~~~~~~~~~l~~~Gi 71 (144)
....+...+..+++.+...|-++++++..... ......+.|.+.+.+.|.
T Consensus 92 v~~D~~~a~~~~~~~l~~~g~~~i~~i~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~ 148 (270)
T cd01544 92 VVPDFEQAVEKALDYLLELGHTRIGFIGGEEKTTDGHEYIEDPRETAFREYMKEKGL 148 (270)
T ss_pred EEECHHHHHHHHHHHHHHcCCCcEEEECCCcccccccchhhhHHHHHHHHHHHHcCC
Confidence 34455556667777777789999999975432 334456778888888884
No 393
>PRK14461 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=38.80 E-value=1.7e+02 Score=23.64 Aligned_cols=53 Identities=15% Similarity=0.249 Sum_probs=27.4
Q ss_pred CCchHHHHHHHHHHHhCC-----CcEEEEEEEeCC----cc---hHHHHHHHHHhhhCceEEEEE
Q psy12591 24 PSDHHQVKAMVEIVKKLG-----WSYVSIIYEESN----YG---VKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 24 p~d~~~~~a~~~ll~~f~-----W~~Vaii~~~~~----~g---~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
.....++..++++++.+. .-+|.+|-.|.. |- ....+.|.+.|+++|+.+...
T Consensus 283 NDs~e~A~~L~~llk~~~~~~~l~~~VNLIp~Np~~~~~~~~ps~~~i~~F~~~L~~~gi~vtiR 347 (371)
T PRK14461 283 NDHPEQAAALARLLRGEAPPGPLLVHVNLIPWNPVPGTPLGRSERERVTTFQRILTDYGIPCTVR 347 (371)
T ss_pred CCCHHHHHHHHHHHcCCccccCCceEEEEecCCCCCCCCCCCCCHHHHHHHHHHHHHCCceEEEe
Confidence 344446666666666541 235555543331 11 234556666666666665444
No 394
>PF03162 Y_phosphatase2: Tyrosine phosphatase family; InterPro: IPR004861 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry represents protein-tyrosine phosphatases predominantly from fungi, plants and bacteria, several of which are putative enzymes. These proteins are closely related to the Y-phosphatase and DSPc families. This entry includes the PTPase SIW14 from Saccharomyces cerevisiae (Baker's yeast), which plays a role in actin filament organisation and endocytosis.; PDB: 2Q47_A 1XRI_A.
Probab=38.78 E-value=1.4e+02 Score=20.98 Aligned_cols=111 Identities=12% Similarity=-0.004 Sum_probs=55.0
Q ss_pred CceEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCC-C-CcchhhHHHH
Q psy12591 17 EYFTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDS-G-VAEETAYDDI 94 (144)
Q Consensus 17 p~ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~-~-~~~~~~~~~~ 94 (144)
|-++|..-++. .-..+|+++|-+.|.-+...+ . .+.....+++.|+.......-.... . ..+++.+...
T Consensus 12 ~~vYRS~~P~~----~n~~fL~~L~LKTII~L~~e~-~----~~~~~~f~~~~~I~l~~~~~~~~~~~~~~~~~~~v~~a 82 (164)
T PF03162_consen 12 PGVYRSAQPTP----ANFPFLERLGLKTIINLRPEP-P----SQDFLEFAEENGIKLIHIPMSSSKDPWVPISEEQVAEA 82 (164)
T ss_dssp TTEEEESS--H----HHHHHHHHHT-SEEEE--SS--------HHHHHHHHHTT-EEEE-------GGG----HHHHHHH
T ss_pred CCccCCCCCCh----hhHHHHHHCCCceEEEecCCC-C----CHHHHHHHhhcCceEEEeccccccCccccCCHHHHHHH
Confidence 35677776553 345678889999988887432 2 2445557788998876543322111 0 0135667777
Q ss_pred HHHHhcCCCceEEEEeeEE-----------eeeCCcchhhhhHHHHHHHhcCc
Q psy12591 95 VLKLLTKPRARGLFKRLKL-----------VKDSGVAEETAYDDIVLKLLTKP 136 (144)
Q Consensus 95 l~~lk~~~~arvii~~~~~-----------~~~~g~~~~~~~~~~~~~~~~~~ 136 (144)
|+-|.+..+--+.|.|-.+ =+-.||..+++++++.+--..+.
T Consensus 83 L~~ild~~n~PvLiHC~~G~~rTG~vvg~lRk~Q~W~~~~i~~Ey~~f~~~~~ 135 (164)
T PF03162_consen 83 LEIILDPRNYPVLIHCNHGKDRTGLVVGCLRKLQGWSLSSIFDEYRRFAGPKI 135 (164)
T ss_dssp HHHHH-GGG-SEEEE-SSSSSHHHHHHHHHHHHTTB-HHHHHHHHHHHHGGG-
T ss_pred HHHHhCCCCCCEEEEeCCCCcchhhHHHHHHHHcCCCHHHHHHHHHHhcCCCC
Confidence 7766643333344444211 13479999999998886444333
No 395
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=38.74 E-value=1.7e+02 Score=22.03 Aligned_cols=62 Identities=10% Similarity=0.153 Sum_probs=38.9
Q ss_pred cEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 43 SYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 43 ~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
..|+++.. ++.|.....+.+++.+++.|..+..... ... .......+..+. ..+++.||+..
T Consensus 57 ~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~--~~~----~~~~~~~~~~l~-~~~vdGiI~~~ 120 (327)
T PRK10423 57 RTIGMLITASTNPFYSELVRGVERSCFERGYSLVLCNT--EGD----EQRMNRNLETLM-QKRVDGLLLLC 120 (327)
T ss_pred CeEEEEeCCCCCCcHHHHHHHHHHHHHHcCCEEEEEeC--CCC----HHHHHHHHHHHH-HcCCCEEEEeC
Confidence 46787764 3567778888899999999977654321 111 223345566665 45677777653
No 396
>PF00496 SBP_bac_5: Bacterial extracellular solute-binding proteins, family 5 Middle; InterPro: IPR000914 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into Gram-positive bacteria which are surrounded by a single membrane and therefore have no periplasmic region the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homologue proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped [] into eight families of clusters, which generally correlate with the nature of the solute bound. Family 5 currently includes periplasmic oligopeptide-binding proteins (oppA) of Gram-negative bacteria and homologous lipoproteins in Gram-positive bacteria (oppA, amiA or appA); periplasmic dipeptide-binding proteins of Escherichia coli (dppA) and Bacillus subtilis (dppE); periplasmic murein peptide-binding protein of E. coli (mppA); periplasmic peptide-binding proteins sapA of E. coli, Salmonella typhimurium and Haemophilus influenzae; periplasmic nickel-binding protein (nikA) of E. coli; haem-binding lipoprotein (hbpA or dppA) from H. influenzae; lipoprotein xP55 from Streptomyces lividans; and hypothetical proteins from H. influenzae (HI0213) and Rhizobium sp. (strain NGR234) symbiotic plasmid (y4tO and y4wM).; GO: 0005215 transporter activity, 0006810 transport; PDB: 1B51_A 1B0H_A 1QKA_A 1B9J_A 1B6H_A 1OLA_A 1B3L_C 1JEV_A 1B5H_A 1JET_A ....
Probab=38.67 E-value=77 Score=24.46 Aligned_cols=48 Identities=25% Similarity=0.327 Sum_probs=34.5
Q ss_pred HHHHHHHHHhCCCcE------------EEEEE-EeCCcchHHHHHHHHHhhhCceEEEEEe
Q psy12591 30 VKAMVEIVKKLGWSY------------VSIIY-EESNYGVKAFEELEVLLAKYSICIAIKE 77 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~------------Vaii~-~~~~~g~~~~~~~~~~l~~~Gi~V~~~~ 77 (144)
.+...++|+..||+. +-+++ .++......++.+++.+++.|+.+....
T Consensus 269 ~~~A~~lL~~ag~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~Gi~v~i~~ 329 (374)
T PF00496_consen 269 PEKARELLEKAGYKKSDGGGWRKDPLPLIILYTSDDPIWKAIAEALQEQLKKIGIKVEIKP 329 (374)
T ss_dssp HHHHHHHHHHTTHEESTTSEEEETEEEEEEEEETTSHHHHHHHHHHHHHHHHTTEEEEEEE
T ss_pred HHHHHHhHHhhhhhcccccccccccccccccccccccchHHHHHHHHHHHhhcceeEEEEE
Confidence 345556888888875 33333 3455667899999999999998887553
No 397
>PF01582 TIR: TIR domain; InterPro: IPR000157 In Drosophila melanogaster the Toll protein is involved in establishment of dorso-ventral polarity in the embryo. In addition, members of the Toll family play a key role in innate antibacterial and antifungal immunity in insects as well as in mammals. These proteins are type-I transmembrane receptors that share an intracellular 200 residue domain with the interleukin-1 receptor (IL-1R), the Toll/IL-1R homologous region (TIR). The similarity between Toll-like receptors (LTRs) and IL-1R is not restricted to sequence homology since these proteins also share a similar signalling pathway. They both induce the activation of a Rel type transcription factor via an adaptor protein and a protein kinase []. Interestingly, MyD88, a cytoplasmic adaptor protein found in mammals, contains a TIR domain associated to a DEATH domain (see IPR000488 from INTERPRO) [, , ]. Besides the mammalian and Drosophila melanogaster proteins, a TIR domain is also found in a number of plant proteins implicated in host defence []. As MyD88, these proteins are cytoplasmic. Site directed mutagenesis and deletion analysis have shown that the TIR domain is essential for Toll and IL-1R activities. Sequence analysis have revealed the presence of three highly conserved regions among the different members of the family: box 1 (FDAFISY), box 2 (GYKLC-RD-PG), and box 3 (a conserved W surrounded by basic residues). It has been proposed that boxes 1 and 2 are involved in the binding of proteins involved in signalling, whereas box 3 is primarily involved in directing localization of receptor, perhaps through interactions with cytoskeletal elements [].; GO: 0005515 protein binding, 0007165 signal transduction, 0005622 intracellular; PDB: 3J0A_A 2J67_B 3JRN_A 1FYV_A 1O77_D 1FYX_A 1FYW_A 3OZI_B 1T3G_B 2JS7_A ....
Probab=38.36 E-value=36 Score=22.81 Aligned_cols=58 Identities=9% Similarity=0.125 Sum_probs=27.0
Q ss_pred CcchHHHHHHHHHhhhCceEEE-EEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 53 NYGVKAFEELEVLLAKYSICIA-IKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 53 ~~g~~~~~~~~~~l~~~Gi~V~-~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
..|....+.+.+.+++-...|. .+..|..+. +....+...+..+....+.++|+..+.
T Consensus 39 ~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~--wc~~el~~a~~~~~~~~~~~~Il~v~~ 97 (141)
T PF01582_consen 39 LPGESILDNIQEAIERSRRTIVVLSRNYLSSE--WCLFELQEALERLLEEGRDKLILPVFY 97 (141)
T ss_dssp SSSSCHHHHHHHHHHTEEEEEEEESHHHHHHT--HHHHHHHHHHHHHHCSTCTTEEEEESS
T ss_pred cccccccchhhHhhhhceeeEEEeeccccccc--chhhhhhhhhhhccccccccceeeEec
Confidence 4455556666666665444432 233333222 123445555555552232455555443
No 398
>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=38.32 E-value=1.5e+02 Score=21.33 Aligned_cols=53 Identities=9% Similarity=0.095 Sum_probs=36.1
Q ss_pred ecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCc--chHHHHHHHHHhhhCceEEE
Q psy12591 22 TIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNY--GVKAFEELEVLLAKYSICIA 74 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~--g~~~~~~~~~~l~~~Gi~V~ 74 (144)
........+..+++.+...|-++|+++...... .....+.|.+.+++.|+.+.
T Consensus 96 v~~d~~~~g~~~~~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~ 150 (264)
T cd01574 96 VSVDQEGGARLATEHLLELGHRTIAHVAGPEEWLSARARLAGWRAALEAAGIAPP 150 (264)
T ss_pred EEeCcHHHHHHHHHHHHHCCCCEEEEEecCCccchHHHHHHHHHHHHHHCCCCcc
Confidence 344455566777787777899999999654432 23456778888888887653
No 399
>PRK00536 speE spermidine synthase; Provisional
Probab=37.88 E-value=1.3e+02 Score=22.97 Aligned_cols=51 Identities=8% Similarity=0.178 Sum_probs=35.5
Q ss_pred EEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhc
Q psy12591 45 VSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLT 100 (144)
Q Consensus 45 Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~ 100 (144)
.=+|..|..+..++.+.+.+.|+..|+.+...+...-. ...+..+.+.|++
T Consensus 140 fDVIIvDs~~~~~fy~~~~~~L~~~Gi~v~Qs~sp~~~-----~~~~~~i~~~l~~ 190 (262)
T PRK00536 140 YDLIICLQEPDIHKIDGLKRMLKEDGVFISVAKHPLLE-----HVSMQNALKNMGD 190 (262)
T ss_pred CCEEEEcCCCChHHHHHHHHhcCCCcEEEECCCCcccC-----HHHHHHHHHHHHh
Confidence 33444555677788889999999999988876533222 3457778888873
No 400
>PRK14194 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=37.65 E-value=2e+02 Score=22.53 Aligned_cols=75 Identities=13% Similarity=0.174 Sum_probs=49.2
Q ss_pred EEEEEEEeCCc-chHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNY-GVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~-g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
..++|..+++. .....+.-.+.+++-|+..... .++.+. +++++.+.+.+|-..+....|++.... ..+++..
T Consensus 35 ~LaiI~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~-~l~~~~---t~~~l~~~I~~lN~D~~V~GIlvqlPL--P~~i~~~ 108 (301)
T PRK14194 35 ALAVILVGNDPASQVYVRNKILRAEEAGIRSLEH-RLPADT---SQARLLALIAELNADPSVNGILLQLPL--PAHIDEA 108 (301)
T ss_pred eEEEEEeCCChhHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHcCCCCCCeEEEeCCC--CCCCCHH
Confidence 46666655544 4456677777888899876544 466554 377888999998766677778877543 2455544
Q ss_pred hh
Q psy12591 123 TA 124 (144)
Q Consensus 123 ~~ 124 (144)
.+
T Consensus 109 ~i 110 (301)
T PRK14194 109 RV 110 (301)
T ss_pred HH
Confidence 33
No 401
>PRK05678 succinyl-CoA synthetase subunit alpha; Validated
Probab=37.29 E-value=1.7e+02 Score=22.67 Aligned_cols=24 Identities=13% Similarity=0.209 Sum_probs=13.2
Q ss_pred hhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 89 TAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 89 ~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
.++.+.|.-+.+.++.++|+++..
T Consensus 186 v~~~D~l~~l~~Dp~T~~I~lylE 209 (291)
T PRK05678 186 TNFIDVLEAFEEDPETEAIVMIGE 209 (291)
T ss_pred CCHHHHHHHHhhCCCCcEEEEEEe
Confidence 345555555554555666666554
No 402
>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=36.90 E-value=1.8e+02 Score=21.86 Aligned_cols=50 Identities=10% Similarity=0.069 Sum_probs=34.9
Q ss_pred cCCchHHHHHHHHHHHhCCCcEEEEEEE-eC--CcchHHHHHHHHHhhhCceE
Q psy12591 23 IPSDHHQVKAMVEIVKKLGWSYVSIIYE-ES--NYGVKAFEELEVLLAKYSIC 72 (144)
Q Consensus 23 ~p~d~~~~~a~~~ll~~f~W~~Vaii~~-~~--~~g~~~~~~~~~~l~~~Gi~ 72 (144)
.+++..-+..+++.|...|-++|+++.. .. ..+....+.|.+.+++.|+.
T Consensus 153 ~~D~~~~~~~a~~~L~~~Ghr~I~~i~~~~~~~~~~~~R~~gf~~a~~~~gi~ 205 (311)
T TIGR02405 153 CYDDYGAIELLMANLYQQGHRHISFLGVDPSDKTTGLMRHNAYLAYCESANLE 205 (311)
T ss_pred EeCcHHHHHHHHHHHHHcCCCcEEEEccCcccchhHHHHHHHHHHHHHHcCCC
Confidence 3344445556677777779999999963 22 23455677899999999985
No 403
>PRK14190 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=36.86 E-value=2e+02 Score=22.31 Aligned_cols=75 Identities=16% Similarity=0.203 Sum_probs=48.5
Q ss_pred EEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
..+++..+++.. ....+.-.+.+++-|+..... .++.+. +++++.+.+.+|-..++..-|++.... ..+++..
T Consensus 34 ~Laii~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~-~l~~~~---~~~el~~~I~~lN~D~~V~GIlvq~PL--p~~i~~~ 107 (284)
T PRK14190 34 GLAVILVGDDPASHSYVRGKKKAAEKVGIYSELY-EFPADI---TEEELLALIDRLNADPRINGILVQLPL--PKHIDEK 107 (284)
T ss_pred eEEEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHhCCCCCCEEEEeCCC--CCCCCHH
Confidence 466766555544 446677778888899877544 355554 367888888888655666778777543 2455544
Q ss_pred hh
Q psy12591 123 TA 124 (144)
Q Consensus 123 ~~ 124 (144)
.+
T Consensus 108 ~i 109 (284)
T PRK14190 108 AV 109 (284)
T ss_pred HH
Confidence 33
No 404
>PRK12613 galactose-6-phosphate isomerase subunit LacA; Provisional
Probab=36.84 E-value=1.4e+02 Score=20.60 Aligned_cols=62 Identities=10% Similarity=-0.054 Sum_probs=38.2
Q ss_pred EEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH-HHHHHhcCCCceEEEEeeEEe
Q psy12591 48 IYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD-IVLKLLTKPRARGLFKRLKLV 114 (144)
Q Consensus 48 i~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~-~l~~lk~~~~arvii~~~~~~ 114 (144)
....|.-|....+.+.+.|+++|..|.-... .+. +=.++.. .-+.+.+....|.|++|.+.+
T Consensus 4 ~igsDhaG~~lK~~l~~~L~~~g~eV~D~G~---~~~--dypd~a~~va~~V~~~e~~~GIliCGtGi 66 (141)
T PRK12613 4 ILGADAHGNALKELIKSFLQEEGYDIIDVTD---INS--DFIDNTLAVAKAVNEAEGRLGIMVDAYGA 66 (141)
T ss_pred EEEeCcchHHHHHHHHHHHHHCCCEEEEcCC---CCC--ChHHHHHHHHHHHHcCCCceEEEEcCCCH
Confidence 3445667889999999999999988754322 111 1123433 334454345557888887743
No 405
>PRK14701 reverse gyrase; Provisional
Probab=36.82 E-value=2.4e+02 Score=27.60 Aligned_cols=79 Identities=18% Similarity=0.124 Sum_probs=56.1
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
..+.++++.++ .-++|+.++..+...++.+.+.|.+.|+.+..... + -...+.+.+ +...+|+|.-
T Consensus 320 ~~L~~ll~~~g--~~gIVF~~t~~~~e~ae~la~~L~~~Gi~a~~~h~---~--------R~~~l~~F~-~G~~~VLVaT 385 (1638)
T PRK14701 320 EHVRELLKKLG--KGGLIFVPIDEGAEKAEEIEKYLLEDGFKIELVSA---K--------NKKGFDLFE-EGEIDYLIGV 385 (1638)
T ss_pred HHHHHHHHhCC--CCeEEEEeccccchHHHHHHHHHHHCCCeEEEecc---h--------HHHHHHHHH-cCCCCEEEEe
Confidence 35777887775 35788888877777788999999999987653321 1 235677888 5677777666
Q ss_pred eE--EeeeCCcchhh
Q psy12591 111 LK--LVKDSGVAEET 123 (144)
Q Consensus 111 ~~--~~~~~g~~~~~ 123 (144)
.+ .+.+.|+|.+.
T Consensus 386 ~s~~gvaaRGIDiP~ 400 (1638)
T PRK14701 386 ATYYGTLVRGLDLPE 400 (1638)
T ss_pred cCCCCeeEecCccCC
Confidence 44 37789998765
No 406
>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=36.82 E-value=1.8e+02 Score=21.85 Aligned_cols=62 Identities=15% Similarity=0.024 Sum_probs=38.4
Q ss_pred cEEEEEEEe--CCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 43 SYVSIIYEE--SNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 43 ~~Vaii~~~--~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+.|+++..+ +.|.....+.+.+.+.++|..+....... + .......++.+. ..+++.+|++.
T Consensus 60 ~~Ig~i~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~~~~~-~-----~~~~~~~~~~l~-~~~vdGvIi~~ 123 (311)
T TIGR02405 60 KVVAVIVSRLDSPSENLAVSGMLPVFYTAGYDPIIMESQF-S-----PQLTNEHLSVLQ-KRNVDGVILFG 123 (311)
T ss_pred CEEEEEeCCcccccHHHHHHHHHHHHHHCCCeEEEecCCC-C-----hHHHHHHHHHHH-hcCCCEEEEeC
Confidence 468888753 34556678888899999998865432211 1 223344556666 45677777653
No 407
>COG4130 Predicted sugar epimerase [Carbohydrate transport and metabolism]
Probab=36.74 E-value=1.9e+02 Score=21.92 Aligned_cols=81 Identities=20% Similarity=0.112 Sum_probs=50.4
Q ss_pred HHHHHHHHHhCCCcEEEEEEE---eCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcch---hhHHHHHHHHhcCCC
Q psy12591 30 VKAMVEIVKKLGWSYVSIIYE---ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEE---TAYDDIVLKLLTKPR 103 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~Vaii~~---~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~---~~~~~~l~~lk~~~~ 103 (144)
..+...+.++.|.+.|-|=.+ +..-..--...++..+++.|++|.....+.+-+. +++ ...++++.--+ ..+
T Consensus 19 v~affa~ak~lg~s~VeiRndl~~~~I~dg~p~a~vka~Aek~Gl~IvSINAlypFn~-wt~~~~a~a~~la~yA~-acG 96 (272)
T COG4130 19 VEAFFALAKRLGLSKVEIRNDLPSNAIADGTPAAEVKALAEKAGLTIVSINALYPFNE-WTEERVAEARGLADYAA-ACG 96 (272)
T ss_pred HHHHHHHHHHcCcceeEEecCCCcccccCCCCHHHHHHHHHHcCcEEEEeeccccccc-cChHHHHHHHHHHHHHH-hcC
Confidence 467888999999999877432 2222223457789999999999876554433321 111 12223333333 578
Q ss_pred ceEEEEeeE
Q psy12591 104 ARGLFKRLK 112 (144)
Q Consensus 104 arvii~~~~ 112 (144)
|+.+|+|.-
T Consensus 97 A~aLvlcPl 105 (272)
T COG4130 97 AKALVLCPL 105 (272)
T ss_pred CceEEEEec
Confidence 999999853
No 408
>cd08520 PBP2_NikA_DppA_OppA_like_21 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=36.65 E-value=1.4e+02 Score=24.19 Aligned_cols=46 Identities=22% Similarity=0.361 Sum_probs=32.0
Q ss_pred HHHHHHHHhCCCc-------------EEEEEEEeCCcchHHHHHHHHHhhhCceEEEEE
Q psy12591 31 KAMVEIVKKLGWS-------------YVSIIYEESNYGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 31 ~a~~~ll~~f~W~-------------~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
+..-+||+.-||+ .+-+++.++.-....++.++..+++-|+.+...
T Consensus 305 ~kAk~lL~eaG~~~~~~~~~~~g~~l~l~l~~~~~~~~~~~a~~i~~~l~~iGi~v~i~ 363 (468)
T cd08520 305 EKAKELLKGLGYTDNGGDGEKDGEPLSLELLTSSSGDEVRVAELIKEQLERVGIKVNVK 363 (468)
T ss_pred HHHHHHHHHcCCcccCCCCCcCCceEEEEEEecCCchHHHHHHHHHHHHHHcCceEEEE
Confidence 3445677788883 344555544445678899999999999987654
No 409
>cd08499 PBP2_Ylib_like The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold. This family represents the periplasmic substrate-binding component of an uncharacterized ATP-binding cassette (ABC)-type peptide transport system YliB. Although the ligand specificity of Ylib protein is not known, it shares significant sequence similarity to the ABC-type dipeptide and oligopeptide binding proteins. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling
Probab=36.62 E-value=1.4e+02 Score=24.07 Aligned_cols=46 Identities=17% Similarity=0.272 Sum_probs=33.6
Q ss_pred HHHHHHHHhCCCc---EEEEEEEeCCcchHHHHHHHHHhhhCceEEEEE
Q psy12591 31 KAMVEIVKKLGWS---YVSIIYEESNYGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 31 ~a~~~ll~~f~W~---~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
+...++|+.-||+ .+-+++.++......++.+++.+++.|+.+...
T Consensus 304 ~~A~~lL~eaG~~~~~~l~l~~~~~~~~~~~a~~i~~~l~~~GI~v~i~ 352 (474)
T cd08499 304 EKAKELLAEAGYPDGFETTLWTNDNRERIKIAEFIQQQLAQIGIDVEIE 352 (474)
T ss_pred HHHHHHHHHcCCCCCceEEEEecCCCchhHHHHHHHHHHHHcCceEEEE
Confidence 3445677788886 566666555555678899999999999988653
No 410
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=36.57 E-value=69 Score=23.83 Aligned_cols=20 Identities=15% Similarity=0.074 Sum_probs=10.0
Q ss_pred HHHHHHHHhhhCceEEEEEe
Q psy12591 58 AFEELEVLLAKYSICIAIKE 77 (144)
Q Consensus 58 ~~~~~~~~l~~~Gi~V~~~~ 77 (144)
.+..|.+.|+++|..|.+..
T Consensus 50 aMRhfa~~L~~~G~~V~Y~~ 69 (224)
T PF04244_consen 50 AMRHFADELRAKGFRVHYIE 69 (224)
T ss_dssp HHHHHHHHHHHTT--EEEE-
T ss_pred HHHHHHHHHHhCCCEEEEEe
Confidence 45556666666666665543
No 411
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=36.52 E-value=1.8e+02 Score=24.94 Aligned_cols=77 Identities=13% Similarity=-0.006 Sum_probs=50.0
Q ss_pred HHHHHHHHHHHhCCCc--------EEEEEEEeCCc---------c---hHHHHHHHHHhhhCceEEEEEecccCCCCCcc
Q psy12591 28 HQVKAMVEIVKKLGWS--------YVSIIYEESNY---------G---VKAFEELEVLLAKYSICIAIKEKLVKDSGVAE 87 (144)
Q Consensus 28 ~~~~a~~~ll~~f~W~--------~Vaii~~~~~~---------g---~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~ 87 (144)
......+.+|...|-. +|+++...++- | ......+...+++.|+.+.....++.+
T Consensus 164 ~i~p~~i~~las~g~~~v~v~~~prv~vi~tG~El~~~~~~~~~g~i~dsn~~~l~~~l~~~g~~~~~~~~v~Dd----- 238 (633)
T PRK14498 164 RLTPRDIGALAAGGVAEVPVYKKPRVGIISTGDELVEPGEPLKPGKIYDVNSYTLAAAVEEAGGEPVRYGIVPDD----- 238 (633)
T ss_pred CCCHHHHHHHHHCCCCEEEEecCcEEEEEecCccccCCCCCCCCCEEEEChHHHHHHHHHHCCCEEEEEEEeCCC-----
Confidence 3444556666666643 56777655431 2 234667888899999888776666544
Q ss_pred hhhHHHHHHHHhcCCCceEEEEee
Q psy12591 88 ETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 88 ~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
...+.+.|.+.. .++++||...
T Consensus 239 ~~~i~~~l~~~~--~~~D~iIttG 260 (633)
T PRK14498 239 EEELEAALRKAL--KECDLVLLSG 260 (633)
T ss_pred HHHHHHHHHHHH--hcCCEEEECC
Confidence 456777777765 2688888764
No 412
>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=36.40 E-value=1.3e+02 Score=19.96 Aligned_cols=78 Identities=21% Similarity=0.179 Sum_probs=45.2
Q ss_pred hHHHHHHHHHHHhCCCcEEEEEEEeCCcch----HHHHHHHHHhhhCceEEEEEe---cccCCCCCcchhhHHHHHHHHh
Q psy12591 27 HHQVKAMVEIVKKLGWSYVSIIYEESNYGV----KAFEELEVLLAKYSICIAIKE---KLVKDSGVAEETAYDDIVLKLL 99 (144)
Q Consensus 27 ~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~----~~~~~~~~~l~~~Gi~V~~~~---~~~~~~~~~~~~~~~~~l~~lk 99 (144)
..|-..+-+++...||.-+.+..+....|. ...+.+.+.++...+.+.... .+..+ ..+....+..|+
T Consensus 18 ~~Q~~~~~~~a~~~g~~i~~~~~d~~~Sg~~~~Rp~l~~ll~~~~~g~~~~ivv~~~~Rl~R~-----~~~~~~~~~~l~ 92 (148)
T smart00857 18 ERQLEALRAYAKANGWEVVRIYEDEGVSGKKADRPGLQRLLADLRAGDIDVLVVYKLDRLGRS-----LRDLLALLELLE 92 (148)
T ss_pred HHHHHHHHHHHHHCCCEEEEEEEeCCCcCCCCCCHHHHHHHHHHHcCCCCEEEEeccchhhCc-----HHHHHHHHHHHH
Confidence 356677778888889987765554433332 334445555555444333333 34333 346667778887
Q ss_pred cCCCceEEEEe
Q psy12591 100 TKPRARGLFKR 110 (144)
Q Consensus 100 ~~~~arvii~~ 110 (144)
..+.+++++-
T Consensus 93 -~~gi~l~~~~ 102 (148)
T smart00857 93 -KKGVRLVSVT 102 (148)
T ss_pred -HCCCEEEECc
Confidence 5667666554
No 413
>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=36.08 E-value=1.8e+02 Score=21.46 Aligned_cols=52 Identities=4% Similarity=-0.036 Sum_probs=33.8
Q ss_pred ecCCchHHHHHHHHHHHh--CCCcEEEEEEEeC-CcchHHHHHHHHHhhhC-ceEE
Q psy12591 22 TIPSDHHQVKAMVEIVKK--LGWSYVSIIYEES-NYGVKAFEELEVLLAKY-SICI 73 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~--f~W~~Vaii~~~~-~~g~~~~~~~~~~l~~~-Gi~V 73 (144)
..+.+..-+..+++.|.. .|.++++++.... .......+.|.+.++++ |+.+
T Consensus 109 V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~~R~~gf~~al~~~~~~~~ 164 (280)
T cd06303 109 VGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYISTARGDTFIDCVHARNNWTL 164 (280)
T ss_pred eCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcchhHHHHHHHHHHHhCCCceE
Confidence 334444455667776655 7899999996533 22334567788888887 7654
No 414
>COG3910 Predicted ATPase [General function prediction only]
Probab=35.96 E-value=1e+02 Score=22.96 Aligned_cols=54 Identities=11% Similarity=0.035 Sum_probs=35.4
Q ss_pred cchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 54 YGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 54 ~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
-|.++...+...+..+|+-+--.-.-.-.+. .+..+-+.|.+|- .+++.+||.-
T Consensus 132 HGEsf~~i~~~rf~~~GiYiLDEPEa~LSp~--RQlella~l~~la-~sGaQ~IiAT 185 (233)
T COG3910 132 HGESFLAIFHNRFNGQGIYILDEPEAALSPS--RQLELLAILRDLA-DSGAQIIIAT 185 (233)
T ss_pred cchHHHHHHHHHhccCceEEecCccccCCHH--HHHHHHHHHHHHH-hcCCeEEEEe
Confidence 4778899999999999998753321111111 2344556666666 6889998864
No 415
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=35.87 E-value=1.3e+02 Score=22.85 Aligned_cols=49 Identities=10% Similarity=0.061 Sum_probs=30.7
Q ss_pred HHHHHHHHH-HHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccC
Q psy12591 28 HQVKAMVEI-VKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVK 81 (144)
Q Consensus 28 ~~~~a~~~l-l~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~ 81 (144)
..+++++++ +....=++|-++.. ....+.+.+.|++.|..|...+.|..
T Consensus 123 ~~se~Ll~l~~~~~~g~~vLi~rg-----~~gr~~L~~~L~~~G~~V~~~~vY~~ 172 (266)
T PRK08811 123 MDSEGLLALPLAQAPLQAVGLITA-----PGGRGLLAPTLQQRGARILRADVYQR 172 (266)
T ss_pred CCcHHHHhChhhhCCCCEEEEEeC-----CCcHHHHHHHHHHCCCEEeEEEEEee
Confidence 456677766 33322244555442 23457899999999998877665543
No 416
>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=35.59 E-value=1.7e+02 Score=21.27 Aligned_cols=48 Identities=23% Similarity=0.272 Sum_probs=31.4
Q ss_pred chHHH-HHHHHHHHhCCCcEEEEEEEeCC--cchHHHHHHHHHhhhCceEE
Q psy12591 26 DHHQV-KAMVEIVKKLGWSYVSIIYEESN--YGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 26 d~~~~-~a~~~ll~~f~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~V 73 (144)
|..++ ..+++.|...|-++++++..... .+....+.|.+.++++|+.+
T Consensus 99 d~~~~g~~a~~~l~~~G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~ 149 (269)
T cd06281 99 DHAAGMRQAVEYLISLGHRRIALVGGGSNTRPGRERLEGYKAAFAAAGLPP 149 (269)
T ss_pred CcHHHHHHHHHHHHHCCCcEEEEecCccccccHHHHHHHHHHHHHHcCCCC
Confidence 33433 55666665669999999975432 23345677888888888653
No 417
>PF09002 DUF1887: Domain of unknown function (DUF1887); InterPro: IPR015093 This entry represents a set of hypothetical bacterial and archaeal proteins. ; PDB: 1XMX_A.
Probab=35.27 E-value=2.4e+02 Score=22.68 Aligned_cols=43 Identities=19% Similarity=0.220 Sum_probs=27.8
Q ss_pred HHHH-HH-HhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEE
Q psy12591 32 AMVE-IV-KKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 32 a~~~-ll-~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
.++. ++ ..|..+++.+|++.+. ...++.++..++..|+.+...
T Consensus 15 nll~~ll~~~~~p~kvvlI~t~~~--~~~~~~L~~~l~~~~~~~e~~ 59 (381)
T PF09002_consen 15 NLLPILLDRKFKPDKVVLIGTEDM--KEKAERLKSVLKQRGIKVEFF 59 (381)
T ss_dssp HHHHHHHSTT----EEEEEE-GGG--HHHHHHHHHHHHHTT-EEEEE
T ss_pred ceehhhhhccCCCCEEEEEECchH--HHHHHHHHHHHHhcCCCceEE
Confidence 3443 45 4789999999998766 778889999999999887553
No 418
>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=35.26 E-value=1.3e+02 Score=22.10 Aligned_cols=16 Identities=31% Similarity=0.119 Sum_probs=8.8
Q ss_pred HHHHHHHHHHhCCCcE
Q psy12591 29 QVKAMVEIVKKLGWSY 44 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~ 44 (144)
....+-+.++..|+.-
T Consensus 17 ~~~gi~~~~~~~G~~~ 32 (272)
T cd06313 17 GKQAADEAGKLLGVDV 32 (272)
T ss_pred HHHHHHHHHHHcCCEE
Confidence 3345555566677543
No 419
>cd01027 TOPRIM_RNase_M5_like TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low G+C Gram-positive bacteria. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). 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.
Probab=35.22 E-value=92 Score=19.10 Aligned_cols=37 Identities=27% Similarity=0.364 Sum_probs=27.6
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhh
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAK 68 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~ 68 (144)
+..++++++. .+.|-++++.|.-|...+..+.+.++.
T Consensus 35 ~~~~~~l~~~-~~~VIiltD~D~aG~~i~~~~~~~l~~ 71 (81)
T cd01027 35 KETIELIKKA-YRGVIILTDPDRKGEKIRKKLSEYLSG 71 (81)
T ss_pred HHHHHHHHHh-CCEEEEEECCCHHHHHHHHHHHHHhcc
Confidence 3556666665 778888888888888888888887755
No 420
>PLN02616 tetrahydrofolate dehydrogenase/cyclohydrolase, putative
Probab=34.85 E-value=2.4e+02 Score=22.74 Aligned_cols=75 Identities=16% Similarity=0.158 Sum_probs=49.0
Q ss_pred EEEEEEEeCCc-chHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNY-GVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~-g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
..++|..+++. .....+.-.+.+++-|+..... .++.+. +++++.+.+.+|-..++..-|++..-. ..+++..
T Consensus 105 ~LaiIlvG~dpaS~~Yv~~k~K~~e~~GI~~~~~-~lpe~~---te~ell~~I~~LN~D~~V~GIlVQlPL--P~~id~~ 178 (364)
T PLN02616 105 GLAVILVGDRKDSATYVRNKKKACDSVGINSFEV-RLPEDS---TEQEVLKFISGFNNDPSVHGILVQLPL--PSHMDEQ 178 (364)
T ss_pred eEEEEEeCCChhHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHcCCCCCCEEEEeCCC--CCCCCHH
Confidence 46777665554 4456777778888999876433 366554 367888888888755667778777543 2455544
Q ss_pred hh
Q psy12591 123 TA 124 (144)
Q Consensus 123 ~~ 124 (144)
.+
T Consensus 179 ~i 180 (364)
T PLN02616 179 NI 180 (364)
T ss_pred HH
Confidence 43
No 421
>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=34.78 E-value=1.8e+02 Score=21.23 Aligned_cols=81 Identities=14% Similarity=-0.024 Sum_probs=45.7
Q ss_pred CCchHHHHHHHHHHHhCCC-----cEEEEEEEeCC--cchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHH
Q psy12591 24 PSDHHQVKAMVEIVKKLGW-----SYVSIIYEESN--YGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVL 96 (144)
Q Consensus 24 p~d~~~~~a~~~ll~~f~W-----~~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~ 96 (144)
..+...+..+++.|...+- .+|+++....+ ......+.|.+.++++|+++... ..... +.+.-...++
T Consensus 102 ~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~~g~~~~~~~~~~~~~~~--~~~~~---~~~~~~~~~~ 176 (268)
T cd06306 102 VSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVKAVEKGFRDALAGSAIEISAI--KYGDT---GKEVQRKLVE 176 (268)
T ss_pred CChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHHHHHHHHHHHHhhcCcEEeee--ccCCc---cHHHHHHHHH
Confidence 3444455667777655555 79999975433 34456677888898899876542 11111 1223334555
Q ss_pred HHh-cCCCceEEEE
Q psy12591 97 KLL-TKPRARGLFK 109 (144)
Q Consensus 97 ~lk-~~~~arvii~ 109 (144)
++. ..++.++|+.
T Consensus 177 ~~l~~~~~~~~i~~ 190 (268)
T cd06306 177 EALEAHPDIDYIVG 190 (268)
T ss_pred HHHHhCCCcCEEee
Confidence 543 2345666653
No 422
>PTZ00215 ribose 5-phosphate isomerase; Provisional
Probab=34.67 E-value=1.6e+02 Score=20.57 Aligned_cols=66 Identities=9% Similarity=0.043 Sum_probs=39.6
Q ss_pred EEEEeCCcchHHHHHHHHHhhh--CceEEEEEecccCCCCCcchhhHH-HHHHHHhcCCCceEEEEeeEEe
Q psy12591 47 IIYEESNYGVKAFEELEVLLAK--YSICIAIKEKLVKDSGVAEETAYD-DIVLKLLTKPRARGLFKRLKLV 114 (144)
Q Consensus 47 ii~~~~~~g~~~~~~~~~~l~~--~Gi~V~~~~~~~~~~~~~~~~~~~-~~l~~lk~~~~arvii~~~~~~ 114 (144)
|....|.-|....+.+.+.|++ +|..|.-.-.....+.. =.++. ..-+.+.+....|.|++|.+.+
T Consensus 5 I~igsDhaG~~lK~~l~~~L~~~~~g~eV~D~G~~~~~~~d--Yp~~a~~va~~V~~~~~~~GIliCGtGi 73 (151)
T PTZ00215 5 VAIGSDHAGFDLKNEIIDYIKNKGKEYKIEDMGTYTAESVD--YPDFAEKVCEEVLKGEADTGILVCGSGI 73 (151)
T ss_pred EEEEeCCchHHHHHHHHHHHHhccCCCEEEEcCCCCCCCCC--HHHHHHHHHHHHhcCCCcEEEEEcCCcH
Confidence 3344566788999999999999 99888654333222211 12232 2334454344567888887643
No 423
>PRK10680 molybdopterin biosynthesis protein MoeA; Provisional
Probab=34.66 E-value=2.5e+02 Score=22.86 Aligned_cols=76 Identities=12% Similarity=0.106 Sum_probs=46.9
Q ss_pred HHHHHHHHHHhCCCcE--------EEEEEEeCCc---------c---hHHHHHHHHHhhhCceEEEEEecccCCCCCcch
Q psy12591 29 QVKAMVEIVKKLGWSY--------VSIIYEESNY---------G---VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEE 88 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~--------Vaii~~~~~~---------g---~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~ 88 (144)
.....+.+|...|.++ |+++...++- | ......+...+++.|+.+......+.+ .
T Consensus 156 l~p~~i~lLas~G~~~V~V~~~prV~iistGdEl~~~~~~~~~g~i~dsn~~~l~a~l~~~G~~~~~~~~v~Dd-----~ 230 (411)
T PRK10680 156 LTTAELPVLASLGIAEVPVVRKVRVALFSTGDELQLPGQPLGDGQIYDTNRLAVHLMLEQLGCEVINLGIIRDD-----P 230 (411)
T ss_pred CCHHHHHHHHhCCCCeEEecCCCEEEEEccCCeEeCCCCCCCCCEEEEhHHHHHHHHHHHCCCEEEEEEEeCCC-----H
Confidence 3345567777778654 5666544322 2 123446777888999887766656544 4
Q ss_pred hhHHHHHHHHhcCCCceEEEEee
Q psy12591 89 TAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 89 ~~~~~~l~~lk~~~~arvii~~~ 111 (144)
..+.+.|++.. ..+++||.-.
T Consensus 231 ~~i~~~l~~a~--~~~DlvIttG 251 (411)
T PRK10680 231 HALRAAFIEAD--SQADVVISSG 251 (411)
T ss_pred HHHHHHHHHhc--cCCCEEEEcC
Confidence 56777776653 4577777653
No 424
>PRK14180 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=34.48 E-value=2.2e+02 Score=22.08 Aligned_cols=75 Identities=12% Similarity=0.126 Sum_probs=48.3
Q ss_pred EEEEEEEeCCc-chHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNY-GVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~-g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
+.++|..+++. .....+.-.+.+++-|+..... .++.+. +++++.+.+++|-+.++...|++.... ..+++..
T Consensus 33 ~La~I~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~-~l~~~~---~~~el~~~I~~lN~D~~V~GIivq~Pl--P~~i~~~ 106 (282)
T PRK14180 33 KLVAIIVGNDPASKTYVASKEKACAQVGIDSQVI-TLPEHT---TESELLELIDQLNNDSSVHAILVQLPL--PAHINKN 106 (282)
T ss_pred eEEEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHhCCCCCCeEEEcCCC--CCCCCHH
Confidence 46666555544 4456777778888899877544 355554 367888999998756667778776543 2344443
Q ss_pred hh
Q psy12591 123 TA 124 (144)
Q Consensus 123 ~~ 124 (144)
.+
T Consensus 107 ~i 108 (282)
T PRK14180 107 NV 108 (282)
T ss_pred HH
Confidence 33
No 425
>PRK14170 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=34.47 E-value=2.2e+02 Score=22.10 Aligned_cols=75 Identities=13% Similarity=0.154 Sum_probs=48.8
Q ss_pred EEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
..++|..+++.. ....+.-.+.+++-|+..... .++.+. +++++.+.+.+|-..+....|++.... ..+++..
T Consensus 33 ~Laii~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~-~l~~~~---~~~el~~~I~~lN~D~~V~GIivqlPl--P~~i~~~ 106 (284)
T PRK14170 33 GLAVVLVGDNQASRTYVRNKQKRTEEAGMKSVLI-ELPENV---TEEKLLSVVEELNEDKTIHGILVQLPL--PEHISEE 106 (284)
T ss_pred eEEEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHhCCCCCCeEEEecCC--CCCCCHH
Confidence 467776655544 456777778888899876544 455554 367888899888756677778877543 2345544
Q ss_pred hh
Q psy12591 123 TA 124 (144)
Q Consensus 123 ~~ 124 (144)
.+
T Consensus 107 ~i 108 (284)
T PRK14170 107 KV 108 (284)
T ss_pred HH
Confidence 33
No 426
>PRK11914 diacylglycerol kinase; Reviewed
Probab=34.39 E-value=2.1e+02 Score=21.87 Aligned_cols=15 Identities=13% Similarity=0.027 Sum_probs=7.8
Q ss_pred HHHHHHHhhhCceEE
Q psy12591 59 FEELEVLLAKYSICI 73 (144)
Q Consensus 59 ~~~~~~~l~~~Gi~V 73 (144)
.+.+.+.+++.|+.+
T Consensus 28 ~~~~~~~l~~~g~~~ 42 (306)
T PRK11914 28 AERAIARLHHRGVDV 42 (306)
T ss_pred HHHHHHHHHHcCCeE
Confidence 344555566666543
No 427
>cd08500 PBP2_NikA_DppA_OppA_like_4 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most si
Probab=33.99 E-value=1.4e+02 Score=24.61 Aligned_cols=46 Identities=11% Similarity=0.126 Sum_probs=33.1
Q ss_pred HHHHHHHHhCCCc----------------EEEEEEEeC-CcchHHHHHHHHHhhhCceEEEEE
Q psy12591 31 KAMVEIVKKLGWS----------------YVSIIYEES-NYGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 31 ~a~~~ll~~f~W~----------------~Vaii~~~~-~~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
+...++|..-||+ .+.+++..+ .-....++.++..+++.|+.+...
T Consensus 316 e~Ak~lL~~aG~~~~~~dG~~~~~~G~~l~l~i~~~~~~~~~~~~a~~i~~~l~~~Gi~v~~~ 378 (499)
T cd08500 316 DKANKLLDEAGLKKKDADGFRLDPDGKPVEFTLITNAGNSIREDIAELIKDDWRKIGIKVNLQ 378 (499)
T ss_pred HHHHHHHHHcCCcccCCCCcEECCCCcEEEEEEEECCCCchHHHHHHHHHHHHHHhCCceEEE
Confidence 4556677888886 455666433 345678999999999999987654
No 428
>PRK09417 mogA molybdenum cofactor biosynthesis protein MogA; Provisional
Probab=33.91 E-value=1.8e+02 Score=21.04 Aligned_cols=63 Identities=14% Similarity=0.164 Sum_probs=36.6
Q ss_pred cEEEEEEEeCC--cch---HHHHHHHHHhhhCce---EEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 43 SYVSIIYEESN--YGV---KAFEELEVLLAKYSI---CIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 43 ~~Vaii~~~~~--~g~---~~~~~~~~~l~~~Gi---~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
-+++||...|. .|. .....+.+.+++.|. .+.+ ..++.+ ...+.+.|.++.+..+.++||.-.
T Consensus 4 ~~~aIItvSd~~~~G~i~D~ng~~L~~~L~~~G~~g~~v~~-~iVpDd-----~~~I~~aL~~a~~~~~~DlIITTG 74 (193)
T PRK09417 4 LKIGLVSISDRASSGVYEDKGIPALEEWLASALTSPFEIET-RLIPDE-----QDLIEQTLIELVDEMGCDLVLTTG 74 (193)
T ss_pred cEEEEEEEcCcCCCCceeechHHHHHHHHHHcCCCCceEEE-EECCCC-----HHHHHHHHHHHhhcCCCCEEEECC
Confidence 35777765442 232 345667777888753 3433 444433 566778887765224678777653
No 429
>PF05706 CDKN3: Cyclin-dependent kinase inhibitor 3 (CDKN3); InterPro: IPR022778 This entry represents a domain found in cyclin-dependent kinase inhibitor 3 or kinase associated phosphatase proteins from several mammalian species. The cyclin-dependent kinase (Cdk)-associated protein phosphatase (KAP) is a human dual specificity protein phosphatase that dephosphorylates Cdk2 on threonine 160 in a cyclin-dependent manner [], []. This domain is also found in MAP kinase phosphatase and esterases. This entry contains both eukaryotic and bacterial proteins.; GO: 0004721 phosphoprotein phosphatase activity, 0004725 protein tyrosine phosphatase activity; PDB: 1FQ1_A 1FPZ_F.
Probab=33.87 E-value=88 Score=22.34 Aligned_cols=79 Identities=14% Similarity=0.059 Sum_probs=38.5
Q ss_pred HHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhc--CCCceEEEEee
Q psy12591 34 VEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLT--KPRARGLFKRL 111 (144)
Q Consensus 34 ~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~--~~~arvii~~~ 111 (144)
++-++.+|-+-|..+.++.+........+.+..++.|+... .-.|+.+.. ++......++..|.. ..+-+|+|-|.
T Consensus 64 L~~Lk~~G~~~Vvtl~~~~EL~~l~Vp~L~~~~~~~Gi~~~-h~PI~D~~a-Pd~~~~~~i~~eL~~~L~~g~~V~vHC~ 141 (168)
T PF05706_consen 64 LERLKDWGAQDVVTLLTDHELARLGVPDLGEAAQARGIAWH-HLPIPDGSA-PDFAAAWQILEELAARLENGRKVLVHCR 141 (168)
T ss_dssp HHHHHHTT--EEEE-S-HHHHHHTT-TTHHHHHHHTT-EEE-E----TTS----HHHHHHHHHHHHHHHHTT--EEEE-S
T ss_pred HHHHHHCCCCEEEEeCcHHHHHHcCCccHHHHHHHcCCEEE-ecCccCCCC-CCHHHHHHHHHHHHHHHHcCCEEEEECC
Confidence 34467888888887777777666667788899999999774 344554431 112222223333321 25677777776
Q ss_pred EEe
Q psy12591 112 KLV 114 (144)
Q Consensus 112 ~~~ 114 (144)
...
T Consensus 142 GGl 144 (168)
T PF05706_consen 142 GGL 144 (168)
T ss_dssp SSS
T ss_pred CCC
Confidence 544
No 430
>PRK14172 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=33.85 E-value=2.2e+02 Score=21.99 Aligned_cols=75 Identities=16% Similarity=0.143 Sum_probs=49.1
Q ss_pred EEEEEEEeCCcch-HHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNYGV-KAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~g~-~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
..++|..+++... ...+.-.+.+++-|+..... .++.+. +++++.+.+.+|-..++...|++.... ..+++..
T Consensus 34 ~Laii~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~-~l~~~~---~~~el~~~I~~lN~d~~V~GIlvqlPL--P~~~~~~ 107 (278)
T PRK14172 34 KIASILVGNDGGSIYYMNNQEKVANSLGIDFKKI-KLDESI---SEEDLINEIEELNKDNNVHGIMLQLPL--PKHLDEK 107 (278)
T ss_pred eEEEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHhCCCCCCeEEEcCCC--CCCCCHH
Confidence 5777766655543 45666778888999877544 466554 367788888888755667788877543 2355544
Q ss_pred hh
Q psy12591 123 TA 124 (144)
Q Consensus 123 ~~ 124 (144)
.+
T Consensus 108 ~i 109 (278)
T PRK14172 108 KI 109 (278)
T ss_pred HH
Confidence 33
No 431
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=33.68 E-value=2.1e+02 Score=21.70 Aligned_cols=62 Identities=13% Similarity=0.136 Sum_probs=36.4
Q ss_pred cEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 43 SYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 43 ~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+.|+++.. ++.|+....+.+++.+++.|..+...... .+ .....+.+..+. ..+++.||++.
T Consensus 60 ~~i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~--~~----~~~~~~~i~~l~-~~~vdgiii~~ 123 (341)
T PRK10703 60 KSIGLLATSSEAPYFAEIIEAVEKNCYQKGYTLILCNAW--NN----LEKQRAYLSMLA-QKRVDGLLVMC 123 (341)
T ss_pred CeEEEEeCCCCCchHHHHHHHHHHHHHHCCCEEEEEeCC--CC----HHHHHHHHHHHH-HcCCCEEEEec
Confidence 45777753 35677788888888888888765433211 11 122334455555 45566666554
No 432
>cd06354 PBP1_BmpA_PnrA_like Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. The PnrA lipoprotein, also known as Tp0319 or TmpC, represents a novel family of bacterial purine nucleoside receptor encoded within an ATP-binding cassette (ABC) transport system (pnrABCDE). It shows a striking structural similarity to another basic membrane lipoprotein Med which regulates the competence transcription factor gene, comK, in Bacillus subtilis. The members of PnrA-like subgroup are likely to have similar nucleoside-binding functions and a similar type I periplasmic sugar-binding protein-like fold.
Probab=33.49 E-value=1.9e+02 Score=21.18 Aligned_cols=77 Identities=9% Similarity=-0.074 Sum_probs=38.9
Q ss_pred HHHHHHHHh-CCCcEEEEEEEeCCcch-HHHHHHHHHhhhCc---eEEEEEecccCCCCCcchhhHHHHHHHHhcCCCce
Q psy12591 31 KAMVEIVKK-LGWSYVSIIYEESNYGV-KAFEELEVLLAKYS---ICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRAR 105 (144)
Q Consensus 31 ~a~~~ll~~-f~W~~Vaii~~~~~~g~-~~~~~~~~~l~~~G---i~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~ar 105 (144)
..+..++.. .|-++|+++..+..... ...+.|++.+++.| ..+..........+ ...+-...+.++. +.+++
T Consensus 109 ~~a~~ll~~~~G~~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~~~~~~~~~~~~~~~~--~~~~~~~~~~~ll-~~~pd 185 (265)
T cd06354 109 FLAGYLAALMTKTGKVGFIGGMDIPLIRRFEAGFEAGVKYVNPGVPDIEVLVQYAGSFN--DPAKGKEIAQAMY-DQGAD 185 (265)
T ss_pred HHHHHHHHhhcCCCeEEEEecccChHHHHHHHHHHHHHHHHhccCCCceEEEEEcCccc--CHHHHHHHHHHHH-HCCCc
Confidence 333455544 38999999975332122 22367888888877 54432211111110 0122234555655 23467
Q ss_pred EEEEe
Q psy12591 106 GLFKR 110 (144)
Q Consensus 106 vii~~ 110 (144)
+|+..
T Consensus 186 aI~~~ 190 (265)
T cd06354 186 VIFAA 190 (265)
T ss_pred EEEEC
Confidence 76654
No 433
>PRK14169 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=33.42 E-value=2.3e+02 Score=21.98 Aligned_cols=75 Identities=12% Similarity=0.157 Sum_probs=48.9
Q ss_pred EEEEEEEeCCc-chHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNY-GVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~-g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
+.++|..+++. .....+.-.+.+++-|+..... .++.+. +++++.+.+++|-..++..-|++.... ..+++..
T Consensus 32 ~Laii~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~-~l~~~~---~~~el~~~I~~lN~D~~V~GIlvqlPL--p~~i~~~ 105 (282)
T PRK14169 32 TLAVVLVGSDPASEVYVRNKQRRAEDIGVRSLMF-RLPEAT---TQADLLAKVAELNHDPDVDAILVQLPL--PAGLDEQ 105 (282)
T ss_pred eEEEEEeCCChhHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHhCCCCCCEEEEeCCC--CCCCCHH
Confidence 46666665554 4456777778888899877544 455554 367888888888655666778776543 2455554
Q ss_pred hh
Q psy12591 123 TA 124 (144)
Q Consensus 123 ~~ 124 (144)
.+
T Consensus 106 ~i 107 (282)
T PRK14169 106 AV 107 (282)
T ss_pred HH
Confidence 44
No 434
>COG0078 ArgF Ornithine carbamoyltransferase [Amino acid transport and metabolism]
Probab=33.40 E-value=2.4e+02 Score=22.24 Aligned_cols=109 Identities=10% Similarity=0.091 Sum_probs=63.1
Q ss_pred hHHHHHHHHHH---HhCC-CcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEE--EecccCCCCCcchhhHHHHHHHHhc
Q psy12591 27 HHQVKAMVEIV---KKLG-WSYVSIIYEESNYGVKAFEELEVLLAKYSICIAI--KEKLVKDSGVAEETAYDDIVLKLLT 100 (144)
Q Consensus 27 ~~~~~a~~~ll---~~f~-W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~--~~~~~~~~~~~~~~~~~~~l~~lk~ 100 (144)
.+-.+++++++ .||| .+-+-+.|..|. -+..+.+......-|..+.. .+.+.+ +.++-...+++.+
T Consensus 132 ~HP~Q~LADl~Ti~E~~g~l~g~k~a~vGDg--NNv~nSl~~~~a~~G~dv~ia~Pk~~~p------~~~~~~~a~~~a~ 203 (310)
T COG0078 132 FHPCQALADLMTIKEHFGSLKGLKLAYVGDG--NNVANSLLLAAAKLGMDVRIATPKGYEP------DPEVVEKAKENAK 203 (310)
T ss_pred cCcHHHHHHHHHHHHhcCcccCcEEEEEcCc--chHHHHHHHHHHHhCCeEEEECCCcCCc------CHHHHHHHHHHHH
Confidence 34556777654 6777 344444444442 45667777777777766543 334433 3456666666543
Q ss_pred CCCceEEEEe--------eEEeeeCCcchhhhhH-HHHHHHhcCcccccccc
Q psy12591 101 KPRARGLFKR--------LKLVKDSGVAEETAYD-DIVLKLLTKPRARAVSE 143 (144)
Q Consensus 101 ~~~arvii~~--------~~~~~~~g~~~~~~~~-~~~~~~~~~~~~~~~~~ 143 (144)
.+++++.+.. +..++++.|..---.+ ..+.++.+.|.|.|-.|
T Consensus 204 ~~g~~i~~t~d~~eAv~gADvvyTDvWvSMGee~e~~~~~~~~~~~yQVn~~ 255 (310)
T COG0078 204 ESGGKITLTEDPEEAVKGADVVYTDVWVSMGEEAEAEERRIAFLPPYQVNEE 255 (310)
T ss_pred hcCCeEEEecCHHHHhCCCCEEEecCcccCcchhhhHHHHHhhCCCceeCHH
Confidence 5667776653 3457777776422222 36668888887776443
No 435
>PLN02516 methylenetetrahydrofolate dehydrogenase (NADP+)
Probab=33.38 E-value=2.4e+02 Score=22.12 Aligned_cols=75 Identities=17% Similarity=0.128 Sum_probs=49.3
Q ss_pred EEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
..++|..+++.. ....+.-.+.+++-|+..... .++.+. +++++.+.+.+|-+.++...|++.... ..+++..
T Consensus 41 ~LaiI~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~-~l~~~~---s~~el~~~I~~lN~D~~V~GIlvq~Pl--P~~id~~ 114 (299)
T PLN02516 41 GLAVVIVGSRKDSQTYVNMKRKACAEVGIKSFDV-DLPENI---SEAELISKVHELNANPDVHGILVQLPL--PKHINEE 114 (299)
T ss_pred eEEEEEECCChhHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHhCCCCCCeEEEecCC--CCCcCHH
Confidence 577776655544 446677777888899876543 355543 367888999998766777788887653 3455544
Q ss_pred hh
Q psy12591 123 TA 124 (144)
Q Consensus 123 ~~ 124 (144)
.+
T Consensus 115 ~i 116 (299)
T PLN02516 115 KI 116 (299)
T ss_pred HH
Confidence 33
No 436
>PF00762 Ferrochelatase: Ferrochelatase; InterPro: IPR001015 Synonym(s): Protohaem ferro-lyase, Iron chelatase, etc. Ferrochelatase catalyses the last step in haem biosynthesis: the chelation of a ferrous ion to proto-porphyrin IX, to form protohaem [, ]. In eukaryotic cells, it binds to the mitochondrial inner membrane with its active site on the matrix side of the membrane. The X-ray structure of Bacillus subtilis and human ferrochelatase have been solved [, ]. The human enzyme exists as a homodimer. Each subunit contains one [2Fe-2S] cluster. The monomer is folded into two similar domains, each with a four-stranded parallel beta-sheet flanked by an alpha-helix in a beta-alpha-beta motif that is reminiscent of the fold found in the periplasmic binding proteins. The topological similarity between the domains suggests that they have arisen from a gene duplication event. However, significant differences exist between the two domains, including an N-terminal section (residues 80-130) that forms part of the active site pocket, and a C-terminal extension (residues 390-423) that is involved in coordination of the [2Fe-2S] cluster and in stabilisation of the homodimer. Ferrochelatase seems to have a structurally conserved core region that is common to the enzyme from bacteria, plants and mammals. Porphyrin binds in the identified cleft; this cleft also includes the metal-binding site of the enzyme. It is likely that the structure of the cleft region will have different conformations upon substrate binding and release [].; GO: 0004325 ferrochelatase activity, 0006783 heme biosynthetic process; PDB: 2QD3_B 2HRE_C 3HCN_B 2PNJ_A 2QD1_C 1HRK_A 2QD4_B 3AQI_B 2HRC_B 3HCO_B ....
Probab=32.91 E-value=1.1e+02 Score=23.83 Aligned_cols=87 Identities=10% Similarity=0.094 Sum_probs=47.7
Q ss_pred CCchHHHHHHHHHHH-hCCCc----EEEEEEE------------eCCcchH---HHHHHHHHhhhCceEEEEEecccCCC
Q psy12591 24 PSDHHQVKAMVEIVK-KLGWS----YVSIIYE------------ESNYGVK---AFEELEVLLAKYSICIAIKEKLVKDS 83 (144)
Q Consensus 24 p~d~~~~~a~~~ll~-~f~W~----~Vaii~~------------~~~~g~~---~~~~~~~~l~~~Gi~V~~~~~~~~~~ 83 (144)
..+....+++++.++ +.... ...+|.+ .|.|-.. .++.+.+.+.-.++.+++...+.+..
T Consensus 158 ~~~p~yi~a~~~~i~~~l~~~~~~~~~~llfSaHglP~~~~~~~GdpY~~~~~~t~~~i~~~l~~~~~~~~fQS~~g~~~ 237 (316)
T PF00762_consen 158 YDHPAYIEALAERIREALERFPRGEPDHLLFSAHGLPQRYVEDKGDPYPAQCEETARLIAERLGLPEWRLAFQSRFGPGE 237 (316)
T ss_dssp TT-HHHHHHHHHHHHHHHTTS-HCCCEEEEEEEE--BHHHHTCCT-SHHHHHHHHHHHHHHHTTTSSEEEEEES-SSSS-
T ss_pred cCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEccCCCCccccccCCCChHHHHHHHHHHHHHHcCCCceEEEEECCCCCCC
Confidence 355556677777553 33332 3555543 2445443 44555555555558888887776655
Q ss_pred CCcchhhHHHHHHHHhcCCCce-EEEEeeEE
Q psy12591 84 GVAEETAYDDIVLKLLTKPRAR-GLFKRLKL 113 (144)
Q Consensus 84 ~~~~~~~~~~~l~~lk~~~~ar-vii~~~~~ 113 (144)
. -..+..+.|.+|+ +.+.+ |+|+..++
T Consensus 238 W--L~P~~~~~l~~l~-~~G~~~V~v~p~gF 265 (316)
T PF00762_consen 238 W--LGPSTEDVLEELA-KEGVKRVVVVPPGF 265 (316)
T ss_dssp B--SSSBHHHHHHHHH-HCT-SEEEEEETT-
T ss_pred C--ccccHHHHHHHHH-hcCCCeEEEECCcc
Confidence 3 3557888999999 45555 44444433
No 437
>cd02826 Piwi-like Piwi-like: PIWI domain. Domain found in proteins involved in RNA silencing. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The central component of the RNA-induced silencing complex (RISC) and related complexes is Argonaute. The PIWI domain is the C-terminal portion of Argonaute and consists of two subdomains, one of which provides the 5' anchoring of the guide RNA and the other, the catalytic site for slicing. This domain is also found in closely related proteins, including the Piwi subfamily, where it is believed to perform a crucial role in germline cells, via a similar mechanism.
Probab=32.77 E-value=1.4e+02 Score=24.03 Aligned_cols=66 Identities=9% Similarity=-0.036 Sum_probs=38.3
Q ss_pred cEEEEEEEeCCcchHHHHHHHHHhhhCceEEEE-Eec--ccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 43 SYVSIIYEESNYGVKAFEELEVLLAKYSICIAI-KEK--LVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 43 ~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~-~~~--~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
+.+++++.+.+-...+.+.|...+++.|+.+.. ... +.... ....++...+.+.+ ..+...+++..
T Consensus 36 ~~W~vi~~~~~~~~~f~~~l~~~~~~~G~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~-~~~~~lv~~il 104 (393)
T cd02826 36 NPVAVIAFRNEEVDDLVKRLADACRQLGMKIKEIPIVSWIEDLN--NSFKDLKSVFKNAI-KAGVQLVIFIL 104 (393)
T ss_pred CeEEEEEcccHHHHHHHHHHHHHHHhCCCccCCCCCcceeeccc--ccHHHHHHHHHHHh-hcCCCEEEEEE
Confidence 455666655443456788888899999988754 111 11110 01456777777776 34566555443
No 438
>cd08512 PBP2_NikA_DppA_OppA_like_7 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most si
Probab=32.60 E-value=1.7e+02 Score=23.64 Aligned_cols=46 Identities=20% Similarity=0.318 Sum_probs=33.8
Q ss_pred HHHHHHHHhCCCc---EEEEEEEeCC-cchHHHHHHHHHhhhCceEEEEE
Q psy12591 31 KAMVEIVKKLGWS---YVSIIYEESN-YGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 31 ~a~~~ll~~f~W~---~Vaii~~~~~-~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
+...+||+.-||+ .+-+++..+. .....++.+++.+++.||.|...
T Consensus 319 ~~A~~lL~eaG~~~g~~l~l~~~~~~~~~~~~a~~i~~~l~~~Gi~v~~~ 368 (476)
T cd08512 319 EKAKELLAEAGYPNGFKLTLSYNSGNEPREDIAQLLQASLAQIGIKVEIE 368 (476)
T ss_pred HHHHHHHHHcCCCCCcEEEEEeCCCCcchHHHHHHHHHHHHHhCCeEEEE
Confidence 3445677888886 5666665443 56678999999999999988754
No 439
>PF07071 DUF1341: Protein of unknown function (DUF1341); InterPro: IPR010763 Members of this family of relatively uncommon proteins are found in both Gram-positive (e.g. Enterococcus faecalis) and Gram-negative (e.g. Aeromonas hydrophila) bacteria, as part of a cluster of conserved proteins. The function is unknown.; PDB: 3NZR_D 3LM7_A 3M0Z_B 3M6Y_A 3N73_A 3MUX_A.
Probab=32.27 E-value=2.1e+02 Score=21.24 Aligned_cols=74 Identities=11% Similarity=0.164 Sum_probs=45.3
Q ss_pred HHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEE
Q psy12591 29 QVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLF 108 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii 108 (144)
-.+..+.|++.+|-..+-..--...-..+-...+.++..++|+++.-.-.+. -.+|..+++-.. ..++.-||
T Consensus 136 ~vetAiaml~dmG~~SiKffPm~Gl~~leE~~avAkA~a~~g~~lEPTGGId-------l~N~~~I~~i~l-~aGv~~vi 207 (218)
T PF07071_consen 136 PVETAIAMLKDMGGSSIKFFPMGGLKHLEELKAVAKACARNGFTLEPTGGID-------LDNFEEIVKICL-DAGVEKVI 207 (218)
T ss_dssp EHHHHHHHHHHTT--EEEE---TTTTTHHHHHHHHHHHHHCT-EEEEBSS---------TTTHHHHHHHHH-HTT-S-B-
T ss_pred cHHHHHHHHHHcCCCeeeEeecCCcccHHHHHHHHHHHHHcCceeCCcCCcC-------HHHHHHHHHHHH-HcCCCeec
Confidence 3467788999999988887765555556667778888889999884333443 457888888777 46666666
Q ss_pred Ee
Q psy12591 109 KR 110 (144)
Q Consensus 109 ~~ 110 (144)
-+
T Consensus 208 PH 209 (218)
T PF07071_consen 208 PH 209 (218)
T ss_dssp -E
T ss_pred cc
Confidence 44
No 440
>PRK14166 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=32.26 E-value=2.4e+02 Score=21.86 Aligned_cols=75 Identities=11% Similarity=0.142 Sum_probs=48.5
Q ss_pred EEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
..+++..+++.. ....+.-.+.+++-|+...... ++.+. +++++.+.+.+|-..++..-|++.... ..+++..
T Consensus 32 ~Laii~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~~-l~~~~---t~~~l~~~I~~lN~D~~V~GIivq~PL--P~~i~~~ 105 (282)
T PRK14166 32 CLAVILVGDNPASQTYVKSKAKACEECGIKSLVYH-LNENT---TQNELLALINTLNHDDSVHGILVQLPL--PDHICKD 105 (282)
T ss_pred eEEEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEEE-CCCCC---CHHHHHHHHHHHhCCCCCCEEEEeCCC--CCCCCHH
Confidence 467776665554 4567777888888998765443 55543 367788888888755677788877543 2344443
Q ss_pred hh
Q psy12591 123 TA 124 (144)
Q Consensus 123 ~~ 124 (144)
.+
T Consensus 106 ~i 107 (282)
T PRK14166 106 LI 107 (282)
T ss_pred HH
Confidence 33
No 441
>KOG2749|consensus
Probab=32.01 E-value=2e+02 Score=23.47 Aligned_cols=56 Identities=16% Similarity=0.166 Sum_probs=36.3
Q ss_pred CceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchhhhhHHHHHHHhcCccccc
Q psy12591 69 YSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEETAYDDIVLKLLTKPRARA 140 (144)
Q Consensus 69 ~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~ 140 (144)
.++||.-.-.+..+ +.+..++..++ +-++.+||+..+ |++|.++-..+..+-+-|+
T Consensus 212 ~sG~iInT~g~i~~------egy~~llhai~-~f~v~vviVLg~---------ErLy~~lkk~~~~~~~v~v 267 (415)
T KOG2749|consen 212 VSGCIINTCGWIEG------EGYAALLHAIK-AFEVDVVIVLGQ---------ERLYSSLKKDLPPKKNVRV 267 (415)
T ss_pred ccceEEeccceecc------ccHHHHHHHHH-HcCccEEEEecc---------HHHHHHHHhhccccccceE
Confidence 35677766555543 46788888777 677888887765 5677766665554444433
No 442
>PF13361 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 1UAA_B 3U4Q_A 3U44_A 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A ....
Probab=31.95 E-value=1.4e+02 Score=22.38 Aligned_cols=56 Identities=14% Similarity=0.165 Sum_probs=36.8
Q ss_pred eEEecCCchHHHHHHHHHHH-----hCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEec
Q psy12591 19 FTRTIPSDHHQVKAMVEIVK-----KLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEK 78 (144)
Q Consensus 19 ffRt~p~d~~~~~a~~~ll~-----~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~ 78 (144)
.+...++...++..+++-++ ...|..+||++-+..+ ...+.+.|.+.||.+.....
T Consensus 49 ~~~~~~~~~~e~~~i~~~I~~l~~~~~~~~diAVL~R~~~~----~~~i~~~L~~~gIp~~~~~~ 109 (351)
T PF13361_consen 49 SIIEFDNEEEEAEYIAEEIKELIRNGIPPSDIAVLVRTNSQ----IKEIEDALKEAGIPYRISGS 109 (351)
T ss_dssp EEEEESSHHHHHHHHHHHHHHHHHTTS-GGGEEEEESSGGH----HHHHHHHHHHTTS-EEESSS
T ss_pred eeeccCCHHHHHHHHHHHHHHHhhcCCCcccEEEEEECchh----HHHHHHHHhhhcceeEeccc
Confidence 34555666666666665443 3579999999976544 46678888899998755443
No 443
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=31.86 E-value=1.5e+02 Score=20.96 Aligned_cols=65 Identities=11% Similarity=0.172 Sum_probs=39.2
Q ss_pred HHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhh---CceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEE
Q psy12591 32 AMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAK---YSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLF 108 (144)
Q Consensus 32 a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~---~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii 108 (144)
.+.+.+.++|.+-+ ....++-..++-+..+.+-. .++|+ +. + +.||..++.+|| ..+.+|++
T Consensus 70 ~l~~~l~~~Gf~pv---~~kG~~Dv~laIDame~~~~~~iD~~vL-----vS-g-----D~DF~~Lv~~lr-e~G~~V~v 134 (160)
T TIGR00288 70 KLIEAVVNQGFEPI---IVAGDVDVRMAVEAMELIYNPNIDAVAL-----VT-R-----DADFLPVINKAK-ENGKETIV 134 (160)
T ss_pred HHHHHHHHCCceEE---EecCcccHHHHHHHHHHhccCCCCEEEE-----Ee-c-----cHhHHHHHHHHH-HCCCEEEE
Confidence 46778888898854 22334433444333444422 22333 22 2 579999999999 67888887
Q ss_pred Eee
Q psy12591 109 KRL 111 (144)
Q Consensus 109 ~~~ 111 (144)
+-.
T Consensus 135 ~g~ 137 (160)
T TIGR00288 135 IGA 137 (160)
T ss_pred EeC
Confidence 653
No 444
>cd08503 PBP2_NikA_DppA_OppA_like_17 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=31.71 E-value=1.9e+02 Score=23.28 Aligned_cols=49 Identities=16% Similarity=0.146 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHhCCCc--EEEEEEEeCC-cchHHHHHHHHHhhhCceEEEEE
Q psy12591 28 HQVKAMVEIVKKLGWS--YVSIIYEESN-YGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 28 ~~~~a~~~ll~~f~W~--~Vaii~~~~~-~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
+..+...++|+.-||+ .+.+++..+. .....++.++..+++.|+.|...
T Consensus 305 ~d~~~A~~lL~eaG~~~~~l~l~~~~~~~~~~~~a~~i~~~l~~~Gi~v~i~ 356 (460)
T cd08503 305 YDPDKAKALLAEAGLPDLEVELVTSDAAPGAVDAAVLFAEQAAQAGININVK 356 (460)
T ss_pred CCHHHHHHHHHHcCCCCceEEEEecCCCccHHHHHHHHHHHHHhhCCEEEEE
Confidence 3345566788888997 5666665443 45678899999999999987643
No 445
>PF00107 ADH_zinc_N: Zinc-binding dehydrogenase; InterPro: IPR013149 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of alcohols to their corresponding acetaldehyde or ketone with the concomitant reduction of NAD: alcohol + NAD = aldehyde or ketone + NADH Currently three structurally and catalytically different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Zinc-containing ADH's [, ] are dimeric or tetrameric enzymes that bind two atoms of zinc per subunit. One of the zinc atom is essential for catalytic activity while the other is not. Both zinc atoms are coordinated by either cysteine or histidine residues; the catalytic zinc is coordinated by two cysteines and one histidine. Zinc-containing ADH's are found in bacteria, mammals, plants, and in fungi. In many species there is more than one isozyme (for example, humans have at least six isozymes, yeast have three, etc.). A number of other zinc-dependent dehydrogenases are closely related to zinc ADH [] and are included in this family. Sorbitol dehydrogenase (1.1.1.14 from EC) L-threonine 3-dehydrogenase (1.1.1.103 from EC) Glutathione-dependent formaldehyde dehydrogenase (1.1.1.284 from EC) Mannitol dehydrogenase (1.1.1.255 from EC) In addition, this family includes NADP-dependent quinone oxidoreductase (1.6.5.5 from EC), an enzyme found in bacteria (gene qor), in yeast and in mammals where, in some species such as rodents, it has been recruited as an eye lens protein and is known as zeta-crystallin []. The sequence of quinone oxidoreductase is distantly related to that other zinc-containing alcohol dehydrogenases and it lacks the zinc-ligand residues. The torpedo fish and mammalian synaptic vesicle membrane protein vat-1 is related to qor. This entry represents the cofactor-binding domain of these enzymes, which is normally found towards the C terminus. Structural studies indicate that it forms a classical Rossman fold that reversibly binds NAD(H) [, , ].; GO: 0008270 zinc ion binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3PI7_A 3COS_D 1VJ1_A 2ZB3_A 1PIW_B 1Q1N_A 1PS0_A 2EER_B 3KRT_A 1ZSY_A ....
Probab=31.68 E-value=1.4e+02 Score=19.06 Aligned_cols=18 Identities=17% Similarity=0.230 Sum_probs=10.4
Q ss_pred HHHHHHHHHhCCCcEEEEE
Q psy12591 30 VKAMVEIVKKLGWSYVSII 48 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~Vaii 48 (144)
+...+++++++| .+|.++
T Consensus 3 G~~a~q~ak~~G-~~vi~~ 20 (130)
T PF00107_consen 3 GLMAIQLAKAMG-AKVIAT 20 (130)
T ss_dssp HHHHHHHHHHTT-SEEEEE
T ss_pred HHHHHHHHHHcC-CEEEEE
Confidence 345667777777 444333
No 446
>PRK08621 galactose-6-phosphate isomerase subunit LacA; Reviewed
Probab=31.49 E-value=1.8e+02 Score=20.14 Aligned_cols=63 Identities=8% Similarity=-0.035 Sum_probs=38.8
Q ss_pred EEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH-HHHHHhcCCCceEEEEeeEEe
Q psy12591 48 IYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD-IVLKLLTKPRARGLFKRLKLV 114 (144)
Q Consensus 48 i~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~-~l~~lk~~~~arvii~~~~~~ 114 (144)
....|.-|....+.+.+.|+++|..|.-...- .+. +=.++.. .-+.+.+....+.|++|.+.+
T Consensus 4 ~igsDhaG~~lK~~l~~~L~~~G~eV~D~G~~--~~~--dYpd~a~~va~~V~~~~~~~GIliCGTGi 67 (142)
T PRK08621 4 IIGADKAGFELKEVVKDYLEDNKYEVVDVTEE--GAE--DFVDSTLAVAKEVNKSEDNLGIVIDAYGA 67 (142)
T ss_pred EEEeCcchHHHHHHHHHHHHHCCCEEEECCCC--CCC--CcHHHHHHHHHHHHcCCCceEEEEcCCCh
Confidence 34456678899999999999999888643321 111 1123433 335555344568888887743
No 447
>TIGR03405 Phn_Fe-ADH phosphonate metabolism-associated iron-containing alcohol dehydrogenase. 2-hydroxyethylphosphonate (2-HEP), the presumed product of the reaction of Pald with an alcohol dehydrogenase, is a biologically novel but reasonable analog of 2-AEP and may be a constituent of as-yet undescribed natural products. In the case of Azoarcus, downstream of the dehydrogenase is a CDP-glycerol:glycerophosphate transferase homolog that may indicate the existence of a pathway for 2-HEP-derived phosphonolipid biosynthesis.
Probab=31.46 E-value=2.6e+02 Score=22.04 Aligned_cols=66 Identities=12% Similarity=0.071 Sum_probs=41.1
Q ss_pred CCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCC--ceEEEEeeE
Q psy12591 41 GWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPR--ARGLFKRLK 112 (144)
Q Consensus 41 ~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~--arvii~~~~ 112 (144)
+.+++.++++...+..+..+.+.+.++.... .....+.+++ +.++..+.+..++ ..+ ++.||....
T Consensus 22 ~~~r~lvVtd~~~~~~g~~~~v~~~L~~~~~--~~~~~v~~~p---t~~~v~~~~~~~~-~~~~~~D~IIaiGG 89 (355)
T TIGR03405 22 HGRRVVVVTFPEARALGLARRLEALLGGRLA--ALIDDVAPNP---DVAQLDGLYARLW-GDEGACDLVIALGG 89 (355)
T ss_pred CCCeEEEEECcchhhcchHHHHHHHhccCcE--EEeCCCCCCc---CHHHHHHHHHHHH-hcCCCCCEEEEeCC
Confidence 3488888885444434566778887765432 2233455554 3667778888777 334 788887754
No 448
>PRK14175 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=31.38 E-value=2.5e+02 Score=21.79 Aligned_cols=75 Identities=15% Similarity=0.144 Sum_probs=48.9
Q ss_pred EEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
+.++|..+++.. ....+.-.+.+++-|+..... .++.+. ++.++.+.+++|-..++..-|++.... ..+++..
T Consensus 34 ~Laii~vg~~~as~~Yv~~k~k~a~~~Gi~~~~~-~l~~~~---~~~~l~~~I~~lN~d~~V~GIivq~Pl--p~~i~~~ 107 (286)
T PRK14175 34 KLSVILVGNDGASQSYVRSKKKAAEKIGMISEIV-HLEETA---TEEEVLNELNRLNNDDSVSGILVQVPL--PKQVSEQ 107 (286)
T ss_pred eEEEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHhCCCCCCEEEEeCCC--CCCCCHH
Confidence 467776655544 446677777888899876544 355554 367888888888755677778877543 2455544
Q ss_pred hh
Q psy12591 123 TA 124 (144)
Q Consensus 123 ~~ 124 (144)
.+
T Consensus 108 ~i 109 (286)
T PRK14175 108 KI 109 (286)
T ss_pred HH
Confidence 33
No 449
>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional
Probab=31.35 E-value=2.9e+02 Score=23.39 Aligned_cols=75 Identities=9% Similarity=0.048 Sum_probs=41.9
Q ss_pred HHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcC--CCceEEEEe
Q psy12591 33 MVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTK--PRARGLFKR 110 (144)
Q Consensus 33 ~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~--~~arvii~~ 110 (144)
+.++++.++ .++.++.++... ...+.+.+.+++.|+++. ...++......+.+.....+..+++. .+.++||..
T Consensus 201 l~~~l~~~g-~k~~iV~d~~v~--~~~~~l~~~L~~~g~~v~-~~v~p~~E~~ksl~~v~~~~~~l~~~~~~r~D~IIAI 276 (542)
T PRK14021 201 LPQVLGPKP-VKVALIHTQPVQ--RHSDRARTLLRQGGYEVS-DIVIPDAEAGKTIEVANGIWQRLGNEGFTRSDAIVGL 276 (542)
T ss_pred HHHHHHhcC-CeEEEEECccHH--HHHHHHHHHHHhCCCceE-EEEeCCCcccCCHHHHHHHHHHHHhcCCCCCcEEEEE
Confidence 344555555 466666654332 356778888888888653 33344432111234555566666632 257788765
Q ss_pred e
Q psy12591 111 L 111 (144)
Q Consensus 111 ~ 111 (144)
.
T Consensus 277 G 277 (542)
T PRK14021 277 G 277 (542)
T ss_pred c
Confidence 4
No 450
>KOG1014|consensus
Probab=31.26 E-value=2.6e+02 Score=22.05 Aligned_cols=10 Identities=30% Similarity=0.630 Sum_probs=5.3
Q ss_pred hHHHHHHHHh
Q psy12591 90 AYDDIVLKLL 99 (144)
Q Consensus 90 ~~~~~l~~lk 99 (144)
+++.+.+.|.
T Consensus 114 ~ye~i~~~l~ 123 (312)
T KOG1014|consen 114 VYEKLLEKLA 123 (312)
T ss_pred hHHHHHHHhc
Confidence 4555555554
No 451
>PRK14168 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=31.06 E-value=2.6e+02 Score=21.87 Aligned_cols=75 Identities=11% Similarity=0.038 Sum_probs=49.5
Q ss_pred EEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
..++|..+++.. ....+.-.+.+++-|+.... ..++.+. +++++.+.+.+|-+.++...|++.... ..+++..
T Consensus 35 ~LaiI~vg~d~as~~Yv~~k~k~~~~~Gi~~~~-~~l~~~~---t~~el~~~I~~lN~D~~V~GIivqlPl--P~~i~~~ 108 (297)
T PRK14168 35 GLVTILVGESPASLSYVTLKIKTAHRLGFHEIQ-DNQSVDI---TEEELLALIDKYNNDDSIHGILVQLPL--PKHINEK 108 (297)
T ss_pred eEEEEEeCCCHHHHHHHHHHHHHHHHcCCEEEE-EECCCCC---CHHHHHHHHHHHhCCCCCCEEEEeCCC--CCCCCHH
Confidence 467776665554 44667777888889987643 3455554 377888999999766677788877543 2455544
Q ss_pred hh
Q psy12591 123 TA 124 (144)
Q Consensus 123 ~~ 124 (144)
.+
T Consensus 109 ~i 110 (297)
T PRK14168 109 KV 110 (297)
T ss_pred HH
Confidence 43
No 452
>TIGR01118 lacA galactose-6-phosphate isomerase, LacA subunit. This family contains members from low GC gram-positive bacteria. Galactose-6-phosphate isomerase is involved in lactose catabolism by the tagatose-6-phosphate pathway.
Probab=31.05 E-value=1.8e+02 Score=20.08 Aligned_cols=63 Identities=8% Similarity=0.017 Sum_probs=38.4
Q ss_pred EEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHH-HHHHHhcCCCceEEEEeeEEe
Q psy12591 48 IYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDD-IVLKLLTKPRARGLFKRLKLV 114 (144)
Q Consensus 48 i~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~-~l~~lk~~~~arvii~~~~~~ 114 (144)
....|.-|....+.+.+.|+++|..|.-... ..+. +=.++.. .-+.+.+....|.|++|.+.+
T Consensus 4 ~IgsDh~G~~lK~~i~~~L~~~G~eV~D~G~--~~~~--dYpd~a~~va~~V~~~e~~~GIliCGtGi 67 (141)
T TIGR01118 4 IIGSDLAGKRLKDVIKNFLVDNGFEVIDVTE--GDGQ--DFVDVTLAVASEVQKDEQNLGIVIDAYGA 67 (141)
T ss_pred EEEeCcchHHHHHHHHHHHHHCCCEEEEcCC--CCCC--CcHHHHHHHHHHHHcCCCceEEEEcCCCH
Confidence 3445667889999999999999988754332 1111 1123333 334555345557888887643
No 453
>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3.1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....
Probab=30.91 E-value=1.8e+02 Score=20.06 Aligned_cols=77 Identities=17% Similarity=0.147 Sum_probs=45.4
Q ss_pred HHHHhCCCcEEEEEEEeCC-cc--hHHHHHHHHHhhhCceEEEEEecccCCCCC------cc------hhhHHHHHHHHh
Q psy12591 35 EIVKKLGWSYVSIIYEESN-YG--VKAFEELEVLLAKYSICIAIKEKLVKDSGV------AE------ETAYDDIVLKLL 99 (144)
Q Consensus 35 ~ll~~f~W~~Vaii~~~~~-~g--~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~------~~------~~~~~~~l~~lk 99 (144)
+.++..|++.|-+-..... +. ....+.+.+.+++.|+.|............ .+ -..+...++..+
T Consensus 2 ~~~~~~G~~~vE~~~~~~~~~~~~~~~~~~~~~~~~~~gl~i~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~i~~a~ 81 (213)
T PF01261_consen 2 EAAAEAGFDGVELRFDDGQPWDEKDDEAEELRRLLEDYGLKIASLHPPTNFWSPDEENGSANDEREEALEYLKKAIDLAK 81 (213)
T ss_dssp HHHHHTTHSEEEEEHHHHSHHTHHHHHHHHHHHHHHHTTCEEEEEEEEESSSCTGTTSTTSSSHHHHHHHHHHHHHHHHH
T ss_pred hHHHHcCCCEEEEecCCCcccccchHHHHHHHHHHHHcCCeEEEEecccccccccccccCcchhhHHHHHHHHHHHHHHH
Confidence 4566777777777654322 11 246788999999999997654432221110 11 234445555444
Q ss_pred cCCCceEEEEeeE
Q psy12591 100 TKPRARGLFKRLK 112 (144)
Q Consensus 100 ~~~~arvii~~~~ 112 (144)
.-+++.++++..
T Consensus 82 -~lg~~~i~~~~g 93 (213)
T PF01261_consen 82 -RLGAKYIVVHSG 93 (213)
T ss_dssp -HHTBSEEEEECT
T ss_pred -HhCCCceeecCc
Confidence 467888888754
No 454
>PRK14187 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=30.84 E-value=2.6e+02 Score=21.83 Aligned_cols=75 Identities=8% Similarity=0.054 Sum_probs=48.8
Q ss_pred EEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
..++|..+++.. ....+.-.+.+++-|+..... .++.+. ++.++.+.+.+|-..++...|++.... ..+++..
T Consensus 34 ~LaiI~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~-~l~~~~---~e~~l~~~I~~lN~d~~V~GIlvqlPL--P~~i~~~ 107 (294)
T PRK14187 34 CLIVILVGDDPASQLYVRNKQRKAEMLGLRSETI-LLPSTI---SESSLIEKINELNNDDSVHGILVQLPV--PNHIDKN 107 (294)
T ss_pred eEEEEEeCCChhHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHhCCCCCCEEEEeCCC--CCCCCHH
Confidence 467776665554 446667778888899876544 355553 367788889988755667778776543 2455544
Q ss_pred hh
Q psy12591 123 TA 124 (144)
Q Consensus 123 ~~ 124 (144)
.+
T Consensus 108 ~i 109 (294)
T PRK14187 108 LI 109 (294)
T ss_pred HH
Confidence 33
No 455
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=30.54 E-value=1.8e+02 Score=19.79 Aligned_cols=72 Identities=19% Similarity=0.201 Sum_probs=44.5
Q ss_pred cccCCCCCCcCCCCCCceEEecC---CchHHHHHHHHHHHhCCCcEEEEEE--------EeCCc-chHHHHHHHHHhhhC
Q psy12591 2 SFWSTSPELSNKQRFEYFTRTIP---SDHHQVKAMVEIVKKLGWSYVSIIY--------EESNY-GVKAFEELEVLLAKY 69 (144)
Q Consensus 2 s~~at~~~ls~~~~~p~ffRt~p---~d~~~~~a~~~ll~~f~W~~Vaii~--------~~~~~-g~~~~~~~~~~l~~~ 69 (144)
||++.+-.-+.+.+||.-.|.++ +.+....-+++-++. |-.-|-+.. ...+| ...-++.+++.|++-
T Consensus 12 sygaaDlag~~rmqyp~~vRiIrv~CsGrvn~~fvl~Al~~-GaDGV~v~GC~~geCHy~~GN~ka~rR~~~lke~l~el 90 (132)
T COG1908 12 SYGAADLAGTSRMQYPPNVRIIRVMCSGRVNPEFVLKALRK-GADGVLVAGCKIGECHYISGNYKAKRRMELLKELLKEL 90 (132)
T ss_pred cccchhhhccccccCCCceEEEEeeccCccCHHHHHHHHHc-CCCeEEEecccccceeeeccchHHHHHHHHHHHHHHHh
Confidence 56777766677888998877776 444455555554433 555555542 11222 345677788888888
Q ss_pred ceEEE
Q psy12591 70 SICIA 74 (144)
Q Consensus 70 Gi~V~ 74 (144)
|+.-.
T Consensus 91 gie~e 95 (132)
T COG1908 91 GIEPE 95 (132)
T ss_pred CCCcc
Confidence 87543
No 456
>TIGR00114 lumazine-synth 6,7-dimethyl-8-ribityllumazine synthase. Archaeal members of this family are considered putative, although included in the seed and scoring above the trusted cutoff.
Probab=30.50 E-value=1.8e+02 Score=19.92 Aligned_cols=66 Identities=9% Similarity=-0.034 Sum_probs=37.2
Q ss_pred EEEEEEE--eCCcchHHHHHHHHHhhhCceEEEE--EecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEee
Q psy12591 44 YVSIIYE--ESNYGVKAFEELEVLLAKYSICIAI--KEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVK 115 (144)
Q Consensus 44 ~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~--~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~ 115 (144)
+++||.+ |.+....+.+...+.|++.|+.... ...+| + .-.+--.++++.+..+-+.+|...-.+.
T Consensus 2 ri~IV~s~~n~~i~~~L~~ga~~~l~~~g~~~~~i~v~~VP-G-----a~EiP~a~~~l~~~~~~DavI~LG~VIr 71 (138)
T TIGR00114 2 RVGIVIARFNRDITDMLLKGAIDALKRLGAEVDNIDVIWVP-G-----AFELPLAVKKLAETGKYDAVIALGCVIR 71 (138)
T ss_pred EEEEEEecCCHHHHHHHHHHHHHHHHHcCCCccceEEEECC-c-----HHHHHHHHHHHHhcCCCCEEEEEeeEEe
Confidence 5677765 3444555666677778888866442 22232 2 2334445555553456777777766553
No 457
>PRK13835 conjugal transfer protein TrbH; Provisional
Probab=30.46 E-value=1.9e+02 Score=20.14 Aligned_cols=50 Identities=16% Similarity=0.241 Sum_probs=30.7
Q ss_pred CCchHHHHHHHH-HHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEE
Q psy12591 24 PSDHHQVKAMVE-IVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAI 75 (144)
Q Consensus 24 p~d~~~~~a~~~-ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~ 75 (144)
|.....+..+++ |.+.++--.=-+....+. ..+...|.+.|+..|.+|..
T Consensus 37 ~aa~~iA~D~vsqLae~~pPa~tt~~l~q~~--d~Fg~aL~~aLr~~GYaVvt 87 (145)
T PRK13835 37 PAASAIAGDMVSRLAEQIGPGTTTIKLKKDT--SPFGQALEAALKGWGYAVVT 87 (145)
T ss_pred hHHHHHHHHHHHHHHHhcCCCceEEEEeecC--cHHHHHHHHHHHhcCeEEee
Confidence 334445555554 667777544323222222 36678899999999999985
No 458
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=30.24 E-value=1.5e+02 Score=18.84 Aligned_cols=68 Identities=12% Similarity=0.004 Sum_probs=36.2
Q ss_pred HHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEec-ccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 32 AMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEK-LVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 32 a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~-~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
.+..+++..||+ +.++-.+. ..+.+.+.+.+.+..+..... +... .....+.++.+| ....++.++.
T Consensus 19 ~la~~l~~~G~~-v~~~d~~~-----~~~~l~~~~~~~~pd~V~iS~~~~~~-----~~~~~~l~~~~k-~~~p~~~iv~ 86 (121)
T PF02310_consen 19 YLAAYLRKAGHE-VDILDANV-----PPEELVEALRAERPDVVGISVSMTPN-----LPEAKRLARAIK-ERNPNIPIVV 86 (121)
T ss_dssp HHHHHHHHTTBE-EEEEESSB------HHHHHHHHHHTTCSEEEEEESSSTH-----HHHHHHHHHHHH-TTCTTSEEEE
T ss_pred HHHHHHHHCCCe-EEEECCCC-----CHHHHHHHHhcCCCcEEEEEccCcCc-----HHHHHHHHHHHH-hcCCCCEEEE
Confidence 445678888993 44442221 115566666554443333222 3222 455677778888 5556666555
Q ss_pred e
Q psy12591 111 L 111 (144)
Q Consensus 111 ~ 111 (144)
.
T Consensus 87 G 87 (121)
T PF02310_consen 87 G 87 (121)
T ss_dssp E
T ss_pred E
Confidence 5
No 459
>COG0698 RpiB Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]
Probab=30.13 E-value=2e+02 Score=20.20 Aligned_cols=62 Identities=10% Similarity=-0.016 Sum_probs=38.1
Q ss_pred eCCcchHHHHHHHHHhhhCceEEEEEecccCCC-CCcchhhHH-HHHHHHhcCCCceEEEEeeEEe
Q psy12591 51 ESNYGVKAFEELEVLLAKYSICIAIKEKLVKDS-GVAEETAYD-DIVLKLLTKPRARGLFKRLKLV 114 (144)
Q Consensus 51 ~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~-~~~~~~~~~-~~l~~lk~~~~arvii~~~~~~ 114 (144)
.|.-|.+..+.+.+.|+++|+.|.-.-.+.... ++ =.++. ...+++.....-+.|++|.+.+
T Consensus 7 ~Dhag~~lK~~I~~~Lk~~g~~v~D~G~~~~~~~~d--yp~~a~~va~~v~~~~~d~GIliCGTGi 70 (151)
T COG0698 7 SDHAGYELKEIIIDHLKSKGYEVIDFGTYTDEGSVD--YPDYAKKVAEAVLNGEADLGILICGTGI 70 (151)
T ss_pred cCcccHHHHHHHHHHHHHCCCEEEeccccCCCCCcc--hHHHHHHHHHHHHcCCCCeeEEEecCCh
Confidence 345677899999999999999986543443321 11 12333 3445565334457787887643
No 460
>cd01016 TroA Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=29.96 E-value=84 Score=23.88 Aligned_cols=47 Identities=13% Similarity=0.205 Sum_probs=29.5
Q ss_pred HHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 62 LEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 62 ~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
|.-.++..|+.......+.++.. +...++..+++.+| ..+.++|+.-
T Consensus 171 f~Y~~~~ygl~~~~~~~~~~~~e-ps~~~l~~l~~~ik-~~~v~~if~e 217 (276)
T cd01016 171 FGYFGRAYGFEVKGLQGISTDSE-AGLRDINELVDLIV-ERKIKAIFVE 217 (276)
T ss_pred HHHHHHHcCCeEecCcCCCcccC-CCHHHHHHHHHHHH-HcCCCEEEEe
Confidence 34444555766655444433321 34788999999999 6788887653
No 461
>PRK14193 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=29.93 E-value=2.7e+02 Score=21.65 Aligned_cols=75 Identities=15% Similarity=0.173 Sum_probs=49.3
Q ss_pred EEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
..++|..+++.. ....+.-.+.+++-|+..... .++.+. +++++.+.+.+|-+.++...|++.... ..+++..
T Consensus 34 ~LaiI~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~-~l~~~~---t~~el~~~I~~lN~D~~V~GIlvqlPl--P~~id~~ 107 (284)
T PRK14193 34 GLGTVLVGDDPGSQAYVRGKHRDCAEVGITSIRR-DLPADA---TQEELNAVIDELNADPACTGYIVQLPL--PKHLDEN 107 (284)
T ss_pred eEEEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHhCCCCCCEEEEeCCC--CCCCCHH
Confidence 577776665554 446777777888899876544 355553 367788888888755667778877543 2455554
Q ss_pred hh
Q psy12591 123 TA 124 (144)
Q Consensus 123 ~~ 124 (144)
.+
T Consensus 108 ~i 109 (284)
T PRK14193 108 AV 109 (284)
T ss_pred HH
Confidence 44
No 462
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=29.71 E-value=1.4e+02 Score=20.44 Aligned_cols=18 Identities=22% Similarity=0.115 Sum_probs=9.0
Q ss_pred HHHHHHHHhhhCceEEEE
Q psy12591 58 AFEELEVLLAKYSICIAI 75 (144)
Q Consensus 58 ~~~~~~~~l~~~Gi~V~~ 75 (144)
.-+.+.+.+.+.|+.+..
T Consensus 105 rd~~v~~~l~~~~i~~~~ 122 (165)
T PF00875_consen 105 RDERVRKALKKHGIKVHT 122 (165)
T ss_dssp HHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHhcceEEEE
Confidence 344445555555555543
No 463
>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=29.64 E-value=2.5e+02 Score=21.20 Aligned_cols=46 Identities=24% Similarity=0.300 Sum_probs=33.8
Q ss_pred HHHHHHHHHHhCCCcEEEE-EEEeCC--cchHHHHHHHHHhhhCceEEE
Q psy12591 29 QVKAMVEIVKKLGWSYVSI-IYEESN--YGVKAFEELEVLLAKYSICIA 74 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~Vai-i~~~~~--~g~~~~~~~~~~l~~~Gi~V~ 74 (144)
.+.+++++++..|=.+|.+ ||++++ -.....+.+...|.+.|+.-.
T Consensus 19 ~~~~ll~li~~LGp~nv~vSIyE~~S~D~T~~~L~~L~~~L~~lgv~~~ 67 (241)
T PF11735_consen 19 WGDALLELIRFLGPENVFVSIYESGSWDGTKEALRALDAELDALGVPHS 67 (241)
T ss_pred HHHHHHHHHHHhCcCeEEEEEEeCCCCccHHHHHHHHHHHHHhCCCCeE
Confidence 4458899999999998876 566543 234567788888888887644
No 464
>PRK08125 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated
Probab=29.63 E-value=2.1e+02 Score=24.61 Aligned_cols=72 Identities=13% Similarity=0.071 Sum_probs=41.9
Q ss_pred HHHHHHHHHHhCCCcEEEEEEEeC-CcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEE
Q psy12591 29 QVKAMVEIVKKLGWSYVSIIYEES-NYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGL 107 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~~Vaii~~~~-~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvi 107 (144)
.+...++.|..-+..-++|++..+ ..+......+.+.+.++|+.+.....+. +. ..+..|+ ..+++++
T Consensus 11 ~a~~~l~~L~~~~~~i~~V~t~pd~~~~~~~~~~v~~~a~~~~ip~~~~~~~~-------~~---~~~~~l~-~~~~D~i 79 (660)
T PRK08125 11 IGCVGIEALLAAGYEIAAVFTHTDNPGENHFFGSVARLAAELGIPVYAPEDVN-------HP---LWVERIR-ELAPDVI 79 (660)
T ss_pred HHHHHHHHHHHCCCcEEEEEeCCCCCcCCCCcCHHHHHHHHcCCcEEeeCCCC-------cH---HHHHHHH-hcCCCEE
Confidence 444555544445777777777544 3443334467888999999885433332 11 2345566 4567777
Q ss_pred EEee
Q psy12591 108 FKRL 111 (144)
Q Consensus 108 i~~~ 111 (144)
|+..
T Consensus 80 v~~~ 83 (660)
T PRK08125 80 FSFY 83 (660)
T ss_pred EEcc
Confidence 6643
No 465
>COG0108 RibB 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]
Probab=29.48 E-value=1.6e+02 Score=21.68 Aligned_cols=58 Identities=16% Similarity=0.226 Sum_probs=42.7
Q ss_pred ceEEecCC----chHHHHHHHHHHHhCCCcEEEEEEE--eCCcchHHHHHHHHHhhhCceEEEE
Q psy12591 18 YFTRTIPS----DHHQVKAMVEIVKKLGWSYVSIIYE--ESNYGVKAFEELEVLLAKYSICIAI 75 (144)
Q Consensus 18 ~ffRt~p~----d~~~~~a~~~ll~~f~W~~Vaii~~--~~~~g~~~~~~~~~~l~~~Gi~V~~ 75 (144)
+.+|..+. -.-+.++.++|++--|.+.+++|.+ |++-+.-....+.+.++++|+.+..
T Consensus 127 fpL~A~~ggVl~R~GHTEasVdLarlAGl~Pa~VicEi~~~dG~mar~~~~~~fa~~h~l~~it 190 (203)
T COG0108 127 FPLRAKDGGVLERRGHTEAAVDLARLAGLKPAGVICEIMNDDGTMARLPELEEFAKEHGLPVIT 190 (203)
T ss_pred eeeeeccCCeeccCChHHHHHHHHHHcCCCCcEEEEEEeCCCccccChHHHHHHHHHcCCcEEE
Confidence 44555542 2336688899999999999999986 4555555678888999999988754
No 466
>COG0807 RibA GTP cyclohydrolase II [Coenzyme metabolism]
Probab=29.05 E-value=2.3e+02 Score=20.69 Aligned_cols=51 Identities=16% Similarity=0.237 Sum_probs=36.0
Q ss_pred CchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCC
Q psy12591 25 SDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDS 83 (144)
Q Consensus 25 ~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~ 83 (144)
.|.-.-..-+++|+.+|-+++-++.++..- ...+...|++|+....+....
T Consensus 124 ~D~R~ygigAqIL~dLGI~~irLLtnnp~K--------~~~l~~~Gi~vverv~~~~~~ 174 (193)
T COG0807 124 ADERDYGIGAQILKDLGIKKIRLLTNNPRK--------IYGLEGFGINVVERVPLIVGA 174 (193)
T ss_pred chHHHHHHHHHHHHHcCCcEEEEecCChHH--------HHHHHhCCceEEEEeecCCCC
Confidence 333344455789999999999999875422 456677889998777665553
No 467
>COG0223 Fmt Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]
Probab=28.89 E-value=2.4e+02 Score=22.16 Aligned_cols=75 Identities=13% Similarity=0.150 Sum_probs=44.9
Q ss_pred CchHHHHHHHHHHHhCCCcEEEEEEEeC-Ccch---HHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhc
Q psy12591 25 SDHHQVKAMVEIVKKLGWSYVSIIYEES-NYGV---KAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLT 100 (144)
Q Consensus 25 ~d~~~~~a~~~ll~~f~W~~Vaii~~~~-~~g~---~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~ 100 (144)
++..-...+-.|+. -+..-++|++.-| .-|+ -...-++..+.++|+.|-..+.+.. . ..+..++
T Consensus 9 Tp~fa~~~L~~L~~-~~~eivaV~Tqpdkp~gR~~~l~~spVk~~A~~~~ipv~qP~~l~~-------~---e~~~~l~- 76 (307)
T COG0223 9 TPEFAVPSLEALIE-AGHEIVAVVTQPDKPAGRGKKLTPSPVKRLALELGIPVFQPEKLND-------P---EFLEELA- 76 (307)
T ss_pred CchhhHHHHHHHHh-CCCceEEEEeCCCCccCCCCcCCCChHHHHHHHcCCceeccccCCc-------H---HHHHHHh-
Confidence 33444455555665 4588888888744 4455 2446677788889998654444432 2 3444455
Q ss_pred CCCceEEEEee
Q psy12591 101 KPRARGLFKRL 111 (144)
Q Consensus 101 ~~~arvii~~~ 111 (144)
..+++++|+++
T Consensus 77 ~l~~D~ivvva 87 (307)
T COG0223 77 ALDPDLIVVVA 87 (307)
T ss_pred ccCCCEEEEEe
Confidence 44577777654
No 468
>cd08490 PBP2_NikA_DppA_OppA_like_3 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=28.75 E-value=2.3e+02 Score=22.80 Aligned_cols=46 Identities=20% Similarity=0.308 Sum_probs=31.9
Q ss_pred HHHHHHHHhCCCcE--------------EEEEEEeC-CcchHHHHHHHHHhhhCceEEEEE
Q psy12591 31 KAMVEIVKKLGWSY--------------VSIIYEES-NYGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 31 ~a~~~ll~~f~W~~--------------Vaii~~~~-~~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
....++|+.-||+. +-+++.++ ......++.+++.+++.|+.+...
T Consensus 295 ~~A~~lL~~aG~~~~~~~~~~~~G~~~~l~l~~~~~~~~~~~~a~~i~~~l~~~Gi~v~~~ 355 (470)
T cd08490 295 EKAKELLAEAGWTDGDGDGIEKDGEPLELTLLTYTSRPELPPIAEAIQAQLKKIGIDVEIR 355 (470)
T ss_pred HHHHHHHHHcCCCCCCCcccccCCceEEEEEEecCCCCchHHHHHHHHHHHHHcCceEEEE
Confidence 34456777888863 44444333 445678899999999999988654
No 469
>cd08517 PBP2_NikA_DppA_OppA_like_13 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=28.52 E-value=2.4e+02 Score=22.68 Aligned_cols=48 Identities=10% Similarity=0.164 Sum_probs=33.3
Q ss_pred HHHHHHHHHHhCCCc--------EEEEEEEeC-CcchHHHHHHHHHhhhCceEEEEE
Q psy12591 29 QVKAMVEIVKKLGWS--------YVSIIYEES-NYGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 29 ~~~a~~~ll~~f~W~--------~Vaii~~~~-~~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
-.+...+||+.-||+ .+-+++..+ ......++.+++.+++.|+.+...
T Consensus 312 d~~~A~~lL~~aG~~~~~~G~~~~l~l~~~~~~~~~~~~a~~i~~~l~~iGi~v~i~ 368 (480)
T cd08517 312 DVAKAEALLDEAGYPRGADGIRFKLRLDPLPYGEFWKRTAEYVKQALKEVGIDVELR 368 (480)
T ss_pred CHHHHHHHHHHcCCCcCCCCceEEEEEEecCCCchHHHHHHHHHHHHHHcCCEEEEE
Confidence 345566788888997 255554322 223678899999999999987654
No 470
>PRK14183 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=28.47 E-value=2.8e+02 Score=21.48 Aligned_cols=74 Identities=8% Similarity=0.103 Sum_probs=48.1
Q ss_pred EEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
..++|..+++.. ....+.-.+.+++-|+..... .++.+. +++++.+.+++|-..++..-|++.... ..+++..
T Consensus 33 ~Laii~vgdd~as~~Yv~~k~k~a~~~Gi~~~~~-~l~~~~---~~~~l~~~I~~lN~D~~V~GIlvq~Pl--P~~i~~~ 106 (281)
T PRK14183 33 GLAVILVGDDPASHTYVKMKAKACDRVGIYSITH-EMPSTI---SQKEILETIAMMNNNPNIDGILVQLPL--PKHIDTT 106 (281)
T ss_pred eEEEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHhCCCccCeEEEeCCC--CCCCCHH
Confidence 466666655544 456677777888899876544 466554 367788888888755667778776543 2455543
Q ss_pred h
Q psy12591 123 T 123 (144)
Q Consensus 123 ~ 123 (144)
.
T Consensus 107 ~ 107 (281)
T PRK14183 107 K 107 (281)
T ss_pred H
Confidence 3
No 471
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=28.45 E-value=1.1e+02 Score=23.38 Aligned_cols=46 Identities=9% Similarity=0.140 Sum_probs=29.2
Q ss_pred HHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEE
Q psy12591 62 LEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFK 109 (144)
Q Consensus 62 ~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~ 109 (144)
|.-.++..|+.+.....+.++.. +...++.++++.+| ..+.++|+.
T Consensus 187 f~Y~~~~yGl~~~~~~~~~~~~e-ps~~~l~~l~~~ik-~~~v~~if~ 232 (287)
T cd01137 187 FSYFAKAYGLKEAYLWPINTEEE-GTPKQVATLIEQVK-KEKVPAVFV 232 (287)
T ss_pred HHHHHHHcCCeEeecccCCCCCC-CCHHHHHHHHHHHH-HhCCCEEEE
Confidence 34444556777665444433221 35788999999999 677887764
No 472
>TIGR01917 gly_red_sel_B glycine reductase, selenoprotein B. Glycine reductase is a complex with two selenoprotein subunits, A and B. This model represents the glycine reductase selenoprotein B. Closely related to it, but excluded from this model, are selenoprotein B subunits of betaine reductase and sarcosine reductase. All contain selenocysteine incorporated during translation at a specific UGA codon.
Probab=28.41 E-value=2.9e+02 Score=22.85 Aligned_cols=65 Identities=12% Similarity=0.107 Sum_probs=44.7
Q ss_pred CCCCceEEecCCchH------HHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecc
Q psy12591 14 QRFEYFTRTIPSDHH------QVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKL 79 (144)
Q Consensus 14 ~~~p~ffRt~p~d~~------~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~ 79 (144)
+.+|+|+-|..+-+. .++.+++.|+.-+-. .+|+++.=.-|......+.+++++.||.++..-.+
T Consensus 303 ~l~~~fy~t~G~gt~~~~a~~~g~eIa~~Lk~dgVD-AvILtstCgtCtrcga~m~keiE~~GIPvV~i~~~ 373 (431)
T TIGR01917 303 ELFKYFYSTTGNGTAVANSKQFAKEFSKELLAAGVD-AVILTSTUGTCTRCGATMVKEIERAGIPVVHICTV 373 (431)
T ss_pred cccCeeEEccCCCccHHHHHHHHHHHHHHHHHcCCC-EEEEcCCCCcchhHHHHHHHHHHHcCCCEEEEeec
Confidence 357888888876653 445566666665553 44555554667778888899999999988766544
No 473
>cd00995 PBP2_NikA_DppA_OppA_like The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold. This family represents the periplasmic substrate-binding domain of nickel/dipeptide/oligopeptide transport systems, which function in the import of nickel and peptides, and other closely related proteins. The oligopeptide-binding protein OppA is a periplasmic component of an ATP-binding cassette (ABC) transport system OppABCDEF consisting of five subunits: two homologous integral membrane proteins OppB and OppF that form the translocation pore; two homologous nucleotide-binding domains OppD and OppF that drive the transport process through binding and hydrolysis of ATP; and the substrate-binding protein or receptor OppA that determines the substrate specificity of the transport system. The dipeptide (DppA) and oligopeptide (OppA) binding proteins differ in several ways. The DppA binds dipeptides and some tripeptides and is inv
Probab=28.39 E-value=2.3e+02 Score=22.57 Aligned_cols=46 Identities=15% Similarity=0.343 Sum_probs=33.1
Q ss_pred HHHHHHHHhCCCc-----EEEEEEEeCC-cchHHHHHHHHHhhhCceEEEEE
Q psy12591 31 KAMVEIVKKLGWS-----YVSIIYEESN-YGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 31 ~a~~~ll~~f~W~-----~Vaii~~~~~-~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
....++|+.-||+ .+-+++..+. .....++.+++.+++.|+.+...
T Consensus 306 ~kA~~lL~~ag~~~~~~~~l~l~~~~~~~~~~~~a~~i~~~l~~~Gi~v~~~ 357 (466)
T cd00995 306 EKAKELLAEAGYKDGKGLELTLLYNSDGPTRKEIAEAIQAQLKEIGIKVEIE 357 (466)
T ss_pred HHHHHHHHHhCCCCCCceEEEEEeCCCCCcHHHHHHHHHHHHHHcCceEEEE
Confidence 3445677888885 3555555443 56678999999999999988654
No 474
>cd08489 PBP2_NikA The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold. This family represents the periplasmic substrate-binding domain of nickel transport system, which functions in the import of nickel and in the control of chemotactic response away from nickel. The ATP-binding cassette (ABC) type nickel transport system is comprised of five subunits NikABCDE: the two pore-forming integral inner membrane proteins NikB and NikC; the two inner membrane-associated proteins with ATPase activity NikD and NikE; and the periplasmic nickel binding NikA, the initial nickel receptor. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides,
Probab=28.34 E-value=2.1e+02 Score=23.28 Aligned_cols=47 Identities=19% Similarity=0.355 Sum_probs=33.2
Q ss_pred HHHHHHHHHhCCCcE---------------EEEEEEeC-CcchHHHHHHHHHhhhCceEEEEE
Q psy12591 30 VKAMVEIVKKLGWSY---------------VSIIYEES-NYGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~---------------Vaii~~~~-~~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
.+...++|+.-||+. +-+++..+ ......++.+++.+++.|+.|...
T Consensus 306 ~~~A~~lL~~aG~~~~~~~g~~~~~g~~~~~~l~~~~~~~~~~~~a~~i~~~l~~~Gi~v~~~ 368 (488)
T cd08489 306 PEKANALLDEAGWTLNEGDGIREKDGKPLSLELVYQTDNALQKSIAEYLQSELKKIGIDLNII 368 (488)
T ss_pred HHHHHHHHHHcCCCcCCCCceEccCCceEEEEEEecCCCchHHHHHHHHHHHHHHcCcEEEEe
Confidence 455667888888852 44445433 345678899999999999987654
No 475
>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=28.32 E-value=2.3e+02 Score=20.46 Aligned_cols=52 Identities=19% Similarity=0.173 Sum_probs=33.3
Q ss_pred eEEecCCchHHHHHHHHHHHhC--CCcEEEEEEEeCC--cchHHHHHHHHHhhhCc
Q psy12591 19 FTRTIPSDHHQVKAMVEIVKKL--GWSYVSIIYEESN--YGVKAFEELEVLLAKYS 70 (144)
Q Consensus 19 ffRt~p~d~~~~~a~~~ll~~f--~W~~Vaii~~~~~--~g~~~~~~~~~~l~~~G 70 (144)
+..+..++...+..+++.|... +-.+++++....+ ......+.|.+.+++.|
T Consensus 98 ~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~~~R~~gf~~~l~~~~ 153 (272)
T cd06301 98 VAYVGSDEVVAGRLQAEYVADKLGGKGNVAILMGPLGQSAQIDRTKGVEEVLAKYP 153 (272)
T ss_pred eEEEecChHHHHHHHHHHHHHHhCCCccEEEEECCCCCccHHHHHHHHHHHHHHCC
Confidence 3345555556667777766443 4568999975432 23445677888888887
No 476
>cd01460 vWA_midasin VWA_Midasin: Midasin is a member of the AAA ATPase family. The proteins of this family are unified by their common archetectural organization that is based upon a conserved ATPase domain. The AAA domain of midasin contains six tandem AAA protomers. The AAA domains in midasin is followed by a D/E rich domain that is following by a VWA domain. The members of this subgroup have a conserved MIDAS motif. The function of this domain is not exactly known although it has been speculated to play a crucial role in midasin function.
Probab=28.22 E-value=2.2e+02 Score=21.78 Aligned_cols=33 Identities=6% Similarity=0.028 Sum_probs=21.0
Q ss_pred EEEEEEEeCC--cchHHHHHHHHHhhhCceEEEEE
Q psy12591 44 YVSIIYEESN--YGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 44 ~Vaii~~~~~--~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
++.+|.+|.. +..+........+.++|+.+...
T Consensus 166 qlilLISDG~~~~~e~~~~~~~r~a~e~~i~l~~I 200 (266)
T cd01460 166 QLLLIISDGRGEFSEGAQKVRLREAREQNVFVVFI 200 (266)
T ss_pred cEEEEEECCCcccCccHHHHHHHHHHHcCCeEEEE
Confidence 5666666665 55455555566777788776544
No 477
>PRK03673 hypothetical protein; Provisional
Probab=28.00 E-value=3.3e+02 Score=22.16 Aligned_cols=61 Identities=11% Similarity=0.037 Sum_probs=39.4
Q ss_pred EEEEEEEeCCc--ch---HHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEee
Q psy12591 44 YVSIIYEESNY--GV---KAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 44 ~Vaii~~~~~~--g~---~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
++.|+...++- |+ .....+...+.+.|+.+.....++++ ...+.+.|++.. .++++||+..
T Consensus 3 ~v~Iis~GdEll~G~i~dtN~~~la~~L~~~G~~v~~~~~v~D~-----~~~i~~~l~~a~--~~~DlVI~tG 68 (396)
T PRK03673 3 RVEMLSTGDEVLHGQIVDTNAAWLADFFFHQGLPLSRRNTVGDN-----LDALVAILRERS--QHADVLIVNG 68 (396)
T ss_pred EEEEEEecccCCCCeEEEhHHHHHHHHHHHCCCEEEEEEEcCCC-----HHHHHHHHHHHh--ccCCEEEEcC
Confidence 45566554442 32 34566778889999988777777655 456777776654 4577777654
No 478
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins 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 they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=27.90 E-value=1.1e+02 Score=23.09 Aligned_cols=48 Identities=10% Similarity=0.119 Sum_probs=30.2
Q ss_pred HHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEe
Q psy12591 61 ELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKR 110 (144)
Q Consensus 61 ~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~ 110 (144)
.|.-.++..|+.+........+.. +...++.++++.+| ..+.++|+.-
T Consensus 180 af~Y~~~~~gl~~~~~~~~~~~~e-ps~~~l~~l~~~ik-~~~v~~if~e 227 (282)
T cd01017 180 AFGYLARRYGLKQIAIVGVSPEVE-PSPKQLAELVEFVK-KSDVKYIFFE 227 (282)
T ss_pred cHHHHHHHCCCeEEecccCCCCCC-CCHHHHHHHHHHHH-HcCCCEEEEe
Confidence 344455566877765444433221 34788999999998 5778777653
No 479
>PRK14177 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=27.89 E-value=2.9e+02 Score=21.45 Aligned_cols=77 Identities=14% Similarity=0.119 Sum_probs=50.1
Q ss_pred CcEEEEEEEeCCc-chHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcc
Q psy12591 42 WSYVSIIYEESNY-GVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVA 120 (144)
Q Consensus 42 W~~Vaii~~~~~~-g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~ 120 (144)
.-+.++|..+++. .....+.-.+.+++-|+..... .++.+. +++++.+.+.+|-..++...|++.... ..+++
T Consensus 33 ~P~Laii~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~-~l~~~~---s~~el~~~I~~lN~D~~V~GIlvqlPL--p~~i~ 106 (284)
T PRK14177 33 IPKLATILVGNNPASETYVSMKVKACHKVGMGSEMI-RLKEQT---TTEELLGVIDKLNLDPNVDGILLQHPV--PSQID 106 (284)
T ss_pred CCeEEEEEeCCChhHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHhCCCCCCeEEEcCCC--CCCCC
Confidence 3567777665554 4456777788889999877544 355543 367888888888755677778776543 24555
Q ss_pred hhhh
Q psy12591 121 EETA 124 (144)
Q Consensus 121 ~~~~ 124 (144)
...+
T Consensus 107 ~~~i 110 (284)
T PRK14177 107 ERAA 110 (284)
T ss_pred HHHH
Confidence 4443
No 480
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=27.77 E-value=1.8e+02 Score=18.99 Aligned_cols=71 Identities=11% Similarity=0.104 Sum_probs=37.5
Q ss_pred EEecCCchH-HHHHHHH-HHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHH
Q psy12591 20 TRTIPSDHH-QVKAMVE-IVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLK 97 (144)
Q Consensus 20 fRt~p~d~~-~~~a~~~-ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~ 97 (144)
+=+.+.|.+ .+..++. +++..||+-+-+-. + ...+.+.+.+.+.+..+......... ....+...+..
T Consensus 4 ~~~~~gd~H~lG~~~~~~~l~~~G~~vi~lG~-~-----vp~e~~~~~a~~~~~d~V~iS~~~~~----~~~~~~~~~~~ 73 (122)
T cd02071 4 VAKPGLDGHDRGAKVIARALRDAGFEVIYTGL-R-----QTPEEIVEAAIQEDVDVIGLSSLSGG----HMTLFPEVIEL 73 (122)
T ss_pred EEecCCChhHHHHHHHHHHHHHCCCEEEECCC-C-----CCHHHHHHHHHHcCCCEEEEcccchh----hHHHHHHHHHH
Confidence 345666655 3444444 57888996443321 1 12345556665555433322222111 25677888888
Q ss_pred Hhc
Q psy12591 98 LLT 100 (144)
Q Consensus 98 lk~ 100 (144)
|++
T Consensus 74 L~~ 76 (122)
T cd02071 74 LRE 76 (122)
T ss_pred HHh
Confidence 884
No 481
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=27.25 E-value=1.2e+02 Score=17.62 Aligned_cols=28 Identities=18% Similarity=0.060 Sum_probs=19.1
Q ss_pred cEEEEEEEeCCcchHHHHHHHHHhhhCc
Q psy12591 43 SYVSIIYEESNYGVKAFEELEVLLAKYS 70 (144)
Q Consensus 43 ~~Vaii~~~~~~g~~~~~~~~~~l~~~G 70 (144)
+.|.+..++|.-|+.....+.+.+...|
T Consensus 48 ~~Iii~~D~D~~G~~~~~~i~~~l~~~~ 75 (76)
T smart00493 48 KEVILATDPDREGEAIAWKLAELLKPAG 75 (76)
T ss_pred CEEEEEcCCChhHHHHHHHHHHHhhhhc
Confidence 5677777777777777777777666543
No 482
>PF01177 Asp_Glu_race: Asp/Glu/Hydantoin racemase; InterPro: IPR015942 This entry represents a group of related proteins that includes aspartate racemase, glutamate racemase, hydantoin racemase and arylmalonate decarboxylase. Aspartate racemase (5.1.1.13 from EC) and glutamate racemase (5.1.1.3 from EC) are two evolutionary related bacterial enzymes that do not seem to require a cofactor for their activity []. Glutamate racemase, which interconverts L-glutamate into D-glutamate, is required for the biosynthesis of peptidoglycan and some peptide-based antibiotics such as gramicidin S. In addition to characterised aspartate and glutamate racemases, this family also includes a hypothetical protein from Erwinia carotovora and one from Escherichia coli (ygeA). Two conserved cysteines are present in the sequence of these enzymes. They are expected to play a role in catalytic activity by acting as bases in proton abstraction from the substrate.; PDB: 3S7Z_A 3S81_C 3OUT_A 3EIS_B 3IXL_A 3IP8_A 2VLB_D 3DTV_A 3IXM_A 3DG9_A ....
Probab=27.19 E-value=2.3e+02 Score=20.03 Aligned_cols=78 Identities=12% Similarity=0.102 Sum_probs=46.4
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhC-ce--EEEEEe--cc----cCCCCCcc--hhhHHHHHHHHh
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKY-SI--CIAIKE--KL----VKDSGVAE--ETAYDDIVLKLL 99 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~-Gi--~V~~~~--~~----~~~~~~~~--~~~~~~~l~~lk 99 (144)
++.+.-++. +-++++++.. ++......+.+.+++. |+ .+.... .+ ..+.. .+ ...+...++++.
T Consensus 97 ~a~~~~~~~-~~~ri~vl~t---~~~~~~~~~~~~~~~~~gi~~~~~~~i~~~~~~~~e~~~~-~~~~~~~~~~~~~~l~ 171 (216)
T PF01177_consen 97 EAALEAAKA-GGKRIGVLTT---YTTEKSPLYEEFIEEAAGIDDEVVAGIHNAIYDVIELGDI-PPEQIEILAEAARELI 171 (216)
T ss_dssp HHHHHHHHH-TSSEEEEEES---HHHHHHTHHHHHHHHCTTEECEEEEEEEEEHTHHHHTTCT-THHHHHHHHHHHHHHH
T ss_pred HHHHHHHHh-cCCEEEEEec---CcccchHHHHHHHHHhcCCcHHHHHHHHhhcHHHHhhhcC-CHHHHHHHHHHHHHHh
Confidence 444444455 9999999984 5556667778888887 87 444321 11 12211 11 134555565552
Q ss_pred cCCCceEEEEeeEE
Q psy12591 100 TKPRARGLFKRLKL 113 (144)
Q Consensus 100 ~~~~arvii~~~~~ 113 (144)
+..++++||+-+..
T Consensus 172 ~~~~~d~iiLgCt~ 185 (216)
T PF01177_consen 172 KEDGADAIILGCTH 185 (216)
T ss_dssp HCTTSSEEEEESTT
T ss_pred ccCCCCEEEECCCc
Confidence 26889999987753
No 483
>cd08516 PBP2_NikA_DppA_OppA_like_11 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=26.86 E-value=2.6e+02 Score=22.35 Aligned_cols=45 Identities=16% Similarity=0.278 Sum_probs=32.9
Q ss_pred HHHHHHHHhCCCc---EEEEEEEeC-CcchHHHHHHHHHhhhCceEEEE
Q psy12591 31 KAMVEIVKKLGWS---YVSIIYEES-NYGVKAFEELEVLLAKYSICIAI 75 (144)
Q Consensus 31 ~a~~~ll~~f~W~---~Vaii~~~~-~~g~~~~~~~~~~l~~~Gi~V~~ 75 (144)
+...++|+.-||. .+-+++..+ ......++.+++.+++.|+.|..
T Consensus 303 ~kA~~lL~~aG~~~g~~l~l~~~~~~~~~~~~a~~i~~~l~~~Gi~v~~ 351 (457)
T cd08516 303 EKAKALLAEAGYPNGFDFTILVTSQYGMHVDTAQVIQAQLAAIGINVEI 351 (457)
T ss_pred HHHHHHHHhcCCCCCceEEEEeCCCCccHHHHHHHHHHHHHHcCceEEE
Confidence 3445677778886 577766443 35567899999999999998864
No 484
>PRK12744 short chain dehydrogenase; Provisional
Probab=26.85 E-value=2.5e+02 Score=20.35 Aligned_cols=85 Identities=9% Similarity=-0.071 Sum_probs=46.7
Q ss_pred ecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcC
Q psy12591 22 TIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTK 101 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~ 101 (144)
........+.++++.+...||+-+.+ ..+........+.+.+.++..+..+... ...-. +..++.+.+.++.+.
T Consensus 13 ItGa~~gIG~~~a~~l~~~G~~vv~i-~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~D~~----~~~~~~~~~~~~~~~ 86 (257)
T PRK12744 13 IAGGAKNLGGLIARDLAAQGAKAVAI-HYNSAASKADAEETVAAVKAAGAKAVAF-QADLT----TAAAVEKLFDDAKAA 86 (257)
T ss_pred EECCCchHHHHHHHHHHHCCCcEEEE-ecCCccchHHHHHHHHHHHHhCCcEEEE-ecCcC----CHHHHHHHHHHHHHh
Confidence 33456678999999887789975544 3333223334455555555555433221 12212 256677777766521
Q ss_pred -CCceEEEEeeE
Q psy12591 102 -PRARGLFKRLK 112 (144)
Q Consensus 102 -~~arvii~~~~ 112 (144)
...+++|....
T Consensus 87 ~~~id~li~~ag 98 (257)
T PRK12744 87 FGRPDIAINTVG 98 (257)
T ss_pred hCCCCEEEECCc
Confidence 34667765553
No 485
>KOG0207|consensus
Probab=26.81 E-value=3.7e+02 Score=24.65 Aligned_cols=86 Identities=10% Similarity=0.092 Sum_probs=53.4
Q ss_pred eEEecCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHH
Q psy12591 19 FTRTIPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKL 98 (144)
Q Consensus 19 ffRt~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~l 98 (144)
+|...-.-+..+...+..|+.+| -++.+++-|++ ......+++-|+..++.+..|... .+.+++|
T Consensus 717 v~~l~D~vr~~a~~av~~Lk~~G-i~v~mLTGDn~------~aA~svA~~VGi~~V~aev~P~~K--------~~~Ik~l 781 (951)
T KOG0207|consen 717 VFALEDQVRPDAALAVAELKSMG-IKVVMLTGDND------AAARSVAQQVGIDNVYAEVLPEQK--------AEKIKEI 781 (951)
T ss_pred EEEeccccchhHHHHHHHHHhcC-ceEEEEcCCCH------HHHHHHHHhhCcceEEeccCchhh--------HHHHHHH
Confidence 55555555556667778889999 56666654432 223444556678888888776552 4577888
Q ss_pred hcCCCceEEEEeeEEeeeCCcchhhhhH
Q psy12591 99 LTKPRARGLFKRLKLVKDSGVAEETAYD 126 (144)
Q Consensus 99 k~~~~arvii~~~~~~~~~g~~~~~~~~ 126 (144)
++ .+ ..+.+. .||+-+.+++.
T Consensus 782 q~-~~-~~VaMV-----GDGINDaPALA 802 (951)
T KOG0207|consen 782 QK-NG-GPVAMV-----GDGINDAPALA 802 (951)
T ss_pred Hh-cC-CcEEEE-----eCCCCccHHHH
Confidence 83 33 333333 46887777765
No 486
>cd08514 PBP2_AppA_like The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold. This family represents the substrate-binding domain of the oligopeptide-binding protein, AppA, from Bacillus subtilis and its closest homologs from other bacteria and archaea. Bacillus subtilis has three ABC-type peptide transport systems, a dipeptide-binding protein (DppA) and two oligopeptide-binding proteins (OppA and AppA) with overlapping specificity. The dipeptide (DppA) and oligopeptide (OppA) binding proteins differ in several ways. The DppA binds dipeptides and some tripeptides and also is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains correspondin
Probab=26.56 E-value=2.4e+02 Score=22.86 Aligned_cols=46 Identities=15% Similarity=0.297 Sum_probs=32.4
Q ss_pred HHHHHHHHhCCCcE---------------EEEEEEeC-CcchHHHHHHHHHhhhCceEEEEE
Q psy12591 31 KAMVEIVKKLGWSY---------------VSIIYEES-NYGVKAFEELEVLLAKYSICIAIK 76 (144)
Q Consensus 31 ~a~~~ll~~f~W~~---------------Vaii~~~~-~~g~~~~~~~~~~l~~~Gi~V~~~ 76 (144)
+...+||+.-||+. +-+++..+ ......++.+++.+++-|+.+...
T Consensus 312 ~~Ak~lL~eaG~~~~~~~~~~~~~G~~l~l~l~~~~~~~~~~~~a~~i~~~l~~~Gi~v~~~ 373 (483)
T cd08514 312 DKAKELLAEAGWVDGDDDGILDKDGKPFSFTLLTNQGNPVREQAATIIQQQLKEIGIDVKIR 373 (483)
T ss_pred HHHHHHHHHcCCCcCCCCceecCCCCEEEEEEEecCCCchHHHHHHHHHHHHHhcCcEEEEE
Confidence 44556777888862 44555433 445678999999999999988754
No 487
>PF09342 DUF1986: Domain of unknown function (DUF1986); InterPro: IPR015420 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain is found in serine endopeptidases belonging to MEROPS peptidase family S1A (clan PA). It is found in unusual mosaic proteins, which are encoded by the Drosophila nudel gene (see P98159 from SWISSPROT). Nudel is involved in defining embryonic dorsoventral polarity. Three proteases; ndl, gd and snk process easter to create active easter. Active easter defines cell identities along the dorsal-ventral continuum by activating the spz ligand for the Tl receptor in the ventral region of the embryo. Nudel, pipe and windbeutel together trigger the protease cascade within the extraembryonic perivitelline compartment which induces dorsoventral polarity of the Drosophila embryo [].
Probab=26.30 E-value=57 Score=24.93 Aligned_cols=22 Identities=32% Similarity=0.732 Sum_probs=18.1
Q ss_pred HHHHHhCC----CcEEEEEEEeCCcc
Q psy12591 34 VEIVKKLG----WSYVSIIYEESNYG 55 (144)
Q Consensus 34 ~~ll~~f~----W~~Vaii~~~~~~g 55 (144)
.+++.+|+ |-|.|-||.|..|.
T Consensus 4 ~ei~~~~~e~y~WPWlA~IYvdG~~~ 29 (267)
T PF09342_consen 4 DEIVDRFDEDYHWPWLADIYVDGRYW 29 (267)
T ss_pred hhHHHhcCccccCcceeeEEEcCeEE
Confidence 45777777 99999999988774
No 488
>PRK14189 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=26.27 E-value=3.1e+02 Score=21.26 Aligned_cols=66 Identities=12% Similarity=0.077 Sum_probs=45.5
Q ss_pred cEEEEEEEeCCcc-hHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 43 SYVSIIYEESNYG-VKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 43 ~~Vaii~~~~~~g-~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
-..++|..+++.. ....+.-.+.+++-|+..... .++.+. +++++.+.+.+|-..++..-|++...
T Consensus 33 p~Laii~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~-~l~~~~---~~~~l~~~I~~lN~d~~V~GIlvq~P 99 (285)
T PRK14189 33 PGLAVILVGDNPASQVYVRNKVKACEDNGFHSLKD-RYPADL---SEAELLARIDELNRDPKIHGILVQLP 99 (285)
T ss_pred CeEEEEEeCCCchHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHcCCCCCCeEEEeCC
Confidence 3577776665544 456777788888999876544 356553 37788899998875566777887754
No 489
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=26.23 E-value=2.6e+02 Score=20.43 Aligned_cols=85 Identities=13% Similarity=0.129 Sum_probs=48.3
Q ss_pred EecCCchHHHHHHHHHHHhC--CCcEEEEEEEeCCc--chHHHHHHHHHhhhCc-eEEEEEecccCCCCCcchhhHHHHH
Q psy12591 21 RTIPSDHHQVKAMVEIVKKL--GWSYVSIIYEESNY--GVKAFEELEVLLAKYS-ICIAIKEKLVKDSGVAEETAYDDIV 95 (144)
Q Consensus 21 Rt~p~d~~~~~a~~~ll~~f--~W~~Vaii~~~~~~--g~~~~~~~~~~l~~~G-i~V~~~~~~~~~~~~~~~~~~~~~l 95 (144)
...+.+...+..+++.|... |.++++++..+... .....+.|.+.+++.| ..+... ..... +.......+
T Consensus 100 ~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~~~---~~~~~~~~~ 174 (272)
T cd06313 100 FLAPDNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVDE--QPANW---DVSKAARIW 174 (272)
T ss_pred EECCCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEec--cCCCC---CHHHHHHHH
Confidence 34556666677778876555 88999999754332 3345777888888875 554321 11111 122333455
Q ss_pred HHHhc-CCCceEEEEe
Q psy12591 96 LKLLT-KPRARGLFKR 110 (144)
Q Consensus 96 ~~lk~-~~~arvii~~ 110 (144)
+++.. .++.++|++.
T Consensus 175 ~~~l~~~~~~~ai~~~ 190 (272)
T cd06313 175 ETWLTKYPQLDGAFCH 190 (272)
T ss_pred HHHHHhCCCCCEEEEC
Confidence 55432 3445666654
No 490
>PTZ00445 p36-lilke protein; Provisional
Probab=26.20 E-value=2.8e+02 Score=20.72 Aligned_cols=57 Identities=7% Similarity=0.022 Sum_probs=31.0
Q ss_pred chHHHHHHHHHhhhCceEEEEEe---c-cc---CCCCCc----------chhhHHHHHHHHhcCCCceEEEEeeE
Q psy12591 55 GVKAFEELEVLLAKYSICIAIKE---K-LV---KDSGVA----------EETAYDDIVLKLLTKPRARGLFKRLK 112 (144)
Q Consensus 55 g~~~~~~~~~~l~~~Gi~V~~~~---~-~~---~~~~~~----------~~~~~~~~l~~lk~~~~arvii~~~~ 112 (144)
..+.++.|...|++.||.++... . +. .+-..+ -..+|...+.+++ ..+-+|+|+-++
T Consensus 27 ~~~~~~~~v~~L~~~GIk~Va~D~DnTlI~~HsgG~~~~~~~~~~~~~~~tpefk~~~~~l~-~~~I~v~VVTfS 100 (219)
T PTZ00445 27 PHESADKFVDLLNECGIKVIASDFDLTMITKHSGGYIDPDNDDIRVLTSVTPDFKILGKRLK-NSNIKISVVTFS 100 (219)
T ss_pred HHHHHHHHHHHHHHcCCeEEEecchhhhhhhhcccccCCCcchhhhhccCCHHHHHHHHHHH-HCCCeEEEEEcc
Confidence 34566777777777777765432 1 11 000000 1345777777777 466666666554
No 491
>PRK07814 short chain dehydrogenase; Provisional
Probab=26.19 E-value=2.6e+02 Score=20.39 Aligned_cols=80 Identities=9% Similarity=-0.026 Sum_probs=43.8
Q ss_pred cCCchHHHHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcC-
Q psy12591 23 IPSDHHQVKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTK- 101 (144)
Q Consensus 23 ~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~- 101 (144)
.......+..+++.+...|| +|.++..+. ...+.+.+.++..|.++.... .... +..++...+.++.+.
T Consensus 16 tGasggIG~~~a~~l~~~G~-~Vi~~~r~~----~~~~~~~~~l~~~~~~~~~~~-~D~~----~~~~~~~~~~~~~~~~ 85 (263)
T PRK07814 16 TGAGRGLGAAIALAFAEAGA-DVLIAARTE----SQLDEVAEQIRAAGRRAHVVA-ADLA----HPEATAGLAGQAVEAF 85 (263)
T ss_pred ECCCChHHHHHHHHHHHCCC-EEEEEeCCH----HHHHHHHHHHHhcCCcEEEEE-ccCC----CHHHHHHHHHHHHHHc
Confidence 34556788999998777799 665554332 223344455554454443221 1111 255666666666421
Q ss_pred CCceEEEEeeE
Q psy12591 102 PRARGLFKRLK 112 (144)
Q Consensus 102 ~~arvii~~~~ 112 (144)
.+.+++|-++.
T Consensus 86 ~~id~vi~~Ag 96 (263)
T PRK07814 86 GRLDIVVNNVG 96 (263)
T ss_pred CCCCEEEECCC
Confidence 35677776653
No 492
>PF08029 HisG_C: HisG, C-terminal domain; InterPro: IPR013115 ATP phosphoribosyltransferase (2.4.2.17 from EC) is the enzyme that catalyzes the first step in the biosynthesis of histidine in bacteria, fungi and plants as shown below. It is a member of the larger phosphoribosyltransferase superfamily of enzymes which catalyse the condensation of 5-phospho-alpha-D-ribose 1-diphosphate with nitrogenous bases in the presence of divalent metal ions []. ATP + 5-phospho-alpha-D-ribose 1-diphosphate = 1-(5-phospho-D-ribosyl)-ATP + diphosphate Histidine biosynthesis is an energetically expensive process and ATP phosphoribosyltransferase activity is subject to control at several levels. Transcriptional regulation is based primarily on nutrient conditions and determines the amount of enzyme present in the cell, while feedback inihibition rapidly modulates activity in response to cellular conditions. The enzyme has been shown to be inhibited by 1-(5-phospho-D-ribosyl)-ATP, histidine, ppGpp (a signal associated with adverse environmental conditions) and ADP and AMP (which reflect the overall energy status of the cell). As this pathway of histidine biosynthesis is present only in prokayrotes, plants and fungi, this enzyme is a promising target for the development of novel antimicrobial compounds and herbicides. This entry represents the C-terminal portion of ATP phosphoribosyltransferase. The enzyme itself exists in equilibrium between an active dimeric form, an inactive hexameric form and higher aggregates [, ]. Interconversion between the various forms is largely reversible and is influenced by the binding of the natural substrates and inhibitors of the enzyme. This domain is not directly involved in catalysis but appears to be responsible for the formation of hexamers induced by the binding of inhibitors to the enzyme, thus regulating activity.; GO: 0000287 magnesium ion binding, 0003879 ATP phosphoribosyltransferase activity, 0000105 histidine biosynthetic process, 0005737 cytoplasm; PDB: 1Q1K_A 1H3D_A 2VD3_B 1NH7_A 1NH8_A.
Probab=26.17 E-value=89 Score=19.04 Aligned_cols=23 Identities=22% Similarity=0.107 Sum_probs=18.0
Q ss_pred hhhHHHHHHHHhcCCCceEEEEee
Q psy12591 88 ETAYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 88 ~~~~~~~l~~lk~~~~arvii~~~ 111 (144)
...+...+.+|| +.+|+-|+++.
T Consensus 49 ~~~~~~~~~~Lk-~~GA~~Ilv~p 71 (75)
T PF08029_consen 49 EKQVWDLMDKLK-AAGASDILVLP 71 (75)
T ss_dssp CCCHHHHHHHHH-CTT-EEEEEEE
T ss_pred HHHHHHHHHHHH-HcCCCEEEEEe
Confidence 457889999999 78999888764
No 493
>PRK14191 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=26.06 E-value=3.2e+02 Score=21.25 Aligned_cols=74 Identities=11% Similarity=0.131 Sum_probs=48.1
Q ss_pred EEEEEEEeCCc-chHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeCCcchh
Q psy12591 44 YVSIIYEESNY-GVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDSGVAEE 122 (144)
Q Consensus 44 ~Vaii~~~~~~-g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~g~~~~ 122 (144)
..++|..+++. .....+.-.+.+++-|+..... .++.+. +++++.+.+++|-..++...|++.... ..+++..
T Consensus 33 ~LaiI~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~-~l~~~~---~~~el~~~I~~lN~D~~V~GIlvq~Pl--P~~i~~~ 106 (285)
T PRK14191 33 KLAVILVGKDPASQTYVNMKIKACERVGMDSDLH-TLQENT---TEAELLSLIKDLNTDQNIDGILVQLPL--PRHIDTK 106 (285)
T ss_pred eEEEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEE-ECCCCC---CHHHHHHHHHHHhCCCCCCEEEEeCCC--CCCCCHH
Confidence 46777655544 4456777788888899876544 356554 367888888888655667777776543 2445544
Q ss_pred h
Q psy12591 123 T 123 (144)
Q Consensus 123 ~ 123 (144)
.
T Consensus 107 ~ 107 (285)
T PRK14191 107 M 107 (285)
T ss_pred H
Confidence 3
No 494
>PF00885 DMRL_synthase: 6,7-dimethyl-8-ribityllumazine synthase; InterPro: IPR002180 6,7-dimethyl-8-ribityllumazine synthase (riboflavin synthase) catalyses the biosynthesis of riboflavin according to the reaction: 2 6,7-dimethyl-8-(1-D-ribityl)lumazine = riboflavin + 4-(1-D-ribitylamino)-5-amino-2,6-dihydroxypyrimidine. The biosynthesis of one riboflavin molecule requires one molecule of GTP and two molecules of ribulose 5-phosphate as substrates. The final step in the biosynthesis of the vitamin involves the dismutation of 6,7-dimethyl-8-ribityllumazine catalyzed by riboflavin synthase. The second product, 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione, is recycled in the biosynthetic pathway by 6,7-dimethyl-8-ribityllumazine synthase []. N-[2,4-dioxo-6-d-ribitylamino-1,2,3,4-tetrahydropyrimidin-5-yl]oxalamic acid derivatives inhibit riboflavin synthase []. This family includes the beta chain of 6,7-dimethyl-8-ribityllumazine synthase 2.5.1.9 from EC. The family also includes a subfamily of distant archaebacterial proteins that may also have the same function for example O28856 from SWISSPROT.; GO: 0009231 riboflavin biosynthetic process, 0009349 riboflavin synthase complex; PDB: 2O6H_D 1C41_C 2OBX_H 1VSX_H 1VSW_3 3JV8_C 3MK3_r 3NQ4_G 2A58_A 2A57_D ....
Probab=26.06 E-value=1.8e+02 Score=20.04 Aligned_cols=68 Identities=9% Similarity=0.060 Sum_probs=38.3
Q ss_pred cEEEEEEEe--CCcchHHHHHHHHHhhhCce---EEEEEecccCCCCCcchhhHHHHHHHHhcCCCceEEEEeeEEeeeC
Q psy12591 43 SYVSIIYEE--SNYGVKAFEELEVLLAKYSI---CIAIKEKLVKDSGVAEETAYDDIVLKLLTKPRARGLFKRLKLVKDS 117 (144)
Q Consensus 43 ~~Vaii~~~--~~~g~~~~~~~~~~l~~~Gi---~V~~~~~~~~~~~~~~~~~~~~~l~~lk~~~~arvii~~~~~~~~~ 117 (144)
-+++|+.+. .+......+...+.|++.|+ .+.. ..+| + .-++--.++++-...+-+.||.+.-.+..+
T Consensus 4 ~ri~IV~s~~n~~i~~~ll~~a~~~l~~~g~~~~~i~~-~~VP-G-----a~ElP~a~~~l~~~~~~Davi~lG~VI~G~ 76 (144)
T PF00885_consen 4 LRIAIVVSRFNEEITDRLLEGALEELKRHGVAEENIEV-IRVP-G-----AFELPLAAKRLAESGRYDAVIALGCVIRGE 76 (144)
T ss_dssp EEEEEEEESTTHHHHHHHHHHHHHHHHHTTTTGGCEEE-EEES-S-----GGGHHHHHHHHHHCSTESEEEEEEEEE--S
T ss_pred CEEEEEEEeccHHHHHHHHHHHHHHHHHcCCCccceEE-EEcC-C-----HHHHHHHHHHHhcccCccEEEEeccccCCC
Confidence 467888762 23344455666777888886 3322 2233 2 234445566665456688888887655433
No 495
>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=26.04 E-value=2.4e+02 Score=19.91 Aligned_cols=69 Identities=12% Similarity=0.082 Sum_probs=39.6
Q ss_pred HHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCCCCCcchhhHHHHHHHHhc--CCCceEEE
Q psy12591 31 KAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKDSGVAEETAYDDIVLKLLT--KPRARGLF 108 (144)
Q Consensus 31 ~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~~~~~~~~~~~~~l~~lk~--~~~arvii 108 (144)
..+.+.+..+|==.++-+|.+- |. ...|.+.+...|+..... .++ .|+.=.+..+.- +++.+.++
T Consensus 44 ~~i~~~ls~~G~i~~~R~Y~~a-~a---~~~l~~~l~~~Gf~pv~~----kG~-----~Dv~laIDame~~~~~~iD~~v 110 (160)
T TIGR00288 44 DEIREILSEYGDIKIGKVLLNQ-YA---SDKLIEAVVNQGFEPIIV----AGD-----VDVRMAVEAMELIYNPNIDAVA 110 (160)
T ss_pred HHHHHHHHhcCCeEEEEEEech-hc---cHHHHHHHHHCCceEEEe----cCc-----ccHHHHHHHHHHhccCCCCEEE
Confidence 4566667777765566666542 21 245788888999886532 222 233333333321 36778888
Q ss_pred EeeE
Q psy12591 109 KRLK 112 (144)
Q Consensus 109 ~~~~ 112 (144)
+..+
T Consensus 111 LvSg 114 (160)
T TIGR00288 111 LVTR 114 (160)
T ss_pred EEec
Confidence 8754
No 496
>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=26.03 E-value=2.7e+02 Score=20.45 Aligned_cols=52 Identities=15% Similarity=0.091 Sum_probs=35.4
Q ss_pred ecCCchHHHHHHHHHHHhCCCcEEEEEEEeC-------------------CcchHHHHHHHHHhhhCceEE
Q psy12591 22 TIPSDHHQVKAMVEIVKKLGWSYVSIIYEES-------------------NYGVKAFEELEVLLAKYSICI 73 (144)
Q Consensus 22 t~p~d~~~~~a~~~ll~~f~W~~Vaii~~~~-------------------~~g~~~~~~~~~~l~~~Gi~V 73 (144)
...+....+..+++.|...|-++++++..+. .......+.|.+.+++.|+..
T Consensus 96 v~~d~~~~g~~~~~~L~~~g~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~~~ 166 (283)
T cd06279 96 VGIDDRAAAREAARHLLDLGHRRIGILGLRLGRDRNTGRVTDERLASATFSVARERLEGYLEALEEAGIDI 166 (283)
T ss_pred EeeCcHHHHHHHHHHHHHcCCCcEEEecCcccccccccccccccccccccccHHHHHHHHHHHHHHcCCCC
Confidence 3445555667777888778999999996532 123445677888888888553
No 497
>CHL00041 rps11 ribosomal protein S11
Probab=26.01 E-value=2e+02 Score=19.00 Aligned_cols=50 Identities=6% Similarity=0.110 Sum_probs=34.9
Q ss_pred HHHHHHHHHhCCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEecccCC
Q psy12591 30 VKAMVEIVKKLGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKEKLVKD 82 (144)
Q Consensus 30 ~~a~~~ll~~f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~~~~~~ 82 (144)
++.+++.++.+|.+.+-|+...-..|+ +.+...|...|+.|.......+-
T Consensus 62 a~~~~~~~~~~gi~~v~I~ikG~G~Gr---~~~ir~l~~~glkI~~I~D~Tpi 111 (116)
T CHL00041 62 AENAIRTVIDQGMKRAEVMIKGPGLGR---DTALRAIRRSGLKLSSIRDVTPM 111 (116)
T ss_pred HHHHHHHHHHcCCcEEEEEEECCCCcH---HHHHHHHHHCCCEEEEEEEcCCC
Confidence 345566677889999999887654544 45567778889988876655543
No 498
>PF12017 Tnp_P_element: Transposase protein; InterPro: IPR021896 Protein in this family are transposases found in insects. This region is about 230 amino acids in length and is found associated with PF05485 from PFAM.
Probab=25.99 E-value=1.8e+02 Score=21.96 Aligned_cols=38 Identities=5% Similarity=0.054 Sum_probs=30.0
Q ss_pred CCCcEEEEEEEeCCcchHHHHHHHHHhhhCceEEEEEe
Q psy12591 40 LGWSYVSIIYEESNYGVKAFEELEVLLAKYSICIAIKE 77 (144)
Q Consensus 40 f~W~~Vaii~~~~~~g~~~~~~~~~~l~~~Gi~V~~~~ 77 (144)
-+|++....+.++.........+-..+.+.|++|++..
T Consensus 179 ~~WKQpi~~~f~t~m~~~~l~~iI~~l~~~g~~VvAiv 216 (236)
T PF12017_consen 179 KSWKQPIYFDFDTSMDADILKNIIEKLHEIGYNVVAIV 216 (236)
T ss_pred hcCCccEEEEecCcCCHHHHHHHHHHHHHCCCEEEEEE
Confidence 37999777777777777777788888999999987653
No 499
>cd08504 PBP2_OppA The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold. This family represents the periplasmic substrate-binding component of an ATP-binding cassette (ABC)-type oligopeptide transport system comprised of 5 subunits. The transport system OppABCDEF contains two homologous integral membrane proteins OppB and OppF that form the translocation pore; two homologous nucleotide-binding domains OppD and OppF that drive the transport process through binding and hydrolysis of ATP; and the substrate-binding protein or receptor OppA that determines the substrate specificity of the transport system. The dipeptide (DppA) and oligopeptide (OppA) binding proteins differ in several ways. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which
Probab=25.93 E-value=2.2e+02 Score=23.14 Aligned_cols=45 Identities=16% Similarity=0.368 Sum_probs=32.4
Q ss_pred HHHHHHHhCCCc------EEEEEEEeCCcchHHHHHHHHHhhh-CceEEEEE
Q psy12591 32 AMVEIVKKLGWS------YVSIIYEESNYGVKAFEELEVLLAK-YSICIAIK 76 (144)
Q Consensus 32 a~~~ll~~f~W~------~Vaii~~~~~~g~~~~~~~~~~l~~-~Gi~V~~~ 76 (144)
...++|..-||+ .+-+++.++......++.+++.|++ .||.+...
T Consensus 327 kA~~lL~~aG~~~~~~~~~l~i~~~~~~~~~~~a~~i~~~l~~~iGI~v~i~ 378 (498)
T cd08504 327 KAKKLLAEAGYELGKNPLKLTLLYNTSENHKKIAEAIQQMWKKNLGVKVTLK 378 (498)
T ss_pred HHHHHHHHcCcccCCCCceEEEEecCchhHHHHHHHHHHHHHHcCCCeEEEE
Confidence 345677777874 4555555444567889999999999 99998754
No 500
>PRK00035 hemH ferrochelatase; Reviewed
Probab=25.88 E-value=3.2e+02 Score=21.25 Aligned_cols=21 Identities=5% Similarity=-0.015 Sum_probs=11.5
Q ss_pred hHHHHHHHHhcCCCceEEEEee
Q psy12591 90 AYDDIVLKLLTKPRARGLFKRL 111 (144)
Q Consensus 90 ~~~~~l~~lk~~~~arvii~~~ 111 (144)
.+.+.|++++ ..+++-|++..
T Consensus 106 ~i~eal~~l~-~~G~~~IivlP 126 (333)
T PRK00035 106 SIEEALEALK-ADGVDRIVVLP 126 (333)
T ss_pred CHHHHHHHHH-hcCCCEEEEEE
Confidence 4556666666 34555544443
Done!